Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 173 of 221
Found at i:51690495 original size:20 final size:20
Alignment explanation
Indices: 51690470--51690513 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
51690460 TCCTTAGTAG
51690470 AAGAAACAGTAAAACAAGAT
1 AAGAAACAGTAAAACAAGAT
*
51690490 AAGAAAGAGTAAAACAAGAT
1 AAGAAACAGTAAAACAAGAT
51690510 AAGA
1 AAGA
51690514 GTACGCCTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.66, C:0.07, G:0.18, T:0.09
Consensus pattern (20 bp):
AAGAAACAGTAAAACAAGAT
Found at i:51691279 original size:13 final size:13
Alignment explanation
Indices: 51691261--51691285 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51691251 ATTTCTCGTA
51691261 ATTTATTTATTTG
1 ATTTATTTATTTG
51691274 ATTTATTTATTT
1 ATTTATTTATTT
51691286 TATTATTACT
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:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
ATTTATTTATTTG
Found at i:51695397 original size:22 final size:22
Alignment explanation
Indices: 51695364--51695406 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
51695354 TGCTTTTAAT
*
51695364 TTTTTTATTATTAGACTAGTAAG
1 TTTTTTATTATTAAACT-GTAAG
51695387 TTTTTTA-TATTAAACTGTAA
1 TTTTTTATTATTAAACTGTAA
51695407 ATAGGCATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 8 0.42
23 7 0.37
ACGTcount: A:0.33, C:0.05, G:0.09, T:0.53
Consensus pattern (22 bp):
TTTTTTATTATTAAACTGTAAG
Found at i:51703568 original size:184 final size:184
Alignment explanation
Indices: 51703254--51703788 Score: 739
Period size: 184 Copynumber: 2.9 Consensus size: 184
51703244 TACCTTGTTG
* * * * * *
51703254 AAATTAAATTGTACATGGTTATATATTTTCGATATTGAATTCTTTATGTATATAGGATGCCGAAT
1 AAATTAATTTGTACTTGGTTATATATTGTCGATAGTGAATTCTTTATGAATATAGGATGTCGAAT
* * * * * * *
51703319 TGGATTTGTATTTGATTATACATTATCGAACTTGATTTGTGTATGGTTATACATTGCCGAATTGT
66 TTGATTTGTGTATGATTATATATTGTCGATCTTGATTCGTGTATGGTTATACATTGCCGAATTGT
*
51703384 TTGTTATATGGATATAAGTTGCTGAATTGATTCGTACAAGGTTGTACATTACTA
131 TTGATATATGGATATAAGTTGCTGAATTGATTCGTACAAGGTTGTACATTACTA
* *
51703438 AAATTAATTTGTACTTGGTTATATATTGCCGATAGTGAATTGTTTATGAATATAGGATGTCGAAT
1 AAATTAATTTGTACTTGGTTATATATTGTCGATAGTGAATTCTTTATGAATATAGGATGTCGAAT
* * *
51703503 TTAATTTGTGTATGATTATATATTGTCGATCTTGATTCGTTTATGGTTATACATTGCCAAATTGT
66 TTGATTTGTGTATGATTATATATTGTCGATCTTGATTCGTGTATGGTTATACATTGCCGAATTGT
* * *
51703568 TTGGTATATGGATATAAGTTGCTGACTTGATTCGTACAAGGTTGTACATTACTG
131 TTGATATATGGATATAAGTTGCTGAATTGATTCGTACAAGGTTGTACATTACTA
* * *
51703622 AAATTAATTCGTACTTGGTTATATATTGTTGATAGTGAATTTTTTATGAATATAGGATGTCGAAT
1 AAATTAATTTGTACTTGGTTATATATTGTCGATAGTGAATTCTTTATGAATATAGGATGTCGAAT
* * * * *
51703687 TTGATTTGTGTATGATTATATATTGCCGATCTTGATTCATGAATGGTTATACAGTACCGAATTGT
66 TTGATTTGTGTATGATTATATATTGTCGATCTTGATTCGTGTATGGTTATACATTGCCGAATTGT
* * * *
51703752 TGGATATATTGATATTCA-TTGCTAAATTGGATTCGTA
131 TTGATATATGGATA-TAAGTTGCTGAATT-GATTCGTA
51703789 TATTAATATA
Statistics
Matches: 310, Mismatches: 39, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
184 300 0.97
185 10 0.03
ACGTcount: A:0.29, C:0.08, G:0.19, T:0.44
Consensus pattern (184 bp):
AAATTAATTTGTACTTGGTTATATATTGTCGATAGTGAATTCTTTATGAATATAGGATGTCGAAT
TTGATTTGTGTATGATTATATATTGTCGATCTTGATTCGTGTATGGTTATACATTGCCGAATTGT
TTGATATATGGATATAAGTTGCTGAATTGATTCGTACAAGGTTGTACATTACTA
Found at i:51703644 original size:91 final size:91
Alignment explanation
Indices: 51703362--51703649 Score: 251
Period size: 91 Copynumber: 3.1 Consensus size: 91
51703352 GATTTGTGTA
* *
51703362 TGGTTATACATTGCCGAATTGTTTGTTATATGGATATAAGTTGCTGAATTGATTCGTACAAGGTT
1 TGGTTATACATTGCCAAATTGTTTGGTATATGGATATAAGTTGCTGAATTGATTCGTACAAGGTT
* *
51703427 GTACATTACTAAAATTAATTTGTACT
66 GTACATTACTGAAATTAATTCGTACT
* * * * * * * * * * ** *
51703453 TGGTTATATATTGCCGATAGTGAATT-GTTTATGAATATAGGATG-TCGAATTTAATTTGTGTAT
1 TGGTTATACATTGCC-AAATTG-TTTGGTATATGGATATAAGTTGCT-GAA-TTGATTCGTACAA
* * * * ** * *
51703516 GATTATATATT-GTCGATCTTGATTCGT-TT
62 GGTTGTACATTACT-GAAATTAATTCGTACT
*
51703545 ATGGTTATACATTGCCAAATTGTTTGGTATATGGATATAAGTTGCTGACTTGATTCGTACAAGGT
1 -TGGTTATACATTGCCAAATTGTTTGGTATATGGATATAAGTTGCTGAATTGATTCGTACAAGGT
51703610 TGTACATTACTGAAATTAATTCGTACT
65 TGTACATTACTGAAATTAATTCGTACT
*
51703637 TGGTTATATATTG
1 TGGTTATACATTG
51703650 TTGATAGTGA
Statistics
Matches: 139, Mismatches: 48, Indels: 20
0.67 0.23 0.10
Matches are distributed among these distances:
91 55 0.40
92 43 0.31
93 41 0.29
ACGTcount: A:0.28, C:0.09, G:0.20, T:0.43
Consensus pattern (91 bp):
TGGTTATACATTGCCAAATTGTTTGGTATATGGATATAAGTTGCTGAATTGATTCGTACAAGGTT
GTACATTACTGAAATTAATTCGTACT
Found at i:51706708 original size:26 final size:26
Alignment explanation
Indices: 51706652--51706711 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
51706642 AAAGCTCTGG
* *
51706652 AGAGCCATTAATCAGGAAGCTCATAA
1 AGAGCCATTAATCAGGAAGCCCACAA
* * *
51706678 GGAGCCTTTAATCGGGAAGCCCACAA
1 AGAGCCATTAATCAGGAAGCCCACAA
51706704 AGAGCCAT
1 AGAGCCAT
51706712 ATAACGGGAC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
AGAGCCATTAATCAGGAAGCCCACAA
Found at i:51711804 original size:8 final size:8
Alignment explanation
Indices: 51711791--51711815 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
51711781 ATATTTGATA
51711791 TATTTTAT
1 TATTTTAT
51711799 TATTTTAT
1 TATTTTAT
51711807 TATTTTAT
1 TATTTTAT
51711815 T
1 T
51711816 TCTCGTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:51711827 original size:22 final size:23
Alignment explanation
Indices: 51711798--51711855 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
51711788 ATATATTTTA
*
51711798 TTATTTTATTATTTTATTTCTCG
1 TTATTTTATTATTTTATTTATCG
*
51711821 TTA-TTTATT-TATTTATTTATCT
1 TTATTTTATTAT-TTTATTTATCG
51711843 TTATTTTATTATT
1 TTATTTTATTATT
51711856 ACTATTGGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
21 1 0.03
22 18 0.60
23 10 0.33
24 1 0.03
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.72
Consensus pattern (23 bp):
TTATTTTATTATTTTATTTATCG
Found at i:51714639 original size:27 final size:27
Alignment explanation
Indices: 51714609--51714663 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
51714599 ATGGACTAAG
51714609 TTGTAATGTTAAGTAAATTAAAGGTTA
1 TTGTAATGTTAAGTAAATTAAAGGTTA
51714636 TTGTAATGTTAAGTAAATTAAAGGTTA
1 TTGTAATGTTAAGTAAATTAAAGGTTA
51714663 T
1 T
51714664 GTTTGAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.18, T:0.42
Consensus pattern (27 bp):
TTGTAATGTTAAGTAAATTAAAGGTTA
Found at i:51715380 original size:15 final size:16
Alignment explanation
Indices: 51715360--51715391 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
51715350 ATAATTTGAT
51715360 AATTAAACAAAA-AAA
1 AATTAAACAAAACAAA
51715375 AATTAAACAAAACAAA
1 AATTAAACAAAACAAA
51715391 A
1 A
51715392 GCCTAATTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.78, C:0.09, G:0.00, T:0.12
Consensus pattern (16 bp):
AATTAAACAAAACAAA
Found at i:51716208 original size:45 final size:45
Alignment explanation
Indices: 51716156--51716269 Score: 131
Period size: 45 Copynumber: 2.5 Consensus size: 45
51716146 TGGTTGAAAT
* * *
51716156 ACGAGTAAGACCATGGTCGAAAGACGTTATGGCATCATGAATCAA
1 ACGAGTAAGACCATAGTCGAAAGACGCTATGGCATCACGAATCAA
* * * *
51716201 ACGAGTAAAACCATAGTTGAAAGACGCTATGGCATCACGATTTAA
1 ACGAGTAAGACCATAGTCGAAAGACGCTATGGCATCACGAATCAA
* *
51716246 ACGTGTAAGATCATATGT-GAAAGA
1 ACGAGTAAGACCATA-GTCGAAAGA
51716270 AACTATGGAA
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
45 56 0.97
46 2 0.03
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.22
Consensus pattern (45 bp):
ACGAGTAAGACCATAGTCGAAAGACGCTATGGCATCACGAATCAA
Found at i:51716342 original size:35 final size:35
Alignment explanation
Indices: 51716289--51716355 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
51716279 AACATGATGG
* *
51716289 AAATGAATAAGACCATAGTAT-AAAGGCACTATAGA
1 AAATGAATAAGACAATAGT-TGAAAGACACTATAGA
* *
51716324 AAATGAGTAAGATAATAGTTGAAAGACACTAT
1 AAATGAATAAGACAATAGTTGAAAGACACTAT
51716356 GGCATCAAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 1 0.04
35 26 0.96
ACGTcount: A:0.51, C:0.09, G:0.18, T:0.22
Consensus pattern (35 bp):
AAATGAATAAGACAATAGTTGAAAGACACTATAGA
Found at i:51717865 original size:28 final size:28
Alignment explanation
Indices: 51717825--51717891 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
51717815 TGAATATTTC
* *
51717825 AAATGTTTATATGAATCAACTATGTGAA
1 AAATGATTATATGAATCAACTATATGAA
* * *
51717853 AAATGATTATATGAATCGATTATATGGA
1 AAATGATTATATGAATCAACTATATGAA
51717881 AAATGATTATA
1 AAATGATTATA
51717892 AAAAATGATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.45, C:0.04, G:0.15, T:0.36
Consensus pattern (28 bp):
AAATGATTATATGAATCAACTATATGAA
Found at i:51717875 original size:13 final size:12
Alignment explanation
Indices: 51717854--51717961 Score: 83
Period size: 13 Copynumber: 8.2 Consensus size: 12
51717844 CTATGTGAAA
51717854 AATGATTATATG
1 AATGATTATATG
51717866 AATCGATTATATGG
1 AAT-GATTATAT-G
**
51717880 AAAATGATTATAAAA
1 --AATGATTAT-ATG
51717895 AATGATTATATG
1 AATGATTATATG
51717907 AATTGATTATATGG
1 AA-TGATTATAT-G
51717921 AAATAGA-TATATGG
1 -AAT-GATTATAT-G
51717935 AATGATTATATG
1 AATGATTATATG
*
51717947 AATTGGTTATATG
1 AA-TGATTATATG
51717960 AA
1 AA
51717962 AATAGTTAGA
Statistics
Matches: 80, Mismatches: 5, Indels: 21
0.75 0.05 0.20
Matches are distributed among these distances:
12 11 0.14
13 45 0.56
14 10 0.12
15 10 0.12
16 4 0.05
ACGTcount: A:0.44, C:0.01, G:0.18, T:0.37
Consensus pattern (12 bp):
AATGATTATATG
Found at i:51717901 original size:28 final size:28
Alignment explanation
Indices: 51717852--51717906 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
51717842 AACTATGTGA
**
51717852 AAAATGATTATATGAATCGATTATATGG
1 AAAATGATTATAAAAATCGATTATATGG
51717880 AAAATGATTATAAAAAAT-GATTATATG
1 AAAATGATTAT-AAAAATCGATTATATG
51717907 AATTGATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 20 0.83
29 4 0.17
ACGTcount: A:0.49, C:0.02, G:0.15, T:0.35
