Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008527.1 Hibiscus syriacus cultivar Beakdansim tig00111402_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 9057482
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 34 of 37
Found at i:8245690 original size:30 final size:30
Alignment explanation
Indices: 8245667--8245727 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
8245657 ATAAATTTTA
*
8245667 ATAAATTTAAAGATTATTTTATAACAATTT
1 ATAAATTTAAAGACTATTTTATAACAATTT
*
8245697 ATAAATTTAATGACTATTTTAT-ACGAATTT
1 ATAAATTTAAAGACTATTTTATAAC-AATTT
8245727 A
1 A
8245728 ATAACTTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 2 0.07
30 26 0.93
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (30 bp):
ATAAATTTAAAGACTATTTTATAACAATTT
Found at i:8250841 original size:2 final size:2
Alignment explanation
Indices: 8250836--8250884 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
8250826 TGTCCCGATT
*
8250836 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8250878 TA TA TA T
1 TA TA TA T
8250885 CCTAGGTATC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:8252014 original size:45 final size:46
Alignment explanation
Indices: 8251959--8252045 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 46
8251949 CGGTAGAGCA
* * *
8251959 CTACTTAAAAT-TTATTTTTTTTACCGAAAATATTAATATCAGACG
1 CTACCTAAAATGTTATTTTTTCTACCGAAAATATAAATATCAGACG
*
8252004 CTACCTAAAATGTTATTTTTTCTACCGAAAATGTAAATATCA
1 CTACCTAAAATGTTATTTTTTCTACCGAAAATATAAATATCA
8252046 TAAATATTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
45 10 0.27
46 27 0.73
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.40
Consensus pattern (46 bp):
CTACCTAAAATGTTATTTTTTCTACCGAAAATATAAATATCAGACG
Found at i:8255997 original size:8 final size:10
Alignment explanation
Indices: 8255975--8256003 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
8255965 CATATTTTTT
8255975 TATATTTCAA
1 TATATTTCAA
8255985 TATATTTCAA
1 TATATTTCAA
8255995 TATATTTCA
1 TATATTTCA
8256004 TCTCTTTCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (10 bp):
TATATTTCAA
Found at i:8256410 original size:3 final size:3
Alignment explanation
Indices: 8256402--8256480 Score: 158
Period size: 3 Copynumber: 26.3 Consensus size: 3
8256392 AAGTTCTATG
8256402 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8256450 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
8256481 CGGGACAAAT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 76 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:8257217 original size:44 final size:42
Alignment explanation
Indices: 8257168--8257319 Score: 119
Period size: 44 Copynumber: 3.5 Consensus size: 42
8257158 TAATAATACA
8257168 TTTTATCTTTATAATTGAGACTTTTAATTTGTTTCATTCTCTC
1 TTTTATCTTTATAATTGAGACTTTTAATTT-TTTCATTCTCTC
* * * *
8257211 GTTTTATATTTATAATTGACGACCCTAATTT-TTTTTTTCAATCTCAC
1 -TTTTATCTTTATAATTGA-GA--CT--TTTAATTTTTTCATTCTCTC
* ** *
8257258 TTTTTACCTTTATTAATTGAGACTCCTAATTTTTTAATTCTCT-
1 -TTTTATCTTTA-TAATTGAGACTTTTAATTTTTTCATTCTCTC
* *
8257301 TTTTAACTTTAAAATTGAG
1 TTTTATCTTTATAATTGAG
8257320 GCCCCTAATT
Statistics
Matches: 86, Mismatches: 15, Indels: 17
0.73 0.13 0.14
Matches are distributed among these distances:
41 7 0.08
42 10 0.12
43 1 0.01
44 28 0.33
45 4 0.05
47 23 0.27
48 10 0.12
49 3 0.03
ACGTcount: A:0.25, C:0.14, G:0.07, T:0.54
Consensus pattern (42 bp):
TTTTATCTTTATAATTGAGACTTTTAATTTTTTCATTCTCTC
Found at i:8257327 original size:41 final size:41
Alignment explanation
Indices: 8257243--8257371 Score: 132
Period size: 41 Copynumber: 3.1 Consensus size: 41
8257233 CCCTAATTTT
* * * *
8257243 TTTTTTCAATCTCACTTTTTACCTTTATTAATTGAGACTCCTAA
1 TTTTTT-AAT-TCTCTTTTTAACTTTA-AAATTGAGACCCCTAA
*
8257287 TTTTTTAATTCTCTTTTTAACTTTAAAATTGAGGCCCCTAA
1 TTTTTTAATTCTCTTTTTAACTTTAAAATTGAGACCCCTAA
* * * * * *
8257328 TTTTTAAACTCTATTTTTATCTTTAAAATTAAAACCCCTAA
1 TTTTTTAATTCTCTTTTTAACTTTAAAATTGAGACCCCTAA
8257369 TTT
1 TTT
8257372 AATCATTTTC
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
41 50 0.68
42 14 0.19
43 3 0.04
44 6 0.08
ACGTcount: A:0.29, C:0.18, G:0.04, T:0.50
Consensus pattern (41 bp):
TTTTTTAATTCTCTTTTTAACTTTAAAATTGAGACCCCTAA
Found at i:8257328 original size:89 final size:90
Alignment explanation
Indices: 8257168--8257332 Score: 219
Period size: 89 Copynumber: 1.8 Consensus size: 90
8257158 TAATAATACA
* ** * *
8257168 TTTTATCTTTATAATTGAGACTTTTAATTTGTTTCATTCTCTCGTTTTATATTTATAATTGACGA
1 TTTTACCTTTATAATTGAGACTCCTAATTTGTTTAATTCTCTC-TTTTATATTTAAAATTGACGA
8257233 CCCTAATTTTTTTTTTCAATCTCACT
65 CCCTAATTTTTTTTTTCAATCTCACT
*
8257259 TTTTACCTTTATTAATTGAGACTCCTAATTT-TTTAATTCTCT-TTTTA-ACTTTAAAATTGAGG
1 TTTTACCTTTA-TAATTGAGACTCCTAATTTGTTTAATTCTCTCTTTTATA-TTTAAAATTGACG
*
8257321 CCCCTAATTTTT
64 ACCCTAATTTTT
8257333 AAACTCTATT
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
88 1 0.02
89 27 0.42
91 20 0.31
92 17 0.26
ACGTcount: A:0.24, C:0.16, G:0.07, T:0.53
Consensus pattern (90 bp):
TTTTACCTTTATAATTGAGACTCCTAATTTGTTTAATTCTCTCTTTTATATTTAAAATTGACGAC
CCTAATTTTTTTTTTCAATCTCACT
Found at i:8259940 original size:2 final size:2
Alignment explanation
Indices: 8259933--8259961 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8259923 GTTATTAATT
8259933 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8259962 TAAATGTGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8260001 original size:16 final size:16
Alignment explanation
Indices: 8259980--8260014 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
8259970 TGCATAAAGG
8259980 CTTGGATTTGATTACC
1 CTTGGATTTGATTACC
8259996 CTTGGATTTGATTACC
1 CTTGGATTTGATTACC
8260012 CTT
1 CTT
8260015 TAACCGATCT
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:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (16 bp):
CTTGGATTTGATTACC
Found at i:8263512 original size:41 final size:41
Alignment explanation
Indices: 8263467--8263563 Score: 124
Period size: 40 Copynumber: 2.4 Consensus size: 41
8263457 GCGTTTTAGA
* * * *
8263467 ACAAACGCTGCTAAAGACTCCTACTATAGCGGCGTTTTTAT
1 ACAAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTAT
* * *
8263508 ACAAATGCCGCTAAAGAAT-GTAATTTAGTGGCGTTTTTAT
1 ACAAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTAT
8263548 ACAAACGCCGCTAAAG
1 ACAAACGCCGCTAAAG
8263564 TCTGAAACGC
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 32 0.67
41 16 0.33
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.28
Consensus pattern (41 bp):
ACAAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTAT
Found at i:8263573 original size:18 final size:18
Alignment explanation
Indices: 8263550--8263585 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
8263540 GTTTTTATAC
*
8263550 AAACGCCGCTAAAGTCTG
1 AAACGCCACTAAAGTCTG
8263568 AAACGCCACTAAAGTCTG
1 AAACGCCACTAAAGTCTG
8263586 TAATTTAGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.28, G:0.19, T:0.17
Consensus pattern (18 bp):
AAACGCCACTAAAGTCTG
Found at i:8263634 original size:41 final size:40
Alignment explanation
Indices: 8263588--8263971 Score: 475
Period size: 41 Copynumber: 9.3 Consensus size: 40
8263578 AAAGTCTGTA
* * *
8263588 ATTTAGTGGCATTTTTATACAAACGACGCTATAGACTTGT
1 ATTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGT
*
8263628 ACTTTAGTGGCGTTTTTTATACAAACGCCGCTATAGACTCAT
1 A-TTTAGTGGCG-TTTTTATACAAACGCCGCTATAGACTCGT
*
8263670 GATTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGT
1 -ATTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGT
* * *
8263711 ACTTTAGTGGTGTTTTTATACAAACGTCGCTATAGACTCAT
1 A-TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGT
* * *
8263752 GATTTAGTGGCGTTTTTATACAAACACCACTAAAGACTCGT
1 -ATTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGT
* * * *
8263793 ACTTTAGTGGTGTTTTTATACAATCGCCGCTAAAGACTCAT
1 A-TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGT
8263834 ACTTTAGTGGCGTGTTTGT-TACAAACGCCGCTATAGACTCGT
1 A-TTTAGTGGCGT-TTT-TATACAAACGCCGCTATAGACTCGT
* * *
8263876 GATTTAGTGGCATTTTT-TACAAACGTCGCTATAGACTCAT
1 -ATTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGT
8263916 GATTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGT
1 -ATTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGT
*
8263957 GTTTTAGTGGCGTTT
1 -ATTTAGTGGCGTTT
8263972 GTGTTTACAA
Statistics
Matches: 302, Mismatches: 32, Indels: 19
0.86 0.09 0.05
Matches are distributed among these distances:
40 41 0.14
41 188 0.62
42 70 0.23
43 3 0.01
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (40 bp):
ATTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGT
Found at i:8263765 original size:82 final size:82
Alignment explanation
Indices: 8263588--8263971 Score: 551
Period size: 82 Copynumber: 4.7 Consensus size: 82
8263578 AAAGTCTGTA
* * *
8263588 ATTTAGTGGCATTTTTATACAAACGACGCTATAGACTTGTACTTTAGTGGCGTTTTTTATACAAA
1 ATTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTACTTTAGTGGCG-TTTTTATACAAA
8263653 CGCCGCTATAGACTCATG
65 CGCCGCTATAGACTCATG
* *
8263671 ATTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGTGGTGTTTTTATACAAAC
1 ATTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTTATACAAAC
*
8263736 GTCGCTATAGACTCATG
66 GCCGCTATAGACTCATG
* * * * *
8263753 ATTTAGTGGCGTTTTTATACAAACACCACTAAAGACTCGTACTTTAGTGGTGTTTTTATACAATC
1 ATTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTTATACAAAC
*
8263818 GCCGCTAAAGACTCAT-
66 GCCGCTATAGACTCATG
*
8263834 ACTTTAGTGGCGTGTTTGT-TACAAACGCCGCTATAGACTCGTGA-TTTAGTGGCATTTTT-TAC
1 A-TTTAGTGGCGT-TTT-TATACAAACGCCGCTATAGACTCGT-ACTTTAGTGGCGTTTTTATAC
*
8263896 AAACGTCGCTATAGACTCATG
62 AAACGCCGCTATAGACTCATG
**
8263917 ATTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTGTTTTAGTGGCGTTT
1 ATTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTACTTTAGTGGCGTTT
8263972 GTGTTTACAA
Statistics
Matches: 273, Mismatches: 21, Indels: 16
0.88 0.07 0.05
Matches are distributed among these distances:
80 1 0.00
81 39 0.14
82 147 0.54
83 84 0.31
84 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (82 bp):
ATTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTTATACAAAC
GCCGCTATAGACTCATG
Found at i:8263811 original size:123 final size:122
Alignment explanation
Indices: 8263568--8263971 Score: 530
Period size: 123 Copynumber: 3.3 Consensus size: 122
8263558 CTAAAGTCTG
* * * *
8263568 AAACGCCACTAAAGTCT-GTAATTTAGTGGCATTTTTATACAAACGACGCTATAGACT-TGTACT
1 AAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAACGACGCTATAGACTCTG-A-T
8263631 TTAGTGGCGTTTTTTATACAAACGCCGCTATAGACTCATGATTTAGTGGCGTTTTTATAC
64 TTAGTGGCG-TTTTTATACAAACGCCGCTATAGACTCATGATTTAGTGGCGTTTTTATAC
* *
8263691 AAACGCCGCTAAAGACTCGTACTTTAGTGGTGTTTTTATACAAACGTCGCTATAGACTCATGATT
1 AAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAACGACGCTATAGACTC-TGATT
* * * * *
8263756 TAGTGGCGTTTTTATACAAACACCACTAAAGACTCGT-ACTTTAGTGGTGTTTTTATAC
65 TAGTGGCGTTTTTATACAAACGCCGCTATAGACTCATGA-TTTAGTGGCGTTTTTATAC
* * *
8263814 AATCGCCGCTAAAGACTCATACTTTAGTGGCGTGTTTGT-TACAAACGCCGCTATAGACTCGTGA
1 AAACGCCGCTAAAGACTCGTACTTTAGTGGCGT-TTT-TATACAAACGACGCTATAGACTC-TGA
* *
8263878 TTTAGTGGCATTTTT-TACAAACGTCGCTATAGACTCATGATTTAGTGGCGTTTTTATAC
