Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 47 of 204
Found at i:15676784 original size:21 final size:21
Alignment explanation
Indices: 15676749--15676816 Score: 86
Period size: 22 Copynumber: 3.3 Consensus size: 21
15676739 CAAAAGTGAA
15676749 AATCATGTG--ATTAGCAATC
1 AATCATGTGACATTAGCAATC
15676768 AATCATGTGACATTAGCAATC
1 AATCATGTGACATTAGCAATC
* * *
15676789 AAACATTGTTACATCAGCAATC
1 AATCA-TGTGACATTAGCAATC
15676811 AATCAT
1 AATCAT
15676817 TATTGAAGGG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
19 9 0.21
21 15 0.36
22 18 0.43
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (21 bp):
AATCATGTGACATTAGCAATC
Found at i:15681783 original size:40 final size:40
Alignment explanation
Indices: 15681717--15681811 Score: 120
Period size: 40 Copynumber: 2.4 Consensus size: 40
15681707 CCCTTGTTTA
* *
15681717 TACTTCGGTACCCCTGAATCGCACATACGTGCCCCTATTTG
1 TACTTCGGTA-CCCTGAATCGCACATACATGCCCCTACTTG
* *
15681758 TACTTCGATACCCTGAA-CTGCACATACATGCCCCTGCTTG
1 TACTTCGGTACCCTGAATC-GCACATACATGCCCCTACTTG
*
15681798 TACTACGGTACCCT
1 TACTTCGGTACCCT
15681812 TGGATATACT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.02
40 37 0.79
41 9 0.19
ACGTcount: A:0.21, C:0.35, G:0.16, T:0.28
Consensus pattern (40 bp):
TACTTCGGTACCCTGAATCGCACATACATGCCCCTACTTG
Found at i:15692133 original size:17 final size:18
Alignment explanation
Indices: 15692098--15692140 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
15692088 GGGTCTGATT
15692098 ATTATATAATAAAATATAA
1 ATTATA-AATAAAATATAA
*
15692117 ATTATAAATATAA-ATAA
1 ATTATAAATAAAATATAA
15692134 ATTATAA
1 ATTATAA
15692141 TAATCGTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 11 0.48
18 6 0.26
19 6 0.26
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
ATTATAAATAAAATATAA
Found at i:15693797 original size:9 final size:9
Alignment explanation
Indices: 15693780--15693873 Score: 134
Period size: 9 Copynumber: 10.4 Consensus size: 9
15693770 GTAGTGATTC
*
15693780 AATTTGGTT
1 AATTCGGTT
15693789 AATTCGGTT
1 AATTCGGTT
*
15693798 AATTCGGGT
1 AATTCGGTT
15693807 AATTCGGTT
1 AATTCGGTT
* *
15693816 AGTTCGGGT
1 AATTCGGTT
15693825 AATTCGGTT
1 AATTCGGTT
*
15693834 AATTCGGGT
1 AATTCGGTT
15693843 AATTCGGTT
1 AATTCGGTT
15693852 AATTCGGTT
1 AATTCGGTT
*
15693861 AATTCGATT
1 AATTCGGTT
15693870 AATT
1 AATT
15693874 TTTAACCAAA
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 75 1.00
ACGTcount: A:0.23, C:0.10, G:0.24, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:15695682 original size:19 final size:18
Alignment explanation
Indices: 15695660--15695697 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
15695650 AAAATTACAA
15695660 AAAAATTCAAAATATTTAT
1 AAAAATTCAAAA-ATTTAT
*
15695679 AAAAATTCCAAAATTTAT
1 AAAAATTCAAAAATTTAT
15695697 A
1 A
15695698 TTTTAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAAATTCAAAAATTTAT
Found at i:15696173 original size:18 final size:18
Alignment explanation
Indices: 15696150--15696184 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
15696140 TAAACCGTCT
15696150 GTTCTTCTTCTTTTTTTG
1 GTTCTTCTTCTTTTTTTG
*
15696168 GTTCTTTTTCTTTTTTT
1 GTTCTTCTTCTTTTTTT
15696185 TCTTTCTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.00, C:0.14, G:0.09, T:0.77
Consensus pattern (18 bp):
GTTCTTCTTCTTTTTTTG
Found at i:15705135 original size:31 final size:31
Alignment explanation
Indices: 15705068--15705137 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
15705058 CTTAACAGTC
15705068 TAATGACTTAAATAAGAACTTTTGAATAACT
1 TAATGACTTAAATAAGAACTTTTGAATAACT
* * * * *
15705099 CAATGACTTAAGTGAA-AGCTTTTGAATGATT
1 TAATGACTTAAAT-AAGAACTTTTGAATAACT
15705130 TAATGACT
1 TAATGACT
15705138 ATTTTGTAAC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
31 30 0.94
32 2 0.06
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (31 bp):
TAATGACTTAAATAAGAACTTTTGAATAACT
Found at i:15715691 original size:30 final size:28
Alignment explanation
Indices: 15715624--15715691 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 28
15715614 CTTAAACTTT
*
15715624 ATTTAAGAAAAAAAATTAACTTGATTAAA
1 ATTTAA-AAAAAAAATTAACTTGATCAAA
* *
15715653 ATAATAAAAACAAAAATTAAATTTGATCAAA
1 AT-TTAAAAA-AAAAATT-AACTTGATCAAA
15715684 ATTTAAAA
1 ATTTAAAA
15715692 TTACACTTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
29 5 0.16
30 15 0.47
31 12 0.38
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.29
Consensus pattern (28 bp):
ATTTAAAAAAAAAATTAACTTGATCAAA
Found at i:15716791 original size:55 final size:56
Alignment explanation
Indices: 15716707--15716836 Score: 190
Period size: 55 Copynumber: 2.3 Consensus size: 56
15716697 TTTTTTTCGT
* * * *
15716707 GTGCTGGGATACTGATGGCCGGCATCCTTGTACCAGGTTTGAGAAAAAAATTTT-G
1 GTGCTGGGATACTGATGGCCGACACCCTTGTACCAGATTTGAAAAAAAAATTTTGG
* * *
15716762 GTGCTAGGACACTGATGGTCGACACCCTTGTACCAGATTTGAAAAAAAAATTTTGG
1 GTGCTGGGATACTGATGGCCGACACCCTTGTACCAGATTTGAAAAAAAAATTTTGG
15716818 GTGCTGGGATACTGATGGC
1 GTGCTGGGATACTGATGGC
15716837 TGGCAGCCAC
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
55 47 0.73
56 17 0.27
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (56 bp):
GTGCTGGGATACTGATGGCCGACACCCTTGTACCAGATTTGAAAAAAAAATTTTGG
Found at i:15717418 original size:21 final size:21
Alignment explanation
Indices: 15717392--15717438 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
15717382 TTTGTTGGTC
*
15717392 AAATTTTATATTTTCGTATAT
1 AAATTTTATATTTTCGTAAAT
15717413 AAATTTTATATTTTCGTAAAT
1 AAATTTTATATTTTCGTAAAT
15717434 AAATT
1 AAATT
15717439 ATTCTAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.53
Consensus pattern (21 bp):
AAATTTTATATTTTCGTAAAT
Found at i:15717433 original size:110 final size:110
Alignment explanation
Indices: 15717302--15717550 Score: 444
Period size: 110 Copynumber: 2.3 Consensus size: 110
15717292 ATTTGTTAGT
* * *
15717302 TAAATTTTATATTTTTGTAAATAAATTATTCTAAAATGTTTGTATTATTTTGGGGTGTTGTAAAA
1 TAAATTTTATATTTTCGTAAATAAATTATTCTAAAATGTTTGAATTATTTTGGGGTGCTGTAAAA
*
15717367 ATATTTTAATTCATATTTGTTGGTCAAATTTTATATTTTCGTATA
66 ATATTTTAATCCATATTTGTTGGTCAAATTTTATATTTTCGTATA
15717412 TAAATTTTATATTTTCGTAAATAAATTATTCTAAAATGTTTGAATTATTTTGGGGTGCTGTAAAA
1 TAAATTTTATATTTTCGTAAATAAATTATTCTAAAATGTTTGAATTATTTTGGGGTGCTGTAAAA
15717477 ATATTTTAATCCATATTTGTTGGTCAAATTTTATATTTTCGTATA
66 ATATTTTAATCCATATTTGTTGGTCAAATTTTATATTTTCGTATA
* *
15717522 TAAATTTTATATTTTCGTATATACATTAT
1 TAAATTTTATATTTTCGTAAATAAATTAT
15717551 ATATATTTTT
Statistics
Matches: 133, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
110 133 1.00
ACGTcount: A:0.33, C:0.05, G:0.11, T:0.51
Consensus pattern (110 bp):
TAAATTTTATATTTTCGTAAATAAATTATTCTAAAATGTTTGAATTATTTTGGGGTGCTGTAAAA
ATATTTTAATCCATATTTGTTGGTCAAATTTTATATTTTCGTATA
Found at i:15717555 original size:23 final size:21
Alignment explanation
Indices: 15717502--15717564 Score: 90
Period size: 21 Copynumber: 2.9 Consensus size: 21
15717492 TTTGTTGGTC
15717502 AAATTTTATATTTTCGTATAT
1 AAATTTTATATTTTCGTATAT
15717523 AAATTTTATATTTTCGTATAT
1 AAATTTTATATTTTCGTATAT
*
15717544 ACATTATATATATTTTTCGTA
1 AAATT-T-TATA-TTTTCGTA
15717565 AATTAGTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
21 25 0.66
22 1 0.03
23 4 0.11
24 8 0.21
ACGTcount: A:0.33, C:0.06, G:0.05, T:0.56
Consensus pattern (21 bp):
AAATTTTATATTTTCGTATAT
Found at i:15717632 original size:18 final size:17
Alignment explanation
Indices: 15717605--15717638 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
15717595 TTTATTATTA
*
15717605 TTTGAGTTATATTATTTG
1 TTTGAATTATA-TATTTG
15717623 TTTGAATTATATATTT
1 TTTGAATTATATATTT
15717639 TTGACTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.26, C:0.00, G:0.12, T:0.62
Consensus pattern (17 bp):
TTTGAATTATATATTTG
Found at i:15718370 original size:15 final size:16
Alignment explanation
Indices: 15718334--15718389 Score: 55
Period size: 15 Copynumber: 3.6 Consensus size: 16
15718324 TTATATTATA
*
15718334 AAAATATTATTTAATT
1 AAAATATTATTAAATT
15718350 AAAATATTA-TAAATT
1 AAAATATTATTAAATT
*
15718365 ATAATA--ATTAAAGTT
1 AAAATATTATTAAA-TT
*
15718380 AAGATATTAT
1 AAAATATTAT
15718390 ATTATAGGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
13 1 0.03
14 4 0.12
15 16 0.50
16 9 0.28
17 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.43
Consensus pattern (16 bp):
AAAATATTATTAAATT
Found at i:15719885 original size:23 final size:23
Alignment explanation
Indices: 15719858--15719933 Score: 113
Period size: 23 Copynumber: 3.4 Consensus size: 23
15719848 GGCTTTGTTG
15719858 ATCAGGCACTTTATGTGTCGTAC
1 ATCAGGCACTTTATGTGTCGTAC
*
15719881 ATCAGGCACTTTATGTGTTGTATC
1 ATCAGGCACTTTATGTGTCGTA-C
15719905 -TCAGGCACTTTATGTGTCGT--
1 ATCAGGCACTTTATGTGTCGTAC
15719925 ATCAGGCAC
1 ATCAGGCAC
15719934 CCCGTGTGTC
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
21 8 0.16
23 40 0.82
24 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (23 bp):
ATCAGGCACTTTATGTGTCGTAC
Found at i:15724534 original size:19 final size:19
Alignment explanation
Indices: 15724503--15724551 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
15724493 AATTTAATTA
*
15724503 AATT-TTAATTTAAACTAT
1 AATTATTAAGTTAAACTAT
*
15724521 AATTATTAAGTTAAACTTT
1 AATTATTAAGTTAAACTAT
*
15724540 AATTATTTAGTT
1 AATTATTAAGTT
15724552 TTAAACTTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 23 0.85
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (19 bp):
AATTATTAAGTTAAACTAT
Found at i:15724789 original size:9 final size:9
Alignment explanation
Indices: 15724765--15724797 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
15724755 AATAATTGAA
15724765 TAATTTATT
1 TAATTTATT
15724774 T-ATTTATT
1 TAATTTATT
15724782 TAATTTATT
1 TAATTTATT
*
15724791 TACTTTA
1 TAATTTA
15724798 CACTATATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (9 bp):
