Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_pilon, whole genome shotgun sequence
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: 7662336
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 37 of 38
Found at i:7338430 original size:28 final size:27
Alignment explanation
Indices: 7338367--7338430 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 27
7338357 AAATAAACAG
*
7338367 AAAATAAAGTTCAATAATAAAAGGACT
1 AAAATAAAGTTCAAAAATAAAAGGACT
7338394 AAAATTAAAGTTCTTAAAAAT-AAAGGAC-
1 AAAA-TAAAGTTC--AAAAATAAAAGGACT
7338422 ATAAATAAA
1 A-AAATAAA
7338431 AAACAAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
27 4 0.12
28 13 0.41
29 10 0.31
30 5 0.16
ACGTcount: A:0.61, C:0.06, G:0.09, T:0.23
Consensus pattern (27 bp):
AAAATAAAGTTCAAAAATAAAAGGACT
Found at i:7343747 original size:2 final size:2
Alignment explanation
Indices: 7343740--7343773 Score: 52
Period size: 2 Copynumber: 17.0 Consensus size: 2
7343730 ATGGATTGTT
7343740 TA TA TA TA -A TA TGA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA
7343774 GTATTATGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 1 0.03
2 27 0.90
3 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:7343831 original size:2 final size:2
Alignment explanation
Indices: 7343824--7343856 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
7343814 TCAATCTACA
7343824 AT AT 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 AT AT A
7343857 ATTTACGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7346795 original size:15 final size:16
Alignment explanation
Indices: 7346756--7346794 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
7346746 AATCAAATAG
7346756 TTTTAAAATATATATT
1 TTTTAAAATATATATT
* *
7346772 TTTTAAAATTTATTTT
1 TTTTAAAATATATATT
7346788 TTTTAAA
1 TTTTAAA
7346795 TGTTTAAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTTAAAATATATATT
Found at i:7352856 original size:122 final size:122
Alignment explanation
Indices: 7352637--7352856 Score: 259
Period size: 123 Copynumber: 1.8 Consensus size: 122
7352627 ATGTTTTTCA
*
7352637 CGGCGTTTGCTTAAAAACGCCACTAAAGTACTTACTATAGCGGCATTTGTGAAATAAACGCTACT
1 CGGCGTTTACTTAAAAACGCCACTAAAGTACTTACTATAGCGGCATTTGTGAAATAAACGCTACT
* * * *
7352702 AAAGTACTAGATTTAGAGGCATTTGTCTGAAAACTCTACAATATATGTACTCTATTG
66 AAAGTACAAGATGTAGAGGCATTTATCGGAAAACTCTACAATATATGTACTCTATTG
* * * * *
7352759 CGGCGTTTATTTAAAAACGCCACTAAATTACTTA-TATATTGTGGCGTTTGTGATATAAACG-TC
1 CGGCGTTTACTTAAAAACGCCACTAAAGTACTTACTATA--GCGGCATTTGTGAAATAAACGCT-
* * *
7352822 GCTAAAGTAGGAAG-TGTAGAGGCGTTTAT-GGAAAA
63 ACTAAAGTA-CAAGATGTAGAGGCATTTATCGGAAAA
7352857 GTGCCGTTAT
Statistics
Matches: 81, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
121 4 0.05
122 37 0.46
123 38 0.47
124 2 0.02
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.31
Consensus pattern (122 bp):
CGGCGTTTACTTAAAAACGCCACTAAAGTACTTACTATAGCGGCATTTGTGAAATAAACGCTACT
AAAGTACAAGATGTAGAGGCATTTATCGGAAAACTCTACAATATATGTACTCTATTG
Found at i:7366993 original size:4 final size:4
Alignment explanation
Indices: 7366979--7367017 Score: 69
Period size: 4 Copynumber: 9.5 Consensus size: 4
7366969 TATTATTTTA
7366979 TTTC ATTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT
1 TTTC -TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT
7367018 ATATGAATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 30 0.88
5 4 0.12
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTC
Found at i:7374562 original size:43 final size:43
Alignment explanation
Indices: 7374514--7374730 Score: 267
Period size: 43 Copynumber: 5.1 Consensus size: 43
7374504 AAACTTGTGA
* * *
7374514 CGTTTGTAAACACAAACGCCACTAAAGTATGAGTTTTTAGCGG
1 CGTTTGTAAACAAAAACGCCACTAAAGTACGAGTCTTTAGCGG
* * * *
7374557 CGTTTGTAAATAAAAACACCACTAAAGTACGAGTCTTTAACTG
1 CGTTTGTAAACAAAAACGCCACTAAAGTACGAGTCTTTAGCGG
* *
7374600 CGTTTGTAAACACAAACGCCACTAAAGTACGAGTTTTTAGCGG
1 CGTTTGTAAACAAAAACGCCACTAAAGTACGAGTCTTTAGCGG
* * * * *
7374643 CGTTGGTAAATAAAAATGCTACTAAAGTACGAGTCTTTAGTGG
1 CGTTTGTAAACAAAAACGCCACTAAAGTACGAGTCTTTAGCGG
* * *
7374686 CGTTTGT--ATAAAAATGCCACTAAAGTACGAGTCTATAGCGG
1 CGTTTGTAAACAAAAACGCCACTAAAGTACGAGTCTTTAGCGG
7374727 CGTT
1 CGTT
7374731 ACAAACGCCG
Statistics
Matches: 150, Mismatches: 24, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
41 35 0.23
43 115 0.77
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (43 bp):
CGTTTGTAAACAAAAACGCCACTAAAGTACGAGTCTTTAGCGG
Found at i:7374614 original size:86 final size:86
Alignment explanation
Indices: 7374514--7374730 Score: 314
Period size: 86 Copynumber: 2.5 Consensus size: 86
7374504 AAACTTGTGA
* *
7374514 CGTTTGTAAACACAAACGCCACTAAAGTATGAGTTTTTAGCGGCGTTTGTAAATAAAAACACCAC
1 CGTTTGTAAACACAAACGCCACTAAAGTACGAGTTTTTAGCGGCGTTGGTAAATAAAAACACCAC
7374579 TAAAGTACGAGTCTTTAACT-G
66 TAAAGTACGAGTCTTT-ACTGG
** *
7374600 CGTTTGTAAACACAAACGCCACTAAAGTACGAGTTTTTAGCGGCGTTGGTAAATAAAAATGCTAC
1 CGTTTGTAAACACAAACGCCACTAAAGTACGAGTTTTTAGCGGCGTTGGTAAATAAAAACACCAC
*
7374665 TAAAGTACGAGTCTTTAGTGG
66 TAAAGTACGAGTCTTTACTGG
* * * *
7374686 CGTTTGTATA-A-AAATGCCACTAAAGTACGAGTCTATAGCGGCGTT
1 CGTTTGTAAACACAAACGCCACTAAAGTACGAGTTTTTAGCGGCGTT
7374731 ACAAACGCCG
Statistics
Matches: 120, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
84 31 0.26
85 3 0.03
86 86 0.72
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (86 bp):
CGTTTGTAAACACAAACGCCACTAAAGTACGAGTTTTTAGCGGCGTTGGTAAATAAAAACACCAC
TAAAGTACGAGTCTTTACTGG
Found at i:7374855 original size:40 final size:41
Alignment explanation
Indices: 7374741--7374945 Score: 152
Period size: 41 Copynumber: 5.0 Consensus size: 41
7374731 ACAAACGCCG
* * **
7374741 CTAAAGTACTACTCTATTGCGGAGTTTGTTGAAAAAAGGCCA
1 CTAAAGTACTACTTTATTGCGGCGTTTGTT-AAAAAACACCA
* * * * *
7374783 CTATAG-A-TGAAC-CTACTGCGGCATTTGTTTAAAAACACCA
1 CTAAAGTACT--ACTTTATTGCGGCGTTTGTTAAAAAACACCA
* *
7374823 CTAAAGTACTACTTTGTTGCGGCGTTTATTAAAAAACACCA
1 CTAAAGTACTACTTTATTGCGGCGTTTGTTAAAAAACACCA
* ** * * * *
7374864 CTATAG-A-TGACCCTCTTGCGGCGTTTGTAAAAAAACGCCG
1 CTAAAGTACT-ACTTTATTGCGGCGTTTGTTAAAAAACACCA
*
7374904 CTAAAGTACTA-TTCTATTGCGACGTTTGTTAAAAAACACCA
1 CTAAAGTACTACTT-TATTGCGGCGTTTGTTAAAAAACACCA
7374945 C
1 C
7374946 ATAGATGACC
Statistics
Matches: 124, Mismatches: 30, Indels: 19
0.72 0.17 0.11
Matches are distributed among these distances:
39 1 0.01
40 46 0.37
41 68 0.55
42 9 0.07
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (41 bp):
CTAAAGTACTACTTTATTGCGGCGTTTGTTAAAAAACACCA
Found at i:7374884 original size:81 final size:81
Alignment explanation
Indices: 7374741--7374958 Score: 271
Period size: 81 Copynumber: 2.7 Consensus size: 81
7374731 ACAAACGCCG
* * ** *
7374741 CTAAAGTACTACTCTATTGCGGAGTTTGTTGAAAAAAGGCCACTATAGATGAACCTACTGCGGCA
1 CTAAAGTACTACTTTATTGCGGCGTTTGTT-AAAAAACACCACTATAGATGACCCTACTGCGGCA
**
7374806 TTTGTTTAAAAACACCA
65 TTTGTAAAAAAACACCA
* * *
7374823 CTAAAGTACTACTTTGTTGCGGCGTTTATTAAAAAACACCACTATAGATGACCCT-CTTGCGGCG
1 CTAAAGTACTACTTTATTGCGGCGTTTGTTAAAAAACACCACTATAGATGACCCTAC-TGCGGCA
* *
7374887 TTTGTAAAAAAACGCCG
65 TTTGTAAAAAAACACCA
*
7374904 CTAAAGTACTA-TTCTATTGCGACGTTTGTTAAAAAACACCAC-ATAGATGACCCTA
1 CTAAAGTACTACTT-TATTGCGGCGTTTGTTAAAAAACACCACTATAGATGACCCTA
7374959 TTGTTGCTTT
Statistics
Matches: 118, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
80 15 0.13
81 77 0.65
82 26 0.22
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.28
Consensus pattern (81 bp):
CTAAAGTACTACTTTATTGCGGCGTTTGTTAAAAAACACCACTATAGATGACCCTACTGCGGCAT
TTGTAAAAAAACACCA
Found at i:7376894 original size:25 final size:20
Alignment explanation
Indices: 7376829--7376884 Score: 112
Period size: 20 Copynumber: 2.8 Consensus size: 20
7376819 TAGGGAGAGG
7376829 ATTGAAAGGTTAAGACCTTT
1 ATTGAAAGGTTAAGACCTTT
7376849 ATTGAAAGGTTAAGACCTTT
1 ATTGAAAGGTTAAGACCTTT
7376869 ATTGAAAGGTTAAGAC
1 ATTGAAAGGTTAAGAC
7376885 AAGACCTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.32
Consensus pattern (20 bp):
ATTGAAAGGTTAAGACCTTT
Found at i:7382095 original size:20 final size:20
Alignment explanation
Indices: 7382070--7382110 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
7382060 TAGGGAGAGG
*
7382070 ATTGAAAGGTTAAGACCTTT
1 ATTGAAAGATTAAGACCTTT
7382090 ATTGAAAGATTAAGACCTTT
1 ATTGAAAGATTAAGACCTTT
7382110 A
1 A
7382111 AATAAAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.39, C:0.10, G:0.17, T:0.34
Consensus pattern (20 bp):
ATTGAAAGATTAAGACCTTT
Found at i:7385646 original size:306 final size:306
Alignment explanation
Indices: 7384833--7385757 Score: 1787
Period size: 306 Copynumber: 3.0 Consensus size: 306
7384823 TATTAGAGAA
7384833 ATATTGGTGGTCATAAACACCTTCCCGAACCCTTCTCTCAAAGTTAACACTTTTTCCCCAAAAAT
1 ATATTGGTGGTCATAAACACCTTCCCGAACCCTTCTCTCAAAGTTAACACTTTTTCCCCAAAAAT
7384898 GTGAATGGTACCAATTCTAAAGCCTCTTAGTATCAATACTGATTTGACAGTATCGATACACTCCG
66 GTGAATGGTACCAATTCTAAAGCCTCTTAGTATCAATACTGATTTGACAGTATCGATACACTCCG
7384963 TTGGTATTAATACCAGAATTACATGAGAAATGTTGACATGACACCACGTGAGATTGTATATTTCA
131 TTGGTATTAATACCAGAATTACATGAGAAATGTTGACATGACACCACGTGAGATTGTATATTTCA
7385028 AGGGACACACCTTCCAAGGTCCACACATCCCTCAAAGCATTTTAAAAAAAATATGTTTTACAATT
196 AGGGACACACCTTCCAAGGTCCACACATCCCTCAAAGCATTTTAAAAAAAATATGTTTTACAA--
7385093 TTTTTTTTTTAAAATAAAACTATATGGACTAACATAATAATTTAATAT
259 TTTTTTTTTTAAAATAAAACTATATGGACTAACATAATAATTTAATAT
7385141 ATATTGGTGGTCATAAACACCTTCCCGAACCCTTCTCTCAAAGTTAACACTTTTTCCCCAAAAAT
1 ATATTGGTGGTCATAAACACCTTCCCGAACCCTTCTCTCAAAGTTAACACTTTTTCCCCAAAAAT
7385206 GTGAATGGTACCAATTCTAAAGCCTCTTAGTATCAATACTGATTTGACAGTATCGATACACTCCG
66 GTGAATGGTACCAATTCTAAAGCCTCTTAGTATCAATACTGATTTGACAGTATCGATACACTCCG
7385271 TTGGTATTAATACCAGAATTACATGAGAAATGTTGACATGACACCACGTGAGATTGTATATTTCA
131 TTGGTATTAATACCAGAATTACATGAGAAATGTTGACATGACACCACGTGAGATTGTATATTTCA
7385336 AGGGACACACCTTCCAAGGTCCACACATCCCTCAAAGCATTTTAAAAAAAATATGTTTTACAATT
196 AGGGACACACCTTCCAAGGTCCACACATCCCTCAAAGCATTTTAAAAAAAATATGTTTTACAATT