63 TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCATGATTTAGTGGCGTTTTTATAC
* **
8263937 AAACGCCGCTATAGACTCGTGTTTTAGTGGCGTTT
1 AAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTT
8263972 GTGTTTACAA
Statistics
Matches: 246, Mismatches: 28, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
122 3 0.01
123 152 0.62
124 87 0.35
125 2 0.01
126 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (122 bp):
AAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAACGACGCTATAGACTCTGATTT
AGTGGCGTTTTTATACAAACGCCGCTATAGACTCATGATTTAGTGGCGTTTTTATAC
Found at i:8264431 original size:21 final size:21
Alignment explanation
Indices: 8264405--8264465 Score: 97
Period size: 22 Copynumber: 2.9 Consensus size: 21
8264395 ATTAAATTTT
8264405 ATTAAATATTATAAAATAAAC
1 ATTAAATATTATAAAATAAAC
8264426 ATTAAATTATTATAAAATAAAC
1 ATTAAA-TATTATAAAATAAAC
8264448 ATTAAAT-TTATCAAAATA
1 ATTAAATATTAT-AAAATA
8264466 TTATACTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.11
21 13 0.34
22 21 0.55
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (21 bp):
ATTAAATATTATAAAATAAAC
Found at i:8264441 original size:10 final size:11
Alignment explanation
Indices: 8264380--8264443 Score: 53
Period size: 10 Copynumber: 6.1 Consensus size: 11
8264370 ATTAATCAAT
8264380 TTATTATT-AA
1 TTATTATTAAA
*
8264390 TGATTATTAAA
1 TTATTATTAAA
8264401 TT-TTATTAAA
1 TTATTATTAAA
*
8264411 -TATTATAAAA
1 TTATTATTAAA
* **
8264421 TAAACATTAAA
1 TTATTATTAAA
*
8264432 TTATTATAAAA
1 TTATTATTAAA
8264443 T
1 T
8264444 AAACATTAAA
Statistics
Matches: 40, Mismatches: 11, Indels: 5
0.71 0.20 0.09
Matches are distributed among these distances:
9 1 0.03
10 22 0.55
11 17 0.43
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (11 bp):
TTATTATTAAA
Found at i:8265811 original size:20 final size:21
Alignment explanation
Indices: 8265786--8265824 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
8265776 CAAAGGCTCG
8265786 GTGCTG-CGGCTATAACACCA
1 GTGCTGCCGGCTATAACACCA
8265806 GTGCTGCCGGCTATAACAC
1 GTGCTGCCGGCTATAACAC
8265825 ATTAAGCTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.23, C:0.31, G:0.26, T:0.21
Consensus pattern (21 bp):
GTGCTGCCGGCTATAACACCA
Found at i:8267097 original size:15 final size:15
Alignment explanation
Indices: 8267077--8267105 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
8267067 GAGGTGAACT
8267077 AATGTGTATAGTTTC
1 AATGTGTATAGTTTC
8267092 AATGTGTATAGTTT
1 AATGTGTATAGTTT
8267106 TGTTTTATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.03, G:0.21, T:0.48
Consensus pattern (15 bp):
AATGTGTATAGTTTC
Found at i:8267230 original size:43 final size:41
Alignment explanation
Indices: 8267208--8267409 Score: 253
Period size: 43 Copynumber: 4.8 Consensus size: 41
8267198 ACAAATACCA
8267208 CTAAATACACAGTCAATAGCGGCGTTTGTAAAGAAAA-ACGTCG
1 CTAAATACACAGTCAATAGCGGCGTTTGTAAA-AAAACAC--CG
*
8267251 CTAAATACACAGTCAATAGCGGCGTTTGTAAAGAAAAATACCG
1 CTAAATACACAGTCAATAGCGGCGTTTGT-AA-AAAAACACCG
* *
8267294 CTAAATACACAGACAATAGCGGCGTTTGTAAAGAAAAACGCCG
1 CTAAATACACAGTCAATAGCGGCGTTTGT-AA-AAAAACACCG
* * * * *
8267337 CTAAATATAAAGTCAATAGCGGTGTTTGTTAAAAAACGCCG
1 CTAAATACACAGTCAATAGCGGCGTTTGTAAAAAAACACCG
*
8267378 CTAAATACACATTCAATAGCGGCGTTTGTAAA
1 CTAAATACACAGTCAATAGCGGCGTTTGTAAA
8267410 GACAAACGCC
Statistics
Matches: 143, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
41 37 0.26
42 1 0.01
43 96 0.67
44 6 0.04
45 3 0.02
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.22
Consensus pattern (41 bp):
CTAAATACACAGTCAATAGCGGCGTTTGTAAAAAAACACCG
Found at i:8267328 original size:86 final size:84
Alignment explanation
Indices: 8267200--8267419 Score: 323
Period size: 86 Copynumber: 2.6 Consensus size: 84
8267190 TTTTAATTAC
* * *
8267200 AAATACCACTAAATACACAGTCAATAGCGGCGTTTGTAAAGAAAAACGTCGCTAAATACACAGTC
1 AAATACCGCTAAATACACAGTCAATAGCGGCGTTTGTAAAGAAAAACGCCGCTAAATACAAAGTC
8267265 AATAGCGGCGTTTGTAAAGAA
66 AATAGCGGCGTTTGT-AA-AA
* *
8267286 AAATACCGCTAAATACACAGACAATAGCGGCGTTTGTAAAGAAAAACGCCGCTAAATATAAAGTC
1 AAATACCGCTAAATACACAGTCAATAGCGGCGTTTGTAAAGAAAAACGCCGCTAAATACAAAGTC
* *
8267351 AATAGCGGTGTTTGTTAAA
66 AATAGCGGCGTTTGTAAAA
** * *
8267370 AAACGCCGCTAAATACACATTCAATAGCGGCGTTTGTAAAGACAAACGCC
1 AAATACCGCTAAATACACAGTCAATAGCGGCGTTTGTAAAGAAAAACGCC
8267420 ACTATATGTC
Statistics
Matches: 122, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
84 47 0.39
85 1 0.01
86 74 0.61
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.21
Consensus pattern (84 bp):
AAATACCGCTAAATACACAGTCAATAGCGGCGTTTGTAAAGAAAAACGCCGCTAAATACAAAGTC
AATAGCGGCGTTTGTAAAA
Found at i:8267459 original size:127 final size:128
Alignment explanation
Indices: 8267181--8267467 Score: 301
Period size: 127 Copynumber: 2.2 Consensus size: 128
8267171 ATGGGCTTAT
** * *
8267181 TTGCGGCGTTTTTAATTACAAATACCACTAAATACACAGTCAATAGCGGCGTTTGTAAAGAAAAA
1 TTGCGGCGTTTTTAATTA-AAACGCCGCTAAATACAAAGTCAATAGCGGCGTTTGTAAAGAAAAA
* * *
8267246 CGTCGCTAAATACACAGTCAATAGCGGCGTTTGTAAAGAAAAATACCGCTAAATACACAGACAA
65 CGCCGCTAAATACACAGTCAATAGCGGCGTTTGTAAAGAAAAACACCACTAAATACACAGACAA
* * ** * * *
8267310 TAGCGGCGTTTGTAAAGAAAAACGCCGCTAAATATAAAGTCAATAGCGGTGTTTGT-TA-AAAAA
1 TTGCGGCGTTT-TTAATTAAAACGCCGCTAAATACAAAGTCAATAGCGGCGTTTGTAAAGAAAAA
* * * * * ** *
8267373 CGCCGCTAAATACACATTCAATAGCGGCGTTTGTAAAGACAAACGCCACTATATGTC-TTGACCT
65 CGCCGCTAAATACACAGTCAATAGCGGCGTTTGTAAAGAAAAACACCACTAAAT-ACACAGA-CA
8267437 A
128 A
**
8267438 TTGCGGCGTTTTTTTTTAAAACGCCGCTAA
1 TTGCGGCGTTTTTAATTAAAACGCCGCTAA
8267468 CAATAGCGGC
Statistics
Matches: 127, Mismatches: 28, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
127 68 0.54
128 14 0.11
129 41 0.32
130 4 0.03
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (128 bp):
TTGCGGCGTTTTTAATTAAAACGCCGCTAAATACAAAGTCAATAGCGGCGTTTGTAAAGAAAAAC
GCCGCTAAATACACAGTCAATAGCGGCGTTTGTAAAGAAAAACACCACTAAATACACAGACAA
Found at i:8271918 original size:31 final size:31
Alignment explanation
Indices: 8271883--8272001 Score: 112
Period size: 31 Copynumber: 3.7 Consensus size: 31
8271873 TCCAATAAAG
*
8271883 TCCCCTAACATTTAGTCCATTTTCAATATGA
1 TCCCCCAACATTTAGTCCATTTTCAATATGA
* * *
8271914 TCCCCCAACATTTAGTCCGTTTGCAATATGGT
1 TCCCCCAACATTTAGTCCATTTTCAATAT-GA
*** ** *
8271946 TCTCGATGTAACATTTAGTCTGTTTTCAATATGG
1 TC-C--CCCAACATTTAGTCCATTTTCAATATGA
8271980 TCCCCCAACATTTAGTCCATTT
1 TCCCCCAACATTTAGTCCATTT
8272002 GTAACATTTA
Statistics
Matches: 69, Mismatches: 15, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
31 40 0.58
32 3 0.04
33 2 0.03
34 3 0.04
35 21 0.30
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (31 bp):
TCCCCCAACATTTAGTCCATTTTCAATATGA
Found at i:8275290 original size:4 final size:4
Alignment explanation
Indices: 8275281--8275312 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
8275271 AGATTAGTTT
8275281 CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA
8275313 ATATATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:8278474 original size:12 final size:11
Alignment explanation
Indices: 8278444--8278488 Score: 54
Period size: 12 Copynumber: 3.9 Consensus size: 11
8278434 ACAATTTTTA
8278444 TAAAAATATAAT
1 TAAAAAT-TAAT
*
8278456 TTAAAATTAAT
1 TAAAAATTAAT
*
8278467 TAATAAATAAAT
1 TAA-AAATTAAT
8278479 TAAAAATTAA
1 TAAAAATTAA
8278489 AAAATGATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
11 12 0.43
12 16 0.57
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
TAAAAATTAAT
Found at i:8288971 original size:23 final size:25
Alignment explanation
Indices: 8288945--8288991 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
8288935 TAAATGTGAG
*
8288945 TTTACA-AATATTTAAA-ATAAATT
1 TTTACATAATATCTAAATATAAATT
8288968 TTTACATAATATCTAAATATAAAT
1 TTTACATAATATCTAAATATAAAT
8288992 AATAATTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.29
24 9 0.43
25 6 0.29
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (25 bp):
TTTACATAATATCTAAATATAAATT
Found at i:8289604 original size:15 final size:15
Alignment explanation
Indices: 8289584--8289615 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
8289574 AGGTTTATGC
8289584 TAGAAGAATTTCCAT
1 TAGAAGAATTTCCAT
8289599 TAGAAGAATTTCCAT
1 TAGAAGAATTTCCAT
8289614 TA
1 TA
8289616 TTGTGTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.34
Consensus pattern (15 bp):
TAGAAGAATTTCCAT
Found at i:8292940 original size:25 final size:25
Alignment explanation
Indices: 8292910--8292974 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
8292900 TTATCATTAA
8292910 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
8292935 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
8292960 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
8292975 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:8293373 original size:23 final size:22
Alignment explanation
Indices: 8293316--8293392 Score: 93
Period size: 23 Copynumber: 3.5 Consensus size: 22
8293306 ATAGGTAAAA
8293316 ATATGATGTAATAGGTAGCGCTT
1 ATAT-ATGTAATAGGTAGCGCTT
* *
8293339 ATATATGTAATAGGTATCGTTT
1 ATATATGTAATAGGTAGCGCTT
* *
8293361 ATATAATGTAATAGGTAGTGATT
1 ATAT-ATGTAATAGGTAGCGCTT
8293384 ATAT-TGTAA
1 ATATATGTAA
8293393 AGTATCTATC
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
21 5 0.10
22 20 0.42
23 23 0.48
ACGTcount: A:0.35, C:0.04, G:0.21, T:0.40
Consensus pattern (22 bp):
ATATATGTAATAGGTAGCGCTT
Found at i:8293695 original size:25 final size:25
Alignment explanation
Indices: 8293657--8293706 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
8293647 AAATCAATTA
*
8293657 AACATTGTTGTGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
8293682 AACATTGTTATGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
8293707 GAAAAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (25 bp):
AACATTGTTATGGGTACATTATTTG
Found at i:8294114 original size:18 final size:18
Alignment explanation
Indices: 8294093--8294129 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
8294083 GTAATTGGAG
8294093 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
8294111 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
8294129 T
1 T
8294130 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:8294137 original size:24 final size:24
Alignment explanation
Indices: 8294085--8294131 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
8294075 TTTCATATGT
* *
8294085 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
8294109 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
8294132 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:8294442 original size:39 final size:39
Alignment explanation
Indices: 8294399--8294485 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
8294389 TCCGATGCTC
*
8294399 ATCAAAATCCAAAGCTCATATGGTGCCAAACAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAACAAAAGGAA
* *
8294438 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAACAAAAGGAA
8294477 ATCAAAATC
1 ATCAAAATC
8294486 TACAACTTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.49, C:0.21, G:0.13, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAACAAAAGGAA
Found at i:8294935 original size:23 final size:23