TAATTTATT
Found at i:15724809 original size:51 final size:47
Alignment explanation
Indices: 15724752--15724925 Score: 210
Period size: 47 Copynumber: 3.6 Consensus size: 47
15724742 TGTATTAAAT
15724752 TATAATAATTGAATAATTTATTTATTTATTTAATTTATTTACTTTACACTA
1 TATAATAATT-AATAATTTATTTATTTA-TTAA--TATTTACTTTACACTA
* * *
15724803 TATAATAACTTAATAATTTATTTATTTA-AAACATTTATTTTACACTA
1 TATAATAA-TTAATAATTTATTTATTTATTAATATTTACTTTACACTA
*
15724850 TATAATAATCAAATAATTTATTTATTTAATT-AT-TTTACTTTACACTA
1 TATAATAAT-TAATAATTTATTTATTT-ATTAATATTTACTTTACACTA
15724897 TATAATAATTTAATAATTTATTTACTTTA
1 TATAATAA-TTAATAATTTATTTA-TTTA
15724926 CACTATATAA
Statistics
Matches: 109, Mismatches: 8, Indels: 16
0.82 0.06 0.12
Matches are distributed among these distances:
46 1 0.01
47 73 0.67
48 6 0.06
49 2 0.02
51 25 0.23
52 2 0.02
ACGTcount: A:0.40, C:0.07, G:0.01, T:0.52
Consensus pattern (47 bp):
TATAATAATTAATAATTTATTTATTTATTAATATTTACTTTACACTA
Found at i:15724921 original size:34 final size:33
Alignment explanation
Indices: 15724883--15724957 Score: 116
Period size: 34 Copynumber: 2.3 Consensus size: 33
15724873 ATTTAATTAT
**
15724883 TTTACTTTACACTATATAATAATTTAATAATTTA
1 TTTACTTTACACTATATAATAATGGAAT-ATTTA
15724917 TTTACTTTACACTATATAATAATGGAATATTTA
1 TTTACTTTACACTATATAATAATGGAATATTTA
15724950 TTTA-TTTA
1 TTTACTTTA
15724958 ATAATTGGAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
32 4 0.10
33 9 0.23
34 26 0.67
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.51
Consensus pattern (33 bp):
TTTACTTTACACTATATAATAATGGAATATTTA
Found at i:15728682 original size:24 final size:24
Alignment explanation
Indices: 15728655--15728703 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
15728645 TAAAGTGATC
*
15728655 AAGGGTCTCTTTGGATGGACATTT
1 AAGGGTCTCTTTGGATGAACATTT
15728679 AAGGGTCTCTTTGGATGAACATTT
1 AAGGGTCTCTTTGGATGAACATTT
15728703 A
1 A
15728704 TCTTTAGTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.12, G:0.27, T:0.37
Consensus pattern (24 bp):
AAGGGTCTCTTTGGATGAACATTT
Found at i:15729145 original size:15 final size:15
Alignment explanation
Indices: 15729125--15729154 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
15729115 CTATTTGAGT
15729125 AGTTCACTTCACGGG
1 AGTTCACTTCACGGG
15729140 AGTTCACTTCACGGG
1 AGTTCACTTCACGGG
15729155 TAGAGATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (15 bp):
AGTTCACTTCACGGG
Found at i:15736881 original size:15 final size:15
Alignment explanation
Indices: 15736857--15736888 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
15736847 TATACATGCA
*
15736857 AAATATAAAAGATAT
1 AAATACAAAAGATAT
15736872 AAATACAAAAGATAT
1 AAATACAAAAGATAT
15736887 AA
1 AA
15736889 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.03, G:0.06, T:0.22
Consensus pattern (15 bp):
AAATACAAAAGATAT
Found at i:15738073 original size:15 final size:15
Alignment explanation
Indices: 15738048--15738082 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
15738038 AACTCTATTT
*
15738048 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
15738062 TAATTAATATTAAGA
1 TAATTAATATTAAGA
15738077 TAATTA
1 TAATTA
15738083 TTAAAGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:15740190 original size:15 final size:14
Alignment explanation
Indices: 15740169--15740204 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
15740159 ATAATCCTTA
*
15740169 ATAATTATCTTAAT
1 ATAATTATCCTAAT
15740183 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
15740198 ATAATTA
1 ATAATTA
15740205 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:15744152 original size:14 final size:14
Alignment explanation
Indices: 15744133--15744159 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15744123 CATGATAAAA
15744133 TAAAATACAAGTGG
1 TAAAATACAAGTGG
15744147 TAAAATACAAGTG
1 TAAAATACAAGTG
15744160 TGCAAGAGAA
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:0.52, C:0.07, G:0.19, T:0.22
Consensus pattern (14 bp):
TAAAATACAAGTGG
Found at i:15748991 original size:14 final size:14
Alignment explanation
Indices: 15748972--15748998 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15748962 CATGATAAAC
15748972 TAAAATACAAGTGG
1 TAAAATACAAGTGG
15748986 TAAAATACAAGTG
1 TAAAATACAAGTG
15748999 TGAAAGAGAA
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:0.52, C:0.07, G:0.19, T:0.22
Consensus pattern (14 bp):
TAAAATACAAGTGG
Found at i:15750916 original size:3 final size:3
Alignment explanation
Indices: 15750910--15750947 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
15750900 TATCGATGAT
*
15750910 GAG GAG GTG GAG GAG GAG GAG GAG GAG GAG GAG GAG GA
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GA
15750948 CGACGACGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.32, C:0.00, G:0.66, T:0.03
Consensus pattern (3 bp):
GAG
Found at i:15753903 original size:17 final size:17
Alignment explanation
Indices: 15753881--15753913 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
15753871 TGTTTATATA
*
15753881 TTAATTTTTTATGTATT
1 TTAATTTCTTATGTATT
15753898 TTAATTTCTTATGTAT
1 TTAATTTCTTATGTAT
15753914 ATTTGGCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.03, G:0.06, T:0.67
Consensus pattern (17 bp):
TTAATTTCTTATGTATT
Found at i:15755108 original size:15 final size:15
Alignment explanation
Indices: 15755088--15755118 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
15755078 GTTATGTAAG
15755088 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
15755103 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
15755118 T
1 T
15755119 ATGTTGTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:15759431 original size:15 final size:15
Alignment explanation
Indices: 15759411--15759441 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
15759401 GTTATGTAAG
15759411 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
15759426 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
15759441 T
1 T
15759442 ATGTTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:15760017 original size:53 final size:53
Alignment explanation
Indices: 15759937--15760095 Score: 318
Period size: 53 Copynumber: 3.0 Consensus size: 53
15759927 ACAAACACTC
15759937 TTATAGTCCATTATTCCTAACGTAAGCAAGTTGAATTCTCCCAAATACCTTAG
1 TTATAGTCCATTATTCCTAACGTAAGCAAGTTGAATTCTCCCAAATACCTTAG
15759990 TTATAGTCCATTATTCCTAACGTAAGCAAGTTGAATTCTCCCAAATACCTTAG
1 TTATAGTCCATTATTCCTAACGTAAGCAAGTTGAATTCTCCCAAATACCTTAG
15760043 TTATAGTCCATTATTCCTAACGTAAGCAAGTTGAATTCTCCCAAATACCTTAG
1 TTATAGTCCATTATTCCTAACGTAAGCAAGTTGAATTCTCCCAAATACCTTAG
15760096 ACCAATATCT
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 106 1.00
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (53 bp):
TTATAGTCCATTATTCCTAACGTAAGCAAGTTGAATTCTCCCAAATACCTTAG
Found at i:15760640 original size:43 final size:43
Alignment explanation
Indices: 15760571--15760663 Score: 116
Period size: 43 Copynumber: 2.2 Consensus size: 43
15760561 CGTGTGTCTA
15760571 CCCGTGTGTATATTCGAAATAGGGTCACACGGCCGTGTCACAG
1 CCCGTGTGTATATTCGAAATAGGGTCACACGGCCGTGTCACAG
* ** * *
15760614 CCCGTGTGTGTATTCGATGTTA-GGTCACACGGCTGTGTCGCAG
1 CCCGTGTGTATATTCGA-AATAGGGTCACACGGCCGTGTCACAG
*
15760657 GCCGTGT
1 CCCGTGT
15760664 ACGAGACCGT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 41 0.95
44 2 0.05
ACGTcount: A:0.17, C:0.25, G:0.31, T:0.27
Consensus pattern (43 bp):
CCCGTGTGTATATTCGAAATAGGGTCACACGGCCGTGTCACAG
Found at i:15761111 original size:36 final size:36
Alignment explanation
Indices: 15761064--15761137 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
15761054 TCCTTATGAT
15761064 GATATTAACCATTGGTGGTGTTAATGGACATTAATG
1 GATATTAACCATTGGTGGTGTTAATGGACATTAATG
15761100 GATATTAACCATTGGTGGTGTTAATGGACATTAATG
1 GATATTAACCATTGGTGGTGTTAATGGACATTAATG
15761136 GA
1 GA
15761138 CATACATTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.31, C:0.08, G:0.26, T:0.35
Consensus pattern (36 bp):
GATATTAACCATTGGTGGTGTTAATGGACATTAATG
Found at i:15765814 original size:21 final size:22
Alignment explanation
Indices: 15765788--15765830 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
15765778 AAGTTGAATT
15765788 TAAAGTTATGAAT-TAT-ATATA
1 TAAAGTT-TGAATGTATGATATA
15765809 TAAAGTTTGAATGTATGATATA
1 TAAAGTTTGAATGTATGATATA
15765831 AGTTCTTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.25
21 10 0.50
22 5 0.25
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.42
Consensus pattern (22 bp):
TAAAGTTTGAATGTATGATATA
Found at i:15765829 original size:20 final size:21
Alignment explanation
Indices: 15765788--15765831 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
15765778 AAGTTGAATT
*
15765788 TAAAGTTATGAATTATATATA
1 TAAAGTTATGAATTATAGATA
15765809 TAAAGTT-TGAATGTAT-GATA
1 TAAAGTTATGAAT-TATAGATA
15765829 TAA
1 TAA
15765832 GTTCTTTGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (21 bp):
TAAAGTTATGAATTATAGATA
Found at i:15765957 original size:65 final size:66
Alignment explanation
Indices: 15765874--15766088 Score: 189
Period size: 64 Copynumber: 3.4 Consensus size: 66
15765864 TATATATATA
* * * * * * *
15765874 TATATATGCACATATGGTTCGAATATATATATT-TAAAGTTCTTGAGCTGTATTTAATGTATGAA
1 TATATATACATATGTGGTTCGAATATATAGATTACAAAGTTCTTGAGCGGAATTTAATGTATGAA
15765938 T
66 T
* *
15765939 TATATATACATATGTGGTTC-AA-ATATAGGTTACAAAGTTTTTGAGCGGAATTTAATGTATGAA
1 TATATATACATATGTGGTTCGAATATATAGATTACAAAGTTCTTGAGCGGAATTTAATGTATGAA
15766002 T
66 T
* * * * * *
15766003 TTTACATACATATGTGGTTTG-A-ATATAGGTTACAAA-TTCTTTGAGCTGAAATTTAATG-CTG
1 TATATATACATATGTGGTTCGAATATATAGATTACAAAGTTC-TTGAGC-GGAATTTAATGTATG
15766064 TAA-
64 -AAT
*
15766067 -AT-TATAAATATGTGGTTCGAAT
1 TATATATACATATGTGGTTCGAAT
15766089 GTTTGTTTGC
Statistics
Matches: 124, Mismatches: 19, Indels: 15
0.78 0.12 0.09
