Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 209 of 297
Found at i:71162650 original size:47 final size:47
Alignment explanation
Indices: 71162581--71162694 Score: 183
Period size: 47 Copynumber: 2.4 Consensus size: 47
71162571 CCCTTCAGGA
* *
71162581 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCACTCGGC
*
71162628 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCACTCGGC
* *
71162675 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
71162695 GTACATCAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 62 1.00
ACGTcount: A:0.28, C:0.31, G:0.07, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCACTCGGC
Found at i:71163324 original size:20 final size:20
Alignment explanation
Indices: 71163299--71163338 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
71163289 CCACGGTCTC
71163299 TTTTATAAGAAACTAGACTA
1 TTTTATAAGAAACTAGACTA
71163319 TTTTATAAGAAACTAGACTA
1 TTTTATAAGAAACTAGACTA
71163339 ACTAAGCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (20 bp):
TTTTATAAGAAACTAGACTA
Found at i:71166767 original size:40 final size:40
Alignment explanation
Indices: 71166708--71166919 Score: 248
Period size: 40 Copynumber: 5.3 Consensus size: 40
71166698 CATTTGAATG
* *
71166708 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
71166748 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * *
71166788 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * * * * *
71166828 TTATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
71166868 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
71166908 ATATCC-GGCTAA
1 ATATCCGGGCTAA
71166920 ATTCCGAAGA
Statistics
Matches: 140, Mismatches: 30, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
39 8 0.06
40 130 0.93
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:71166848 original size:80 final size:79
Alignment explanation
Indices: 71166712--71166928 Score: 310
Period size: 80 Copynumber: 2.7 Consensus size: 79
71166702 TGAATGATAT
* *
71166712 CCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCC-GGCTAAGATCCGAAGGCATTTG
* *
71166777 TGCGAGTTGCTATAC
65 TGCGAGTTACTAAAC
*
71166792 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGACTAAGATCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGG-CTAAGATCCGAAGGCATTTG
*
71166857 TGCGAGTTACTAAAT
65 TGCGAGTTACTAAAC
* * * *
71166872 CCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTTATATCCGGCTAA-ATTCCGAAG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGCTAAGA-TCCGAAG
71166929 AAACTTGGGT
Statistics
Matches: 124, Mismatches: 11, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
78 1 0.01
79 13 0.10
80 110 0.89
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (79 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGCTAAGATCCGAAGGCATTTGT
GCGAGTTACTAAAC
Found at i:71187389 original size:25 final size:24
Alignment explanation
Indices: 71187351--71187403 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
71187341 ATGTTCAAGC
*
71187351 GAGCCATATTAGGAAACTCACAAA
1 GAGCCATATCAGGAAACTCACAAA
** *
71187375 GAGCCTATATCAGGATGCTCATAAA
1 GAGCC-ATATCAGGAAACTCACAAA
71187400 GAGC
1 GAGC
71187404 TGCGTTTGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.19
Consensus pattern (24 bp):
GAGCCATATCAGGAAACTCACAAA
Found at i:71188746 original size:38 final size:38
Alignment explanation
Indices: 71188701--71188777 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
71188691 TTTCCTATCA
71188701 TGATGCAGACCATGTAAAAATTTTAAAATAATTTTTTT
1 TGATGCAGACCATGTAAAAATTTTAAAATAATTTTTTT
71188739 TGATGCAGACCATGTAAAAATTTTAAAATAATTTTTTT
1 TGATGCAGACCATGTAAAAATTTTAAAATAATTTTTTT
71188777 T
1 T
71188778 CTAACTCGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.43
Consensus pattern (38 bp):
TGATGCAGACCATGTAAAAATTTTAAAATAATTTTTTT
Found at i:71189900 original size:54 final size:54
Alignment explanation
Indices: 71189797--71189951 Score: 157
Period size: 54 Copynumber: 2.9 Consensus size: 54
71189787 TGGCCTAAGG
* * * * *
71189797 CACGGTCGTGTGGATCAAGTCAGAGAGTTACACGGTTTAGTACATGGCCTGTGA
1 CACGGCCGTGTGAAACAAGTCAGAGAGTTACACGGTTTAGCACACGGCCTGTGA
* * **
71189851 CACGGCCGTGTGAAACAAGTTAGAGAGTTACACGGTTTGGCACACGGCCTACGA
1 CACGGCCGTGTGAAACAAGTCAGAGAGTTACACGGTTTAGCACACGGCCTGTGA
* ** ** * * *
71189905 CATGGCTATGTGACCCAAGTCAGTGAGTTACATGGTTTAGGACACGG
1 CACGGCCGTGTGAAACAAGTCAGAGAGTTACACGGTTTAGCACACGG
71189952 TTTGAGACAT
Statistics
Matches: 82, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 82 1.00
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (54 bp):
CACGGCCGTGTGAAACAAGTCAGAGAGTTACACGGTTTAGCACACGGCCTGTGA
Found at i:71197610 original size:32 final size:32
Alignment explanation
Indices: 71197571--71197631 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
71197561 TTATATGTAT
71197571 TGTTATTTTAAAAGTCGGTATAATTTTTTTTA
1 TGTTATTTTAAAAGTCGGTATAATTTTTTTTA
* *
71197603 TGTTATTTTAAAAGTTGTTATAATTTTTT
1 TGTTATTTTAAAAGTCGGTATAATTTTTT
71197632 AACTCATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.28, C:0.02, G:0.11, T:0.59
Consensus pattern (32 bp):
TGTTATTTTAAAAGTCGGTATAATTTTTTTTA
Found at i:71197892 original size:21 final size:21
Alignment explanation
Indices: 71197847--71197894 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
71197837 TTTTTACTTC
*
71197847 AATAAA-CATTAAAAATAAAT
1 AATAAATCAATAAAAATAAAT
*
71197867 TATAAATCAATAAAAATATAA-
1 AATAAATCAATAAAAATA-AAT
71197888 AATAAAT
1 AATAAAT
71197895 ACAAACATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 5 0.22
21 16 0.70
22 2 0.09
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (21 bp):
AATAAATCAATAAAAATAAAT
Found at i:71207251 original size:44 final size:43
Alignment explanation
Indices: 71207115--71207265 Score: 148
Period size: 42 Copynumber: 3.5 Consensus size: 43
71207105 CAATGCCATC
* * *
71207115 GTCCCAGACGTGGTCTTACATGT-AATTCAATATCGATGCCTCT
1 GTCCCAGACATGGTCTTACACGTAAATTCAA-ATCGATGCCTGT
* * * * *
71207158 ATCCTAGACAGGGTCTTACATG-AAA-TCAGATACGATGCC-GAT
1 GTCCCAGACATGGTCTTACACGTAAATTCAAAT-CGATGCCTG-T
*
71207200 GTCCCAGACATGGTCTTACACGTAAATCTCAAATCGAAGCCTGT
1 GTCCCAGACATGGTCTTACACGTAAAT-TCAAATCGATGCCTGT
*
71207244 GTCCCAGACACGGTCTTACACG
1 GTCCCAGACATGGTCTTACACG
71207266 ATATTTCAGA
Statistics
Matches: 88, Mismatches: 13, Indels: 13
0.77 0.11 0.11
Matches are distributed among these distances:
41 2 0.02
42 29 0.33
43 23 0.26
44 28 0.32
45 6 0.07
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGTAAATTCAAATCGATGCCTGT
Found at i:71215390 original size:40 final size:39
Alignment explanation
Indices: 71215292--71215554 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
71215282 TCCTCGTTCA
* * * *
71215292 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
71215331 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
71215370 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
71215410 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
71215450 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
71215490 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
71215531 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
71215555 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:71215514 original size:120 final size:119
Alignment explanation
Indices: 71215292--71215554 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
71215282 TCCTCGTTCA
* * *
71215292 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
71215357 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
71215410 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
71215475 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
71215531 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
71215555 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:71215563 original size:41 final size:41
Alignment explanation
Indices: 71215486--71215563 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
71215476 TTTGTATCTC
* * *
71215486 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
71215527 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
71215564 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:71220261 original size:271 final size:271
Alignment explanation
Indices: 71219778--71220311 Score: 1050
Period size: 271 Copynumber: 2.0 Consensus size: 271
71219768 CTGAGCTTTC
71219778 AACTCTTTTAACTCGGTTGGTGCCATACGATACGGAGCTATCGAAATCGGCGTAGTCCCAGGTAC
1 AACTCTTTTAACTCGGTTGGTGCCATACGATACGGAGCTATCGAAATCGGCGTAGTCCCAGGTAC
71219843 AAGCTCAATACCAAACTCTACCTCCCAAACAGGTGGTAAACCCGGTAATTCTTCAGGAAAAACAT
66 AAGCTCAATACCAAACTCTACCTCCCAAACAGGTGGTAAACCCGGTAATTCTTCAGGAAAAACAT
71219908 CCGGGTATTCACAAACCACCCGCACAGATTCGGGTTTCTTTTCTAATTCTTTATCATCAAGTACA
131 CCGGGTATTCACAAACCACCCGCACAGATTCGGGTTTCTTTTCTAATTCTTTATCATCAAGTACA
71219973 TACGCAAGGTATGCTTCGCACCCTTTTCTTACATATTTCTGGGCCAACATTGAGGATATTACAGC
196 TACGCAAGGTATGCTTCGCACCCTTTTCTTACATATTTCTGGGCCAACATTGAGGATATTACAGC
71220038 TGGGAGATTTT
261 TGGGAGATTTT
71220049 AACTCTTTTAACTCGGTTGGTGCCATACGATACGGAGCTATCGAAATCGGCGTAGTCCCAGGTAC
1 AACTCTTTTAACTCGGTTGGTGCCATACGATACGGAGCTATCGAAATCGGCGTAGTCCCAGGTAC
71220114 AAGCTCAATACCAAACTCTACCTCCCAAACAGGTGGTAAACCCGGTAATTCTTCAGGAAAAACAT
66 AAGCTCAATACCAAACTCTACCTCCCAAACAGGTGGTAAACCCGGTAATTCTTCAGGAAAAACAT
71220179 CCGGGTATTCACAAACCACCCGCACAGATTCGGGTTTCTTTTCTAATTCTTTATCATCAAGTACA
131 CCGGGTATTCACAAACCACCCGCACAGATTCGGGTTTCTTTTCTAATTCTTTATCATCAAGTACA
**
71220244 TACGCAAGGTATGCTTCGCACCCTTTTCTTACATATTTCTGGGCCAACATTGCTGATATTACAGC
196 TACGCAAGGTATGCTTCGCACCCTTTTCTTACATATTTCTGGGCCAACATTGAGGATATTACAGC
71220309 TGG
261 TGG
71220312 CAACCCCTTC
Statistics
Matches: 261, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
271 261 1.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (271 bp):
AACTCTTTTAACTCGGTTGGTGCCATACGATACGGAGCTATCGAAATCGGCGTAGTCCCAGGTAC
AAGCTCAATACCAAACTCTACCTCCCAAACAGGTGGTAAACCCGGTAATTCTTCAGGAAAAACAT
CCGGGTATTCACAAACCACCCGCACAGATTCGGGTTTCTTTTCTAATTCTTTATCATCAAGTACA
TACGCAAGGTATGCTTCGCACCCTTTTCTTACATATTTCTGGGCCAACATTGAGGATATTACAGC
TGGGAGATTTT
Found at i:71223701 original size:29 final size:29
Alignment explanation
Indices: 71223638--71223705 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
71223628 TAATCAACCG
71223638 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
71223667 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
71223696 CGCACACTTA
1 CGCACACTTA