Alignment explanation
Indices: 8294904--8294976 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
8294894 ATAGGTAAAA
* *
8294904 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGTGCTT
* *
8294927 ATATAATGTAATAGGTATTGTTT
1 ATATAATGTAATAGGTAGTGCTT
*
8294950 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
8294973 ATAT
1 ATAT
8294977 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.03, G:0.22, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:8295356 original size:23 final size:23
Alignment explanation
Indices: 8295330--8295402 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
8295320 AATAGGTAAA
*
8295330 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
8295353 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
8295376 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
8295399 ATAT
1 ATAT
8295403 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.04, G:0.23, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:8295495 original size:426 final size:430
Alignment explanation
Indices: 8294702--8295752 Score: 1918
Period size: 426 Copynumber: 2.5 Consensus size: 430
8294692 GTTAATGTTG
*
8294702 TTAAATT-TAAATTCTAAATATTATTTTATAAAATATCAAAACAATTAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATTAAATAATTTTTTGTGCAA
*
8294766 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTT-AAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
8294830 AAATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAA
131 AAATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAA
**
8294895 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATTGTTTATATAATGTA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTA
* *
8294960 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTATCTATACTTTTTTCACTG
261 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAATATCCATACTTTTTTCACTG
*
8295025 TGGAAAATATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
326 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
8295090 CGTCTAATGATTTATTTTTTACGTTACG-ATATA-TATTA
391 CGTCTAATGATTTATTTTTTACGTTACGAATATATTATTA
* *
8295128 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATAAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATTAAATAATTTTTTGTGCAA
8295193 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
8295258 AAATTACATAACTTTAAAAGAAGTATCGATCATTTTTAT-AAAAGTATGGACACTTTCAATATAA
131 AAATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAA
8295322 TAGGT-AAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTA
*
8295386 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAATGTCCATACTTTTTTCACTG
261 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAATATCCATACTTTTTTCACTG
8295451 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
326 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
8295516 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 CGTCTAATGATTTATTTTTTACGTTACGA-ATATATTATTA
8295557 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATTAAATAATTTTTTGTG-AA
1 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATTAAATAATTTTTTGTGCAA
*
8295621 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTAAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
* * *
8295686 AAATTACATAACTTTAAAAGAAATATCGATCTTTTTTATAAAAAGTATGAACACTTTCAATATAA
131 AAATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAA
8295751 TA
196 TA
8295753 TAATGTAATA
Statistics
Matches: 603, Mismatches: 16, Indels: 9
0.96 0.03 0.01
Matches are distributed among these distances:
426 218 0.36
427 131 0.22
428 163 0.27
429 91 0.15
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.39
Consensus pattern (430 bp):
TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATTAAATAATTTTTTGTGCAA
ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
AAATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAA
TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTA
ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAATATCCATACTTTTTTCACTG
TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
CGTCTAATGATTTATTTTTTACGTTACGAATATATTATTA
Found at i:8297494 original size:228 final size:226
Alignment explanation
Indices: 8297061--8298130 Score: 1009
Period size: 228 Copynumber: 4.7 Consensus size: 226
8297051 AAGGGTTCCC
* * * * * *
8297061 CCATCCTCCAGCTGCTTCCCAGAAAAAATCAACCTCTGCTGGTCTGGTGGGATTCCTTCCTTGTC
1 CCATCTTCAAGCTGCTTGCCAGCAAAGATAAACCTCTGCTGGTCTGG-GGGATTCCTTCCTTGTC
* * * * * *
8297126 TTGAATCTTTGCCTTAACATTGTCAATGGTGTCTGAACTTTCAACCTCCAATGTTATTGTCTTCC
65 TTGGATCTTTGCCTTCACATTGTCAATGGTGTCTGAACTTTCAACCTCCAAGGTAATGGTCTTTC
* * * * *
8297191 CAGTTAAG-GTCTTCACAAAGATCTGCATCCCACCACGCAA-GCGCAA-CACCAAGTGAAGTGTT
130 CAG-TAAGAGTCTTCACAAAGATTTGCATACCACCACG-AAGGCG-AAGAACCAAGTGGAGTGTG
**
8297253 GACTCCTTTTGGATATTATAGTCTGCCAATGTCCTT
192 GACTCCTTTTGGATATTATAGTC-GCCAATGTCCGA
* * * ** * * *
8297289 CCATCTTCAAGTTGCTTGCCGGCAAAGATGAGTCTTTGCTGGTCTGGGGGAATACCCTCCTTGTC
1 CCATCTTCAAGCTGCTTGCCAGCAAAGATAAACCTCTGCTGGTCTGGGGG-ATTCCTTCCTTGTC
* * * *
8297354 TTGGATCTTTGCCTTCACATTGTCAATTGTGTCTGAACTTTCAACTTCCAAAGTGATGGTCTTTC
65 TTGGATCTTTGCCTTCACATTGTCAATGGTGTCTGAACTTTCAACCTCCAAGGTAATGGTCTTTC
* * * * * *
8297419 CAGTAAGAGTCTTCACAAAGATCTGCATACCTCCACGAAGGCGGAGAACCAAATGGAGAGTAGAC
130 CAGTAAGAGTCTTCACAAAGATTTGCATACCACCACGAAGGCGAAGAACCAAGTGGAGTGTGGAC
* * * * **
8297484 TCCTTTTGGATATTATAATCGGCAAGAGTTCTT
195 TCCTTTTGGATATTATAGTCGCCAA-TGTCCGA
* * * * * * * * * *
8297517 CCATCTTCAAGCTGTTTTCCTGCAAAAATCAATCTTTGTTGGTCTGGTGGAATTCCTTCTTTGTC
1 CCATCTTCAAGCTGCTTGCCAGCAAAGATAAACCTCTGCTGGTCTGG-GGGATTCCTTCCTTGTC
* * * * * * *
8297582 CTGAAT-TTTGGCTTTCACATTATCAATGGTATCTGAACTCTCAACCTCCAAGGTAATTGTCTTT
65 TTGGATCTTT-GCCTTCACATTGTCAATGGTGTCTGAACTTTCAACCTCCAAGGTAATGGTCTTT
* * * * * * *
8297646 CCAGTAAGAGTCTTGACAAAGATTTGCATGCCACCACGAAGACGAAGCACTAGGTGGAGGGTGGA
129 CCAGTAAGAGTCTTCACAAAGATTTGCATACCACCACGAAGGCGAAGAACCAAGTGGAGTGTGGA
* * *
8297711 CTCCTTCTGGATGTTATAGTCAGCCAGTGTCCGA
194 CTCCTTTTGGATATTATAGTC-GCCAATGTCCGA
* * * * * *
8297745 CCATCTTCAAGCTGCTTTCCAGCAAAGATAAACCTCTGTTGATCTTGAGGGATTCCTTCTTTATC
1 CCATCTTCAAGCTGCTTGCCAGCAAAGATAAACCTCTGCTGGTC-TGGGGGATTCCTTCCTTGTC
* * * * * * *
8297810 TTGGATCTTAGCCTTGACATTATCAATAGTGTCGGAGCTTTCAACCTCCAAGGTAATCGTCTTTC
65 TTGGATCTTTGCCTTCACATTGTCAATGGTGTCTGAACTTTCAACCTCCAAGGTAATGGTCTTTC
* * * * * * *
8297875 CAGTGAGAGGCTTGACAAAGATTTGCATACCACCTCGAAGTCGAAGCACCAGGTGGAGTGTGGAC
130 CAGTAAGAGTCTTCACAAAGATTTGCATACCACCACGAAGGCGAAGAACCAAGTGGAGTGTGGAC
* * * *
8297940 T-CTTTCTGGATGTTGTAGTCGGCCATTGTTCGA
195 TCCTTT-TGGATATTATAGTC-GCCAATGTCCGA
* * *
8297973 CCATCTTCGAGTTGCTTGCCAGCAAAGATAAGCCTCTGCTGGTCTGGGGGTATTCCTTCCTTGTC
1 CCATCTTCAAGCTGCTTGCCAGCAAAGATAAACCTCTGCTGGTCTGGGGG-ATTCCTTCCTTGTC
* * * * *
8298038 TTGGATCTTTGCCTTCACATTGTCAATGGTGTCCGAACTCTCCACCT-CAAGGGTGATGGTCTTG
65 TTGGATCTTTGCCTTCACATTGTCAATGGTGTCTGAACTTTCAACCTCCAA-GGTAATGGTCTTT
* * * *
8298102 CCAGTGAGGGTTTTAACAAAGATTTGCAT
129 CCAGTAAGAGTCTTCACAAAGATTTGCAT
8298131 CTATTAATCA
Statistics
Matches: 695, Mismatches: 134, Indels: 26
0.81 0.16 0.03
Matches are distributed among these distances:
227 28 0.04
228 658 0.95
229 9 0.01
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (226 bp):
CCATCTTCAAGCTGCTTGCCAGCAAAGATAAACCTCTGCTGGTCTGGGGGATTCCTTCCTTGTCT
TGGATCTTTGCCTTCACATTGTCAATGGTGTCTGAACTTTCAACCTCCAAGGTAATGGTCTTTCC
AGTAAGAGTCTTCACAAAGATTTGCATACCACCACGAAGGCGAAGAACCAAGTGGAGTGTGGACT
CCTTTTGGATATTATAGTCGCCAATGTCCGA
Found at i:8299099 original size:62 final size:62
Alignment explanation
Indices: 8299032--8299153 Score: 226
Period size: 62 Copynumber: 2.0 Consensus size: 62
8299022 TACAGATACT
*
8299032 ATGTTTATTCTTATATTAATTTAATTAGAAAAATGAAAGATAATTAATATTATAATAATAAC
1 ATGTTTATTCTTATATTAATTTAATTAGAAAAAGGAAAGATAATTAATATTATAATAATAAC
*
8299094 ATGTTTATTTTTATATTAATTTAATTAGAAAAAGGAAAGATAATTAATATTATAATAATA
1 ATGTTTATTCTTATATTAATTTAATTAGAAAAAGGAAAGATAATTAATATTATAATAATA
8299154 GTATGCTTTT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (62 bp):
ATGTTTATTCTTATATTAATTTAATTAGAAAAAGGAAAGATAATTAATATTATAATAATAAC
Found at i:8299178 original size:59 final size:60
Alignment explanation
Indices: 8299037--8299178 Score: 205
Period size: 62 Copynumber: 2.4 Consensus size: 60
8299027 ATACTATGTT
* *
8299037 TATTCTTATATTAATTTAATTAGAAAAATGAAAGATAATTAATATTATAATAATAACATG
1 TATTTTTATATTAATTTAATTAGAAAAAGGAAAGATAATTAATATTATAATAATAACATG
**
8299097 TTTATTTTTATATTAATTTAATTAGAAAAAGGAAAGATAATTAATATTATAATAATAGTATG
1 --TATTTTTATATTAATTTAATTAGAAAAAGGAAAGATAATTAATATTATAATAATAACATG
* *
8299159 -CTTTTTATACTAATTTAATT
1 TATTTTTATATTAATTTAATT
8299179 TAAAAATAAA
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
59 18 0.24
62 56 0.76
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (60 bp):
TATTTTTATATTAATTTAATTAGAAAAAGGAAAGATAATTAATATTATAATAATAACATG
Found at i:8299375 original size:22 final size:20
Alignment explanation
Indices: 8299347--8299389 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 20
8299337 TAAAATGATC
*
8299347 AATAATTTATATTTAAAATAAA
1 AATAATTT-TAATT-AAATAAA
8299369 AATAATTTTAATTAAATAAA
1 AATAATTTTAATTAAATAAA
8299389 A
1 A
8299390 TTATGTGCGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 4 0.20
22 8 0.40
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
AATAATTTTAATTAAATAAA
Found at i:8299902 original size:20 final size:20
Alignment explanation
Indices: 8299879--8299942 Score: 53
Period size: 19 Copynumber: 3.2 Consensus size: 20
8299869 TAGTATTTAG
8299879 ATAAAT-TTATTAATAATTTT
1 ATAAATATT-TTAATAATTTT
* *
8299899 AT-AATCTTTTAATAAATTTA
1 ATAAATATTTTAAT-AATTTT
*
8299919 ATAAGTATTTT-ATAATTTT
1 ATAAATATTTTAATAATTTT
*
8299938 TTAAA
1 ATAAA
8299943 CTTTATTGAT
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
19 16 0.46
20 13 0.37
21 6 0.17
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (20 bp):
ATAAATATTTTAATAATTTT
Found at i:8299912 original size:19 final size:20
Alignment explanation
Indices: 8299888--8299937 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
8299878 GATAAATTTA
*
8299888 TTAATAATTTTATAA-TCTT
1 TTAATAATTTTATAAGTATT
*
8299907 TTAATAAATTTAATAAGTATT
1 TTAAT-AATTTTATAAGTATT
8299928 TT-ATAATTTT
1 TTAATAATTTT
8299938 TTAAACTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 10 0.38
20 11 0.42
21 5 0.19
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
TTAATAATTTTATAAGTATT
Found at i:8299940 original size:31 final size:30
Alignment explanation
Indices: 8299855--8299941 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 30
8299845 TTTGATAATA
* *
8299855 TAATAATTATTTTAT-AGTATTTAGATAAATT
1 TAATAA-TATTTTATAATTTTTTA-ATAAATT
* *
8299886 TATTAATAATTTTATAATCTTTTAATAAATT
1 TAATAAT-ATTTTATAATTTTTTAATAAATT
8299917 TAATAAGTATTTTATAATTTTTTAA
1 TAATAA-TATTTTATAATTTTTTAA
8299942 ACTTTATTGA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
30 1 0.02
31 40 0.85
32 6 0.13
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (30 bp):
TAATAATATTTTATAATTTTTTAATAAATT
Found at i:8300707 original size:31 final size:29
Alignment explanation
Indices: 8300663--8300748 Score: 91
