Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold29
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: 5511024
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 57772 characters in sequence are not A, C, G, or T
File 25 of 34
Found at i:3829245 original size:14 final size:14
Alignment explanation
Indices: 3829226--3829259 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
3829216 ATTAATAAAA
3829226 TTTAAATAAAATTT
1 TTTAAATAAAATTT
* *
3829240 TTTAAATTAATTTT
1 TTTAAATAAAATTT
3829254 TTTAAA
1 TTTAAA
3829260 GCACATACTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TTTAAATAAAATTT
Found at i:3829685 original size:44 final size:44
Alignment explanation
Indices: 3829622--3829710 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
3829612 TACCACCAAC
3829622 GACAGCGTTGCCATCATTTGTGCTTTATTTTGGTTGAATCTTTT
1 GACAGCGTTGCCATCATTTGTGCTTTATTTTGGTTGAATCTTTT
3829666 GACAGCGTTGCCATCATTTGTGCTTTATTTTGGTTGAATCTTTT
1 GACAGCGTTGCCATCATTTGTGCTTTATTTTGGTTGAATCTTTT
3829710 G
1 G
3829711 TCTTCGAACG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.16, C:0.16, G:0.21, T:0.47
Consensus pattern (44 bp):
GACAGCGTTGCCATCATTTGTGCTTTATTTTGGTTGAATCTTTT
Found at i:3834302 original size:20 final size:20
Alignment explanation
Indices: 3834277--3834354 Score: 102
Period size: 20 Copynumber: 3.8 Consensus size: 20
3834267 ACTGCAAAAG
*
3834277 AAATGTATCGATACATTAAT
1 AAATGTATCGATACATTATT
**
3834297 AAATGTATCGATACATGCTT
1 AAATGTATCGATACATTATT
3834317 CAAATTGTATCGATACATTATT
1 -AAA-TGTATCGATACATTATT
*
3834339 TAATGTATCGATACAT
1 AAATGTATCGATACAT
3834355 GCAAGTAAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
20 30 0.60
21 5 0.10
22 15 0.30
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (20 bp):
AAATGTATCGATACATTATT
Found at i:3838399 original size:20 final size:20
Alignment explanation
Indices: 3838376--3838413 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3838366 ATTGAAACCT
* *
3838376 TGTATTGATACATTTAGGTG
1 TGTATCGATACATATAGGTG
3838396 TGTATCGATACATATAGG
1 TGTATCGATACATATAGG
3838414 CAAAAATATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.08, G:0.24, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATATAGGTG
Found at i:3838732 original size:28 final size:28
Alignment explanation
Indices: 3838679--3838732 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
3838669 GATAAAATTA
* **
3838679 ATAAGCTTCTCTTAATAAGAGGATGTGG
1 ATAAACTTCTCTTAATAAGACAATGTGG
*
3838707 ATAAACTTGTCTTAATAAGACAATGT
1 ATAAACTTCTCTTAATAAGACAATGT
3838733 CTAAAGTCGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (28 bp):
ATAAACTTCTCTTAATAAGACAATGTGG
Found at i:3842021 original size:79 final size:79
Alignment explanation
Indices: 3841885--3842032 Score: 181
Period size: 79 Copynumber: 1.9 Consensus size: 79
3841875 TTTTCATCTC
* * * *
3841885 GGGGATACTCCAACCCCAATTTTATTTCCAAAACATCAATTTTTCATAACCAGGGATACTCTAAT
1 GGGGATACTCCAACCCCAACTTTATTTCCAAAACATCAATTTCTCACAACCAGGGATACTCCAAT
3841950 CCTGTTATTTTCGA
66 CCTGTTATTTTCGA
** * * ** *
3841964 GGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTCTCACAATC-GAGGATACTCCAA
1 GGGGATACTCCAACCCCAACTTTATTTCCAAAACATCAATTTCTCACAACCAG-GGATACTCCAA
3842028 TCCTG
65 TCCTG
3842033 ATTTTATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
78 1 0.02
79 56 0.98
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (79 bp):
GGGGATACTCCAACCCCAACTTTATTTCCAAAACATCAATTTCTCACAACCAGGGATACTCCAAT
CCTGTTATTTTCGA
Found at i:3842026 original size:51 final size:52
Alignment explanation
Indices: 3841966--3842082 Score: 137
Period size: 51 Copynumber: 2.3 Consensus size: 52
3841956 ATTTTCGAGG
* * ***
3841966 GGATACTCCAACCCCGGCTTTATTTCTAAAATATTGAT-TTCTCACAATCGA
1 GGATACTCCAACCCCGACTTTATTTCTAAAACACCAATCTTCTCACAATCGA
* * * * *
3842017 GGATACTCCAATCCTGATTTTATTTCTAAAACACCAATCTTTTCACAATCGG
1 GGATACTCCAACCCCGACTTTATTTCTAAAACACCAATCTTCTCACAATCGA
3842069 GGATACTCCAACCC
1 GGATACTCCAACCC
3842083 TGTTATTTTC
Statistics
Matches: 54, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
51 30 0.56
52 24 0.44
ACGTcount: A:0.30, C:0.27, G:0.11, T:0.32
Consensus pattern (52 bp):
GGATACTCCAACCCCGACTTTATTTCTAAAACACCAATCTTCTCACAATCGA
Found at i:3842151 original size:130 final size:129
Alignment explanation
Indices: 3841886--3842161 Score: 322
Period size: 130 Copynumber: 2.1 Consensus size: 129
3841876 TTTCATCTCG
* * * * *
3841886 GGGATACTCCAACCCCAATTTTATTTCCAAAACATCAATTTTTCATAACCAGGGATACTCTAATC
1 GGGATACTCCAATCCCAATTTTATTTCCAAAACACCAATTTTTCACAACCAGGGATACTCCAACC
* * * ** *
3841951 CTGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTCTCACAATC
66 CTGTTATTTTCGAGAGGACACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTCTCACAATA
** * * *
3842015 GAGGATACTCCAATCCTGATTTTATTTCTAAAACACCAATCTTTTCACAATCGGGGATACTCCAA
1 G-GGATACTCCAATCCCAATTTTATTTCCAAAACACCAAT-TTTTCACAACCAGGGATACTCCAA
* * * *
3842080 CCCTGTTATTTTCGA-AGGACACTCCAATCCCGGTTTTAATTTC-AAAACATCAATTTTTCATAA
64 CCCTGTTATTTTCGAGAGGACACTCCAACCCCGGCTTT-ATTTCTAAAACATCAATTTCTCACAA
3842143 TTA
128 -TA
3842146 GGGATACTCCAATCCC
1 GGGATACTCCAATCCC
3842162 GTTATTTCCG
Statistics
Matches: 122, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
129 1 0.01
130 80 0.66
131 41 0.34
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (129 bp):
GGGATACTCCAATCCCAATTTTATTTCCAAAACACCAATTTTTCACAACCAGGGATACTCCAACC
CTGTTATTTTCGAGAGGACACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTCTCACAATA
Found at i:3842372 original size:158 final size:157
Alignment explanation
Indices: 3842017--3842372 Score: 398
Period size: 158 Copynumber: 2.3 Consensus size: 157
3842007 TCACAATCGA
* * *
3842017 GGATACTCCAATCCT-GATTTTATTTCTAAAACACCAATCTTTTCACAATCGGGGATACTCCAAC
1 GGATACTCCAA-CCTCGATTTTATTTCTAAAACATCGAT-TTCTCACAATCGGGGATACTCCAAC
**** * * * *
3842081 CCTGTTATTTTCGAAGGACACTCCAATCCCGGTTTTAATTTCAAAACATCAATTTTTCATAATTA
64 CCCACCATTTTCGAAGGACACTCCAACCCCGATTTTAATTTCAAAACACCAATTTTTCATAATCA
3842146 GGGATACTCCAATCCCGTTATTTCCGAGG
129 GGGATACTCCAATCCCGTTATTTCCGAGG
** * *
3842175 GGATACTCCAACC-CTGGCTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACC
1 GGATACTCCAACCTC-GATTTTATTTCTAAAACATCGATTTCTCACAATCGGGGATACTCCAACC
** * * * * **
3842239 CCACCATTTTCGTGGGGATACTTCAACCCCTATTTTATTTTCAAAATGCCAA-TTTTCTATAATC
65 CCACCATTTTCG-AAGGACACTCCAACCCCGATTTTAATTTCAAAACACCAATTTTTC-ATAATC
3842303 AGGGATACTCCAA-CCCTGTTATTTCCGAGG
128 AGGGATACTCCAATCCC-GTTATTTCCGAGG
*
3842333 GGATACTCCAACCTCGATTTTATTT-TCAGAACATCGATTT
1 GGATACTCCAACCTCGATTTTATTTCT-AAAACATCGATTT
3842373 TCCATAATCG
Statistics
Matches: 163, Mismatches: 28, Indels: 14
0.80 0.14 0.07
Matches are distributed among these distances:
157 44 0.27
158 118 0.72
159 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (157 bp):
GGATACTCCAACCTCGATTTTATTTCTAAAACATCGATTTCTCACAATCGGGGATACTCCAACCC
CACCATTTTCGAAGGACACTCCAACCCCGATTTTAATTTCAAAACACCAATTTTTCATAATCAGG
GATACTCCAATCCCGTTATTTCCGAGG
Found at i:3842373 original size:79 final size:79
Alignment explanation
Indices: 3842017--3842390 Score: 318
Period size: 79 Copynumber: 4.7 Consensus size: 79
3842007 TCACAATCGA
* * * *
3842017 GGATACTCCAATCCTGATTTTA-TTTCTAAAACACCAATCTTT-TCACAATCGGGGATACTCCAA
1 GGATACTCCAA-CCCGATTTTATTTTC-AAAACATCAAT-TTTCTCATAATCAGGGATACTCCAA
* *
3842080 CCCTGTTATTTTCGA-A
63 CCCTGTTATTTCCGAGG
* * * *
3842096 GGACACTCCAATCCCGGTTTTAATTTCAAAACATCAATTTT-TCATAATTAGGGATACTCCAATC
1 GGATACTCCAA-CCCGATTTTATTTTCAAAACATCAATTTTCTCATAATCAGGGATACTCCAA-C
3842160 CC-GTTATTTCCGAGG
64 CCTGTTATTTCCGAGG
** * ** * *
3842175 GGATACTCCAACCCTGGCTTTA-TTTCTAAAATATTGA-TTTCTCACAATCGGGGATACTCCAAC
1 GGATACTCCAACCC-GATTTTATTTTC-AAAACATCAATTTTCTCATAATCAGGGATACTCCAAC
**** * *
3842238 CCCACCATTTTCGTGG
64 CCTGTTATTTCCGAGG
* * ***
3842254 GGATACTTCAACCCCTATTTTATTTTCAAAATGCCAATTTTCT-ATAATCAGGGATACTCCAACC
1 GGATACTCCAA-CCCGATTTTATTTTCAAAACATCAATTTTCTCATAATCAGGGATACTCCAACC
3842318 CTGTTATTTCCGAGG
65 CTGTTATTTCCGAGG
* *
3842333 GGATACTCCAACCTCGATTTTATTTTCAGAACATCGATTTTC-CATAATCGAGGG-TACT
1 GGATACTCCAACC-CGATTTTATTTTCAAAACATCAATTTTCTCATAATC-AGGGATACT
3842391 TTAGCCCCGT
Statistics
Matches: 237, Mismatches: 45, Indels: 26
0.77 0.15 0.08
Matches are distributed among these distances:
78 46 0.19
79 171 0.72
80 20 0.08
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.34
Consensus pattern (79 bp):
GGATACTCCAACCCGATTTTATTTTCAAAACATCAATTTTCTCATAATCAGGGATACTCCAACCC
TGTTATTTCCGAGG
Found at i:3846785 original size:13 final size:13
Alignment explanation
Indices: 3846767--3846793 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3846757 CATTATTCAA
3846767 TGTATCGATACAT
1 TGTATCGATACAT
3846780 TGTATCGATACAT
1 TGTATCGATACAT
3846793 T
1 T
3846794 TGGGAATTTT
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:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3851821 original size:34 final size:35
Alignment explanation
Indices: 3851783--3851849 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
3851773 CCTTACAACA
3851783 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
3851817 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
3851850 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:3852325 original size:13 final size:13
Alignment explanation
Indices: 3852307--3852332 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3852297 CAATTTTTTG
3852307 TGTATCGATACAT
1 TGTATCGATACAT
3852320 TGTATCGATACAT
1 TGTATCGATACAT
3852333 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3852397 original size:21 final size:21
Alignment explanation
Indices: 3852371--3852446 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
3852361 CTGCCAAGAA
3852371 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
3852392 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
3852412 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
3852433 ATGTATCGATACAT
1 ATGTATCGATACAT
3852447 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:3852416 original size:20 final size:20
Alignment explanation
Indices: 3852391--3852464 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
3852381 ACATCTTTTT
3852391 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
3852411 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
3852432 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
3852452 CATGTATCGATAC
1 CATGTATCGATAC
3852465 TTTTAAGGGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:3852428 original size:41 final size:41
Alignment explanation
Indices: 3852371--3852464 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
3852361 CTGCCAAGAA
3852371 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
3852412 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
3852453 ATGTATCGATAC
1 ATGTATCGATAC
3852465 TTTTAAGGGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:3853113 original size:23 final size:23
Alignment explanation
Indices: 3853083--3853129 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
3853073 ATCTCCCCCT
3853083 TAATCAAGTAATTCATATCAAAA
1 TAATCAAGTAATTCATATCAAAA
3853106 TAATCAAGTAATTCATATCAAAA
1 TAATCAAGTAATTCATATCAAAA
3853129 T
1 T
3853130 TTATTTGCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAATCAAGTAATTCATATCAAAA
Found at i:3854299 original size:13 final size:13
Alignment explanation
Indices: 3854281--3854305 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3854271 ACTGAAGCAA
3854281 TGTATCGATACAT
1 TGTATCGATACAT
3854294 TGTATCGATACA
1 TGTATCGATACA
3854306 ATCTGGAAAA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3854905 original size:23 final size:24
Alignment explanation
Indices: 3854860--3854906 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
3854850 CAAAGAATTG
*
3854860 AACACAAATTCAATTAAGCACAAA
1 AACACAAATTCAATTAAGAACAAA
3854884 AACACAAA-TCAATTGAA-AACAAA
1 AACACAAATTCAATT-AAGAACAAA
3854907 TTTTCAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.15
Consensus pattern (24 bp):
AACACAAATTCAATTAAGAACAAA
Found at i:3857493 original size:34 final size:35
Alignment explanation
Indices: 3857455--3857521 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
3857445 CCTTACAACA
3857455 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
3857489 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
3857522 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:3857997 original size:13 final size:13
Alignment explanation
Indices: 3857979--3858004 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3857969 CAATTTTTTG
3857979 TGTATCGATACAT
1 TGTATCGATACAT
3857992 TGTATCGATACAT
1 TGTATCGATACAT
3858005 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3858069 original size:21 final size:21
Alignment explanation
Indices: 3858043--3858118 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
3858033 CTGCCAAGAA
3858043 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
3858064 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
3858084 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
3858105 ATGTATCGATACAT
1 ATGTATCGATACAT