7385401 TTTTTTTTAAAATAAAACTATATGGACTAACATAATAATTTAATAT
261 TTTTTTTTAAAATAAAACTATATGGACTAACATAATAATTTAATAT
7385447 ATATTGGTGGTCATAAACACCTTCCCGAACCCTTCTCTCAAAGTTAACACTTTTTCCCCAAAAAT
1 ATATTGGTGGTCATAAACACCTTCCCGAACCCTTCTCTCAAAGTTAACACTTTTTCCCCAAAAAT
7385512 GTGAATGGTACCAATTCTAAAGCCTCTTAGTATCAATACTGATTTGACAGTATCGATACACTCCG
66 GTGAATGGTACCAATTCTAAAGCCTCTTAGTATCAATACTGATTTGACAGTATCGATACACTCCG
*
7385577 TTGGTATTAATACCAGAATTACATGAGAAATGTTGACATGACACCACGTGAGAATGTATATTTCA
131 TTGGTATTAATACCAGAATTACATGAGAAATGTTGACATGACACCACGTGAGATTGTATATTTCA
*
7385642 AGGGACACACCTTCCAAGGTCCACATATCCCTCAAAGCATTTTAAAAAAAATATGTTTTACAATT
196 AGGGACACACCTTCCAAGGTCCACACATCCCTCAAAGCATTTTAAAAAAAATATGTTTTACAATT
***
7385707 TTTTTAAAAAAATAAAACTATATGGACTAACATAATAATTTAATAT
261 TTTTTTTTAAAATAAAACTATATGGACTAACATAATAATTTAATAT
7385753 ATATT
1 ATATT
7385758 AGTTATATGA
Statistics
Matches: 612, Mismatches: 5, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
306 354 0.58
308 258 0.42
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.32
Consensus pattern (306 bp):
ATATTGGTGGTCATAAACACCTTCCCGAACCCTTCTCTCAAAGTTAACACTTTTTCCCCAAAAAT
GTGAATGGTACCAATTCTAAAGCCTCTTAGTATCAATACTGATTTGACAGTATCGATACACTCCG
TTGGTATTAATACCAGAATTACATGAGAAATGTTGACATGACACCACGTGAGATTGTATATTTCA
AGGGACACACCTTCCAAGGTCCACACATCCCTCAAAGCATTTTAAAAAAAATATGTTTTACAATT
TTTTTTTTAAAATAAAACTATATGGACTAACATAATAATTTAATAT
Found at i:7386793 original size:22 final size:22
Alignment explanation
Indices: 7386739--7386811 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
7386729 AAAATGAGAA
*
7386739 AAAAAAAATTAAAAATATTTTAAT
1 AAAAAAAA-TAAAAATATTTT-TT
**
7386763 AAATTAAATAAAAATATTTTTT
1 AAAAAAAATAAAAATATTTTTT
* * **
7386785 AAAACAAATCAATTTATTTTTT
1 AAAAAAAATAAAAATATTTTTT
*
7386807 GAAAA
1 AAAAA
7386812 TATTGTAATC
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
22 21 0.54
23 12 0.31
24 6 0.15
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (22 bp):
AAAAAAAATAAAAATATTTTTT
Found at i:7390709 original size:22 final size:22
Alignment explanation
Indices: 7390684--7390725 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
7390674 TAATTTGACC
7390684 CCTAAACTTTACATAGAATAAT
1 CCTAAACTTTACATAGAATAAT
* * *
7390706 CCTAAATTTTAGATATAATA
1 CCTAAACTTTACATAGAATA
7390726 CTGATATAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (22 bp):
CCTAAACTTTACATAGAATAAT
Found at i:7392107 original size:45 final size:45
Alignment explanation
Indices: 7392042--7392131 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
7392032 GTTAGCGACC
*
7392042 GTGGTCAGCGGTGATGGAAACCGATGGTGATTAGTGAGAGTGATA
1 GTGGTCAGCGGTGATAGAAACCGATGGTGATTAGTGAGAGTGATA
*
7392087 GTGGTCTGCGGTGATAGAAACCGATGGTGATTAGTGAGAGTGATA
1 GTGGTCAGCGGTGATAGAAACCGATGGTGATTAGTGAGAGTGATA
7392132 AATGACAATC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.27, C:0.09, G:0.39, T:0.26
Consensus pattern (45 bp):
GTGGTCAGCGGTGATAGAAACCGATGGTGATTAGTGAGAGTGATA
Found at i:7399861 original size:29 final size:29
Alignment explanation
Indices: 7399803--7399908 Score: 124
Period size: 29 Copynumber: 3.7 Consensus size: 29
7399793 ATTTTTAAAA
* ***
7399803 TATTTACCAAAATAGCACCTATTTCA-AAT
1 TATTTACCAGAATAGCACC-AAAACAGAAT
* *
7399832 TAATTATCAGAATAGCACCAAAACAGAAT
1 TATTTACCAGAATAGCACCAAAACAGAAT
*
7399861 TATTTACCAGAATAGCACCAAAACCGAAT
1 TATTTACCAGAATAGCACCAAAACAGAAT
*
7399890 TATTTACCAGAATAACACC
1 TATTTACCAGAATAGCACC
7399909 GGTCTACGGT
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
28 3 0.05
29 63 0.95
ACGTcount: A:0.45, C:0.22, G:0.08, T:0.25
Consensus pattern (29 bp):
TATTTACCAGAATAGCACCAAAACAGAAT
Found at i:7399944 original size:13 final size:13
Alignment explanation
Indices: 7399926--7399962 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
7399916 GGTCAACGAT
7399926 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
7399939 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
7399952 CGGGTCGGGTC
1 CGGGTCGGGTC
7399963 GAGTAAACGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.11, C:0.24, G:0.49, T:0.16
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:7399948 original size:18 final size:18
Alignment explanation
Indices: 7399939--7399981 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
7399929 GTCGGGTCAA
* *
7399939 CGGGTCGGGTCAACGGGT
1 CGGGTCGAGTAAACGGGT
7399957 CGGGTCGAGTAAACGGGT
1 CGGGTCGAGTAAACGGGT
7399975 CGGGTCG
1 CGGGTCG
7399982 TGAACGGTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.21, G:0.49, T:0.16
Consensus pattern (18 bp):
CGGGTCGAGTAAACGGGT
Found at i:7399963 original size:31 final size:30
Alignment explanation
Indices: 7399916--7399980 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 30
7399906 ACCGGTCTAC
* *
7399916 GGTCAACGATCGGGTCGGGTCAACGGGTCG
1 GGTCAACGATCGGGTCGAGTAAACGGGTCG
*
7399946 GGTCAACGGGTCGGGTCGAGTAAACGGGTCG
1 GGTCAAC-GATCGGGTCGAGTAAACGGGTCG
7399977 GGTC
1 GGTC
7399981 GTGAACGGTC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
30 7 0.23
31 24 0.77
ACGTcount: A:0.17, C:0.22, G:0.45, T:0.17
Consensus pattern (30 bp):
GGTCAACGATCGGGTCGAGTAAACGGGTCG
Found at i:7402576 original size:17 final size:17
Alignment explanation
Indices: 7402531--7402577 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 17
7402521 ATATCACATG
*
7402531 TATCCCAAAACCTGGTA
1 TATCCCAAAACCCGGTA
*
7402548 TAGATACCAAAACCCGGTA
1 T--ATCCCAAAACCCGGTA
7402567 TATCCCAAAAC
1 TATCCCAAAAC
7402578 ACTCTCCCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 10 0.40
19 15 0.60
ACGTcount: A:0.40, C:0.30, G:0.11, T:0.19
Consensus pattern (17 bp):
TATCCCAAAACCCGGTA
Found at i:7403232 original size:3 final size:3
Alignment explanation
Indices: 7403226--7403293 Score: 91
Period size: 3 Copynumber: 21.7 Consensus size: 3
7403216 TATCATCAAA
*
7403226 TAT TATT TAT TAT TAT TAT TAT TAAT TGT TAT TAT TAT TAT TAT TAAT
1 TAT TA-T TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT T-AT
*
7403274 TAT TAT TAT CAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TA
7403294 AGTAAACAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
3 49 0.84
4 9 0.16
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:7403260 original size:22 final size:22
Alignment explanation
Indices: 7403227--7403294 Score: 109
Period size: 22 Copynumber: 3.0 Consensus size: 22
7403217 ATCATCAAAT
7403227 ATTATTTATTATTATTATTATTA
1 ATTA-TTATTATTATTATTATTA
*
7403250 ATTGTTATTATTATTATTATTA
1 ATTATTATTATTATTATTATTA
*
7403272 ATTATTATTATCATTATTATTA
1 ATTATTATTATTATTATTATTA
7403294 A
1 A
7403295 GTAAACAAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
22 39 0.93
23 3 0.07
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (22 bp):
ATTATTATTATTATTATTATTA
Found at i:7403288 original size:19 final size:19
Alignment explanation
Indices: 7403204--7403290 Score: 84
Period size: 19 Copynumber: 4.4 Consensus size: 19
7403194 TTTTTAAATT
* *
7403204 ATTAATAATTATTATCATC
1 ATTATTAATTATTATTATC
* * *
7403223 AAATATTATTTATTATTATT
1 -ATTATTAATTATTATTATC
*
7403243 ATTATTAATTGTTATTATTATT
1 ATTATTAA---TTATTATTATC
7403265 ATTATTAATTATTATTATC
1 ATTATTAATTATTATTATC
7403284 ATTATTA
1 ATTATTA
7403291 TTAAGTAAAC
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
19 23 0.41
20 14 0.25
22 19 0.34
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.57
Consensus pattern (19 bp):
ATTATTAATTATTATTATC
Found at i:7404064 original size:40 final size:40
Alignment explanation
Indices: 7404015--7404096 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 40
7404005 ATAGGAGTCA
* * ** *
7404015 AATATTGCACAATAGTGCTGAGGTCGAGCCTTGCTCACCT
1 AATAATGCACAATAATGCCAAGGTCGAGCCTTGCCCACCT
* *
7404055 AATAATGCACCATAATGCCAAGGTCGGGCCTTGCCCACCT
1 AATAATGCACAATAATGCCAAGGTCGAGCCTTGCCCACCT
7404095 AA
1 AA
7404097 CTTGTACTAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
AATAATGCACAATAATGCCAAGGTCGAGCCTTGCCCACCT
Found at i:7405111 original size:11 final size:11
Alignment explanation
Indices: 7405095--7405119 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7405085 TTTACAACCC
7405095 TTCCATAATTT
1 TTCCATAATTT
7405106 TTCCATAATTT
1 TTCCATAATTT
7405117 TTC
1 TTC
7405120 TCATCCAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.20, G:0.00, T:0.56
Consensus pattern (11 bp):
TTCCATAATTT
Found at i:7411009 original size:16 final size:16
Alignment explanation
Indices: 7410990--7411023 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
7410980 TGTTGGTGGG
7410990 AATGGAATGATGG-TGT
1 AATGGAAT-ATGGTTGT
7411006 AATGGAATATGGTTGT
1 AATGGAATATGGTTGT
7411022 AA
1 AA
7411024 CATCCCAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (16 bp):
AATGGAATATGGTTGT
Found at i:7411839 original size:64 final size:63
Alignment explanation
Indices: 7411759--7412037 Score: 230
Period size: 64 Copynumber: 4.3 Consensus size: 63
7411749 ATGCACATTC
**
7411759 ATAAGTGCATCGATGCATTCCTTTAA-AAGAAGAACATCGAATGCCTTTGATGCATCGATGCATA
1 ATAA-TGCATCGATGCATTCCTTTAATAAGAAGAACATCGAATGCAATT-ATGCATCGATGCATA
* * *
7411823 GATAATGCATCGATGCA-TCCTTTTAA-AATAATAACATCGAATGCAATCAATGCATCGATGCAT
1 -ATAATGCATCGATGCATTCC-TTTAATAAGAAGAACATCGAATGCAAT-TATGCATCGATGCAT
7411886 A
63 A
* ** * * * *
7411887 AGGAGCGCATCGATGCATCCCATTAATAA-TAGAACATCAAATGCAATTAGTGCATCGATGCATA
1 A-TAATGCATCGATGCATTCCTTTAATAAGAAGAACATCGAATGCAATTA-TGCATCGATGCATA
* * * *
7411951 AGGT-ATGCATCGATGCA-TCTCATTAATAAGGA-AACATCGAATGCATTTTATGCACCGATGCA
1 A--TAATGCATCGATGCATTC-CTTTAATAAGAAGAACATCGAATGCA-ATTATGCATCGATGCA
*
7412013 CA
62 TA
* *
7412015 AGTAGTGCATCGATGCATACCTT
1 A-TAATGCATCGATGCATTCCTT
7412038 CATTGAAAGA
Statistics
Matches: 176, Mismatches: 26, Indels: 25
0.78 0.11 0.11
Matches are distributed among these distances:
63 8 0.05
64 154 0.88
65 14 0.08
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (63 bp):
ATAATGCATCGATGCATTCCTTTAATAAGAAGAACATCGAATGCAATTATGCATCGATGCATA
Found at i:7411904 original size:128 final size:128
Alignment explanation
Indices: 7411765--7412037 Score: 304