71223706 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:71223817 original size:174 final size:174
Alignment explanation
Indices: 71223527--71223854 Score: 620
Period size: 174 Copynumber: 1.9 Consensus size: 174
71223517 AACTCAAGGT
* *
71223527 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
71223592 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
71223657 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
71223701 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
71223766 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
*
71223831 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
71223855 TGTACAATTT
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 150 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:71223846 original size:29 final size:30
Alignment explanation
Indices: 71223807--71223885 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
71223797 CTTAATAATC
71223807 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
71223837 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
71223866 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
71223886 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:71227012 original size:28 final size:28
Alignment explanation
Indices: 71226957--71227072 Score: 164
Period size: 28 Copynumber: 4.2 Consensus size: 28
71226947 AGCATGGCTG
* *
71226957 CCAG-AACAGAT-ATTGTGACAGAGTCA
1 CCAGAAACAGATAATTGTGGCAGAGCCA
* *
71226983 CCAGATACAGATAATTGTGGCAGGGCCA
1 CCAGAAACAGATAATTGTGGCAGAGCCA
*
71227011 CCAGAAACAGATATTTGTGGCAGAGCCA
1 CCAGAAACAGATAATTGTGGCAGAGCCA
*
71227039 CCAGAAACAGATATTTGTGGCAGAGCCA
1 CCAGAAACAGATAATTGTGGCAGAGCCA
71227067 CCAGAA
1 CCAGAA
71227073 CGCTTCCTCC
Statistics
Matches: 81, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
26 4 0.05
27 6 0.07
28 71 0.88
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.17
Consensus pattern (28 bp):
CCAGAAACAGATAATTGTGGCAGAGCCA
Found at i:71228351 original size:18 final size:17
Alignment explanation
Indices: 71228298--71228352 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
71228288 ATTCGGCTAT
71228298 AGAG-GAAAAGAAGAA-
1 AGAGAGAAAAGAAGAAG
* *
71228313 AAAGAGAAAATAGATGAAG
1 AGAGAG-AAA-AGAAGAAG
71228332 AGAGCAGAAAAGAAGAAG
1 AGAG-AGAAAAGAAGAAG
71228350 AGA
1 AGA
71228353 AAAGAATTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
15 3 0.10
16 1 0.03
17 3 0.10
18 16 0.52
19 6 0.19
20 2 0.06
ACGTcount: A:0.64, C:0.02, G:0.31, T:0.04
Consensus pattern (17 bp):
AGAGAGAAAAGAAGAAG
Found at i:71228674 original size:55 final size:55
Alignment explanation
Indices: 71228603--71228712 Score: 148
Period size: 55 Copynumber: 2.0 Consensus size: 55
71228593 AAGAGTCCTG
* *
71228603 ATCAGACCCTAACTCTTTCCTCACACGTGCAGCAAAAAATCCAAACCTTACGTGC
1 ATCAGACCCTAACTCTTTCCCCACACGTGCAACAAAAAATCCAAACCTTACGTGC
* * * * * *
71228658 ATCAGACCCTATCTCTTTCCCCACGCGTGCAATAAAAATTCCCAACCTTATGTGC
1 ATCAGACCCTAACTCTTTCCCCACACGTGCAACAAAAAATCCAAACCTTACGTGC
71228713 TCGAGATGAG
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 47 1.00
ACGTcount: A:0.30, C:0.35, G:0.11, T:0.25
Consensus pattern (55 bp):
ATCAGACCCTAACTCTTTCCCCACACGTGCAACAAAAAATCCAAACCTTACGTGC
Found at i:71231867 original size:42 final size:43
Alignment explanation
Indices: 71231767--71231915 Score: 135
Period size: 42 Copynumber: 3.5 Consensus size: 43
71231757 CAATGCCAAC
* * * **
71231767 GTCCCAAACGTGGTCTTACATGTAATTCAATATCGATGCCTCT
1 GTCCCAGACATGGTCTTACATGTAAATCAATATCGATGCCGAT
* * *
71231810 ATCCCAGACAGGGTCTTACATG-AAATCAGATA-CGATTCCGAT
1 GTCCCAGACATGGTCTTACATGTAAATCA-ATATCGATGCCGAT
* *
71231852 GTCCCAGACATGGTCTTACACGTAAATCTCAA-ATCGAAGCCTG-T
1 GTCCCAGACATGGTCTTACATGTAAA--TCAATATCGATGCC-GAT
*
71231896 GTCCCAGACACGGTCTTACA
1 GTCCCAGACATGGTCTTACA
71231916 CAATATTTCA
Statistics
Matches: 86, Mismatches: 14, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
42 31 0.36
43 25 0.29
44 26 0.30
45 4 0.05
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACATGTAAATCAATATCGATGCCGAT
Found at i:71235033 original size:16 final size:16
Alignment explanation
Indices: 71234996--71235033 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
71234986 GTAGAATATC
71234996 ACATA-AGTACAACTT
1 ACATACAGTACAACTT
* *
71235011 TCTTACAGTACAACTT
1 ACATACAGTACAACTT
71235027 ACATACA
1 ACATACA
71235034 ATTAGGGTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 1
0.78 0.17 0.04
Matches are distributed among these distances:
15 3 0.17
16 15 0.83
ACGTcount: A:0.42, C:0.24, G:0.05, T:0.29
Consensus pattern (16 bp):
ACATACAGTACAACTT
Found at i:71235615 original size:80 final size:82
Alignment explanation
Indices: 71235482--71235646 Score: 262
Period size: 80 Copynumber: 2.0 Consensus size: 82
71235472 GAATACTATG
* *
71235482 TTTAAAAAGTACTAATAAGCTTTGCTATTTAAGAGAACATCATTACAGACTTGTA-T-GATATAT
1 TTTAAAAAGTACAAATAAGCTTTACTATTTAAGAGAACATCATTACAGACTTGTATTAGATATAT
*
71235545 ATTCATTTACTTAAGAT
66 ATTCATTTACTTAAAAT
* * *
71235562 TTTAAAAAGTACAAATGAGCTTTATTATTTAAGAGAACATCATTACAGACTTGTATTATATATAT
1 TTTAAAAAGTACAAATAAGCTTTACTATTTAAGAGAACATCATTACAGACTTGTATTAGATATAT
71235627 ATTCATTTACTTAAAAT
66 ATTCATTTACTTAAAAT
71235644 TTT
1 TTT
71235647 TGTTGTTTGT
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
80 51 0.66
81 1 0.01
82 25 0.32
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (82 bp):
TTTAAAAAGTACAAATAAGCTTTACTATTTAAGAGAACATCATTACAGACTTGTATTAGATATAT
ATTCATTTACTTAAAAT
Found at i:71237730 original size:28 final size:28
Alignment explanation
Indices: 71237690--71237746 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
71237680 AATGTCAATG
71237690 TTGTAATTATGGCTAAGGTTTAGTTTTA
1 TTGTAATTATGGCTAAGGTTTAGTTTTA
71237718 TTGTAATTATGGCTAAGGTTTAGTTTTA
1 TTGTAATTATGGCTAAGGTTTAGTTTTA
71237746 T
1 T
71237747 GTTAAGCTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.25, C:0.04, G:0.21, T:0.51
Consensus pattern (28 bp):
TTGTAATTATGGCTAAGGTTTAGTTTTA
Found at i:71249960 original size:48 final size:48
Alignment explanation
Indices: 71249888--71249987 Score: 182
Period size: 48 Copynumber: 2.1 Consensus size: 48
71249878 GGTGCATGGC
* *
71249888 GTTCTCTTAAATATCTACGTGGTGGTTGTGTTTCTACAGCAGTTACTT
1 GTTCTCTTAAAGATCTACGCGGTGGTTGTGTTTCTACAGCAGTTACTT
71249936 GTTCTCTTAAAGATCTACGCGGTGGTTGTGTTTCTACAGCAGTTACTT
1 GTTCTCTTAAAGATCTACGCGGTGGTTGTGTTTCTACAGCAGTTACTT
71249984 GTTC
1 GTTC
71249988 CTCAATTTCT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.42
Consensus pattern (48 bp):
GTTCTCTTAAAGATCTACGCGGTGGTTGTGTTTCTACAGCAGTTACTT
Found at i:71254423 original size:64 final size:64
Alignment explanation
Indices: 71254322--71254448 Score: 218
Period size: 64 Copynumber: 2.0 Consensus size: 64
71254312 TAGTATGTTT
* * *
71254322 AACAATTTTATTTCCCAATTAAATTAATTCTATAATTAATTTAATTCATCTGACAATCAGAATC
1 AACAATTTGATTGCCCAACTAAATTAATTCTATAATTAATTTAATTCATCTGACAATCAGAATC
*
71254386 AACAATTTGATTGCCCAACTAAATTAATTCTATAATTAATTTAATTTATCTGACAATCAGAAT
1 AACAATTTGATTGCCCAACTAAATTAATTCTATAATTAATTTAATTCATCTGACAATCAGAAT
71254449 ACAATACCAA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.39
Consensus pattern (64 bp):
AACAATTTGATTGCCCAACTAAATTAATTCTATAATTAATTTAATTCATCTGACAATCAGAATC
Found at i:71259075 original size:79 final size:82
Alignment explanation
Indices: 71258964--71259148 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
71258954 GCTACTCGTT
* * *
71258964 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
71259027 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
71259044 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
71259107 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
71259124 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
71259149 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:71259148 original size:40 final size:40
Alignment explanation
Indices: 71258945--71259148 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
71258935 CGGAATTTAA
** *
71258945 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
71258985 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
71259025 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
71259064 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
71259104 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
71259144 CCGGA
1 CCGGA
71259149 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:71267023 original size:379 final size:379
Alignment explanation
Indices: 71266321--71267070 Score: 1401
Period size: 379 Copynumber: 2.0 Consensus size: 379
71266311 NNNNNNNNNN
71266321 GGCAGTCCGGACACAAAGTCCATTGTGACTCGATCCCATTTCCACTCGGGTATCATGATCGGCTG
1 GGCAGTCCGGACACAAAGTCCATTGTGACTCGATCCCATTTCCACTCGGGTATCATGATCGGCTG
71266386 AAGTAATCCTGAAGGCACTTGATGTTCCGCTTTCACTTGTTGACATATTAAACATCTCGAAACAA
66 AAGTAATCCTGAAGGCACTTGATGTTCCGCTTTCACTTGTTGACATATTAAACATCTCGAAACAA
***
71266451 AGTCGGAGATGTCTCGTTTCATACCATGCCACCAAAATTGACGTTTCAAATCGTTGTACATTTTC
131 AGTCGGAGATGTCTCGTTTCATACCATGCCACCAAAACCAACGTTTCAAATCGTTGTACATTTTC
*
71266516 GTACTCCCCGGGTGACTTGACATTCGGCTACAATGGGCTTCGTTCAGAATCATCGAAATGAGTTC
196 GTACTCCCCGGGTGAATTGACATTCGGCTACAATGGGCTTCGTTCAGAATCATCGAAATGAGTTC
*
71266581 CGAATTCCTTGGAACGCACAAACGACTTCTGAACCTCAAACAATCATCATCATCAAATTGAAACT
261 CGAATTCCTTGGAACACACAAACGACTTCTGAACCTCAAACAATCATCATCATCAAATTGAAACT
* *
71266646 CCGATTCCTTGTTCGGAACACACTCAGCCCGTTTTGCAACCAATTCCTGACAAT
326 CCGATTCCTCGTTCGGAAAACACTCAGCCCGTTTTGCAACCAATTCCTGACAAT
71266700 GGCAGTCCGGACACAAAGTCCATTGTGACTCGATCCCATTTCCACTCGGGTATCATGATCGGCTG
1 GGCAGTCCGGACACAAAGTCCATTGTGACTCGATCCCATTTCCACTCGGGTATCATGATCGGCTG
71266765 AAGTAATCCTGAAGGCACTTGATGTTCCGCTTTCACTTGTTGACATATTAAACATCTCGAAACAA
66 AAGTAATCCTGAAGGCACTTGATGTTCCGCTTTCACTTGTTGACATATTAAACATCTCGAAACAA
71266830 AGTCGGAGATGTCTCGTTTCATACCATGCCACCAAAACCAACGTTTCAAATCGTTGTACATTTTC
131 AGTCGGAGATGTCTCGTTTCATACCATGCCACCAAAACCAACGTTTCAAATCGTTGTACATTTTC
71266895 GTACTCCCCGGGTGAATTGACATTCGGCTACAATGGGCTTCGTTCAGAATCATCGAAATGAGTTC
196 GTACTCCCCGGGTGAATTGACATTCGGCTACAATGGGCTTCGTTCAGAATCATCGAAATGAGTTC
* *
71266960 CGAATTCCTTGGAACACACAAACGATTTCTGAACCTCAAACAATCATCATCATCAATTTGAAACT
261 CGAATTCCTTGGAACACACAAACGACTTCTGAACCTCAAACAATCATCATCATCAAATTGAAACT
* *
71267025 CCGATTCCTCGTTCGGAAAACACTTAGCTCGTTTTGCAACCAATTC
326 CCGATTCCTCGTTCGGAAAACACTCAGCCCGTTTTGCAACCAATTC
71267071 ATCATCGACT
Statistics
Matches: 360, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
379 360 1.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (379 bp):