Consensus pattern (28 bp):
AAAATGATTATAAAAATCGATTATATGG
Found at i:51717950 original size:40 final size:41
Alignment explanation
Indices: 51717851--51717966 Score: 155
Period size: 40 Copynumber: 2.9 Consensus size: 41
51717841 CAACTATGTG
*
51717851 AAAAATGATTATATGAATCGATTATATGGAAA-ATGATTATA
1 AAAAATGATTATATGAATTGATTATATGGAAATA-GATTATA
51717892 AAAAATGATTATATGAATTGATTATATGGAAATAGA-TATA
1 AAAAATGATTATATGAATTGATTATATGGAAATAGATTATA
*** * *
51717932 TGGAATGATTATATGAATTGGTTATATGAAAATAG
1 AAAAATGATTATATGAATTGATTATATGGAAATAG
51717967 TTAGATGAAT
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
40 34 0.50
41 33 0.49
42 1 0.01
ACGTcount: A:0.47, C:0.01, G:0.17, T:0.35
Consensus pattern (41 bp):
AAAAATGATTATATGAATTGATTATATGGAAATAGATTATA
Found at i:51718789 original size:20 final size:20
Alignment explanation
Indices: 51718764--51718808 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
51718754 TTTGGCATGT
51718764 TTTAATGTGTTAAGGATAGG
1 TTTAATGTGTTAAGGATAGG
**
51718784 TTTAATGTGTTTTGGATAGG
1 TTTAATGTGTTAAGGATAGG
51718804 TTTAA
1 TTTAA
51718809 AGGGTGATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.47
Consensus pattern (20 bp):
TTTAATGTGTTAAGGATAGG
Found at i:51719761 original size:12 final size:12
Alignment explanation
Indices: 51719746--51719775 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
51719736 AAAAAGAAGC
*
51719746 AAAAAAGCGCAA
1 AAAAAACCGCAA
51719758 AAAAAACCGCAA
1 AAAAAACCGCAA
51719770 AAAAAA
1 AAAAAA
51719776 AAGTTGCCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.73, C:0.17, G:0.10, T:0.00
Consensus pattern (12 bp):
AAAAAACCGCAA
Found at i:51726116 original size:21 final size:21
Alignment explanation
Indices: 51726086--51726127 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
51726076 ATGGTTATGC
* *
51726086 GGCTATTCCACACACCCGTGT
1 GGCTACTCCAAACACCCGTGT
*
51726107 GGCTACTCCAAACACCTGTGT
1 GGCTACTCCAAACACCCGTGT
51726128 TCTCAGACCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (21 bp):
GGCTACTCCAAACACCCGTGT
Found at i:51727236 original size:41 final size:41
Alignment explanation
Indices: 51727188--51727308 Score: 143
Period size: 41 Copynumber: 3.0 Consensus size: 41
51727178 TGATACAGTT
*
51727188 CACCGGCACGAAGCTTGCTAGGCTCAAAGCCTGATATAATA
1 CACCGGCACGAAGCCTGCTAGGCTCAAAGCCTGATATAATA
* * * * * *
51727229 CAGCGGCACAAAGCCTGCTAGGCTCAAGGCTTGATGTAATT
1 CACCGGCACGAAGCCTGCTAGGCTCAAAGCCTGATATAATA
* * * *
51727270 CACCGGCATGAAACCTGTTAGGCTCAGAGCCTGATATAA
1 CACCGGCACGAAGCCTGCTAGGCTCAAAGCCTGATATAA
51727309 ATCACCGACA
Statistics
Matches: 64, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
41 64 1.00
ACGTcount: A:0.30, C:0.26, G:0.24, T:0.21
Consensus pattern (41 bp):
CACCGGCACGAAGCCTGCTAGGCTCAAAGCCTGATATAATA
Found at i:51727314 original size:41 final size:41
Alignment explanation
Indices: 51727187--51727327 Score: 130
Period size: 41 Copynumber: 3.5 Consensus size: 41
51727177 ATGATACAGT
* *
51727187 TCACCGGCACG-AAGCTTGCTAGGCTCAAAGCCTGATAT-AA
1 TCACCGGCATGAAAGCCTGCTAGGCTC-AAGCCTGATATAAA
* * * * *
51727227 TACAGCGGCA-CAAAGCCTGCTAGGCTCAAGGCTTGATGTAAT
1 T-CACCGGCATGAAAGCCTGCTAGGCTCAA-GCCTGATATAAA
*
51727269 TCACCGGCATGAAA-CCTGTTAGGCTCAGAGCCTGATATAAA
1 TCACCGGCATGAAAGCCTGCTAGGCTCA-AGCCTGATATAAA
*
51727310 TCACCGACAT-AAAGCCTG
1 TCACCGGCATGAAAGCCTG
51727328 TTGAACTCAA
Statistics
Matches: 81, Mismatches: 13, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
40 6 0.07
41 69 0.85
42 6 0.07
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.21
Consensus pattern (41 bp):
TCACCGGCATGAAAGCCTGCTAGGCTCAAGCCTGATATAAA
Found at i:51727337 original size:82 final size:82
Alignment explanation
Indices: 51727186--51727340 Score: 188
Period size: 82 Copynumber: 1.9 Consensus size: 82
51727176 CATGATACAG
* * * * *
51727186 TTCACCGGCACGAAGCTTGCTAGGCTCAAAGCCTGATATAATACAGCGGCACAAAGCCTGCTAGG
1 TTCACCGGCACGAAACCTGCTAGGCTCAAAGCCTGATATAATACACCGACACAAAGCCTGCTAGA
51727251 CTCAAGGCTTGATGTAA
66 CTCAAGGCTTGATGTAA
* * * * *
51727268 TTCACCGGCATGAAACCTGTTAGGCTCAGAGCCTGATATAA-ATCACCGACATAAAGCCTG-TTG
1 TTCACCGGCACGAAACCTGCTAGGCTCAAAGCCTGATATAATA-CACCGACACAAAGCCTGCTAG
51727331 AACTCAAGGC
65 -ACTCAAGGC
51727341 CCGATTCATT
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
81 3 0.05
82 58 0.95
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.21
Consensus pattern (82 bp):
TTCACCGGCACGAAACCTGCTAGGCTCAAAGCCTGATATAATACACCGACACAAAGCCTGCTAGA
CTCAAGGCTTGATGTAA
Found at i:51732070 original size:23 final size:23
Alignment explanation
Indices: 51732044--51732104 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
51732034 AAAAGAGTTA
51732044 CAGAATATGTCTC-CAA-GGCATTG
1 CAGAATATG-C-CACAAGGGCATTG
*
51732067 CAGAATATGCCACAAGGGCATTT
1 CAGAATATGCCACAAGGGCATTG
*
51732090 CAGAATATACCACAA
1 CAGAATATGCCACAA
51732105 AAACTTCATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 1 0.03
22 4 0.12
23 29 0.85
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.21
Consensus pattern (23 bp):
CAGAATATGCCACAAGGGCATTG
Found at i:51733489 original size:25 final size:25
Alignment explanation
Indices: 51733435--51733489 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
51733425 AAACATTAAA
*
51733435 TTTAATTTAACATTAAGATAATGAC
1 TTTAATTTAACATTAAGAAAATGAC
*
51733460 TTTAATATTAA-ATTAATAAAAT-AC
1 TTTAAT-TTAACATTAAGAAAATGAC
51733484 TATTAA
1 T-TTAA
51733490 GATAAGTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 3 0.12
25 19 0.73
26 4 0.15
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.42
Consensus pattern (25 bp):
TTTAATTTAACATTAAGAAAATGAC
Found at i:51733523 original size:37 final size:37
Alignment explanation
Indices: 51733429--51733536 Score: 111
Period size: 37 Copynumber: 2.9 Consensus size: 37
51733419 TAAGATAAAC
51733429 ATTAAATTTAAT-TT-AAC-ATTAAGATAATGACTTTAAT
1 ATTAAATTTAATATTAAACTATTAAGATAAT-A--TTAAT
*
51733466 ATTAAA-TTAATA-AAATACTATTAAGATAAGTATTAA-
1 ATTAAATTTAATATTAA-ACTATTAAGATAA-TATTAAT
*
51733502 ATTAAATTTAATATTAAACTATTAAAATAATATTA
1 ATTAAATTTAATATTAAACTATTAAGATAATATTA
51733537 TTTTTGAAAT
Statistics
Matches: 61, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
36 16 0.26
37 29 0.48
38 4 0.07
39 11 0.18
40 1 0.02
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.41
Consensus pattern (37 bp):
ATTAAATTTAATATTAAACTATTAAGATAATATTAAT
Found at i:51740984 original size:25 final size:24
Alignment explanation
Indices: 51740949--51741000 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 24
51740939 CATACCGCAA
51740949 CTCTTTATGAGCATCCTGATATAGG
1 CTCTTTATGAGCATCCTGATAT-GG
* *
51740974 CTCTTTGTGAGCTTCCTGATATGG
1 CTCTTTATGAGCATCCTGATATGG
51740998 CTC
1 CTC
51741001 ACTTGAACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.38
Consensus pattern (24 bp):
CTCTTTATGAGCATCCTGATATGG
Found at i:51741386 original size:17 final size:17
Alignment explanation
Indices: 51741330--51741387 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
51741320 AAGATGATTT
*
51741330 TTTATGGAAATGCATATG
1 TTTAT-GAAAAGCATATG
51741348 TTATATG-AAA--ATATG
1 TT-TATGAAAAGCATATG
*
51741363 -ATATGAAAAGCATATG
1 TTTATGAAAAGCATATG
51741379 TTTATGAAA
1 TTTATGAAA
51741388 GTTATTACAT
Statistics
Matches: 32, Mismatches: 3, Indels: 11
0.70 0.07 0.24
Matches are distributed among these distances:
13 4 0.12
14 3 0.09
15 5 0.16
16 5 0.16
17 9 0.28
18 3 0.09
19 3 0.09
ACGTcount: A:0.43, C:0.03, G:0.17, T:0.36
Consensus pattern (17 bp):
TTTATGAAAAGCATATG
Found at i:51755449 original size:5 final size:5
Alignment explanation
Indices: 51755439--51755464 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
51755429 CGTCTTTCAC
51755439 TTTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA T
51755465 ATCAGTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:51756252 original size:45 final size:45
Alignment explanation
Indices: 51756171--51756503 Score: 196
Period size: 44 Copynumber: 7.6 Consensus size: 45
51756161 TTCTAATCCA
* * * *
51756171 CTCCACTACAACTTT-AGGGAGATAGGA-TTTCTTTATTTAGTCTG
1 CTCCACTGCAA-TTTCAGGGAGATAAGACTTGCTTTATTGAGTCTG
* *
51756215 CCCCACTGCAATTTCAGGGGGATAAGACTTGCTTTATTGAGTCTG
1 CTCCACTGCAATTTCAGGGAGATAAGACTTGCTTTATTGAGTCTG
* * * * * *
51756260 CTCCACTGCAACTTCAGGGAGATAAGACTCGTTTTCTTGGGTCTA
1 CTCCACTGCAATTTCAGGGAGATAAGACTTGCTTTATTGAGTCTG
* * *
51756305 CTCCACTGCAACTTT-AGGGAGATAAGACCTGC-TTATTCAGTCTA
1 CTCCACTGCAA-TTTCAGGGAGATAAGACTTGCTTTATTGAGTCTG
* * * * ** * *
51756349 CTCCTCTACAACTTCAGAGAGATAAGACCAG--ATA-CGA-TCTG
1 CTCCACTGCAATTTCAGGGAGATAAGACTTGCTTTATTGAGTCTG
* * * *
51756390 CT-CTCTGCAACTTT-AGAGAGATAAGATCTGTG-ATT-TT-AATCTG
1 CTCCACTGCAA-TTTCAGGGAGATAAGA-CT-TGCTTTATTGAGTCTG
* * * *
51756433 CTCCAGTGCAACTTCAGGGAGATAGGATTATTGGCTTTA---A-TCTG
1 CTCCACTGCAATTTCAGGGAGATAAGA--CTT-GCTTTATTGAGTCTG
51756477 CTCCACTGCAATTTCAGGGAGATAAGA
1 CTCCACTGCAATTTCAGGGAGATAAGA
51756504 TTCGCCATCT
Statistics
Matches: 227, Mismatches: 46, Indels: 32
0.74 0.15 0.10
Matches are distributed among these distances:
40 19 0.08
41 8 0.04
42 3 0.01
43 16 0.07
44 96 0.42
45 81 0.36
46 4 0.02
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (45 bp):
CTCCACTGCAATTTCAGGGAGATAAGACTTGCTTTATTGAGTCTG
Found at i:51756279 original size:89 final size:89
Alignment explanation
Indices: 51756170--51756376 Score: 233
Period size: 89 Copynumber: 2.3 Consensus size: 89
51756160 ATTCTAATCC
* * * *
51756170 ACTCCACTACAACTTTAGGGAGATAGGATTTC-TTTAT-TT-AGTCTGCCCCACTGCAA-TTTCA
1 ACTCCACTACAACTTCAGGGAGATAAGA-CTCGTTT-TCTTGAGTCTACCCCACTGCAACTTT-A
* * *
51756231 GGGGGATAAGACTTGCTTTATTGAGTCT
63 GGGAGATAAGACCTGC-TTATTCAGTCT
* * * *
51756259 GCTCCACTGCAACTTCAGGGAGATAAGACTCGTTTTCTTGGGTCTACTCCACTGCAACTTTAGGG
1 ACTCCACTACAACTTCAGGGAGATAAGACTCGTTTTCTTGAGTCTACCCCACTGCAACTTTAGGG
51756324 AGATAAGACCTGCTTATTCAGTCT
66 AGATAAGACCTGCTTATTCAGTCT
* *
51756348 ACTCCTCTACAACTTCAGAGAGATAAGAC
1 ACTCCACTACAACTTCAGGGAGATAAGAC
51756377 CAGATACGAT
Statistics