Period size: 128 Copynumber: 2.1 Consensus size: 128
7411755 ATTCATAAGT
* * * *
7411765 GCATCGATGCATTCCTTTAA-AAGAAGAACATCGAATGC-CTTTGATGCATCGATGCAT-AGATA
1 GCATCGATGCATACCTTTAATAA-AAGAACATCAAATGCAATTAG-TGCATCGATGCATAAGAT-
* * * *
7411827 ATGCATCGATGCATC-CTTTTAA-AATAATAACATCGAATGCAATCAATGCATCGATGCATAAGG
63 ATGCATCGATGCATCTC-ATTAATAAGAA-AACATCGAATGCAATCAATGCACCGATGCACAAGG
7411890 AGC
126 AGC
* * * *
7411893 GCATCGATGCATCCCATTAATAATAGAACATCAAATGCAATTAGTGCATCGATGCATAAGGTATG
1 GCATCGATGCATACCTTTAATAAAAGAACATCAAATGCAATTAGTGCATCGATGCATAAGATATG
* * ** * *
7411958 CATCGATGCATCTCATTAATAAGGAAACATCGAATGCATTTTATGCACCGATGCACAAGTAGT
66 CATCGATGCATCTCATTAATAAGAAAACATCGAATGCAATCAATGCACCGATGCACAAGGAGC
7412021 GCATCGATGCATACCTT
1 GCATCGATGCATACCTT
7412038 CATTGAAAGA
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
128 109 0.90
129 12 0.10
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (128 bp):
GCATCGATGCATACCTTTAATAAAAGAACATCAAATGCAATTAGTGCATCGATGCATAAGATATG
CATCGATGCATCTCATTAATAAGAAAACATCGAATGCAATCAATGCACCGATGCACAAGGAGC
Found at i:7412747 original size:30 final size:30
Alignment explanation
Indices: 7412711--7412774 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
7412701 AAGGAACATA
* *
7412711 TGGATAGTTGCCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATAACCTC
* * *
7412741 TGGATAGTTACCGGGGTTCTTTGTAACCTC
1 TGGATAGTTACCGAGGATCTTTATAACCTC
7412771 TGGA
1 TGGA
7412775 CAGGTCCTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.34
Consensus pattern (30 bp):
TGGATAGTTACCGAGGATCTTTATAACCTC
Found at i:7416160 original size:64 final size:64
Alignment explanation
Indices: 7416076--7416349 Score: 231
Period size: 64 Copynumber: 4.3 Consensus size: 64
7416066 CATTCATAAG
* **
7416076 TGCATCGATGCATTCC-TTTAA-AAGAAGAACATTGAATGCCTTTGATGCATCGATGCAT-AGCT
1 TGCATCGATGCA-TCCTTTTAATAAGAAGAACATCGAATGCAATT-ATGCATCGATGCATAAG-T
7416138 AA
63 AA
* * * * *
7416140 TGCATCGATGCATCCTTTTAA-AATAATAACATCGAATGCAATCAATGCATCGATGCATAAGGAG
1 TGCATCGATGCATCCTTTTAATAAGAAGAACATCGAATGCAAT-TATGCATCGATGCATAAGTAA
* * ** * *
7416204 CGCATCGATGTATCCCATTAATAA-TAGAACATCAAATGCAATTAGTGCATCGATGCATAAGGT-
1 TGCATCGATGCATCCTTTTAATAAGAAGAACATCGAATGCAATTA-TGCATCGATGCATAA-GTA
7416267 A
64 A
* * * * *
7416268 TGCATCGATGCAT-CTCATTAATAAGGA-AACATCGAATGCATTTTATGCACCGATGCACAAGTA
1 TGCATCGATGCATCCT-TTTAATAAGAAGAACATCGAATGCA-ATTATGCATCGATGCATAAGTA
*
7416331 G
64 A
7416332 TGCATCGATGCATACCTT
1 TGCATCGATGCAT-CCTT
7416350 CATTGAAAGA
Statistics
Matches: 170, Mismatches: 28, Indels: 23
0.77 0.13 0.10
Matches are distributed among these distances:
63 7 0.04
64 152 0.89
65 9 0.05
66 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.28
Consensus pattern (64 bp):
TGCATCGATGCATCCTTTTAATAAGAAGAACATCGAATGCAATTATGCATCGATGCATAAGTAA
Found at i:7418155 original size:20 final size:20
Alignment explanation
Indices: 7418127--7418164 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7418117 TAAGGCACTA
*
7418127 AACATCATAAAAAAACAAAT
1 AACAACATAAAAAAACAAAT
*
7418147 AACAACATACAAAAACAA
1 AACAACATAAAAAAACAA
7418165 CAATCCATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.71, C:0.18, G:0.00, T:0.11
Consensus pattern (20 bp):
AACAACATAAAAAAACAAAT
Found at i:7420855 original size:18 final size:18
Alignment explanation
Indices: 7420804--7420846 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
7420794 AAAAATATTC
7420804 AATTTTTATATAAATTAG
1 AATTTTTATATAAATTAG
7420822 AATTTTTATATAAATTAG
1 AATTTTTATATAAATTAG
7420840 AATTTTT
1 AATTTTT
7420847 TTAAAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (18 bp):
AATTTTTATATAAATTAG
Found at i:7423076 original size:20 final size:21
Alignment explanation
Indices: 7423051--7423089 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7423041 GGCTGCTGGA
7423051 AACCGGTT-TAACCGGTTTTC
1 AACCGGTTCTAACCGGTTTTC
*
7423071 AACCGGTTCTGACCGGTTT
1 AACCGGTTCTAACCGGTTT
7423090 GACCAGTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.18, C:0.26, G:0.23, T:0.33
Consensus pattern (21 bp):
AACCGGTTCTAACCGGTTTTC
Found at i:7423087 original size:10 final size:9
Alignment explanation
Indices: 7423052--7423137 Score: 73
Period size: 10 Copynumber: 8.9 Consensus size: 9
7423042 GCTGCTGGAA
*
7423052 ACCGGTTTA
1 ACCGGTTTG
*
7423061 ACCGGTTTTCA
1 ACCGG-TTT-G
7423072 ACCGGTTCTG
1 ACCGGTT-TG
7423082 ACCGGTTTG
1 ACCGGTTTG
*
7423091 ACCAGTTTCG
1 ACCGGTTT-G
*
7423101 ACCGGTTCG
1 ACCGGTTTG
7423110 AACCGGTTTG
1 -ACCGGTTTG
*
7423120 ACCGGTCTG
1 ACCGGTTTG
7423129 AACCGGTTT
1 -ACCGGTTT
7423138 AACCAGTCTG
Statistics
Matches: 64, Mismatches: 7, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
9 23 0.36
10 34 0.53
11 7 0.11
ACGTcount: A:0.16, C:0.27, G:0.27, T:0.30
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:7423131 original size:19 final size:19
Alignment explanation
Indices: 7423051--7423148 Score: 83
Period size: 19 Copynumber: 5.1 Consensus size: 19
7423041 GGCTGCTGGA
* * *
7423051 AACCGGTTTAACCGGTTTTC
1 AACCGGTTTGACCGG-TCTG
*
7423071 AACCGGTTCTGACCGGTTTG
1 AACCGGTT-TGACCGGTCTG
*
7423091 -ACCAGTTTCGACCGGT-TCG
1 AACCGGTTT-GACCGGTCT-G
7423110 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
* *
7423129 AACCGGTTTAACCAGTCTG
1 AACCGGTTTGACCGGTCTG
7423148 A
1 A
7423149 CCCGACCAAC
Statistics
Matches: 67, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
18 2 0.03
19 40 0.60
20 19 0.28
21 6 0.09
ACGTcount: A:0.19, C:0.27, G:0.26, T:0.29
Consensus pattern (19 bp):
AACCGGTTTGACCGGTCTG
Found at i:7423133 original size:29 final size:30
Alignment explanation
Indices: 7423051--7423136 Score: 97
Period size: 29 Copynumber: 2.9 Consensus size: 30
7423041 GGCTGCTGGA
* *
7423051 AACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 AACCGGTTTGACCGG-TTTGAACCGGTTCTG
*
7423082 -ACCGGTTTGACCAGTTTCG-ACCGGTTC-G
1 AACCGGTTTGACCGGTTT-GAACCGGTTCTG
*
7423110 AACCGGTTTGACCGGTCTGAACCGGTT
1 AACCGGTTTGACCGGTTTGAACCGGTT
7423137 TAACCAGTCT
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
28 2 0.04
29 33 0.70
30 12 0.26
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.29
Consensus pattern (30 bp):
AACCGGTTTGACCGGTTTGAACCGGTTCTG
Found at i:7423193 original size:21 final size:21
Alignment explanation
Indices: 7423158--7423223 Score: 89
Period size: 21 Copynumber: 3.0 Consensus size: 21
7423148 ACCCGACCAA
7423158 CCGACCCGACCCGACCGTTGAC
1 CCGACCCGA-CCGACCGTTGAC
*
7423180 CCGA-TCGATCCGACCGTTGAC
1 CCGACCCGA-CCGACCGTTGAC
7423201 CCGACCCGACCGGACCGTTGAC
1 CCGACCCGACC-GACCGTTGAC
7423223 C
1 C
7423224 GTTGACCGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
21 21 0.54
22 18 0.46
ACGTcount: A:0.18, C:0.45, G:0.24, T:0.12
Consensus pattern (21 bp):
CCGACCCGACCGACCGTTGAC
Found at i:7426261 original size:18 final size:18
Alignment explanation
Indices: 7426235--7426283 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
7426225 ATGTAAAATG
* *
7426235 GGTACCGATACCATGACT
1 GGTATCGATACCATGACC
7426253 GGTATCGATACCATGACC
1 GGTATCGATACCATGACC
7426271 GGTATCGATACCA
1 GGTATCGATACCA
7426284 CAACGGTCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (18 bp):
GGTATCGATACCATGACC
Found at i:7432579 original size:18 final size:18
Alignment explanation
Indices: 7432539--7432579 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
7432529 ATTAAAAAAA
*
7432539 TGTTTTTTTAATTAGTGT
1 TGTTTTTTTAATTAGTAT
7432557 T-TTTTATTTAATTA-TAT
1 TGTTTT-TTTAATTAGTAT
7432574 TGTTTT
1 TGTTTT
7432580 CATGAAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.71
Consensus pattern (18 bp):
TGTTTTTTTAATTAGTAT
Found at i:7432633 original size:12 final size:12
Alignment explanation
Indices: 7432604--7432640 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
7432594 ATATTATAAT
*
7432604 TTTTCAAACTTAG
1 TTTTCAAAATT-G
7432617 TTTTCAAAATTG
1 TTTTCAAAATTG
7432629 TTTTCAAAATTG
1 TTTTCAAAATTG
7432641 CCCTATTAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.49
Consensus pattern (12 bp):
TTTTCAAAATTG
Found at i:7434493 original size:19 final size:19
Alignment explanation
Indices: 7434471--7434536 Score: 102
Period size: 19 Copynumber: 3.6 Consensus size: 19
7434461 TTTTAAGATT
7434471 TTATATTCGATTTAAAATA
1 TTATATTCGATTTAAAATA
7434490 TTATATT---TTTAAAATA
1 TTATATTCGATTTAAAATA
*
7434506 TTATATTTGATTTAAAATA
1 TTATATTCGATTTAAAATA
7434525 TTATATTCGATT
1 TTATATTCGATT
7434537 CAATTATTCG
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
16 16 0.37
19 27 0.63
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (19 bp):
TTATATTCGATTTAAAATA
Found at i:7434500 original size:35 final size:35
Alignment explanation
Indices: 7434461--7434531 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
7434451 TGTTAAGTAA
* *
7434461 TTTTAAGATTTTATATTCGATTTAAAATATTATAT
1 TTTTAAAATATTATATTCGATTTAAAATATTATAT
*
7434496 TTTTAAAATATTATATTTGATTTAAAATATTATAT
1 TTTTAAAATATTATATTCGATTTAAAATATTATAT
7434531 T
1 T
7434532 CGATTCAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.55
Consensus pattern (35 bp):
TTTTAAAATATTATATTCGATTTAAAATATTATAT
Found at i:7434502 original size:16 final size:17
Alignment explanation
Indices: 7434480--7434531 Score: 79
Period size: 16 Copynumber: 3.0 Consensus size: 17
7434470 TTTATATTCG
7434480 ATTTAAAATATTATATT
1 ATTTAAAATATTATATT
7434497 -TTTAAAATATTATATTT
1 ATTTAAAATATTATA-TT
7434514 GATTTAAAATATTATATT
1 -ATTTAAAATATTATATT
7434532 CGATTCAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
16 14 0.44
17 2 0.06
18 2 0.06
19 14 0.44
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (17 bp):
ATTTAAAATATTATATT
Found at i:7437253 original size:18 final size:18
Alignment explanation
Indices: 7437229--7437310 Score: 110
Period size: 18 Copynumber: 4.6 Consensus size: 18
7437219 AATGTTTAAT
* *
7437229 GTTATCATACATTTTACA
1 GTTATCAGACGTTTTACA
* *
7437247 GTAATCAGACGTTTTTCA
1 GTTATCAGACGTTTTACA
*
7437265 GTTATCAGATGTTTTACA
1 GTTATCAGACGTTTTACA