Matches are distributed among these distances:
62 14 0.11
63 11 0.09
64 70 0.56
65 29 0.23
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.41
Consensus pattern (66 bp):
TATATATACATATGTGGTTCGAATATATAGATTACAAAGTTCTTGAGCGGAATTTAATGTATGAA
T
Found at i:15765994 original size:64 final size:64
Alignment explanation
Indices: 15765908--15766060 Score: 209
Period size: 64 Copynumber: 2.4 Consensus size: 64
15765898 ATATATATTT
* * * *
15765908 AAAGTTCTTGAGCTGTATTTAATGTATGAATTATATATACATATGTGGTTCAAATATAGGTTAC
1 AAAGTTTTTGAGCGGAATTTAATGTATGAATTATACATACATATGTGGTTCAAATATAGGTTAC
* **
15765972 AAAGTTTTTGAGCGGAATTTAATGTATGAATTTTACATACATATGTGGTTTGAATATAGGTTAC
1 AAAGTTTTTGAGCGGAATTTAATGTATGAATTATACATACATATGTGGTTCAAATATAGGTTAC
*
15766036 AAA-TTCTTTGAGCTGAAATTTAATG
1 AAAGTT-TTTGAGC-GGAATTTAATG
15766061 CTGTAAATTA
Statistics
Matches: 79, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
63 2 0.03
64 67 0.85
65 10 0.13
ACGTcount: A:0.34, C:0.07, G:0.18, T:0.41
Consensus pattern (64 bp):
AAAGTTTTTGAGCGGAATTTAATGTATGAATTATACATACATATGTGGTTCAAATATAGGTTAC
Found at i:15766280 original size:41 final size:41
Alignment explanation
Indices: 15766218--15766306 Score: 160
Period size: 41 Copynumber: 2.2 Consensus size: 41
15766208 AGCTTAATGC
*
15766218 CTAGAAGACTTGATGTCGGTGAATTACTTCAGACTTTATGT
1 CTAGCAGACTTGATGTCGGTGAATTACTTCAGACTTTATGT
*
15766259 CTAGCAGACTTGATGTCGGTGAATTTCTTCAGACTTTATGT
1 CTAGCAGACTTGATGTCGGTGAATTACTTCAGACTTTATGT
15766300 CTAGCAG
1 CTAGCAG
15766307 GCTTTGTGCC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (41 bp):
CTAGCAGACTTGATGTCGGTGAATTACTTCAGACTTTATGT
Found at i:15766320 original size:41 final size:41
Alignment explanation
Indices: 15766218--15766322 Score: 149
Period size: 41 Copynumber: 2.6 Consensus size: 41
15766208 AGCTTAATGC
* *
15766218 CTAGAAGACTTGATGTCGGTGAATTACTTCAGACTTTATGT
1 CTAGCAGACTTGATGCCGGTGAATTACTTCAGACTTTATGT
* *
15766259 CTAGCAGACTTGATGTCGGTGAATTTCTTCAGACTTTATGT
1 CTAGCAGACTTGATGCCGGTGAATTACTTCAGACTTTATGT
*
15766300 CTAGCAGGCTTTG-TGCCGGTGAA
1 CTAGCAGAC-TTGATGCCGGTGAA
15766323 ATGTATCGGG
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
41 56 0.95
42 3 0.05
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (41 bp):
CTAGCAGACTTGATGCCGGTGAATTACTTCAGACTTTATGT
Found at i:15767923 original size:13 final size:13
Alignment explanation
Indices: 15767905--15767939 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
15767895 CAGGGGACAC
*
15767905 GCCCGTGTGTCTA
1 GCCCGTGCGTCTA
15767918 GCCCGTGCGTCTA
1 GCCCGTGCGTCTA
*
15767931 GCCCTTGCG
1 GCCCGTGCG
15767940 GGCATTTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.06, C:0.37, G:0.31, T:0.26
Consensus pattern (13 bp):
GCCCGTGCGTCTA
Found at i:15768513 original size:2 final size:2
Alignment explanation
Indices: 15768506--15768534 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
15768496 ATACAATCTC
15768506 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15768535 CACACCAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15769102 original size:25 final size:25
Alignment explanation
Indices: 15769068--15769128 Score: 113
Period size: 25 Copynumber: 2.4 Consensus size: 25
15769058 AAATCACATA
*
15769068 AACGGGAAGCTCACATGAGCCATGT
1 AACGGGAAGCTCACATAAGCCATGT
15769093 AACGGGAAGCTCACATAAGCCATGT
1 AACGGGAAGCTCACATAAGCCATGT
15769118 AACGGGAAGCT
1 AACGGGAAGCT
15769129 TATTTGGGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.34, C:0.23, G:0.28, T:0.15
Consensus pattern (25 bp):
AACGGGAAGCTCACATAAGCCATGT
Found at i:15774644 original size:15 final size:15
Alignment explanation
Indices: 15774624--15774657 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
15774614 TATCATTTTC
15774624 ATGTTAATTATTAAT
1 ATGTTAATTATTAAT
*
15774639 ATGTTAATTATTATT
1 ATGTTAATTATTAAT
15774654 ATGT
1 ATGT
15774658 AGTGGGTCCA
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:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (15 bp):
ATGTTAATTATTAAT
Found at i:15776186 original size:9 final size:9
Alignment explanation
Indices: 15776172--15776202 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
15776162 GTTAAACGAA
15776172 TCGAGTTAT
1 TCGAGTTAT
*
15776181 TCGAGTTAA
1 TCGAGTTAT
15776190 TCGAGTTAT
1 TCGAGTTAT
15776199 TCGA
1 TCGA
15776203 ACCAACTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:15776273 original size:9 final size:9
Alignment explanation
Indices: 15776256--15776292 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
15776246 TGAGTTTTCA
15776256 AATTCGAAT
1 AATTCGAAT
*
15776265 AACTCGAAT
1 AATTCGAAT
*
15776274 AATTCAAAT
1 AATTCGAAT
15776283 AATTCGAAT
1 AATTCGAAT
15776292 A
1 A
15776293 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:15776601 original size:30 final size:31
Alignment explanation
Indices: 15776567--15776626 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
15776557 AAACCTTTTA
*
15776567 TTTTCTCCC-AAAATTTTTACTCCC-TCCCAC
1 TTTTC-CCCTAAAACTTTTACTCCCTTCCCAC
*
15776597 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCTAAAACTTTTACTCCCTTCCCA
15776627 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 3 0.12
30 18 0.69
31 5 0.19
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCTAAAACTTTTACTCCCTTCCCAC
Found at i:15776905 original size:17 final size:16
Alignment explanation
Indices: 15776883--15776942 Score: 50
Period size: 17 Copynumber: 3.6 Consensus size: 16
15776873 AATTTCACAT
15776883 TTTATATTATTGTATTA
1 TTTATATTATTG-ATTA
* *
15776900 TTTATATCATTGAATTG
1 TTTATATTATTG-ATTA
*
15776917 TTTAGTCA-TATTGAATA
1 TTTA-T-ATTATTGATTA
15776934 TTTATATTA
1 TTTATATTA
15776943 AAATTGAATT
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
15 1 0.03
16 3 0.09
17 24 0.71
18 5 0.15
19 1 0.03
ACGTcount: A:0.32, C:0.03, G:0.08, T:0.57
Consensus pattern (16 bp):
TTTATATTATTGATTA
Found at i:15777400 original size:5 final size:5
Alignment explanation
Indices: 15777390--15777417 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
15777380 CTCGAAAATT
15777390 TTCGA TTCGA TTCGA TTCGA TTCGA TTC
1 TTCGA TTCGA TTCGA TTCGA TTCGA TTC
15777418 AATCGAATGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.43
Consensus pattern (5 bp):
TTCGA
Found at i:15778819 original size:44 final size:44
Alignment explanation
Indices: 15778751--15779053 Score: 278
Period size: 51 Copynumber: 6.6 Consensus size: 44
15778741 TTTGAGTACT
* *
15778751 TCTGGTCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAGTGACAAGTGACAAGTGGTAGCTTTAGCTACACTTA
15778795 TCTGATCAGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAGTGACAAGTGAC-------AAGTGGTAGCTTTAGCTACACTTA
15778846 TCTGATCAGTGACAAGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAGTGACAAGTGACAA--G-T--G-G-TAGCTTTAGCTACACTTA
* *
15778897 TCT--T-A-T--C-AGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAGTGACAAGTGACAAGTGGTAGCTTTAGCTACACTTA
* ** *
15778934 TCTTATCAGTGACAAGTGATGAGTGGTAGCTTTAGCTACATTTA
1 TCTGATCAGTGACAAGTGACAAGTGGTAGCTTTAGCTACACTTA
*
15778978 TCTGATCAGTGACAAATGACAAGTGATGAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAGTGACAAGTGAC-----A--AGTGGTAGCTTTAGCTACACTTA
*
15779029 TCTGATCAGGGACAAGTGACAAGTG
1 TCTGATCAGTGACAAGTGACAAGTG
15779054 ATAAATGTGA
Statistics
Matches: 217, Mismatches: 14, Indels: 56
0.76 0.05 0.20
Matches are distributed among these distances:
37 21 0.10
39 2 0.01
40 1 0.00
41 2 0.01
42 1 0.00
43 1 0.00
44 75 0.35
45 1 0.00
46 2 0.01
47 2 0.01
48 1 0.00
49 2 0.01
50 1 0.00
51 105 0.48
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (44 bp):
TCTGATCAGTGACAAGTGACAAGTGGTAGCTTTAGCTACACTTA
Found at i:15778834 original size:51 final size:51
Alignment explanation
Indices: 15778758--15778915 Score: 289
Period size: 51 Copynumber: 3.1 Consensus size: 51
15778748 ACTTCTGGTC
15778758 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
15778809 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* * *
15778860 AGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTATCTTATCAGTGATA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
15778911 AGTGA
1 AGTGA
15778916 TAGCTTTAGC
Statistics
Matches: 104, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 104 1.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:15778917 original size:37 final size:37
Alignment explanation
Indices: 15778867--15778953 Score: 165
Period size: 37 Copynumber: 2.4 Consensus size: 37
15778857 ACAAGTGACA
15778867 AGTGATAAGTGATAGCTTTAGCTACACTTATCTTATC
1 AGTGATAAGTGATAGCTTTAGCTACACTTATCTTATC
15778904 AGTGATAAGTGATAGCTTTAGCTACACTTATCTTATC
1 AGTGATAAGTGATAGCTTTAGCTACACTTATCTTATC
*
15778941 AGTGACAAGTGAT
1 AGTGATAAGTGAT
15778954 GAGTGGTAGC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (37 bp):
AGTGATAAGTGATAGCTTTAGCTACACTTATCTTATC
Found at i:15778983 original size:132 final size:137
Alignment explanation
Indices: 15778765--15779047 Score: 432
Period size: 132 Copynumber: 2.1 Consensus size: 137
15778755 GTCAGTGACA
*
15778765 AGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGATAAGTGGTA
1 AGTGATAAGTGATAGCTTTAGCTACACTTATCT-ATCAGT-ACAAGTGACAAGTGATAAGTGGTA
*
15778830 GCTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGATAAGTGATAGCTTTAGCTACACT
64 GCTTTAGCTACACTTATCTGATCAGTGACAAATGACAAGTGATAAGTGATAGCTTTAGCTACACT
*
15778895 TATCTTATC
129 TATCTGATC
*
15778904 AGTGATAAGTGATAGCTTTAGCTACACTTATCT-T-A-T-C-AGTGACAAGTGATGAGTGGTAGC
1 AGTGATAAGTGATAGCTTTAGCTACACTTATCTATCAGTACAAGTGACAAGTGATAAGTGGTAGC
* * *
15778964 TTTAGCTACATTTATCTGATCAGTGACAAATGACAAGTGATGAGTGGTAGCTTTAGCTACACTTA
66 TTTAGCTACACTTATCTGATCAGTGACAAATGACAAGTGATAAGTGATAGCTTTAGCTACACTTA
15779029 TCTGATC
131 TCTGATC
* *
15779036 AGGGACAAGTGA
1 AGTGATAAGTGA
15779048 CAAGTGATAA
Statistics
Matches: 135, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