Matches: 99, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
88 3 0.03
89 64 0.65
90 29 0.29
91 3 0.03
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (89 bp):
ACTCCACTACAACTTCAGGGAGATAAGACTCGTTTTCTTGAGTCTACCCCACTGCAACTTTAGGG
AGATAAGACCTGCTTATTCAGTCT
Found at i:51756371 original size:44 final size:44
Alignment explanation
Indices: 51756170--51756377 Score: 186
Period size: 45 Copynumber: 4.7 Consensus size: 44
51756160 ATTCTAATCC
* * * * * *
51756170 ACTCCACTACAACTTTAGGGAGATAGGA-TTTCTTTATTTAGTCT
1 ACTCCACTGCAACTTCAGGGAGATAAGACCTGC-TTATTGAGTCT
* * * * *
51756214 GCCCCACTGCAATTTCAGGGGGATAAGACTTGCTTTATTGAGTCT
1 ACTCCACTGCAACTTCAGGGAGATAAGACCTGC-TTATTGAGTCT
* * * *
51756259 GCTCCACTGCAACTTCAGGGAGATAAGA-CTCGTTTTCTTGGGTCT
1 ACTCCACTGCAACTTCAGGGAGATAAGACCT-G-CTTATTGAGTCT
* *
51756304 ACTCCACTGCAACTTTAGGGAGATAAGACCTGCTTATTCAGTCT
1 ACTCCACTGCAACTTCAGGGAGATAAGACCTGCTTATTGAGTCT
* * *
51756348 ACTCCTCTACAACTTCAGAGAGATAAGACC
1 ACTCCACTGCAACTTCAGGGAGATAAGACC
51756378 AGATACGATC
Statistics
Matches: 134, Mismatches: 26, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
44 56 0.42
45 76 0.57
46 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.31
Consensus pattern (44 bp):
ACTCCACTGCAACTTCAGGGAGATAAGACCTGCTTATTGAGTCT
Found at i:51756640 original size:50 final size:50
Alignment explanation
Indices: 51756545--51756648 Score: 111
Period size: 50 Copynumber: 2.1 Consensus size: 50
51756535 TTGGGGAAAC
* *
51756545 AAGATTCGCCGTCGTAGATTCAACCTGTTCCACTACACCGCCAGGG-GAGT
1 AAGATTCACCGTCGTAGATTCAACCTGCTCCACTACACCGCCAGGGAGA-T
* * * * * **
51756595 AAGATTCACCGTCGTGGTTTCAATCTGCTCCACTATAGCTTCAGGGAGAT
1 AAGATTCACCGTCGTAGATTCAACCTGCTCCACTACACCGCCAGGGAGAT
51756645 AAGA
1 AAGA
51756649 CTAGATGTGA
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
50 42 0.95
51 2 0.05
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (50 bp):
AAGATTCACCGTCGTAGATTCAACCTGCTCCACTACACCGCCAGGGAGAT
Found at i:51756719 original size:44 final size:43
Alignment explanation
Indices: 51756662--51756778 Score: 121
Period size: 44 Copynumber: 2.7 Consensus size: 43
51756652 GATGTGATCT
* * *
51756662 GCTCT-CTACAACTTCAGAGAGATAAGATCTGTGAT-TTTAATCC
1 GCTCTACTACAACTTCAGGGAGATAAGAT-TAT-ATCTTAAATCC
* * *
51756705 GCTCTACTACAACTTTAGGGAGATAGGATTATATGCTTAAATCT
1 GCTCTACTACAACTTCAGGGAGATAAGATTATAT-CTTAAATCC
* *
51756749 GCTCCACTGCAACTTCAGGGAGATAAGATT
1 GCTCTACTACAACTTCAGGGAGATAAGATT
51756779 CGCCATTTTG
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
42 2 0.03
43 7 0.11
44 52 0.85
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.31
Consensus pattern (43 bp):
GCTCTACTACAACTTCAGGGAGATAAGATTATATCTTAAATCC
Found at i:51756853 original size:44 final size:45
Alignment explanation
Indices: 51756746--51756863 Score: 152
Period size: 44 Copynumber: 2.6 Consensus size: 45
51756736 TATGCTTAAA
* * **
51756746 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATTTTGGG
1 TCTGCTCCACTGCAACTTCAGGGGGATAAGACTCGCCATTTTCAG
*
51756791 TCTGCCCCACTGCAACTTCAGGGGGATAAGAC-CTG-C-TTATTCAG
1 TCTGCTCCACTGCAACTTCAGGGGGATAAGACTC-GCCATT-TTCAG
51756835 TCTGCTCCACTGCAACTTCAGGGGGATAA
1 TCTGCTCCACTGCAACTTCAGGGGGATAA
51756864 AACTAGATGT
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
43 2 0.03
44 33 0.51
45 30 0.46
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (45 bp):
TCTGCTCCACTGCAACTTCAGGGGGATAAGACTCGCCATTTTCAG
Found at i:51756988 original size:88 final size:88
Alignment explanation
Indices: 51756871--51757444 Score: 779
Period size: 88 Copynumber: 6.5 Consensus size: 88
51756861 TAAAACTAGA
* *
51756871 TGTCTTCGATCTGCTTCACTATCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCACT
1 TGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCACT
**
51756936 GCAACCCAGGGAGGCAAAACTGG
66 GCAACCCAGGGAGGCAAGGCTGG
* * *
51756959 TGTTTTCGATCTGTTTCGCTGTTGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCACT
1 TGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCACT
* *
51757024 GCAACCCAGGGAGGTAATGCTGG
66 GCAACCCAGGGAGGCAAGGCTGG
* * * * *
51757047 TGTCTTTGATCTGCTTCGCTTTCGGTGTAGGAATGCAAGATCTACTATTTTTAGCCTGCTCCACT
1 TGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCACT
* *
51757112 ACAACCCAGTGAGGCAAGGCTGG
66 GCAACCCAGGGAGGCAAGGCTGG
* * * * * *
51757135 TGTCTTCGATTTGCTTCACTGTCGGTGTAGGAAAGCAAGATCTGCTATTTTTAACCTACTCCACT
1 TGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCACT
*
51757200 GCAACCCAGGGAGGCAAGGTTGG
66 GCAACCCAGGGAGGCAAGGCTGG
* * * * *
51757223 TATCTTCAATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTCTTTTTAGCCTGCTCCGCT
1 TGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCACT
*
51757288 GCAACCCAGGAAGGCAAGGCTGG
66 GCAACCCAGGGAGGCAAGGCTGG
* * * * * *
51757311 TGTCTTCGATCTGCTTCACTGTCGGTGTAGGAAGGCAAGATCTGCTATTTCTAACCTGTTCCGCT
1 TGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCACT
** *
51757376 GCAACCCAATGAGGCAAGGCTTG
66 GCAACCCAGGGAGGCAAGGCTGG
* * *
51757399 TGTCTTCGATCTGCTTCGCTGTCAGTGCAGAAAGGTAAGATCTGCT
1 TGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCT
51757445 CTCTTCACTG
Statistics
Matches: 424, Mismatches: 62, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
88 424 1.00
ACGTcount: A:0.21, C:0.24, G:0.26, T:0.29
Consensus pattern (88 bp):
TGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCACT
GCAACCCAGGGAGGCAAGGCTGG
Found at i:51757298 original size:44 final size:44
Alignment explanation
Indices: 51757163--51757305 Score: 135
Period size: 44 Copynumber: 3.2 Consensus size: 44
51757153 CTGTCGGTGT
* * *
51757163 AGGAAAGCAAGATCTGCTATTTTTAACCTACTCCACTGCAACCC
1 AGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCC
* * * * * * * ***
51757207 AGGGAGGCAAGGT-TGGTATCTTCAATCTGCTTCGCTGTCAGTGC
1 AGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTG-CAACCC
* *
51757251 AGGAAGGCAAGATCTGCTCTTTTTAGCCTGCTCCGCTGCAACCC
1 AGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCC
51757295 AGGAAGGCAAG
1 AGGAAGGCAAG
51757306 GCTGGTGTCT
Statistics
Matches: 72, Mismatches: 25, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
43 17 0.24
44 38 0.53
45 17 0.24
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.24
Consensus pattern (44 bp):
AGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCC
Found at i:51794645 original size:20 final size:18
Alignment explanation
Indices: 51794599--51794646 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 18
51794589 ATTATTTTTT
51794599 TAATTTTTTTAAAAAAAGTA
1 TAATTTTTTTAAAAAAA--A
* *
51794619 TACTTTTATTAAAAATAAA
1 TAATTTTTTTAAAAA-AAA
51794638 TAATTTTTT
1 TAATTTTTT
51794647 ATGAAAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 8 0.35
20 13 0.57
21 2 0.09
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (18 bp):
TAATTTTTTTAAAAAAAA
Found at i:51795237 original size:18 final size:19
Alignment explanation
Indices: 51795205--51795248 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
51795195 TTTTTATGTG
* * *
51795205 ATACAAATCACATAATAT-
1 ATACAAATAAAATAAAATA
51795223 ATACAAATAAAATAAAATA
1 ATACAAATAAAATAAAATA
51795242 ATACAAA
1 ATACAAA
51795249 CTTTAAGTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.23
Consensus pattern (19 bp):
ATACAAATAAAATAAAATA
Found at i:51799926 original size:11 final size:11
Alignment explanation
Indices: 51799886--51799926 Score: 50
Period size: 12 Copynumber: 3.8 Consensus size: 11
51799876 AAAAGCAGCC
*
51799886 AAAGCAGCT-A
1 AAAGAAGCTGA
51799896 AAAG-AGCTGA
1 AAAGAAGCTGA
51799906 AAAGGAAGCTGA
1 AAA-GAAGCTGA
51799918 AAAGAAGCT
1 AAAGAAGCT
51799927 CAAGGAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
9 4 0.14
10 8 0.29
11 7 0.25
12 9 0.32
ACGTcount: A:0.51, C:0.12, G:0.27, T:0.10
Consensus pattern (11 bp):
AAAGAAGCTGA
Found at i:51802410 original size:40 final size:40
Alignment explanation
Indices: 51802353--51802452 Score: 155
Period size: 40 Copynumber: 2.5 Consensus size: 40
51802343 ATCGTCAAAT
* *
51802353 CAACCGAAACACCCCAAACAGAAGCTCATAAGAGCTGGTC
1 CAACCGAAACACGCCAAACAGAAGCTCATAAGAGCTGATC
*
51802393 CAACCGAAACATGCCAAACAGAAGCTCATAAGAGCTGATC
1 CAACCGAAACACGCCAAACAGAAGCTCATAAGAGCTGATC
* *
51802433 CAACTGAAACACGACAAACA
1 CAACCGAAACACGCCAAACA
51802453 TAGAGTATAG
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.44, C:0.30, G:0.16, T:0.10
Consensus pattern (40 bp):
CAACCGAAACACGCCAAACAGAAGCTCATAAGAGCTGATC
Found at i:51805926 original size:49 final size:46
Alignment explanation
Indices: 51805867--51806021 Score: 119
Period size: 49 Copynumber: 3.3 Consensus size: 46
51805857 GAATTCAATC
51805867 AATATCAAGTTACGATATACTATCGGAAATCAAGAAAATATTTATACA
1 AATATCAAGTTAC-ATATACTATC-GAAATCAAGAAAATATTTATACA
* ** *
51805915 AATATACAAGTTGCATA-ATCTGATC--AATCAA-ATGA-ATTCA-ATC-
1 AATAT-CAAGTTACATATA-CT-ATCGAAATCAAGAAAATATTTATA-CA
*
51805958 AATAT-AAGTTACTATATACTATCGAAAATCAAGCAAATATTTATACA
1 AATATCAAGTTAC-ATATACTATCG-AAATCAAGAAAATATTTATACA
*
51806005 AATATACAAGTTGCATA
1 AATAT-CAAGTTACATA
51806022 ATTTGGTCAA
Statistics
Matches: 82, Mismatches: 10, Indels: 30
0.67 0.08 0.25
Matches are distributed among these distances:
41 9 0.11
42 5 0.06
43 7 0.09
44 11 0.13
45 3 0.04
46 11 0.13
47 7 0.09
48 13 0.16
49 16 0.20
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.30
Consensus pattern (46 bp):
AATATCAAGTTACATATACTATCGAAATCAAGAAAATATTTATACA
Found at i:51805945 original size:46 final size:46
Alignment explanation
Indices: 51805894--51806035 Score: 111
Period size: 46 Copynumber: 3.1 Consensus size: 46
51805884 TACTATCGGA
51805894 AATCAAGAAAATATTTATACAAATATACAAGTTGCATAATCTGATC
1 AATCAAGAAAATATTTATACAAATATACAAGTTGCATAATCTGATC
** * *
51805940 AATCAA-ATGA-ATTCA-ATC-AATAT--AAGTTAC-TATATACT-ATC
1 AATCAAGAAAATATTTATA-CAAATATACAAGTTGCATA-AT-CTGATC
* * *
51805981 GAAAATCAAGCAAATATTTATACAAATATACAAGTTGCATAATTTGGTC
1 ---AATCAAGAAAATATTTATACAAATATACAAGTTGCATAATCTGATC
51806030 AATCAA
1 AATCAA
51806036 ACGAATTCAA
Statistics
Matches: 71, Mismatches: 11, Indels: 28
0.65 0.10 0.25