*
7437283 GTTATCAGATGTTTTACA
1 GTTATCAGACGTTTTACA
7437301 GTTATCAGAC
1 GTTATCAGAC
7437311 ATAGATTAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 56 1.00
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (18 bp):
GTTATCAGACGTTTTACA
Found at i:7451444 original size:147 final size:147
Alignment explanation
Indices: 7451177--7451460 Score: 356
Period size: 147 Copynumber: 1.9 Consensus size: 147
7451167 AGTCTCCGAC
* * * **
7451177 TATTAAAAGTTACAAAATGATCACTCAATTATTTATATATTCTAAACTCATCATTTTTCATTAAA
1 TATTAAAAATTACAAAATGATCACTCAATTATTCATATATTCTAAACTCATCATTTTCCACCAAA
* * * ** * *
7451242 AAATTGACATCAGTTTGAGCCAATGTCGGAGCCACGACTTGGTGAGGGTGGGCACATGCCTACCC
66 AAATCGACATCAATTTAAGCCAATGTCAAAGCCAAGACTTGGTGAAGGTGGGCACATGCCTACCC
7451307 TAAAATTGACACTTGAT
131 TAAAATTGACACTTGAT
* * *
7451324 TATTAAAAATTACAAAATGATCACTCGATTATTCATATGTTCTAAACTCATTC-TTTTCCGCCAA
1 TATTAAAAATTACAAAATGATCACTCAATTATTCATATATTCTAAACTCA-TCATTTTCCACCAA
* * * *
7451388 AAAATCGACATCAATTTAAGTCAATTTCAAAGCCATAG-CTTGGTGAAGGTGGGCACATGTCTAT
65 AAAATCGACATCAATTTAAGCCAATGTCAAAGCCA-AGACTTGGTGAAGGTGGGCACATGCCTAC
*
7451452 CCTGAAATT
129 CCTAAAATT
7451461 TGAGTTTTCT
Statistics
Matches: 115, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
147 112 0.97
148 3 0.03
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (147 bp):
TATTAAAAATTACAAAATGATCACTCAATTATTCATATATTCTAAACTCATCATTTTCCACCAAA
AAATCGACATCAATTTAAGCCAATGTCAAAGCCAAGACTTGGTGAAGGTGGGCACATGCCTACCC
TAAAATTGACACTTGAT
Found at i:7452630 original size:64 final size:62
Alignment explanation
Indices: 7452551--7452681 Score: 172
Period size: 64 Copynumber: 2.1 Consensus size: 62
7452541 ACAAGTGTTA
* * * * *
7452551 AAAAATAAATGAATTTTAAGGGTAACTTCATAATAACAAGTATTGAAAAACATGAGACTCTAAT
1 AAAAATAAATAAATTTTAAGAGTAACCTCAAAATAACAAATATTGAAAAA-ATGA-ACTCTAAT
* * *
7452615 AAAAATAAATAAATTTTAATAGTATCCTCAAAATAACAAATATTGAAAAAATGAACTTTAAT
1 AAAAATAAATAAATTTTAAGAGTAACCTCAAAATAACAAATATTGAAAAAATGAACTCTAAT
7452677 AAAAA
1 AAAAA
7452682 GTACTAAAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
62 12 0.20
63 4 0.07
64 43 0.73
ACGTcount: A:0.55, C:0.08, G:0.08, T:0.28
Consensus pattern (62 bp):
AAAAATAAATAAATTTTAAGAGTAACCTCAAAATAACAAATATTGAAAAAATGAACTCTAAT
Found at i:7452821 original size:29 final size:30
Alignment explanation
Indices: 7452753--7452831 Score: 76
Period size: 29 Copynumber: 2.7 Consensus size: 30
7452743 AGTACACCCT
* *
7452753 TAATAACAAATATTGAAAACATTGGGTCCC
1 TAATAACAAATATTGAAAAAATTAGGTCCC
* *
7452783 -GATAATAAATATTGAAAAAATTAGG-CCTC
1 TAATAACAAATATTGAAAAAATTAGGTCC-C
*
7452812 TAATAA-AAATGTT-AAAAAAT
1 TAATAACAAATATTGAAAAAAT
7452832 ATTGGAAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
28 9 0.22
29 28 0.68
30 4 0.10
ACGTcount: A:0.51, C:0.10, G:0.11, T:0.28
Consensus pattern (30 bp):
TAATAACAAATATTGAAAAAATTAGGTCCC
Found at i:7455685 original size:12 final size:12
Alignment explanation
Indices: 7455668--7455693 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7455658 TTTTTGCCAC
7455668 TTATTATTTTTA
1 TTATTATTTTTA
7455680 TTATTATTTTTA
1 TTATTATTTTTA
7455692 TT
1 TT
7455694 TTACTAACTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTATTATTTTTA
Found at i:7459147 original size:15 final size:16
Alignment explanation
Indices: 7459122--7459184 Score: 74
Period size: 16 Copynumber: 3.8 Consensus size: 16
7459112 AGATTCAATC
7459122 AAGAA-CAAAAAAGAA
1 AAGAAGCAAAAAAGAA
7459137 AAGAAGCAAAAAAGAAAA
1 AAGAAGCAAAAAAG--AA
*
7459155 AACAAGAACAAAAAAGAA
1 AAGAAG--CAAAAAAGAA
7459173 AAGAAGCAAAAA
1 AAGAAGCAAAAA
7459185 TCTAAAGGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
15 5 0.12
16 14 0.34
18 14 0.34
20 8 0.20
ACGTcount: A:0.78, C:0.08, G:0.14, T:0.00
Consensus pattern (16 bp):
AAGAAGCAAAAAAGAA
Found at i:7459154 original size:21 final size:21
Alignment explanation
Indices: 7459130--7459177 Score: 73
Period size: 20 Copynumber: 2.3 Consensus size: 21
7459120 TCAAGAACAA
7459130 AAAAGAA-AAGAAGCAAAAAAG
1 AAAAGAACAAGAA-CAAAAAAG
7459151 AAAA-AACAAGAACAAAAAAG
1 AAAAGAACAAGAACAAAAAAG
7459171 AAAAGAA
1 AAAAGAA
7459178 GCAAAAATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.79, C:0.06, G:0.15, T:0.00
Consensus pattern (21 bp):
AAAAGAACAAGAACAAAAAAG
Found at i:7460271 original size:18 final size:18
Alignment explanation
Indices: 7460248--7460283 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
7460238 TCAACATCAA
*
7460248 ATATTGGGGCATTTTTGG
1 ATATTGGGGCATCTTTGG
7460266 ATATTGGGGCATCTTTGG
1 ATATTGGGGCATCTTTGG
7460284 GGATTCAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.08, G:0.33, T:0.42
Consensus pattern (18 bp):
ATATTGGGGCATCTTTGG
Found at i:7461090 original size:37 final size:37
Alignment explanation
Indices: 7461020--7461091 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
7461010 TGGAACTAAG
* * **
7461020 TTTTGTCTCTCTTGAGACAGTTTTTGTTAAAACAAAA
1 TTTTGTCTCCCTTGAGACAGTTTCTCATAAAACAAAA
* *
7461057 TTTTGTCTCCCTTGAGACCGTTTCTCATGAAACAA
1 TTTTGTCTCCCTTGAGACAGTTTCTCATAAAACAA
7461092 CAAATATCTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.40
Consensus pattern (37 bp):
TTTTGTCTCCCTTGAGACAGTTTCTCATAAAACAAAA
Found at i:7461864 original size:106 final size:106
Alignment explanation
Indices: 7461710--7462135 Score: 699
Period size: 106 Copynumber: 4.0 Consensus size: 106
7461700 TCACGCCACC
* *
7461710 CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAATAACTTCCCAAT
1 CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
* *
7461775 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACT
66 TTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGGACT
* *
7461816 CAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAATAATTTCCCAAT
1 CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
* **
7461881 TTCAGAGCCAATTTCAACTTCACAGCGAAGGGCATTGGACT
66 TTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGGACT
*
7461922 CGAGACAACACAAGTTCAACTTCACAATGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
1 CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
* *
7461987 TTTAGAACCAATTTCAACTTCACAGCGAATGATATTGGACT
66 TTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGGACT
* *
7462028 CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCCAGT
1 CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
* * *
7462093 TCCAGAACCAATTTCAACTTCACGGCGGAGGATATTGGACT
66 TTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGGACT
7462134 CG
1 CG
7462136 GAACAATACA
Statistics
Matches: 299, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
106 299 1.00
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (106 bp):
CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
TTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGGACT
Found at i:7463564 original size:16 final size:16
Alignment explanation
Indices: 7463545--7463629 Score: 71
Period size: 18 Copynumber: 4.9 Consensus size: 16
7463535 TATTATTTAC
* *
7463545 TTATTTTATTTATATG
1 TTATATTATATATATG
*
7463561 TTATATTATATATATA
1 TTATATTATATATATG
*
7463577 TATATATATATATATATA
1 T-TATAT-TATATATATG
*
7463595 TATATATATATATATATA
1 T-TATAT-TATATATATG
7463613 TATATATATATATATAT
1 T-TATAT-TATATATAT
7463630 TACGTTATTT
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
16 14 0.22
17 5 0.08
18 45 0.70
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (16 bp):
TTATATTATATATATG
Found at i:7463574 original size:2 final size:2
Alignment explanation
Indices: 7463562--7463629 Score: 129
Period size: 2 Copynumber: 34.5 Consensus size: 2
7463552 ATTTATATGT
7463562 TA TA T- 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
7463603 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
7463630 TACGTTATTT
Statistics
Matches: 65, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 64 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7465124 original size:28 final size:27
Alignment explanation
Indices: 7465084--7465154 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 27
7465074 AATCCTAGAC
*
7465084 TTAATTTTTCAAA-TAGATTATTAATAT
1 TTAATTTATCAAATTAGATTATT-ATAT
*
7465111 TTAAGTTTATCAAATTATATTATTATATT
1 TTAA-TTTATCAAATTAGATTATTATA-T
*
7465140 TTAATTAAT-AAATTA
1 TTAATTTATCAAATTA
7465155 AGTAGTTCAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
27 10 0.26
28 15 0.39
29 13 0.34
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (27 bp):
TTAATTTATCAAATTAGATTATTATAT
Found at i:7466843 original size:20 final size:20
Alignment explanation
Indices: 7466820--7466871 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
7466810 AACGCGATCC
7466820 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
7466840 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
7466860 CCAAAATCGCAA
1 CCAGAATCGCAA
7466872 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:7467021 original size:20 final size:20
Alignment explanation
Indices: 7466927--7467295 Score: 449
Period size: 20 Copynumber: 18.4 Consensus size: 20
7466917 GATTTTCCAT
* ** *
7466927 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
7466947 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
7466967 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
7466987 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
7467007 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
7467027 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
7467047 TATCGTAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
7467067 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
7467087 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
7467107 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
7467127 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
7467147 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
7467167 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
7467187 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