3858119 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:3858088 original size:20 final size:20
Alignment explanation
Indices: 3858063--3858136 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
3858053 ACATCTTTTT
3858063 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
3858083 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
3858104 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
3858124 CATGTATCGATAC
1 CATGTATCGATAC
3858137 TTTTAAGGGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:3858100 original size:41 final size:41
Alignment explanation
Indices: 3858043--3858136 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
3858033 CTGCCAAGAA
3858043 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
3858084 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
3858125 ATGTATCGATAC
1 ATGTATCGATAC
3858137 TTTTAAGGGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:3867932 original size:28 final size:28
Alignment explanation
Indices: 3867856--3867932 Score: 95
Period size: 28 Copynumber: 2.7 Consensus size: 28
3867846 GGAATAAAGC
*
3867856 CGAGGTTGGAGTATCCC-ATCGGAAGTAA
1 CGAGGTTGGAGTATCCCGATC-GAAATAA
*
3867884 CGGGGTTGGAGTATCCCCGAT-GAAATAA
1 CGAGGTTGGAGTAT-CCCGATCGAAATAA
3867912 CGAGGTTGGAGTATCCTCGAT
1 CGAGGTTGGAGTATCC-CGAT
3867933 TGTGAAAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
27 2 0.05
28 36 0.84
29 3 0.07
30 2 0.05
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.23
Consensus pattern (28 bp):
CGAGGTTGGAGTATCCCGATCGAAATAA
Found at i:3867985 original size:52 final size:51
Alignment explanation
Indices: 3867916--3868252 Score: 243
Period size: 52 Copynumber: 6.4 Consensus size: 51
3867906 AAATAACGAG
* *
3867916 GTTGGAGTATCCTCGATTGTGAAAAATTGGTTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGG-TGTTTTGGAAATAAAATCGGA
** * * * * *
3867968 GTTGGAGTATCCCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCGGG
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTGTTTTGGAAATAAAATCGGA
* * * * * *
3868020 GTTGGAGTATCCCAGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGGG
1 GTTGGAGTATCCCCGATTGT-GAAAAATTGGTGTTTTGGAAATAAAATCGGA
* * * *** * * *
3868072 GTTGGAGTATCCCC--TCG-AAAATAACGGGGTTGGAGTATCCCCGATGAT-TAA-CGGG
1 GTTGGAGTATCCCCGATTGTGAAA-AA-----TTGGTGT-T-TTGGA-AATAAAATCGGA
3868127 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAA-AAATTGGTG--TTTTGGAAATAAAATCGGA
* * * *
3868181 GTTGGAGTATCCCCGATTATAAAAAATTAGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGGA
*
3868232 GTTGGAATATCCCCGATTGTG
1 GTTGGAGTATCCCCGATTGTG
3868253 GAGAATTGAG
Statistics
Matches: 221, Mismatches: 45, Indels: 39
0.72 0.15 0.13
Matches are distributed among these distances:
48 3 0.01
49 2 0.01
50 2 0.01
51 36 0.16
52 90 0.41
53 26 0.12
54 30 0.14
55 20 0.09
56 3 0.01
57 4 0.02
58 4 0.02
59 1 0.00
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGGA
Found at i:3868101 original size:212 final size:212
Alignment explanation
Indices: 3867848--3868254 Score: 640
Period size: 212 Copynumber: 1.9 Consensus size: 212
3867838 ATATTTTGGG
* * *
3867848 AATAAAGCCGAGGTTGGAGTATCCCATCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAAC
1 AATAAAACCGAGGTTGGAGTATCCCATCGAAAATAACGGGGTTGGAGTATCCCCGATG-AATAAC
*
3867913 GAGGTTGGAGTATCCTCGATTGTGAA-AAATTGGT-TTTTTTGGAAATAAAATCGGAGTTGGAGT
65 GAGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGT
* * *
3867976 ATCCCCGATTA-AAGGAAAATTGGCGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCAGATTGT
130 ATCCCCGATTATAA--AAAATTAGCGTTTTGAAAATAAAACCGGAGTTGGAATATCCCAGATTGT
3868040 GGAAAAATTAGTGTTTTAGC
193 GGAAAAATTAGTGTTTTAGC
* * *
3868060 AATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGATTAACG
1 AATAAAACCGAGGTTGGAGTATCCCATCGAAAATAACGGGGTTGGAGTATCCCCGATGAATAACG
*
3868125 GGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTA
66 AGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTA
* * *
3868190 TCCCCGATTATAAAAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGGA
131 TCCCCGATTATAAAAAATTAGCGTTTTGAAAATAAAACCGGAGTTGGAATATCCCAGATTGTGGA
3868255 GAATTGAGAA
Statistics
Matches: 178, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
211 29 0.16
212 107 0.60
213 40 0.22
214 2 0.01
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.28
Consensus pattern (212 bp):
AATAAAACCGAGGTTGGAGTATCCCATCGAAAATAACGGGGTTGGAGTATCCCCGATGAATAACG
AGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTA
TCCCCGATTATAAAAAATTAGCGTTTTGAAAATAAAACCGGAGTTGGAATATCCCAGATTGTGGA
AAAATTAGTGTTTTAGC
Found at i:3868131 original size:27 final size:27
Alignment explanation
Indices: 3868068--3868143 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 27
3868058 GCAATAAAAC
3868068 CGGGGTTGGAGTATCCCCTCGA-AAATAA
1 CGGGGTTGGAGTAT-CCC-CGATAAATAA
* *
3868096 CGGGGTTGGAGTATCCCCGATGATTAA
1 CGGGGTTGGAGTATCCCCGATAAATAA
3868123 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
3868144 TGTGAAGAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
26 3 0.07
27 28 0.62
28 14 0.31
ACGTcount: A:0.22, C:0.21, G:0.33, T:0.24
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCGATAAATAA
Found at i:3868145 original size:107 final size:105
Alignment explanation
Indices: 3867802--3868194 Score: 323
Period size: 107 Copynumber: 3.7 Consensus size: 105
3867792 CCCTCGAAAA
* * * * * * * * *
3867802 TAACAGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCC-GAGGTTGGA
1 TAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAACCGGA-GTTGGA
* * *
3867866 GTATCCCATCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAA
65 GTATCCCCTC-GAAATAACGGGGTTGGAGTATCCCCGATG-AT
* * * * *
3867909 TAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTTTTTTTGGAAATAAAATCGGAGTTGGA
1 TAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAG-TGTTTTGGAAATAAAACCGGAGTTGGA
* * ** * ** **
3867974 GTAT-CCC-CG-ATTAAAGGAAAATTGGCGT-T--TTGAAAAT
65 GTATCCCCTCGAAATAACGG--GGTTGGAGTATCCCCGATGAT
* * * * *
3868011 AAAACCGGGGTTGGAGTATCCCAGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGGGGTTG
1 -TAA-CGGGGTTGGAGTATCCCCGATTGT-GAAAAATTAGTGTTTTGGAAATAAAACCGGAGTTG
3868076 GAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAT
63 GAGTATCCCCTCG-AAATAACGGGGTTGGAGTATCCCCGATGAT
* *
3868120 TAACGGGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTG
1 TAACGGGGTTGGAGTATCCCCGATTGTGAA-AAATTAGTG--TTTTGGAAATAAAACCGGAGTTG
3868185 GAGTATCCCC
63 GAGTATCCCC
3868195 GATTATAAAA
Statistics
Matches: 219, Mismatches: 50, Indels: 32
0.73 0.17 0.11
Matches are distributed among these distances:
102 1 0.00
103 4 0.02
104 53 0.24
105 14 0.06
106 18 0.08
107 62 0.28
108 32 0.15
109 35 0.16
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (105 bp):
TAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAACCGGAGTTGGAG
TATCCCCTCGAAATAACGGGGTTGGAGTATCCCCGATGAT
Found at i:3870728 original size:13 final size:13
Alignment explanation
Indices: 3870710--3870734 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3870700 ATAATACTTA
3870710 TGTATCGATACAT
1 TGTATCGATACAT
3870723 TGTATCGATACA
1 TGTATCGATACA
3870735 AAACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3870732 original size:32 final size:32
Alignment explanation
Indices: 3870691--3870753 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
3870681 TAGCTAATTA
* *
3870691 TGTATCGATATAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
3870723 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
3870754 AATTGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.37
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:3870747 original size:19 final size:19
Alignment explanation
Indices: 3870688--3870755 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
3870678 CAGTAGCTAA
* *
3870688 TTATGTATCGATATAATAC
1 TTATGTATCGATACAAAAC
3870707 TTATGTATCGATAC---A-
1 TTATGTATCGATACAAAAC
3870722 -T-TGTATCGATACAAAAC
1 TTATGTATCGATACAAAAC
3870739 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
3870756 TTGTTGAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 1 0.02
19 27 0.64
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (19 bp):
TTATGTATCGATACAAAAC
Found at i:3871943 original size:14 final size:14
Alignment explanation
Indices: 3871926--3871972 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
3871916 AGAAGAGACA
3871926 AAAAAAAAACAAAC
1 AAAAAAAAACAAAC
*
3871940 AAAACAAAAA-ACAC
1 AAAA-AAAAACAAAC
3871954 AAAGAAAAAAC-AAC
1 AAA-AAAAAACAAAC
3871968 AAAAA
1 AAAAA
3871973 GGGTTCAGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
13 2 0.07
14 20 0.71
15 6 0.21
ACGTcount: A:0.83, C:0.15, G:0.02, T:0.00
Consensus pattern (14 bp):
AAAAAAAAACAAAC
Found at i:3871948 original size:18 final size:18
Alignment explanation
Indices: 3871927--3871961 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3871917 GAAGAGACAA
3871927 AAAAAAAACAAACAAAAC
1 AAAAAAAACAAACAAAAC
* *
3871945 AAAAAACACAAAGAAAA
1 AAAAAAAACAAACAAAA
3871962 AACAACAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.83, C:0.14, G:0.03, T:0.00
Consensus pattern (18 bp):
AAAAAAAACAAACAAAAC
Found at i:3871973 original size:16 final size:15
Alignment explanation
Indices: 3871927--3871973 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
3871917 GAAGAGACAA
3871927 AAAAAAAACAAACAA-
1 AAAAAAAACAAA-AAG
*
3871942 AACAAAAAACACAAAG
1 AA-AAAAAACAAAAAG
3871958 AAAAAACAACAAAAAG
1 AAAAAA-AACAAAAAG
3871974 GGTTCAGATG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 8 0.30
16 19 0.70
ACGTcount: A:0.81, C:0.15, G:0.04, T:0.00
Consensus pattern (15 bp):
AAAAAAAACAAAAAG
Found at i:3873499 original size:28 final size:27
Alignment explanation
Indices: 3873406--3874585 Score: 980
Period size: 28 Copynumber: 41.8 Consensus size: 27
3873396 CCTCACCTTC
*
3873406 CAAAGCCCACAAGTTAGTGGCATCTTTT
1 CAAAGCCCACAAGTCAGTGGCA-CTTTT
3873434 CAAAAGCCCACAAGTCAGTGGCACCCTTTT
1 C-AAAGCCCACAAGTCAGTGGCA--CTTTT
*
3873464 CAAAAGCCCACAACTCAGTGGCACTTTTT
1 C-AAAGCCCACAAGTCAGTGGCAC-TTTT
* * *
3873493 CAAAGCCCATAAGTTAGTGGCAAC-CTT
1 CAAAGCCCACAAGTCAGTGGC-ACTTTT
* * *
3873520 CAGAAGCCCACAAGTCGGTGACACCCCTTT
1 CA-AAGCCCACAAGTCAGTGGCA--CTTTT
*
3873550 CAAAGCCCACAAGTCAGTGGCAAC-CTT
1 CAAAGCCCACAAGTCAGTGGC-ACTTTT
3873577 CAAAAGCCCACAAGTCAGTGGCATCTTTT
1 C-AAAGCCCACAAGTCAGTGGCA-CTTTT
*
3873606 CAAAAGCCCACAAGTTAGTGGCACCTTTT
1 C-AAAGCCCACAAGTCAGTGGCA-CTTTT
* *
3873635 CAAAGCCCACATGTCAGTGGCAAC-CTT
1 CAAAGCCCACAAGTCAGTGGC-ACTTTT
*
3873662 CAAAGCCCACAAGTCAGTGGCAAC-CTT
1 CAAAGCCCACAAGTCAGTGGC-ACTTTT
* *
3873689 CAGAAGCCCACAAGTCGGTGGCACCCCTTT
1 CA-AAGCCCACAAGTCAGTGGCA--CTTTT
* *
3873719 CAAAGCCCACAAGTCAGTGGCAACCTTC
1 CAAAGCCCACAAGTCAGTGGC-ACTTTT
3873747 CAAAGCCCACAAGTCAGTGGCATCTTTT
1 CAAAGCCCACAAGTCAGTGGCA-CTTTT
3873775 CAAAAGCCCACAAGTCAGTGGCACACTTTTT
1 C-AAAGCCCACAAGTCAGTGG--CAC-TTTT
*
3873806 AAAAGCCCACAAGTCAGTGGCACCTTTT
1 CAAAGCCCACAAGTCAGTGGCA-CTTTT
* * *
3873834 AAAAGCCCACAAGTTAGTGGCAAC-CTT
1 CAAAGCCCACAAGTCAGTGGC-ACTTTT
*
3873861 CAGAAGCCCACAAGTC-GATGGCACCCCTTT
1 CA-AAGCCCACAAGTCAG-TGGCA--CTTTT
* *
3873891 CAAAGCCCACAAGTCAATGGCAAC-CTT
1 CAAAGCCCACAAGTCAGTGGC-ACTTTT
* *
3873918 CAAAAGCTCACAAGTGAGTGGCATCTTTT
1 C-AAAGCCCACAAGTCAGTGGCA-CTTTT
*
3873947 CAAAAGCCCACAAGTTAGTGGCACCTTTT
1 C-AAAGCCCACAAGTCAGTGGCA-CTTTT
* * * *
3873976 CAAAGACCACATGTTAGTGGCAAC-CTT
1 CAAAGCCCACAAGTCAGTGGC-ACTTTT
*
3874003 CAAAGCCCACAAGTTAGTGGCACCTTTT
1 CAAAGCCCACAAGTCAGTGGCA-CTTTT
* *
3874031 CAAAGCCCACAAGTCAATGGCAAC-CTT
1 CAAAGCCCACAAGTCAGTGGC-ACTTTT
*
3874058 CAGAAGCCCACAAGTC-GTTGGCACCCCTTT
1 CA-AAGCCCACAAGTCAG-TGGCA--CTTTT
* *
3874088 CAAAGCCCACAAGTCAGTGGCAACCTTC
1 CAAAGCCCACAAGTCAGTGGC-ACTTTT
* *
3874116 CAAAGCGCACAAGTTAGTGGCATCTTTT
1 CAAAGCCCACAAGTCAGTGGCA-CTTTT
* *
3874144 CAAAAGCCCATAAGTTAGTGGCACCTTTT
1 C-AAAGCCCACAAGTCAGTGGCA-CTTTT
* *
3874173 CAAAGCCCACAAGTTAGTGGCAAC-CTT
1 CAAAGCCCACAAGTCAGTGGC-ACTTTT
* *
3874200 CAAAGCCCATAAGTCAGTGGCAAC-CTT
1 CAAAGCCCACAAGTCAGTGGC-ACTTTT
* *
3874227 CAGAAGCCCACAAGTCGGTGGCACCCCTTT
1 CA-AAGCCCACAAGTCAGTGGCA--CTTTT
* * *
3874257 CAAAGCCCATAAGTCAGTGGCAACCTTC
1 CAAAGCCCACAAGTCAGTGGC-ACTTTT
*
3874285 CTAAGCCCACAAGTCAGTGGCATCTTTT
1 CAAAGCCCACAAGTCAGTGGCA-CTTTT
3874313 CAAAAGCCCACAAGT-AGTGGCACCTTTT
1 C-AAAGCCCACAAGTCAGTGGCA-CTTTT
* *
3874341 CAAAGCCCATAAGGT-AGTGGCAAC-CTT
1 CAAAGCCCACAA-GTCAGTGGC-ACTTTT
3874368 CAAAGCCCACACA-TCAGTGGCACCTTTT
1 CAAAGCCCACA-AGTCAGTGGCA-CTTTT
* *
3874396 CAAAGCCCATAAGTCAGTGGCAAC-CTT
1 CAAAGCCCACAAGTCAGTGGC-ACTTTT
* * *
3874423 CAGAAGCTCACAAGTCAATGGCAAC-CTT
1 CA-AAGCCCACAAGTCAGTGGC-ACTTTT
*
3874451 CTAAAGCCCACAAGTCAGTGGCAACCTTAT
1 C-AAAGCCCACAAGTCAGTGGC-A-CTTTT
* * *
3874481 -AAAGGCCACAAGTCATTGGCATTTTTT
1 CAAAGCCCACAAGTCAGTGGCA-CTTTT
*
3874508 CAAAAGCCCACAAGTTAGTGGCACCTTTT
1 C-AAAGCCCACAAGTCAGTGGCA-CTTTT
*
3874537 CAAAG-CCATCAAGTCAGTGGCAAC-CTT
1 CAAAGCCCA-CAAGTCAGTGGC-ACTTTT
*
3874564 CAAAGCCCACAAGGCAGTGGCA
1 CAAAGCCCACAAGTCAGTGGCA
3874586 ACCTTCAAAA
Statistics
Matches: 975, Mismatches: 104, Indels: 148
0.79 0.08 0.12
Matches are distributed among these distances:
26 4 0.00
27 168 0.17
28 456 0.47
29 267 0.27
30 74 0.08
31 6 0.01
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (27 bp):
CAAAGCCCACAAGTCAGTGGCACTTTT
Found at i:3873569 original size:57 final size:55
Alignment explanation
Indices: 3873400--3874631 Score: 1209
Period size: 57 Copynumber: 21.8 Consensus size: 55
3873390 GACATTCCTC
* * *
3873400 ACCTTCCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCA
1 ACCTT-CAAAGCCCACAAGTCAGTGGCACCCTTTC-AAAGCCCACAAGTCAGTGGCA
* * ** * *
3873457 CCCTTTTCAAAAGCCCACAACTCAGTGGCACTTTTTCAAAGCCCATAAGTTAGTGGCA
1 ACC--TTC-AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
3873515 ACCTTCAGAAGCCCACAAGTCGGTGACACCCCTTTCAAAGCCCACAAGTCAGTGGCA
1 ACCTTCA-AAGCCCACAAGTCAGTGGCA-CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
3873572 ACCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTTAGTGGC-
1 ACCTTC-AAAGCCCACAAGTCAGTGGCACCCTTTC-AAAGCCCACAAGTCAGTGGCA
* *
3873628 ACCTTTTCAAAGCCCACATGTCAGTGGCAACC-TTCAAAGCCCACAAGTCAGTGGCA
1 ACC--TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
*
3873684 ACCTTCAGAAGCCCACAAGTCGGTGGCACCCCTTTCAAAGCCCACAAGTCAGTGGCA
1 ACCTTCA-AAGCCCACAAGTCAGTGGCA-CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
3873741 ACCTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCA
1 ACCTT-CAAAGCCCACAAGTCAGTGGCACCCTTTC-AAAGCCCACAAGTCAGTGGCA
* * * * *
3873798 CACTTTTTAAAAGCCCACAAGTCAGTGGCACCTTTTAAAAGCCCACAAGTTAGTGGCA
1 -AC--CTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
*
3873856 ACCTTCAGAAGCCCACAAGTC-GATGGCACCCCTTTCAAAGCCCACAAGTCAATGGCA
1 ACCTTCA-AAGCCCACAAGTCAG-TGGCA-CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * * *
3873913 ACCTTCAAAAGCTCACAAGTGAGTGGCATCTTTTCAAAAGCCCACAAGTTAGTGGC-
1 ACCTTC-AAAGCCCACAAGTCAGTGGCACCCTTTC-AAAGCCCACAAGTCAGTGGCA
* * * * *
3873969 ACCTTTTCAAAGACCACATGTTAGTGGCAACC-TTCAAAGCCCACAAGTTAGTGGC-
1 ACC--TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
3874024 ACCTTTTCAAAGCCCACAAGTCAATGGCAACC-TTCAGAAGCCCACAAGTC-GTTGGCA
1 ACC--TTCAAAGCCCACAAGTCAGTGGCACCCTTTCA-AAGCCCACAAGTCAG-TGGCA
* * * * *
3874081 CCCCTTTCAAAGCCCACAAGTCAGTGGCAACCTTCCAAAGCGCACAAGTTAGTGGCA
1 -ACC-TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * * * *
3874138 TCTTTTCAAAAGCCCATAAGTTAGTGGCACCTTTTCAAAGCCCACAAGTTAGTGGCA
1 AC-CTTC-AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
3874195 ACCTTCAAAGCCCATAAGTCAGTGGCAACC-TTCAGAAGCCCACAAGTCGGTGGCA
1 ACCTTCAAAGCCCACAAGTCAGTGGCACCCTTTCA-AAGCCCACAAGTCAGTGGCA
* * * * *
3874250 CCCCTTTCAAAGCCCATAAGTCAGTGGCAACCTTCCTAAGCCCACAAGTCAGTGGCA
1 -ACC-TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
3874307 TCTTTTCAAAAGCCCACAAGT-AGTGGCACCTTTTCAAAGCCCATAAGGT-AGTGGCA
1 AC-CTTC-AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAA-GTCAGTGGCA
* *
3874363 ACCTTCAAAGCCCACACA-TCAGTGGCACCTTTTCAAAGCCCATAAGTCAGTGGCA
1 ACCTTCAAAGCCCACA-AGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
3874418 ACCTTCAGAAGCTCACAAGTCAATGGCAACC-TTCTAAAGCCCACAAGTCAGTGGCA
1 ACCTTCA-AAGCCCACAAGTCAGTGGCACCCTTTC-AAAGCCCACAAGTCAGTGGCA
* * * *** *
3874474 ACCTTATAAAGGCCACAAGTCATTGGCATTTTTTCAAAAGCCCACAAGTTAGTGGC-
1 ACCTT-CAAAGCCCACAAGTCAGTGGCACCCTTTC-AAAGCCCACAAGTCAGTGGCA
* *
3874530 ACCTTTTCAAAG-CCATCAAGTCAGTGGCAACC-TTCAAAGCCCACAAGGCAGTGGCA
1 ACC--TTCAAAGCCCA-CAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
3874586 ACCTTCAAAAGCACACAAGTTAGTAGAACCCTTTCAAAAGCCCACA
1 ACCTTC-AAAGCCCACAAGTCAGTGGCACCCTTTC-AAAGCCCACA
3874632 CAAGTTGGTG
Statistics
Matches: 1000, Mismatches: 118, Indels: 114
0.81 0.10 0.09
Matches are distributed among these distances:
54 24 0.02
55 215 0.22
56 203 0.20
57 439 0.44
58 65 0.06
59 52 0.05
60 2 0.00
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (55 bp):
ACCTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:3873716 original size:169 final size:166
Alignment explanation
Indices: 3873400--3874631 Score: 1407
Period size: 169 Copynumber: 7.3 Consensus size: 166
3873390 GACATTCCTC
* *
3873400 ACCTTCCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTC
1 ACCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCA-CCTTTTC
* * *
3873465 AAAAGCCCACAACTCAGTGGCACTTTTTCAAAGCCCATAAGTTAGTGGCAACCTTCAGAAGCCCA
65 -AAAGCCCACAAGTCAGTGGCAC--CTTCAAAGCCCACAAGTTAGTGGCAACCTTCA-AAGCCCA
* *
3873530 CAAGTCGGTGACACCCCTTTCAAAGCCCACAAGTCAGTGGCA
126 CAAGTCAGTGGCA-CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
3873572 ACCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTTAGTGGCACCTTTTCA
1 ACCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCACCTTTTCA
* *
3873637 AAGCCCACATGTCAGTGGCAACCTTCAAAGCCCACAAGTCAGTGGCAACCTTCAGAAGCCCACAA
66 AAGCCCACAAGTCAGTGGC-ACCTTCAAAGCCCACAAGTTAGTGGCAACCTTCA-AAGCCCACAA
*
3873702 GTCGGTGGCACCCCTTTCAAAGCCCACAAGTCAGTGGCA
129 GTCAGTGGCA-CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
3873741 ACCTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCACACTTTTT
1 ACCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCAC-C-TTTT
* *
3873806 AAAAGCCCACAAGTCAGTGGCACCTTTTAAAAGCCCACAAGTTAGTGGCAACCTTCAGAAGCCCA
64 CAAAGCCCACAAGTCAGTGGCACC--TTCAAAGCCCACAAGTTAGTGGCAACCTTCA-AAGCCCA
*
3873871 CAAGTC-GATGGCACCCCTTTCAAAGCCCACAAGTCAATGGCA
126 CAAGTCAG-TGGCA-CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
3873913 ACCTTCAAAAGCTCACAAGTGAGTGGCATCTTTTCAAAAGCCCACAAGTTAGTGGCACCTTTTCA
1 ACCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCACCTTTTCA
* * *
3873978 AAGACCACATGTTAGTGGCAACCTTCAAAGCCCACAAGTTAGTGGC-ACCTTTTCAAAGCCCACA
66 AAGCCCACAAGTCAGTGGC-ACCTTCAAAGCCCACAAGTTAGTGGCAACC--TTCAAAGCCCACA
* *
3874042 AGTCAATGGCAACC-TTCAGAAGCCCACAAGTC-GTTGGCA
128 AGTCAGTGGCACCCTTTCA-AAGCCCACAAGTCAG-TGGCA
* * * * * * *
3874081 CCCCTTTC-AAAGCCCACAAGTCAGTGGCAAC-CTTCCAAAGCGCACAAGTTAGTGGCATCTTTT
1 -ACC-TTCAAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCACCTTTT
* *
3874144 CAAAAGCCCATAAGTTAGTGGCACCTTTTCAAAGCCCACAAGTTAGTGGCAACCTTCAAAGCCCA
64 C-AAAGCCCACAAGTCAGTGGCACC--TTCAAAGCCCACAAGTTAGTGGCAACCTTCAAAGCCCA
* * *
3874209 TAAGTCAGTGGCAACC-TTCAGAAGCCCACAAGTCGGTGGCA
126 CAAGTCAGTGGCACCCTTTCA-AAGCCCACAAGTCAGTGGCA
* * * * ** *
3874250 CCCCTTTC-AAAGCCCATAAGTCAGTGGCAAC-CTTCCTAAGCCCACAAGTCAGTGGCATCTTTT
1 -ACC-TTCAAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCACCTTTT
* *
3874313 CAAAAGCCCACAAGT-AGTGGCACCTTTTCAAAGCCCATAAGGTAGTGGCAACCTTCAAAGCCCA
64 C-AAAGCCCACAAGTCAGTGGCACC--TTCAAAGCCCACAAGTTAGTGGCAACCTTCAAAGCCCA
* *
3874377 CACA-TCAGTGGCACCTTTTCAAAGCCCATAAGTCAGTGGCA
126 CA-AGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * * * * *
3874418 ACCTTCAGAAGCTCACAAGTCAATGGCAAC-CTTCTAAAGCCCACAAGTCAGTGGCAACCTTAT-
1 ACCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGC-ACCTTTTC
* * **
3874481 AAAGGCCACAAGTCATTGGCATTTTTTCAAAAGCCCACAAGTTAGTGGC-ACCTTTTCAAAG-CC
65 AAAGCCCACAAGTCAGTGGCA--CCTTC-AAAGCCCACAAGTTAGTGGCAACC--TTCAAAGCCC
* *
3874544 ATCAAGTCAGTGGCAACC-TTCAAAGCCCACAAGGCAGTGGCA
125 A-CAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * * * *
3874586 ACCTTCAAAAGCACACAAGTTAGTAGAACCCTTTCAAAAGCCCACA
1 ACCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACA
3874632 CAAGTTGGTG
Statistics
Matches: 947, Mismatches: 81, Indels: 67
0.86 0.07 0.06
Matches are distributed among these distances:
166 15 0.02
167 60 0.06
168 203 0.21
169 371 0.39
170 74 0.08
171 40 0.04
172 184 0.19
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (166 bp):
ACCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCACCTTTTCA
AAGCCCACAAGTCAGTGGCACCTTCAAAGCCCACAAGTTAGTGGCAACCTTCAAAGCCCACAAGT
CAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:3874762 original size:49 final size:50
Alignment explanation
Indices: 3874687--3875187 Score: 404
Period size: 52 Copynumber: 9.9 Consensus size: 50
3874677 ATATTGGCAC
*
3874687 CTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCT-TCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTGTCAT
** * * **
3874736 CTTTAAGTCCAAAATCGCTGGTCTTGAATCAGCATATTGGTGCCTTTGTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC--TGTCAT
* * * * * *
3874788 CTTTAAGTCCAATATCGCTAGCTTTGAATCAGCATATTGGCGTCTTTGTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGC-AC-CTGTCAT
*
3874840 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACCT-TCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTGTCAT
* * * *
3874889 CTTTAAGTCCAATGTTGTTGGCCTTGAATCAACACATTAGCACCT-TCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTGTCAT
* * * * * *
3874938 CCTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCGTCTTTGTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGC-AC-CTGTCAT
* * * * *
3874990 CTTTAAGTCCAATGTCGCTAGCCTTGAATTAGCACATTAGCA-CGGTCAC
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTGTCAT
* * * ** *
3875039 CTCTAA-ACCTAATGTCGCTGGCCTTGAATCAACACATTGGCATTTTTC-T
1 CTTTAAGTCC-AATGTCGCTGGCCTTGAATCAGCACATTGGCACCTGTCAT
* * * * ** * *
3875088 CATATTCAAGTCTAATGTCACTGACCGTGAATCAGCACATTGATATTCTTTACAT
1 C-T-TT-AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CCTGT-CAT
* * * * *
3875143 CTTTAAGCCCAATATCACTGGTCC-TGAATCAGCATATTAGCACCT
1 CTTTAAGTCCAATGTCGCTGG-CCTTGAATCAGCACATTGGCACCT
3875188 TTATCACTCT
Statistics
Matches: 362, Mismatches: 72, Indels: 34
0.77 0.15 0.07
Matches are distributed among these distances:
48 2 0.01
49 160 0.44
50 5 0.01
51 6 0.02
52 175 0.48
53 10 0.03
54 2 0.01
55 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (50 bp):
CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTGTCAT
Found at i:3875007 original size:150 final size:152
Alignment explanation
Indices: 3874687--3875076 Score: 534
Period size: 150 Copynumber: 2.6 Consensus size: 152
3874677 ATATTGGCAC
* * **
3874687 CTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAAAATC
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACCTTCATCTTTAAGTCCAATGTC
* * * * ** * *
3874752 GCTGGTCTTGAATCAGCATATTGGTGCCTTTGTCATCTTTAAGTCCAATATCGCTAGCTTTGAAT
66 GCTGGCCTTGAATCAACACATTAGCACC-TTGTCATCCTTAAGTCCAATATCGCTAGCCTTGAAT
3874817 CAGCATATTGGCGTCTTTGTCAT
130 CAGCATATTGGCGTCTTTGTCAT
*
3874840 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACCTTCATCTTTAAGTCCAATGTT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACCTTCATCTTTAAGTCCAATGTC
* * *
3874905 GTTGGCCTTGAATCAACACATTAGCACC-T-TCATCCTTAAGTCCAATATCGTTGGCCTTGAATC
66 GCTGGCCTTGAATCAACACATTAGCACCTTGTCATCCTTAAGTCCAATATCGCTAGCCTTGAATC
3874968 AGCATATTGGCGTCTTTGTCAT
131 AGCATATTGGCGTCTTTGTCAT
* * ** * * *
3874990 CTTTAAGTCCAATGTCGCTAGCCTTGAATTAGCACATTAGCACGGTCACCTCTAA-ACCTAATGT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACCTTCATCTTTAAGTCC-AATGT
3875054 CGCTGGCCTTGAATCAACACATT
65 CGCTGGCCTTGAATCAACACATT
3875077 GGCATTTTTC
Statistics
Matches: 211, Mismatches: 25, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
149 2 0.01
150 127 0.60
151 1 0.00
153 81 0.38
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (152 bp):
CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACCTTCATCTTTAAGTCCAATGTC
GCTGGCCTTGAATCAACACATTAGCACCTTGTCATCCTTAAGTCCAATATCGCTAGCCTTGAATC
AGCATATTGGCGTCTTTGTCAT
Found at i:3875026 original size:101 final size:101
Alignment explanation
Indices: 3874687--3875128 Score: 428
Period size: 101 Copynumber: 4.4 Consensus size: 101
3874677 ATATTGGCAC
* * * * *
3874687 CTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAAAATC
1 CTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTAGCACCTTCATCCTTAAGTCCAATATC
* * * *
3874752 GCTGGTCTTGAATCAGCATATTGGTGCCTTTGTCAT
66 GCTGGCCTTGAATCAGCACATTGGCGTCTTTGTCAT
* * * * * * *
3874788 CTTTAAGTCCAATATCGCTAGCTTTGAATCAGCATATTGGCGTCTTTGTCATCTTTAAGTCCAAT
1 CTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTAGC-AC-CT-TCATCCTTAAGTCCAAT
* * * *
3874853 GTCGCTGGCCTTGAATCAGCACATTAGC-AC-CT-TCAT
63 ATCGCTGGCCTTGAATCAGCACATTGGCGTCTTTGTCAT
* * * *
3874889 CTTTAAGTCCAATGTTGTTGGCCTTGAATCAACACATTAGCACCTTCATCCTTAAGTCCAATATC
1 CTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTAGCACCTTCATCCTTAAGTCCAATATC
* *
3874954 GTTGGCCTTGAATCAGCATATTGGCGTCTTTGTCAT
66 GCTGGCCTTGAATCAGCACATTGGCGTCTTTGTCAT
* ** * *
3874990 CTTTAAGTCCAATGTCGCTAGCCTTGAATTAGCACATTAGCACGGTCA-CCTCTAA-ACCTAATG
1 CTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTAGCACCTTCATCCT-TAAGTCC-AATA
* * * *
3875053 TCGCTGGCCTTGAATCAACACATTGGCATTTTTCTCAT
64 TCGCTGGCCTTGAATCAGCACATTGGCGTCTTTGTCAT
* * * * *
3875091 ATTCAAGTCTAATGTCACT-GACCGTGAATCAGCACATT
1 CTTTAAGTCCAATGTCGCTAG-CCTTGAATCAGCACATT
3875129 GATATTCTTT
Statistics
Matches: 279, Mismatches: 53, Indels: 18
0.80 0.15 0.05
Matches are distributed among these distances:
98 40 0.14
99 2 0.01
100 8 0.03
101 186 0.67
102 2 0.01
103 2 0.01
104 39 0.14
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.34
Consensus pattern (101 bp):
CTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTAGCACCTTCATCCTTAAGTCCAATATC
GCTGGCCTTGAATCAGCACATTGGCGTCTTTGTCAT
Found at i:3875916 original size:20 final size:20
Alignment explanation
Indices: 3875891--3875945 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