Matches are distributed among these distances:
40 2 0.03
41 11 0.15
42 2 0.03
43 6 0.08
44 11 0.15
45 3 0.04
46 17 0.24
47 6 0.08
48 1 0.01
49 10 0.14
50 2 0.03
ACGTcount: A:0.47, C:0.13, G:0.08, T:0.31
Consensus pattern (46 bp):
AATCAAGAAAATATTTATACAAATATACAAGTTGCATAATCTGATC
Found at i:51806012 original size:90 final size:89
Alignment explanation
Indices: 51805817--51806095 Score: 423
Period size: 90 Copynumber: 3.1 Consensus size: 89
51805807 CAATGGTGAG
* * * *
51805817 TTATACAAATATACAACTTGCATAATTCACTAAATCATATGAATTCAATCAATATCAAGTTACGA
1 TTATACAAATATACAAGTTGCATAATTGA-TCAATCAAATGAATTCAATCAATAT-AAGTTACGA
*
51805882 TATACTATCGGAAATCAAGAAAATAT
64 TATACTATCGAAAATCAAGAAAATAT
*
51805908 TTATACAAATATACAAGTTGCATAATCTGATCAATCAAATGAATTCAATCAATATAAGTTACTAT
1 TTATACAAATATACAAGTTGCATAAT-TGATCAATCAAATGAATTCAATCAATATAAGTTACGAT
*
51805973 ATACTATCGAAAATCAAGCAAATAT
65 ATACTATCGAAAATCAAGAAAATAT
* * * *
51805998 TTATACAAATATACAAGTTGCATAATTTGGTCAATCAAACGAATTCAATTAGTATAAGTTACGAT
1 TTATACAAATATACAAGTTGCATAA-TTGATCAATCAAATGAATTCAATCAATATAAGTTACGAT
51806063 ATACTATCGAAAATCAAGAAAATAT
65 ATACTATCGAAAATCAAGAAAATAT
51806088 TTATACAA
1 TTATACAA
51806096 TTCAATATGC
Statistics
Matches: 173, Mismatches: 13, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
90 122 0.71
91 49 0.28
92 2 0.01
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (89 bp):
TTATACAAATATACAAGTTGCATAATTGATCAATCAAATGAATTCAATCAATATAAGTTACGATA
TACTATCGAAAATCAAGAAAATAT
Found at i:51810076 original size:87 final size:86
Alignment explanation
Indices: 51809960--51810124 Score: 233
Period size: 87 Copynumber: 1.9 Consensus size: 86
51809950 TACATGCATA
* *
51809960 AGGTTGATTTATTACTCTTAATGAATTCATACCCCAAG-GTTTGCGTGGTCCTATTAAGATGGAC
1 AGGTTGATTTATTAATCTTAATGAATTCATA-CCCAAGAGTTTGCGTGGTCCTATTAAGACGGAC
51810024 TTGATGAATTCACCGACATGTG
65 TTGATGAATTCACCGACATGTG
* * * * * *
51810046 AGGTTGAGTTTCTTAATCTTAATGAGTTCATATCCTAGAGTTTGGGTGGTCCTATTGAGACGGAC
1 AGGTTGA-TTTATTAATCTTAATGAATTCATACCCAAGAGTTTGCGTGGTCCTATTAAGACGGAC
51810111 TTGATGAATTCACC
65 TTGATGAATTCACC
51810125 AAATTTAAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
86 11 0.16
87 58 0.84
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.36
Consensus pattern (86 bp):
AGGTTGATTTATTAATCTTAATGAATTCATACCCAAGAGTTTGCGTGGTCCTATTAAGACGGACT
TGATGAATTCACCGACATGTG
Found at i:51811921 original size:27 final size:27
Alignment explanation
Indices: 51811861--51811922 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
51811851 CGTCTCGTTA
* * * *
51811861 GACTATCCTGTATTTAACATCCCGTCG
1 GACTATCTTGTATTTAACATCACATAG
*
51811888 GATTATCTTGTATTTAACATCACATAG
1 GACTATCTTGTATTTAACATCACATAG
51811915 GACTATCT
1 GACTATCT
51811923 ACGATGCCAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (27 bp):
GACTATCTTGTATTTAACATCACATAG
Found at i:51813229 original size:18 final size:18
Alignment explanation
Indices: 51813192--51813229 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
51813182 AAAAAATCAC
*
51813192 ATTTTTTATATTTAATAT
1 ATTTTTTATATTTAAAAT
51813210 ATTTTTTA-ATTTCAAAAT
1 ATTTTTTATATTT-AAAAT
51813228 AT
1 AT
51813230 ATAGTGACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTTTTATATTTAAAAT
Found at i:51821395 original size:113 final size:113
Alignment explanation
Indices: 51821197--51821422 Score: 416
Period size: 113 Copynumber: 2.0 Consensus size: 113
51821187 CATGATACAA
*
51821197 GATATTGGCCTCACTTTAAGGTAAAATTTACACAATCTTTATATTTTTAAAATATAAATTATTTC
1 GATATTGGCCTCACTTTAAGGTAAAATTTACACAATCTTTATATTTTTAAAATATAAATTAGTTC
51821262 TAACATTTATCTCATTACTTGTATTTATTTTAAAGGATTGTATTGGGG
66 TAACATTTATCTCATTACTTGTATTTATTTTAAAGGATTGTATTGGGG
* *
51821310 GATATTGGTCTCACTTTAAGGTGAAATTTACACAATCTTTATATTTTTAAAATATAAATTAGTTC
1 GATATTGGCCTCACTTTAAGGTAAAATTTACACAATCTTTATATTTTTAAAATATAAATTAGTTC
*
51821375 TAACCTTTATCTCATTACTTGTATTTATTTTAAAGGATTGTATTGGGG
66 TAACATTTATCTCATTACTTGTATTTATTTTAAAGGATTGTATTGGGG
51821423 CCATAGATGG
Statistics
Matches: 109, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
113 109 1.00
ACGTcount: A:0.32, C:0.11, G:0.12, T:0.45
Consensus pattern (113 bp):
GATATTGGCCTCACTTTAAGGTAAAATTTACACAATCTTTATATTTTTAAAATATAAATTAGTTC
TAACATTTATCTCATTACTTGTATTTATTTTAAAGGATTGTATTGGGG
Found at i:51822655 original size:21 final size:21
Alignment explanation
Indices: 51822631--51822686 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
51822621 CATTGTTTCT
*
51822631 AATCTCACTGCTACAGTATCC
1 AATCTCACTGCTACAGTAACC
* * *
51822652 AATCTCACCGTTACAGTAACT
1 AATCTCACTGCTACAGTAACC
51822673 AATCTCACTGCTAC
1 AATCTCACTGCTAC
51822687 CGCTGTTTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.32, G:0.09, T:0.29
Consensus pattern (21 bp):
AATCTCACTGCTACAGTAACC
Found at i:51836558 original size:23 final size:23
Alignment explanation
Indices: 51836532--51836576 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
51836522 TGTTATAACT
51836532 TTTTTTTATTTACCAAAATATAG
1 TTTTTTTATTTACCAAAATATAG
*
51836555 TTTTTTTATTTACTAAAATATA
1 TTTTTTTATTTACCAAAATATA
51836577 TAAAAAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.56
Consensus pattern (23 bp):
TTTTTTTATTTACCAAAATATAG
Found at i:51836709 original size:26 final size:28
Alignment explanation
Indices: 51836630--51836710 Score: 114
Period size: 27 Copynumber: 3.0 Consensus size: 28
51836620 TCAGGCCAAT
*
51836630 TAAATTGGTGGCACCAAAGGTGCCAAA-
1 TAAATTGGTGGCACCAATGGTGCCAAAG
51836657 TAAATTGGTGGCACCAATGGTGCCAAAG
1 TAAATTGGTGGCACCAATGGTGCCAAAG
* *
51836685 T-CATTGGCGGCACC-ATGGTGCCAAAG
1 TAAATTGGTGGCACCAATGGTGCCAAAG
51836711 GAAAAAAAAG
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
26 12 0.24
27 37 0.74
28 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.28, T:0.20
Consensus pattern (28 bp):
TAAATTGGTGGCACCAATGGTGCCAAAG
Found at i:51836798 original size:20 final size:19
Alignment explanation
Indices: 51836775--51836853 Score: 63
Period size: 19 Copynumber: 4.2 Consensus size: 19
51836765 TATTTCCCTT
*
51836775 TAACTTATTTTTTTATTTAA
1 TAAC-TATTTTTTAATTTAA
*
51836795 TAACTCTTTTTTAATTTAA
1 TAACTATTTTTTAATTTAA
* *
51836814 TAAACTA--TTCTCATTTAA
1 T-AACTATTTTTTAATTTAA
* * *
51836832 TAACTCTATTTTAATATAA
1 TAACTATTTTTTAATTTAA
51836851 TAA
1 TAA
51836854 AATATTAAGT
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
17 4 0.09
18 10 0.21
19 25 0.53
20 8 0.17
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (19 bp):
TAACTATTTTTTAATTTAA
Found at i:51836806 original size:18 final size:18
Alignment explanation
Indices: 51836783--51836844 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
51836773 TTTAACTTAT
51836783 TTTTTTATTTAATAACTC
1 TTTTTTATTTAATAACTC
51836801 TTTTTTAATTTAATAAACT-
1 TTTTTT-ATTTAAT-AACTC
* * *
51836820 ATTCTCATTTAATAACTC
1 TTTTTTATTTAATAACTC
*
51836838 TATTTTA
1 TTTTTTA
51836845 ATATAATAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
17 4 0.12
18 16 0.47
19 10 0.29
20 4 0.12
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTTTATTTAATAACTC
Found at i:51836806 original size:19 final size:19
Alignment explanation
Indices: 51836784--51836853 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
51836774 TTAACTTATT
* *
51836784 TTTTTATTTAATAACTCTT
1 TTTTAATTTAATAACTCTA
*
51836803 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACTCTA
* *
51836821 TTCTCATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
*
51836840 TTTTAATATAATAA
1 TTTTAATTTAATAA
51836854 AATATTAAGT
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
18 14 0.34
19 27 0.66
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTAATTTAATAACTCTA
Found at i:51836834 original size:37 final size:37
Alignment explanation
Indices: 51836789--51836859 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
51836779 TTATTTTTTT
* * *
51836789 ATTTAATAACTCTTTTTTAATTTAATAAACTATTCTC
1 ATTTAATAACTCTATTTTAATATAATAAAATATTCTC
51836826 ATTTAATAACTCTATTTTAATATAATAAAATATT
1 ATTTAATAACTCTATTTTAATATAATAAAATATT
51836860 AAGTACTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (37 bp):
ATTTAATAACTCTATTTTAATATAATAAAATATTCTC
Found at i:51836970 original size:15 final size:15
Alignment explanation
Indices: 51836952--51836983 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
51836942 CCTAACATGC
51836952 AAATTTACCATTTTG
1 AAATTTACCATTTTG
51836967 AAATTTACCATTTTG
1 AAATTTACCATTTTG
51836982 AA
1 AA
51836984 TTTTGAAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (15 bp):
AAATTTACCATTTTG
Found at i:51837178 original size:37 final size:37
Alignment explanation
Indices: 51837131--51837201 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
51837121 AGTATTACTT
*
51837131 AATATTTTATTAAATTAAAATAGAGTTATTAAATGAG
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
51837168 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
51837202 AAAAAATTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (37 bp):
AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
Found at i:51837206 original size:19 final size:19
Alignment explanation
Indices: 51837137--51837205 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
51837127 ACTTAATATT
51837137 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
* * *
51837156 TTATTAAATGAGAATAG-T
1 TTATTAAATTAAAATAGAG
51837174 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
51837193 TTATTAAA-TAAAA
1 TTATTAAATTAAAA
51837206 AATTGAGTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
18 20 0.47
19 23 0.53
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (19 bp):
TTATTAAATTAAAATAGAG
Found at i:51837454 original size:19 final size:19
Alignment explanation
Indices: 51837430--51837498 Score: 88
Period size: 19 Copynumber: 3.7 Consensus size: 19
51837420 ACTTAATAGT
51837430 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
* * *
51837449 TTATTAAATGAGAATAG-T
1 TTATTAAATTAAAATAGAG
*
51837467 TTATTAAATTAAAATAAAG
1 TTATTAAATTAAAATAGAG
51837486 TTATTAAA-TAAAA
1 TTATTAAATTAAAA