7467207 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
7467227 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
7467247 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
7467267 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
7467287 AATCACAAC
1 AATCGCAAC
7467296 ACTGAAATTT
Statistics
Matches: 303, Mismatches: 38, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
19 3 0.01
20 297 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:7468016 original size:24 final size:24
Alignment explanation
Indices: 7467977--7468023 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
7467967 AAATTTGGTC
7467977 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
7468001 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
7468024 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:7468215 original size:12 final size:12
Alignment explanation
Indices: 7468198--7468222 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7468188 ATATAATCCT
7468198 GAAGAAGAAAAA
1 GAAGAAGAAAAA
7468210 GAAGAAGAAAAA
1 GAAGAAGAAAAA
7468222 G
1 G
7468223 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:7470590 original size:33 final size:33
Alignment explanation
Indices: 7470503--7470733 Score: 236
Period size: 33 Copynumber: 6.8 Consensus size: 33
7470493 CGGAAAATAC
* * *
7470503 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGA-GAG
7470536 AATCGCAATGCGGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGAGAG
* *
7470570 AATCGCAATGCGAAATGAAAATCGCAATGCGA-
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
* * * * *
7470602 AAT-GAAAAT-CGCAACGACAGAATCGCAATGCGAAATTAA
1 AATCG-CAATGCGAAATGA-A-AATCGCAA--CG--A-GAG
*
7470641 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
*
7470674 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
7470707 AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAA
7470734 TGCGAAATGA
Statistics
Matches: 169, Mismatches: 16, Indels: 26
0.80 0.08 0.12
Matches are distributed among these distances:
31 7 0.04
32 7 0.04
33 98 0.58
34 30 0.18
35 2 0.01
36 2 0.01
38 9 0.05
39 7 0.04
40 7 0.04
ACGTcount: A:0.47, C:0.19, G:0.20, T:0.13
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:7470618 original size:52 final size:52
Alignment explanation
Indices: 7470531--7470752 Score: 319
Period size: 52 Copynumber: 4.2 Consensus size: 52
7470521 AAATCCCAAC
7470531 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
7470584 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* *
7470636 ATTAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
7470688 ATGAAAATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAA
7470740 ATGAAAATCGCAA
1 ATGAAAATCGCAA
7470753 CGAGATAATC
Statistics
Matches: 158, Mismatches: 6, Indels: 11
0.90 0.03 0.06
Matches are distributed among these distances:
47 8 0.05
49 3 0.02
50 5 0.03
51 1 0.01
52 125 0.79
53 16 0.10
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:7470684 original size:85 final size:84
Alignment explanation
Indices: 7470503--7470774 Score: 358
Period size: 85 Copynumber: 3.2 Consensus size: 84
7470493 CGGAAAATAC
* *
7470503 AATCGCAACGCGAAATGAAAATCCCAACATGAA-AATCGCAATGCGGAAATGAAAATCGCAA--C
1 AATCGCAATGCGAAATGAAAATCGCAAC--GAAGAATCGCAATGC-GAAATGAAAATCGCAATGC
*
7470565 G--A-GAGAATCGCAATGCGAAATG
63 GAAATGAAAATCGCAA--CGAAA-G
*
7470587 AAAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAAATTAAAATCGCAATGC
1 --AATCGCAATGCGAAATGAAAATCGCAACGA-AGAATCGCAATGCGAAATGAAAATCGCAATGC
7470652 GAAATGAAAATCGCAACGAAAG
63 GAAATGAAAATCGCAACGAAAG
7470674 AATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAACG-AAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
* *
7470739 AATGAAAATCGCAACGAGAT
65 AATGAAAATCGCAACGAAAG
7470759 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
7470775 TATAAACGCA
Statistics
Matches: 171, Mismatches: 7, Indels: 17
0.88 0.04 0.09
Matches are distributed among these distances:
84 2 0.01
85 112 0.65
86 38 0.22
87 3 0.02
88 5 0.03
89 1 0.01
90 10 0.06
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.14
Consensus pattern (84 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAA
ATGAAAATCGCAACGAAAG
Found at i:7470790 original size:52 final size:52
Alignment explanation
Indices: 7470570--7470774 Score: 214
Period size: 52 Copynumber: 3.9 Consensus size: 52
7470560 GCAACGAGAG
*
7470570 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGACA-G--
1 AATCGCAATGCGAAATGAAAATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAA
*
7470622 AATCGCAATGCGAAATTAAAATCGCAATGCGAAATGAAAATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAAAATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAA
7470674 AATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAA
* *
7470726 AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAAT
1 AATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAAT
7470775 TATAAACGCA
Statistics
Matches: 143, Mismatches: 5, Indels: 10
0.91 0.03 0.06
Matches are distributed among these distances:
47 8 0.06
49 6 0.04
50 6 0.04
52 123 0.86
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (52 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAA
Found at i:7470890 original size:19 final size:19
Alignment explanation
Indices: 7470781--7470882 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
7470771 AAATTATAAA
7470781 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
7470800 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
7470820 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
7470836 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
7470853 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
7470872 CGCATTGCGAT
1 CGCATTGCGAT
7470883 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:7471008 original size:14 final size:14
Alignment explanation
Indices: 7470989--7471025 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
7470979 CATCAATTAC
7470989 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
7471003 ACAAATCATCTTTT
1 ACAAATCAACTTTT
7471017 ACAAATCAA
1 ACAAATCAA
7471026 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:7473023 original size:14 final size:14
Alignment explanation
Indices: 7473004--7473060 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
7472994 GCGAAATGAA
*
7473004 AATCGCAACGACAG
1 AATCGCAACGAAAG
7473018 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
7473035 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
7473051 AATCGCAACG
1 AATCGCAACG
7473061 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:7473031 original size:33 final size:33
Alignment explanation
Indices: 7472985--7473077 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
7472975 GCGAAACCAA
*
7472985 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
7473018 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
7473051 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
7473078 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:7473042 original size:19 final size:19
Alignment explanation
Indices: 7472948--7473082 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
7472938 TAGTTTACTT
* *
7472948 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
7472968 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
7472987 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
7473006 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
7473020 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
7473039 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
7473053 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
7473072 TCGCAATGCGA
1 TCGCAACGCGA
7473083 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:7473100 original size:19 final size:19
Alignment explanation
Indices: 7473078--7473206 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
7473068 AAAATCGCAA
7473078 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
7473097 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
7473111 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
7473130 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
7473144 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
7473163 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
7473182 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
7473202 TGCGA
1 TGCGA
7473207 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:7473120 original size:33 final size:33
Alignment explanation
Indices: 7473078--7473169 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
7473068 AAAATCGCAA
7473078 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
7473111 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
7473144 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
7473170 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:7473500 original size:93 final size:93
Alignment explanation
Indices: 7473238--7473796 Score: 1086
Period size: 93 Copynumber: 6.0 Consensus size: 93
7473228 GCAAATTGAA
7473238 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
1 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
7473303 GCAGAATTGGCAGCAACCGAACAAATTT
66 GCAGAATTGGCAGCAACCGAACAAATTT
7473331 ACTTTCAACC-AAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
1 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
7473395 GCAGAATTGGCAGCAACCGAACAAATTT
66 GCAGAATTGGCAGCAACCGAACAAATTT
7473423 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
1 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
7473488 GCAGAATTGGCAGCAACCGAACAAATTT
66 GCAGAATTGGCAGCAACCGAACAAATTT
7473516 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
1 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
*
7473581 GCAGAATTGGCATCAACCGAACAAATTT
66 GCAGAATTGGCAGCAACCGAACAAATTT
7473609 ACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACACAGTTTA
1 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