GGCAGTCCGGACACAAAGTCCATTGTGACTCGATCCCATTTCCACTCGGGTATCATGATCGGCTG
AAGTAATCCTGAAGGCACTTGATGTTCCGCTTTCACTTGTTGACATATTAAACATCTCGAAACAA
AGTCGGAGATGTCTCGTTTCATACCATGCCACCAAAACCAACGTTTCAAATCGTTGTACATTTTC
GTACTCCCCGGGTGAATTGACATTCGGCTACAATGGGCTTCGTTCAGAATCATCGAAATGAGTTC
CGAATTCCTTGGAACACACAAACGACTTCTGAACCTCAAACAATCATCATCATCAAATTGAAACT
CCGATTCCTCGTTCGGAAAACACTCAGCCCGTTTTGCAACCAATTCCTGACAAT
Found at i:71267595 original size:42 final size:42
Alignment explanation
Indices: 71267536--71267620 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
71267526 TTCTTGCATC
* *
71267536 AATACGCAACCTAACCCAAGTAGGGAGGCGTCACTATAGATG
1 AATACGCAACCCAACCCAAGTAGGGAGGCGTCACTATAAATG
*
71267578 AATACGCAACCCAACCCAAGTAGGGATGCGTCACTATAAATG
1 AATACGCAACCCAACCCAAGTAGGGAGGCGTCACTATAAATG
71267620 A
1 A
71267621 CAAACTCTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.16
Consensus pattern (42 bp):
AATACGCAACCCAACCCAAGTAGGGAGGCGTCACTATAAATG
Found at i:71270336 original size:104 final size:104
Alignment explanation
Indices: 71270156--71270361 Score: 367
Period size: 104 Copynumber: 2.0 Consensus size: 104
71270146 TGGTCAGTTT
* *
71270156 CCGGAGGTATTGTAGGTGCGGGGGTGGTATTTGTCAGGAATGGAGGTTGTGGAACAGCCGTATTA
1 CCGGAGGTATTGTAGGTGCGGGGGTGGTATTAGTCAGGAAGGGAGGTTGTGGAACAGCCGTATTA
71270221 GTTCGAATGTATTGGTTGAACCAATCATTCATCACGCAA
66 GTTCGAATGTATTGGTTGAACCAATCATTCATCACGCAA
* * *
71270260 CCGGAGGTATTGTAGGTGCTGGGGTTGTATTAGTCGGGAAGGGAGGTTGTGGAACAGCCGTATTA
1 CCGGAGGTATTGTAGGTGCGGGGGTGGTATTAGTCAGGAAGGGAGGTTGTGGAACAGCCGTATTA
71270325 GTTCGAATGTATTGGTTGAACCAATCATTCATCACGC
66 GTTCGAATGTATTGGTTGAACCAATCATTCATCACGC
71270362 TATAGAAAGC
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
104 97 1.00
ACGTcount: A:0.23, C:0.15, G:0.33, T:0.29
Consensus pattern (104 bp):
CCGGAGGTATTGTAGGTGCGGGGGTGGTATTAGTCAGGAAGGGAGGTTGTGGAACAGCCGTATTA
GTTCGAATGTATTGGTTGAACCAATCATTCATCACGCAA
Found at i:71273884 original size:27 final size:27
Alignment explanation
Indices: 71273853--71274030 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
71273843 TAAATTGTAC
71273853 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
71273880 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
71273906 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
71273934 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
71273962 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
71273989 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
71274016 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
71274031 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:71273967 original size:82 final size:81
Alignment explanation
Indices: 71273854--71274009 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
71273844 AAATTGTACA
* *
71273854 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
71273918 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
71273935 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
71274000 TGCGAGTTGA
65 TGCGAATTGA
71274010 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:71274021 original size:82 final size:81
Alignment explanation
Indices: 71273850--71274030 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
71273840 GATTAAATTG
* *
71273850 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
71273915 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
71273931 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
71273995 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
71274013 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
71274031 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:71279217 original size:20 final size:20
Alignment explanation
Indices: 71279194--71279260 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
71279184 TGCATTTGTA
*
71279194 TACACTTTGTTGTCCCTGTT
1 TACACTTTGTTGCCCCTGTT
*
71279214 TACACTATGTTGCCCCTGTT
1 TACACTTTGTTGCCCCTGTT
* *
71279234 TGCACATTTG-TGCCCTTGTT
1 TACAC-TTTGTTGCCCCTGTT
*
71279254 TGCACTT
1 TACACTT
71279261 CAGTTATAAC
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.05
20 36 0.88
21 3 0.07
ACGTcount: A:0.12, C:0.27, G:0.16, T:0.45
Consensus pattern (20 bp):
TACACTTTGTTGCCCCTGTT
Found at i:71281463 original size:27 final size:26
Alignment explanation
Indices: 71281426--71281511 Score: 109
Period size: 27 Copynumber: 3.2 Consensus size: 26
71281416 AACATGGCTT
*
71281426 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
*
71281452 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
* *
71281479 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCA
*
71281506 CAAGAA
1 CCAGAA
71281512 ACATATAATG
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
26 12 0.22
27 42 0.78
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:71281523 original size:27 final size:27
Alignment explanation
Indices: 71281428--71281533 Score: 92
Period size: 27 Copynumber: 4.0 Consensus size: 27
71281418 CATGGCTTCC
* * * *
71281428 AGAACAGATAT-TGTGACAGAGTCACC
1 AGAACAGATATATGTGGCAAAGCCACA
* *
71281454 AGATACAGATAT-TGTGGCAGAGCCACC
1 AGA-ACAGATATATGTGGCAAAGCCACA
* *
71281481 AGAACAGATATTTGTGGCATAGCCACA
1 AGAACAGATATATGTGGCAAAGCCACA
*
71281508 AGAA-ACATATAATGTGGCAAAGCCAC
1 AGAACAGATAT-ATGTGGCAAAGCCAC
71281534 TTAACAGAAT
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
26 16 0.23
27 54 0.77
ACGTcount: A:0.39, C:0.20, G:0.23, T:0.19
Consensus pattern (27 bp):
AGAACAGATATATGTGGCAAAGCCACA
Found at i:71281541 original size:53 final size:53
Alignment explanation
Indices: 71281426--71281533 Score: 135
Period size: 54 Copynumber: 2.0 Consensus size: 53
71281416 AACATGGCTT
* * * * *
71281426 CCAGAACAGATATTGTGACAGAGTCACCAGATACAGATATTGTGGCAGAGCCA
1 CCAGAACAGATATTGTGACAGAGCCACAAGAAACAGATAATGTGGCAAAGCCA
* * *
71281479 CCAGAACAGATATTTGTGGCATAGCCACAAGAAACATATAATGTGGCAAAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCACAAGAAACAGATAATGTGGCAAAGCCA
71281533 C
1 C
71281534 TTAACAGAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
53 12 0.26
54 34 0.74
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (53 bp):
CCAGAACAGATATTGTGACAGAGCCACAAGAAACAGATAATGTGGCAAAGCCA
Found at i:71281922 original size:27 final size:26
Alignment explanation
Indices: 71281876--71281938 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 26
71281866 GTGACAAAGA
71281876 CACCAGATACAGATACTGTGGCAGAGC
1 CACCAGA-ACAGATACTGTGGCAGAGC
* *
71281903 CACCAGAACAGATATTTGTGGCATAGC
1 CACCAGAACAGATA-CTGTGGCAGAGC
71281930 CACCAGAAC
1 CACCAGAAC
71281939 GCTTCCTCCA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
26 7 0.21
27 26 0.79
ACGTcount: A:0.35, C:0.27, G:0.22, T:0.16
Consensus pattern (26 bp):
CACCAGAACAGATACTGTGGCAGAGC
Found at i:71282192 original size:27 final size:27
Alignment explanation
Indices: 71282162--71282277 Score: 128
Period size: 27 Copynumber: 4.3 Consensus size: 27
71282152 GGGGTAAAAT
*
71282162 GGTAATTTTATCCC-ACAAGGGTATCTC
1 GGTAATTTTA-CCCTACAAGGGTATTTC
* *
71282189 GGTAATTCTACCCTACAAGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
*
71282216 GGTATTTTTACCCTACAAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
71282243 AGTAATTCTACCCTA-TAGCGGTATTTC
1 GGTAATTTTACCCTACAAG-GGTATTTC
*
71282270 AGTAATTT
1 GGTAATTT
71282278 GGTAAACTAA
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
26 5 0.07
27 71 0.93
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:71284511 original size:27 final size:26
Alignment explanation
Indices: 71284467--71284570 Score: 118
Period size: 27 Copynumber: 3.9 Consensus size: 26
71284457 TGGCTGCCAG
* *
71284467 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAA
* *
71284493 ATATAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAA
*
71284520 AACAGATATTTGTGGCATAGCCACCAGA
1 AACAGATA-TTGTGGCAGAGCCACCA-A
* *
71284548 AACAGATAATGTGGCAAAGCCAC
1 AACAGATATTGTGGCAGAGCCAC
71284571 TTAACAGAAT
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
26 7 0.11
27 51 0.77
28 8 0.12
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAA
Found at i:71284555 original size:54 final size:53
Alignment explanation
Indices: 71284463--71284570 Score: 137
Period size: 54 Copynumber: 2.0 Consensus size: 53
71284453 AGCATGGCTG
* * * *
71284463 CCAGAACAGATATTGTGACAGAGTCACCAAATATAGATATTGTGGCAGAGCCA
1 CCAGAACAGATATTGTGACAGAGCCACCAAATACAGATAATGTGGCAAAGCCA
* *
71284516 CCAGAACAGATATTTGTGGCATAGCCACCAGAA-ACAGATAATGTGGCAAAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCACCA-AATACAGATAATGTGGCAAAGCCA
71284570 C
1 C
71284571 TTAACAGAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
53 12 0.26
54 33 0.70
55 2 0.04
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (53 bp):
CCAGAACAGATATTGTGACAGAGCCACCAAATACAGATAATGTGGCAAAGCCA
Found at i:71284776 original size:22 final size:22
Alignment explanation
Indices: 71284728--71284786 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
71284718 GTAAATACGT
*
71284728 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
71284750 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
71284772 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
71284787 TGATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:71284944 original size:27 final size:26
Alignment explanation
Indices: 71284897--71284976 Score: 97
Period size: 27 Copynumber: 3.0 Consensus size: 26
71284887 ATCGGTCAAT
* *
71284897 AGATATTGTGACAAAGTCACCAGATAC
1 AGATATTGTGGCAAAGCCACCAGA-AC
* *
71284924 AGATATTGTGGCAGAGGCACCAGAAC
1 AGATATTGTGGCAAAGCCACCAGAAC
*
71284950 AGATATTCGTGGCATAGCCACCAGAAC
1 AGATATT-GTGGCAAAGCCACCAGAAC
71284977 GCTTCCTCCA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 9 0.19
27 38 0.81
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (26 bp):
AGATATTGTGGCAAAGCCACCAGAAC
Found at i:71285246 original size:27 final size:27
Alignment explanation
Indices: 71285202--71285306 Score: 104
Period size: 27 Copynumber: 3.9 Consensus size: 27
71285192 GGTAAAATGG
* * * * *
71285202 TAATTTTACCCCATAAGGGCATCTCGA
1 TAATTCTACCCTACAAGGGTATTTCGA
*
71285229 TAATTCTACCCTACAAGGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCGA
* *
71285256 TATTTCTACACTACAAGGGTATTTC-A
1 TAATTCTACCCTACAAGGGTATTTCGA
* *
71285282 GTAATTCTACCCTATAGGGGTATTT
1 -TAATTCTACCCTACAAGGGTATTT
71285307 TAGTAATTTG
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
27 64 1.00