Period size: 31 Copynumber: 2.8 Consensus size: 29
8300653 CAATAAAGTT
*
8300663 TTAAAAATTATAAAATACTTATTAAATTTA
1 TTAAAAATTATAAAATA-TTATTAAATCTA
*
8300693 TTAAAAGATTATAAAATTATTAATAAATCTA
1 TTAAAA-ATTATAAAA-TATTATTAAATCTA
* *
8300724 TCTAAATACTATAAAATAATTATTA
1 T-TAAAAATTATAAAAT-ATTATTA
8300749 TATTATCGAA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
30 7 0.15
31 34 0.72
32 6 0.13
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (29 bp):
TTAAAAATTATAAAATATTATTAAATCTA
Found at i:8300884 original size:20 final size:20
Alignment explanation
Indices: 8300859--8300907 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
8300849 AAAAATGGTT
*
8300859 CTTTGAAGATGTTAGAAGAG
1 CTTTGAAGATGTTAGAAGAA
*
8300879 CTTTGAAAATGTTAGAAGAA
1 CTTTGAAGATGTTAGAAGAA
8300899 CTTTGAAGA
1 CTTTGAAGA
8300908 CATAAGTCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.39, C:0.06, G:0.24, T:0.31
Consensus pattern (20 bp):
CTTTGAAGATGTTAGAAGAA
Found at i:8311040 original size:19 final size:19
Alignment explanation
Indices: 8310985--8311078 Score: 91
Period size: 19 Copynumber: 4.8 Consensus size: 19
8310975 GGCTGCTAGA
* *
8310985 AACCGGTTTAACCGGTTTTC
1 AACCGGTTTGACCGG-TTTG
*
8311005 AACCAGTTCTGACCGGTTTG
1 AACCGGTT-TGACCGGTTTG
* *
8311025 -ACCGGTTTTAACCGGTTCG
1 AACCGG-TTTGACCGGTTTG
* *
8311044 AACCGATTTGACCGGTCTG
1 AACCGGTTTGACCGGTTTG
8311063 AACCGGTTTGACCGGT
1 AACCGGTTTGACCGGT
8311079 CTGACCCGAC
Statistics
Matches: 60, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
19 38 0.63
20 16 0.27
21 6 0.10
ACGTcount: A:0.19, C:0.26, G:0.26, T:0.30
Consensus pattern (19 bp):
AACCGGTTTGACCGGTTTG
Found at i:8311047 original size:10 final size:10
Alignment explanation
Indices: 8310985--8311078 Score: 81
Period size: 10 Copynumber: 9.7 Consensus size: 10
8310975 GGCTGCTAGA
8310985 AACCGGTTT-
1 AACCGGTTTG
*
8310994 AACCGGTTTTC
1 AACCGG-TTTG
*
8311005 AACCAGTTCTG
1 AACCGGTT-TG
8311016 -ACCGGTTTG
1 AACCGGTTTG
*
8311025 -ACCGGTTTT
1 AACCGGTTTG
*
8311034 AACCGGTTCG
1 AACCGGTTTG
*
8311044 AACCGATTTG
1 AACCGGTTTG
*
8311054 -ACCGGTCTG
1 AACCGGTTTG
8311063 AACCGGTTTG
1 AACCGGTTTG
8311073 -ACCGGT
1 AACCGGT
8311079 CTGACCCGAC
Statistics
Matches: 69, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
9 29 0.42
10 34 0.49
11 6 0.09
ACGTcount: A:0.19, C:0.26, G:0.26, T:0.30
Consensus pattern (10 bp):
AACCGGTTTG
Found at i:8311048 original size:29 final size:28
Alignment explanation
Indices: 8310986--8311084 Score: 108
Period size: 29 Copynumber: 3.4 Consensus size: 28
8310976 GCTGCTAGAA
* *
8310986 ACCGGTTTAACCGGTTTTCAACCAGTTCTG
1 ACCGGTTTGACCGGTTTT-AACCGGTTC-G
8311016 ACCGGTTTGACCGGTTTTAACCGGTTCG
1 ACCGGTTTGACCGGTTTTAACCGGTTCG
* * * *
8311044 AACCGATTTGACCGGTCTGAACCGGTTTG
1 -ACCGGTTTGACCGGTTTTAACCGGTTCG
*
8311073 ACCGGTCTGACC
1 ACCGGTTTGACC
8311085 CGACCCGATC
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
28 11 0.18
29 32 0.53
30 17 0.28
ACGTcount: A:0.18, C:0.27, G:0.25, T:0.29
Consensus pattern (28 bp):
ACCGGTTTGACCGGTTTTAACCGGTTCG
Found at i:8311102 original size:17 final size:17
Alignment explanation
Indices: 8311080--8311118 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
8311070 TTGACCGGTC
*
8311080 TGACCCGACCCGATCGT
1 TGACCCGACCCGACCGT
8311097 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
8311114 TGACC
1 TGACC
8311119 GTTGACTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.18, C:0.44, G:0.23, T:0.15
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:8314564 original size:2 final size:2
Alignment explanation
Indices: 8314557--8314581 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8314547 GAACGGATGG
8314557 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
8314582 CAACAGCGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8320484 original size:13 final size:13
Alignment explanation
Indices: 8320466--8320494 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
8320456 ACTTGATACG
8320466 GTTTAAAATCTAA
1 GTTTAAAATCTAA
8320479 GTTTAAAATCTAA
1 GTTTAAAATCTAA
8320492 GTT
1 GTT
8320495 CCAACGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.41
Consensus pattern (13 bp):
GTTTAAAATCTAA
Found at i:8323639 original size:24 final size:26
Alignment explanation
Indices: 8323612--8323663 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 26
8323602 TCTTTTTATA
8323612 TTTCAT-TCCTTATAAATCT-TGATT
1 TTTCATCTCCTTATAAATCTATGATT
* *
8323636 TTTCATCTTCTTATATATCTATGATT
1 TTTCATCTCCTTATAAATCTATGATT
8323662 TT
1 TT
8323664 AGCCTAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 6 0.25
25 11 0.46
26 7 0.29
ACGTcount: A:0.23, C:0.15, G:0.04, T:0.58
Consensus pattern (26 bp):
TTTCATCTCCTTATAAATCTATGATT
Found at i:8328355 original size:59 final size:59
Alignment explanation
Indices: 8328278--8328398 Score: 156
Period size: 59 Copynumber: 2.1 Consensus size: 59
8328268 GAGTGACTAC
* * * *
8328278 TTTATAACTTTTAATAGTCGG-GAGAC-TCAACAAAATAACACATTATAGTTAGAGGATCA
1 TTTATAACTTTCAATAGTCGGAG-GACGT-AACAAAATAACACACTATAATTAAAGGATCA
* *
8328337 TTTATAACTTTCAATAGTCGGAGGACGTTACAAAATAACACCCTATAATTAAAGGATCA
1 TTTATAACTTTCAATAGTCGGAGGACGTAACAAAATAACACACTATAATTAAAGGATCA
8328396 TTT
1 TTT
8328399 GTGTACTTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
59 52 0.96
60 2 0.04
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (59 bp):
TTTATAACTTTCAATAGTCGGAGGACGTAACAAAATAACACACTATAATTAAAGGATCA
Found at i:8328999 original size:26 final size:26
Alignment explanation
Indices: 8328970--8329020 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
8328960 ATCTTCTTTT
8328970 TCTTCACTTTTCTTCTTATTTCTCTC
1 TCTTCACTTTTCTTCTTATTTCTCTC
*
8328996 TCTTCACTTTTCTTCTTTTTTCTCT
1 TCTTCACTTTTCTTCTTATTTCTCT
8329021 TATCACATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.06, C:0.29, G:0.00, T:0.65
Consensus pattern (26 bp):
TCTTCACTTTTCTTCTTATTTCTCTC
Found at i:8337133 original size:3 final size:3
Alignment explanation
Indices: 8337118--8337153 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
8337108 TAATAATAAA
8337118 TAT T-T TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
8337154 ATTAATAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.13
3 27 0.87
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:8339180 original size:37 final size:37
Alignment explanation
Indices: 8339132--8339314 Score: 240
Period size: 36 Copynumber: 5.2 Consensus size: 37
8339122 AATGGTCTTA
*
8339132 GAAAAT-TATATAATATATAGTTTTGAAAACATTTTT
1 GAAAATATATATAATATATAGTTTTTAAAACATTTTT
* *
8339168 GAATATATATATATTATATAGTTTTTAAAACA-TTTT
1 GAAAATATATATAATATATAGTTTTTAAAACATTTTT
* * *
8339204 AAAAATAAATATAATATATAGTTTTTAAACCATTTTT
1 GAAAATATATATAATATATAGTTTTTAAAACATTTTT
8339241 -AAAA-ATATAT-ATAT-TAG-TTTTAAAACA-TTTT
1 GAAAATATATATAATATATAGTTTTTAAAACATTTTT
*
8339272 GAAAATAAATATAATATATAGTTTTTAAAACATTTTT
1 GAAAATATATATAATATATAGTTTTTAAAACATTTTT
8339309 -AAAATA
1 GAAAATA
8339315 GCCCTCATCG
Statistics
Matches: 128, Mismatches: 11, Indels: 16
0.83 0.07 0.10
Matches are distributed among these distances:
31 4 0.03
32 13 0.10
33 8 0.06
34 8 0.06
35 8 0.06
36 56 0.44
37 31 0.24
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (37 bp):
GAAAATATATATAATATATAGTTTTTAAAACATTTTT
Found at i:8339269 original size:68 final size:71
Alignment explanation
Indices: 8339139--8339312 Score: 273
Period size: 68 Copynumber: 2.5 Consensus size: 71
8339129 TTAGAAAATT
* *
8339139 ATATAATATATAGTTTTGAAAACATTTTTGAATATATATATATTATATAGTTTTTAAAACATTTT
1 ATATAATATATAGTTTTTAAAACATTTTT-AA-AAATATATATTATATAGTTTTTAAAACATTTT
8339204 AAAAATAA
64 AAAAATAA
* *
8339212 ATATAATATATAGTTTTTAAACCATTTTTAAAAATATATA-TAT-TAG-TTTTAAAACATTTTGA
1 ATATAATATATAGTTTTTAAAACATTTTTAAAAATATATATTATATAGTTTTTAAAACATTTTAA
8339274 AAATAA
66 AAATAA
8339280 ATATAATATATAGTTTTTAAAACATTTTTAAAA
1 ATATAATATATAGTTTTTAAAACATTTTTAAAA
8339313 TAGCCCTCAT
Statistics
Matches: 96, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
68 53 0.55
69 3 0.03
70 3 0.03
71 8 0.08
72 2 0.02
73 27 0.28
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (71 bp):
ATATAATATATAGTTTTTAAAACATTTTTAAAAATATATATTATATAGTTTTTAAAACATTTTAA
AAATAA
Found at i:8340109 original size:25 final size:24
Alignment explanation
Indices: 8340052--8340110 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
8340042 AATTCTTATT
* * *
8340052 TTATTTTATTTATTTTTATTATTA
1 TTATTTTTTTTATTATTATTAGTA
* *
8340076 TCATGTTTTTTAATTATTATTAGTA
1 TTAT-TTTTTTTATTATTATTAGTA
8340101 TTATTTTTTT
1 TTATTTTTTT
8340111 ACCTCATATT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
24 9 0.32
25 19 0.68
ACGTcount: A:0.24, C:0.02, G:0.03, T:0.71
Consensus pattern (24 bp):
TTATTTTTTTTATTATTATTAGTA
Found at i:8340163 original size:19 final size:18
Alignment explanation
Indices: 8340141--8340244 Score: 60
Period size: 19 Copynumber: 5.9 Consensus size: 18
8340131 TTACTTTTAA
8340141 AATAATTTTTTATCTATTT
1 AATAATTTTTTAT-TATTT
*
8340160 AATACTTTTTTATTATTT
1 AATAATTTTTTATTATTT
*
8340178 -AT--TTATTTATTTATTT
1 AATAATTTTTTA-TTATTT
*
8340194 -ATTA-TTTTTATT-TTT
1 AATAATTTTTTATTATTT
* ** *
8340209 AATTTATTTCTTTGGTATCT
1 AA-TAATTT-TTTATTATTT
8340229 -ATAATTTTTTATTATT
1 AATAATTTTTTATTATT
8340245 ATTTTATTTT
Statistics
Matches: 67, Mismatches: 10, Indels: 18
0.71 0.11 0.19
Matches are distributed among these distances:
15 9 0.13
16 11 0.16
17 16 0.24
18 12 0.18
19 17 0.25
20 2 0.03
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (18 bp):
AATAATTTTTTATTATTT
Found at i:8340181 original size:4 final size:4
Alignment explanation
Indices: 8340168--8340217 Score: 59
Period size: 4 Copynumber: 12.8 Consensus size: 4
8340158 TTAATACTTT
* *
8340168 TTTA -TTA TTTA TTTA TTTA TTTA TTTA TTATT TTTA TTT- TTAA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TTTA TTTA TTTA TTTA
8340215 TTT
1 TTT
8340218 CTTTGGTATC
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
3 5 0.13
4 31 0.79
5 3 0.08
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:8344158 original size:110 final size:110
Alignment explanation
Indices: 8343969--8344930 Score: 1395
Period size: 110 Copynumber: 8.8 Consensus size: 110
8343959 ATGGTGGTTA
* *
8343969 CTCAACTTCACAGCGAAGGGGC-A---ACTGTCAACAAACAACTTTTCAGTTTCAGTCAAAGTCA
1 CTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCA
*
8344030 ATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAATACAAG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAG
* * * * *
8344075 CTCAACTTCATAGTGAAGAGACGACTGACTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTCA
1 CTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCA
** *
8344140 ATTTCAACTTCA-ATGCGAAATACATTGGACTCGAGACAACACAAG
66 ATTTCAACTTCACA-GCGAAGGATATTGGACTCGAGACAACACAAG
* * ** *
8344185 CTCAACTTCAGAGTGAAGGGGCGACTGACTGTCAACAAGTAACTTTTCAGTTTCATTTAGAGTCA
1 CTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCA
* * * *
8344250 ATTTCAACTTCACAGTGAAGAATATTGGTCTCGAGACAATACAAG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAG
* *
8344295 CTCAACTTCACAGCGAAAGGGCGACTCACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCA
1 CTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCA
8344360 ATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAG
*
8344405 CTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACTAACAACTTTTCAGTTTCATTCAGAGTCA
1 CTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCA
* * *
8344470 ATTTAAACTTCACAACCAAGGATATTGGACTCGAGACAACACAAG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAG
* * * * *
8344515 CTCAACTTCACATCGAATGGGCGACTGACTGTCAACAAACAACTTTTAAGTTTCATTCAAAGTCG
1 CTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCA
* *
8344580 ATTTCAACTTCACAGAGAATGATATTGGACTCGAGACAACACAAG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAG
*
8344625 CTCAACTTCACAGCGGAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCA
1 CTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCA
* * **
8344690 ATTTTAACTTCACAGCGAATGATATTAAACTCGAGACAACACAAG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAG
* * *
8344735 CTCAACTTCACAGCGAAGGGGCGACTGACTATCAATAAACAACTTTTCAGTTTCATTCAAAGTCA
1 CTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCA
*
8344800 ATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAG
* * * ** *
8344845 CTCAACGTCACAGTGAAAGGGC-AGCTGGTTGTCAACAAACAACTTTCCAGTTTCA--C--AGTC
1 CTCAACTTCACAGCGAAGGGGCGA-CTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
*
8344905 AATTTCAACTTCACGGCGAAGGATAT
65 AATTTCAACTTCACAGCGAAGGATAT
8344931 CCAATTCGAG
Statistics
Matches: 770, Mismatches: 79, Indels: 14
0.89 0.09 0.02
Matches are distributed among these distances:
106 46 0.06
107 1 0.00
108 1 0.00
109 2 0.00
110 719 0.93
111 1 0.00
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (110 bp):
CTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCA
ATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAG
Found at i:8345240 original size:34 final size:32
Alignment explanation
Indices: 8345178--8345247 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 32
8345168 ACCTTACAAC
* * *
8345178 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGATAAACTAGAACATT
*
8345210 TCCCTAGCTTTTACACGGGATAAGCTAGAACATT
1 TCCCTAG-TTTTAC-CGGGATAAACTAGAACATT
8345244 TCCC
1 TCCC
8345248 CTTTACAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 7 0.22
33 5 0.16
34 20 0.62
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGATAAACTAGAACATT
Found at i:8345612 original size:20 final size:20
Alignment explanation
Indices: 8345583--8345656 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
8345573 GCAGCCTTCG
* *
8345583 TGCATGGATGCATAGCAGGA
1 TGCATCGATGCACAGCAGGA
**
8345603 TGCATCGATGCACAGCCTTGA
1 TGCATCGATGCACAG-CAGGA
* *
8345624 TACATCGATGCACAGAAGGA
1 TGCATCGATGCACAGCAGGA
8345644 TGCATCGATGCAC
1 TGCATCGATGCAC
8345657 TAATTGCATT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 27 0.61
21 17 0.39
ACGTcount: A:0.30, C:0.23, G:0.27, T:0.20
Consensus pattern (20 bp):
TGCATCGATGCACAGCAGGA
Found at i:8345749 original size:21 final size:21
Alignment explanation
Indices: 8345677--8345775 Score: 112
Period size: 21 Copynumber: 4.7 Consensus size: 21
8345667 TGGTGTTTGA
8345677 GTGCATGGATGCACTACA-TG
1 GTGCATGGATGCACTACAGTG
* ** *
8345697 GTGCATCGATGCACTAGTGCAG
1 GTGCATGGATGCACTACAG-TG
*
8345719 GTGCATGGATGCACTGCAG-G
1 GTGCATGGATGCACTACAGTG
*
8345739 GATGTATGGATGCACTACAGTG
1 G-TGCATGGATGCACTACAGTG
8345761 GTGCATGGATGCACT
1 GTGCATGGATGCACT
8345776 TTGACACCCT
Statistics
Matches: 64, Mismatches: 11, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
20 17 0.27
21 29 0.45
22 18 0.28
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.24
Consensus pattern (21 bp):
GTGCATGGATGCACTACAGTG
Found at i:8346381 original size:246 final size:249
Alignment explanation
Indices: 8345876--8346663 Score: 1082
Period size: 246 Copynumber: 3.2 Consensus size: 249
8345866 ACAACAAAGA
* * * * * * **
8345876 CCTTCGAGTTTGACTACACTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGG
1 CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATAATTTACAGCATAGCTTAAGTCAAGAAAA
* * *
8345941 GCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAACTTCGAGGGCCCATCATTTACGGCATA
66 GCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATA
8346006 ACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAG
131 ACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAG
*
8346071 GCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGT
196 GCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCAAAAT
* *
8346125 CCTTCGAGTTCTACTACGCTCAACTCCAAGGC-CA-AATTTACAGCATAGCTTAAGTCAAGAAAA
1 CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATAATTTACAGCATAGCTTAAGTCAAGAAAA
8346188 GCTAT-TGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATA
66 GCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATA
* * *
8346252 ACTCAAGGCTAGAAGGGTTATCTGTGACCAAAATACCTTCGAGTTCGACTATGCTCAGCTTCAAG
131 ACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAG
* * * *
8346317 GCACATCATTTGCAGCATAGCTTAAGTCGATAAGGATTATATGCCAACCAAATT
196 GCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCAAAAT
* *
8346371 CCTTCGAGTTCGACTACGCTCAGCTCCAAGACACATAATTTACAGCATAACTTAAGTCAAGAAAA
1 CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATAATTTACAGCATAGCTTAAGTCAAGAAAA
* * * * *
8346436 GCTATCTGCCAAATACCCTCAAGTTCGATTACACTCAGCTTCGAGGGTACATCATTTGCATCATA
66 GCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATA
* * * ** * * *
8346501 ACTTAAGTCGAGAAGGGTTATCTGCCAACC-AAAGACCTTCGAATTTGACTACGCTCAACTCCAA
131 ACTCAAGGCTAGAAGGGTTATCTG-TGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA
* * * * * * * * * * *
8346565 TGCATATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTC-ACAAAAAA
195 GGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCAAAAT
* * *
8346619 CCTTCGAGTTCGACTACGCTCAGCTCCAAGACACATCACTTACAG
1 CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATAATTTACAG
8346664 TATAACTCAA
Statistics
Matches: 478, Mismatches: 57, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
246 197 0.41
247 30 0.06
248 83 0.17
249 165 0.35
250 3 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (249 bp):
CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATAATTTACAGCATAGCTTAAGTCAAGAAAA
GCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATA
ACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAG
GCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCAAAAT
Found at i:8346529 original size:165 final size:165
Alignment explanation
Indices: 8345870--8346809 Score: 853
Period size: 165 Copynumber: 5.7 Consensus size: 165
8345860 TCAATTACAA
* * * * *
8345870 CAAAGACCTTCGAGTTTGACTACACTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCG
1 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTCG
* * * * * * * *
8345935 AGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAACTTCGAGGGCCCATCATTTAC
66 AGAAGGGCTATCTGCCAAAAACCTTCGAGTTCGACTACGCTCAGCTTCCAAGGCACATCATTTAC
* * * * **
8346000 GGCATAACTCAAGGCTAGAAGGGTTATCTG-TGAC
131 AGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAC
* *
8346034 CAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTC
1 C-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTC
* * * *
8346099 GAGAAGGGTTATCTGCCAACCAAAGTCCTTCGAGTTCTACTACGCTCAAC-TCCAAGGC-CA-AA
65 GAGAAGGGCTATCTGCCAA--AAA--CCTTCGAGTTCGACTACGCTCAGCTTCCAAGGCACATCA
* * ** *
8346161 TTTACAGCATAGCTTAAGTCAAGAAAAGCTAT-TG----C
126 TTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAC
* * * * * * *
8346196 CAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGC
1 CAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTACAGCATAACTTAAGTC
* * *
8346261 TAGAAGGGTTATCTGTGACCAAAATACCTTCGAGTTCGACTATGCTCAGCTT-CAAGGCACATCA
65 GAGAAGGGCTATC--TG-CCAAAA-ACCTTCGAGTTCGACTACGCTCAGCTTCCAAGGCACATCA
* * * * *
8346325 TTTGCAGCATAGCTTAAGTCGATAAGGATTATATGCCAAC
126 TTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAC
** * * *
8346365 CAAATTCCTTCGAGTTCGACTACGCTCAGCTCCAAGACACATAATTTACAGCATAACTTAAGTCA
1 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTCG
** * * * * * * * * *
8346430 AGAAAAGCTATCTGCCAAATACCCTCAAGTTCGATTACACTCAGCTTCGAGGGTACATCATTTGC
66 AGAAGGGCTATCTGCCAAAAACCTTCGAGTTCGACTACGCTCAGCTTCCAAGGCACATCATTTAC
*
8346495 ATCATAACTTAAGTCGAGAAGGGTTATCTGCCAAC
131 AGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAC
* * * * * * * * *
8346530 CAAAGACCTTCGAATTTGACTACGCTCAACTCCAATGCATATCATTTACAACATAACTCAAGGCT
1 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTCG
* * *
8346595 AGAAGGGTTATCTGTCACAAAAAACCTTCGAGTTCGACTACGCTCAGC-TCCAAGACACATCACT
66 AGAAGGGCTATCTG-C-C-AAAAACCTTCGAGTTCGACTACGCTCAGCTTCCAAGGCACATCATT
* * * * *
8346659 TACAGTATAACTCAAGGCTAGAAGGGTTATCTGTC-AC
128 TACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAC
* * * * *
8346696 CAAATACCTTCGAGTTCGGCTACGCTTAGCTCCAAGGCACATCATTTGCAGCATAGC-TAAGTCG
1 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTCG
* * *
8346760 AGAAGGGCTATCTGCCAACCGAAGACCTTCGAGTTTGATTACACTCAGCT
66 AGAAGGGCTATCTGCCAA---AA-ACCTTCGAGTTCGACTACGCTCAGCT
8346810 CAGAGGCAAA
Statistics
Matches: 628, Mismatches: 121, Indels: 51
0.79 0.15 0.06
Matches are distributed among these distances:
161 26 0.04
162 71 0.11
163 6 0.01
164 53 0.08
165 217 0.35
166 98 0.16
167 44 0.07
168 67 0.11
169 46 0.07
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.25
Consensus pattern (165 bp):
CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTCG
AGAAGGGCTATCTGCCAAAAACCTTCGAGTTCGACTACGCTCAGCTTCCAAGGCACATCATTTAC
AGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAC
Found at i:8347575 original size:37 final size:37
Alignment explanation
Indices: 8347479--8347709 Score: 287
Period size: 37 Copynumber: 6.3 Consensus size: 37
8347469 ATGGTTTTAG
* * * *
8347479 AAAATTATATAATATATAGTTTTGAAAACATGTTTGA
1 AAAAATATATATTATATAGTTTTTAAAACATTTTTGA
*
8347516 AAACATTTATATATTATATAGTTTTTAAAACATTTTTGA
1 AAA-A-ATATATATTATATAGTTTTTAAAACATTTTTGA
*
8347555 AAAAATATATATTATCTAGTTTTTAAAACA-TTTT-A
1 AAAAATATATATTATATAGTTTTTAAAACATTTTTGA
* *
8347590 AAAATAAATATAATATATAGTTTTTAAAACATTTTTGA
1 AAAA-ATATATATTATATAGTTTTTAAAACATTTTTGA
*
8347628 AAATATATATATTATATAGTTTTTAAAACA-TTTTGA
1 AAAAATATATATTATATAGTTTTTAAAACATTTTTGA
8347664 AAATAA-ATATA--ATATAGTTTTTAAAACATTTTT-A
1 AAA-AATATATATTATATAGTTTTTAAAACATTTTTGA
*
8347698 AAACATATATAT
1 AAAAATATATAT
8347710 ATTTTGAAAT
Statistics
Matches: 172, Mismatches: 13, Indels: 20
0.84 0.06 0.10
Matches are distributed among these distances:
33 1 0.01
34 26 0.15
35 9 0.05
36 41 0.24
37 56 0.33
38 6 0.03
39 33 0.19
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (37 bp):
AAAAATATATATTATATAGTTTTTAAAACATTTTTGA
Found at i:8347617 original size:73 final size:73
Alignment explanation
Indices: 8347479--8347709 Score: 324
Period size: 73 Copynumber: 3.2 Consensus size: 73
8347469 ATGGTTTTAG
* * * ** *
8347479 AAAATTATATAATATATAGTTTTGAAAACATGTTTGAAAACATTTATATATTATATAGTTTTTAA
1 AAAAATATATATTATATAGTTTTTAAAACAT-TTT-AAAA-ATAAATATAATATATAGTTTTTAA
8347544 AACATTTTTGA
63 AACATTTTTGA
*
8347555 AAAAATATATATTATCTAGTTTTTAAAACATTTTAAAAATAAATATAATATATAGTTTTTAAAAC
1 AAAAATATATATTATATAGTTTTTAAAACATTTTAAAAATAAATATAATATATAGTTTTTAAAAC