7473673 GCAGAATTGGCAGCAACCGAACAAATTT
66 GCAGAATTGGCAGCAACCGAACAAATTT
7473701 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
1 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
*
7473766 GCAGAATTGGCAGCAACCGAATAAATTT
66 GCAGAATTGGCAGCAACCGAACAAATTT
7473794 ACT
1 ACT
7473797 AAGCAATCTA
Statistics
Matches: 461, Mismatches: 3, Indels: 4
0.99 0.01 0.01
Matches are distributed among these distances:
92 183 0.40
93 278 0.60
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
GCAGAATTGGCAGCAACCGAACAAATTT
Found at i:7473648 original size:185 final size:186
Alignment explanation
Indices: 7473238--7473796 Score: 1086
Period size: 185 Copynumber: 3.0 Consensus size: 186
7473228 GCAAATTGAA
7473238 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
1 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
7473303 GCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACC-AAAGACAAAACAAAGACAAATACTAT
66 GCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAT
7473367 TTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTT
131 TTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTT
7473423 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
1 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
7473488 GCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAT
66 GCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAT
*
7473553 TTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCATCAACCGAACAAATTT
131 TTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTT
7473609 ACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACACAGTTTA
1 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
7473673 GCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAT
66 GCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAT
*
7473738 TTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAATAAATTT
131 TTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTT
7473794 ACT
1 ACT
7473797 AAGCAATCTA
Statistics
Matches: 370, Mismatches: 3, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
185 256 0.69
186 114 0.31
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (186 bp):
ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
GCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAT
TTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTT
Found at i:7473735 original size:278 final size:278
Alignment explanation
Indices: 7473238--7473796 Score: 1084
Period size: 278 Copynumber: 2.0 Consensus size: 278
7473228 GCAAATTGAA
7473238 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
1 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
7473303 GCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAGACAAAACAAAGACAAATACTATT
66 GCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAGACAAAACAAAGACAAATACTATT
7473368 TCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACC
131 TCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACC
7473433 AAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGG
196 AAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGG
7473498 CAGCAACCGAACAAATTT
261 CAGCAACCGAACAAATTT
7473516 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
1 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
*
7473581 GCAGAATTGGCATCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TAT
66 GCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACC-AAAGACAAAACAAAGACAAATACTAT
7473645 TTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAAC
130 TTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAAC
7473710 CAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTG
195 CAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTG
*
7473775 GCAGCAACCGAATAAATTT
260 GCAGCAACCGAACAAATTT
7473794 ACT
1 ACT
7473797 AAGCAATCTA
Statistics
Matches: 278, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
278 256 0.92
279 22 0.08
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (278 bp):
ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
GCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAGACAAAACAAAGACAAATACTATT
TCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACC
AAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGG
CAGCAACCGAACAAATTT
Found at i:7475519 original size:14 final size:14
Alignment explanation
Indices: 7475500--7475587 Score: 77
Period size: 14 Copynumber: 5.6 Consensus size: 14
7475490 TTGAAATGAA
7475500 AATCGCAACGAGAG
1 AATCGCAACGAGAG
7475514 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
7475531 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
7475547 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
7475566 AATCGCAACGAGAG
1 AATCGCAACGAGAG
7475580 AATCGCAA
1 AATCGCAA
7475588 TGCGAAATGA
Statistics
Matches: 62, Mismatches: 2, Indels: 20
0.74 0.02 0.24
Matches are distributed among these distances:
14 26 0.42
15 1 0.02
16 8 0.13
17 8 0.13
18 1 0.02
19 18 0.29
ACGTcount: A:0.43, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:7475537 original size:33 final size:33
Alignment explanation
Indices: 7475492--7475606 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
7475482 TCTTTTGGTT
7475492 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
7475525 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
7475558 GAAATGAAAATCGCAACGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
7475591 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
7475607 TGCGATTTTG
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 77 1.00
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:7475538 original size:19 final size:18
Alignment explanation
Indices: 7475499--7475611 Score: 79
Period size: 19 Copynumber: 6.8 Consensus size: 18
7475489 GTTGAAATGA
7475499 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
7475514 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
7475531 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
7475547 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
7475564 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
* *
7475580 -AATCGCAATGCGAAATG
1 AAATCGCAACGCGAGATG
*
7475597 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
7475612 TTTTGGTTTC
Statistics
Matches: 80, Mismatches: 3, Indels: 26
0.73 0.03 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 29 0.36
ACGTcount: A:0.43, C:0.21, G:0.25, T:0.11
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:7475642 original size:14 final size:14
Alignment explanation
Indices: 7475623--7475677 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
7475613 TTTGGTTTCG
7475623 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
7475637 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
7475656 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
7475670 CGTTGCGA
1 CGTTGCGA
7475678 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:7475655 original size:33 final size:33
Alignment explanation
Indices: 7475607--7475677 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
7475597 AAAATCGCAA
**
7475607 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
7475640 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
7475673 TGCGA
1 TGCGA
7475678 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:7475685 original size:33 final size:33
Alignment explanation
Indices: 7475618--7475699 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
7475608 GCGATTTTGG
***
7475618 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
7475651 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
7475684 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
7475700 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:7475704 original size:20 final size:20
Alignment explanation
Indices: 7475630--7475718 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
7475620 TCGCGTTGCG
7475630 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
7475650 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
7475663 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
7475683 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
7475703 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
7475719 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:7475840 original size:33 final size:33
Alignment explanation
Indices: 7475798--7475868 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
7475788 AATACTAACT
*
7475798 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
7475831 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
7475864 TGAAA
1 TGAAA
7475869 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:7476101 original size:22 final size:22
Alignment explanation
Indices: 7476049--7476103 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
7476039 TGGTTGTGAG
**
7476049 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
7476071 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
7476093 GGATTTCTTCG
1 GGATTTCTTCG
7476104 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:7476274 original size:20 final size:20
Alignment explanation
Indices: 7476249--7476441 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
7476239 CTTTAAATAT
7476249 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
7476269 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
7476291 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
7476310 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
7476330 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
7476350 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
7476370 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
7476390 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
7476410 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
7476430 CGCGTTGCGATT
1 CGCGTTGCGATT
7476442 ATGGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:7476436 original size:60 final size:60