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (27 bp):
TAATTCTACCCTACAAGGGTATTTCGA
Found at i:71285311 original size:27 final size:27
Alignment explanation
Indices: 71285229--71285314 Score: 118
Period size: 27 Copynumber: 3.2 Consensus size: 27
71285219 GGCATCTCGA
*
71285229 TAATTCTACCCTACAAGGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCAG
* *
71285256 TATTTCTACACTACAAGGGTATTTCAG
1 TAATTCTACCCTACAAGGGTATTTCAG
* * *
71285283 TAATTCTACCCTATAGGGGTATTTTAG
1 TAATTCTACCCTACAAGGGTATTTCAG
71285310 TAATT
1 TAATT
71285315 TGGTAAACTA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.38
Consensus pattern (27 bp):
TAATTCTACCCTACAAGGGTATTTCAG
Found at i:71285621 original size:9 final size:9
Alignment explanation
Indices: 71285607--71285631 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
71285597 GAGTTAATCC
71285607 GCACTCTGA
1 GCACTCTGA
71285616 GCACTCTGA
1 GCACTCTGA
71285625 GCACTCT
1 GCACTCT
71285632 TAGCCGACGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.36, G:0.20, T:0.24
Consensus pattern (9 bp):
GCACTCTGA
Found at i:71285798 original size:16 final size:16
Alignment explanation
Indices: 71285777--71285811 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
71285767 GATCCCTCAA
71285777 TCATCAGAGTTTAAAT
1 TCATCAGAGTTTAAAT
71285793 TCATCAGAGTTTAAAT
1 TCATCAGAGTTTAAAT
71285809 TCA
1 TCA
71285812 AGACCAACTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.37
Consensus pattern (16 bp):
TCATCAGAGTTTAAAT
Found at i:71287576 original size:26 final size:26
Alignment explanation
Indices: 71287535--71287668 Score: 110
Period size: 27 Copynumber: 5.0 Consensus size: 26
71287525 AGTATGGCTG
* * *
71287535 CCAGAACAAAGATTGT-GAAGAGTCA
1 CCAGAACAGATATTGTGGAAGAGCCA
*
71287560 CCAGATACAGATATTGTGGTAGAGCCA
1 CCAGA-ACAGATATTGTGGAAGAGCCA
* * *
71287587 CCAGAACAGATATTTATGGTATAGCCA
1 CCAGAACAGATA-TTGTGGAAGAGCCA
* * *
71287614 CCAGAACAGATATTTATGGTATAGCCA
1 CCAGAACAGATA-TTGTGGAAGAGCCA
*
71287641 CCAGAAACAGATAATGTGGCAA-AGCCA
1 CCAG-AACAGATATTGTGG-AAGAGCCA
71287668 C
1 C
71287669 TTAACAGAAT
Statistics
Matches: 95, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
25 5 0.05
26 16 0.17
27 65 0.68
28 9 0.09
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.20
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGAAGAGCCA
Found at i:71287667 original size:54 final size:54
Alignment explanation
Indices: 71287558--71287668 Score: 136
Period size: 54 Copynumber: 2.1 Consensus size: 54
71287548 TGTGAAGAGT
* * * *
71287558 CACCAGATACAGATATTGTGGTAGAGCCACCAGAACAGATATTTATGGTATAGC
1 CACCAGATACAGATATTATGGTAGAGCCACCAGAACAGATATATATGGCAAAGC
* *
71287612 CACCAGA-ACAGATATTTATGGTATAGCCACCAGAAACAGATA-ATGTGGCAAAGC
1 CACCAGATACAGATA-TTATGGTAGAGCCACCAG-AACAGATATATATGGCAAAGC
71287666 CAC
1 CAC
71287669 TTAACAGAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
53 7 0.14
54 34 0.69
55 8 0.16
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (54 bp):
CACCAGATACAGATATTATGGTAGAGCCACCAGAACAGATATATATGGCAAAGC
Found at i:71287668 original size:27 final size:27
Alignment explanation
Indices: 71287558--71287653 Score: 149
Period size: 27 Copynumber: 3.5 Consensus size: 27
71287548 TGTGAAGAGT
* *
71287558 CACCAGATACAGATA-TTGTGGTAGAGC
1 CACCAGA-ACAGATATTTATGGTATAGC
71287585 CACCAGAACAGATATTTATGGTATAGC
1 CACCAGAACAGATATTTATGGTATAGC
71287612 CACCAGAACAGATATTTATGGTATAGC
1 CACCAGAACAGATATTTATGGTATAGC
71287639 CACCAGAAACAGATA
1 CACCAG-AACAGATA
71287654 ATGTGGCAAA
Statistics
Matches: 65, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
26 7 0.11
27 50 0.77
28 8 0.12
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
CACCAGAACAGATATTTATGGTATAGC
Found at i:71287749 original size:32 final size:32
Alignment explanation
Indices: 71287682--71287757 Score: 82
Period size: 32 Copynumber: 2.4 Consensus size: 32
71287672 ACAGAATACG
* *
71287682 TGGCACAAAGCCATCAATAACTGTAATAACTT
1 TGGCACAAAGCCATCAATAACGGTAATAACAT
* * *
71287714 TGGCACATAGCCATCAGTGACGGTAAT-ACAAT
1 TGGCACAAAGCCATCAATAACGGTAATAAC-AT
*
71287746 TGGCACACAGCC
1 TGGCACAAAGCC
71287758 TTCGGTAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
31 2 0.05
32 35 0.95
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (32 bp):
TGGCACAAAGCCATCAATAACGGTAATAACAT
Found at i:71287874 original size:22 final size:22
Alignment explanation
Indices: 71287826--71287884 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
71287816 GTAAATACGT
*
71287826 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
71287848 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
71287870 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
71287885 CGATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:71288031 original size:27 final size:26
Alignment explanation
Indices: 71287992--71288074 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
71287982 TCGATCGGTC
* *
71287992 AACAGATATTGTGACAAAGTCACCAG
1 AACAGATATTGTGGCAAAGCCACCAG
*
71288018 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAAAGCCACCAG
*
71288045 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAAAGCCACCAG
71288072 AAC
1 AAC
71288075 GCTTCCTATA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAAAGCCACCAG
Found at i:71288328 original size:27 final size:27
Alignment explanation
Indices: 71288298--71288404 Score: 142
Period size: 27 Copynumber: 4.0 Consensus size: 27
71288288 GAGGTAAAAT
* * *
71288298 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
71288325 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
71288352 GGTATTTCTACCCTACAAGGATATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
71288379 GGTAATTCTACCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAAGGGTATTT
71288405 TAGTAATTTG
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:71288364 original size:54 final size:53
Alignment explanation
Indices: 71288302--71288404 Score: 161
Period size: 54 Copynumber: 1.9 Consensus size: 53
71288292 TAAAATGGTA
*
71288302 ATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGT
1 ATTTTACCCCACAAGGATATCTCGGTAATTCTACCCTACAGGGGTATTTCGGT
* * *
71288355 ATTTCTACCCTACAAGGATATTTTGGTAATTCTACCCTACAGGGGTATTT
1 ATTT-TACCCCACAAGGATATCTCGGTAATTCTACCCTACAGGGGTATTT
71288405 TAGTAATTTG
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
53 4 0.09
54 41 0.91
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.35
Consensus pattern (53 bp):
ATTTTACCCCACAAGGATATCTCGGTAATTCTACCCTACAGGGGTATTTCGGT
Found at i:71289441 original size:24 final size:23
Alignment explanation
Indices: 71289387--71289432 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
71289377 ATGGCTAGGT
71289387 AAAATTTTTAAGTTATGCATTAA
1 AAAATTTTTAAGTTATGCATTAA
71289410 AAAATTTTTAAGTTATGCATTAA
1 AAAATTTTTAAGTTATGCATTAA
71289433 GGGTATTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.43
Consensus pattern (23 bp):
AAAATTTTTAAGTTATGCATTAA
Found at i:71292212 original size:94 final size:94
Alignment explanation
Indices: 71292114--71292614 Score: 723
Period size: 94 Copynumber: 5.3 Consensus size: 94
71292104 TTAGGATTTT
* ** * * * *
71292114 ATGTGATGGATGTGAATGTGTATACATGAGCTAAGGCCGAATGGCAAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* * **
71292179 TGCATTTGTGTGCTAAGGCCGAATGGAAA
66 TGCATATGTGTGATAAGGCCGAATGGCCA
* * * *
71292208 ATGTGATGAATGTGAACATGCATATGTGTGCTAAGGCCGAATGGCAAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* *
71292273 TGCATTTGTGTGATAAGACCGAATGGCCA
66 TGCATATGTGTGATAAGGCCGAATGGCCA
* *
71292302 ATGTGATGAATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
*
71292367 TGCATATATGTGATAAGGCCGAATGGCCA
66 TGCATATGTGTGATAAGGCCGAATGGCCA
71292396 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
71292461 TGCATATGTGTGATAAGGCCGAATGGCCA
66 TGCATATGTGTGATAAGGCCGAATGGCCA
* * * *
71292490 ATGTGAAGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATAAATGTGAACA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
** *
71292555 TGCATACATGTGATAAGGCAGAATGGCCA
66 TGCATATGTGTGATAAGGCCGAATGGCCA
* * **
71292584 ATGTGATGAACGTGGATGTGTATATATGTGA
1 ATGTGATGAATGTGAACATGTATATATGTGA
71292615 ATGCCGAATG
Statistics
Matches: 372, Mismatches: 35, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
94 372 1.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.27
Consensus pattern (94 bp):
ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:71292258 original size:24 final size:24
Alignment explanation
Indices: 71292185--71292259 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
71292175 AACATGCATT
*
71292185 TGTGTGCTAAGGCCGAATGGAAAA
1 TGTGTGCTAAGGCCGAATGGCAAA
* * *
71292209 TGTGATG--AATG-TGAACAT-GCATA
1 TGTG-TGCTAAGGCCG-A-ATGGCAAA
71292232 TGTGTGCTAAGGCCGAATGGCAAA
1 TGTGTGCTAAGGCCGAATGGCAAA
71292256 TGTG
1 TGTG
71292260 ATGAATGTGA
Statistics
Matches: 37, Mismatches: 7, Indels: 14
0.64 0.12 0.24
Matches are distributed among these distances:
22 3 0.08
23 13 0.35
24 18 0.49
25 3 0.08
ACGTcount: A:0.31, C:0.12, G:0.32, T:0.25
Consensus pattern (24 bp):
TGTGTGCTAAGGCCGAATGGCAAA
Found at i:71292402 original size:22 final size:22
Alignment explanation
Indices: 71292374--71292449 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
71292364 ACATGCATAT
71292374 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * ***
71292396 ATGTGATGAATG-TGAACATGTATA
1 ATGTGAT-AAGGCCG-A-ATGGCCA
71292420 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
71292443 ATGTGAT
1 ATGTGAT
71292450 GAATGTGAAC
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 15 0.38
23 8 0.21
24 8 0.21
25 8 0.21
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:71292590 original size:22 final size:22
Alignment explanation
Indices: 71292515--71292590 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
71292505 ACATGCATAT
*
71292515 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCAGAATGGCCA
*
71292537 ATGTGATAAATGTG-A-ACAT-GCATA
1 ATGTGAT-AA-G-GCAGA-ATGGC-CA
71292561 CATGTGATAAGGCAGAATGGCCA
1 -ATGTGATAAGGCAGAATGGCCA
71292584 ATGTGAT
1 ATGTGAT
71292591 GAACGTGGAT
Statistics
Matches: 42, Mismatches: 3, Indels: 18
0.67 0.05 0.29
Matches are distributed among these distances:
22 15 0.36
23 10 0.24
24 9 0.21
25 8 0.19
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.24
Consensus pattern (22 bp):
ATGTGATAAGGCAGAATGGCCA
Found at i:71292614 original size:47 final size:47
Alignment explanation
Indices: 71292145--71292593 Score: 700