132 99 0.73
133 1 0.01
135 1 0.01
136 1 0.01
137 1 0.01
139 32 0.24
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (137 bp):
AGTGATAAGTGATAGCTTTAGCTACACTTATCTATCAGTACAAGTGACAAGTGATAAGTGGTAGC
TTTAGCTACACTTATCTGATCAGTGACAAATGACAAGTGATAAGTGATAGCTTTAGCTACACTTA
TCTGATC
Found at i:15778989 original size:37 final size:37
Alignment explanation
Indices: 15778867--15778989 Score: 138
Period size: 37 Copynumber: 3.1 Consensus size: 37
15778857 ACAAGTGACA
* *
15778867 AGTGATAAGTGATAGCTTTAGCTACACTTATCTTATC
1 AGTGATAAGTGATAGCTTTAGCTACATTTATCTGATC
* *
15778904 AGTGATAAGTGATAGCTTTAGCTACACTTATCTTATC
1 AGTGATAAGTGATAGCTTTAGCTACATTTATCTGATC
*
15778941 AGTGACAAGTGATGAGTGGTAGCTTTAGCTACATTTATCTGATC
1 AGTG---A-T-A--AGTGATAGCTTTAGCTACATTTATCTGATC
15778985 AGTGA
1 AGTGA
15778990 CAAATGACAA
Statistics
Matches: 76, Mismatches: 3, Indels: 10
0.85 0.03 0.11
Matches are distributed among these distances:
37 41 0.54
40 1 0.01
41 2 0.03
42 1 0.01
44 31 0.41
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (37 bp):
AGTGATAAGTGATAGCTTTAGCTACATTTATCTGATC
Found at i:15789305 original size:3 final size:3
Alignment explanation
Indices: 15789297--15789339 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
15789287 TCAGTTAAGC
* * *
15789297 TAA TAA TAA TAA TAA TAA TAA TAA CAA TAA TAG TAA TAG TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
15789340 TGAATTGGGG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:15791942 original size:12 final size:12
Alignment explanation
Indices: 15791921--15791952 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
15791911 ATTAATTCGG
*
15791921 TTAACTGATCGA
1 TTAACCGATCGA
15791933 TTAACCGATCGA
1 TTAACCGATCGA
15791945 TTAACCGA
1 TTAACCGA
15791953 ATTCAGCCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (12 bp):
TTAACCGATCGA
Found at i:15795120 original size:34 final size:34
Alignment explanation
Indices: 15795081--15795148 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
15795071 TGGCAGGATC
15795081 ATAATGCGAGAAAACTACTTATATTAGTAGTTAA
1 ATAATGCGAGAAAACTACTTATATTAGTAGTTAA
15795115 ATAATGCGAGAAAACTACTTATATTAGTAGTTAA
1 ATAATGCGAGAAAACTACTTATATTAGTAGTTAA
15795149 TTTAAATAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.32
Consensus pattern (34 bp):
ATAATGCGAGAAAACTACTTATATTAGTAGTTAA
Found at i:15807995 original size:30 final size:32
Alignment explanation
Indices: 15807959--15808030 Score: 78
Period size: 30 Copynumber: 2.3 Consensus size: 32
15807949 GGTGCAATTG
15807959 TATAAATATAAATTTAATTTTGATTT-AA-TA
1 TATAAATATAAATTTAATTTTGATTTCAACTA
* * *
15807989 TATAAATGA-AATTTTGATTTTGGTTTCAACTA
1 TATAAAT-ATAAATTTAATTTTGATTTCAACTA
*
15808021 TACAAATATA
1 TATAAATATA
15808031 CTTACAAAGC
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
30 21 0.62
31 4 0.12
32 9 0.26
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (32 bp):
TATAAATATAAATTTAATTTTGATTTCAACTA
Found at i:15809203 original size:54 final size:54
Alignment explanation
Indices: 15809121--15809229 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
15809111 CAAACCAATG
15809121 CCCTTGAGAGATGCTTAGGTTTACCAACCATAGTAGAAAGGAACACAAGAAGAA
1 CCCTTGAGAGATGCTTAGGTTTACCAACCATAGTAGAAAGGAACACAAGAAGAA
15809175 CCCTTGAGAGATGCTTAGGTTTACCAACCATAGTAGAAAGGAACACAAGAAGAA
1 CCCTTGAGAGATGCTTAGGTTTACCAACCATAGTAGAAAGGAACACAAGAAGAA
15809229 C
1 C
15809230 TTTTCATATA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.40, C:0.19, G:0.22, T:0.18
Consensus pattern (54 bp):
CCCTTGAGAGATGCTTAGGTTTACCAACCATAGTAGAAAGGAACACAAGAAGAA
Found at i:15811806 original size:12 final size:12
Alignment explanation
Indices: 15811789--15811831 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
15811779 TTAATTTAAT
15811789 TTTAATTATTTC
1 TTTAATTATTTC
15811801 TTTAATT-TTAAT-
1 TTTAATTATT--TC
15811813 TTTAATTATTTC
1 TTTAATTATTTC
15811825 TTTAATT
1 TTTAATT
15811832 TTAATTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
11 3 0.11
12 21 0.78
13 3 0.11
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTAATTATTTC
Found at i:15811813 original size:24 final size:24
Alignment explanation
Indices: 15811779--15811837 Score: 111
Period size: 24 Copynumber: 2.5 Consensus size: 24
15811769 CGATGACTAA
15811779 TTAA-TTTAATTTTAATTATTTCT
1 TTAATTTTAATTTTAATTATTTCT
15811802 TTAATTTTAATTTTAATTATTTCT
1 TTAATTTTAATTTTAATTATTTCT
15811826 TTAATTTTAATT
1 TTAATTTTAATT
15811838 AATTTAATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 4 0.11
24 31 0.89
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (24 bp):
TTAATTTTAATTTTAATTATTTCT
Found at i:15818261 original size:48 final size:48
Alignment explanation
Indices: 15818190--15818422 Score: 331
Period size: 48 Copynumber: 4.9 Consensus size: 48
15818180 CACTGGAGGT
* * * * * * *
15818190 GGCTTCACAACGGGAGGACTTGGGTATACAGGAGGCGTTGGTGTTGGC
1 GGCTTCACAATGGGAGGACTGGGGTAGACGGGAGGCTTTGGAGCTGGC
* * * *
15818238 GGCTTCACAATGGGAGGACTTGGGTATACAGGAGGCTTTGGAACTGGC
1 GGCTTCACAATGGGAGGACTGGGGTAGACGGGAGGCTTTGGAGCTGGC
*
15818286 GGCTTCACAATGGGAGGACTGGGGTAGACGGGAGGCTTTGGAACTGGC
1 GGCTTCACAATGGGAGGACTGGGGTAGACGGGAGGCTTTGGAGCTGGC
*
15818334 GGCTTCACAATGGGAGGACTGGGGTAGACGGGAGGCTTTGGCGCTGGC
1 GGCTTCACAATGGGAGGACTGGGGTAGACGGGAGGCTTTGGAGCTGGC
* *
15818382 GGCTTTACAATAGGAGGACTGGGGTAGACGGGAGGCTTTGG
1 GGCTTCACAATGGGAGGACTGGGGTAGACGGGAGGCTTTGG
15818423 TGGTGGTGAA
Statistics
Matches: 173, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 173 1.00
ACGTcount: A:0.20, C:0.16, G:0.42, T:0.21
Consensus pattern (48 bp):
GGCTTCACAATGGGAGGACTGGGGTAGACGGGAGGCTTTGGAGCTGGC
Found at i:15828010 original size:50 final size:51
Alignment explanation
Indices: 15827951--15828049 Score: 173
Period size: 50 Copynumber: 2.0 Consensus size: 51
15827941 CCAATGCTCT
15827951 AGGGAAACTATTTAATGATTTACACCCAATGCT-AAAGTGCTACGTTCTCA
1 AGGGAAACTATTTAATGATTTACACCCAATGCTAAAAGTGCTACGTTCTCA
* *
15828001 AGGGAAACTATTTGATGATTTACACCCAATGTTAAAAGTGCTACGTTCT
1 AGGGAAACTATTTAATGATTTACACCCAATGCTAAAAGTGCTACGTTCT
15828050 AAGTGCTAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
50 31 0.67
51 15 0.33
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Consensus pattern (51 bp):
AGGGAAACTATTTAATGATTTACACCCAATGCTAAAAGTGCTACGTTCTCA
Found at i:15830022 original size:13 final size:13
Alignment explanation
Indices: 15830000--15830035 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
15829990 TTCTTTATTA
15830000 CTTTTGAGAAGTG
1 CTTTTGAGAAGTG
*
15830013 CTTTTCAGAAGTG
1 CTTTTGAGAAGTG
15830026 CTTTTGAGAA
1 CTTTTGAGAA
15830036 ATTTGAGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.25, C:0.11, G:0.25, T:0.39
Consensus pattern (13 bp):
CTTTTGAGAAGTG
Found at i:15830576 original size:22 final size:21
Alignment explanation
Indices: 15830551--15830594 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
15830541 AAGCATATGA
*
15830551 AAATGATTTGGTTATATTCAAT
1 AAATGATTTGGTTA-ATACAAT
15830573 AAATGATTTGGTTAATACAAT
1 AAATGATTTGGTTAATACAAT
15830594 A
1 A
15830595 CTTATATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.41
Consensus pattern (21 bp):
AAATGATTTGGTTAATACAAT
Found at i:15832374 original size:21 final size:20
Alignment explanation
Indices: 15832348--15832389 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
15832338 ATCACGCTTC
*
15832348 AGCACAAGATAAGAAAAAAGA
1 AGCACAAAATAA-AAAAAAGA
*
15832369 AGCACAAAATAAAAATAAGA
1 AGCACAAAATAAAAAAAAGA
15832389 A
1 A
15832390 AACACACGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.69, C:0.10, G:0.14, T:0.07
Consensus pattern (20 bp):
AGCACAAAATAAAAAAAAGA
Found at i:15836348 original size:15 final size:15
Alignment explanation
Indices: 15836320--15836365 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 15
15836310 ACAATTAAGT
15836320 TAAAATATTTTAAAAA
1 TAAAA-ATTTTAAAAA
*
15836336 TAAAAA--TTATAAA
1 TAAAAATTTTAAAAA
*
15836349 TAAAATTTTTAAAAA
1 TAAAAATTTTAAAAA
15836364 TA
1 TA
15836366 TGTATATGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
13 11 0.44
15 9 0.36
16 5 0.20
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TAAAAATTTTAAAAA
Found at i:15841538 original size:3 final size:3
Alignment explanation
Indices: 15841530--15841613 Score: 159
Period size: 3 Copynumber: 28.0 Consensus size: 3
15841520 ATTATTCGTC
*
15841530 TAT TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
15841578 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
15841614 GGTAACTAGT
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 79 1.00
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:15844279 original size:42 final size:42
Alignment explanation
Indices: 15844204--15844287 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
15844194 CTTACAATTC
* * ** *
15844204 ATGTTGTGAGTTTGAATTATAGGAATTTTCTACTTGTGATGT
1 ATGTCGTGAATTTGAATTATAGGAATTGCCTACTTATGATGT
* *
15844246 ATGTCGTGAATTTGAGTTGTAGGAATTGCCTACTTATGATGT
1 ATGTCGTGAATTTGAATTATAGGAATTGCCTACTTATGATGT
15844288 GCACATGTGT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.24, C:0.07, G:0.25, T:0.44
Consensus pattern (42 bp):
ATGTCGTGAATTTGAATTATAGGAATTGCCTACTTATGATGT
Found at i:15846109 original size:13 final size:11
Alignment explanation
Indices: 15846061--15846198 Score: 99
Period size: 11 Copynumber: 13.6 Consensus size: 11
15846051 TAAATATATT
15846061 TATTTTT-AAA
1 TATTTTTAAAA
15846071 T-TTTTT-AAA
1 TATTTTTAAAA
15846080 -A-TTTTAAAA
1 TATTTTTAAAA
15846089 TATTTTTAAAA
1 TATTTTTAAAA
* *
15846100 TATCTTTT-TAT
1 TAT-TTTTAAAA
*
15846111 TATTTTT-TAA
1 TATTTTTAAAA
15846121 -A--TTTAAAA
1 TATTTTTAAAA
15846129 TATTTTTAAAA
1 TATTTTTAAAA
15846140 TACTTTTT-AAA
1 TA-TTTTTAAAA
*
15846151 T-TTTTT---T
1 TATTTTTAAAA
*
15846158 TAATTTTAAAA
1 TATTTTTAAAA
15846169 TATTTTTAAAA
1 TATTTTTAAAA
15846180 TATTTTTAAAA