8347620 ATTTTTGA
66 ATTTTTGA
* *
8347628 AAATATATATATTATATAGTTTTTAAAACATTTTGAAAATAAATAT-A-ATATAGTTTTTAAAAC
1 AAAAATATATATTATATAGTTTTTAAAACATTTTAAAAATAAATATAATATATAGTTTTTAAAAC
8347691 ATTTTT-A
66 ATTTTTGA
*
8347698 AAACATATATAT
1 AAAAATATATAT
8347710 ATTTTGAAAT
Statistics
Matches: 144, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
70 12 0.08
71 22 0.15
72 1 0.01
73 75 0.52
74 4 0.03
75 3 0.02
76 27 0.19
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (73 bp):
AAAAATATATATTATATAGTTTTTAAAACATTTTAAAAATAAATATAATATATAGTTTTTAAAAC
ATTTTTGA
Found at i:8347674 original size:29 final size:30
Alignment explanation
Indices: 8347531--8347824 Score: 161
Period size: 37 Copynumber: 9.0 Consensus size: 30
8347521 TTTATATATT
*
8347531 ATATAGTTTTTAAAACATTTTTGAAAAAATATA
1 ATATA-TTTTTAAAACA-TTTTG-AAAACTATA
* *
8347564 TATTATCTAGTTTTTAAAACATTTTAAAAATAAATATAA
1 -A-TA--TA-TTTTTAAAACATTTT--GAA-AACTAT-A
*
8347603 TATATAGTTTTTAAAACATTTTTGAAAATATATATA
1 -ATATA-TTTTTAAAACA-TTTTG-AAA-A-CTATA
*
8347639 TTATATAGTTTTTAAAACATTTTGAAAATAAATATA
1 --ATATA-TTTTTAAAACATTTTG--AA-AACTATA
*
8347675 ATATAGTTTTTAAAACATTTTTAAAAC-ATA
1 ATATA-TTTTTAAAACATTTTGAAAACTATA
* *
8347705 TATATATTTTGAAATCATTTT-AAAACTTATA
1 -ATATATTTTTAAAACATTTTGAAAAC-TATA
8347736 ATATA-TTTTAAAACATTTTGAAAACTAT-
1 ATATATTTTTAAAACATTTTGAAAACTATA
*
8347764 ATA-ATTTTGAAAAACATTTT-AAAACTATTA
1 ATATATTTT-TAAAACATTTTGAAAACTA-TA
* *
8347794 TATATAATTTTAAAATACTTTTGAAAA-TATA
1 -ATATATTTTTAAAACA-TTTTGAAAACTATA
8347825 TATTATATAG
Statistics
Matches: 222, Mismatches: 12, Indels: 55
0.77 0.04 0.19
Matches are distributed among these distances:
27 1 0.00
28 13 0.06
29 31 0.14
30 26 0.12
31 20 0.09
32 12 0.05
33 4 0.02
34 22 0.10
35 3 0.01
36 32 0.14
37 46 0.21
38 9 0.04
39 3 0.01
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (30 bp):
ATATATTTTTAAAACATTTTGAAAACTATA
Found at i:8347740 original size:30 final size:28
Alignment explanation
Indices: 8347675--8347798 Score: 144
Period size: 29 Copynumber: 4.2 Consensus size: 28
8347665 AATAAATATA
*
8347675 ATATAGTTTTTAAAACATTTTTAAAACATAT
1 ATATA-TTTTGAAAACA-TTTTAAAAC-TAT
*
8347706 ATATATTTTGAAATCATTTTAAAACTTAT
1 ATATATTTTGAAAACATTTTAAAAC-TAT
8347735 AATATATTTT-AAAACATTTTGAAAACTAT
1 -ATATATTTTGAAAACATTTT-AAAACTAT
8347764 ATA-ATTTTGAAAAACATTTTAAAACTATT
1 ATATATTTTG-AAAACATTTTAAAACTA-T
8347793 ATATAT
1 ATATAT
8347799 AATTTTAAAA
Statistics
Matches: 83, Mismatches: 4, Indels: 13
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.06
28 10 0.12
29 38 0.46
30 25 0.30
31 5 0.06
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.44
Consensus pattern (28 bp):
ATATATTTTGAAAACATTTTAAAACTAT
Found at i:8347808 original size:60 final size:58
Alignment explanation
Indices: 8347640--8347827 Score: 195
Period size: 59 Copynumber: 3.1 Consensus size: 58
8347630 ATATATATAT
* *
8347640 TATATAGTTTTTAAAACATTTTGAAAA-TAAATATAATATAGTTTTTAAAACATTTTTAAAACAT
1 TATATA-TTTTGAAAACATTTT-AAAACT---TATAATATA--TTTTAAAACATTTTGAAAAC-T
8347704 A
58 A
*
8347705 TATATATTTTGAAATCATTTTAAAACTTATAATATATTTTAAAACATTTTGAAAACTA
1 TATATATTTTGAAAACATTTTAAAACTTATAATATATTTTAAAACATTTTGAAAACTA
*
8347763 TATA-ATTTTGAAAAACATTTTAAAAC-TATTATATATAATTTTAAAATACTTTTGAAAA-TA
1 TATATATTTTG-AAAACATTTTAAAACTTA-TA-ATAT-ATTTTAAAACA-TTTTGAAAACTA
8347823 TATAT
1 TATAT
8347828 TATATAGTTT
Statistics
Matches: 111, Mismatches: 5, Indels: 18
0.83 0.04 0.13
Matches are distributed among these distances:
57 8 0.07
58 22 0.20
59 23 0.21
60 16 0.14
61 18 0.16
63 4 0.04
64 14 0.13
65 6 0.05
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (58 bp):
TATATATTTTGAAAACATTTTAAAACTTATAATATATTTTAAAACATTTTGAAAACTA
Found at i:8347827 original size:29 final size:29
Alignment explanation
Indices: 8347640--8347827 Score: 134
Period size: 29 Copynumber: 6.2 Consensus size: 29
8347630 ATATATATAT
* *
8347640 TATATAGTTTTTAAAACATTTTGAAAATAAA
1 TATATAATTTTAAAAACATTTTGAAAAT--A
* * *
8347671 TATAATATAGTTTTTAAAACATTTTTAAAACA
1 TAT-ATA-A-TTTTAAAAACATTTTGAAAATA
* *
8347703 TATATATATTTTGAAATCATTTT-AAAACT-
1 TATATA-ATTTTAAAAACATTTTGAAAA-TA
*
8347732 TATAATATATTTT-AAAACATTTTGAAAA-C
1 TAT-ATA-ATTTTAAAAACATTTTGAAAATA
*
8347761 TATATAATTTTGAAAAACATTTTAAAACTATTA
1 TATATAATTTT-AAAAACATTTTGAAA--A-TA
8347794 TATATAATTTTAAAATAC-TTTTGAAAATA
1 TATATAATTTTAAAA-ACATTTTGAAAATA
8347823 TATAT
1 TATAT
8347828 TATATAGTTT
Statistics
Matches: 133, Mismatches: 10, Indels: 30
0.77 0.06 0.17
Matches are distributed among these distances:
27 5 0.04
28 3 0.02
29 39 0.29
30 27 0.20
31 9 0.07
32 18 0.14
33 13 0.10
34 19 0.14
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (29 bp):
TATATAATTTTAAAAACATTTTGAAAATA
Found at i:8347905 original size:14 final size:14
Alignment explanation
Indices: 8347886--8347921 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
8347876 ATCATTGTTA
8347886 TTTATTTTTCTTCT
1 TTTATTTTTCTTCT
8347900 TTTATTTTTCTTCT
1 TTTATTTTTCTTCT
*
8347914 ATTATTTT
1 TTTATTTT
8347922 ATTGTCCAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTATTTTTCTTCT
Found at i:8348989 original size:30 final size:30
Alignment explanation
Indices: 8348955--8349016 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
8348945 GTTTTCATTC
*
8348955 ATACTT-TTAAAATATTTTTTTATCTATTTA
1 ATACTTCTT-AAATATTTATTTATCTATTTA
* * *
8348985 ATACTTCTTTATTATTTATTTATTTATTTA
1 ATACTTCTTAAATATTTATTTATCTATTTA
8349015 AT
1 AT
8349017 TTTAATTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 25 0.93
31 2 0.07
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (30 bp):
ATACTTCTTAAATATTTATTTATCTATTTA
Found at i:8349749 original size:18 final size:19
Alignment explanation
Indices: 8349715--8349755 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
8349705 TTTTATAAAA
*
8349715 TATTGATAAATGTAATAAT
1 TATTGATAAAAGTAATAAT
8349734 TATTGA-AAAAGTAATAAT
1 TATTGATAAAAGTAATAAT
8349752 TATT
1 TATT
8349756 TAAACCTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (19 bp):
TATTGATAAAAGTAATAAT
Found at i:8354242 original size:28 final size:30
Alignment explanation
Indices: 8354183--8354252 Score: 90
Period size: 28 Copynumber: 2.4 Consensus size: 30
8354173 CTTTTTCCAT
* *
8354183 ATCATTTAATTATTAGAAAATTGTAAATAA
1 ATCATTTAATTATTAGAAAATTATAAACAA
*
8354213 ATCATTTAATT-TTTG-AAATTATAAACAA
1 ATCATTTAATTATTAGAAAATTATAAACAA
*
8354241 ATCATTCAATTA
1 ATCATTTAATTA
8354253 ATTATCAGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 21 0.60
29 3 0.09
30 11 0.31
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.41
Consensus pattern (30 bp):
ATCATTTAATTATTAGAAAATTATAAACAA
Found at i:8375404 original size:97 final size:97
Alignment explanation
Indices: 8375291--8375472 Score: 364
Period size: 97 Copynumber: 1.9 Consensus size: 97
8375281 TTTTACACTG
8375291 ATCAAAACTTATTGCGCAATTATTTATTTATTTTTCTCTTTGTTCTGCTTCATTCTTCTTTTATC
1 ATCAAAACTTATTGCGCAATTATTTATTTATTTTTCTCTTTGTTCTGCTTCATTCTTCTTTTATC
8375356 AATCTCTTTTTTTCCTTTTGCTGTAAAGAATT
66 AATCTCTTTTTTTCCTTTTGCTGTAAAGAATT
8375388 ATCAAAACTTATTGCGCAATTATTTATTTATTTTTCTCTTTGTTCTGCTTCATTCTTCTTTTATC
1 ATCAAAACTTATTGCGCAATTATTTATTTATTTTTCTCTTTGTTCTGCTTCATTCTTCTTTTATC
8375453 AATCTCTTTTTTTCCTTTTG
66 AATCTCTTTTTTTCCTTTTG
8375473 TCCTGCAGAA
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 85 1.00
ACGTcount: A:0.19, C:0.18, G:0.07, T:0.56
Consensus pattern (97 bp):
ATCAAAACTTATTGCGCAATTATTTATTTATTTTTCTCTTTGTTCTGCTTCATTCTTCTTTTATC
AATCTCTTTTTTTCCTTTTGCTGTAAAGAATT
Found at i:8380382 original size:18 final size:18
Alignment explanation
Indices: 8380355--8380395 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
8380345 TATAGTAGCA
*
8380355 TATACGTATACATATACG
1 TATACATATACATATACG
*
8380373 TATACATATACATGTACG
1 TATACATATACATATACG
8380391 TATAC
1 TATAC
8380396 GTACACGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (18 bp):
TATACATATACATATACG
Found at i:8380391 original size:30 final size:30
Alignment explanation
Indices: 8380357--8380415 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
8380347 TAGTAGCATA
* * *
8380357 TACGTATACATATACGTATACATATACATG
1 TACGTATACATACACGTACACATACACATG
*
8380387 TACGTATACGTACACGTACACATACACAT
1 TACGTATACATACACGTACACATACACAT
8380416 AATTCTGTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (30 bp):
TACGTATACATACACGTACACATACACATG
Found at i:8380396 original size:6 final size:6
Alignment explanation
Indices: 8380355--8380404 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
8380345 TATAGTAGCA
* * * * *
8380355 TATACG TATACA TATACG TATACA TATACA TGTACG TATACG TACACG
1 TATACG TATACG TATACG TATACG TATACG TATACG TATACG TATACG
8380403 TA
1 TA
8380405 CACATACACA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (6 bp):
TATACG
Found at i:8380404 original size:12 final size:12
Alignment explanation
Indices: 8380353--8380398 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
8380343 AGTATAGTAG
8380353 CATATACGTATA
1 CATATACGTATA
8380365 CATATACGTATA
1 CATATACGTATA
* *
8380377 CATATACATGTA
1 CATATACGTATA
*
8380389 CGTATACGTA
1 CATATACGTA
8380399 CACGTACACA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (12 bp):
CATATACGTATA
Found at i:8380483 original size:61 final size:55
Alignment explanation
Indices: 8380416--8380562 Score: 217
Period size: 53 Copynumber: 2.6 Consensus size: 55
8380406 ACATACACAT
8380416 AATTCTGTTGGGCTCACATTCTATATGCGTCAGATGTATATGTATATATGTATATACATAC
1 AATTCTGTTGGGCTCACATTCTATATGCGTCAGA-G---ATG--TATATGTATATACATAC
8380477 AATTCTGTTGGGCTCACATTCTATATGCGTC--AGATGTATATGTATATACATAC
1 AATTCTGTTGGGCTCACATTCTATATGCGTCAGAGATGTATATGTATATACATAC
*
8380530 AATTCTGTTGGGCTCACATTCTATATGCATCAG
1 AATTCTGTTGGGCTCACATTCTATATGCGTCAG
8380563 TCATCAGAGC
Statistics
Matches: 83, Mismatches: 1, Indels: 10
0.88 0.01 0.11
Matches are distributed among these distances:
53 47 0.57
55 3 0.04
58 1 0.01
59 1 0.01
61 31 0.37
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (55 bp):
AATTCTGTTGGGCTCACATTCTATATGCGTCAGAGATGTATATGTATATACATAC
Found at i:8388519 original size:7 final size:7
Alignment explanation
Indices: 8388507--8388543 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
8388497 ACCCATTTCC
8388507 TTCCCCT
1 TTCCCCT
8388514 TTCCCC-
1 TTCCCCT
8388520 TTCCCCT
1 TTCCCCT
8388527 TTCCCC-
1 TTCCCCT
*
8388533 TCCCCCT
1 TTCCCCT
8388540 TTCC
1 TTCC
8388544 TCAAGAACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
6 11 0.42
7 15 0.58
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (7 bp):
TTCCCCT
Found at i:8388523 original size:13 final size:13
Alignment explanation
Indices: 8388505--8388543 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
8388495 CAACCCATTT
8388505 CCTTCCCCTTTCC
1 CCTTCCCCTTTCC
8388518 CCTTCCCCTTTCC
1 CCTTCCCCTTTCC
*
8388531 CCTCCCCCTTTCC
1 CCTTCCCCTTTCC
8388544 TCAAGAACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (13 bp):
CCTTCCCCTTTCC
Found at i:8392576 original size:14 final size:14
Alignment explanation
Indices: 8392557--8392592 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
8392547 TCTCGCACCA
8392557 CCATTTCCCTTTTT
1 CCATTTCCCTTTTT
8392571 CCATTTCCCTTTTT