3875881 TTGCCAAGGA
3875891 AATGTATCGATACATT-ATTC
1 AATGTATCGATACATTGA-TC
3875911 AATGTATCGATACATTGATC
1 AATGTATCGATACATTGATC
**
3875931 TTTGTATCGATACAT
1 AATGTATCGATACAT
3875946 CTAGGAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.40
Consensus pattern (20 bp):
AATGTATCGATACATTGATC
Found at i:3876890 original size:20 final size:20
Alignment explanation
Indices: 3876845--3876890 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
3876835 GTTAATAGCC
*
3876845 CATGATTCATGCATTTTAAG
1 CATGTTTCATGCATTTTAAG
3876865 CTATGTTTCATGCA-TTTACAG
1 C-ATGTTTCATGCATTTTA-AG
3876886 CATGT
1 CATGT
3876891 CCAGCACCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.41
Consensus pattern (20 bp):
CATGTTTCATGCATTTTAAG
Found at i:3878276 original size:27 final size:27
Alignment explanation
Indices: 3878209--3878278 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
3878199 ATCATTGTCA
3878209 GGGACACTCGAACCCCATTCCTCTGAG
1 GGGACACTCGAACCCCATTCCTCTGAG
*
3878236 GGGACACTAGAACCCCATTCCTCTGAG
1 GGGACACTCGAACCCCATTCCTCTGAG
*
3878263 GGGACACTCCAACCCC
1 GGGACACTCGAACCCC
3878279 GTTCTCAACC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.24, C:0.39, G:0.21, T:0.16
Consensus pattern (27 bp):
GGGACACTCGAACCCCATTCCTCTGAG
Found at i:3884433 original size:20 final size:19
Alignment explanation
Indices: 3884379--3884433 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
3884369 AAAACCCTTA
*
3884379 AAAGTATCGATACACAATTC
1 AAAGTATCGATACA-TATTC
3884399 AAAGTATCGATACATATTGC
1 AAAGTATCGATACATATT-C
*
3884419 AATGTATCGATACAT
1 AAAGTATCGATACAT
3884434 GAAAAAGATG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 3 0.09
20 29 0.91
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (19 bp):
AAAGTATCGATACATATTC
Found at i:3884511 original size:13 final size:13
Alignment explanation
Indices: 3884493--3884518 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3884483 TACACCAAGT
3884493 ATGTATCGATACA
1 ATGTATCGATACA
3884506 ATGTATCGATACA
1 ATGTATCGATACA
3884519 CCAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3884516 original size:32 final size:33
Alignment explanation
Indices: 3884475--3884538 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
3884465 TAGCCAAACT
**
3884475 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
3884507 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
3884539 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:3886748 original size:21 final size:21
Alignment explanation
Indices: 3886715--3886764 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
3886705 TTGCAAGTTG
*
3886715 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
3886737 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
3886758 AAATAAA
1 AAATAAA
3886765 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:3888564 original size:15 final size:15
Alignment explanation
Indices: 3888544--3888574 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3888534 TAAAAATGTC
*
3888544 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
3888559 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
3888574 C
1 C
3888575 CAAACGAAAT
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:3890659 original size:13 final size:13
Alignment explanation
Indices: 3890641--3890679 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
3890631 ACATTTTTCT
3890641 TTGTATCGATACA
1 TTGTATCGATACA
3890654 TTGTATCGATACA
1 TTGTATCGATACA
3890667 TTGTATCGATACA
1 TTGTATCGATACA
3890680 GGGTGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3892522 original size:55 final size:55
Alignment explanation
Indices: 3892462--3892573 Score: 224
Period size: 55 Copynumber: 2.0 Consensus size: 55
3892452 GAGAGAATAG
3892462 ATGCATGTGTGCAAATAAATTTTTGATATGTATGAATTACTTGTTTAAGGGGGGA
1 ATGCATGTGTGCAAATAAATTTTTGATATGTATGAATTACTTGTTTAAGGGGGGA
3892517 ATGCATGTGTGCAAATAAATTTTTGATATGTATGAATTACTTGTTTAAGGGGGGA
1 ATGCATGTGTGCAAATAAATTTTTGATATGTATGAATTACTTGTTTAAGGGGGGA
3892572 AT
1 AT
3892574 TTTTTTTAAG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.31, C:0.05, G:0.25, T:0.38
Consensus pattern (55 bp):
ATGCATGTGTGCAAATAAATTTTTGATATGTATGAATTACTTGTTTAAGGGGGGA
Found at i:3893301 original size:13 final size:13
Alignment explanation
Indices: 3893283--3893308 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3893273 TACACCAAGT
3893283 ATGTATCGATACA
1 ATGTATCGATACA
3893296 ATGTATCGATACA
1 ATGTATCGATACA
3893309 CCAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3893301 original size:32 final size:33
Alignment explanation
Indices: 3893265--3893328 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
3893255 TAGCCAAACT
**
3893265 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
3893297 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
3893329 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:3897904 original size:9 final size:9
Alignment explanation
Indices: 3897890--3897929 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
3897880 TTTTTTTTTT
3897890 AAAAAAAAC
1 AAAAAAAAC
3897899 -AAAAAAAC
1 AAAAAAAAC
3897907 AAAAAAAAC
1 AAAAAAAAC
* *
3897916 AAAACAAAG
1 AAAAAAAAC
3897925 AAAAA
1 AAAAA
3897930 TGAGAGAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
8 8 0.30
9 19 0.70
ACGTcount: A:0.88, C:0.10, G:0.03, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:3897912 original size:17 final size:18
Alignment explanation
Indices: 3897890--3897929 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
3897880 TTTTTTTTTT
3897890 AAAAAAAACAAAA-AAAC
1 AAAAAAAACAAAACAAAC
*
3897907 AAAAAAAACAAAACAAAG
1 AAAAAAAACAAAACAAAC
3897925 AAAAA
1 AAAAA
3897930 TGAGAGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.88, C:0.10, G:0.03, T:0.00
Consensus pattern (18 bp):
AAAAAAAACAAAACAAAC
Found at i:3899409 original size:60 final size:60
Alignment explanation
Indices: 3899041--3899930 Score: 1091
Period size: 61 Copynumber: 14.9 Consensus size: 60
3899031 GAGCAAGACG
* ** * *
3899041 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGACGCC-TTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGATGCCTTTT
* * *
3899101 -C----AAAGCCCACACAAGTTGATGGCACCTTTTAGTCATCAAAGAGCAGGATGCCTTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAGGATGCC-TTTT
*
3899158 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTC-AGTCCTCAAAGAGCAGGATGCCTTTT
*
3899220 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGA---C---G
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGATGCCTTTT
* *
3899275 CCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAG---TCAAAAAGCAGGATG-CTTTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTT-T
* * *
3899332 CCTTTCAAAGCCCACACAAGCTGGTGGCAACTTCAGTCCTCAAAGAGCAGGATGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTT
* * * * ** *
3899392 TCTTTTAAAGCCTACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGTAGGACACCATTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC-AGTCCTCAAAGAGCAGGATGCCTTTT
*
3899453 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCGAGTCCTCAAAGAGTAGGATG-CTTTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC-AGTCCTCAAAGAGCAGGATGCCTTT-T
* * * *
3899514 CCTTTCAAAGCCCACATAAGCTGGTGGCACCTTCAGTCCTCAAAGAGTAGGATGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTT
* *
3899574 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGGAGGATG-CTTTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTC-AGTCCTCAAAGAGCAGGATGCCTTT-T
*
3899636 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGATG-CTTTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTT-T
* * * *
3899696 CCTTTCAAAGCCCACACAAGCTGGTGGCACCTTTAGTCCTCAAAGAGCAGGATCCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTT
* **
3899756 CCTTTTAAAGCCCACACAAGTTGGTGGTATTTTTCAGTCCTCAAAGAGCAGGATGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTCAGTCCTCAAAGAGCAGGATGCCTTTT
*
3899817 CCTTTTAAAACCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATG-CTTTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGATGCCTTT-T
** * * *
3899878 CCTTGCAAAGCCAACACAAGTTGGTGGCACCTTCTAGTCCCCAAGGAGCAGGA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC-AGTCCTCAAAGAGCAGGA
3899931 CCCATTTTAT
Statistics
Matches: 731, Mismatches: 67, Indels: 63
0.85 0.08 0.07
Matches are distributed among these distances:
51 12 0.02
53 1 0.00
54 3 0.00
55 73 0.10
56 2 0.00
57 37 0.05
58 2 0.00
59 1 0.00
60 204 0.28
61 265 0.36
62 110 0.15
63 21 0.03
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (60 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTT
Found at i:3899581 original size:182 final size:180
Alignment explanation
Indices: 3899041--3899930 Score: 1205
Period size: 182 Copynumber: 5.0 Consensus size: 180
3899031 GAGCAAGACG
* * * * * *
3899041 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAG-A-C--GCCTTTC
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGAACCTTTCCTTTT
* * * * *
3899102 AAAGCCCACACAAGTTGATGGCACCTTTTAGTCATCAAAGAGCAGGATGCCTTTTTCCTTTTAAA
66 AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGATG-CTTTCTCCTTTCAAA
* *
3899167 GCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTT
130 GCCCACACAAGCTGGTGGCAC-CTTC-AGTCCTCAAAGAGCAGGATGCCTTTT
* * *
3899220 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGG-A-C--GCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGAACCTTTCCTTTT
* *
3899281 AAAGCCCACACAAGCTGGTGGCACCTTC-AG---TCAAAAAGCAGGATGCTTTCTCCTTTCAAAG
66 AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGATGCTTTCTCCTTTCAAAG
*
3899342 CCCACACAAGCTGGTGGCAACTTCAGTCCTCAAAGAGCAGGATGCCTTTT
131 CCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTT
* * *
3899392 TCTTTTAAAGCCTACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGTAGGACACCATTTCCTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGA-ACC-TTTCCTT
* *
3899457 TTAAAGCCCACACAAGTTGGTGGCACCTTCGAGTCCTCAAAGAGTAGGATGCTTTCTCCTTTCAA
64 TTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGATGCTTTCTCCTTTCAA
* *
3899522 AGCCCACATAAGCTGGTGGCACCTTCAGTCCTCAAAGAGTAGGATGCCTTTT
129 AGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTT
* * *
3899574 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGGAGGATGCTTTCTCCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTCTAGTCCTCAAAGAGCAGGA-ACCTT-TCCT
3899639 TTTAAAGCCCACACAAGTTGGTGGCACCTT-TAGTCCTCAAAGAGCAGGATGCTTTCTCCTTTCA
63 TTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGATGCTTTCTCCTTTCA
* *
3899703 AAGCCCACACAAGCTGGTGGCACCTTTAGTCCTCAAAGAGCAGGATCCCTTTT
128 AAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTT
* * *
3899756 CCTTTTAAAGCCCACACAAGTTGGTGGTA-TTTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCT-AGTCCTCAAAGAGCAGGA-ACC-TTTCCT
* * *
3899820 TTTAAAACCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCCTTGCA
63 TTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGATGCTTTCTCCTTTCA
* * * *
3899885 AAGCCAACACAAGTTGGTGGCACCTTCTAGTCCCCAAGGAGCAGGA
128 AAGCCCACACAAGCTGGTGGCACCTTC-AGTCCTCAAAGAGCAGGA
3899931 CCCATTTTAT
Statistics
Matches: 645, Mismatches: 50, Indels: 28
0.89 0.07 0.04
Matches are distributed among these distances:
172 73 0.11
173 3 0.00
174 33 0.05
175 15 0.02
178 35 0.05
179 83 0.13
180 4 0.01
181 53 0.08
182 273 0.42
183 73 0.11
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (180 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGAACCTTTCCTTTT
AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGATGCTTTCTCCTTTCAAAG
CCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTT
Found at i:3903208 original size:79 final size:78
Alignment explanation
Indices: 3903063--3903271 Score: 208
Period size: 79 Copynumber: 2.7 Consensus size: 78
3903053 TTCAACCCCG
* * * * *
3903063 ATTTTATTTTTAAAACACCAATCTTTTCACAATCGGAGATACTCCAA-CCTTATTATTTTCGTGG
1 ATTTTATTTCTAAAACATCAAT-TTTTCACAATCGGGGATACTCCAATCC-CATTATTTTCGGGG
3903127 GATACTCAAA-CTCCA
64 GATACTCAAACCT-CA
* * *
3903142 ATTTTATTTCCAAAACATCAATTTTTCATAATCGGGGATACTCCAATCCCGTT-TTTTCGAAGGG
1 ATTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAATCCCATTATTTTCG--GGG
* *
3903206 GATACTCTAACCTCG
64 GATACTCAAACCTCA
** * ** *
3903221 GCTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAATCCCA
1 ATTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAATCCCA
3903272 ATTTTGTTTC
Statistics
Matches: 107, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
77 6 0.06
78 24 0.22
79 75 0.70
80 2 0.02
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (78 bp):
ATTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAATCCCATTATTTTCGGGGGA
TACTCAAACCTCA
Found at i:3903288 original size:209 final size:209
Alignment explanation
Indices: 3902916--3903366 Score: 645
Period size: 209 Copynumber: 2.2 Consensus size: 209
3902906 TTTTCATCTC
* *** *
3902916 GGGGATACTCCAACCCCTGGTTTATTTCCAAAACATCAATTTTTCATAACCGGGATACTCTAATC
1 GGGGATACTCAAACCCCAATTTTATTTCCAAAACATCAATTTTTCATAACCGGGATACTCCAATC
*
3902981 CCGTTATTTTCAAGGGGATACTCCAACCCCAGCTTTATTTCTAAAATATTGATTTTTCACAATCG