1 TATTTTTAAAA
15846191 TACTTTTT
1 TA-TTTTT
15846199 TTAATTTTTA
Statistics
Matches: 105, Mismatches: 8, Indels: 28
0.74 0.06 0.20
Matches are distributed among these distances:
7 4 0.04
8 10 0.10
9 18 0.17
10 8 0.08
11 51 0.49
12 14 0.13
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.59
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:15846137 original size:40 final size:41
Alignment explanation
Indices: 15846063--15846205 Score: 172
Period size: 40 Copynumber: 3.5 Consensus size: 41
15846053 AATATATTTA
15846063 TTTTTAA--ATTTTTTAAAATTTTAAAATATTTTTAAAATATC
1 TTTTTAATTATTTTTT-AAA-TTTAAAATATTTTTAAAATATC
15846104 TTTTT-ATTATTTTTTAAATTTAAAATATTTTTAAAATA-C
1 TTTTTAATTATTTTTTAAATTTAAAATATTTTTAAAATATC
*
15846143 TTTTTAAATT-TTTTTTAATTTTAAAATATTTTTAAAATAT-
1 TTTTT-AATTATTTTTTAAATTTAAAATATTTTTAAAATATC
* * *
15846183 TTTTAAAATACTTTTTTTAATTT
1 TTTTTAATTA-TTTTTTAAATTT
15846206 TTAAAATAAA
Statistics
Matches: 90, Mismatches: 5, Indels: 14
0.83 0.05 0.13
Matches are distributed among these distances:
39 9 0.10
40 53 0.59
41 21 0.23
42 7 0.08
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (41 bp):
TTTTTAATTATTTTTTAAATTTAAAATATTTTTAAAATATC
Found at i:15846164 original size:29 final size:28
Alignment explanation
Indices: 15846132--15846188 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
15846122 TTTAAAATAT
* *
15846132 TTTTAAAATACTTTTTAAATTTTTTTTAA
1 TTTTAAAATA-TTTTTAAAATATTTTTAA
15846161 TTTTAAAATATTTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAAAATATTTTTAA
15846189 AATACTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 16 0.62
29 10 0.38
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (28 bp):
TTTTAAAATATTTTTAAAATATTTTTAA
Found at i:15846166 original size:17 final size:17
Alignment explanation
Indices: 15846144--15846177 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15846134 TTAAAATACT
* *
15846144 TTTTAAATTTTTTTTAA
1 TTTTAAAATATTTTTAA
15846161 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
15846178 AATATTTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:15846175 original size:21 final size:20
Alignment explanation
Indices: 15846150--15846213 Score: 65
Period size: 22 Copynumber: 3.0 Consensus size: 20
15846140 TACTTTTTAA
15846150 ATTTTTTTTAATTTTAAAAT
1 ATTTTTTTTAATTTTAAAAT
** *
15846170 ATTTTTAAAATATTTTTAAAAT
1 ATTTTT--TTTAATTTTAAAAT
*
15846192 ACTTTTTTTAATTTTTAAAAT
1 ATTTTTTTTAA-TTTTAAAAT
15846213 A
1 A
15846214 AATTTTTGGT
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
20 8 0.24
21 10 0.29
22 16 0.47
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (20 bp):
ATTTTTTTTAATTTTAAAAT
Found at i:15846219 original size:21 final size:21
Alignment explanation
Indices: 15846181--15846220 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
15846171 TTTTTAAAAT
**
15846181 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAAATTTTTTA
15846202 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
15846221 GGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTAAAATAAATTTTTTA
Found at i:15846227 original size:22 final size:20
Alignment explanation
Indices: 15846180--15846234 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 20
15846170 ATTTTTAAAA
* *
15846180 TATTTTTAAAATACTTTTTT
1 TATTTTTAAAATAATTTTTG
15846200 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAAT-AATTTTT-G
15846223 TATTTATTAAAA
1 TATTT-TTAAAA
15846235 AATGGGCCGG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 1 0.03
21 11 0.38
22 10 0.34
23 7 0.24
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (20 bp):
TATTTTTAAAATAATTTTTG
Found at i:15865768 original size:6 final size:7
Alignment explanation
Indices: 15865738--15865762 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
15865728 CCGAAAACCC
15865738 AAAAATT
1 AAAAATT
15865745 AAAAATT
1 AAAAATT
15865752 AAAAATT
1 AAAAATT
15865759 AAAA
1 AAAA
15865763 TAAAAAGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAAATT
Found at i:15866551 original size:42 final size:41
Alignment explanation
Indices: 15866475--15866620 Score: 202
Period size: 41 Copynumber: 3.5 Consensus size: 41
15866465 GGTGCTAACG
* *
15866475 GAAAAACGCCGCAATAGGTAAAGCAGTAGCAGCGTTTATGA
1 GAAAAACGCCGCAAAAGGTCAAGCAGTAGCAGCGTTTATGA
*
15866516 GAAAAACGCCGCAAAAAGGTCAAGCAGTAGTAGCGTTTATGA
1 GAAAAACGCCGC-AAAAGGTCAAGCAGTAGCAGCGTTTATGA
* * * *
15866558 GAAAAACGCCACCAAAGGTTAAGCAGTAGCGGCGTTTATGA
1 GAAAAACGCCGCAAAAGGTCAAGCAGTAGCAGCGTTTATGA
* *
15866599 GAAAAACGCTGCAAAAAGTCAA
1 GAAAAACGCCGCAAAAGGTCAA
15866621 ACAAAAAATC
Statistics
Matches: 91, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
41 54 0.59
42 37 0.41
ACGTcount: A:0.41, C:0.18, G:0.25, T:0.16
Consensus pattern (41 bp):
GAAAAACGCCGCAAAAGGTCAAGCAGTAGCAGCGTTTATGA
Found at i:15866923 original size:13 final size:13
Alignment explanation
Indices: 15866886--15866923 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
15866876 TGAAAAAAAA
* *
15866886 TTAAAATACTTAT
1 TTAAAATATTTTT
15866899 TTAAAATATTTTT
1 TTAAAATATTTTT
15866912 TTAAAAT-TTTTT
1 TTAAAATATTTTT
15866924 GGTATATGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 5 0.22
13 18 0.78
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (13 bp):
TTAAAATATTTTT
Found at i:15867780 original size:11 final size:11
Alignment explanation
Indices: 15867758--15867788 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
15867748 TCATGGATTA
15867758 TCTCTGTTTATT
1 TCTCT-TTTATT
15867770 TCTCTTTTATT
1 TCTCTTTTATT
15867781 TCTCTTTT
1 TCTCTTTT
15867789 TCCACCCCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.74
12 5 0.26
ACGTcount: A:0.06, C:0.19, G:0.03, T:0.71
Consensus pattern (11 bp):
TCTCTTTTATT
Found at i:15870677 original size:59 final size:59
Alignment explanation
Indices: 15870609--15870797 Score: 213
Period size: 59 Copynumber: 3.2 Consensus size: 59
15870599 CGTGGGGGGA
15870609 ATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGT
1 ATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGT
* * ** * * * * * *
15870668 ATTATATATTATGATTTTAGTAAATTCATATAAGAA-TA-TTTAATATTAAGAATTTTATTA-A
1 ATTATATATTTTTATTAAATTATATTTA-ATAATAATTATTTTAA-ATT-A-TATTTTA-TAGT
*
15870729 ATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGT
1 ATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGT
15870788 ATTATATATT
1 ATTATATATT
15870798 ATGATTTTAG
Statistics
Matches: 101, Mismatches: 21, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
58 7 0.07
59 42 0.42
60 14 0.14
61 31 0.31
62 7 0.07
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (59 bp):
ATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGT
Found at i:15870733 original size:61 final size:60
Alignment explanation
Indices: 15870637--15870819 Score: 178
Period size: 59 Copynumber: 3.0 Consensus size: 60
15870627 ATTATATTTA
* * *
15870637 ATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCAT
1 ATAAGAATTATTTTAAATTAAATTTTATAGAATTATATATTATGATTTTAGTAAATTCAT
* ** * * *
15870697 ATAAGAA-TA-TTTAATATTAAGAATTTTATTA-AATTATATATTTTTG-TTAAATTATATTTA-
1 ATAAGAATTATTTTAA-ATT-A-AATTTTA-TAGAATTATATA-TTATGATTTTAGTAAATTCAT
* * *
15870757 ATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCAT
1 ATAAGAATTATTTTAAATTAAATTTTATAGAATTATATATTATGATTTTAGTAAATTCAT
15870817 ATA
1 ATA
15870820 TTTTATTAAA
Statistics
Matches: 95, Mismatches: 18, Indels: 20
0.71 0.14 0.15
Matches are distributed among these distances:
58 11 0.12
59 28 0.29
60 17 0.18
61 28 0.29
62 11 0.12
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.52
Consensus pattern (60 bp):
ATAAGAATTATTTTAAATTAAATTTTATAGAATTATATATTATGATTTTAGTAAATTCAT
Found at i:15870741 original size:18 final size:17
Alignment explanation
Indices: 15870719--15870848 Score: 76
Period size: 18 Copynumber: 7.7 Consensus size: 17
15870709 AATATTAAGA
15870719 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
15870736 ATTTTTGTTAAA-T-TAT
1 A-TTTTATTAAATTATAT
* *
15870752 A-TTTAAT-AATAAT-T
1 ATTTTATTAAATTATAT
* *
15870766 ATTTTAAATTATATTTTAT
1 ATTTT--ATTAAATTATAT
* * *
15870785 AGTATTA-TATATTAT-G
1 A-TTTTATTAAATTATAT
*
15870801 ATTTTAGTAAATTCATAT
1 ATTTTATTAAATT-ATAT
15870819 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
15870836 ATTTTTATTAAAT
1 A-TTTTATTAAAT
15870849 AATAATTATT
Statistics
Matches: 85, Mismatches: 15, Indels: 25
0.68 0.12 0.20
Matches are distributed among these distances:
13 2 0.02
14 6 0.07
15 8 0.09
16 10 0.12
17 18 0.21
18 36 0.42
19 2 0.02
20 3 0.04
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:15870820 original size:41 final size:40
Alignment explanation
Indices: 15870655--15870838 Score: 107
Period size: 41 Copynumber: 4.6 Consensus size: 40
15870645 TATTTTAAAT
15870655 TATATTTTATAGTATTATATATTATGATTTTAGTAAATTCA
1 TATATTTTATAGTATTATATATTATGATTTTAGTAAATT-A
*** * *
15870696 TATA-AGAATA-T-TTA-ATATTAAGAATTTTATTAAATTA
1 TATATTTTATAGTATTATATATTATG-ATTTTAGTAAATTA
* * * ** *
15870733 TATATTTT-T-GTTAAATTATAT-TTAATAATAATTATTTTA-AA
1 TATATTTTATAG-T--ATTATATATT-ATGAT-TTTAGTAAATTA
15870774 TTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCA
1 -TATATTTTATAGTATTATATATTATGATTTTAGTAAATT-A
*
15870816 TATATTTTATTA-AATTATATATT
1 TATATTTTA-TAGTATTATATATT
15870839 TTTATTAAAT
Statistics
Matches: 105, Mismatches: 21, Indels: 34
0.66 0.13 0.21
Matches are distributed among these distances:
37 13 0.12
38 16 0.15
39 1 0.01
40 8 0.08
41 42 0.40
42 22 0.21
43 2 0.02
44 1 0.01
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.54
Consensus pattern (40 bp):
TATATTTTATAGTATTATATATTATGATTTTAGTAAATTA
Found at i:15876691 original size:17 final size:16
Alignment explanation
Indices: 15876651--15876694 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
15876641 TAATAGAATA