1 CCATTTCCCTTTTT
8392585 CCATTTCC
1 CCATTTCC
8392593 TATGCTCGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.08, C:0.39, G:0.00, T:0.53
Consensus pattern (14 bp):
CCATTTCCCTTTTT
Found at i:8410729 original size:21 final size:21
Alignment explanation
Indices: 8410700--8410740 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8410690 AAGGGAGAAG
*
8410700 AAAATGATAGAAAGTAAAAGT
1 AAAAAGATAGAAAGTAAAAGT
*
8410721 AAAAAGATAGAAAGTGAAAG
1 AAAAAGATAGAAAGTAAAAG
8410741 GTGAAAACGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.63, C:0.00, G:0.22, T:0.15
Consensus pattern (21 bp):
AAAAAGATAGAAAGTAAAAGT
Found at i:8427191 original size:4 final size:4
Alignment explanation
Indices: 8427182--8427212 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
8427172 TCCAACTATG
8427182 TATT TATT TATT TATT TATT TATT TATT TAT
1 TATT TATT TATT TATT TATT TATT TATT TAT
8427213 ACATGCATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:8434073 original size:20 final size:20
Alignment explanation
Indices: 8434048--8434085 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
8434038 TGCATCATTT
8434048 CACTAAACCAATTAATTTTG
1 CACTAAACCAATTAATTTTG
8434068 CACTAAACCAATTAATTT
1 CACTAAACCAATTAATTT
8434086 AATGAGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.21, G:0.03, T:0.34
Consensus pattern (20 bp):
CACTAAACCAATTAATTTTG
Found at i:8434214 original size:12 final size:13
Alignment explanation
Indices: 8434184--8434216 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
8434174 ATTTTTAGTG
*
8434184 TATTTTAAATAAT
1 TATTTTAAATAAA
8434197 TATTTTAAA-AAA
1 TATTTTAAATAAA
8434209 TATTTTAA
1 TATTTTAA
8434217 TATTTTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TATTTTAAATAAA
Found at i:8436030 original size:29 final size:29
Alignment explanation
Indices: 8435988--8436044 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
8435978 GAAAGATAAT
**
8435988 TTTCTAAAACACCAAAAGGGAGTGCCCAC
1 TTTCTAAAACACCAAAAGAAAGTGCCCAC
*
8436017 TTTCTAAAGCACCAAAAGAAAGTGCCCA
1 TTTCTAAAACACCAAAAGAAAGTGCCCA
8436045 AAGTAGTAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.40, C:0.26, G:0.16, T:0.18
Consensus pattern (29 bp):
TTTCTAAAACACCAAAAGAAAGTGCCCAC
Found at i:8443458 original size:2 final size:2
Alignment explanation
Indices: 8443451--8443490 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
8443441 AGCCTATGTA
8443451 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8443491 GAAAAACTCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8449228 original size:20 final size:21
Alignment explanation
Indices: 8449205--8449244 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
8449195 TTATCTATTT
*
8449205 ATAATTAAATTTAAA-ATAAG
1 ATAATAAAATTTAAATATAAG
8449225 ATAATAAAATTTAAATATAA
1 ATAATAAAATTTAAATATAA
8449245 TTGGATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (21 bp):
ATAATAAAATTTAAATATAAG
Found at i:8459353 original size:2 final size:2
Alignment explanation
Indices: 8459346--8459376 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8459336 CATTTGGAGA
8459346 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
8459377 TCATTGACTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:8460909 original size:260 final size:254
Alignment explanation
Indices: 8460439--8461016 Score: 819
Period size: 260 Copynumber: 2.2 Consensus size: 254
8460429 ACTTTTATTC
*
8460439 AATATATGAATTAGAAACCCGACCCGACATGACTCA-AAATAATAATAAAAATATTTTTATTCAA
1 AATATATGAATTAGAAA-CCGACCCGAC--CAC-CAGAAATAATAA-AAAAATATTTTTATTCAA
* * * *
8460503 TAAAAATATTGACTTAATTGAAAAAAATTATATATATAGGGGTATTATTGTAATTATTCTTAAAT
61 TAAAAACAATGACTTAATTGAAAAAAATTATATATAGAGGGGTATTATTATAATTATTCTTAAAT
*
8460568 ATATAAAGTAAAATTATATATTTTTTCGGGTCGGTCCGATTTTTTTCACCCTAAACCCGAACCCG
126 ATATAAAGTAAAATTATATATATTTTCGGGTCGGTCCGATTTTTTTCACCCTAAACCCGAACCCG
* *
8460633 ACCCGAATATCACACTT-AAAAAACCCGATCCAACCCGAACAAAATAAAGTTTCACCCGACCCAA
191 ACCCAAATAGCACACTTAAAAAAACCCG-----ACCCGAACAAAATAAAGTTTCACCCGACCCAA
8460697 CCCG
251 CCCG
* *
8460701 AATATATGAATTAGAAATCCGACCCGACCCAACCAGAAATAATAAAAAATTATTTTTATTTAATA
1 AATATATGAATTAGAAA-CCGACCCGA-CC-ACCAGAAATAATAAAAAAATATTTTTATTCAATA
8460766 AAAACAATGACTTAATTGAAAAAAA-TATATATAGAGGGGTATTATTATAATTATT-TCTAAATA
63 AAAACAATGACTTAATTGAAAAAAATTATATATAGAGGGGTATTATTATAATTATTCT-TAAATA
* * *
8460829 TATAAGGTAAAATTATATATATTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCCGAATCCGA
127 TATAAAGTAAAATTATATATATTTTCGGGTCGGTCCGATTTTTTTCACCCTAAACCCGAACCCGA
* * * *
8460894 CCTAAATAGCACACTTAAAAAAACCCGACCCGACCAAAATAAAGTTTCACCCGATCCGACCCG
192 CCCAAATAGCACACTTAAAAAAACCCGACCCGAACAAAATAAAGTTTCACCCGACCCAACCCG
8460957 AATATATGAATTAGAAACTCGACCCGA-C-CC-GAAATAATAAAAAAATATTTTTATTCAATA
1 AATATATGAATTAGAAAC-CGACCCGACCACCAGAAATAATAAAAAAATATTTTTATTCAATA
8461017 TATATGAATA
Statistics
Matches: 290, Mismatches: 20, Indels: 23
0.87 0.06 0.07
Matches are distributed among these distances:
251 28 0.10
252 2 0.01
254 1 0.00
255 1 0.00
256 58 0.20
259 1 0.00
260 108 0.37
261 53 0.18
262 37 0.13
263 1 0.00
ACGTcount: A:0.42, C:0.19, G:0.11, T:0.29
Consensus pattern (254 bp):
AATATATGAATTAGAAACCGACCCGACCACCAGAAATAATAAAAAAATATTTTTATTCAATAAAA
ACAATGACTTAATTGAAAAAAATTATATATAGAGGGGTATTATTATAATTATTCTTAAATATATA
AAGTAAAATTATATATATTTTCGGGTCGGTCCGATTTTTTTCACCCTAAACCCGAACCCGACCCA
AATAGCACACTTAAAAAAACCCGACCCGAACAAAATAAAGTTTCACCCGACCCAACCCG
Found at i:8464606 original size:22 final size:23
Alignment explanation
Indices: 8464575--8464621 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
8464565 TAATTGCGAG
8464575 TTTAGAAGATACGA-TTCTGGGC
1 TTTAGAAGATACGATTTCTGGGC
* * *
8464597 TTTAGTAGATATGATTTTTGGGC
1 TTTAGAAGATACGATTTCTGGGC
8464620 TT
1 TT
8464622 GTTTAGGGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.23, C:0.09, G:0.26, T:0.43
Consensus pattern (23 bp):
TTTAGAAGATACGATTTCTGGGC
Found at i:8473185 original size:21 final size:22
Alignment explanation
Indices: 8473148--8473194 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
8473138 TTACCTATGA
* *
8473148 AAATAATAGAAAGATAAGAAAT
1 AAATAATAGAAAAATAAAAAAT
8473170 AAATAAT-GAAAAATAAAAAAT
1 AAATAATAGAAAAATAAAAAAT
8473191 AAAT
1 AAAT
8473195 TTATAAATGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (22 bp):
AAATAATAGAAAAATAAAAAAT
Found at i:8491932 original size:6 final size:6
Alignment explanation
Indices: 8491921--8491977 Score: 114
Period size: 6 Copynumber: 9.5 Consensus size: 6
8491911 TCAAAAAATG
8491921 AGAATT AGAATT AGAATT AGAATT AGAATT AGAATT AGAATT AGAATT
1 AGAATT AGAATT AGAATT AGAATT AGAATT AGAATT AGAATT AGAATT
8491969 AGAATT AGA
1 AGAATT AGA
8491978 GTTTATATAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.18, T:0.32
Consensus pattern (6 bp):
AGAATT
Found at i:8493280 original size:22 final size:23
Alignment explanation
Indices: 8493238--8493281 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
8493228 AAGTGAATTG
*
8493238 AAAAATATAAAACATGCAATATA
1 AAAAATATAAAACATGAAATATA
*
8493261 AAAAATAT-AAATATGAAATAT
1 AAAAATATAAAACATGAAATAT
8493282 TAATATTCGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.25
Consensus pattern (23 bp):
AAAAATATAAAACATGAAATATA
Found at i:8494987 original size:9 final size:9
Alignment explanation
Indices: 8494973--8494999 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
8494963 CCAGAAACAT
8494973 TAAGAAGAA
1 TAAGAAGAA
8494982 TAAGAAGAA
1 TAAGAAGAA
8494991 TAAGAAGAA
1 TAAGAAGAA
8495000 GAAAATATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.22, T:0.11
Consensus pattern (9 bp):
TAAGAAGAA
Found at i:8498734 original size:20 final size:20
Alignment explanation
Indices: 8498709--8498746 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8498699 GGGGTGACCG
8498709 GTCAACGGGT-CAGGTAAGCA
1 GTCAAC-GGTCCAGGTAAGCA
8498729 GTCAACGGTCCAGGTAAG
1 GTCAACGGTCCAGGTAAG
8498747 TATTTAACGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.29, C:0.21, G:0.34, T:0.16
Consensus pattern (20 bp):
GTCAACGGTCCAGGTAAGCA
Found at i:8501005 original size:30 final size:30
Alignment explanation
Indices: 8500969--8501044 Score: 143
Period size: 30 Copynumber: 2.5 Consensus size: 30
8500959 AAGTAAGTTT
*
8500969 AAGTGAAACAAGTACTTTTTTTTTATAGGA
1 AAGTGAAACAAGTACTTTTTTTTGATAGGA
8500999 AAGTGAAACAAGTACTTTTTTTTGATAGGA
1 AAGTGAAACAAGTACTTTTTTTTGATAGGA
8501029 AAGTGAAACAAGTACT
1 AAGTGAAACAAGTACT
8501045 GATTTGGCAG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.39, C:0.08, G:0.18, T:0.34
Consensus pattern (30 bp):
AAGTGAAACAAGTACTTTTTTTTGATAGGA
Found at i:8507316 original size:43 final size:43
Alignment explanation
Indices: 8507268--8507406 Score: 181
Period size: 43 Copynumber: 3.3 Consensus size: 43
8507258 GTTTGTAAAG
8507268 ACAAACGCCGCTATTGACTGTGTATTTAATGGCGTTTGTCTTT
1 ACAAACGCCGCTATTGACTGTGTATTTAATGGCGTTTGTCTTT
* * ** * *
8507311 ACAAACGTCGCTATTGACTATGTATTTAGCGGTGTTTTTCTTT
1 ACAAACGCCGCTATTGACTGTGTATTTAATGGCGTTTGTCTTT
* * *
8507354 ACAAACGCCGCTATTGACTGTGTA-TTAATGTCATTTGTCATT
1 ACAAACGCCGCTATTGACTGTGTATTTAATGGCGTTTGTCTTT
*
8507396 AAAAACGCCGC
1 ACAAACGCCGC
8507407 AACCCATTAT
Statistics
Matches: 80, Mismatches: 16, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
42 21 0.26
43 59 0.74
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.37
Consensus pattern (43 bp):
ACAAACGCCGCTATTGACTGTGTATTTAATGGCGTTTGTCTTT
Found at i:8510371 original size:42 final size:41
Alignment explanation
Indices: 8510317--8510643 Score: 255
Period size: 42 Copynumber: 7.9 Consensus size: 41
8510307 ATTTATATAC
*
8510317 AAACGCAACTAAAGTACATGTATTTAGCGGCGTTTGTGCTTA
1 AAACGCCACTAAAGTACA-GTATTTAGCGGCGTTTGTGCTTA
* * *
8510359 AAACGCCACTAAAGTATAAGCATTTAGCGGCATTTGTGCTTA
1 AAACGCCACTAAAGTA-CAGTATTTAGCGGCGTTTGTGCTTA
* * * *
8510401 AAACGCTACTAAAGTATAAGCATTTAGTGGCGTTTGTGCTTA
1 AAACGCCACTAAAGTA-CAGTATTTAGCGGCGTTTGTGCTTA
* * *
8510443 AAACGACACTAAAGTACGAGTCTTTAGCGGCGTATGTGCTTA
1 AAACGCCACTAAAGTAC-AGTATTTAGCGGCGTTTGTGCTTA
* * * * * * *
8510485 AAACGCCGCTAGAGTATGAGTTTTTAGCGGCGTTTTTAC-AA
1 AAACGCCACTAAAGTA-CAGTATTTAGCGGCGTTTGTGCTTA
* * * * * * *
8510526 AAACGCCGCTAAAGTATAGTAATTAGCGGCTTTTAT-ATGA
1 AAACGCCACTAAAGTACAGTATTTAGCGGCGTTTGTGCTTA
* * * ** *
8510566 AAACGTCACTAATGTACGGGCCTTTAGCGGTGTTTGTGCTTA
1 AAACGCCACTAAAGTAC-AGTATTTAGCGGCGTTTGTGCTTA
** * *
8510608 AAA-AACTCTAAAGTACGAGTCTTTAGCGGCGTTTGT
1 AAACGCCACTAAAGTAC-AGTATTTAGCGGCGTTTGT
8510644 ACAAAAATGC
Statistics
Matches: 228, Mismatches: 51, Indels: 13
0.78 0.17 0.04
Matches are distributed among these distances:
40 29 0.13
41 54 0.24
42 144 0.63
43 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (41 bp):
AAACGCCACTAAAGTACAGTATTTAGCGGCGTTTGTGCTTA
Found at i:8510570 original size:40 final size:41
Alignment explanation
Indices: 8510484--8510559 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
8510474 GTATGTGCTT
* **
8510484 AAAACGCCGCTAGAGTATGAGTTTTTAGCGGCGTTTTTACA
1 AAAACGCCGCTAAAGTATGAGTAATTAGCGGCGTTTTTACA
8510525 AAAACGCCGCTAAAGTAT-AGTAATTAGCGGC-TTTT
1 AAAACGCCGCTAAAGTATGAGTAATTAGCGGCGTTTT
8510560 ATATGAAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
39 4 0.12