51837499 AAAATAAGTT
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
18 19 0.45
19 23 0.55
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.38
Consensus pattern (19 bp):
TTATTAAATTAAAATAGAG
Found at i:51837466 original size:37 final size:37
Alignment explanation
Indices: 51837424--51837494 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
51837414 AGTATTACTT
*
51837424 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
1 AATAGTTTATTAAATTAAAATAAAGTTATTAAATGAG
51837461 AATAGTTTATTAAATTAAAATAAAGTTATTAAAT
1 AATAGTTTATTAAATTAAAATAAAGTTATTAAAT
51837495 AAAAAAAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (37 bp):
AATAGTTTATTAAATTAAAATAAAGTTATTAAATGAG
Found at i:51837472 original size:18 final size:18
Alignment explanation
Indices: 51837424--51837482 Score: 73
Period size: 18 Copynumber: 3.2 Consensus size: 18
51837414 AGTATTACTT
*
51837424 AATAGTTTATTAAATTAA
1 AATAGTTTATTAAATGAA
* *
51837442 AATAGAGTTATTAAATGAG
1 AATAG-TTTATTAAATGAA
*
51837461 AATAGTTTATTAAATTAA
1 AATAGTTTATTAAATGAA
51837479 AATA
1 AATA
51837483 AAGTTATTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
18 19 0.56
19 15 0.44
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (18 bp):
AATAGTTTATTAAATGAA
Found at i:51837511 original size:37 final size:37
Alignment explanation
Indices: 51837432--51837511 Score: 90
Period size: 37 Copynumber: 2.2 Consensus size: 37
51837422 TTAATAGTTT
* * * ** *
51837432 ATTAAATTAAAATAGAGTTATTAAATGAGAATAGTTT
1 ATTAAATTAAAATAAAGTTATTAAATGAAAAAAAATA
51837469 ATTAAATTAAAATAAAGTTATTAAAT-AAAAAAAATA
1 ATTAAATTAAAATAAAGTTATTAAATGAAAAAAAATA
51837505 AGTTAAA
1 A-TTAAA
51837512 GGGGAATAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
36 6 0.17
37 30 0.83
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (37 bp):
ATTAAATTAAAATAAAGTTATTAAATGAAAAAAAATA
Found at i:51837665 original size:27 final size:27
Alignment explanation
Indices: 51837598--51837673 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
51837588 GTGCCAAACA
*
51837598 TGGTGCCACCAA-TGACTTTGGCACCAT
1 TGGTGCCACCAATTTA-TTTGGCACCAT
*
51837625 TGGTGCCACCAATTTATTTGGCACCTT
1 TGGTGCCACCAATTTATTTGGCACCAT
* *
51837652 TGGTGCCGCCAATTTAATTGGC
1 TGGTGCCACCAATTTATTTGGC
51837674 CTGATCAGGC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 42 0.95
28 2 0.05
ACGTcount: A:0.20, C:0.26, G:0.22, T:0.32
Consensus pattern (27 bp):
TGGTGCCACCAATTTATTTGGCACCAT
Found at i:51837859 original size:16 final size:17
Alignment explanation
Indices: 51837840--51837873 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
51837830 AATACTAAGA
51837840 ATTTA-TTAAATTATAT
1 ATTTAGTTAAATTATAT
51837856 ATTTATGTTAAATTATAT
1 ATTTA-GTTAAATTATAT
51837874 TTAATAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
18 11 0.69
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
ATTTAGTTAAATTATAT
Found at i:51837912 original size:59 final size:58
Alignment explanation
Indices: 51837849--51838037 Score: 195
Period size: 59 Copynumber: 3.2 Consensus size: 58
51837839 AATTTATTAA
51837849 ATTATATATTTATGTTAAATTATATTTAATAATAATTATTTCAAATTATATTTTATAGT
1 ATTATATATTTATGTTAAATTATATTTAATAATAATTATTT-AAATTATATTTTATAGT
** * * * * * * *
51837908 ATTATATA-TTATGATTTTAGTAAATTCATATAAGAA-TATTTAATACTAAGAATTTTATTA-A
1 ATTATATATTTATG-TTAAATTATATTTA-ATAATAATTATTTAA-A-TTA-TATTTTA-TAGT
*
51837969 ATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGT
1 ATTATATATTTATGTTAAATTATATTTAATAATAATTA-TTTAAATTATATTTTATAGT
51838028 ATTATATATT
1 ATTATATATT
51838038 ATGATTTTAG
Statistics
Matches: 101, Mismatches: 19, Indels: 20
0.72 0.14 0.14
Matches are distributed among these distances:
58 9 0.09
59 39 0.39
60 16 0.16
61 26 0.26
62 11 0.11
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (58 bp):
ATTATATATTTATGTTAAATTATATTTAATAATAATTATTTAAATTATATTTTATAGT
Found at i:51837977 original size:120 final size:119
Alignment explanation
Indices: 51837822--51838059 Score: 449
Period size: 120 Copynumber: 2.0 Consensus size: 119
51837812 AAAAAAACCC
51837822 GAATATTTAATACTAAGAATTTATTAAATTATATATTTATGTTAAATTATATTTAATAATAATTA
1 GAATATTTAATACTAAGAATTTATTAAATTATATATTTATGTTAAATTATATTTAATAATAATTA
51837887 TTTCAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAA
66 TTTCAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAA
*
51837941 GAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAATT
1 GAATATTTAATACTAAGAA-TTTATTAAATTATATATTTATGTTAAATTATATTTAATAATAATT
*
51838006 ATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATA
65 ATTTCAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATA
51838060 TTTTATTAAA
Statistics
Matches: 116, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
119 19 0.16
120 97 0.84
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (119 bp):
GAATATTTAATACTAAGAATTTATTAAATTATATATTTATGTTAAATTATATTTAATAATAATTA
TTTCAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAA
Found at i:51838064 original size:18 final size:17
Alignment explanation
Indices: 51837959--51838075 Score: 54
Period size: 18 Copynumber: 7.0 Consensus size: 17
51837949 AATACTAAGA
*
51837959 ATTTTATTAAATTATAT
1 ATTTTAGTAAATTATAT
*
51837976 ATTTTTGTTAAA-T-TAT
1 ATTTTAG-TAAATTATAT
* *
51837992 A-TTTAAT-AATAAT-T
1 ATTTTAGTAAATTATAT
51838006 A-TTT--TAAATTATAT
1 ATTTTAGTAAATTATAT
*
51838020 -TTTATAGTATTATATATTAT
1 ATTT-TAGTA-AAT-TA-TAT
51838040 GATTTTAGTAAATTCATAT
1 -ATTTTAGTAAATT-ATAT
*
51838059 ATTTTATTAAATTATAT
1 ATTTTAGTAAATTATAT
51838076 TTAATAATAA
Statistics
Matches: 76, Mismatches: 9, Indels: 30
0.66 0.08 0.26
Matches are distributed among these distances:
12 1 0.01
13 7 0.09
14 9 0.12
15 5 0.07
16 4 0.05
17 12 0.16
18 18 0.24
19 6 0.08
20 6 0.08
21 5 0.07
22 3 0.04
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.56
Consensus pattern (17 bp):
ATTTTAGTAAATTATAT
Found at i:51838330 original size:16 final size:16
Alignment explanation
Indices: 51838309--51838346 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
51838299 AGGATTACCT
51838309 ATTACACCTCTATTAC
1 ATTACACCTCTATTAC
* *
51838325 ATTACACCTGTATTCC
1 ATTACACCTCTATTAC
51838341 ATTACA
1 ATTACA
51838347 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.29, G:0.03, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTAC
Found at i:51838430 original size:24 final size:26
Alignment explanation
Indices: 51838390--51838440 Score: 72
Period size: 24 Copynumber: 2.0 Consensus size: 26
51838380 AAGTAAAAAC
51838390 AAATTATAGTAGTATAAAAATA-GTG
1 AAATTATAGTAGTATAAAAATATGTG
51838415 AAATTA-AGTA-TAATAAAAATATGTG
1 AAATTATAGTAGT-ATAAAAATATGTG
51838440 A
1 A
51838441 GACCCATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 1 0.04
24 13 0.54
25 10 0.42
ACGTcount: A:0.55, C:0.00, G:0.14, T:0.31
Consensus pattern (26 bp):
AAATTATAGTAGTATAAAAATATGTG
Found at i:51844212 original size:3 final size:3
Alignment explanation
Indices: 51844204--51844233 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
51844194 GATGATTACA
51844204 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
51844234 TCTATTTCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:51849226 original size:21 final size:21
Alignment explanation
Indices: 51849202--51849254 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
51849192 CGCTGTTTCT
*
51849202 AATCTCACCACTACAATATCC
1 AATCTCACCACTACAATAACC
* * *
51849223 AATCACACCGCTACAATAACT
1 AATCTCACCACTACAATAACC
51849244 AATCTCACCAC
1 AATCTCACCAC
51849255 CACCGCTGTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.40, C:0.38, G:0.02, T:0.21
Consensus pattern (21 bp):
AATCTCACCACTACAATAACC
Found at i:51852173 original size:13 final size:14
Alignment explanation
Indices: 51852142--51852175 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
51852132 ATACGGTACC
51852142 AAAAAGATACTGAA
1 AAAAAGATACTGAA
51852156 AAAAAGATAC-GAA
1 AAAAAGATACTGAA
51852169 GAAAAAG
1 -AAAAAG
51852176 TAATAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 3 0.16
14 16 0.84
ACGTcount: A:0.68, C:0.06, G:0.18, T:0.09
Consensus pattern (14 bp):
AAAAAGATACTGAA
Found at i:51854389 original size:45 final size:45
Alignment explanation
Indices: 51854337--51855190 Score: 1142
Period size: 45 Copynumber: 19.0 Consensus size: 45
51854327 GGTTAAAAAA
*
51854337 ATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCGAAG
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
51854382 ATAGCAGATCTTGTCTTCCTGTA-TGGCAGCGAAGTAGATCGAAG
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
* *
51854426 ATAGCATATCTTGTCTTCTTGTATTGGCAGCGAAGTAGATCGAAG
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
* * * *
51854471 ATAACAGATCTTATCTTCCTGTATTGGCAGCAAAGTAGATCAAAG
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
* *
51854516 ATAGAAGATCTTATCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
** * * *
51854561 ATAGCAGATCTTGTCTTCCTGTAAAGACAGCGAAATAGATTGAAG
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
* * *
51854606 ATAACAGATCATGTCTTCCTGTATTGGTAGCGAAGTAGATCGAAG
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
* *
51854651 ATAACAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAG
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
* * * *** * * ** *
51854696 ATA-CTAG-CCTTATCTCCCTG-AGCAGCAGCGGAGTAGGTTAAAA
1 ATAGC-AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
*
51854739 ATAGCAGATTTTGTCTTCCTGTATTGGCAAGCGAAGTAGATCGAAG
1 ATAGCAGATCTTGTCTTCCTGTATTGGC-AGCGAAGTAGATCGAAG
* *
51854785 ATAGC-GAATCTTGTCTTCCTGTATTGGTAGCGAAGTAGATCAAAG
1 ATAGCAG-ATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
* *
51854830 ATAGCAGATCTTGTCTTTCTATATTGGCAGCGAAGTAGATCGAAG
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
*
51854875 ATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAG
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
* * *
51854920 ATAGCAGATCTTGTCTTCCTATACTGGCAGCGAAGTAAATCGAAG
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
* * * *