66 CCGTTATTTTCAAGGGGATACTCCAACCCCAGCTTTATTTCTAAAATATTGATTTCTCACAATCG
* * * *
3903046 AGGATACTTCAACCCCGATTTTATTTTTAAAACACCAATCTTTTCACAATCGGAGATACTCCAAC
131 AGGATACTCCAACCCCAATTTTATTTCTAAAACACCAATCTTTTCACAATCAGAGATACTCCAAC
* *
3903111 CTTATTATTTTCG-
196 CCTATCATTTTCGA
* * *
3903124 TGGGATACTCAAACTCCAATTTTATTTCCAAAACATCAATTTTTCATAATCGGGGATACTCCAAT
1 GGGGATACTCAAACCCCAATTTTATTTCCAAAACATCAATTTTTCATAA-CCGGGATACTCCAAT
* * *
3903189 CCCGTT-TTTTCGAAGGGGATACTCTAACCTCGGCTTTATTTCTAAAATATTGATTTCTCACAAT
65 CCCGTTATTTTC-AAGGGGATACTCCAACCCCAGCTTTATTTCTAAAATATTGATTTCTCACAAT
* * *
3903253 CGGGGATACTCCAATCCCAATTTTGTTTCTAAAACACCAATCTTTTCACAATCAGAGATACTCCA
129 CGAGGATACTCCAACCCCAATTTTATTTCTAAAACACCAATCTTTTCACAATCAGAGATACTCCA
3903318 ACCCTATCATTTTCGA
194 ACCCTATCATTTTCGA
* * * *
3903334 GGGGGTACTCTAACCCCGATTTTATTTTCAAAA
1 GGGGATACTCAAACCCCAATTTTATTTCCAAAA
3903367 TGCTGATTTT
Statistics
Matches: 213, Mismatches: 27, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
208 48 0.23
209 138 0.65
210 27 0.13
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.34
Consensus pattern (209 bp):
GGGGATACTCAAACCCCAATTTTATTTCCAAAACATCAATTTTTCATAACCGGGATACTCCAATC
CCGTTATTTTCAAGGGGATACTCCAACCCCAGCTTTATTTCTAAAATATTGATTTCTCACAATCG
AGGATACTCCAACCCCAATTTTATTTCTAAAACACCAATCTTTTCACAATCAGAGATACTCCAAC
CCTATCATTTTCGA
Found at i:3903367 original size:131 final size:130
Alignment explanation
Indices: 3903125--3903360 Score: 300
Period size: 131 Copynumber: 1.8 Consensus size: 130
3903115 TTATTTTCGT
* * * *
3903125 GGGATACTCAAACTCCAATTTTATTTCCAAAACATCAATTTTTCATAATCGGGGATACTCCAATC
1 GGGATACTCAAACTCCAATTTTATTTCCAAAACACCAATTTTTCACAATCAGAGATACTCCAATC
* *
3903190 CCGTTTTTTCGAAGGGGATACTCTAACCTCGGCTTTATTTCTAAAATATTGATTTCTCACAATCG
66 CCGTTTTTTCGAAGGGGATACTCTAACCCCGACTTTATTTCTAAAATATTGATTTCTCACAATCG
* * *
3903255 GGGATACTCCAA-TCCCAATTTTGTTTCTAAAACACCAATCTTTTCACAATCAGAGATACTCCAA
1 GGGATACTCAAACT-CCAATTTTATTTCCAAAACACCAAT-TTTTCACAATCAGAGATACTCCAA
* *
3903319 -CCC-TATCATTTTCG-AGGGGGTACTCTAACCCCGATTTTATTT
64 TCCCGT-T--TTTTCGAAGGGGATACTCTAACCCCGACTTTATTT
3903361 TCAAAATGCT
Statistics
Matches: 90, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
129 2 0.02
130 37 0.41
131 45 0.50
132 6 0.07
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (130 bp):
GGGATACTCAAACTCCAATTTTATTTCCAAAACACCAATTTTTCACAATCAGAGATACTCCAATC
CCGTTTTTTCGAAGGGGATACTCTAACCCCGACTTTATTTCTAAAATATTGATTTCTCACAATCG
Found at i:3903374 original size:131 final size:131
Alignment explanation
Indices: 3903125--3903397 Score: 299
Period size: 131 Copynumber: 2.1 Consensus size: 131
3903115 TTATTTTCGT
* * * *
3903125 GGGATACT-CAAACTCCAATTTTATTTCCAAAACATCAATTTTTCATAATCGGGGATACTCCAAT
1 GGGATACTCCAAACTCCAATTTTATTTCCAAAACACCAATTTTTCACAATCAGAGATACTCCAAT
* * *
3903189 CCCGTTTTTTCGAAGGGGATACTCTAACCTCGGCTTTATTTCTAAAATATTGA-TTTCTCACAAT
66 CCCGTTTTTTCGAAGGGGATACTCTAACCCCGACTTTATTTCTAAAATACTGATTTTCT-ACAAT
*
3903253 CG
130 CA
* * *
3903255 GGGATACTCCAATC-CCAATTTTGTTTCTAAAACACCAATCTTTTCACAATCAGAGATACTCCAA
1 GGGATACTCCAAACTCCAATTTTATTTCCAAAACACCAAT-TTTTCACAATCAGAGATACTCCAA
* * *
3903319 -CCC-TATCATTTTCG-AGGGGGTACTCTAACCCCGATTTTATTT-TCAAAATGCTGATTTTCTA
65 TCCCGT-T--TTTTCGAAGGGGATACTCTAACCCCGACTTTATTTCT-AAAATACTGATTTTCTA
* *
3903380 TAATTA
126 CAATCA
3903386 GGGATACTCCAA
1 GGGATACTCCAA
3903398 CCCTGTTATT
Statistics
Matches: 120, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
129 1 0.01
130 35 0.29
131 73 0.61
132 11 0.09
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (131 bp):
GGGATACTCCAAACTCCAATTTTATTTCCAAAACACCAATTTTTCACAATCAGAGATACTCCAAT
CCCGTTTTTTCGAAGGGGATACTCTAACCCCGACTTTATTTCTAAAATACTGATTTTCTACAATC
A
Found at i:3903438 original size:209 final size:208
Alignment explanation
Indices: 3902916--3903441 Score: 627
Period size: 209 Copynumber: 2.5 Consensus size: 208
3902906 TTTTCATCTC
* *** * *
3902916 GGGGATACTCCAACCCCTGGTTTATTTCCAAAACATCAATTTTTCATAA-CCGGGATACTCTAAT
1 GGGGATACTCAAACCCCAATTTTATTTCCAAAACATCAATTTTTCATAATCAGGGATACTCCAAT
* * *
3902980 CCCGTTATTTTC-AAGGGGATACTCCAACCCCAGCTTTATTTCTAAAATATTGATTTTTCACAAT
66 CCCGTTA-TTTCGAAGAGGATACTTCAACCCC-GCTTTATTTCTAAAATATTGATTTCTCACAAT
* * * *
3903044 CGAGGATACTTCAACCCCGATTTTATTTTTAAAACACCAATCTTTTCACAATCGGAGATACTCCA
129 CGAGGATACTCCAACCCCAATTTTATTTCTAAAACACCAATCTTTTCACAATCAGAGATACTCCA
* *
3903109 ACCTTATTATTTTCG
194 ACCCTATCATTTTCG
* * *
3903124 TGGGATACTCAAACTCCAATTTTATTTCCAAAACATCAATTTTTCATAATCGGGGATACTCCAAT
1 GGGGATACTCAAACCCCAATTTTATTTCCAAAACATCAATTTTTCATAATCAGGGATACTCCAAT
* * *
3903189 CCCGTTTTTTCGAAGGGGATAC-TCTAACCTCGGCTTTATTTCTAAAATATTGATTTCTCACAAT
66 CCCGTTATTTCGAAGAGGATACTTC-AACC-CCGCTTTATTTCTAAAATATTGATTTCTCACAAT
* * *
3903253 CGGGGATACTCCAATCCCAATTTTGTTTCTAAAACACCAATCTTTTCACAATCAGAGATACTCCA
129 CGAGGATACTCCAACCCCAATTTTATTTCTAAAACACCAATCTTTTCACAATCAGAGATACTCCA
3903318 ACCCTATCATTTTCG
194 ACCCTATCATTTTCG
* * * * * *
3903333 AGGGGGTACTCTAACCCCGATTTTATTTTC-AAA-ATGCTGA-TTTTCTATAATTAGGGATACTC
1 -GGGGATACTCAAACCCCAATTTTATTTCCAAAACAT-C-AATTTTTC-ATAATCAGGGATACTC
*
3903395 CAA-CCCTGTTATTTCTG-AGAGGATACTTCAACCCCGATTTATTTCTA
62 CAATCCC-GTTATTTC-GAAGAGGATACTTCAACCCCGCTTTATTTCTA
3903442 GAACACCAAT
Statistics
Matches: 273, Mismatches: 34, Indels: 21
0.83 0.10 0.06
Matches are distributed among these distances:
208 50 0.18
209 159 0.58
210 61 0.22
211 3 0.01
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (208 bp):
GGGGATACTCAAACCCCAATTTTATTTCCAAAACATCAATTTTTCATAATCAGGGATACTCCAAT
CCCGTTATTTCGAAGAGGATACTTCAACCCCGCTTTATTTCTAAAATATTGATTTCTCACAATCG
AGGATACTCCAACCCCAATTTTATTTCTAAAACACCAATCTTTTCACAATCAGAGATACTCCAAC
CCTATCATTTTCG
Found at i:3903469 original size:78 final size:79
Alignment explanation
Indices: 3903256--3903472 Score: 208
Period size: 79 Copynumber: 2.7 Consensus size: 79
3903246 TCACAATCGG
* * * * * * *
3903256 GGATACTCCAATCCCAATTTTGTTTCTAAAACACCAATCTTTTCACAATCAGAGATACTCCAACC
1 GGATACTCTAACCCCGATTTTATTTCTAAAACACCAAT-TTTCCATAATCAGGGATACTCCAACC
*
3903321 CTATCATTTTCGAGG
65 CTATCATTTTCGAGA
* ** ** * *
3903336 GGGTACTCTAACCCCGATTTTATTT-TCAAAATGCTGATTTTCTATAATTAGGGATACTCCAACC
1 GGATACTCTAACCCCGATTTTATTTCT-AAAACACCAATTTTCCATAATCAGGGATACTCCAACC
* *
3903400 CTGTTA-TTTCTGAGA
65 CTATCATTTTC-GAGA
*
3903415 GGATACT-TCAACCCCGA-TTTATTTCTAGAACACCAATTTTCCATAATCAGGGATACTC
1 GGATACTCT-AACCCCGATTTTATTTCTAAAACACCAATTTTCCATAATCAGGGATACTC
3903473 TAGTCCGTTG
Statistics
Matches: 108, Mismatches: 25, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
78 37 0.34
79 44 0.41
80 27 0.25
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.34
Consensus pattern (79 bp):
GGATACTCTAACCCCGATTTTATTTCTAAAACACCAATTTTCCATAATCAGGGATACTCCAACCC
TATCATTTTCGAGA
Found at i:3905235 original size:20 final size:20
Alignment explanation
Indices: 3905210--3905280 Score: 83
Period size: 20 Copynumber: 3.5 Consensus size: 20
3905200 TTACAATGAA
3905210 ATGTATCGATACTTTACATG
1 ATGTATCGATACTTTACATG
* *
3905230 ATGTATCGATACATTGCAAT-
1 ATGTATCGATACTTTAC-ATG
*
3905250 ATGTATCGATACATTTTCATG
1 ATGTATCGATAC-TTTACATG
3905271 -TGTATCGATA
1 ATGTATCGATA
3905281 GAAATAAGGG
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
20 39 0.89
21 5 0.11
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACTTTACATG
Found at i:3909923 original size:13 final size:13
Alignment explanation
Indices: 3909905--3909930 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3909895 ATTTGCCTGC
3909905 ATGTATCGATACA
1 ATGTATCGATACA
3909918 ATGTATCGATACA
1 ATGTATCGATACA
3909931 TTGAGTAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3909942 original size:20 final size:20
Alignment explanation
Indices: 3909917--3909957 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
3909907 GTATCGATAC
3909917 AATGTATCGATACATTGAGT
1 AATGTATCGATACATTGAGT
3909937 AATGTATCGATACATTGAGT
1 AATGTATCGATACATTGAGT
3909957 A
1 A
3909958 GCTTCGTAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.34
Consensus pattern (20 bp):
AATGTATCGATACATTGAGT
Found at i:3910003 original size:19 final size:20
Alignment explanation
Indices: 3909975--3910028 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 20
3909965 AGCGATATAT
*
3909975 TGTATAGATACAAAACT-TA
1 TGTATCGATACAAAACTGTA
** *
3909994 TGTATCGATACATTTACTGTT
1 TGTATCGATACA-AAACTGTA
3910015 TGTATCGATACAAA
1 TGTATCGATACAAA
3910029 TTGTTGAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 11 0.41
20 3 0.11
21 13 0.48
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTATCGATACAAAACTGTA
Found at i:3910682 original size:12 final size:12
Alignment explanation
Indices: 3910667--3910703 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
3910657 AAAAATATTT
3910667 AAAAAATAAAAA
1 AAAAAATAAAAA
*
3910679 AAAAAATCCAAAA
1 AAAAAAT-AAAAA
3910692 AAAAAATAAAAA
1 AAAAAATAAAAA
3910704 TTCAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.86, C:0.05, G:0.00, T:0.08
Consensus pattern (12 bp):
AAAAAATAAAAA
Found at i:3910691 original size:20 final size:19
Alignment explanation
Indices: 3910668--3910714 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
3910658 AAAATATTTA
3910668 AAAAATAAAAAAAAAAATCC
1 AAAAA-AAAAAAAAAAATCC
* *
3910688 AAAAAAAAAATAAAAATTC
1 AAAAAAAAAAAAAAAATCC
3910707 AAAAAAAA
1 AAAAAAAA
3910715 TGTGAAAGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 20 0.80
20 5 0.20
ACGTcount: A:0.83, C:0.06, G:0.00, T:0.11
Consensus pattern (19 bp):
AAAAAAAAAAAAAAAATCC
Found at i:3911213 original size:45 final size:45
Alignment explanation
Indices: 3911125--3911243 Score: 163
Period size: 45 Copynumber: 2.7 Consensus size: 45
3911115 CAGTAATGAT
* *
3911125 GAAGACAAAGCAACATGGAACAAC-AAGCAATAATGAAAAAAGTG
1 GAAGACAAAGCAACATGGAACAGCAAAGCAACAATGAAAAAAGTG
*
3911169 GAAGACAAAGCAACATGGAACAGCAAAGCAACAA-GCAAGAAAGTG
1 GAAGACAAAGCAACATGGAACAGCAAAGCAACAATG-AAAAAAGTG
*
3911214 GAAGACAAAGCAA-AGTGGAATAGCAAAGCA
1 GAAGACAAAGCAACA-TGGAACAGCAAAGCA
3911244 CGAGTTGAAA
Statistics
Matches: 68, Mismatches: 4, Indels: 5
0.88 0.05 0.06
Matches are distributed among these distances:
44 25 0.37
45 43 0.63
ACGTcount: A:0.55, C:0.15, G:0.24, T:0.07
Consensus pattern (45 bp):
GAAGACAAAGCAACATGGAACAGCAAAGCAACAATGAAAAAAGTG
Found at i:3911230 original size:17 final size:18
Alignment explanation
Indices: 3911208--3911243 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
3911198 AACAAGCAAG
3911208 AAAGTGGAAGA-CAAAGC
1 AAAGTGGAAGAGCAAAGC
*
3911225 AAAGTGGAATAGCAAAGC
1 AAAGTGGAAGAGCAAAGC
3911243 A
1 A
3911244 CGAGTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.53, C:0.11, G:0.28, T:0.08
Consensus pattern (18 bp):
AAAGTGGAAGAGCAAAGC
Found at i:3911397 original size:40 final size:40
Alignment explanation
Indices: 3911353--3911476 Score: 185
Period size: 40 Copynumber: 3.1 Consensus size: 40
3911343 TGCTCTGCAT
*
3911353 CTCCCACGGCAGCCTCCAGCAGCTCAGCAACCACCAGCAG
1 CTCCCACGGCAGCCTCCAGCAGCTCAGCAACCACAAGCAG
* * *
3911393 CTCCCACGGCAGCCTCTAGCAGCTCAACAACCACAAGTAG
1 CTCCCACGGCAGCCTCCAGCAGCTCAGCAACCACAAGCAG
** *
3911433 CTCCCACAACAGCTTCCAGCAGCTCAGCAACCACAAGCAG
1 CTCCCACGGCAGCCTCCAGCAGCTCAGCAACCACAAGCAG
3911473 CTCC
1 CTCC
3911477 TGAGTAGCAG
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 74 1.00
ACGTcount: A:0.28, C:0.44, G:0.17, T:0.10
Consensus pattern (40 bp):
CTCCCACGGCAGCCTCCAGCAGCTCAGCAACCACAAGCAG
Found at i:3911415 original size:22 final size:22
Alignment explanation
Indices: 3911353--3911417 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 22
3911343 TGCTCTGCAT
3911353 CTCCCACGGCAGCCTCCAGCAG
1 CTCCCACGGCAGCCTCCAGCAG
* *
3911375 CT--CA--GCAACCACCAGCAG
1 CTCCCACGGCAGCCTCCAGCAG
*
3911393 CTCCCACGGCAGCCTCTAGCAG
1 CTCCCACGGCAGCCTCCAGCAG
3911415 CTC
1 CTC
3911418 AACAACCACA
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
18 14 0.41
20 4 0.12
22 16 0.47
ACGTcount: A:0.22, C:0.48, G:0.20, T:0.11
Consensus pattern (22 bp):
CTCCCACGGCAGCCTCCAGCAG
Found at i:3911555 original size:31 final size:30
Alignment explanation
Indices: 3911520--3911580 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
3911510 AGCTTTAGCT
*
3911520 GCTCCCACAACAACCTTCAATAGCTCCAGCA
1 GCTCCCACAACAACCTCCAATAGCT-CAGCA
* *
3911551 GCTCCCACAACATCCTCCAGTAGCTCAGCA
1 GCTCCCACAACAACCTCCAATAGCTCAGCA
3911581 ACCATCAGCT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 5 0.19
31 22 0.81
ACGTcount: A:0.30, C:0.43, G:0.11, T:0.16
Consensus pattern (30 bp):
GCTCCCACAACAACCTCCAATAGCTCAGCA
Found at i:3913052 original size:28 final size:30
Alignment explanation
Indices: 3913001--3913059 Score: 95
Period size: 28 Copynumber: 2.0 Consensus size: 30
3912991 AAAATCAGTT
3913001 TTGAAAATAAAATCGAGGTTGGAGTATCCCC
1 TTGAAAAT-AAATCGAGGTTGGAGTATCCCC
3913032 TTGAAAAT-AAT-GAGGTTGGAGTATCCCC
1 TTGAAAATAAATCGAGGTTGGAGTATCCCC
3913060 CGATTGTGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 17 0.61
29 3 0.11
31 8 0.29
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (30 bp):
TTGAAAATAAATCGAGGTTGGAGTATCCCC
Found at i:3913119 original size:80 final size:80
Alignment explanation