Period size: 47 Copynumber: 9.6 Consensus size: 47
71292135 ATACATGAGC
* * * *
71292145 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGC
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
** * *
71292192 TAAGGCCGAATGGAAAATGTGATGAATGTGAACATGCATATGTGTGC
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
* * *
71292239 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
* * *
71292286 TAAGACCGAATGGCCAATGTGATGAATGTGAACATGTATATGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
*
71292333 TAAGGCCGAATGGCCAATGTGATGAATATGAACATGCATATATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
*
71292380 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATATATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
*
71292427 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
* *
71292474 TAAGGCCGAATGGCCAATGTGAAGAATATGAACATGCATATATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
* *
71292521 TAAGGCCGAATGGCCAATGTGATAAATGTGAACATGCATACATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
*
71292568 TAAGGCAGAATGGCCAATGTGATGAA
1 TAAGGCCGAATGGCCAATGTGATGAA
71292594 CGTGGATGTG
Statistics
Matches: 376, Mismatches: 26, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 376 1.00
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (47 bp):
TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
Found at i:71310026 original size:21 final size:21
Alignment explanation
Indices: 71310002--71310046 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
71309992 AAATGAAAAG
71310002 TTATTCATAGATAAACAACTT
1 TTATTCATAGATAAACAACTT
71310023 TTATTCATAGATAAACAACTT
1 TTATTCATAGATAAACAACTT
71310044 TTA
1 TTA
71310047 CAAAGTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.42, C:0.13, G:0.04, T:0.40
Consensus pattern (21 bp):
TTATTCATAGATAAACAACTT
Found at i:71312745 original size:22 final size:23
Alignment explanation
Indices: 71312715--71312760 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
71312705 AGATGTAGTG
*
71312715 AATAGAAAACAAAAGTTA-GCTT
1 AATAGAAAACAAAAATTATGCTT
* *
71312737 AATATAAAATAAAAATTATGCTT
1 AATAGAAAACAAAAATTATGCTT
71312760 A
1 A
71312761 GTTTTTTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.57, C:0.07, G:0.09, T:0.28
Consensus pattern (23 bp):
AATAGAAAACAAAAATTATGCTT
Found at i:71313689 original size:13 final size:13
Alignment explanation
Indices: 71313671--71313696 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
71313661 GGACACGACC
71313671 GTATGTAAAGAAT
1 GTATGTAAAGAAT
71313684 GTATGTAAAGAAT
1 GTATGTAAAGAAT
71313697 TTGTTTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (13 bp):
GTATGTAAAGAAT
Found at i:71318454 original size:7 final size:7
Alignment explanation
Indices: 71318419--71318482 Score: 74
Period size: 7 Copynumber: 8.9 Consensus size: 7
71318409 AAGTATGAAA
71318419 CTAAACC
1 CTAAACC
71318426 CTAAAACC
1 CT-AAACC
*
71318434 CTAAATC
1 CTAAACC
* *
71318441 TTAAAACA
1 CT-AAACC
*
71318449 CTAAACA
1 CTAAACC
71318456 CTAAACC
1 CTAAACC
71318463 CTAAACC
1 CTAAACC
71318470 CTAAACC
1 CTAAACC
71318477 CTAAAC
1 CTAAAC
71318483 TTGTAAGTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
7 38 0.78
8 11 0.22
ACGTcount: A:0.48, C:0.34, G:0.00, T:0.17
Consensus pattern (7 bp):
CTAAACC
Found at i:71318460 original size:15 final size:15
Alignment explanation
Indices: 71318418--71318474 Score: 62
Period size: 15 Copynumber: 3.9 Consensus size: 15
71318408 GAAGTATGAA
71318418 ACTAAACCCTAAAAC
1 ACTAAACCCTAAAAC
* * *
71318433 CCTAAATCTTAAAAC
1 ACTAAACCCTAAAAC
*
71318448 ACTAAACACT-AAAC
1 ACTAAACCCTAAAAC
*
71318462 CCTAAACCCTAAA
1 ACTAAACCCTAAA
71318475 CCCTAAACTT
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
14 12 0.38
15 20 0.62
ACGTcount: A:0.51, C:0.32, G:0.00, T:0.18
Consensus pattern (15 bp):
ACTAAACCCTAAAAC
Found at i:71328877 original size:168 final size:169
Alignment explanation
Indices: 71328582--71328919 Score: 554
Period size: 168 Copynumber: 2.0 Consensus size: 169
71328572 TAGCCATTGG
71328582 AATGACTAGTAATGGTTCATTTTGGTATGACTAAGTAGATTATTATGATATACATATACACATGT
1 AATGACTAGTAATGGTTCATTTTGGTATGACTAAGTAGATTATTATGATATACATATACACATGT
* * * *
71328647 GTTATGTTATGAATTTGTTATCAAAGGTTGCTATTGCCTAATTTAATCCAAGGTAGGTTTATAA-
66 GTTATGTTATGAATATGTTATCAAAAGTTGCTATTGCCTAAGTTAATCCAAGGTAAGTTTATAAC
**
71328711 CCAGTTATGCATGTAATAGTATGCCT-TGTTAAAGGATGA
131 CCACCTATGCATGTAATAGTATGCCTCT-TTAAAGGATGA
* * *
71328750 AATGGCTAGTATTGGTTCATTTTGGTATTACTAAGTAGATTATTATGATATACATATACACATGT
1 AATGACTAGTAATGGTTCATTTTGGTATGACTAAGTAGATTATTATGATATACATATACACATGT
71328815 GTTATGTTATGAATATGTTATCAAAAGTTGCTATTGCCTAAGTTAATCCAAGGTAAGTTTATAAC
66 GTTATGTTATGAATATGTTATCAAAAGTTGCTATTGCCTAAGTTAATCCAAGGTAAGTTTATAAC
* *
71328880 CCACCTATGCATGTAATGGTATGCCTCTTTAAATGATGA
131 CCACCTATGCATGTAATAGTATGCCTCTTTAAAGGATGA
71328919 A
1 A
71328920 TTTGCCTATT
Statistics
Matches: 157, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
168 122 0.78
169 34 0.22
170 1 0.01
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.38
Consensus pattern (169 bp):
AATGACTAGTAATGGTTCATTTTGGTATGACTAAGTAGATTATTATGATATACATATACACATGT
GTTATGTTATGAATATGTTATCAAAAGTTGCTATTGCCTAAGTTAATCCAAGGTAAGTTTATAAC
CCACCTATGCATGTAATAGTATGCCTCTTTAAAGGATGA
Found at i:71335477 original size:29 final size:27
Alignment explanation
Indices: 71335444--71335528 Score: 91
Period size: 29 Copynumber: 3.0 Consensus size: 27
71335434 TGTGAGTTAT
71335444 ACTGATTTGACTTCACGCCATGCATATCG
1 ACTGATTTG-CTTCA-GCCATGCATATCG
*
71335473 ACTGATTTTGCTTCGGGCCATGCATATCG
1 ACTGA-TTTGCTTC-AGCCATGCATATCG
*
71335502 ACTAATTTGGCTTCGAGCCATG-ATATC
1 ACTGATTT-GCTTC-AGCCATGCATATC
71335529 AGTACTTCGA
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
28 8 0.16
29 38 0.76
30 4 0.08
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (27 bp):
ACTGATTTGCTTCAGCCATGCATATCG
Found at i:71335528 original size:28 final size:29
Alignment explanation
Indices: 71335460--71335528 Score: 104
Period size: 29 Copynumber: 2.4 Consensus size: 29
71335450 TTGACTTCAC
* * *
71335460 GCCATGCATATCGACTGATTTTGCTTCGG
1 GCCATGCATATCGACTAATTTGGCTTCGA
71335489 GCCATGCATATCGACTAATTTGGCTTCGA
1 GCCATGCATATCGACTAATTTGGCTTCGA
71335518 GCCATG-ATATC
1 GCCATGCATATC
71335529 AGTACTTCGA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
28 5 0.14
29 32 0.86
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.32
Consensus pattern (29 bp):
GCCATGCATATCGACTAATTTGGCTTCGA
Found at i:71338742 original size:24 final size:24
Alignment explanation
Indices: 71338710--71338758 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
71338700 CCAATATTCC
71338710 AACATGCTTATAACTTCAAATCTT
1 AACATGCTTATAACTTCAAATCTT
71338734 AACATGCTTATAACTTCAAATCTT
1 AACATGCTTATAACTTCAAATCTT
71338758 A
1 A
71338759 CTCTACCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.20, G:0.04, T:0.37
Consensus pattern (24 bp):
AACATGCTTATAACTTCAAATCTT
Found at i:71339513 original size:40 final size:39
Alignment explanation
Indices: 71339444--71339582 Score: 144
Period size: 40 Copynumber: 3.6 Consensus size: 39
71339434 GCTTGATATC
* * * *
71339444 TCGCACACTAAGTGTCGTACATAGCCGAAGCAATCTCAAA
1 TCGCACACTAAGTGCCATATATAGCCGAAGC-ATATCAAA
* *
71339484 TCGCAAACTAAGTGCCATATATAGTCGAAGC-TATC---
1 TCGCACACTAAGTGCCATATATAGCCGAAGCATATCAAA
* *
71339519 TCG-ATACTAAGTGCCATATATAGCCGAAGCTATGTCAAA
1 TCGCACACTAAGTGCCATATATAGCCGAAGC-ATATCAAA
*
71339558 TCGCACATTAAGTGCCATATATAGC
1 TCGCACACTAAGTGCCATATATAGC
71339583 TGATTTGTCA
Statistics
Matches: 82, Mismatches: 11, Indels: 12
0.78 0.10 0.11
Matches are distributed among these distances:
34 25 0.30
35 3 0.04
36 3 0.04
38 3 0.04
39 3 0.04
40 45 0.55
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (39 bp):
TCGCACACTAAGTGCCATATATAGCCGAAGCATATCAAA
Found at i:71339571 original size:74 final size:75
Alignment explanation
Indices: 71339440--71339581 Score: 205
Period size: 74 Copynumber: 1.9 Consensus size: 75
71339430 GAATGCTTGA
* *
71339440 TATCTCGCACACTAAGTGTCGTACATAGCCGAAGCAATCTCAAATCGCAAACTAAGTGCCATATA
1 TATCTCGCACACTAAGTGCCATACATAGCCGAAGCAATCTCAAATCGCAAACTAAGTGCCATATA
71339505 TAGTCGAAGC
66 TAGTCGAAGC
* * * * * *
71339515 TATCTCG-ATACTAAGTGCCATATATAGCCGAAGCTATGTCAAATCGCACATTAAGTGCCATATA
1 TATCTCGCACACTAAGTGCCATACATAGCCGAAGCAATCTCAAATCGCAAACTAAGTGCCATATA
71339579 TAG
66 TAG
71339582 CTGATTTGTC
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
74 52 0.88
75 7 0.12
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (75 bp):
TATCTCGCACACTAAGTGCCATACATAGCCGAAGCAATCTCAAATCGCAAACTAAGTGCCATATA
TAGTCGAAGC
Found at i:71344121 original size:29 final size:29
Alignment explanation
Indices: 71344089--71344175 Score: 113
Period size: 29 Copynumber: 3.0 Consensus size: 29
71344079 AATCTCTTTC
*
71344089 ATATGGCCCATGAGGCCCAAATCACATTT
1 ATATGGCCCATTAGGCCCAAATCACATTT
* * *
71344118 ATATGGCCTATTAGGCCCAAATCATATTC
1 ATATGGCCCATTAGGCCCAAATCACATTT
* *
71344147 ATATGG-CCATTAGGACCAAAACACATTT
1 ATATGGCCCATTAGGCCCAAATCACATTT
71344175 A
1 A
71344176 CAGTCATGCT
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 18 0.37
29 31 0.63
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.26
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATTT
Found at i:71346663 original size:40 final size:40
Alignment explanation
Indices: 71346608--71346832 Score: 378
Period size: 40 Copynumber: 5.6 Consensus size: 40
71346598 TGGATGATAA
* * *
71346608 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAC
*
71346648 CCGGGCTAAGTCCCGAAGGCATTTGTGCGGGTTACTATAC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAC
71346688 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAC
71346728 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAC
* * *
71346768 CCGGGCTAAGACCCGAAGGCATTTGTACGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAC
*
71346808 CTGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
71346833 AGCAAGTAGT
Statistics
Matches: 175, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 175 1.00
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAC
Found at i:71347131 original size:22 final size:21
Alignment explanation
Indices: 71347090--71347133 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
71347080 GAATGTGCAT
71347090 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
71347112 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