51854965 ATAGCAAATCTTATCCTCCTGTATTGGCAGCGAAGTAGATCAAAG
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
* * *
51855010 ATAGCAGATCTAGTCTTCCTGTACTGGCAGTGAAGTAGATCGAAG
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
* * * *
51855055 ATAGCAGATCTTGTTTTCTTGTAATGGCAGCAAAGTAGATCGAAG
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
* *
51855100 ATAGCAGATCTTGTCTTCCTGTATTGGTAGCGAAGTAGATCGAAA
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
* * * *
51855145 ATAGCAGATCTTGCCTTCCTATACTGGCAGCAAAGTAGATCGAAG
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
51855190 A
1 A
51855191 CACAAGTCTT
Statistics
Matches: 703, Mismatches: 98, Indels: 16
0.86 0.12 0.02
Matches are distributed among these distances:
43 20 0.03
44 62 0.09
45 584 0.83
46 37 0.05
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.28
Consensus pattern (45 bp):
ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
Found at i:51855271 original size:89 final size:89
Alignment explanation
Indices: 51855145--51855364 Score: 255
Period size: 89 Copynumber: 2.5 Consensus size: 89
51855135 TAGATCGAAA
* * * *
51855145 ATAGCAGATCTTGCCTTCCTATACTGGCAGCAAAGTAGATCGAAGACACAAGTCTTG-CCTCCCT
1 ATAGTAGATCTTGCCTTCCTGTACTGGCAGCGAAGTAGATCGAAGACACAAG-CCTGACCTCCCT
*
51855209 AACTTTACAATGGAGCAGACTGAAG
65 AACTTTACAACGGAGCAGACTGAAG
* * * * * * *
51855234 ATAGTATATCTCGCCTTCCTGTACTGGCAGTGAAGTAGATCAAAGACACCAGCCTGACCTCCTTG
1 ATAGTAGATCTTGCCTTCCTGTACTGGCAGCGAAGTAGATCGAAGACACAAGCCTGACCTCCCTA
* * * *
51855299 AGTTTGCAGCGGAGTAGACTGAAG
66 ACTTTACAACGGAGCAGACTGAAG
* *
51855323 ATAGTAGA-CTTGTCTTCCTGTACTGGCAGCGAAGCAGATCGA
1 ATAGTAGATCTTGCCTTCCTGTACTGGCAGCGAAGTAGATCGA
51855365 CAGCACCAAC
Statistics
Matches: 108, Mismatches: 22, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
88 32 0.30
89 76 0.70
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.25
Consensus pattern (89 bp):
ATAGTAGATCTTGCCTTCCTGTACTGGCAGCGAAGTAGATCGAAGACACAAGCCTGACCTCCCTA
ACTTTACAACGGAGCAGACTGAAG
Found at i:51855389 original size:88 final size:87
Alignment explanation
Indices: 51854856--51855410 Score: 261
Period size: 90 Copynumber: 6.2 Consensus size: 87
51854846 TTCTATATTG
* * *
51854856 GCAGCGAAGTAGA-TCGAAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAG
1 GCAGCGGAGTAGACT-GAAGATAGTAGATCTTGCCTTCCTGTACTGGCAGCGAAGTAGATCGAAG
* * * * *
51854920 ATAGCAGATCTTGTCTTCCT-A-TACTG
65 -CACCA-ACCTTG-CCTCCTGAGT--TT
* * * * * * *
51854946 GCAGCGAAGTA-AATCGAAGATAGCAAATCTTATCC-TCCTGTATTGGCAGCGAAGTAGATCAAA
1 GCAGCGGAGTAGACT-GAAGATAGTAGATCTT-GCCTTCCTGTACTGGCAGCGAAGTAGATCGAA
* * * * * * *
51855009 GATAGCAGATCTAGTCTTCCTGTA-CTG
64 G-CACCA-ACCTTG-CCTCCTG-AGTTT
* * * ** * * *
51855036 GCAGTGAAGTAGA-TCGAAGATAGCAGATCTTGTTTTCTTGTAATGGCAGCAAAGTAGATCGAAG
1 GCAGCGGAGTAGACT-GAAGATAGTAGATCTTGCCTTCCTGTACTGGCAGCGAAGTAGATCGAAG
* * * * *
51855100 ATAGCAGATCTTGTCTTCCTGTA-TTG
65 -CACCA-ACCTTG-CCTCCTG-AGTTT
* * * * * *
51855126 GTAGCGAAGTAGA-TCGAAAATAGCAGATCTTGCCTTCCTATACTGGCAGCAAAGTAGATCGAAG
1 GCAGCGGAGTAGACT-GAAGATAGTAGATCTTGCCTTCCTGTACTGGCAGCGAAGTAGATCGAAG
* * *
51855190 -ACACAAGTCTTGCCTCCCTAACTTT
65 CAC-CAA-CCTTGCCT-CCTGAGTTT
* ** * * * * *
51855215 ACAATGGAGCAGACTGAAGATAGTATATCTCGCCTTCCTGTACTGGCAGTGAAGTAGATCAAAGA
1 GCAGCGGAGTAGACTGAAGATAGTAGATCTTGCCTTCCTGTACTGGCAGCGAAGTAGATCGAAG-
*
51855280 CACCAGCC-TGACCTCCTTGAGTTT
65 CACCAACCTTG-CCTCC-TGAGTTT
* *
51855304 GCAGCGGAGTAGACTGAAGATAGTAGA-CTTGTCTTCCTGTACTGGCAGCGAAGCAGATCGACAG
1 GCAGCGGAGTAGACTGAAGATAGTAGATCTTGCCTTCCTGTACTGGCAGCGAAGTAGATCGA-AG
*
51855368 CACCAACCTTGCCTCTCTGAGTTG
65 CACCAACCTTGCCTC-CTGAGTTT
* * *
51855392 GCAGTGGAATAGATTGAAG
1 GCAGCGGAGTAGACTGAAG
51855411 CTGTGACAGT
Statistics
Matches: 384, Mismatches: 63, Indels: 38
0.79 0.13 0.08
Matches are distributed among these distances:
88 71 0.18
89 97 0.25
90 211 0.55
91 4 0.01
92 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (87 bp):
GCAGCGGAGTAGACTGAAGATAGTAGATCTTGCCTTCCTGTACTGGCAGCGAAGTAGATCGAAGC
ACCAACCTTGCCTCCTGAGTTT
Found at i:51855781 original size:44 final size:45
Alignment explanation
Indices: 51855731--51855933 Score: 160
Period size: 44 Copynumber: 4.6 Consensus size: 45
51855721 AGATAGCAAG
* *
51855731 TCTTATCCCCCTAAAGTTGCAGTGGA-CAGACTGAAGATGACGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATGACGAA
* * * * * * **
51855775 TCTTATCTCCCTGAAGTTACAATAGAGCAGATTAAAGCT-AATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATGACGAA
* * * * * * **
51855819 TCCTATCTCCCTGAAGTTACAGCGGAGTAGACTGAATA-AATAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATGACGAA
* * * * *
51855863 TCTTATCCCCCTGAAGTTGCAGTGGGGCAGATTGAAAATGGCGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATGACGAA
* *
51855908 TCTTATCTCTCTGAAATTGCAGTGGA
1 TCTTATCTCCCTGAAGTTGCAGTGGA
51855934 ACACATTAAA
Statistics
Matches: 119, Mismatches: 37, Indels: 5
0.74 0.23 0.03
Matches are distributed among these distances:
44 86 0.72
45 33 0.28
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATGACGAA
Found at i:51856793 original size:13 final size:14
Alignment explanation
Indices: 51856762--51856795 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
51856752 ATACGGTACC
51856762 AAAAAGATACTGAA
1 AAAAAGATACTGAA
51856776 AAAAAGATAC-GAA
1 AAAAAGATACTGAA
51856789 GAAAAAG
1 -AAAAAG
51856796 CAATAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 3 0.16
14 16 0.84
ACGTcount: A:0.68, C:0.06, G:0.18, T:0.09
Consensus pattern (14 bp):
AAAAAGATACTGAA
Found at i:51858971 original size:11 final size:11
Alignment explanation
Indices: 51858945--51858999 Score: 53
Period size: 11 Copynumber: 5.0 Consensus size: 11
51858935 TGAAAAATTC
51858945 TATATTA-TTA
1 TATATTATTTA
51858955 -ATATTATTTA
1 TATATTATTTA
51858965 TATATTATTAATA
1 TATATTATT--TA
*
51858978 TATTTTAATTTA
1 TATATT-ATTTA
51858990 TATA-TATTTA
1 TATATTATTTA
51859000 AATTATATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
9 6 0.16
10 8 0.21
11 9 0.24
12 5 0.13
13 7 0.18
14 3 0.08
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TATATTATTTA
Found at i:51858984 original size:20 final size:20
Alignment explanation
Indices: 51858945--51858982 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
51858935 TGAAAAATTC
51858945 TATATTATTAATATTATTTA
1 TATATTATTAATATTATTTA
51858965 TATATTATTAATA-TATTT
1 TATATTATTAATATTATTT
51858983 TAATTTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TATATTATTAATATTATTTA
Found at i:51859005 original size:15 final size:14
Alignment explanation
Indices: 51858975--51859015 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
51858965 TATATTATTA
*
51858975 ATATATTTTAATTT
1 ATATATTTTAAATT
51858989 ATATATATTTAAATT
1 ATATAT-TTTAAATT
51859004 ATATA-TTTAAAT
1 ATATATTTTAAAT
51859016 GATAAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 7 0.28
14 6 0.24
15 12 0.48
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
ATATATTTTAAATT
Found at i:51859007 original size:29 final size:31
Alignment explanation
Indices: 51858939--51859011 Score: 82
Period size: 29 Copynumber: 2.4 Consensus size: 31
51858929 TAGCACTGAA
* *
51858939 AAATTCTATATTATTAATATTATTTATATATT
1 AAATTATATATT-TTAATATTATATATATATT
51858971 --ATTAATATATTTTAAT-TTATATATAT-TT
1 AAATT-ATATATTTTAATATTATATATATATT
51858999 AAATTATATATTT
1 AAATTATATATTT
51859012 AAATGATAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
28 2 0.06
29 17 0.47
30 11 0.31
31 6 0.17
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (31 bp):
AAATTATATATTTTAATATTATATATATATT
Found at i:51859011 original size:13 final size:13
Alignment explanation
Indices: 51858990--51859015 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
51858980 TTTTAATTTA
51858990 TATATATTTAAAT
1 TATATATTTAAAT
51859003 TATATATTTAAAT
1 TATATATTTAAAT
51859016 GATAAATAAT
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TATATATTTAAAT
Found at i:51859384 original size:30 final size:30
Alignment explanation
Indices: 51859322--51859385 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 30
51859312 GCTAGAAGTG
* *
51859322 TTTTTCAAAAATAACCTATTCCCGCAATTT
1 TTTTTCAAAAATAACCTATTCACACAATTT
* *
51859352 TTTTTCTAAAATTAACCTATTCACATAATTT
1 TTTTTC-AAAAATAACCTATTCACACAATTT
51859383 TTT
1 TTT
51859386 GCCTAACATT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 6 0.21
31 23 0.79
ACGTcount: A:0.33, C:0.19, G:0.02, T:0.47
Consensus pattern (30 bp):
TTTTTCAAAAATAACCTATTCACACAATTT
Found at i:51862868 original size:54 final size:54
Alignment explanation
Indices: 51862794--51862927 Score: 225
Period size: 54 Copynumber: 2.5 Consensus size: 54
51862784 GGAGTTAATG
* *
51862794 CTGTAGGAGACTTTGCAATAGGACCAGGAGCCAGAGCAGGAACCGGAGATGATC
1 CTGTGGGAGGCTTTGCAATAGGACCAGGAGCCAGAGCAGGAACCGGAGATGATC
51862848 CTGTGGGAGGCTTTGCAATAGGACCAGGAGCCAGAGCAGGAACCGGAGATGATC
1 CTGTGGGAGGCTTTGCAATAGGACCAGGAGCCAGAGCAGGAACCGGAGATGATC
*
51862902 CTGTGGGTGGCTTTGCAACT-GGACCA
1 CTGTGGGAGGCTTTGCAA-TAGGACCA
51862928 TGGTGATAGG
Statistics
Matches: 76, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
54 75 0.99
55 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.35, T:0.17
Consensus pattern (54 bp):
CTGTGGGAGGCTTTGCAATAGGACCAGGAGCCAGAGCAGGAACCGGAGATGATC
Found at i:51875923 original size:3 final size:3
Alignment explanation
Indices: 51875915--51875939 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
51875905 TTCAAATTTG
51875915 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
51875940 TTTTTTGTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:51878856 original size:24 final size:24
Alignment explanation
Indices: 51878829--51878877 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
51878819 TGAGGGCTAG
* *
51878829 GGTTTCTTTTAGTTCGTTTTTTTA
1 GGTTTCATTTAGTTAGTTTTTTTA
* *
51878853 GGTTTCATTTATTTATTTTTTTTA
1 GGTTTCATTTAGTTAGTTTTTTTA
51878877 G
1 G
51878878 TTCTGTAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.12, C:0.06, G:0.14, T:0.67
Consensus pattern (24 bp):