15876651 AATTTAGTGTTAATTGT
1 AATTTAGT-TTAATTGT
* *
15876668 AAATTAGTTTAATTTT
1 AATTTAGTTTAATTGT
15876684 ACATTTAGTTT
1 A-ATTTAGTTT
15876695 GTCAAATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 8 0.35
17 15 0.65
ACGTcount: A:0.32, C:0.02, G:0.11, T:0.55
Consensus pattern (16 bp):
AATTTAGTTTAATTGT
Found at i:15877545 original size:16 final size:16
Alignment explanation
Indices: 15877523--15877560 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
15877513 TATTATAAGG
15877523 ATATTTTT-TATT-TT
1 ATATTTTTGTATTGTT
15877537 ATTATTTTTGTATTGTT
1 A-TATTTTTGTATTGTT
15877554 ATATTTT
1 ATATTTT
15877561 AACTAAAGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 1 0.05
15 7 0.33
16 10 0.48
17 3 0.14
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (16 bp):
ATATTTTTGTATTGTT
Found at i:15882768 original size:13 final size:13
Alignment explanation
Indices: 15882750--15882813 Score: 110
Period size: 13 Copynumber: 4.9 Consensus size: 13
15882740 AGTTTCGCAA
15882750 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
15882763 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
15882776 TGCTTTAGAAAAG
1 TGCTTTTGAAAAG
*
15882789 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
15882802 TGCTTTTGAAAA
1 TGCTTTTGAAAA
15882814 AGTTGAGTGT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 47 1.00
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:15886020 original size:16 final size:16
Alignment explanation
Indices: 15885991--15886023 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
15885981 ATTTAAGAAA
15885991 AGAAAATGATTAAATT
1 AGAAAATGATTAAATT
15886007 AGAAATATGA-TAAATT
1 AGAAA-ATGATTAAATT
15886023 A
1 A
15886024 ATTAAATACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.58, C:0.00, G:0.12, T:0.30
Consensus pattern (16 bp):
AGAAAATGATTAAATT
Found at i:15887064 original size:17 final size:16
Alignment explanation
Indices: 15887031--15887073 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
15887021 TCAATAATGT
*
15887031 TATTATTTTAATGTTA
1 TATTATTTTAATATTA
*
15887047 TTTTATTTATAATATTA
1 TATTATTT-TAATATTA
15887064 TATTATTTTA
1 TATTATTTTA
15887074 GTTTATAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (16 bp):
TATTATTTTAATATTA
Found at i:15887090 original size:23 final size:22
Alignment explanation
Indices: 15887044--15887090 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
15887034 TATTTTAATG
*
15887044 TTATTTTATTTATAATATTATA
1 TTATTTTATTTATAATAATATA
15887066 TTATTTTAGTTTATAA-AATACTA
1 TTATTTTA-TTTATAATAATA-TA
15887089 TT
1 TT
15887091 TCAAATACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (22 bp):
TTATTTTATTTATAATAATATA
Found at i:15887595 original size:22 final size:20
Alignment explanation
Indices: 15887557--15887612 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
15887547 TAAAGAATTA
*
15887557 AAAAAATTAATA-AAATTCT
1 AAAAAATAAATATAAATTCT
*
15887576 AAAATATATAAATATAAATTTT
1 AAAA-A-ATAAATATAAATTCT
*
15887598 TAAAAATAAATATAA
1 AAAAAATAAATATAA
15887613 TATAAAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 4 0.13
20 11 0.35
21 7 0.23
22 9 0.29
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAAAATAAATATAAATTCT
Found at i:15887627 original size:25 final size:24
Alignment explanation
Indices: 15887576--15887629 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
15887566 ATAAAATTCT
* ** *
15887576 AAAATATATAAATATAAATTTTTA
1 AAAATAAATAAATATAAAAATTGA
15887600 AAAATAAATATAATATAAAAATTGA
1 AAAATAAATA-AATATAAAAATTGA
15887625 AAAAT
1 AAAAT
15887630 TTTAAAAAGG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (24 bp):
AAAATAAATAAATATAAAAATTGA
Found at i:15888183 original size:15 final size:15
Alignment explanation
Indices: 15888157--15888200 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
15888147 AATTAAATTT
15888157 ATTTAAA-A-TAAAA
1 ATTTAAATATTAAAA
* *
15888170 ATTTTAATATTAAAT
1 ATTTAAATATTAAAA
15888185 ATTTAAATATTAAAA
1 ATTTAAATATTAAAA
15888200 A
1 A
15888201 ATATTTTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
13 6 0.24
14 1 0.04
15 18 0.72
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTTAAATATTAAAA
Found at i:15888436 original size:19 final size:18
Alignment explanation
Indices: 15888385--15888436 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
15888375 TAAAATGTAT
15888385 AATTGAAAATTTTA-AAA
1 AATTGAAAATTTTATAAA
*
15888402 AGTT-AAAATAATTTATAAA
1 AATTGAAAAT--TTTATAAA
15888421 AATTGAAAATTGTTAT
1 AATTGAAAATT-TTAT
15888437 GCAAATTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
16 5 0.18
17 3 0.11
18 5 0.18
19 10 0.36
20 5 0.18
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (18 bp):
AATTGAAAATTTTATAAA
Found at i:15890837 original size:21 final size:22
Alignment explanation
Indices: 15890799--15890839 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
15890789 GTTTTCCCTT
**
15890799 TTTTTTTTTTTTTGGTTTCAGG
1 TTTTTTTTTCATTGGTTTCAGG
15890821 TTTTTTTTTCATT-GTTTCA
1 TTTTTTTTTCATTGGTTTCA
15890840 TGAAATATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.07, C:0.07, G:0.12, T:0.73
Consensus pattern (22 bp):
TTTTTTTTTCATTGGTTTCAGG
Found at i:15893989 original size:167 final size:167
Alignment explanation
Indices: 15893710--15894017 Score: 517
Period size: 167 Copynumber: 1.8 Consensus size: 167
15893700 ATTTCATTAC
* *
15893710 AAATGATATCTTAAGTAAGCAACTCAATACAATGCCCTTCTTCATATCTAATCTAATCTCAACCC
1 AAATGATATCCTAAGTAAGCAACTCAATACAATGCCCTTCTTCATATCTAATCCAATCTCAACCC
* * * *
15893775 TATTGTTGATGCGGACTCCCATTATAGAAATTAATTCTTTAATATTCTCATATTTCTTAAATTGT
66 TATTGTTAATGCAGACTCCCATTATAAAAATTAATTCTTTAATATTCTCACATTTCTTAAATTGT
15893840 AAATTTCACATGCTTTATATTATCCGATGAACACTGT
131 AAATTTCACATGCTTTATATTATCCGATGAACACTGT
15893877 AAATGATATCCTAAGTAAGCAACTCAATACAATGCCCTTCTTCATATCTAATCCAATCTCAACCC
1 AAATGATATCCTAAGTAAGCAACTCAATACAATGCCCTTCTTCATATCTAATCCAATCTCAACCC
* * * * *
15893942 TATTGTTAATTCAGACTCTCATTATAAAAATTAATTCTTTCATATTCTCCCATTTCTTAACTTGT
66 TATTGTTAATGCAGACTCCCATTATAAAAATTAATTCTTTAATATTCTCACATTTCTTAAATTGT
15894007 AAATTTCACAT
131 AAATTTCACAT
15894018 TTCACATTTC
Statistics
Matches: 130, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
167 130 1.00
ACGTcount: A:0.33, C:0.21, G:0.07, T:0.38
Consensus pattern (167 bp):
AAATGATATCCTAAGTAAGCAACTCAATACAATGCCCTTCTTCATATCTAATCCAATCTCAACCC
TATTGTTAATGCAGACTCCCATTATAAAAATTAATTCTTTAATATTCTCACATTTCTTAAATTGT
AAATTTCACATGCTTTATATTATCCGATGAACACTGT
Found at i:15894021 original size:7 final size:7
Alignment explanation
Indices: 15894009--15894045 Score: 74
Period size: 7 Copynumber: 5.3 Consensus size: 7
15893999 TAACTTGTAA
15894009 ATTTCAC
1 ATTTCAC
15894016 ATTTCAC
1 ATTTCAC
15894023 ATTTCAC
1 ATTTCAC
15894030 ATTTCAC
1 ATTTCAC
15894037 ATTTCAC
1 ATTTCAC
15894044 AT
1 AT
15894046 AATTTATATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.43
Consensus pattern (7 bp):
ATTTCAC
Found at i:15899536 original size:42 final size:42
Alignment explanation
Indices: 15899473--15899556 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
15899463 ACCTCAAGAA
* *
15899473 ATCCGGCAAGCCAGCGATCAGCATTTTCCACCAACTCATTAC
1 ATCCGGCAACCCAGCGATCAGCATTTCCCACCAACTCATTAC
* * * *
15899515 ATCCGGCAACCCAGCGGTCAGCGTTTCCCACCCACTCGTTAC
1 ATCCGGCAACCCAGCGATCAGCATTTCCCACCAACTCATTAC
15899557 GATGCATGGC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.24, C:0.39, G:0.17, T:0.20
Consensus pattern (42 bp):
ATCCGGCAACCCAGCGATCAGCATTTCCCACCAACTCATTAC
Found at i:15899785 original size:2 final size:2
Alignment explanation
Indices: 15899780--15899821 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
15899770 ATACACACGC
15899780 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15899822 ACAAACTGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15904707 original size:18 final size:19
Alignment explanation
Indices: 15904686--15904724 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
15904676 GGTATTTTAC
*
15904686 TAAAATATTA-CAAAAAAA
1 TAAAATAATATCAAAAAAA
*
15904704 TAAAATAATATCAAAATAA
1 TAAAATAATATCAAAAAAA
15904723 TA
1 TA
15904725 TTAACTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (19 bp):
TAAAATAATATCAAAAAAA
Found at i:15904906 original size:13 final size:13
Alignment explanation
Indices: 15904888--15904912 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15904878 AAAGGAGAGG
15904888 AAAGAAAGAAAAA
1 AAAGAAAGAAAAA
15904901 AAAGAAAGAAAA
1 AAAGAAAGAAAA
15904913 GGAAAGGAGG
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:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAGAAAGAAAAA
Found at i:15905467 original size:154 final size:155
Alignment explanation
Indices: 15905283--15906193 Score: 997
Period size: 154 Copynumber: 5.9 Consensus size: 155
15905273 AAACACACTA
* *
15905283 AATTAATAAATTTCAAACATAATGTGCTAAAATAATGTAAAATAATAAAATTA-GAAAATA-TGA
1 AATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAAAAATAAAATTACGAAAATAGT-A
** *
15905346 TA-TTTTTT-AAAGTAATAAAATGAGGAGAAAAAAATACGAACAAAGGGCCGAAGTAAGGGTTTT
65 TATTTTTTTGAAAGTAATAAAATTCGG-GAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTT
*
15905409 TTAACTAATTTTTTTTAAAAAAAAGAAAT
129 TT-ACTAA-TTTATTTAAAAAAAAGAAAT
* * * *
15905438 AATTAATACATTTC-AACATAATGTTCTAAAATAATGTAAAAAAATAAAA-TATGAAAATAATAT
1 AATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAAAAATAAAATTACGAAAATAGTAT
* ** *
15905501 ATTTTTATTGAAAGTAATAAAAATCGGGAAAAAAATACGAGTAAAGGGCCAAAATAAGGGTTTTT
66 ATTTTT-TTGAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTT
* *
15905566 T--TAAATTATTTAAAAAATACGATAA-
130 TACTAATTTATTTAAAAAA-AAGA-AAT
* * *
15905591 ATTTATTTAAATTTCAAACATAATGTACTAAAATGATGTAAAAAAATTAAAATTA-GAAAATAGT
1 AATTA-ATAAATTTCAAACATAATGTACTAAAATAATGTAAAAAAA-TAAAATTACGAAAATAGT
* **