71347134 CAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:71350736 original size:50 final size:50
Alignment explanation
Indices: 71350521--71350750 Score: 225
Period size: 50 Copynumber: 4.6 Consensus size: 50
71350511 CTGATACGCA
* * * * **
71350521 TAGTAGCCTGCACTTAGTACTACTCATGTGAC-CAATAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTCAACAGTATGGTACACG
* * *
71350570 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TTTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CTCAACAGTATGGTACACG
* * * * *
71350620 TAATAGCTTGCACTTAGTACTACACACGTGA-TCGA-AGTCATTGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTCAACAGT-A-TG-GTACACG
* * * * *
71350671 TAGTAGCCTGTACTTAGTACTACACATGCGACTTAACAGTATGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTCAACAGTATGGTACACG
71350721 TAGTAGCCTGCACTTAGTACTACACACGTG
1 TAGTAGCCTGCACTTAGTACTACACACGTG
71350751 TATTCACAAT
Statistics
Matches: 145, Mismatches: 28, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
47 1 0.01
48 3 0.02
49 29 0.20
50 71 0.49
51 35 0.24
52 3 0.02
53 3 0.02
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACTCAACAGTATGGTACACG
Found at i:71358071 original size:26 final size:26
Alignment explanation
Indices: 71358042--71358122 Score: 66
Period size: 25 Copynumber: 3.2 Consensus size: 26
71358032 AACAATTCGG
71358042 TACACGTAGTAACCTGCACTTAGTAC
1 TACACGTAGTAACCTGCACTTAGTAC
*
71358068 TACAC--ACGTGACCT-CACCATCT-G-A-
1 TACACGTA-GTAACCTGCA-C-T-TAGTAC
*
71358092 TACACGTAGTAGCCTGCACTTAGTAC
1 TACACGTAGTAACCTGCACTTAGTAC
71358118 TACAC
1 TACAC
71358123 ACGTGATCGA
Statistics
Matches: 42, Mismatches: 3, Indels: 20
0.65 0.05 0.31
Matches are distributed among these distances:
23 1 0.02
24 10 0.24
25 15 0.36
26 15 0.36
27 1 0.02
ACGTcount: A:0.30, C:0.31, G:0.15, T:0.25
Consensus pattern (26 bp):
TACACGTAGTAACCTGCACTTAGTAC
Found at i:71358108 original size:50 final size:48
Alignment explanation
Indices: 71358042--71358228 Score: 203
Period size: 50 Copynumber: 3.8 Consensus size: 48
71358032 AACAATTCGG
* * *
71358042 TACACGTAGTAACCTGCACTTAGTACTACACACGTGACCTCACCATCTGA
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CTAAACAT-TGA
* *
71358092 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCATTGA
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CTAA-ACATTGA
* * * * * * *
71358142 GTACACATAGTAGCCTACACTTAGTACTACACATGCGACTTAATAGTATGG
1 -TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTAAACA-T-TGA
71358193 TACACGTAGTAGCCTGCACTTAGTACTACACACGTG
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTG
71358229 TATTCACAAT
Statistics
Matches: 115, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
49 1 0.01
50 76 0.66
51 38 0.33
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (48 bp):
TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTAAACATTGA
Found at i:71361677 original size:49 final size:50
Alignment explanation
Indices: 71361511--71361748 Score: 290
Period size: 49 Copynumber: 4.8 Consensus size: 50
71361501 TGAGGTCGCA
* * *
71361511 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCGA-A-AACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CGAGATAA-T-TGGTCACG
* **
71361562 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATC-AGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAGATAATT-GGTCACG
71361612 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAG-TAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAGATAATTGGTCACG
* *
71361661 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCG-GATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAGATAATTGGTCACG
* * * *
71361710 TGTGTAGTACCATGTGCAGGCTACTATGCGTACC-AGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAGATA
71361749 GCTTTGGCTA
Statistics
Matches: 166, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
48 1 0.01
49 88 0.53
50 45 0.27
51 32 0.19
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAGATAATTGGTCACG
Found at i:71361686 original size:99 final size:100
Alignment explanation
Indices: 71361504--71361742 Score: 313
Period size: 99 Copynumber: 2.4 Consensus size: 100
71361494 TCTATTGTGA
* *
71361504 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCGAAAACTGTGATCACGTGTGTAG
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACTCGAAAACTGTGATCACGTGTGTAG
* **
71361569 TACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
66 TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
71361604 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CGAGTAA-T-TGGTCACGTGTGT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACTCGA-AAACTGTGATCACGTGTGT
*
71361666 AGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
64 AGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
71361703 GGTCGCATGTGTAGTACCATGTGCAGGCTACTATGCGTAC
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTAC
71361743 CAGATAGCTT
Statistics
Matches: 121, Mismatches: 16, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
98 34 0.28
99 45 0.37
100 4 0.03
101 38 0.31
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.28
Consensus pattern (100 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACTCGAAAACTGTGATCACGTGTGTAG
TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:71364260 original size:6 final size:6
Alignment explanation
Indices: 71364243--71364319 Score: 74
Period size: 6 Copynumber: 13.7 Consensus size: 6
71364233 AATCCTCCTA
* *
71364243 TTTTAT TCTTAT TTTTA- -TTTAT TCTTAT TTTTA- TTTTA- TTTTA-
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
* * *
71364286 TTTTAT TCTTAT TTTTAT TTTGAT TTTGAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
71364320 CAATTTTCTT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
4 4 0.07
5 15 0.25
6 41 0.68
ACGTcount: A:0.17, C:0.04, G:0.03, T:0.77
Consensus pattern (6 bp):
TTTTAT
Found at i:71364265 original size:16 final size:17
Alignment explanation
Indices: 71364241--71364312 Score: 96
Period size: 16 Copynumber: 4.4 Consensus size: 17
71364231 TGAATCCTCC
71364241 TATTTTATTCTTATTTT
1 TATTTTATTCTTATTTT
71364258 TA-TTTATTCTTATTTT
1 TATTTTATTCTTATTTT
71364274 TATTTTATT-TTA-TTT
1 TATTTTATTCTTATTTT
*
71364289 TATTCTTATTTTTATTTT
1 TATT-TTATTCTTATTTT
*
71364307 GATTTT
1 TATTTT
71364313 GATTTTTCAA
Statistics
Matches: 50, Mismatches: 1, Indels: 8
0.85 0.02 0.14
Matches are distributed among these distances:
15 7 0.14
16 24 0.48
17 13 0.26
18 6 0.12
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.76
Consensus pattern (17 bp):
TATTTTATTCTTATTTT
Found at i:71364281 original size:27 final size:27
Alignment explanation
Indices: 71364243--71364317 Score: 107
Period size: 27 Copynumber: 2.7 Consensus size: 27
71364233 AATCCTCCTA
71364243 TTTTATTCTTATTTTTATTTATTCTTAT
1 TTTTATT-TTATTTTTATTTATTCTTAT
71364271 TTTTATTTTA-TTTTATTTTATTCTTAT
1 TTTTATTTTATTTTTA-TTTATTCTTAT
*
71364298 TTTTATTTTGATTTTGATTT
1 TTTTATTTT-ATTTTTATTT
71364318 TTCAATTTTC
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
26 5 0.12
27 23 0.53
28 11 0.26
29 4 0.09
ACGTcount: A:0.17, C:0.04, G:0.03, T:0.76
Consensus pattern (27 bp):
TTTTATTTTATTTTTATTTATTCTTAT
Found at i:71364676 original size:35 final size:34
Alignment explanation
Indices: 71364637--71364705 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 34
71364627 GAGTTTCACC
71364637 TCTTTAACTCTTATGATTTTCTTTATGTTGAATA
1 TCTTTAACTCTTATGATTTTCTTTATGTTGAATA
**
71364671 NTCTTTCCCTCTTATGATTTTCTTTATGTTGAATA
1 -TCTTTAACTCTTATGATTTTCTTTATGTTGAATA
71364706 GTCTATCTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.20, C:0.14, G:0.09, T:0.55
Consensus pattern (34 bp):
TCTTTAACTCTTATGATTTTCTTTATGTTGAATA
Found at i:71367279 original size:13 final size:13
Alignment explanation
Indices: 71367263--71367295 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
71367253 TTTGATTAAA
*
71367263 TTAGTTAATTAGT
1 TTAGATAATTAGT
71367276 TTAGATAATTAGT
1 TTAGATAATTAGT
71367289 TTA-ATAA
1 TTAGATAA
71367296 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:71377640 original size:45 final size:46
Alignment explanation
Indices: 71377589--71377688 Score: 157
Period size: 45 Copynumber: 2.2 Consensus size: 46
71377579 TTTCTTTTCT
* *
71377589 ACTATTTTTAGTGATTTTTCAAATTCACGTTACTACTACTGTCT-A
1 ACTATTTTTAGTGATTTTTCAAATTCACATCACTACTACTGTCTGA
*
71377634 ACTATTTTTAGTGATTTTTCAAATTCACATCACTACTGCTGTCTGA
1 ACTATTTTTAGTGATTTTTCAAATTCACATCACTACTACTGTCTGA
71377680 ATCTATTTT
1 A-CTATTTT
71377689 ATGGTAAATT
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
45 41 0.82
46 2 0.04
47 7 0.14
ACGTcount: A:0.26, C:0.18, G:0.09, T:0.47
Consensus pattern (46 bp):
ACTATTTTTAGTGATTTTTCAAATTCACATCACTACTACTGTCTGA
Found at i:71378403 original size:46 final size:46
Alignment explanation
Indices: 71378328--71378456 Score: 204
Period size: 46 Copynumber: 2.8 Consensus size: 46
71378318 TGTAACCCGC
* * * *
71378328 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
*
71378374 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
*
71378420 CCATAAGTGAACTCGGACTGAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
71378457 TGCCCAAACA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:71380890 original size:30 final size:30
Alignment explanation
Indices: 71380846--71380934 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
71380836 CAAAGATAAC
71380846 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
71380875 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
71380905 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
71380935 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:71380894 original size:15 final size:15
Alignment explanation
Indices: 71380846--71380925 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
71380836 CAAAGATAAC
*
71380846 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
71380860 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
71380875 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
71380890 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
71380905 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
71380920 AAGAAA
1 AAGAAA
71380926 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:71380934 original size:15 final size:15
Alignment explanation
Indices: 71380857--71380934 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
71380847 AGAAAACCGA
71380857 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