Alignment explanation
Indices: 7476249--7476441 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
7476239 CTTTAAATAT
**
7476249 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
7476310 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
7476370 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
7476430 CGCGTTGCGATT
1 CGCGTTGCGATT
7476442 ATGGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:7476522 original size:20 final size:20
Alignment explanation
Indices: 7476497--7476548 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
7476487 AAGAATCGCG
*
7476497 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
7476517 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
7476537 TTGCGATTCTGG
1 TTGCGATTCTGG
7476549 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:7482696 original size:19 final size:20
Alignment explanation
Indices: 7482653--7482704 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
7482643 GCTGCTGGAA
*
7482653 AACCGGTTTGACCAGTTTCG
1 AACCGGTTTGACCAGTCTCG
*
7482673 AACCGGTTTGACCGGTCT-G
1 AACCGGTTTGACCAGTCTCG
*
7482692 AACCGGGTTGACC
1 AACCGGTTTGACC
7482705 CGACCCGACT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.19, C:0.27, G:0.29, T:0.25
Consensus pattern (20 bp):
AACCGGTTTGACCAGTCTCG
Found at i:7482723 original size:17 final size:17
Alignment explanation
Indices: 7482698--7482770 Score: 119
Period size: 17 Copynumber: 4.3 Consensus size: 17
7482688 TCTGAACCGG
7482698 GTTGACCCGACCCGACT
1 GTTGACCCGACCCGACT
*
7482715 GTGGACCCGACCCGACT
1 GTTGACCCGACCCGACT
*
7482732 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACT
*
7482749 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACT
7482766 GTTGA
1 GTTGA
7482771 TCGTTGACCG
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 53 1.00
ACGTcount: A:0.18, C:0.41, G:0.26, T:0.15
Consensus pattern (17 bp):
GTTGACCCGACCCGACT
Found at i:7482777 original size:7 final size:7
Alignment explanation
Indices: 7482762--7482824 Score: 87
Period size: 7 Copynumber: 9.4 Consensus size: 7
7482752 GACCCGACCC
7482762 GACCGTT
1 GACCGTT
*
7482769 GATCGTT
1 GACCGTT
7482776 GACCG-T
1 GACCGTT
7482782 GACCGTT
1 GACCGTT
7482789 GACCG-T
1 GACCGTT
*
7482795 GACAGTT
1 GACCGTT
7482802 GACCG-T
1 GACCGTT
7482808 GACCGTT
1 GACCGTT
7482815 GACCGTT
1 GACCGTT
7482822 GAC
1 GAC
7482825 TTTCTTTGAC
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
6 17 0.35
7 32 0.65
ACGTcount: A:0.17, C:0.27, G:0.30, T:0.25
Consensus pattern (7 bp):
GACCGTT
Found at i:7482790 original size:13 final size:13
Alignment explanation
Indices: 7482762--7482820 Score: 91
Period size: 13 Copynumber: 4.5 Consensus size: 13
7482752 GACCCGACCC
*
7482762 GACCGTTGATCGTT
1 GACCG-TGACCGTT
7482776 GACCGTGACCGTT
1 GACCGTGACCGTT
*
7482789 GACCGTGACAGTT
1 GACCGTGACCGTT
7482802 GACCGTGACCGTT
1 GACCGTGACCGTT
7482815 GACCGT
1 GACCGT
7482821 TGACTTTCTT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
13 37 0.88
14 5 0.12
ACGTcount: A:0.17, C:0.27, G:0.31, T:0.25
Consensus pattern (13 bp):
GACCGTGACCGTT
Found at i:7489416 original size:9 final size:9
Alignment explanation
Indices: 7489384--7489435 Score: 59
Period size: 9 Copynumber: 5.4 Consensus size: 9
7489374 CTGCTGGAAA
7489384 ACCGGTTTG
1 ACCGGTTTG
*
7489393 ACCAGTTTCG
1 ACCGGTTT-G
7489403 AACCGGTTTG
1 -ACCGGTTTG
*
7489413 ACCGGTCTG
1 ACCGGTTTG
7489422 AACCGGTTTG
1 -ACCGGTTTG
7489432 ACCG
1 ACCG
7489436 ATCTGAACCG
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
9 19 0.53
10 10 0.28
11 7 0.19
ACGTcount: A:0.17, C:0.27, G:0.29, T:0.27
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:7489426 original size:19 final size:19
Alignment explanation
Indices: 7489383--7489453 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
7489373 GCTGCTGGAA
* *
7489383 AACCGGTTTGACCAGTTTCG
1 AACCGGTTTGACCGGTCT-G
7489403 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
*
7489422 AACCGGTTTGACCGATCTG
1 AACCGGTTTGACCGGTCTG
*
7489441 AACCGGGTTGACC
1 AACCGGTTTGACC
7489454 CGACCCGACT
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
19 31 0.66
20 16 0.34
ACGTcount: A:0.20, C:0.27, G:0.28, T:0.25
Consensus pattern (19 bp):
AACCGGTTTGACCGGTCTG
Found at i:7489492 original size:22 final size:22
Alignment explanation
Indices: 7489450--7489492 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
7489440 GAACCGGGTT
*
7489450 GACCCGACCCGACTGTGGACCC
1 GACCCGACCCGACCGTGGACCC
* *
7489472 GACCCGACGCGACCGTTGACC
1 GACCCGACCCGACCGTGGACC
7489493 GTGACCGTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.44, G:0.28, T:0.09
Consensus pattern (22 bp):
GACCCGACCCGACCGTGGACCC
Found at i:7489494 original size:7 final size:7
Alignment explanation
Indices: 7489482--7489524 Score: 72
Period size: 7 Copynumber: 6.4 Consensus size: 7
7489472 GACCCGACGC
7489482 GACCGTT
1 GACCGTT
7489489 GACCG-T
1 GACCGTT
7489495 GACCGTT
1 GACCGTT
7489502 GACCG-T
1 GACCGTT
7489508 GACCGTT
1 GACCGTT
7489515 GACCGTT
1 GACCGTT
7489522 GAC
1 GAC
7489525 TTTCTTTGAC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 12 0.35
7 22 0.65
ACGTcount: A:0.16, C:0.30, G:0.30, T:0.23
Consensus pattern (7 bp):
GACCGTT
Found at i:7489500 original size:13 final size:13
Alignment explanation
Indices: 7489482--7489520 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
7489472 GACCCGACGC
7489482 GACCGTTGACCGT
1 GACCGTTGACCGT
7489495 GACCGTTGACCGT
1 GACCGTTGACCGT
7489508 GACCGTTGACCGT
1 GACCGTTGACCGT
7489521 TGACTTTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.15, C:0.31, G:0.31, T:0.23
Consensus pattern (13 bp):
GACCGTTGACCGT
Found at i:7489507 original size:20 final size:20
Alignment explanation
Indices: 7489482--7489524 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
7489472 GACCCGACGC
7489482 GACCGTTGACCGTGACCGTT
1 GACCGTTGACCGTGACCGTT
7489502 GACCG-TGACCGTTGACCGTT
1 GACCGTTGACCG-TGACCGTT
7489522 GAC
1 GAC
7489525 TTTCTTTGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.16, C:0.30, G:0.30, T:0.23
Consensus pattern (20 bp):
GACCGTTGACCGTGACCGTT
Found at i:7491504 original size:21 final size:21
Alignment explanation
Indices: 7491478--7491536 Score: 102
Period size: 20 Copynumber: 2.9 Consensus size: 21
7491468 AGGGTGTCAA
7491478 AGTGCATCCATGCACTCCTGC
1 AGTGCATCCATGCACTCCTGC
*
7491499 AGTGCATCCATGCAC-CATGC
1 AGTGCATCCATGCACTCCTGC
7491519 AGTGCATCCATGCACTCC
1 AGTGCATCCATGCACTCC
7491537 ATTTCGAATG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 19 0.54
21 16 0.46
ACGTcount: A:0.22, C:0.37, G:0.19, T:0.22
Consensus pattern (21 bp):
AGTGCATCCATGCACTCCTGC
Found at i:7503823 original size:59 final size:58
Alignment explanation
Indices: 7503754--7503866 Score: 147
Period size: 59 Copynumber: 1.9 Consensus size: 58
7503744 AATACTTCGC
* * * *
7503754 TTAGGATGAAAACCCGAGAGGGCGTCCTAAGTTGAAGAAAA-AAAAGGAGAAAAGAACGT
1 TTAGGATGAAAACCCGAAAGGGCGCCCTAAATTG-AGAAAAGAAAAAGA-AAAAGAACGT
* *
7503813 TTAGGGTGAAAACCTGAAAGGGCGCCCTAAATTGAGAAAAGAAAAAGAAAAAGA
1 TTAGGATGAAAACCCGAAAGGGCGCCCTAAATTGAGAAAAGAAAAAGAAAAAGA
7503867 GGAAAAAAGA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
58 12 0.26
59 35 0.74
ACGTcount: A:0.48, C:0.12, G:0.27, T:0.13
Consensus pattern (58 bp):
TTAGGATGAAAACCCGAAAGGGCGCCCTAAATTGAGAAAAGAAAAAGAAAAAGAACGT
Found at i:7503887 original size:21 final size:21
Alignment explanation
Indices: 7503849--7503892 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
7503839 CTAAATTGAG
7503849 AAAAGAAAAAGAAAAAGAGGAA
1 AAAAGAAAAAGAAAAAGA-GAA
* *
7503871 AAAAGAACAA-AAGAAGAGAA
1 AAAAGAAAAAGAAAAAGAGAA
7503891 AA
1 AA
7503893 TAAGGTGGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 5 0.25
21 6 0.30
22 9 0.45
ACGTcount: A:0.77, C:0.02, G:0.20, T:0.00
Consensus pattern (21 bp):
AAAAGAAAAAGAAAAAGAGAA
Found at i:7504803 original size:105 final size:105
Alignment explanation
Indices: 7504621--7505277 Score: 1029
Period size: 105 Copynumber: 6.4 Consensus size: 105
7504611 AGGTTTTACC
*
7504621 CAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
** *
7504686 GTGAAGGGACCGCTGGTTGTCAACAGACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
*
7504726 CAGAGCCAATTTCAACTTCACAACGAAGGCTATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
7504791 ACGAAGGGACCGCTGATTGTCAA-ATAA-A-----CAATTT
66 ACGAAGGGACCGCTGGTTGTCAACA-AACATTTCTCAATTT
*
7504825 CAGGGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
7504890 ACGAAGGGACCGCTGGTTGTCAA-TAA-A-----CAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* *
7504923 CAGGGCCAATTTTAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
7504988 ACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
*
7505028 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAAACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
7505093 ACGAAGGGACCGCTGGTTTTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
*
7505133 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGAACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
7505198 ACGAAGGGACCACTGGTTGTCAACAAACATTTCTCAAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTC-AATTT
*
7505239 -AGAGCCAATTTCAATTTCACAACGAAGGATATTGGACTC
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
7505278 GGAACAATAC
Statistics
Matches: 518, Mismatches: 25, Indels: 18
0.92 0.04 0.03
Matches are distributed among these distances:
98 96 0.19
99 93 0.18
100 1 0.00
104 2 0.00
105 322 0.62
106 4 0.01
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
Found at i:7507322 original size:3 final size:3
Alignment explanation
Indices: 7507314--7507347 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
7507304 CCCCTTTTAC
*
7507314 TTA TTA TTA TTA TTA TTA TTA TTT TTA -TA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
7507348 TTACTTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:7509494 original size:13 final size:14
Alignment explanation