15905655 ATATTTTTTT-AAAGTAATAAAATTCGGG-AAAAAATACGAACAAAAGGCTAAAATAAGGGTTTT
64 ATATTTTTTTGAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTT
*
15905718 TTACTAA---ATTTAAAAAAAATAAAT
129 TTACTAATTTATTTAAAAAAAAGAAAT
* * *
15905742 AATTAATACATTTTAAACATAATGTACTAAAATAATGTAAAAAAATAAAA-TACGAAAATAGTCT
1 AATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAAAAATAAAATTACGAAAATAGTAT
* *
15905806 A-TTTTTTAAAAGTAATAAAATTCGGG-AAAAAATACGAACAAAGGGCCGAAATAAAGGTTTTTT
66 ATTTTTTTGAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTT
* *
15905869 ACATAATTT-TCTAAAAAAATAGAATT
131 AC-TAATTTATTTAAAAAAA-AGAAAT
* * *
15905895 AATTAATACATTTCAAACATAATGTACTAAAATAAAATAAAATAAAATAAAATAATAAAATACGA
1 AATTAATAAATTTCAAACATAATGTACTAAAAT--AAT---GT-AAA-AAAAT-A-AAATTACGA
* * *
15905960 AAATAATAAATTTTTATTGAAAGTAATAAAATTCGGGAAAAAAATACGAGCAAAGGGCCGAAATA
57 AAATAGTATATTTTT-TTGAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGAAATA
* ** **
15906025 AGAGTTTTTTTTTAAATTTATTTAAAAACACACTAAAT
121 AGGGTTTTTTACT-AATTTATTTAAAAA-A-AAGAAAT
* * * *
15906063 CTATT--TAAATTTCAAACATAATGTACTAAAATAATTTAAAATAATAAAATTA-GAAAATAGTC
1 -AATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAAAAATAAAATTACGAAAATAGTA
* * *
15906125 TA-TTTTTT-AAAGTAATAAAATTCGGGAAAAAAATACGAACAAATGACTGAAATAAGGGTTTTT
65 TATTTTTTTGAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTT
15906188 TACTAA
130 TACTAA
15906194 AATTTTTTTT
Statistics
Matches: 648, Mismatches: 69, Indels: 80
0.81 0.09 0.10
Matches are distributed among these distances:
148 8 0.01
149 69 0.11
150 41 0.06
151 6 0.01
152 30 0.05
153 83 0.13
154 121 0.19
155 56 0.09
156 62 0.10
157 25 0.04
158 6 0.01
159 4 0.01
160 9 0.01
161 4 0.01
162 4 0.01
163 12 0.02
164 4 0.01
165 24 0.04
166 39 0.06
167 33 0.05
168 4 0.01
169 4 0.01
ACGTcount: A:0.52, C:0.07, G:0.11, T:0.31
Consensus pattern (155 bp):
AATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAAAAATAAAATTACGAAAATAGTAT
ATTTTTTTGAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTT
ACTAATTTATTTAAAAAAAAGAAAT
Found at i:15905956 original size:5 final size:5
Alignment explanation
Indices: 15905922--15905949 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
15905912 CATAATGTAC
15905922 TAAAA TAAAA TAAAA TAAAA TAAAA TAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAA
15905950 TAAAATACGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:15906034 original size:468 final size:458
Alignment explanation
Indices: 15905283--15906194 Score: 1304
Period size: 468 Copynumber: 2.0 Consensus size: 458
15905273 AAACACACTA
* *
15905283 AATTAATAAATTTCAAACATAATGTGCTAAAATAATGTAAAATAATAAAATTAGAAAATATGATA
1 AATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAAAAATAAAATTAGAAAATATGATA
* *
15905348 TTTTTTAAAGTAATAAAATGAGGAGAAAAAAATACGAACAAAGGGCCGAAGTAAGGGTTTTTTAA
66 TTTTTTAAAGTAATAAAATGAGGAGAAAAAAATACGAACAAAGGGCCGAAATAAAGGTTTTTTAA
* * *
15905413 CTAATTTTTTTTAAAAAAAAGAAATAATTAATACATTTCAACATAATGTTCTAAAATAATGTAAA
131 CTAA-TTTTTCTAAAAAAAAGAAATAATTAATACATTTCAACATAATGTACTAAAATAATATAAA
* * *
15905478 AAAATAAAATATGAAAATAATATATTTTTATTGAAAGTAATAAAAATCGGGAAAAAAATACGAGT
195 AAAATAAAATACGAAAATAATAAATTTTTATTGAAAGTAATAAAAATCGGGAAAAAAATACGAGC
* * *
15905543 AAAGGGCCAAAATAAG-GGTTTTTTTAAA-TTATTTAAAAA-ATACGATAAATTTATTTAAATTT
260 AAAGGGCCAAAATAAGAGTTTTTTTTAAATTTATTTAAAAACACAC--TAAATCTATTTAAATTT
*
15905605 CAAACATAATGTACTAAAATGATGTAAAAAAATTAAAATTAGAAAATAGTATATTTTTTTAAAGT
323 CAAACATAATGTACTAAAATAATGTAAAAAAA-TAAAATTAGAAAATAGTATA-TTTTTTAAAGT
*
15905670 AATAAAATTCGGG-AAAAAATACGAACAAAAGGCTAAAATAAGGGTTTTTTACTAAATTTAAAAA
386 AATAAAATTCGGGAAAAAAATACGAACAAAAGACTAAAATAAGGGTTTTTTACTAAATTTAAAAA
15905734 AAATAAAT
451 AAATAAAT
* * *
15905742 AATTAATACATTTTAAACATAATGTACTAAAATAATGTAAAAAAATAAAA-TACGAAAATA-GTC
1 AATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAAAAATAAAATTA-GAAAATATG-A
**
15905805 TATTTTTTAAAAGTAATAAAATTCGG-G-AAAAAATACGAACAAAGGGCCGAAATAAAGGTTTTT
64 TATTTTTT-AAAGTAATAAAATGAGGAGAAAAAAATACGAACAAAGGGCCGAAATAAAGGTTTTT
*
15905868 T-ACATAA-TTTTCTAAAAAAATAGAATTAATTAATACATTTCAAACATAATGTACTAAAATAAA
128 TAAC-TAATTTTTCTAAAAAAA-AGAAATAATTAATACATTTC-AACATAATGTACTAAAAT--A
*
15905931 ATAAAATAAAATAAAATAATAAAATACGAAAATAATAAATTTTTATTGAAAGTAATAAAATTCGG
188 AT---AT---A-AAAA-AATAAAATACGAAAATAATAAATTTTTATTGAAAGTAATAAAAATCGG
*
15905996 GAAAAAAATACGAGCAAAGGGCCGAAATAAGAGTTTTTTTTTAAATTTATTTAAAAACACACTAA
245 GAAAAAAATACGAGCAAAGGGCCAAAATAAGAG-TTTTTTTTAAATTTATTTAAAAACACACTAA
* * *
15906061 ATCTATTTAAATTTCAAACATAATGTACTAAAATAATTTAAAATAATAAAATTAGAAAATAGTCT
309 ATCTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAAAAATAAAATTAGAAAATAGTAT
* *
15906126 ATTTTTTAAAGTAATAAAATTCGGGAAAAAAATACGAACAAATGACTGAAATAAGGGTTTTTTAC
374 ATTTTTTAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAAGACTAAAATAAGGGTTTTTTAC
15906191 TAAA
439 TAAA
15906195 ATTTTTTTTT
Statistics
Matches: 404, Mismatches: 28, Indels: 32
0.87 0.06 0.07
Matches are distributed among these distances:
456 12 0.03
457 21 0.05
458 58 0.14
459 62 0.15
460 18 0.04
463 1 0.00
466 1 0.00
467 4 0.01
468 98 0.24
469 60 0.15
470 55 0.14
471 11 0.03
472 3 0.01
ACGTcount: A:0.52, C:0.07, G:0.11, T:0.31
Consensus pattern (458 bp):
AATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAAAAATAAAATTAGAAAATATGATA
TTTTTTAAAGTAATAAAATGAGGAGAAAAAAATACGAACAAAGGGCCGAAATAAAGGTTTTTTAA
CTAATTTTTCTAAAAAAAAGAAATAATTAATACATTTCAACATAATGTACTAAAATAATATAAAA
AAATAAAATACGAAAATAATAAATTTTTATTGAAAGTAATAAAAATCGGGAAAAAAATACGAGCA
AAGGGCCAAAATAAGAGTTTTTTTTAAATTTATTTAAAAACACACTAAATCTATTTAAATTTCAA
ACATAATGTACTAAAATAATGTAAAAAAATAAAATTAGAAAATAGTATATTTTTTAAAGTAATAA
AATTCGGGAAAAAAATACGAACAAAAGACTAAAATAAGGGTTTTTTACTAAATTTAAAAAAAATA
AAT
Found at i:15907351 original size:160 final size:160
Alignment explanation
Indices: 15907110--15907465 Score: 667
Period size: 160 Copynumber: 2.2 Consensus size: 160
15907100 CATTTTCGAT
*
15907110 ATAATTTTAATTATTCCAAATGAATTATACTTTTTATTACTTAATTTGGATACAATTTAAGCATA
1 ATAATTTTAATTATTCCAAATGAATTATACTTTTTATAACTTAATTTGGATACAATTTAAGCATA
*
15907175 AGCATAAGCATAAGCTGAATAATTTTAATTATTCCAAATGAATTATACTTTTTATAACTTAATTT
66 AGCATAAGCATAAGCTGAATAATTTTAATTATTCCAAATGAATTATACTTTTTACAACTTAATTT
15907240 GGATACAATTTAAGCATAAGCATAAGCTGA
131 GGATACAATTTAAGCATAAGCATAAGCTGA
*
15907270 ATAATTTTAATTATTTCAAATGAATTATACTTTTTATAACTTAATTTGGATACAATTTAAGCATA
1 ATAATTTTAATTATTCCAAATGAATTATACTTTTTATAACTTAATTTGGATACAATTTAAGCATA
*
15907335 AGCATAATCATAAGCTGAATAATTTTAATTATTCCAAATGAATTATACTTTTTACAACTTAATTT
66 AGCATAAGCATAAGCTGAATAATTTTAATTATTCCAAATGAATTATACTTTTTACAACTTAATTT
*
15907400 GGATATAATTTAAGCATAAGCATAAGCTGA
131 GGATACAATTTAAGCATAAGCATAAGCTGA
15907430 ATAATTTTAATTATTCCAAATGAATTATACTTTTTA
1 ATAATTTTAATTATTCCAAATGAATTATACTTTTTA
15907466 CAACATTATT
Statistics
Matches: 190, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
160 190 1.00
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.41
Consensus pattern (160 bp):
ATAATTTTAATTATTCCAAATGAATTATACTTTTTATAACTTAATTTGGATACAATTTAAGCATA
AGCATAAGCATAAGCTGAATAATTTTAATTATTCCAAATGAATTATACTTTTTACAACTTAATTT
GGATACAATTTAAGCATAAGCATAAGCTGA
Found at i:15907469 original size:77 final size:77
Alignment explanation
Indices: 15907110--15907465 Score: 568
Period size: 77 Copynumber: 4.5 Consensus size: 77
15907100 CATTTTCGAT
*
15907110 ATAATTTTAATTATTCCAAATGAATTATACTTTTTATTACTTAATTTGGATACAATTTAAGCATA
1 ATAATTTTAATTATTCCAAATGAATTATACTTTTTATAACTTAATTTGGATACAA-TT-----TA
15907175 AGCATAAGCATAAGCTGA
60 AGCATAAGCATAAGCTGA
15907193 ATAATTTTAATTATTCCAAATGAATTATACTTTTTATAACTTAATTTGGATACAATTTAAGCATA
1 ATAATTTTAATTATTCCAAATGAATTATACTTTTTATAACTTAATTTGGATACAATTTAAGCATA
15907258 AGCATAAGCTGA
66 AGCATAAGCTGA
*
15907270 ATAATTTTAATTATTTCAAATGAATTATACTTTTTATAACTTAATTTGGATACAATTTAAGCATA
1 ATAATTTTAATTATTCCAAATGAATTATACTTTTTATAACTTAATTTGGATACAATTTAAGCATA
15907335 AGCATAATCATAAGCTGA
66 AG------CATAAGCTGA
* *
15907353 ATAATTTTAATTATTCCAAATGAATTATACTTTTTACAACTTAATTTGGATATAATTTAAGCATA
1 ATAATTTTAATTATTCCAAATGAATTATACTTTTTATAACTTAATTTGGATACAATTTAAGCATA
15907418 AGCATAAGCTGA
66 AGCATAAGCTGA
15907430 ATAATTTTAATTATTCCAAATGAATTATACTTTTTA
1 ATAATTTTAATTATTCCAAATGAATTATACTTTTTA
15907466 CAACATTATT
Statistics
Matches: 262, Mismatches: 5, Indels: 18
0.92 0.02 0.06
Matches are distributed among these distances:
77 132 0.50
82 2 0.01
83 128 0.49
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.41
Consensus pattern (77 bp):
ATAATTTTAATTATTCCAAATGAATTATACTTTTTATAACTTAATTTGGATACAATTTAAGCATA
AGCATAAGCTGA
Found at i:15910408 original size:39 final size:38
Alignment explanation
Indices: 15910364--15910570 Score: 111
Period size: 39 Copynumber: 5.3 Consensus size: 38
15910354 ACTAACACAA
15910364 TAACAATAATAATAATTTTATACTCAAAATAATACTAAC
1 TAACAATAATAATAATTTTATACT-AAAATAATACTAAC
** *
15910403 TAACAATAATAATTAGGGTTT-TACT-AAA-AATAATAAC
1 TAACAATAATAA-TA-ATTTTATACTAAAATAATACTAAC
** * *
15910440 TAACAATAAT-ATAATGTAAAAACTAACAATCATACTAAC
1 TAACAATAATAATAAT-TTTATACTAA-AATAATACTAAC
* **
15910479 TAA-AATAATAATTAGGGTTTT-TACTAATCCTAATAACTAACC
1 TAACAATAATAA-TA--ATTTTATACTAA-AATAAT-ACTAA-C
* * * * *
15910521 ATAATAATAATATTAGTTTTTTACTAACAATAATACTAAG
1 -TAACAATAATAATAATTTTATACTAA-AATAATACTAAC
*
15910561 TAATAATAAT
1 TAACAATAAT
15910571 TATTAATAAC
Statistics
Matches: 129, Mismatches: 23, Indels: 32
0.70 0.12 0.17
Matches are distributed among these distances:
35 3 0.02
36 4 0.03
37 19 0.15
38 11 0.09
39 33 0.26
40 16 0.12
41 19 0.15
42 12 0.09
43 5 0.04
44 7 0.05
ACGTcount: A:0.51, C:0.11, G:0.04, T:0.34
Consensus pattern (38 bp):
TAACAATAATAATAATTTTATACTAAAATAATACTAAC
Found at i:15910482 original size:23 final size:23
Alignment explanation
Indices: 15910437--15910483 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
15910427 TAAAAATAAT
*