Indices: 3912963--3913189 Score: 239
Period size: 80 Copynumber: 2.9 Consensus size: 80
3912953 TGGAGATAAC
* * * * * *
3912963 AATGAGGCTGGAGTATCCCCGATTAT-AAAAAATC-A-G-TTTTGAAAATAAAATCGAGGTTGGA
1 AATGAGGTTGGAGTATCCCCGATTGTGGAAAAATCGATGCTTTAG-AAATAAAATAGGGGTTGGA
* ***
3913024 GTATCCCCTTGAAAAT
65 GTATCCTCGCAAAAAT
** * *
3913040 AATGAGGTTGGAGTATCCCCCGATTGTGG-AAAATCGATGCTTTAGAAATAAGGTCGGTGTTGGA
1 AATGAGGTTGGAGTAT-CCCCGATTGTGGAAAAATCGATGCTTTAGAAATAAAATAGGGGTTGGA
3913104 GTATCCTCGCAAAAAT
65 GTATCCTCGCAAAAAT
* * * *
3913120 AATGGGGTTGGAGTATCCCCGATTGTGGAAAAATTGGTGTTTTAGAAATAAAATAGGGGTTGGAG
1 AATGAGGTTGGAGTATCCCCGATTGTGGAAAAATCGATGCTTTAGAAATAAAATAGGGGTTGGAG
3913185 TATCC
66 TATCC
3913190 CCGATGTGAG
Statistics
Matches: 124, Mismatches: 20, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
77 15 0.12
78 15 0.12
79 13 0.10
80 77 0.62
81 4 0.03
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (80 bp):
AATGAGGTTGGAGTATCCCCGATTGTGGAAAAATCGATGCTTTAGAAATAAAATAGGGGTTGGAG
TATCCTCGCAAAAAT
Found at i:3913220 original size:130 final size:131
Alignment explanation
Indices: 3913045--3913282 Score: 320
Period size: 130 Copynumber: 1.8 Consensus size: 131
3913035 AAAATAATGA
* * * * *
3913045 GGTTGGAGTATCCCCCGATTGTGGAAAATCGATGCTTTAGAAATAAGGTCGGTGTTGGAGTATCC
1 GGTTGGAGTATCCCCCGATTGTGGAAAATCAATACTTTAGAAATAAAGCCGGGGTTGGAGTATCC
* * * *
3913110 TCGCAAAAATAATGGGGTTGGAGTATCCCCGATTGTGGAAAAATTGGTGTTTTAGAAATAAAATA
66 CCGCAAAAATAAAGGGATTGGAGTATCCCCGATTAT-GAAAAATTGGTGTTTTAGAAATAAAATA
3913175 GG
130 GG
*
3913177 GGTTGGAGTAT-CCCCGA-TGT-GAGAAATCAATATTTTAGAAATAAAGCCGGGGTTGGAGTATC
1 GGTTGGAGTATCCCCCGATTGTGGA-AAATCAATACTTTAGAAATAAAGCCGGGGTTGGAGTATC
* * *
3913239 CCCTCGAAAATAAAGGGATTGGAGTATCCCTGATTATGAAAAAT
65 CCCGCAAAAATAAAGGGATTGGAGTATCCCCGATTATGAAAAAT
3913283 AACACTATTT
Statistics
Matches: 92, Mismatches: 13, Indels: 5
0.84 0.12 0.05
Matches are distributed among these distances:
129 9 0.10
130 66 0.72
131 6 0.07
132 11 0.12
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (131 bp):
GGTTGGAGTATCCCCCGATTGTGGAAAATCAATACTTTAGAAATAAAGCCGGGGTTGGAGTATCC
CCGCAAAAATAAAGGGATTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAATAG
G
Found at i:3913231 original size:50 final size:52
Alignment explanation
Indices: 3913123--3913241 Score: 152
Period size: 50 Copynumber: 2.3 Consensus size: 52
3913113 CAAAAATAAT
*** * *
3913123 GGGGTTGGAGTATCCCCGATTGTGGAAAAATTGGTGTTTTAGAAATAAAATA
1 GGGGTTGGAGTATCCCCGATTGTGGAAAAATCAATATTTTAGAAATAAAACA
* * *
3913175 GGGGTTGGAGTATCCCCGA-TGT-GAGAAATCAATATTTTAGAAATAAAGCC
1 GGGGTTGGAGTATCCCCGATTGTGGAAAAATCAATATTTTAGAAATAAAACA
3913225 GGGGTTGGAGTATCCCC
1 GGGGTTGGAGTATCCCC
3913242 TCGAAAATAA
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
50 37 0.63
51 3 0.05
52 19 0.32
ACGTcount: A:0.30, C:0.13, G:0.29, T:0.28
Consensus pattern (52 bp):
GGGGTTGGAGTATCCCCGATTGTGGAAAAATCAATATTTTAGAAATAAAACA
Found at i:3916336 original size:56 final size:56
Alignment explanation
Indices: 3916242--3916355 Score: 169
Period size: 56 Copynumber: 2.0 Consensus size: 56
3916232 GAGAGAATAG
* *
3916242 ATGCATGTGGCAAATAAATTTTTTTATATGTATGGAATTACTTGTTTAAGGGGGGA
1 ATGCATGTGGCAAATAAATATTTTGATATGTATGGAATTACTTGTTTAAGGGGGGA
*
3916298 ATGCATGTGTGCAAATAAA-ATTTTGATATGCTAT-GAATTACTTGTTTTAGGGGGGA
1 ATGCATGTG-GCAAATAAATATTTTGATATG-TATGGAATTACTTGTTTAAGGGGGGA
3916354 AT
1 AT
3916356 TTTTTTTAAG
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
56 41 0.77
57 12 0.23
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.39
Consensus pattern (56 bp):
ATGCATGTGGCAAATAAATATTTTGATATGTATGGAATTACTTGTTTAAGGGGGGA
Found at i:3917210 original size:20 final size:21
Alignment explanation
Indices: 3917170--3917211 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
3917160 GCTATATTTT
3917170 TCAAAATATGTATCCGATACA
1 TCAAAATATGTATCCGATACA
3917191 TCAAAA-ATGTAT-CGATTACA
1 TCAAAATATGTATCCGA-TACA
3917211 T
1 T
3917212 TTACACGGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 3 0.15
20 11 0.55
21 6 0.30
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.31
Consensus pattern (21 bp):
TCAAAATATGTATCCGATACA
Found at i:3923144 original size:62 final size:61
Alignment explanation
Indices: 3923030--3923876 Score: 516
Period size: 60 Copynumber: 13.9 Consensus size: 61
3923020 GAGCAAGACG
* * * * * *
3923030 CCTTTCAAAGCCCAC-CACGTTGATGGCACCTTT-TAGTCATCAACGAGAAGGATGCCTTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCTAGTCCTCAAAGAGCAGGATGCC-TTTT
3923091 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGT-CTCAAAGTAGCAGGATGCC-TTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAG-AGCAGGATGCCTTTT
* * *
3923151 CCTTTTAAAGCCCACACAACGTTGGTGGTCCACCTTCCAGT-CTCAAAGAGCAGGA---C---G
1 CCTTTTAAAGCCCACACAA-GTTGGTGG--CACTTTCTAGTCCTCAAAGAGCAGGATGCCTTTT
* * * **
3923208 CCTTTTAAAGCCCACACAAGCTGGTGGCACCTTC-AGT-C-CAAAAAGCA-GATTTTCTTTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGA-TGCCTTT-T
**
3923267 CCTTCCAAAGCCCACACAAGCTT-GTGGCAAAC-TTC-AGT-CTCAAACGAGCAGGATGCCTTTT
1 CCTTTTAAAGCCCACACAAG-TTGGTGGC--ACTTTCTAGTCCTCAAA-GAGCAGGATGCCTTTT
* * **
3923328 -CTTTTAAAAAGCGCTACACAAGTTGGT-GCACTTTCTAGTCCTCAAATGAGTCGGGACCCCAAC
1 CCTTTT--AAAGC-CCACACAAGTTGGTGGCACTTTCTAGTCCTCAAA-GAG-CAGGA----TGC
*
3923391 CATTT
57 CTTTT
* * * * * *
3923396 CCTTTTAAAGGCCCCCACAAGTTGGTGGCACCTTCGAGTCCTCCCAAGAGTAGG-CG-CTTTCT
1 CCTTTTAAA-GCCCACACAAGTTGGTGGCACTTTCTAGTCCT-CAAAGAGCAGGATGCCTTT-T
* * * * * * *
3923458 CCTTTCAAA-CCCACATACG-CGGTGGCCTACCTTC-AGTCCTCAAAGCGTAGGATGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGG-C-ACTTTCTAGTCCTCAAAGAGCAGGATGCCTTTT
* * *
3923518 CCTTTTAAAG-CCACACAAGTTGG-GGCAACTTTTTTAGTCCTCAAAGAGGAGGATG-ATTTCCC
1 CCTTTTAAAGCCCACACAAGTTGGTGGC-AC-TTTCTAGTCCTCAAAGAGCAGGATGCCTTT---
3923580 T
61 T
* * *
3923581 CCTTTTAAAGCCCACACCAAGTT-GT-GCAC-TT-TAGTCCTCAAAGAGCAGGCTGCGTTCT
1 CCTTTTAAAGCCCACA-CAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGATGCCTTTT
* * *
3923639 CC-TTCAAAGCCCACACAAGCTGGTGGCACCTT-TAGTCCTCAATAGAGCAGGAT-CCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAA-AGAGCAGGATGCCTTTT
* * *
3923698 -CTTTTAAAGCCCACACAAGTTGGTGGTA-TTTTTCAGTCCTCACAGAGGCAGGATGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCT-AGTCCTCAAAGA-GCAGGATGCCTTTT
* * * *
3923759 CCTTTTAAAAACCCACAC-AGGTGGTGGGCACCTTCCAAGTCCTCAAAGAGCAGTGATG-CTTTC
1 CCTTTT-AAAGCCCACACAAGTTGGT-GGCA-CTTTCTAGTCCTCAAAGAGCAG-GATGCCTTT-
3923822 T
61 T
** * * * * *
3923823 CC-TTGCAAGCCAACACAATGTTGGTGGCACCCTTCTATTCCCCAAGGAGCAGGA
1 CCTTTTAAAGCCCACACAA-GTTGGTGGCA-CTTTCTAGTCCTCAAAGAGCAGGA
3923877 CCCATTTTTC
Statistics
Matches: 630, Mismatches: 86, Indels: 139
0.74 0.10 0.16
Matches are distributed among these distances:
51 2 0.00
52 8 0.01
53 4 0.01
54 7 0.01
55 1 0.00
56 12 0.02
57 33 0.05
58 10 0.02
59 84 0.13
60 116 0.18
61 84 0.13
62 83 0.13
63 95 0.15
64 35 0.06
65 8 0.01
67 17 0.03
68 23 0.04
69 8 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (61 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGATGCCTTTT
Found at i:3935609 original size:23 final size:24
Alignment explanation
Indices: 3935561--3935623 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
3935551 GTGTGCCGTT
*
3935561 TGGTGTTGTGGGTTTTTGGTTGGTGG
1 TGGT-TTGT-GGTTTTTGGGTGGTGG
3935587 TGGTTTGTGGTTTTTGGGT-GTGG
1 TGGTTTGTGGTTTTTGGGTGGTGG
*
3935610 TTG-TT-TGGTTTTTG
1 TGGTTTGTGGTTTTTG
3935624 TTTGTTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 9 0.26
22 2 0.06
23 6 0.17
24 10 0.29
25 4 0.11
26 4 0.11
ACGTcount: A:0.00, C:0.00, G:0.44, T:0.56
Consensus pattern (24 bp):
TGGTTTGTGGTTTTTGGGTGGTGG
Found at i:3935757 original size:12 final size:12
Alignment explanation
Indices: 3935740--3935768 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
3935730 AACACACTGT
3935740 GTGGGTGGGGGG
1 GTGGGTGGGGGG
3935752 GTGGGTGGGGGG
1 GTGGGTGGGGGG
3935764 GTGGG
1 GTGGG
3935769 CGTGTTGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.83, T:0.17
Consensus pattern (12 bp):
GTGGGTGGGGGG
Found at i:3936019 original size:40 final size:40
Alignment explanation
Indices: 3935970--3936058 Score: 117
Period size: 40 Copynumber: 2.2 Consensus size: 40
3935960 CAGTTGCTCT
* *
3935970 AGCATCTCCCACGGCAGCCTCAAGCAGCTC-AGCAACCACC
1 AGCAGCTCCCACGGCAGCCTCAAGCAGCTCGA-CAACCACA
* *
3936010 AGCAGCTCCCCCGGCAGCCTCTAGCAGCTCGACAACCACA
1 AGCAGCTCCCACGGCAGCCTCAAGCAGCTCGACAACCACA
*
3936050 AGTAGCTCC
1 AGCAGCTCC
3936059 ACAAAAGCTT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
40 42 0.98
41 1 0.02
ACGTcount: A:0.26, C:0.44, G:0.19, T:0.11
Consensus pattern (40 bp):
AGCAGCTCCCACGGCAGCCTCAAGCAGCTCGACAACCACA
Found at i:3939088 original size:13 final size:13
Alignment explanation
Indices: 3939070--3939108 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
3939060 ACATTTTTCT
3939070 TTGTATCGATACA
1 TTGTATCGATACA
3939083 TTGTATCGATACA
1 TTGTATCGATACA
3939096 TTGTATCGATACA
1 TTGTATCGATACA
3939109 GGGTGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3940950 original size:54 final size:54
Alignment explanation
Indices: 3940891--3940997 Score: 214
Period size: 54 Copynumber: 2.0 Consensus size: 54
3940881 GAGAGAATAG
3940891 ATGCATGTGTGCAAATAAATTTTTGATATGTATGAATTACTTGTTTAAGGGGGA
1 ATGCATGTGTGCAAATAAATTTTTGATATGTATGAATTACTTGTTTAAGGGGGA
3940945 ATGCATGTGTGCAAATAAATTTTTGATATGTATGAATTACTTGTTTAAGGGGG
1 ATGCATGTGTGCAAATAAATTTTTGATATGTATGAATTACTTGTTTAAGGGGG
3940998 GAATTTTTTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.31, C:0.06, G:0.24, T:0.39
Consensus pattern (54 bp):
ATGCATGTGTGCAAATAAATTTTTGATATGTATGAATTACTTGTTTAAGGGGGA
Found at i:3941727 original size:13 final size:13
Alignment explanation
Indices: 3941709--3941734 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3941699 TACACCAAGT
3941709 ATGTATCGATACA
1 ATGTATCGATACA
3941722 ATGTATCGATACA
1 ATGTATCGATACA
3941735 CCAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3941727 original size:32 final size:33
Alignment explanation
Indices: 3941691--3941754 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
3941681 TAGCCAAACT
**
3941691 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
3941723 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
3941755 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:3946331 original size:9 final size:9
Alignment explanation
Indices: 3946317--3946356 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
3946307 TTTTTTTTTA
3946317 AAAAAAAAC
1 AAAAAAAAC
3946326 -AAAAAAAC
1 AAAAAAAAC
3946334 AAAAAAAAC
1 AAAAAAAAC
* *
3946343 AAAACAAAG
1 AAAAAAAAC
3946352 AAAAA
1 AAAAA
3946357 TGAGAGAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
8 8 0.30
9 19 0.70
ACGTcount: A:0.88, C:0.10, G:0.03, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:3946339 original size:17 final size:18
Alignment explanation
Indices: 3946317--3946356 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
3946307 TTTTTTTTTA
3946317 AAAAAAAACAAAA-AAAC
1 AAAAAAAACAAAACAAAC
*
3946334 AAAAAAAACAAAACAAAG
1 AAAAAAAACAAAACAAAC
3946352 AAAAA
1 AAAAA
3946357 TGAGAGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.88, C:0.10, G:0.03, T:0.00
Consensus pattern (18 bp):
AAAAAAAACAAAACAAAC
Found at i:3947836 original size:60 final size:60
Alignment explanation
Indices: 3947468--3948358 Score: 1075
Period size: 61 Copynumber: 14.9 Consensus size: 60
3947458 GAGCAAGACG
* ** * *
3947468 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGACGCC-TTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGATGCCTTTT
* * *
3947528 -C----AAAGCCCACACAAGTTGATGGCACCTTTTAGTCATCAAAGAGCAGGATGCCTTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAGGATGCC-TTTT
*
3947585 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTC-AGTCCTCAAAGAGCAGGATGCCTTTT
*
3947647 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGA---C---G
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGATGCCTTTT
* *
3947702 CCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAG---TCAAAAAGCAGGATG-CTTTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTT-T
* * *
3947759 CCTTTCAAAGCCCACACAAGCTGGTGGCAACTTCAGTCCTCAAAGAGCAGGATGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTT
* * * * ** *
3947819 TCTTTTAAAGCCTACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGTAGGACACCATTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTC-AGTCCTCAAAGAGCAGGATGCCTTTT
*
3947881 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCGAGTCCTCAAAGAGTAGGATG-CTTTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC-AGTCCTCAAAGAGCAGGATGCCTTT-T
* * * *
3947942 CCTTTCAAAGCCCACATAAGCTGGTGGCACCTTCAGTCCTCAAAGAGTAGGATGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTT
* * *
3948002 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTTTAGTCCTCAAAGAGGAGGATG-CTTTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCAC--CTTCAGTCCTCAAAGAGCAGGATGCCTTT-T
*
3948064 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGATG-CTTTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTT-T