40 11 0.34
41 17 0.53
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.30
Consensus pattern (41 bp):
AAAACGCCGCTAAAGTATGAGTAATTAGCGGCGTTTTTACA
Found at i:8511509 original size:15 final size:15
Alignment explanation
Indices: 8511489--8511523 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
8511479 TTAGGTGAAA
8511489 AAAATAAATTTATAT
1 AAAATAAATTTATAT
8511504 AAAATAAATTTATAT
1 AAAATAAATTTATAT
8511519 AAAAT
1 AAAAT
8511524 TATTCAACGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AAAATAAATTTATAT
Found at i:8514878 original size:21 final size:21
Alignment explanation
Indices: 8514836--8514878 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
8514826 TTTTTGGGCT
* * *
8514836 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
8514857 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
8514878 A
1 A
8514879 CGAATATGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:8515690 original size:149 final size:149
Alignment explanation
Indices: 8515420--8515723 Score: 554
Period size: 149 Copynumber: 2.0 Consensus size: 149
8515410 GGGTAGAGGG
* *
8515420 TCTACGCGGTTCCTTGGGACATATGTATATTCTTTGGAACATGTGTGAGGTTTTGAAAGACACAT
1 TCTACGCGGTTCCTTGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
*
8515485 ACTTAATCCATAGTATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTAATCCATAGTATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
8515550 TAGGGCACTACGGTGCAAT
131 TAGGGCACTACGGTGCAAT
*
8515569 TCTACGCGGTTCTTTGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTTCCTTGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
*
8515634 ACTTGATCCATAGTATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTAATCCATAGTATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
*
8515699 TATGGCACTACGGTGCAAT
131 TAGGGCACTACGGTGCAAT
8515718 TCTACG
1 TCTACG
8515724 GGGCACTTCG
Statistics
Matches: 149, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
149 149 1.00
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.36
Consensus pattern (149 bp):
TCTACGCGGTTCCTTGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTAATCCATAGTATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
TAGGGCACTACGGTGCAAT
Found at i:8515746 original size:23 final size:23
Alignment explanation
Indices: 8515702--8515746 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
8515692 ATCATTATAT
*
8515702 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
8515725 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
8515747 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:8522643 original size:149 final size:149
Alignment explanation
Indices: 8522373--8522676 Score: 563
Period size: 149 Copynumber: 2.0 Consensus size: 149
8522363 GGGTAGAGGG
* *
8522373 TCTACGCGGTTCCTTGGGACATATGTATATTCTTTGGAACATGTGTGAGGTTTTGAAAGACACAT
1 TCTACGCGGTTCCTTGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
*
8522438 ACTTGATCCATAGTATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
8522503 TAGGGCACTACGGTGCAAT
131 TAGGGCACTACGGTGCAAT
*
8522522 TCTACGCGGTTCTTTGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTTCCTTGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
8522587 ACTTGATCCATAGTATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
*
8522652 TATGGCACTACGGTGCAAT
131 TAGGGCACTACGGTGCAAT
8522671 TCTACG
1 TCTACG
8522677 GGGCACTTCG
Statistics
Matches: 150, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 150 1.00
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (149 bp):
TCTACGCGGTTCCTTGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCATAGTATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
TAGGGCACTACGGTGCAAT
Found at i:8522699 original size:23 final size:23
Alignment explanation
Indices: 8522655--8522699 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
8522645 ATCATTATAT
*
8522655 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
8522678 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
8522700 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:8524838 original size:47 final size:47
Alignment explanation
Indices: 8524785--8524874 Score: 144
Period size: 47 Copynumber: 1.9 Consensus size: 47
8524775 TTTAGTTTTA
*
8524785 GTCATCTAATTATTTTTCTTTTCAAAATAATATCTAACGTTGTTTGG
1 GTCATCTAATTATTTTTCTTCTCAAAATAATATCTAACGTTGTTTGG
* * *
8524832 GTCATCTAATTATTTTTCTTCTCAAAATCATATGTAATGTTGT
1 GTCATCTAATTATTTTTCTTCTCAAAATAATATCTAACGTTGT
8524875 ATTTTGGTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 39 1.00
ACGTcount: A:0.28, C:0.13, G:0.10, T:0.49
Consensus pattern (47 bp):
GTCATCTAATTATTTTTCTTCTCAAAATAATATCTAACGTTGTTTGG
Found at i:8526461 original size:20 final size:20
Alignment explanation
Indices: 8526419--8526628 Score: 228
Period size: 20 Copynumber: 10.5 Consensus size: 20
8526409 GCGAATATGA
* *
8526419 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
8526439 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* *
8526459 AAACCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
8526479 AAATAGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
8526499 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
8526519 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
8526539 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
8526559 AAATCGCAACGAGGATCTGT
1 AAATCGCAACGCGTATCCGT
*
8526579 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
8526599 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
8526619 AAATCACAAC
1 AAATCGCAAC
8526629 ACTGAAATTT
Statistics
Matches: 162, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
19 1 0.01
20 159 0.98
21 2 0.01
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:8527359 original size:24 final size:24
Alignment explanation
Indices: 8527320--8527366 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
8527310 AAATTTGGTC
8527320 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
8527344 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
8527367 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:8527558 original size:12 final size:12
Alignment explanation
Indices: 8527541--8527565 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8527531 ATATAATCCT
8527541 GAAGAAGAAAAA
1 GAAGAAGAAAAA
8527553 GAAGAAGAAAAA
1 GAAGAAGAAAAA
8527565 G
1 G
8527566 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:8529886 original size:19 final size:19
Alignment explanation
Indices: 8529817--8530025 Score: 259
Period size: 19 Copynumber: 11.7 Consensus size: 19
8529807 GCAACGAGAG
8529817 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
8529836 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
8529850 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
8529870 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
8529889 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
8529908 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
8529922 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
8529942 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
8529961 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
8529975 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
8529994 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
8530013 AATCGCATTGCGA
1 AATCGCAATGCGA
8530026 TTCTCTCGTT
Statistics
Matches: 166, Mismatches: 7, Indels: 34
0.80 0.03 0.16
Matches are distributed among these distances:
14 32 0.19
15 2 0.01
16 4 0.02
17 6 0.04
18 1 0.01
19 92 0.55
20 29 0.17
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:8529910 original size:72 final size:72
Alignment explanation
Indices: 8529817--8530025 Score: 291
Period size: 72 Copynumber: 2.9 Consensus size: 72
8529807 GCAACGAGAG
8529817 AATCGCAATGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
1 AATCGCAATGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
8529882 AAATGAA
66 AAATGAA
* *
8529889 AATCGCAATGCGAAATGAAAATCGCAACGA-GAGAATCGCAATGCGGAAATGAAAATCGCAATGC
1 AATCGCAATGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAATGAAAATCGCAATGC
8529953 GAAATGAA
65 GAAATGAA
* * * * * *
8529961 AATCGCAACGAGAGAATCG-CAATGCGAA-ATGAAAATCGCAATGC-GAAATGAAAATCGCATTG
1 AATCGCAATGCGA-AAT-GAAAATCCCAACATGAAAATCGCAATGCGGAAATGAAAATCGCAATG
8530023 CGA
64 CGA
8530026 TTCTCTCGTT
Statistics
Matches: 123, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
71 21 0.17
72 92 0.75
73 9 0.07
74 1 0.01
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (72 bp):
AATCGCAATGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
AAATGAA
Found at i:8529938 original size:53 final size:52
Alignment explanation
Indices: 8529803--8530019 Score: 318
Period size: 53 Copynumber: 4.1 Consensus size: 52
8529793 CGGAAATTAC
*
8529803 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAA--C---ATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
*
8529850 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--C-G--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
8529908 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAA
8529961 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
8530013 AATCGCA
1 AATCGCA
8530020 TTGCGATTCT
Statistics
Matches: 155, Mismatches: 3, Indels: 19
0.88 0.02 0.11
Matches are distributed among these distances:
47 8 0.05
49 1 0.01
50 1 0.01
52 48 0.31
53 81 0.52
55 2 0.01
56 1 0.01
58 13 0.08
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (52 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:8530120 original size:19 final size:19
Alignment explanation
Indices: 8530034--8530112 Score: 105
Period size: 19 Copynumber: 4.4 Consensus size: 19
8530024 GATTCTCTCG
8530034 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
8530054 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
8530073 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
8530087 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
8530106 TTGCGAT
1 TTGCGAT
8530113 AGTCATTTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
14 6 0.12
16 7 0.13
17 7 0.13
19 17 0.33
20 15 0.29
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:8530238 original size:14 final size:15
Alignment explanation
Indices: 8530219--8530256 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
8530209 CATCAATTAC
8530219 ACAAATCAA-CTTTT
1 ACAAATCAATCTTTT
8530233 ACAAAT-AATCTTTT
1 ACAAATCAATCTTTT
8530247 ACAAATCAAT
1 ACAAATCAAT
8530257 TAAACAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.09
14 17 0.77
15 3 0.14
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.34
Consensus pattern (15 bp):
ACAAATCAATCTTTT
Found at i:8531749 original size:45 final size:45
Alignment explanation
Indices: 8531697--8531783 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
8531687 TGATGACAGT
* * *
8531697 GGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGGGGG
* * *
8531742 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
8531784 CGAGTCGGGC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.22, C:0.16, G:0.41, T:0.21
Consensus pattern (45 bp):
GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGGGGG
Done.