15910437 AACTAACAATAATATAATGTAAA
1 AACTAACAATAATATAATCTAAA
*
15910460 AACTAACAATCATACTAA-CTAAA
1 AACTAACAATAATA-TAATCTAAA
15910483 A
1 A
15910484 TAATAATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.60, C:0.15, G:0.02, T:0.23
Consensus pattern (23 bp):
AACTAACAATAATATAATCTAAA
Found at i:15910559 original size:41 final size:40
Alignment explanation
Indices: 15910391--15910575 Score: 136
Period size: 40 Copynumber: 4.7 Consensus size: 40
15910381 TTATACTCAA
* *
15910391 AATAATACTAACTAACAATAATAATTAGGG-TTTTACTAAA
1 AATAATACTAACTAATAATAAT-ATTAGGGTTTTTACTAAC
* ****
15910431 AATAATAACTAAC-AATAAT-ATA--A-TGTAAAAACTAAC
1 AATAAT-ACTAACTAATAATAATATTAGGGTTTTTACTAAC
*
15910467 AATCATACTAACTAA-AATAATAATTAGGGTTTTTACTAATC
1 AATAATACTAACTAATAATAAT-ATTAGGGTTTTTACTAA-C
* *
15910508 -CTAATAACTAACCATAATAATAATATTA-GTTTTTTACTAAC
1 AATAAT-ACTAA-C-TAATAATAATATTAGGGTTTTTACTAAC
*
15910549 AATAATACTAAGTAATAATAATTATTA
1 AATAATACTAACTAATAATAA-TATTA
15910576 ATAACTAAAT
Statistics
Matches: 112, Mismatches: 18, Indels: 30
0.70 0.11 0.19
Matches are distributed among these distances:
35 10 0.09
36 15 0.13
37 1 0.01
38 1 0.01
39 12 0.11
40 26 0.23
41 18 0.16
42 16 0.14
43 7 0.06
44 6 0.05
ACGTcount: A:0.50, C:0.11, G:0.05, T:0.34
Consensus pattern (40 bp):
AATAATACTAACTAATAATAATATTAGGGTTTTTACTAAC
Found at i:15910810 original size:3 final size:3
Alignment explanation
Indices: 15910804--15910872 Score: 58
Period size: 3 Copynumber: 24.3 Consensus size: 3
15910794 CCTCCTCATC
* * *
15910804 CTT CTT CTT C-T CATC CTT CTT CTT TTT CTT CTT -TT -TT TTT CTT
1 CTT CTT CTT CTT C-TT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
*
15910847 CTT CTT -TT -TT CTT CTT CTT CTC CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT C
15910873 AGCTGGACGG
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
2 10 0.18
3 44 0.80
4 1 0.02
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.68
Consensus pattern (3 bp):
CTT
Found at i:15910816 original size:15 final size:15
Alignment explanation
Indices: 15910798--15910827 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
15910788 CATCCTCCTC
15910798 CTCATCCTTCTTCTT
1 CTCATCCTTCTTCTT
15910813 CTCATCCTTCTTCTT
1 CTCATCCTTCTTCTT
15910828 TTTCTTCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.07, C:0.40, G:0.00, T:0.53
Consensus pattern (15 bp):
CTCATCCTTCTTCTT
Found at i:15910844 original size:13 final size:13
Alignment explanation
Indices: 15910819--15910865 Score: 78
Period size: 13 Copynumber: 3.7 Consensus size: 13
15910809 TCTTCTCATC
15910819 CTTCTTC-TTTTT
1 CTTCTTCTTTTTT
*
15910831 CTTCTTTTTTTTT
1 CTTCTTCTTTTTT
15910844 CTTCTTCTTTTTT
1 CTTCTTCTTTTTT
15910857 CTTCTTCTT
1 CTTCTTCTT
15910866 CTCCTTCAGC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
12 6 0.19
13 26 0.81
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (13 bp):
CTTCTTCTTTTTT
Found at i:15910850 original size:16 final size:16
Alignment explanation
Indices: 15910823--15910867 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
15910813 CTCATCCTTC
*
15910823 TTCTTTTTCTTCTTTT
1 TTCTTCTTCTTCTTTT
*
15910839 TTTTTCTTCTTCTTTT
1 TTCTTCTTCTTCTTTT
15910855 TTCTTCTTCTTCT
1 TTCTTCTTCTTCT
15910868 CCTTCAGCTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (16 bp):
TTCTTCTTCTTCTTTT
Found at i:15911447 original size:30 final size:30
Alignment explanation
Indices: 15911412--15911479 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
15911402 TAGTTAGGAA
* *
15911412 TTAGTTACTTA-TGTGTAATTAGCAGTAGGG
1 TTAGTTAC-TACTGTATAATTAGCAATAGGG
*
15911442 TTAGTTA-TACTTGTATAATTGGCAATAGGG
1 TTAGTTACTAC-TGTATAATTAGCAATAGGG
15911472 TTAGTTAC
1 TTAGTTAC
15911480 ACTCTTGTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
28 2 0.06
30 30 0.94
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.41
Consensus pattern (30 bp):
TTAGTTACTACTGTATAATTAGCAATAGGG
Found at i:15915968 original size:30 final size:30
Alignment explanation
Indices: 15915932--15915999 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
15915922 TAGTTAGGAA
15915932 TTAGTTACTTAC-GTATAATTAGCAGTAGGG
1 TTAGTTAC-TACTGTATAATTAGCAGTAGGG
*
15915962 TTAGTTA-TACTTGTATAATTGGCAGTAGGG
1 TTAGTTACTAC-TGTATAATTAGCAGTAGGG
15915992 TTAGTTAC
1 TTAGTTAC
15916000 ACTCTTGTGT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
28 3 0.09
30 31 0.91
ACGTcount: A:0.28, C:0.09, G:0.24, T:0.40
Consensus pattern (30 bp):
TTAGTTACTACTGTATAATTAGCAGTAGGG
Found at i:15917920 original size:17 final size:17
Alignment explanation
Indices: 15917879--15917921 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
15917869 ATTATTATGA
15917879 AATTA-AAAATATATAC
1 AATTATAAAATATATAC
*
15917895 AATTTTAAAATATATA-
1 AATTATAAAATATATAC
15917911 AATTAATAAAA
1 AATT-ATAAAA
15917922 AACAATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 8 0.35
17 15 0.65
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (17 bp):
AATTATAAAATATATAC
Found at i:15920201 original size:30 final size:28
Alignment explanation
Indices: 15920167--15920228 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 28
15920157 TGACGATTTT
*
15920167 TTTTTTAAATATTTAGAGAAATAAGTCGAA
1 TTTTTT-AATATTTAGAGAAATAAATCG-A
* *
15920197 TTTTTTCATATTTAGGGAAATAAATCGA
1 TTTTTTAATATTTAGAGAAATAAATCGA
15920225 TTTT
1 TTTT
15920229 GGAGAGAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 5 0.17
29 18 0.62
30 6 0.21
ACGTcount: A:0.37, C:0.05, G:0.13, T:0.45
Consensus pattern (28 bp):
TTTTTTAATATTTAGAGAAATAAATCGA
Found at i:15920702 original size:16 final size:18
Alignment explanation
Indices: 15920669--15920706 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
15920659 ATAAAATCAA
15920669 ATAATAAATATGTAATTAT
1 ATAATAAATA-GTAATTAT
15920688 ATAATAAATA-T-ATTAT
1 ATAATAAATAGTAATTAT
15920704 ATA
1 ATA
15920707 TTTCATTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 1 0.05
19 10 0.53
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (18 bp):
ATAATAAATAGTAATTAT
Found at i:15925330 original size:32 final size:31
Alignment explanation
Indices: 15925260--15925330 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
15925250 TATATTTGAA
* * *
15925260 ATGTTACGTTTTGGTCACTTATGTTATTGTC
1 ATGTAACGTTTTAGTCACTGATGTTATTGTC
*
15925291 TTGTAACGTTTTAGTCACTGAGTGTTAATTGTC
1 ATGTAACGTTTTAGTCACTGA-TGTT-ATTGTC
15925324 AT-TAACG
1 ATGTAACG
15925331 GTGTAACAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
31 17 0.52
32 9 0.27
33 7 0.21
ACGTcount: A:0.21, C:0.13, G:0.20, T:0.46
Consensus pattern (31 bp):
ATGTAACGTTTTAGTCACTGATGTTATTGTC
Found at i:15930405 original size:109 final size:108
Alignment explanation
Indices: 15930028--15930439 Score: 639
Period size: 109 Copynumber: 3.8 Consensus size: 108
15930018 AAATTTGGCA
** * * *
15930028 ATTTGGTTAAACGTGAAATCGAAACCCAGCACCTTAGGGCACGTTTCTCGAATTTCCAAACGCAA
1 ATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAA
*
15930093 AACATTGCCTTATTTTTGAAAAGTTTTTTAAAAGGATATTTAACT
66 AACATTGCCTTA-TTTTGAAAAG-TTTTTAAAAGGATATTTAGCT
*
15930138 ATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTTCAAACGCAA
1 ATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAA
* * *
15930203 AATATTGCCTTATTTTGGAAA-TTTTTGAAAAGGATATTAAG-T
66 AACATTGCCTTATTTTGAAAAGTTTTT-AAAAGGATATTTAGCT
* * *
15930245 CATTTGGTGGAATGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAATGCA
1 -ATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCA
15930310 AAACATTGCCTTATTTTTGAAAAGTTTTTAAAAGGATATTTAGCT
65 AAACATTGCCTTA-TTTTGAAAAGTTTTTAAAAGGATATTTAGCT
15930355 ATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAA
1 ATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAA
*
15930420 AATATTGCCTTATTTTGAAA
66 AACATTGCCTTATTTTGAAA
15930440 TATTTTCCTT
Statistics
Matches: 276, Mismatches: 21, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
107 6 0.02
108 92 0.33
109 102 0.37
110 76 0.28
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Consensus pattern (108 bp):
ATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAA
AACATTGCCTTATTTTGAAAAGTTTTTAAAAGGATATTTAGCT
Found at i:15930418 original size:217 final size:218
Alignment explanation
Indices: 15930042--15930445 Score: 740
Period size: 217 Copynumber: 1.9 Consensus size: 218
15930032 GGTTAAACGT
*
15930042 GAAATCGAAACCCAGCACCTTAGGGCACGTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
1 GAAATCGAAACCCAGCACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCCTTATT
15930107 TTTGAAAAGTTTTTTAAAAGGATATTTAACTATTTGGTCGAACGAGAAATCGAAACCCAGTACCT
66 TTTGAAAAGTTTTTTAAAAGGATATTTAACTATTTGGTCGAACGAGAAATCGAAACCCAGTACCT
*
15930172 TAGGGCACGTTCCTCGAATTTTCAAACGCAAAATATTGCCTTATTTTGGAAAT-TTTTGAAAAGG
131 TAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCCTTATTTT-GAAATATTTTGAAAAGG
15930236 ATATTAAGTCATTTGGTGGAATGA
195 ATATTAAGTCATTTGGTGGAATGA
* *
15930260 GAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAATGCAAAACATTGCCTTATT
1 GAAATCGAAACCCAGCACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCCTTATT
*
15930325 TTTGAAAAG-TTTTTAAAAGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCT
66 TTTGAAAAGTTTTTTAAAAGGATATTTAACTATTTGGTCGAACGAGAAATCGAAACCCAGTACCT
15930389 TAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAATATTTT
131 TAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAATATTTT
15930446 CCTTTTTTTA
Statistics
Matches: 180, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
216 5 0.03
217 104 0.58
218 71 0.39
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (218 bp):
GAAATCGAAACCCAGCACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCCTTATT
TTTGAAAAGTTTTTTAAAAGGATATTTAACTATTTGGTCGAACGAGAAATCGAAACCCAGTACCT
TAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAATATTTTGAAAAGGA
TATTAAGTCATTTGGTGGAATGA
Done.