GGTTTCATTTAGTTAGTTTTTTTA
Found at i:51888331 original size:20 final size:20
Alignment explanation
Indices: 51888306--51888350 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
51888296 AATGTGTCTT
51888306 GTCTTAACCGAATTAATTGG
1 GTCTTAACCGAATTAATTGG
** *
51888326 GTCTTAACTTAATTAATTGT
1 GTCTTAACCGAATTAATTGG
51888346 GTCTT
1 GTCTT
51888351 GTTCTATTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.44
Consensus pattern (20 bp):
GTCTTAACCGAATTAATTGG
Found at i:51904383 original size:21 final size:21
Alignment explanation
Indices: 51904357--51904411 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
51904347 AATAGCGGTG
*
51904357 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGGTACTGTA
*
51904378 GCGGTGAGATTGGGTACTGTA
1 GCGGTGAGATTAGGTACTGTA
51904399 GCGGTGAGATTAG
1 GCGGTGAGATTAG
51904412 AAATAATGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.22, C:0.09, G:0.40, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGGTACTGTA
Found at i:51908433 original size:8 final size:9
Alignment explanation
Indices: 51908404--51908446 Score: 63
Period size: 8 Copynumber: 4.9 Consensus size: 9
51908394 CTTTTGTTTT
51908404 ATATATATA
1 ATATATATA
51908413 ATATAATATA
1 ATAT-ATATA
51908423 ATATA-ATA
1 ATATATATA
51908431 ATATA-ATA
1 ATATATATA
51908439 ATATATAT
1 ATATATAT
51908447 TAACTAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 16 0.50
9 7 0.22
10 9 0.28
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
ATATATATA
Found at i:51910633 original size:41 final size:41
Alignment explanation
Indices: 51910588--51910683 Score: 156
Period size: 41 Copynumber: 2.3 Consensus size: 41
51910578 CAAAGGAGCT
* * *
51910588 CTAAGTGCCAGTGATCTGAATCAGGTTGTAAACCTAGCAGG
1 CTAAGTGCCGGTGATCTGAATCAGGCTATAAACCTAGCAGG
*
51910629 CTAAGTGCCGGTGATCTGAATCAGGCTATAAGCCTAGCAGG
1 CTAAGTGCCGGTGATCTGAATCAGGCTATAAACCTAGCAGG
51910670 CTAAGTGCCGGTGA
1 CTAAGTGCCGGTGA
51910684 ATATGTTAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (41 bp):
CTAAGTGCCGGTGATCTGAATCAGGCTATAAACCTAGCAGG
Found at i:51918333 original size:41 final size:41
Alignment explanation
Indices: 51918271--51918387 Score: 180
Period size: 41 Copynumber: 2.9 Consensus size: 41
51918261 GGTGAATTTT
* * *
51918271 TCAGACTATAAATCTAGCAGGCTAAGTGCTGGTGATCTGAA
1 TCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAA
* *
51918312 TCAGGTTGTAAACCTAGCAGGCTAAGTGCCGGTGATCTGAA
1 TCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAA
*
51918353 TCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGA
1 TCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGA
51918388 ATATGTTAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 68 1.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (41 bp):
TCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAA
Found at i:51923316 original size:15 final size:15
Alignment explanation
Indices: 51923296--51923329 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
51923286 TGTGTGTATG
*
51923296 TATTTATTTATTGTT
1 TATTTATTTATTATT
51923311 TATTTATTTATTATT
1 TATTTATTTATTATT
51923326 TATT
1 TATT
51923330 AACATTGTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (15 bp):
TATTTATTTATTATT
Found at i:51923385 original size:23 final size:23
Alignment explanation
Indices: 51923341--51923386 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
51923331 ACATTGTTCG
* *
51923341 TGAACATGTTCGATTAAGTTAAA
1 TGAACATGTTCGATGAAATTAAA
51923364 TGAACATGTTC-ATGAACATTAAA
1 TGAACATGTTCGATGAA-ATTAAA
51923387 GAAACGAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (23 bp):
TGAACATGTTCGATGAAATTAAA
Found at i:51926088 original size:22 final size:21
Alignment explanation
Indices: 51926061--51926116 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 21
51926051 ATTAAGACTT
**
51926061 TTTTATTTTTAAGTTTATCTTA
1 TTTTATTTTTAA-TTTAGATTA
*
51926083 TTTTATTATTAATTTAGATTA
1 TTTTATTTTTAATTTAGATTA
51926104 TTATTATTATTTA
1 TT-TTATT-TTTA
51926117 GGGAGCAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 9 0.32
22 16 0.57
23 3 0.11
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.66
Consensus pattern (21 bp):
TTTTATTTTTAATTTAGATTA
Found at i:51927190 original size:17 final size:15
Alignment explanation
Indices: 51927167--51927206 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
51927157 TATAAAATTG
*
51927167 ATATAAACTTATTAAA
1 ATATAAAATTA-TAAA
51927183 ACTATAAAATTATAAA
1 A-TATAAAATTATAAA
51927199 ATATAAAA
1 ATATAAAA
51927207 AAATCTAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 7 0.32
16 6 0.27
17 9 0.41
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (15 bp):
ATATAAAATTATAAA
Found at i:51929251 original size:13 final size:13
Alignment explanation
Indices: 51929233--51929257 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51929223 GCTTTGAACT
51929233 CTTACTAAGTACA
1 CTTACTAAGTACA
51929246 CTTACTAAGTAC
1 CTTACTAAGTAC
51929258 GTTAGCTCAC
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:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (13 bp):
CTTACTAAGTACA
Found at i:51932759 original size:12 final size:12
Alignment explanation
Indices: 51932742--51932768 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
51932732 AATAAATCAT
51932742 ATATGTATATTA
1 ATATGTATATTA
51932754 ATATGTATATTA
1 ATATGTATATTA
51932766 ATA
1 ATA
51932769 GAAAATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (12 bp):
ATATGTATATTA
Found at i:51933534 original size:9 final size:9
Alignment explanation
Indices: 51933464--51933660 Score: 55
Period size: 10 Copynumber: 20.9 Consensus size: 9
51933454 AATGATTTTA
*
51933464 TTTATAAAT
1 TTTATAATT
51933473 TTTATAAGTT
1 TTTATAA-TT
**
51933483 GATATCAATT
1 TTTAT-AATT
* *
51933493 TTAATACTTT
1 TTTATA-ATT
*
51933503 TTTATATTTT
1 TTTATA-ATT
51933513 TTTATAATT
1 TTTATAATT
*
51933522 TTTATGATT
1 TTTATAATT
51933531 TTTATAGGATT
1 TTTATA--ATT
* *
51933542 TTAATTA-T
1 TTTATAATT
51933550 TTTA-AATAT
1 TTTATAAT-T
51933559 GTTT-T-ATT
1 -TTTATAATT
*
51933567 AATTATAATT
1 -TTTATAATT
*
51933577 TATTAGAATT
1 T-TTATAATT
* *
51933587 ATTAGAATT
1 TTTATAATT
*
51933596 ATTATAATAT
1 TTTATAAT-T
*
51933606 TTTAATTATT
1 TTT-ATAATT
51933616 TTTATAAGTT
1 TTTATAA-TT
*
51933626 TATATCAATT
1 TTTAT-AATT
*
51933636 TTCAT-ATT
1 TTTATAATT
51933644 TTTA-ATATT
1 TTTATA-ATT
*
51933653 TTTTTAAT
1 TTTATAAT
51933661 AATTAATAAT
Statistics
Matches: 139, Mismatches: 30, Indels: 38
0.67 0.14 0.18
Matches are distributed among these distances:
7 1 0.01
8 13 0.09
9 54 0.39
10 56 0.40
11 15 0.11
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (9 bp):
TTTATAATT
Found at i:51933551 original size:20 final size:18
Alignment explanation
Indices: 51933502--51933552 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 18
51933492 TTTAATACTT
51933502 TTTTATATT-TTTTTATAA
1 TTTTA-ATTATTTTTATAA
* *
51933520 TTTTTATGATTTTTATAGGA
1 TTTTAATTATTTTTATA--A
51933540 TTTTAATTATTTT
1 TTTTAATTATTTT
51933553 AAATATGTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 2 0.08
18 12 0.46
20 12 0.46
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (18 bp):
TTTTAATTATTTTTATAA
Found at i:51939960 original size:23 final size:23
Alignment explanation
Indices: 51939933--51940030 Score: 171
Period size: 23 Copynumber: 4.3 Consensus size: 23
51939923 AGTGTTATTG
51939933 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
51939956 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
51939979 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
51940001 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
51940024 ATCAGTG
1 ATCAGTG
51940031 TGGCACTTAT
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
22 21 0.30
23 50 0.70
ACGTcount: A:0.20, C:0.22, G:0.27, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:51939999 original size:45 final size:45
Alignment explanation
Indices: 51939935--51940023 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
51939925 TGTTATTGAT
*
51939935 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
51939980 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
51940024 ATCAGTGTGG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.19, C:0.24, G:0.27, T:0.30
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:51947330 original size:23 final size:23
Alignment explanation
Indices: 51947303--51947400 Score: 171
Period size: 23 Copynumber: 4.3 Consensus size: 23
51947293 AGTGTTATTG
51947303 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
51947326 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
51947349 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
51947371 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
51947394 ATCAGTG
1 ATCAGTG
51947401 TGGCACTTAT
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
22 21 0.30
23 50 0.70
ACGTcount: A:0.20, C:0.22, G:0.27, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:51947369 original size:45 final size:45
Alignment explanation
Indices: 51947305--51947393 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
51947295 TGTTATTGAT
*
51947305 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
51947350 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
51947394 ATCAGTGTGG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.19, C:0.24, G:0.27, T:0.30
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:51954121 original size:22 final size:23
Alignment explanation
Indices: 51954068--51954122 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
51954058 ATAAATATTA
*
51954068 TATATAAAGAAATAGTTGATGTT
1 TATAAAAAGAAATAGTTGATGTT
* * *
51954091 TTTAAAAAGTAATATTTGAT-TT
1 TATAAAAAGAAATAGTTGATGTT
51954113 TATAAAAAGA
1 TATAAAAAGA
51954123 TGAATTAAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
22 10 0.38
23 16 0.62
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (23 bp):
TATAAAAAGAAATAGTTGATGTT
Found at i:51954194 original size:32 final size:33