71380872 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
71380886 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
71380901 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
71380917 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
71380932 ATA
1 ATA
71380935 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:71383996 original size:46 final size:47
Alignment explanation
Indices: 71383851--71383996 Score: 140
Period size: 46 Copynumber: 3.1 Consensus size: 47
71383841 AACCCACCCA
* *
71383851 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTTACA-GC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTA--TACATCC
* * * * *
71383899 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA--CATTTGCATCC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCC
* * *
71383943 ATAAGTGAACTCGGACTCAATTCAACGAGTTCGGATGCCCAAACATCC
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCC
71383991 T-AGTGA
1 TAAGTGA
71383997 CATGTCACTT
Statistics
Matches: 78, Mismatches: 15, Indels: 12
0.74 0.14 0.11
Matches are distributed among these distances:
43 3 0.04
44 1 0.01
45 4 0.05
46 33 0.42
47 29 0.37
48 8 0.10
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.23
Consensus pattern (47 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCC
Found at i:71384296 original size:50 final size:50
Alignment explanation
Indices: 71384242--71384340 Score: 180
Period size: 50 Copynumber: 2.0 Consensus size: 50
71384232 GTTACTACAT
*
71384242 TTACACATGAACTTACCTCGTATGCGAAAATGGCTAATTTTACCATTTCA
1 TTACACATGAACTTACCTCATATGCGAAAATGGCTAATTTTACCATTTCA
*
71384292 TTACACATGAACTTACCTCATATGCGAAAATGGCTACTTTTACCATTTC
1 TTACACATGAACTTACCTCATATGCGAAAATGGCTAATTTTACCATTTC
71384341 GTCCACAACT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.34
Consensus pattern (50 bp):
TTACACATGAACTTACCTCATATGCGAAAATGGCTAATTTTACCATTTCA
Found at i:71393287 original size:14 final size:13
Alignment explanation
Indices: 71393264--71393296 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
71393254 AGGATATCAA
71393264 AACAAGAATTAAG
1 AACAAGAATTAAG
71393277 AACATAGAATTAAG
1 AACA-AGAATTAAG
71393291 AACAAG
1 AACAAG
71393297 TTAAATATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.61, C:0.09, G:0.15, T:0.15
Consensus pattern (13 bp):
AACAAGAATTAAG
Found at i:71395724 original size:7 final size:7
Alignment explanation
Indices: 71395700--71395732 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
71395690 AAATAGTTTC
71395700 AATAATA
1 AATAATA
*
71395707 AGTAA-A
1 AATAATA
71395713 AATAATA
1 AATAATA
71395720 AATAATA
1 AATAATA
71395727 AATAAT
1 AATAAT
71395733 TATTTCTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (7 bp):
AATAATA
Found at i:71403683 original size:19 final size:20
Alignment explanation
Indices: 71403659--71403696 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
71403649 GGTACCACCA
71403659 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
71403678 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
71403697 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:71403993 original size:47 final size:46
Alignment explanation
Indices: 71403924--71404092 Score: 173
Period size: 47 Copynumber: 3.6 Consensus size: 46
71403914 CGCCCCTAAG
* *
71403924 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATTAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGGC-TTAGCATCCATTAAA
* * * * *
71403971 TGAACTCGGACTCAACTCAACGAGTTCGAATGCCTAG-TTACATCT-CA
1 TGAACTCGGACTCAACTCAACGAGTTCG--GGCTTAGCATCCAT-TAAA
* * * *
71404018 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA-TAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGGC-TTAGCATCCATTAAA
71404064 TGAACTCGGACTCAACTCAACGAGTTCGG
1 TGAACTCGGACTCAACTCAACGAGTTCGG
71404093 ATGCTCAACT
Statistics
Matches: 99, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
45 2 0.02
46 30 0.30
47 62 0.63
48 3 0.03
49 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGGCTTAGCATCCATTAAA
Found at i:71409124 original size:28 final size:28
Alignment explanation
Indices: 71409084--71409139 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
71409074 ATCTCGAGTT
*
71409084 CCCTACATTGGCTGCAGAAGTATTCTGA
1 CCCTACACTGGCTGCAGAAGTATTCTGA
71409112 CCCTACACTGGCTGCAGAAGTATTCTGA
1 CCCTACACTGGCTGCAGAAGTATTCTGA
71409140 GATTTAGGAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (28 bp):
CCCTACACTGGCTGCAGAAGTATTCTGA
Found at i:71411703 original size:93 final size:93
Alignment explanation
Indices: 71411544--71411714 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
71411534 GCCCCTAAGT
* * *
71411544 GAACTCGGACTCAACTCAACAAGCTCAGGCGTTCGCATCCATAAATGAACTTGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACAAGCTCAGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
71411609 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
71411637 GAACTCGAACTCAACTCAACGAGTTC-GGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGAACTCAACTCAACAAGCTCAGG-CATTCGCATCCATAAATGAACTCGGACTCAACTCA
71411701 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
71411715 TCAACCATCC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACAAGCTCAGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:71411704 original size:46 final size:46
Alignment explanation
Indices: 71411539--71411711 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
71411529 AACCCGCCCC
* * * *
71411539 TAAGTGAACTCGGACTCAACTCAACAAGCTCAGG-CGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTTGCATCCA
* * * *
71411585 TAAATGAACTTGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* * *
71411633 TCA-CGAACTCGAACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
71411678 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
71411712 TGCTCAACCA
Statistics
Matches: 102, Mismatches: 17, Indels: 16
0.76 0.13 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 4 0.04
46 55 0.54
47 27 0.26
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:71411730 original size:46 final size:45
Alignment explanation
Indices: 71411589--71411730 Score: 114
Period size: 46 Copynumber: 3.1 Consensus size: 45
71411579 CATCCATAAA
*
71411589 TGAACTTGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AG
* * * * *
71411636 CGAACTCGAACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-AAG
1 TGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCTAG
71411682 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAG
71411728 TGA
1 TGA
71411731 CATGTCACTT
Statistics
Matches: 75, Mismatches: 11, Indels: 19
0.71 0.10 0.18
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 32 0.43
47 29 0.39
49 3 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAG
Found at i:71417240 original size:10 final size:10
Alignment explanation
Indices: 71417225--71417249 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
71417215 AAATTAAAAA
71417225 ATCATTTTAT
1 ATCATTTTAT
71417235 ATCATTTTAT
1 ATCATTTTAT
71417245 ATCAT
1 ATCAT
71417250 CTTCTTCCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.12, G:0.00, T:0.56
Consensus pattern (10 bp):
ATCATTTTAT
Found at i:71419421 original size:34 final size:33
Alignment explanation
Indices: 71419358--71419430 Score: 94
Period size: 34 Copynumber: 2.2 Consensus size: 33
71419348 TCAGTGGCAA
* *
71419358 TATCAGTGTGGGCCTTAGCCCATTACAGTAACAG
1 TATCAGTGTGGGCCCTAGCCAATTACAGT-ACAG
*
71419392 TATCAGTGTGGGCCCTAGCTCAATT-CAGTATAG
1 TATCAGTGTGGGCCCTAGC-CAATTACAGTACAG
71419425 TATCAG
1 TATCAG
71419431 AGATGCACAC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
33 9 0.26
34 22 0.63
35 4 0.11
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (33 bp):
TATCAGTGTGGGCCCTAGCCAATTACAGTACAG
Found at i:71421970 original size:25 final size:26
Alignment explanation
Indices: 71421915--71422010 Score: 153
Period size: 26 Copynumber: 3.8 Consensus size: 26
71421905 CTCTTTTAAC
* *
71421915 AACTGAGGCA-AAGCCCTTTT-GATA
1 AACTGGGGCATAAGCCCTTTTCAATA
71421939 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
71421964 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
71421990 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
71422011 GCACTTCCTC
Statistics
Matches: 68, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
24 19 0.28
25 13 0.19
26 36 0.53
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:71422127 original size:20 final size:20
Alignment explanation
Indices: 71422061--71422117 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
71422051 TTATGAATAC
*
71422061 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
71422081 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
71422101 GTCATGTGCATATCATA
1 ATCATGTGCATATCATA
71422118 TCAACCATGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:71434394 original size:48 final size:48
Alignment explanation
Indices: 71434337--71434476 Score: 192
Period size: 48 Copynumber: 2.9 Consensus size: 48
71434327 GGGCTATGTG
* * ***
71434337 TGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCGTTATGA
1 TGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCAACAT-A
71434386 -GATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCAACATA
1 TGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCAACATA
* * *
71434433 TGATCCCATATAAGACCATATTTGGGATATGGCATTGGCATCAA
1 TGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCAA
71434477 TATGAAACAT
Statistics
Matches: 82, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
47 1 0.01
48 81 0.99
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (48 bp):
TGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCAACATA
Found at i:71435127 original size:55 final size:54
Alignment explanation
Indices: 71435068--71435186 Score: 125
Period size: 55 Copynumber: 2.2 Consensus size: 54
71435058 CGTGTGGGAC
* *
71435068 ACTGACTTTAGGGCACGGCCATGACACACACTCGTGTGGCCTACCCGTGGGA-AAT
1 ACTGACTTTA-GACACGGCCATGACACACACTCGTGTGGCCTAACCGT-GGACAAT
* * * ** *
71435123 ACTGACTTATAGACATGGCTATGGCACATGCTTGTGTGGCCTAACCGTGGACAAT
1 ACTGACTT-TAGACACGGCCATGACACACACTCGTGTGGCCTAACCGTGGACAAT
71435178 ACTGA-TTTA
1 ACTGACTTTA
71435187 AAAGTTTAAG
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
53 2 0.04
54 5 0.09
55 45 0.83
56 2 0.04
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.25
Consensus pattern (54 bp):
ACTGACTTTAGACACGGCCATGACACACACTCGTGTGGCCTAACCGTGGACAAT
Found at i:71443546 original size:49 final size:47