* * * *
3948124 CCTTTCAAAGCCCACACAAGCTGGTGGCACCTTTAGTCCTCAAAGAGCAGGATCCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTT
* **
3948184 CCTTTTAAAGCCCACACAAGTTGGTGGTATTTTTCAGTCCTCAAAGAGCAGGATGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTCAGTCCTCAAAGAGCAGGATGCCTTTT
*
3948245 CCTTTTAAAACCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATG-CTTTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGATGCCTTT-T
** * * *
3948306 CCTTGCAAAGCCAACACAAGTTGGTGGCACCTTCTAGTCCCCAAGGAGCAGGA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC-AGTCCTCAAAGAGCAGGA
3948359 CCCATTTTAT
Statistics
Matches: 731, Mismatches: 67, Indels: 65
0.85 0.08 0.08
Matches are distributed among these distances:
51 12 0.02
53 1 0.00
54 3 0.00
55 73 0.10
56 2 0.00
57 37 0.05
58 2 0.00
59 1 0.00
60 204 0.28
61 213 0.29
62 162 0.22
63 21 0.03
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (60 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTT
Found at i:3951638 original size:79 final size:78
Alignment explanation
Indices: 3951493--3951701 Score: 208
Period size: 79 Copynumber: 2.7 Consensus size: 78
3951483 TTCAACCCCG
* * * * *
3951493 ATTTTATTTTTAAAACACCAATCTTTTCACAATCGGAGATACTCCAA-CCTTATTATTTTCGTGG
1 ATTTTATTTCTAAAACATCAAT-TTTTCACAATCGGGGATACTCCAATCC-CATTATTTTCGGGG
3951557 GATACTCAAA-CTCCA
64 GATACTCAAACCT-CA
* * *
3951572 ATTTTATTTCCAAAACATCAATTTTTCATAATCGGGGATACTCCAATCCCGTT-TTTTCGAAGGG
1 ATTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAATCCCATTATTTTCG--GGG
* *
3951636 GATACTCTAACCTCG
64 GATACTCAAACCTCA
** * ** *
3951651 GCTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAATCCCA
1 ATTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAATCCCA
3951702 ATTTTGTTTC
Statistics
Matches: 107, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
77 6 0.06
78 24 0.22
79 75 0.70
80 2 0.02
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (78 bp):
ATTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAATCCCATTATTTTCGGGGGA
TACTCAAACCTCA
Found at i:3951718 original size:209 final size:209
Alignment explanation
Indices: 3951346--3951796 Score: 645
Period size: 209 Copynumber: 2.2 Consensus size: 209
3951336 TTTTCATCTC
* *** *
3951346 GGGGATACTCCAACCCCTGGTTTATTTCCAAAACATCAATTTTTCATAACCGGGATACTCTAATC
1 GGGGATACTCAAACCCCAATTTTATTTCCAAAACATCAATTTTTCATAACCGGGATACTCCAATC
*
3951411 CCGTTATTTTCAAGGGGATACTCCAACCCCAGCTTTATTTCTAAAATATTGATTTTTCACAATCG
66 CCGTTATTTTCAAGGGGATACTCCAACCCCAGCTTTATTTCTAAAATATTGATTTCTCACAATCG
* * * *
3951476 AGGATACTTCAACCCCGATTTTATTTTTAAAACACCAATCTTTTCACAATCGGAGATACTCCAAC
131 AGGATACTCCAACCCCAATTTTATTTCTAAAACACCAATCTTTTCACAATCAGAGATACTCCAAC
* *
3951541 CTTATTATTTTCG-
196 CCTATCATTTTCGA
* * *
3951554 TGGGATACTCAAACTCCAATTTTATTTCCAAAACATCAATTTTTCATAATCGGGGATACTCCAAT
1 GGGGATACTCAAACCCCAATTTTATTTCCAAAACATCAATTTTTCATAA-CCGGGATACTCCAAT
* * *
3951619 CCCGTT-TTTTCGAAGGGGATACTCTAACCTCGGCTTTATTTCTAAAATATTGATTTCTCACAAT
65 CCCGTTATTTTC-AAGGGGATACTCCAACCCCAGCTTTATTTCTAAAATATTGATTTCTCACAAT
* * *
3951683 CGGGGATACTCCAATCCCAATTTTGTTTCTAAAACACCAATCTTTTCACAATCAGAGATACTCCA
129 CGAGGATACTCCAACCCCAATTTTATTTCTAAAACACCAATCTTTTCACAATCAGAGATACTCCA
3951748 ACCCTATCATTTTCGA
194 ACCCTATCATTTTCGA
* * * *
3951764 GGGGGTACTCTAACCCCGATTTTATTTTCAAAA
1 GGGGATACTCAAACCCCAATTTTATTTCCAAAA
3951797 TGCTGATTTT
Statistics
Matches: 213, Mismatches: 27, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
208 48 0.23
209 138 0.65
210 27 0.13
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.34
Consensus pattern (209 bp):
GGGGATACTCAAACCCCAATTTTATTTCCAAAACATCAATTTTTCATAACCGGGATACTCCAATC
CCGTTATTTTCAAGGGGATACTCCAACCCCAGCTTTATTTCTAAAATATTGATTTCTCACAATCG
AGGATACTCCAACCCCAATTTTATTTCTAAAACACCAATCTTTTCACAATCAGAGATACTCCAAC
CCTATCATTTTCGA
Found at i:3951797 original size:131 final size:130
Alignment explanation
Indices: 3951555--3951790 Score: 300
Period size: 131 Copynumber: 1.8 Consensus size: 130
3951545 TTATTTTCGT
* * * *
3951555 GGGATACTCAAACTCCAATTTTATTTCCAAAACATCAATTTTTCATAATCGGGGATACTCCAATC
1 GGGATACTCAAACTCCAATTTTATTTCCAAAACACCAATTTTTCACAATCAGAGATACTCCAATC
* *
3951620 CCGTTTTTTCGAAGGGGATACTCTAACCTCGGCTTTATTTCTAAAATATTGATTTCTCACAATCG
66 CCGTTTTTTCGAAGGGGATACTCTAACCCCGACTTTATTTCTAAAATATTGATTTCTCACAATCG
* * *
3951685 GGGATACTCCAA-TCCCAATTTTGTTTCTAAAACACCAATCTTTTCACAATCAGAGATACTCCAA
1 GGGATACTCAAACT-CCAATTTTATTTCCAAAACACCAAT-TTTTCACAATCAGAGATACTCCAA
* *
3951749 -CCC-TATCATTTTCG-AGGGGGTACTCTAACCCCGATTTTATTT
64 TCCCGT-T--TTTTCGAAGGGGATACTCTAACCCCGACTTTATTT
3951791 TCAAAATGCT
Statistics
Matches: 90, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
129 2 0.02
130 37 0.41
131 45 0.50
132 6 0.07
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (130 bp):
GGGATACTCAAACTCCAATTTTATTTCCAAAACACCAATTTTTCACAATCAGAGATACTCCAATC
CCGTTTTTTCGAAGGGGATACTCTAACCCCGACTTTATTTCTAAAATATTGATTTCTCACAATCG
Found at i:3951804 original size:131 final size:131
Alignment explanation
Indices: 3951555--3951827 Score: 299
Period size: 131 Copynumber: 2.1 Consensus size: 131
3951545 TTATTTTCGT
* * * *
3951555 GGGATACT-CAAACTCCAATTTTATTTCCAAAACATCAATTTTTCATAATCGGGGATACTCCAAT
1 GGGATACTCCAAACTCCAATTTTATTTCCAAAACACCAATTTTTCACAATCAGAGATACTCCAAT
* * *
3951619 CCCGTTTTTTCGAAGGGGATACTCTAACCTCGGCTTTATTTCTAAAATATTGA-TTTCTCACAAT
66 CCCGTTTTTTCGAAGGGGATACTCTAACCCCGACTTTATTTCTAAAATACTGATTTTCT-ACAAT
*
3951683 CG
130 CA
* * *
3951685 GGGATACTCCAATC-CCAATTTTGTTTCTAAAACACCAATCTTTTCACAATCAGAGATACTCCAA
1 GGGATACTCCAAACTCCAATTTTATTTCCAAAACACCAAT-TTTTCACAATCAGAGATACTCCAA
* * *
3951749 -CCC-TATCATTTTCG-AGGGGGTACTCTAACCCCGATTTTATTT-TCAAAATGCTGATTTTCTA
65 TCCCGT-T--TTTTCGAAGGGGATACTCTAACCCCGACTTTATTTCT-AAAATACTGATTTTCTA
* *
3951810 TAATTA
126 CAATCA
3951816 GGGATACTCCAA
1 GGGATACTCCAA
3951828 CCCTGTTATT
Statistics
Matches: 120, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
129 1 0.01
130 35 0.29
131 73 0.61
132 11 0.09
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (131 bp):
GGGATACTCCAAACTCCAATTTTATTTCCAAAACACCAATTTTTCACAATCAGAGATACTCCAAT
CCCGTTTTTTCGAAGGGGATACTCTAACCCCGACTTTATTTCTAAAATACTGATTTTCTACAATC
A
Found at i:3951885 original size:79 final size:79
Alignment explanation
Indices: 3951686--3951903 Score: 210
Period size: 79 Copynumber: 2.7 Consensus size: 79
3951676 TCACAATCGG
* * * * * *
3951686 GGATACTCCAATCCCAATTTTGTTTCTAAAACACCAATCTTT-TCACAATCAGAGATACTCCAAC
1 GGATACTTCAACCCCGATTTTATTTCTAAAACACCAAT-TTTCT-ATAATCAGGGATACTCCAAC
*
3951750 CCTATCATTTTCGAGG
64 CCTATCATTTTCGAGA
* ** ** *
3951766 GGGTAC-TCTAACCCCGATTTTATTT-TCAAAATGCTGATTTTCTATAATTAGGGATACTCCAAC
1 GGATACTTC-AACCCCGATTTTATTTCT-AAAACACCAATTTTCTATAATCAGGGATACTCCAAC
* *
3951829 CCTGTTA-TTTCTGAGA
64 CCTATCATTTTC-GAGA
* *
3951845 GGATACTTCAACCCCGATTTTATTTCTAGAACACCAATTTTCCATAATCAGGGATACTC
1 GGATACTTCAACCCCGATTTTATTTCTAAAACACCAATTTTCTATAATCAGGGATACTC
3951904 TAGTCCCGTT
Statistics
Matches: 109, Mismatches: 23, Indels: 13
0.75 0.16 0.09
Matches are distributed among these distances:
78 4 0.04
79 76 0.70
80 29 0.27
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.34
Consensus pattern (79 bp):
GGATACTTCAACCCCGATTTTATTTCTAAAACACCAATTTTCTATAATCAGGGATACTCCAACCC
TATCATTTTCGAGA
Found at i:3951901 original size:210 final size:209
Alignment explanation
Indices: 3951346--3951903 Score: 562
Period size: 209 Copynumber: 2.7 Consensus size: 209
3951336 TTTTCATCTC
* *** * *
3951346 GGGGATACTCCAACCCCTGGTTTATTTCCAAAACATCAATTTTTCATAA-CCGGGATACTCTAAT
1 GGGGATACTCAAACCCCAATTTTATTTCCAAAACATCAATTTTTCATAATCAGGGATACTCCAAT
* * * *** *
3951410 CCCGTTATTTTC-AAGGGGATACTCCAACCCC-AGCTTTATTTCTAAAATATTGATTTTTCACAA
66 CCCGTTA-TTTCGAAGAGGATACTCTAACCCCGA-CTTTATTTCTAAAACACCAATTTCTCACAA
* * * *
3951473 TC-GAGGATACTTCAACCCCGATTTTATTTTTAAAACACCAATCTTTTCACAATCGGAGATACTC
129 TCAG-GGATACTCCAACCCCAATTTTATTTCTAAAACACCAATCTTTTCACAATCAGAGATACTC
* *
3951537 CAACCTTATTATTTTCG
193 CAACCCTATCATTTTCG
* * *
3951554 TGGGATACTCAAACTCCAATTTTATTTCCAAAACATCAATTTTTCATAATCGGGGATACTCCAAT
1 GGGGATACTCAAACCCCAATTTTATTTCCAAAACATCAATTTTTCATAATCAGGGATACTCCAAT
* * * * * ***
3951619 CCCGTTTTTTCGAAGGGGATACTCTAACCTCGGCTTTATTTCTAAAATATTGATTTCTCACAATC
66 CCCGTTATTTCGAAGAGGATACTCTAACCCCGACTTTATTTCTAAAACACCAATTTCTCACAATC
* * *
3951684 GGGGATACTCCAATCCCAATTTTGTTTCTAAAACACCAATCTTTTCACAATCAGAGATACTCCAA
131 AGGGATACTCCAACCCCAATTTTATTTCTAAAACACCAATCTTTTCACAATCAGAGATACTCCAA
3951749 CCCTATCATTTTCG
196 CCCTATCATTTTCG
* * * * * *
3951763 AGGGGGTACTCTAACCCCGATTTTATTTTC-AAA-ATGCTGA-TTTTCTATAATTAGGGATACTC
1 -GGGGATACTCAAACCCCAATTTTATTTCCAAAACAT-C-AATTTTTC-ATAATCAGGGATACTC
* *
3951825 CAA-CCCTGTTATTTCTG-AGAGGATACT-TCAACCCCGATTTTATTTCTAGAACACCAATTT-T
62 CAATCCC-GTTATTTC-GAAGAGGATACTCT-AACCCCGACTTTATTTCTAAAACACCAATTTCT
*
3951886 CCATAATCAGGGATACTC
124 -CACAATCAGGGATACTC
3951904 TAGTCCCGTT
Statistics
Matches: 296, Mismatches: 42, Indels: 22
0.82 0.12 0.06
Matches are distributed among these distances:
208 49 0.17
209 150 0.51
210 96 0.32
211 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (209 bp):
GGGGATACTCAAACCCCAATTTTATTTCCAAAACATCAATTTTTCATAATCAGGGATACTCCAAT
CCCGTTATTTCGAAGAGGATACTCTAACCCCGACTTTATTTCTAAAACACCAATTTCTCACAATC
AGGGATACTCCAACCCCAATTTTATTTCTAAAACACCAATCTTTTCACAATCAGAGATACTCCAA
CCCTATCATTTTCG
Found at i:3953681 original size:21 final size:20
Alignment explanation
Indices: 3953657--3953728 Score: 85
Period size: 20 Copynumber: 3.5 Consensus size: 20
3953647 TACCAATGAA
3953657 ATGTATCGATACTTTTACATG
1 ATGTATCGATACTTTT-CATG
* *
3953678 ATGTATCGATACATTGCAAT-
1 ATGTATCGATACTTTTC-ATG
3953698 ATGTATCGATACATTTTCATG
1 ATGTATCGATAC-TTTTCATG
3953719 -TGTATCGATA
1 ATGTATCGATA
3953729 GAAATAAGGG
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
20 25 0.57
21 19 0.43
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACTTTTCATG
Found at i:3958360 original size:13 final size:13
Alignment explanation
Indices: 3958342--3958367 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3958332 ATTTGCCTGC
3958342 ATGTATCGATACA
1 ATGTATCGATACA
3958355 ATGTATCGATACA
1 ATGTATCGATACA
3958368 TTGAGTAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3958379 original size:20 final size:20
Alignment explanation
Indices: 3958354--3958394 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
3958344 GTATCGATAC
3958354 AATGTATCGATACATTGAGT
1 AATGTATCGATACATTGAGT
3958374 AATGTATCGATACATTGAGT
1 AATGTATCGATACATTGAGT
3958394 A
1 A
3958395 GCTTCGTAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.34
Consensus pattern (20 bp):
AATGTATCGATACATTGAGT
Found at i:3958440 original size:19 final size:20
Alignment explanation
Indices: 3958412--3958465 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 20
3958402 AGCGATATAT
*
3958412 TGTATAGATACAAAACT-TA
1 TGTATCGATACAAAACTGTA
** *
3958431 TGTATCGATACATTTACTGTT
1 TGTATCGATACA-AAACTGTA
3958452 TGTATCGATACAAA
1 TGTATCGATACAAA
3958466 TTGTTGAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 11 0.41
20 3 0.11
21 13 0.48
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTATCGATACAAAACTGTA
Found at i:3959618 original size:45 final size:45
Alignment explanation
Indices: 3959566--3959687 Score: 176
Period size: 45 Copynumber: 2.7 Consensus size: 45
3959556 CAGTAATGAT
* *
3959566 GAAGACAAAGCAACATGGAACAACAAAGCAATAATG-AAAAAAGTG
1 GAAGACAAAGCAACATGGAACAGCAAAGCAACAA-GCAAAAAAGTG
*
3959611 GAAGACAAAGCAACATGGAACAGCAAAGCAACAAGCAAGAAAGTG
1 GAAGACAAAGCAACATGGAACAGCAAAGCAACAAGCAAAAAAGTG
*
3959656 GAAGACAAAGCAA-AGTGGAATAGCAAAGCAAC
1 GAAGACAAAGCAACA-TGGAACAGCAAAGCAAC
3959688 GAGTTGAAAA
Statistics
Matches: 71, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
44 2 0.03
45 69 0.97
ACGTcount: A:0.55, C:0.16, G:0.23, T:0.07
Consensus pattern (45 bp):
GAAGACAAAGCAACATGGAACAGCAAAGCAACAAGCAAAAAAGTG
Found at i:3959672 original size:17 final size:18
Alignment explanation
Indices: 3959650--3959686 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
3959640 AACAAGCAAG
3959650 AAAGTGGAAGA-CAAAGC
1 AAAGTGGAAGAGCAAAGC
*
3959667 AAAGTGGAATAGCAAAGC
1 AAAGTGGAAGAGCAAAGC
3959685 AA
1 AA
3959687 CGAGTTGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.54, C:0.11, G:0.27, T:0.08
Consensus pattern (18 bp):
AAAGTGGAAGAGCAAAGC
Found at i:3959843 original size:40 final size:40
Alignment explanation
Indices: 3959794--3959922 Score: 186
Period size: 40 Copynumber: 3.2 Consensus size: 40
3959784 CAGTTGCTCT
* *
3959794 AGCATCTCCCACGGCAGCCTCCAGCAGCTCAGCAACCACC
1 AGCAGCTCCCACGGCAGCCTCCAGCAGCTCAGCAACCACA
* *
3959834 AGCAGCTCCCACGGCAGCCTCTAGCAGCTCAACAACCACA
1 AGCAGCTCCCACGGCAGCCTCCAGCAGCTCAGCAACCACA
* ** *
3959874 AGTAGCTCCCACAACAGCTTCCAGCAGCTCAGCAACCACA
1 AGCAGCTCCCACGGCAGCCTCCAGCAGCTCAGCAACCACA
3959914 AGCAGCTCC
1 AGCAGCTCC
3959923 TGAGTAGCAG
Statistics
Matches: 78, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.29, C:0.43, G:0.17, T:0.11
Consensus pattern (40 bp):
AGCAGCTCCCACGGCAGCCTCCAGCAGCTCAGCAACCACA
Found at i:3959861 original size:22 final size:22
Alignment explanation