Alignment explanation
Indices: 51954135--51954200 Score: 80
Period size: 32 Copynumber: 2.0 Consensus size: 33
51954125 AATTAAAAAT
* * *
51954135 AAAACAACTTGAAAAAAATATATTTATTAATTA
1 AAAAAAACTTGAAAAAAACATAATTATTAATTA
* *
51954168 AAAAAAACTT-AAAACAACATAATTATTATTTA
1 AAAAAAACTTGAAAAAAACATAATTATTAATTA
51954200 A
1 A
51954201 TGTGTCGAGA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
32 19 0.68
33 9 0.32
ACGTcount: A:0.59, C:0.08, G:0.02, T:0.32
Consensus pattern (33 bp):
AAAAAAACTTGAAAAAAACATAATTATTAATTA
Found at i:51954352 original size:3 final size:3
Alignment explanation
Indices: 51954344--51954373 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
51954334 ATTTTAGAAT
51954344 TTA TTA TTA TTA TTA TTA TTA TTA TATA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TT
51954374 TAGGGAGGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:51955061 original size:19 final size:19
Alignment explanation
Indices: 51955029--51955082 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
51955019 TAATAAAAAT
* *
51955029 TAAAAAATAGAAAAAATTA
1 TAAAAAAAATAAAAAATTA
**
51955048 TAAAAAAAATAAAATTTTA
1 TAAAAAAAATAAAAAATTA
**
51955067 TAAAAATCATAAAAAA
1 TAAAAAAAATAAAAAA
51955083 ATCAAATGCA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (19 bp):
TAAAAAAAATAAAAAATTA
Found at i:51955333 original size:29 final size:28
Alignment explanation
Indices: 51955301--51955401 Score: 96
Period size: 29 Copynumber: 3.5 Consensus size: 28
51955291 CTTCACATTT
*
51955301 TTTTATAATTTTCTTACGACTTTATAAAA
1 TTTTATAATTTT-TTACGAATTTATAAAA
* * * *
51955330 TTTTATAATTTTTTTCTATATTTCTATATA
1 TTTTATAATTTTTTACGA-ATTTATA-AAA
* * *
51955360 TTTTATAATTTTTTAAGATTTTAT-AAT
1 TTTTATAATTTTTTACGAATTTATAAAA
51955387 TTTTATAATTTTTTA
1 TTTTATAATTTTTTA
51955402 ATATTTTTTT
Statistics
Matches: 58, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
27 16 0.28
28 4 0.07
29 21 0.36
30 17 0.29
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (28 bp):
TTTTATAATTTTTTACGAATTTATAAAA
Found at i:51955341 original size:8 final size:8
Alignment explanation
Indices: 51955328--51955450 Score: 53
Period size: 8 Copynumber: 15.0 Consensus size: 8
51955318 GACTTTATAA
51955328 AATTTTAT
1 AATTTTAT
51955336 AATTTT-T
1 AATTTTAT
*
51955343 --TTCTAT
1 AATTTTAT
51955349 -ATTTCTAT
1 AATTT-TAT
51955357 ATATTTTAT
1 A-ATTTTAT
*
51955366 AATTTTTT
1 AATTTTAT
51955374 AAGATTTTAT
1 -A-ATTTTAT
51955384 AATTTTTAT
1 AA-TTTTAT
*
51955393 AATTTTTT
1 AATTTTAT
*
51955401 AATATT-T
1 AATTTTAT
51955408 --TTTTAT
1 AATTTTAT
*
51955414 AGTTTTATT
1 AATTTTA-T
*
51955423 AGAATTTAAT
1 --AATTTTAT
51955433 AATTTTTAT
1 AA-TTTTAT
51955442 AACTTTTAT
1 AA-TTTTAT
51955451 TTATTTTTAT
Statistics
Matches: 89, Mismatches: 11, Indels: 29
0.69 0.09 0.22
Matches are distributed among these distances:
5 6 0.07
6 2 0.02
7 4 0.04
8 33 0.37
9 28 0.31
10 11 0.12
11 5 0.06
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (8 bp):
AATTTTAT
Found at i:51955343 original size:10 final size:10
Alignment explanation
Indices: 51955330--51955429 Score: 59
Period size: 10 Copynumber: 10.1 Consensus size: 10
51955320 CTTTATAAAA
51955330 TTTTATAATT
1 TTTTATAATT
*
51955340 TTTT-TCTATAT
1 TTTTAT-AAT-T
* *
51955351 TTCTAT-ATA
1 TTTTATAATT
51955360 TTTTATAATT
1 TTTTATAATT
51955370 TTTTA-AGA--
1 TTTTATA-ATT
51955378 TTTTATAA-T
1 TTTTATAATT
51955387 TTTTATAATT
1 TTTTATAATT
*
51955397 TTTTAATATTT
1 TTTT-ATAATT
*
51955408 TTTTATAGTT
1 TTTTATAATT
*
51955418 TTATTAGAATT
1 TT-TTATAATT
51955429 T
1 T
51955430 AATAATTTTT
Statistics
Matches: 71, Mismatches: 9, Indels: 19
0.72 0.09 0.19
Matches are distributed among these distances:
8 6 0.08
9 16 0.23
10 28 0.39
11 20 0.28
12 1 0.01
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (10 bp):
TTTTATAATT
Found at i:51955372 original size:9 final size:9
Alignment explanation
Indices: 51955360--51955460 Score: 62
Period size: 9 Copynumber: 10.7 Consensus size: 9
51955350 TTTCTATATA
51955360 TTTTATAAT
1 TTTTATAAT
*
51955369 TTTT-TAAGA
1 TTTTATAA-T
51955378 TTTTATAAT
1 TTTTATAAT
51955387 TTTTATAAT
1 TTTTATAAT
51955396 TTTT-TAATAT
1 TTTTAT-A-AT
* *
51955406 TTTTTTATAG
1 TTTTATA-AT
*
51955416 TTTTATTAGAA
1 TTTTA-TA-AT
*
51955427 TTTAATAAT
1 TTTTATAAT
*
51955436 TTTTATAAC
1 TTTTATAAT
*
51955445 TTTTATTTAT
1 TTTTA-TAAT
51955455 TTTTAT
1 TTTTAT
51955461 TTTTATTTTT
Statistics
Matches: 73, Mismatches: 12, Indels: 14
0.74 0.12 0.14
Matches are distributed among these distances:
8 4 0.05
9 36 0.49
10 25 0.34
11 8 0.11
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (9 bp):
TTTTATAAT
Found at i:51955461 original size:6 final size:6
Alignment explanation
Indices: 51955450--51955488 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
51955440 ATAACTTTTA
51955450 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTT
51955489 TATCATTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:51955499 original size:18 final size:18
Alignment explanation
Indices: 51955457--51955499 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
51955447 TTATTTATTT
**
51955457 TTATTTTTATTTTTATTT
1 TTATTTTTATTTTTATCA
51955475 TTATTTTTATTTTTTATCA
1 TTATTTTTA-TTTTTATCA
51955494 TT-TTTT
1 TTATTTT
51955500 GCCACATGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.81
Consensus pattern (18 bp):
TTATTTTTATTTTTATCA
Found at i:51956813 original size:25 final size:23
Alignment explanation
Indices: 51956760--51956823 Score: 87
Period size: 25 Copynumber: 2.7 Consensus size: 23
51956750 AAATTTTCAT
51956760 TTTTAAATATA--TTAATTTAAA
1 TTTTAAATATATTTTAATTTAAA
51956781 TTTATAAATATATTTATAATTTATAA
1 TTT-TAAATATATTT-TAATTTA-AA
51956807 TTTTAAATATATTTTAA
1 TTTTAAATATATTTTAA
51956824 AGTATAAACC
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
21 3 0.08
22 8 0.21
24 4 0.11
25 18 0.47
26 5 0.13
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TTTTAAATATATTTTAATTTAAA
Found at i:51956862 original size:10 final size:10
Alignment explanation
Indices: 51956843--51956892 Score: 50
Period size: 10 Copynumber: 5.2 Consensus size: 10
51956833 CAATCCATAT
*
51956843 AATTAAAAAA
1 AATTATAAAA
51956853 AATTAT-AAA
1 AATTATAAAA
*
51956862 AAGTATAAAA
1 AATTATAAAA
* *
51956872 AAGTATTAAA
1 AATTATAAAA
51956882 AATTA-AAAA
1 AATTATAAAA
51956891 AA
1 AA
51956893 ACTATTTGTC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
9 13 0.38
10 21 0.62
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (10 bp):
AATTATAAAA
Found at i:51956873 original size:19 final size:18
Alignment explanation
Indices: 51956849--51956891 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
51956839 ATATAATTAA
*
51956849 AAAAAATTA-TAAAAAGTAT
1 AAAAAAGTATTAAAAA-T-T
51956868 AAAAAAGTATTAAAAATT
1 AAAAAAGTATTAAAAATT
51956886 AAAAAA
1 AAAAAA
51956892 AACTATTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 7 0.32
19 9 0.41
20 6 0.27
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (18 bp):
AAAAAAGTATTAAAAATT
Found at i:51956892 original size:19 final size:19
Alignment explanation
Indices: 51956843--51956893 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
51956833 CAATCCATAT
51956843 AATTAAAAAAAATTATAAA
1 AATTAAAAAAAATTATAAA
* * *
51956862 AAGTATAAAAAAGTATTAAA
1 AATTAAAAAAAATTA-TAAA
51956882 AATTAAAAAAAA
1 AATTAAAAAAAA
51956894 CTATTTGTCA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.24
Consensus pattern (19 bp):
AATTAAAAAAAATTATAAA
Found at i:51963364 original size:44 final size:46
Alignment explanation
Indices: 51963279--51963366 Score: 119
Period size: 44 Copynumber: 2.0 Consensus size: 46
51963269 AATGTAGTGG
*
51963279 AATAGAGCTGTAACCAGTAATTCAGTTGTTTGGTTGAATGGAATGA
1 AATAGAGCTGTAACCAATAATTCAGTTGTTTGGTTGAATGGAATGA
* *
51963325 AATAGAGCTGTAA-TAAT-ATTCTAG-TGTTTGGTTTAATGGAAT
1 AATAGAGCTGTAACCAATAATTC-AGTTGTTTGGTTGAATGGAAT
51963367 AGATGTTGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
44 21 0.55
45 4 0.11
46 13 0.34
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (46 bp):
AATAGAGCTGTAACCAATAATTCAGTTGTTTGGTTGAATGGAATGA
Found at i:51963564 original size:57 final size:59
Alignment explanation
Indices: 51963447--51963574 Score: 172
Period size: 57 Copynumber: 2.2 Consensus size: 59
51963437 TGATTATTAA
* *
51963447 TATTATTAAATATAATTTAATAAAAATGATAATAAATAATTTAATCATATTTTAACATAAT
1 TATTATTAAATAAAATTTAAT-AAAA-GATAATAAATAATTTAATAATATTTTAACATAAT
* *
51963508 TATTATTAAATAAAATTTAAT-AAA-ATAATATATAATTTAATAA-ATTTTTAATATAAT
1 TATTATTAAATAAAATTTAATAAAAGATAATAAATAATTTAATAATA-TTTTAACATAAT
51963565 TATTATTAAA
1 TATTATTAAA
51963575 ATATGAATTA
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
56 1 0.02
57 38 0.61
59 3 0.05
61 20 0.32
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.45
Consensus pattern (59 bp):
TATTATTAAATAAAATTTAATAAAAGATAATAAATAATTTAATAATATTTTAACATAAT
Found at i:51966753 original size:14 final size:14
Alignment explanation
Indices: 51966734--51966760 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
51966724 ATTATAATGT
51966734 ATTTGGAATTAATA
1 ATTTGGAATTAATA
51966748 ATTTGGAATTAAT
1 ATTTGGAATTAAT
51966761 TATTAGATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (14 bp):
ATTTGGAATTAATA
Found at i:51967879 original size:23 final size:23
Alignment explanation
Indices: 51967849--51967965 Score: 132
Period size: 23 Copynumber: 5.1 Consensus size: 23
51967839 TGCATTTCAG
51967849 TATCAAAATCAGTTCGGTAACAA
1 TATCAAAATCAGTTCGGTAACAA
* *
51967872 TATCAAAATTAGTTTGGTAA-AA
1 TATCAAAATCAGTTCGGTAACAA
** *
51967894 GTATCAAAATCAGTAT-GGTAGTAG
1 -TATCAAAATCAGT-TCGGTAACAA
*
51967918 TATCAAAATCAATTCGGTAACAA
1 TATCAAAATCAGTTCGGTAACAA
*
51967941 TATCAAAAT-AGTTCGATAACAA
1 TATCAAAATCAGTTCGGTAACAA
51967963 TAT
1 TAT
51967966 TAGCATATAT
Statistics
Matches: 79, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
22 17 0.22
23 60 0.76
24 2 0.03
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (23 bp):
TATCAAAATCAGTTCGGTAACAA
Done.