Indices: 7509475--7509508 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
7509465 CAAATTATAC
*
7509475 TAAAATAAAGAAAA
1 TAAAATAAAAAAAA
7509489 -AAAATAAAAAAAA
1 TAAAATAAAAAAAA
7509502 TAAAATA
1 TAAAATA
7509509 GAAACAAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (14 bp):
TAAAATAAAAAAAA
Found at i:7510095 original size:3 final size:3
Alignment explanation
Indices: 7510087--7510139 Score: 79
Period size: 3 Copynumber: 17.3 Consensus size: 3
7510077 TATTTTAACA
* *
7510087 TAT TAT TAT TAT TAT TGT TAT AAAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
7510133 TAT TAT T
1 TAT TAT T
7510140 TACAAACTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
3 43 0.96
4 2 0.04
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:7510193 original size:21 final size:21
Alignment explanation
Indices: 7510168--7510216 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
7510158 AAGCCGACAC
7510168 CGCCGTCCAAGCCTGCGTCGT
1 CGCCGTCCAAGCCTGCGTCGT
7510189 CGCCGTCCAAGCCTGCGTCGT
1 CGCCGTCCAAGCCTGCGTCGT
7510210 CGCCGTC
1 CGCCGTC
7510217 ACTATATTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.08, C:0.45, G:0.29, T:0.18
Consensus pattern (21 bp):
CGCCGTCCAAGCCTGCGTCGT
Found at i:7510939 original size:19 final size:17
Alignment explanation
Indices: 7510902--7510936 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
7510892 TAGGGGGTTT
7510902 AGTTACAAATGAAAAAA
1 AGTTACAAATGAAAAAA
7510919 AGTTACAAATGAAAAAA
1 AGTTACAAATGAAAAAA
7510936 A
1 A
7510937 AAGAAATGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.66, C:0.06, G:0.11, T:0.17
Consensus pattern (17 bp):
AGTTACAAATGAAAAAA
Found at i:7514510 original size:6 final size:6
Alignment explanation
Indices: 7514490--7514576 Score: 54
Period size: 6 Copynumber: 13.7 Consensus size: 6
7514480 ACGCTTATAA
7514490 AAAAAG AAAAGAAG AAAAAG AAAAAAG AAAAAG AAAGAA- AAAATGAG
1 AAAAAG -AAA-AAG AAAAAG -AAAAAG AAAAAG AAA-AAG AAAA--AG
* * *
7514537 AAATA- AAAAAG AAAAA- AAGAAGG AAAAATG AAAATG AAAA
1 AAAAAG AAAAAG AAAAAG AA-AAAG AAAAA-G AAAAAG AAAA
7514577 GGAGGGTTCA
Statistics
Matches: 65, Mismatches: 5, Indels: 21
0.71 0.05 0.23
Matches are distributed among these distances:
5 7 0.11
6 30 0.46
7 22 0.34
8 6 0.09
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (6 bp):
AAAAAG
Found at i:7514517 original size:13 final size:12
Alignment explanation
Indices: 7514488--7514564 Score: 73
Period size: 13 Copynumber: 6.1 Consensus size: 12
7514478 TTACGCTTAT
7514488 AAAAAAAGAAAA
1 AAAAAAAGAAAA
7514500 GAAGAAAAAGAAAA
1 -AA-AAAAAGAAAA
*
7514514 AAGAAAAAGAAAG
1 AA-AAAAAGAAAA
*
7514527 AAAAAATGAGAAA
1 AAAAAAAGA-AAA
*
7514540 TAAAAAAGAAAA
1 AAAAAAAGAAAA
* *
7514552 AAAGAAGGAAAA
1 AAAAAAAGAAAA
7514564 A
1 A
7514565 TGAAAATGAA
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
12 19 0.35
13 25 0.46
14 10 0.19
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.03
Consensus pattern (12 bp):
AAAAAAAGAAAA
Found at i:7514527 original size:31 final size:30
Alignment explanation
Indices: 7514488--7514576 Score: 99
Period size: 32 Copynumber: 2.9 Consensus size: 30
7514478 TTACGCTTAT
7514488 AAAAAAAGAAAAGAA-GAAAAAGAAAAAAGA
1 AAAAAAAGAAAA-AATGAAAAAGAAAAAAGA
* *
7514518 AAAAGAAAGAAAAAATGAGAAATAAAAAAGAA
1 AAAA-AAAGAAAAAATGAAAAAGAAAAAAG-A
* *
7514550 AAAAAGAAGGAAAAATGAAAATGAAAA
1 AAAAA-AAGAAAAAATGAAAAAGAAAA
7514577 GGAGGGTTCA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
30 6 0.12
31 21 0.43
32 22 0.45
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (30 bp):
AAAAAAAGAAAAAATGAAAAAGAAAAAAGA
Found at i:7514565 original size:25 final size:24
Alignment explanation
Indices: 7514489--7514576 Score: 70
Period size: 25 Copynumber: 3.5 Consensus size: 24
7514479 TACGCTTATA
7514489 AAAAAAGAAAAGAAGAAAAAGAAAAA-
1 AAAAAAG-AAA-AA-AAAAAGAAAAAT
* *
7514515 AGAAAAAGAAAGAAAAAATGAGAAAT
1 A-AAAAAGAAA-AAAAAAAGAAAAAT
*
7514541 AAAAAAGAAAAAAAGAAGGAAAAAT
1 AAAAAAGAAAAAAA-AAAGAAAAAT
* *
7514566 GAAAATGAAAA
1 AAAAAAGAAAA
7514577 GGAGGGTTCA
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
24 4 0.08
25 35 0.66
26 8 0.15
27 6 0.11
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (24 bp):
AAAAAAGAAAAAAAAAAGAAAAAT
Found at i:7515553 original size:40 final size:42
Alignment explanation
Indices: 7515448--7515562 Score: 128
Period size: 44 Copynumber: 2.7 Consensus size: 42
7515438 GAACTTGGGC
* *
7515448 TCATCCATCACACAAGAAGTTGGATCAACATCAACATTTTGA
1 TCATCCATCACACAAGAAGTTGGATCAACATCAACACTTAGA
*
7515490 TCGATTCCATCACACAATG-AGTTGGATCAACATC-AC-CTTAGG
1 TC-A-TCCATCACACAA-GAAGTTGGATCAACATCAACACTTAGA
* * *
7515532 TCATGCATCACAGAAGAAGTTGGATCGACAT
1 TCATCCATCACACAAGAAGTTGGATCAACAT
7515563 TACCAATAGG
Statistics
Matches: 63, Mismatches: 6, Indels: 10
0.80 0.08 0.13
Matches are distributed among these distances:
39 1 0.02
40 23 0.37
41 1 0.02
42 7 0.11
43 3 0.05
44 27 0.43
45 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (42 bp):
TCATCCATCACACAAGAAGTTGGATCAACATCAACACTTAGA
Found at i:7516370 original size:25 final size:24
Alignment explanation
Indices: 7516301--7516358 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
7516291 ATATTTTTTA
**
7516301 TTGTAAAAAAATCACATAAAATCT
1 TTGTAAAAAAATCGTATAAAATCT
7516325 TTGTAAAAAAATCGTATAAAATCT
1 TTGTAAAAAAATCGTATAAAATCT
7516349 TTGTAAAAAA
1 TTGTAAAAAA
7516359 TTAGGTATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.53, C:0.09, G:0.07, T:0.31
Consensus pattern (24 bp):
TTGTAAAAAAATCGTATAAAATCT
Found at i:7517456 original size:19 final size:19
Alignment explanation
Indices: 7517432--7517476 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
7517422 TAAATTCTAA
7517432 ATATATGGTACATATTAAT
1 ATATATGGTACATATTAAT
* * **
7517451 ATATATTGTATATATTTTT
1 ATATATGGTACATATTAAT
7517470 ATATATG
1 ATATATG
7517477 CATATTTTAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.02, G:0.09, T:0.51
Consensus pattern (19 bp):
ATATATGGTACATATTAAT
Found at i:7518720 original size:19 final size:19
Alignment explanation
Indices: 7518688--7518754 Score: 54
Period size: 16 Copynumber: 3.7 Consensus size: 19
7518678 ACCAAATAGG
* *
7518688 GTAATATAATATTCTCATA
1 GTAATATTACATTCTCATA
7518707 GTAATATTACA-T-TC-TA
1 GTAATATTACATTCTCATA
* *
7518723 GTAATCTT--ATTCTCAAA
1 GTAATATTACATTCTCATA
7518740 GATAATATTACATTC
1 G-TAATATTACATTC
7518755 GTTAACCAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 11
0.70 0.09 0.21
Matches are distributed among these distances:
14 1 0.03
15 1 0.03
16 11 0.30
17 4 0.11
18 7 0.19
19 9 0.24
20 4 0.11
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.42
Consensus pattern (19 bp):
GTAATATTACATTCTCATA
Found at i:7523279 original size:64 final size:63
Alignment explanation
Indices: 7523204--7523323 Score: 159
Period size: 64 Copynumber: 1.9 Consensus size: 63
7523194 ATTGTTTAAG
* * * * *
7523204 GTGTATTGATGCACATGGAGTGCATCGATGCACTAATTTAAAATAAAAACATCGAATGCCATCA
1 GTGTATCGATGCACAAGGAGTACATCGATGCACCAACTT-AAATAAAAACATCGAATGCCATCA
* **
7523268 GTGTATCGATGCACAAGTAGTACATCGATGCACCCCCTTAAATAAAAACATCGAAT
1 GTGTATCGATGCACAAGGAGTACATCGATGCACCAACTTAAATAAAAACATCGAAT
7523324 AGGATTTCTG
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
63 17 0.35
64 31 0.65
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (63 bp):
GTGTATCGATGCACAAGGAGTACATCGATGCACCAACTTAAATAAAAACATCGAATGCCATCA
Found at i:7524058 original size:23 final size:23
Alignment explanation
Indices: 7524007--7524067 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
7523997 CAATCTTATA
* *
7524007 TGGCACTACGGTGCAATTCTATG
1 TGGCACTTCGGTGCAATTCTACG
** *
7524030 CAGCACTTCGGTGTAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
7524053 TGGCACTTCGGTGCA
1 TGGCACTTCGGTGCA
7524068 TTTATACGAG
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.26, T:0.30
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:7524075 original size:23 final size:23
Alignment explanation
Indices: 7524007--7524075 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 23
7523997 CAATCTTATA
* * *
7524007 TGGCACTACGGTGCAATTCTATG
1 TGGCACTTCGGTGCAATTATACG
** * *
7524030 CAGCACTTCGGTGTAATTCTACG
1 TGGCACTTCGGTGCAATTATACG
*
7524053 TGGCACTTCGGTGCATTTATACG
1 TGGCACTTCGGTGCAATTATACG
7524076 AGCTGTGGTG
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.20, C:0.23, G:0.25, T:0.32
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTATACG
Found at i:7528027 original size:47 final size:47
Alignment explanation
Indices: 7527986--7528076 Score: 121
Period size: 47 Copynumber: 2.0 Consensus size: 47
7527976 AAAATTCAGT
* ** * *
7527986 AAATAATAAACTCATTTGCTTTAATTTAGTAATAAACAAAATAAACA
1 AAATAATAAAATCATTCACTTGAATTAAGTAATAAACAAAATAAACA
*
7528033 AAATACTAAAATCATTCACTTGAATTAAGTAATAAAC-AAATAAA
1 AAATAATAAAATCATTCACTTGAATTAAGTAATAAACAAAATAAA
7528077 TTAAGTCATA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
46 7 0.18
47 31 0.82
ACGTcount: A:0.55, C:0.11, G:0.04, T:0.30
Consensus pattern (47 bp):
AAATAATAAAATCATTCACTTGAATTAAGTAATAAACAAAATAAACA
Found at i:7528370 original size:3 final size:3
Alignment explanation
Indices: 7528362--7528410 Score: 80
Period size: 3 Copynumber: 16.3 Consensus size: 3
7528352 CTCCTCACTC
* *
7528362 TCA TCA TCA TCA TCA TCA TCA CCA TCA TCA TCA TCA TCG TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
7528410 T
1 T
7528411 GAGCAGATAC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.31, C:0.35, G:0.02, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:7533897 original size:19 final size:19
Alignment explanation
Indices: 7533864--7533908 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
7533854 AGAATGTTTA
**
7533864 AAAGTATCAGTACTTATAT
1 AAAGTATCAAAACTTATAT
*
7533883 AAAGTATCAAAACTTTTAT
1 AAAGTATCAAAACTTATAT
7533902 AGAAGTA
1 A-AAGTA
7533909 ACGATAATCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.47, C:0.09, G:0.11, T:0.33
Consensus pattern (19 bp):
AAAGTATCAAAACTTATAT
Done.