Indices: 3959794--3959863 Score: 76
Period size: 22 Copynumber: 3.4 Consensus size: 22
3959784 CAGTTGCTCT
*
3959794 AGCATCTCCCACGGCAGCCTCC
1 AGCAGCTCCCACGGCAGCCTCC
* *
3959816 AGCAGCT--CA--GCAACCACC
1 AGCAGCTCCCACGGCAGCCTCC
*
3959834 AGCAGCTCCCACGGCAGCCTCT
1 AGCAGCTCCCACGGCAGCCTCC
3959856 AGCAGCTC
1 AGCAGCTC
3959864 AACAACCACA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
18 14 0.37
20 4 0.11
22 20 0.53
ACGTcount: A:0.23, C:0.46, G:0.20, T:0.11
Consensus pattern (22 bp):
AGCAGCTCCCACGGCAGCCTCC
Found at i:3960001 original size:31 final size:30
Alignment explanation
Indices: 3959966--3960026 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
3959956 AGCTTTAGCT
*
3959966 GCTCCCACAACAACCTTCAATAGCTCCAGCA
1 GCTCCCACAACAACCTCCAATAGCT-CAGCA
* *
3959997 GCTCCCACAACATCCTCCAGTAGCTCAGCA
1 GCTCCCACAACAACCTCCAATAGCTCAGCA
3960027 ACCATCAGCT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 5 0.19
31 22 0.81
ACGTcount: A:0.30, C:0.43, G:0.11, T:0.16
Consensus pattern (30 bp):
GCTCCCACAACAACCTCCAATAGCTCAGCA
Found at i:3961504 original size:28 final size:30
Alignment explanation
Indices: 3961453--3961511 Score: 95
Period size: 28 Copynumber: 2.0 Consensus size: 30
3961443 AAAATCAGTT
3961453 TTGAAAATAAAATCGAGGTTGGAGTATCCCC
1 TTGAAAAT-AAATCGAGGTTGGAGTATCCCC
3961484 TTGAAAAT-AAT-GAGGTTGGAGTATCCCC
1 TTGAAAATAAATCGAGGTTGGAGTATCCCC
3961512 CGATTGTGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 17 0.61
29 3 0.11
31 8 0.29
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (30 bp):
TTGAAAATAAATCGAGGTTGGAGTATCCCC
Found at i:3961571 original size:80 final size:80
Alignment explanation
Indices: 3961415--3961641 Score: 239
Period size: 80 Copynumber: 2.9 Consensus size: 80
3961405 TGGAGATAAC
* * * * * *
3961415 AATGAGGCTGGAGTATCCCCGATTAT-AAAAAATC-A-G-TTTTGAAAATAAAATCGAGGTTGGA
1 AATGAGGTTGGAGTATCCCCGATTGTGGAAAAATCGATGCTTTAG-AAATAAAATAGGGGTTGGA
* ***
3961476 GTATCCCCTTGAAAAT
65 GTATCCTCGCAAAAAT
** * *
3961492 AATGAGGTTGGAGTATCCCCCGATTGTGG-AAAATCGATGCTTTAGAAATAAGGTCGGTGTTGGA
1 AATGAGGTTGGAGTAT-CCCCGATTGTGGAAAAATCGATGCTTTAGAAATAAAATAGGGGTTGGA
3961556 GTATCCTCGCAAAAAT
65 GTATCCTCGCAAAAAT
* * * *
3961572 AATGGGGTTGGAGTATCCCCGATTGTGGAAAAATTGGTGTTTTAGAAATAAAATAGGGGTTGGAG
1 AATGAGGTTGGAGTATCCCCGATTGTGGAAAAATCGATGCTTTAGAAATAAAATAGGGGTTGGAG
3961637 TATCC
66 TATCC
3961642 CCGATTGTGA
Statistics
Matches: 124, Mismatches: 20, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
77 15 0.12
78 15 0.12
79 13 0.10
80 77 0.62
81 4 0.03
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (80 bp):
AATGAGGTTGGAGTATCCCCGATTGTGGAAAAATCGATGCTTTAGAAATAAAATAGGGGTTGGAG
TATCCTCGCAAAAAT
Found at i:3961650 original size:131 final size:131
Alignment explanation
Indices: 3961497--3961735 Score: 329
Period size: 131 Copynumber: 1.8 Consensus size: 131
3961487 AAAATAATGA
* * * * *
3961497 GGTTGGAGTATCCCCCGATTGTG-GAAAATCGATGCTTTAGAAATAAGGTCGGTGTTGGAGTATC
1 GGTTGGAGTATCCCCCGATTGTGAG-AAATCAATACTTTAGAAATAAAGCCGGGGTTGGAGTATC
* * * *
3961561 CTCGCAAAAATAATGGGGTTGGAGTATCCCCGATTGTGGAAAAATTGGTGTTTTAGAAATAAAAT
65 CCCGCAAAAATAAAGGGATTGGAGTATCCCCGATTAT-GAAAAATTGGTGTTTTAGAAATAAAAT
3961626 AGG
129 AGG
*
3961629 GGTTGGAGTAT-CCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCGGGGTTGGAGTATCC
1 GGTTGGAGTATCCCCCGATTGTGAGAAATCAATACTTTAGAAATAAAGCCGGGGTTGGAGTATCC
* * *
3961693 CCTCGAAAATAAAGGGATTGGAGTATCCCTGATTATGAAAAAT
66 CCGCAAAAATAAAGGGATTGGAGTATCCCCGATTATGAAAAAT
3961736 AACACTATTT
Statistics
Matches: 93, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
130 7 0.08
131 74 0.80
132 12 0.13
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (131 bp):
GGTTGGAGTATCCCCCGATTGTGAGAAATCAATACTTTAGAAATAAAGCCGGGGTTGGAGTATCC
CCGCAAAAATAAAGGGATTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAATAG
G
Found at i:3961687 original size:51 final size:52
Alignment explanation
Indices: 3961575--3961694 Score: 161
Period size: 51 Copynumber: 2.3 Consensus size: 52
3961565 CAAAAATAAT
*** * *
3961575 GGGGTTGGAGTATCCCCGATTGTGGAAAAATTGGTGTTTTAGAAATAAAATA
1 GGGGTTGGAGTATCCCCGATTGTGGAAAAATCAATATTTTAGAAATAAAACA
* * *
3961627 GGGGTTGGAGTATCCCCGATTGT-GAGAAATCAATATTTTAGAAATAAAGCC
1 GGGGTTGGAGTATCCCCGATTGTGGAAAAATCAATATTTTAGAAATAAAACA
3961678 GGGGTTGGAGTATCCCC
1 GGGGTTGGAGTATCCCC
3961695 TCGAAAATAA
Statistics
Matches: 60, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
51 37 0.62
52 23 0.38
ACGTcount: A:0.30, C:0.12, G:0.29, T:0.28
Consensus pattern (52 bp):
GGGGTTGGAGTATCCCCGATTGTGGAAAAATCAATATTTTAGAAATAAAACA
Found at i:3967053 original size:17 final size:17
Alignment explanation
Indices: 3967027--3967062 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
3967017 GTTGGACTCA
*
3967027 ATGTAATGATACATTTC
1 ATGTAATGATACAATTC
*
3967044 ATGTATTGATACAATTC
1 ATGTAATGATACAATTC
3967061 AT
1 AT
3967063 CATTTTGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (17 bp):
ATGTAATGATACAATTC
Found at i:3975494 original size:18 final size:18
Alignment explanation
Indices: 3975473--3975511 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
3975463 CTCTCCTCCT
*
3975473 TCTATCATCCCTCCTCTC
1 TCTATCATCCCTCCTATC
* *
3975491 TCTATTATCTCTCCTATC
1 TCTATCATCCCTCCTATC
3975509 TCT
1 TCT
3975512 TCTCCTCGCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.41, G:0.00, T:0.46
Consensus pattern (18 bp):
TCTATCATCCCTCCTATC
Found at i:3975535 original size:42 final size:42
Alignment explanation
Indices: 3975468--3975586 Score: 143
Period size: 42 Copynumber: 2.8 Consensus size: 42
3975458 TTCTTCTCTC
* * *
3975468 CTCCTTCTATCATCCCTCCTCTCTCTATTATCTCTCCTATCT
1 CTCCTCCTAGCATCCCTCCTATCTCTATTATCTCTCCTATCT
* * *
3975510 CTTCTCCTCGCATCCCT-CTGATCTCTACTATCTCTCCTATCT
1 CTCCTCCTAGCATCCCTCCT-ATCTCTATTATCTCTCCTATCT
*
3975552 CTCCTCCTATCATCCCTCCTATCTCTTATT-TCTCT
1 CTCCTCCTAGCATCCCTCCTATCTC-TATTATCTCT
3975587 TTGAGGGCTA
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
41 2 0.03
42 57 0.89
43 5 0.08
ACGTcount: A:0.12, C:0.43, G:0.02, T:0.44
Consensus pattern (42 bp):
CTCCTCCTAGCATCCCTCCTATCTCTATTATCTCTCCTATCT
Found at i:3975560 original size:12 final size:12
Alignment explanation
Indices: 3975543--3975577 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
3975533 TCTACTATCT
3975543 CTCCTATCTCTC
1 CTCCTATCTCTC
3975555 CTCCTATCATC-C
1 CTCCTATC-TCTC
3975567 CTCCTATCTCT
1 CTCCTATCTCT
3975578 TATTTCTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 2 0.10
12 17 0.81
13 2 0.10
ACGTcount: A:0.11, C:0.49, G:0.00, T:0.40
Consensus pattern (12 bp):
CTCCTATCTCTC
Found at i:3977601 original size:17 final size:17
Alignment explanation
Indices: 3977581--3977624 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
3977571 TTTTTTGTGT
*
3977581 TATTTATTTAGAATATA
1 TATTTATTTAGAATAAA
*
3977598 TATTTAATTT-GAGTAAA
1 TATTT-ATTTAGAATAAA
3977615 TATTTATTTA
1 TATTTATTTA
3977625 AGGCAAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 4 0.17
17 15 0.65
18 4 0.17
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.55
Consensus pattern (17 bp):
TATTTATTTAGAATAAA
Found at i:3978143 original size:2 final size:2
Alignment explanation
Indices: 3978106--3978133 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3978096 CCTAATTACC
3978106 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3978134 GCACATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3979055 original size:20 final size:20
Alignment explanation
Indices: 3979030--3979068 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
3979020 GTTTTGAGGA
3979030 TTTGTGAGTGAAAGGATGGG
1 TTTGTGAGTGAAAGGATGGG
3979050 TTTGTGAGTGAAAGGATGG
1 TTTGTGAGTGAAAGGATGG
3979069 AGCTAAAGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.44, T:0.31
Consensus pattern (20 bp):
TTTGTGAGTGAAAGGATGGG
Found at i:3980883 original size:19 final size:19
Alignment explanation
Indices: 3980859--3980896 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
3980849 TCAAATCCTA
3980859 AAGAAATACATAATTGCCT
1 AAGAAATACATAATTGCCT
*
3980878 AAGAAATACATCATTGCCT
1 AAGAAATACATAATTGCCT
3980897 CAACATGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.18, G:0.11, T:0.26
Consensus pattern (19 bp):
AAGAAATACATAATTGCCT
Found at i:3981579 original size:20 final size:21
Alignment explanation
Indices: 3981556--3981597 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
3981546 CATCCAATGA
3981556 AAGA-GTGAATCCTACCATAG
1 AAGATGTGAATCCTACCATAG
3981576 AAGATTGTGAATCCTACCATAG
1 AAGA-TGTGAATCCTACCATAG
3981598 GGACATTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 4 0.20
22 16 0.80
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (21 bp):
AAGATGTGAATCCTACCATAG
Found at i:3999087 original size:693 final size:689
Alignment explanation
Indices: 3997766--3999145 Score: 2550
Period size: 693 Copynumber: 2.0 Consensus size: 689
3997756 ACCAATTGAT
3997766 GACAACCATGAACCAAGGTTGCCTAAATAATGATCTTGAGATGGATTTCTAACAATAAACAGAAT
1 GACAACCATGAACCAAGGTTGCCTAAATAATGATCTTGAGATGGATTTCTAACAATAAACAGAAT
* *
3997831 TATTGATGCAAGAACAGAAATTGAAAGAAGCAGAAAAAAATAACAAAATGGAATAGATTAGAGAT
66 TATTAATGCAAGAACAGAAATTGAAAGAAGAAGAAAAAAATAACAAAATGGAATAGATTAGAGAT
3997896 GAAGGATGGTGCCACAATCACAAGATTGATAAGCCAAAAAGAATGATCGCCACAAGAGTCTTGGC
131 GAAGGATGGTGCCACAATCACAAGATTGATAAGCCAAAAAGAATGATCGCCACAAGAGTCTTGGC
3997961 CTCTTGATAAGATCCAGAAAAATTGGCTCACTCAAGAACCTAAGAATCACTCTCACACAAAAATG
196 CTCTTGATAAGATCCAGAAAAATTGGCTCACTCAAGAACCTAAGAATCACTCTCACACAAAAATG
3998026 TGTTTAATCTGCAAATATGAATGTCTGCCCCCTCCAAATCTGTTTACAAGAGCTTATATATGCCC
261 TGTTTAATCTGCAAATATGAATGTCTGCCCCCTCCAAATCTGTTTACAAGAGCTTATATATGCCC
*
3998091 TCATAAGTCATAGATAACACAAACCCTAAGGGGCTTATTATGCCAACAAGCCCAACTCTTAAACC
326 TCATAAGCCATAGATAACACAAACCCTAAGGGGCTTATTATGCCAACAAGCCCAACTCTTAAACC
3998156 CAAATAACAAGTTTTTATGCTAAATAAAGCCCAAAGCAAGTCACAACCAGCAGGCCCTTTATTAC
391 CAAATAACAAGTTTTTATGCTAAATAAAGCCCAAAGCAAGTCACAACCAGCAGGCCCTTTATTAC
*
3998221 AAAATAACCCAAGTCCTAATTCAATCCATTGGAGCCCATATCTTCCAAATATATGCAATTAACTA
456 AAAATAACCCAAGTCCTAATTCAATCCATTGAAGCCCATATCTTCCAAATATATGCAATTAACTA
3998286 GCTTGGGCTCTTCTAACTCCAAATTGGGTCTACTTTCAAATAGGCCAGCAACCATCTTCTCTAGG
521 GCTTGGGCTCTTCTAACTCCAAATTGGGTCTACTTTCAAATAGGCCAGCAACCATCTTCTCTAGG
*
3998351 TCTTCCTTTATCCTCTTTGCCTTTGCCCTCGTTATTGGTCCTTGAAATCCTTCCAACGCCTTCAG
586 TCTTCCTTTATCCTCTTTGCCTTTGCCCTCATTATTGGTCCTTGAAATCCTTCCAACGCCTTCAG
3998416 GTCTTTGTCTTCAATGGACCTTCCTTGGTTTTCATCAAC
651 GTCTTTGTCTTCAATGGACCTTCCTTGGTTTTCATCAAC
*
3998455 GACAACCATGAACCAAGGTTGCCTAAATAATGATCTTGAGATGGATTTCTAACATTAAACAGAAT
1 GACAACCATGAACCAAGGTTGCCTAAATAATGATCTTGAGATGGATTTCTAACAATAAACAGAAT
3998520 TATTAATGCAAGAACAGAAATTGAAAGAAGAAG-AAAAAATAACAAAATGGAATAGATTAGAGAT
66 TATTAATGCAAGAACAGAAATTGAAAGAAGAAGAAAAAAATAACAAAATGGAATAGATTAGAGAT
* *
3998584 GAAGGATGGTGCCACAATCACAAGATTGATAAGCCAAAAGGAATGATCGCCACAAGAGTCTTGGT
131 GAAGGATGGTGCCACAATCACAAGATTGATAAGCCAAAAAGAATGATCGCCACAAGAGTCTTGGC
3998649 CTCTTGATAAGATCCAG-AAAATTGGCTCACTCAAGAACCTAAGAATCACACTCTCACACAAAAA
196 CTCTTGATAAGATCCAGAAAAATTGGCTCACTCAAGAACCTAAGAAT--CACTCTCACACAAAAA
3998713 TGTGTTTAATCTGCAAATATGAATGTCTGCCCCCTCCAAATC-GATTTACAAGAGCTTATATATG
259 TGTGTTTAATCTGCAAATATGAATGTCTGCCCCCTCCAAATCTG-TTTACAAGAGCTTATATATG
* *
3998777 CCCTCATAAGCCATAGTTAACACAAACCCTAAGGGGCTTATTATGCTAACAAGCCCAACTCTTAC
323 CCCTCATAAGCCATAGATAACACAAACCCTAAGGGGCTTATTATGCCAACAAGCCCAA--C-T-C
*
3998842 TTAAACCTAAATAACAAGTTTTTATGCTAAATAAAGCCCAAAGCAAGTCACAACCAGCAGGCCCT
384 TTAAACCCAAATAACAAGTTTTTATGCTAAATAAAGCCCAAAGCAAGTCACAACCAGCAGGCCCT
* *
3998907 TTATTACAAAATAACCCAAGTCCTAATTCAATCCGTTGAAGCCCATATCTTGCAAATATATGCAA
449 TTATTACAAAATAACCCAAGTCCTAATTCAATCCATTGAAGCCCATATCTTCCAAATATATGCAA
3998972 TTAACTAGCTTGGGCTCTTCTAACTCCAAATTGGGTCTACTTTCAAATAGGCCAGCAACCATCTT
514 TTAACTAGCTTGGGCTCTTCTAACTCCAAATTGGGTCTACTTTCAAATAGGCCAGCAACCATCTT
*
3999037 CTCTAGGTCTTCCTTTATTCTCTTTGCCTTTGCCCTCATTATTGGTCCTTGAAATCCTTCCAACG
579 CTCTAGGTCTTCCTTTATCCTCTTTGCCTTTGCCCTCATTATTGGTCCTTGAAATCCTTCCAACG
3999102 CCTTCAGGTCTTTGTCTTCAATGGACCTTCCTTGGTTTTCATCA
644 CCTTCAGGTCTTTGTCTTCAATGGACCTTCCTTGGTTTTCATCA
3999146 CATTCCCATA
Statistics
Matches: 670, Mismatches: 14, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
687 29 0.04
688 112 0.17
689 228 0.34
691 1 0.00
692 1 0.00
693 299 0.45
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (689 bp):
GACAACCATGAACCAAGGTTGCCTAAATAATGATCTTGAGATGGATTTCTAACAATAAACAGAAT
TATTAATGCAAGAACAGAAATTGAAAGAAGAAGAAAAAAATAACAAAATGGAATAGATTAGAGAT
GAAGGATGGTGCCACAATCACAAGATTGATAAGCCAAAAAGAATGATCGCCACAAGAGTCTTGGC
CTCTTGATAAGATCCAGAAAAATTGGCTCACTCAAGAACCTAAGAATCACTCTCACACAAAAATG
TGTTTAATCTGCAAATATGAATGTCTGCCCCCTCCAAATCTGTTTACAAGAGCTTATATATGCCC
TCATAAGCCATAGATAACACAAACCCTAAGGGGCTTATTATGCCAACAAGCCCAACTCTTAAACC
CAAATAACAAGTTTTTATGCTAAATAAAGCCCAAAGCAAGTCACAACCAGCAGGCCCTTTATTAC
AAAATAACCCAAGTCCTAATTCAATCCATTGAAGCCCATATCTTCCAAATATATGCAATTAACTA
GCTTGGGCTCTTCTAACTCCAAATTGGGTCTACTTTCAAATAGGCCAGCAACCATCTTCTCTAGG
TCTTCCTTTATCCTCTTTGCCTTTGCCCTCATTATTGGTCCTTGAAATCCTTCCAACGCCTTCAG
GTCTTTGTCTTCAATGGACCTTCCTTGGTTTTCATCAAC
Done.