Alignment explanation
Indices: 71443470--71443682 Score: 177
Period size: 49 Copynumber: 4.5 Consensus size: 47
71443460 TTGCCGCTGC
* **
71443470 CATGTCCTAGACATGGTCTTATGCTAGCTATC-TCCATCGAGGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTATCAT-CATCGAGGCCGATG
* * * * *
71443518 CCATGTCCCAGACATGGTCTTACACTAGCTCTCGTGTATACG-TGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCTATCAT-CAT-CGAGGCCGATG
* * * *
71443568 CATGTCCCAAACATGTCTTACACTAGC-ATGAAACAT--A-ACCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTAT-CATCATCGAGGCCGATG
* * *
71443612 CATGTCCCAGACATGTCTTACACTGGCTAACATCATCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTATCATCATCGAGGCCGATG
*
71443659 CATGTCCCAAACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
71443683 GGCTGTAACA
Statistics
Matches: 132, Mismatches: 24, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
44 34 0.26
45 1 0.01
46 1 0.01
47 31 0.23
48 13 0.10
49 41 0.31
50 9 0.07
51 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTATCATCATCGAGGCCGATG
Found at i:71443666 original size:91 final size:94
Alignment explanation
Indices: 71443512--71443682 Score: 251
Period size: 91 Copynumber: 1.9 Consensus size: 94
71443502 TCCATCGAGG
** * * *
71443512 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTGTATACGTGCTGATGCATGTCCCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTAACATGCATACGGGCTGATGCATGTCCCA
71443577 AACATGTCTTACACTAGCATGAAACATAA
66 AACATGTCTTACACTAGCATGAAACATAA
*
71443606 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTAACAT-CAT-CGAGGCTGATGCATGTCCC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTAACATGCATACG-GGCTGATGCATGTCCC
71443667 AAACATGTCTTACACT
65 AAACATGTCTTACACT
71443683 GGCTGTAACA
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
90 2 0.03
91 33 0.47
92 15 0.21
93 14 0.20
94 6 0.09
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (94 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTAACATGCATACGGGCTGATGCATGTCCCA
AACATGTCTTACACTAGCATGAAACATAA
Found at i:71443673 original size:47 final size:43
Alignment explanation
Indices: 71443561--71443692 Score: 158
Period size: 44 Copynumber: 3.0 Consensus size: 43
71443551 GTGTATACGT
*
71443561 GCTGATGCATGTCCCAAACATGTCTTACACTAGCATGAAACATA
1 GCTGATGCATGTCCCAAACATGTCTTACACTGGC-TGAAACATA
* * *
71443605 ACCGATGCATGTCCCAGACATGTCTTACACTGGCT-AACATCATCGA
1 GCTGATGCATGTCCCAAACATGTCTTACACTGGCTGAA-A-CAT--A
*
71443651 GGCTGATGCATGTCCCAAACATGTCTTACACTGGCTGTAACA
1 -GCTGATGCATGTCCCAAACATGTCTTACACTGGCTGAAACA
71443693 CCCCTATCCC
Statistics
Matches: 74, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
42 2 0.03
43 2 0.03
44 33 0.45
46 3 0.04
47 33 0.45
48 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
GCTGATGCATGTCCCAAACATGTCTTACACTGGCTGAAACATA
Found at i:71444496 original size:37 final size:37
Alignment explanation
Indices: 71444446--71444524 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
71444436 TTATTACGAA
* * *
71444446 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
71444483 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
71444520 GTCTT
1 GTCTT
71444525 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:71444721 original size:47 final size:47
Alignment explanation
Indices: 71444643--71444809 Score: 235
Period size: 47 Copynumber: 3.6 Consensus size: 47
71444633 CCCTTCGGGA
* * * * * *
71444643 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
71444690 CCTGTCACATATATACACTTTCACATTCATCACCTCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71444737 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
71444784 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
71444810 CACAATTATC
Statistics
Matches: 107, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 107 1.00
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:71453473 original size:29 final size:29
Alignment explanation
Indices: 71453440--71453668 Score: 156
Period size: 29 Copynumber: 7.9 Consensus size: 29
71453430 GTGGAATCAC
*
71453440 GATGGTTGTCACCATCCCTTTTCATAGTT
1 GATGGTCGTCACCATCCCTTTTCATAGTT
* * * * *
71453469 GATGGTCATCACTATTCCTTTTCATAATC
1 GATGGTCGTCACCATCCCTTTTCATAGTT
* *** *
71453498 GATAG-CCAAAGCTATCCCTTTTCATA-TT
1 GATGGTCGTCA-CCATCCCTTTTCATAGTT
* * *
71453526 CAATGGTTGTCACCATCCCTTTTTATAGTT
1 -GATGGTCGTCACCATCCCTTTTCATAGTT
*
71453556 GATGGTCATCACCATCCCTTTTCATAGTT
1 GATGGTCGTCACCATCCCTTTTCATAGTT
* * * * *
71453585 AACGGTCGTCACCATCCTTTTTCATAATC
1 GATGGTCGTCACCATCCCTTTTCATAGTT
* * *** *
71453614 GATAGCCGAGTCTATCCCTTTTCATAGTT
1 GATGGTCGTCACCATCCCTTTTCATAGTT
* * * *
71453643 GGTGGTCGTCACTATCTCGTTTCATA
1 GATGGTCGTCACCATCCCTTTTCATA
71453669 ATCGATAGCT
Statistics
Matches: 147, Mismatches: 49, Indels: 8
0.72 0.24 0.04
Matches are distributed among these distances:
28 3 0.02
29 141 0.96
30 3 0.02
ACGTcount: A:0.21, C:0.25, G:0.14, T:0.39
Consensus pattern (29 bp):
GATGGTCGTCACCATCCCTTTTCATAGTT
Found at i:71453547 original size:58 final size:58
Alignment explanation
Indices: 71453453--71453697 Score: 244
Period size: 58 Copynumber: 4.2 Consensus size: 58
71453443 GGTTGTCACC
* * * *
71453453 ATCCCTTTTCATAGTTGATGGTCATCACTATTCCTTTTCATAATCGATAGCCAAAGCT
1 ATCCCTTTTCATAGTTAATGGTCGTCACCATCCCTTTTCATAATCGATAGCCAAAGCT
* * * * * * * *
71453511 ATCCCTTTTCATA-TTCAATGGTTGTCACCATCCCTTTTTATAGTTGATGGTCATCA-CC
1 ATCCCTTTTCATAGTT-AATGGTCGTCACCATCCCTTTTCATAATCGATAGCCA-AAGCT
* * *
71453569 ATCCCTTTTCATAGTTAACGGTCGTCACCATCCTTTTTCATAATCGATAGCC-GAGTCT
1 ATCCCTTTTCATAGTTAATGGTCGTCACCATCCCTTTTCATAATCGATAGCCAAAG-CT
** * * * **
71453627 ATCCCTTTTCATAGTTGGTGGTCGTCACTATCTCGTTTCATAATCGATAGCTGAAGCT
1 ATCCCTTTTCATAGTTAATGGTCGTCACCATCCCTTTTCATAATCGATAGCCAAAGCT
71453685 ATCCCTTTTCATA
1 ATCCCTTTTCATA
71453698 TTCTATAGTC
Statistics
Matches: 150, Mismatches: 31, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
56 1 0.01
57 2 0.01
58 142 0.95
59 5 0.03
ACGTcount: A:0.22, C:0.25, G:0.13, T:0.39
Consensus pattern (58 bp):
ATCCCTTTTCATAGTTAATGGTCGTCACCATCCCTTTTCATAATCGATAGCCAAAGCT
Found at i:71453694 original size:87 final size:87
Alignment explanation
Indices: 71453449--71453697 Score: 227
Period size: 87 Copynumber: 2.9 Consensus size: 87
71453439 CGATGGTTGT
**
71453449 CACCATCCCTTTTCATAGTTGATGGTCATCACTAT-TCCTTTTCATAATCGATAGCCAAAGCTAT
1 CACCATCCCTTTTCATAGTTGATGGTCATCACTATCT-CTTTTCATAATCGATAGCTGAAGCTAT
* * ** *
71453513 CCCTTTTCATATTCAATGGTTGT
65 CCCTTTTCATAATCAATAGCCGA
* * * * * * * *
71453536 CACCATCCCTTTTTATAGTTGATGGTCATCACCATCCCTTTTCATAGT-TA-ACGGTCGTCA-CC
1 CACCATCCCTTTTCATAGTTGATGGTCATCACTATCTCTTTTCATAATCGATA-GCT-G-AAGCT
* *
71453598 ATCCTTTTTCATAATCGATAGCCGA
63 ATCCCTTTTCATAATCAATAGCCGA
** * * * *
71453623 GTCTATCCCTTTTCATAGTTGGTGGTCGTCACTATCTCGTTTCATAATCGATAGCTGAAGCTATC
1 CACCATCCCTTTTCATAGTTGATGGTCATCACTATCTCTTTTCATAATCGATAGCTGAAGCTATC
71453688 CCTTTTCATA
66 CCTTTTCATA
71453698 TTCTATAGTC
Statistics
Matches: 123, Mismatches: 32, Indels: 14
0.73 0.19 0.08
Matches are distributed among these distances:
85 1 0.01
86 3 0.02
87 114 0.93
88 4 0.03
89 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.13, T:0.38
Consensus pattern (87 bp):
CACCATCCCTTTTCATAGTTGATGGTCATCACTATCTCTTTTCATAATCGATAGCTGAAGCTATC
CCTTTTCATAATCAATAGCCGA
Found at i:71456799 original size:32 final size:33
Alignment explanation
Indices: 71456753--71456816 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
71456743 AACAGCGAGT
*
71456753 ACTGGGCCGAAG-CCCTTTTCAGA-ATACAGTAA
1 ACTGGGCCGAAGCCCCGTTTCAGATA-ACAGTAA
**
71456785 ACTGGGCCTTAGCCCCGTTTCAGATAACAGTA
1 ACTGGGCCGAAGCCCCGTTTCAGATAACAGTA
71456817 TGGCCCATAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 10 0.37
33 16 0.59
34 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (33 bp):
ACTGGGCCGAAGCCCCGTTTCAGATAACAGTAA
Found at i:71458454 original size:5 final size:5
Alignment explanation
Indices: 71458444--71458482 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
71458434 GTAGATGAAG
*
71458444 AGAAA AGAAA AGAAA AGAAA AG-AA GGAAA AGAAGA AGAA
1 AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA AGAA-A AGAA
71458483 GAAAGGAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
4 3 0.10
5 22 0.73
6 5 0.17
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:71458476 original size:52 final size:55
Alignment explanation
Indices: 71458415--71458521 Score: 157
Period size: 57 Copynumber: 2.0 Consensus size: 55
71458405 TCGGCTATGG
71458415 AGGAAAAGAAGAAG-AG-A-AAGTAGATGAAGAGAAAAGAAAAGAAAAGAAAAGA
1 AGGAAAAGAAGAAGAAGAAGAAGTAGATGAAGAGAAAAGAAAAGAAAAGAAAAGA
**
71458467 AGGAAAAGAAGAAGAAGAAAGGAAGTAGATGAAGAGAGGAGAAAAGAAAAGAAAA
1 AGGAAAAGAAGAAGAAG-AA-GAAGTAGATGAAGAGAAAAGAAAAGAAAAGAAAA
71458522 TAGAAGAAGA
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
52 14 0.29
53 2 0.04
55 1 0.02
57 31 0.65
ACGTcount: A:0.65, C:0.00, G:0.31, T:0.04
Consensus pattern (55 bp):
AGGAAAAGAAGAAGAAGAAGAAGTAGATGAAGAGAAAAGAAAAGAAAAGAAAAGA
Found at i:71458483 original size:15 final size:14
Alignment explanation
Indices: 71458417--71458529 Score: 76
Period size: 14 Copynumber: 8.2 Consensus size: 14
71458407 GGCTATGGAG
71458417 GAAAAGAAGAAG-A
1 GAAAAGAAGAAGAA
* *
71458430 G-AAAGTAGATGAA
1 GAAAAGAAGAAGAA
*
71458443 GAGAA-AAGAA-AA
1 GAAAAGAAGAAGAA
71458455 GAAAAGAA-AAGAA
1 GAAAAGAAGAAGAA
71458468 GGAAAAGAAGAAGAA
1 -GAAAAGAAGAAGAA
* * *
71458483 GAAAGGAAGTAGAT
1 GAAAAGAAGAAGAA
*
71458497 GAAGAGAGGAGAA-AA
1 GAA-A-AGAAGAAGAA
*
71458512 GAAAAGAAAATAGAA
1 GAAAAGAAGA-AGAA
71458527 GAA
1 GAA
71458530 GAAAAAACTG
Statistics
Matches: 75, Mismatches: 15, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
12 16 0.21
13 14 0.19
14 26 0.35
15 15 0.20
16 4 0.05
ACGTcount: A:0.65, C:0.00, G:0.30, T:0.04
Consensus pattern (14 bp):
GAAAAGAAGAAGAA
Found at i:71458500 original size:20 final size:19
Alignment explanation
Indices: 71458436--71458501 Score: 55
Period size: 19 Copynumber: 3.5 Consensus size: 19
71458426 AAGAGAAAGT
*
71458436 AGATGAAG-AGAAAAGAAA
1 AGATGAAGAAGAAAGGAAA
* *
71458454 AGA-AAAGAAAAGAAGGAAA
1 AGATGAAGAAGA-AAGGAAA
* *
71458473 AGAAGAAGAAGAAAGGAAGT
1 AGATGAAGAAGAAAGGAA-A
71458493 AGATGAAGA
1 AGATGAAGA
71458502 GAGGAGAAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
17 3 0.08
18 5 0.14
19 15 0.41
20 14 0.38
ACGTcount: A:0.65, C:0.00, G:0.30, T:0.05
Consensus pattern (19 bp):
AGATGAAGAAGAAAGGAAA
Done.