Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 211 of 318
Found at i:66397699 original size:40 final size:39
Alignment explanation
Indices: 66397588--66397738 Score: 151
Period size: 40 Copynumber: 3.8 Consensus size: 39
66397578 TATAATCAGT
* * *
66397588 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *
66397628 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *** *
66397668 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *
66397708 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
66397739 CATTCAATTT
Statistics
Matches: 95, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
39 15 0.16
40 80 0.84
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:66397722 original size:80 final size:79
Alignment explanation
Indices: 66397588--66397738 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
66397578 TATAATCAGT
*
66397588 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
66397653 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
66397668 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
66397731 CCGGATAT
64 CCGGATAT
66397739 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:66398577 original size:17 final size:19
Alignment explanation
Indices: 66398554--66398599 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
66398544 AAGAAGCATG
66398554 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
66398572 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
66398590 AATCATGCTC
1 AATCATGCTC
66398600 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:66402210 original size:27 final size:28
Alignment explanation
Indices: 66402172--66402241 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
66402162 ATAGTGATTC
66402172 CGCACACTTAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
66402199 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
66402227 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
66402242 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:66408721 original size:29 final size:29
Alignment explanation
Indices: 66408682--66408760 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
66408672 CTTAATAATC
*
66408682 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
66408712 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
66408741 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
66408761 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:66409422 original size:2 final size:2
Alignment explanation
Indices: 66409398--66409449 Score: 77
Period size: 2 Copynumber: 26.0 Consensus size: 2
66409388 TGATGGCCGA
* * *
66409398 AT AT GT AT AT CT AT AT AT CT 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 AT
66409440 AT AT AT AT AT
1 AT AT AT AT AT
66409450 CAACTATACT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:66410844 original size:190 final size:190
Alignment explanation
Indices: 66410514--66410865 Score: 609
Period size: 190 Copynumber: 1.9 Consensus size: 190
66410504 GCAGGACGTT
*
66410514 AAGGTTCTGAGGAGGAAGTCCATTCCTTTAGTAAAGGTTCTATGGCAGAATCATAGCACTGAGGA
1 AAGGTTCTGAGGAGGAAGTCCATTCCTTTAGTAAAAGTTCTATGGCAGAATCATAGCACTGAGGA
*
66410579 AGCCACGTGGGAACCCGAGGACTCAATGCGATAGTAGTATTCTCATCTGTTCTGATCAGGTAACT
66 AGCCACGTGGGAACCCGAGGACTCAATGCGATAGTAGTATTCTCATCTGTTCTGATCAGGTAAAT
66410644 TTAGAGGTCAAAATTTCTTTCAAGGGG-TGGAGTTGTAATGCCCTAAATTTTCGAGGAGTA
131 TTAGAGGTCAAAATTTCTTTC-AGGGGATGGAGTTGTAATGCCCTAAATTTTCGAGGAGTA
* *
66410704 AAGGTTTTGAGGAGGGAGTCCATTCCTTTAGTAAAAGTTCTATGGCAGAATCATAGCACTGAGGA
1 AAGGTTCTGAGGAGGAAGTCCATTCCTTTAGTAAAAGTTCTATGGCAGAATCATAGCACTGAGGA
* *
66410769 AGCTACGTGGGAACCCGAGGACTCAATGTG-TAAGTAGTATTCTCATCTGTTCTGATCAGGTAAA
66 AGCCACGTGGGAACCCGAGGACTCAATGCGAT-AGTAGTATTCTCATCTGTTCTGATCAGGTAAA
*
66410833 TTTCGAGGTCAAAATTTCTTTCAGGGGATGGAG
130 TTTAGAGGTCAAAATTTCTTTCAGGGGATGGAG
66410866 CTGACATAAT
Statistics
Matches: 153, Mismatches: 7, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
189 6 0.04
190 147 0.96
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (190 bp):
AAGGTTCTGAGGAGGAAGTCCATTCCTTTAGTAAAAGTTCTATGGCAGAATCATAGCACTGAGGA
AGCCACGTGGGAACCCGAGGACTCAATGCGATAGTAGTATTCTCATCTGTTCTGATCAGGTAAAT
TTAGAGGTCAAAATTTCTTTCAGGGGATGGAGTTGTAATGCCCTAAATTTTCGAGGAGTA
Found at i:66415979 original size:16 final size:16
Alignment explanation
Indices: 66415958--66415993 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
66415948 AGGTAGGGGC
*
66415958 AAATCTAAAAAGTCAT
1 AAATCTAAAAAGGCAT
66415974 AAATCTAAAAAGGCAT
1 AAATCTAAAAAGGCAT
66415990 AAAT
1 AAAT
66415994 AATCAGCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.58, C:0.11, G:0.08, T:0.22
Consensus pattern (16 bp):
AAATCTAAAAAGGCAT
Found at i:66438808 original size:48 final size:48
Alignment explanation
Indices: 66438736--66438966 Score: 245
Period size: 48 Copynumber: 4.8 Consensus size: 48
66438726 TAAGTTGCCA
* *
66438736 ATGCCACGTCCCAGACATGGTCTTACACTGGCTCACAT-GTCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAAT-GAGGCCG
* * * * *
66438784 ATGCCATGTCCTAGACGTGGTCTTACACTGGCTCTCATAATGTGACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATGAGGCCG
* * * *
66438832 ATGCCATGTCCCAAACATGGTCTTACACTAGCAT-ACAT-ATCAACGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGC-TCACATAAT-GAGGCCG
* * *
66438880 ATGCCATGTCCCGGACATGGTCTTACACTGGCTCTCATAATGTGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATGAGGCCG
* * *
66438928 ATGCCATG-CCCTAGACATGGTATTACACTAGCACACATA
1 ATGCCATGTCCC-AGACATGGTCTTACACTGGCTCACATA
66438967 TCAACCAAAT
Statistics
Matches: 149, Mismatches: 28, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
47 6 0.04
48 139 0.93
49 4 0.03
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.25
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATGAGGCCG
Found at i:66438901 original size:96 final size:96
Alignment explanation
Indices: 66438736--66438971 Score: 332
Period size: 96 Copynumber: 2.5 Consensus size: 96
66438726 TAAGTTGCCA
* * * * * *
66438736 ATGCCACGTCCCAGACATGGTCTTACACTGGC-TCACATGTCGAGGCCGATGCCATGTCCTAGAC
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCAT-ACATATCAACGCCGATGCCATGTCCCAGAC
*
66438800 GTGGTCTTACACTGGCTCTCATAATGTGACCG
65 ATGGTCTTACACTGGCTCTCATAATGTGACCG
* *
66438832 ATGCCATGTCCCAAACATGGTCTTACACTAGCATACATATCAACGCCGATGCCATGTCCCGGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCATACATATCAACGCCGATGCCATGTCCCAGACA
*
66438897 TGGTCTTACACTGGCTCTCATAATGTGGCCG
66 TGGTCTTACACTGGCTCTCATAATGTGACCG
* *
66438928 ATGCCATG-CCCTAGACATGGTATTACACTAGCACACATATCAAC
1 ATGCCATGTCCC-AGACATGGTCTTACACTAGCATACATATCAAC
66438972 CAAATGTCAC
Statistics
Matches: 125, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
95 3 0.02
96 121 0.97
97 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (96 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCATACATATCAACGCCGATGCCATGTCCCAGACA
TGGTCTTACACTGGCTCTCATAATGTGACCG
Found at i:66444645 original size:44 final size:43
Alignment explanation
Indices: 66444585--66444710 Score: 152
Period size: 44 Copynumber: 2.9 Consensus size: 43
66444575 ATTCGATAAG
*
66444585 TATTTTCGTGTAAGACCACATCTGGGACATTGGCATCGACT-TC
1 TATTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGA-TATC
* *
66444628 TATTTTACGTGTAAGACCATGTCTGGGACATCGGCATCG-TATC
1 TATTTT-CGTGTAAGACCACGTCTGGGACATTGGCATCGATATC
*
66444671 TGA-TTTCGTGTAAGACC-CTGTCTGGGACAGTGGCATCGAT
1 T-ATTTTCGTGTAAGACCAC-GTCTGGGACATTGGCATCGAT
66444711 GTTTGATTGA
Statistics
Matches: 72, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
42 29 0.40
43 13 0.18
44 30 0.42
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (43 bp):
TATTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGATATC
Found at i:66444694 original size:42 final size:41
Alignment explanation
Indices: 66444585--66444709 Score: 139
Period size: 42 Copynumber: 2.9 Consensus size: 41
66444575 ATTCGATAAG
*
66444585 TATTTTCGTGTAAGACCAC-ATCTGGGACATTGGCATCGACTTC
1 TATTTTCGTGTAAGACC-CTGTCTGGGACA-TGGCATCGAC-TC
*
66444628 TATTTTACGTGTAAGACCATGTCTGGGACATCGGCATCGTA-TC
1 TATTTT-CGTGTAAGACCCTGTCTGGGACAT-GGCATCG-ACTC
66444671 TGA-TTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGA
1 T-ATTTTCGTGTAAGACCCTGTCTGGGACA-TGGCATCGA
66444710 TGTTTGATTG
Statistics
Matches: 73, Mismatches: 3, Indels: 14
0.81 0.03 0.16
Matches are distributed among these distances:
41 1 0.01
42 29 0.40
43 14 0.19
44 28 0.38
45 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (41 bp):
TATTTTCGTGTAAGACCCTGTCTGGGACATGGCATCGACTC
Found at i:66445203 original size:10 final size:10
Alignment explanation
Indices: 66445188--66445214 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
66445178 ATCGAACTTT
66445188 ATTTTGGTAC
1 ATTTTGGTAC
66445198 ATTTTGGTAC
1 ATTTTGGTAC
66445208 ATTTTGG
1 ATTTTGG
66445215 AAATGTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.07, G:0.22, T:0.52
Consensus pattern (10 bp):
ATTTTGGTAC
Found at i:66445338 original size:23 final size:25
Alignment explanation
Indices: 66445312--66445364 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
66445302 TTTGGATTGA
*
66445312 TTATGG-ATATGTT-TATGAATG-AG
1 TTATGGTATAAGTTATATG-ATGAAG
66445335 TTATGGTATAAGTTATATGATGAAG
1 TTATGGTATAAGTTATATGATGAAG
66445360 TTATG
1 TTATG
66445365 TTTCTGACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 6 0.23
24 9 0.35
25 11 0.42
ACGTcount: A:0.32, C:0.00, G:0.25, T:0.43
Consensus pattern (25 bp):
TTATGGTATAAGTTATATGATGAAG
Found at i:66450160 original size:2 final size:2
Alignment explanation
Indices: 66450153--66450188 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
66450143 AGTATAGTTG
* *
66450153 AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
66450189 TCGGCCATCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (2 bp):
AT
Found at i:66450863 original size:29 final size:29
Alignment explanation
Indices: 66450828--66450901 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
66450818 GTTGTGAGAT
* *
66450828 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
66450857 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
66450886 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
66450902 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:66458989 original size:29 final size:29
Alignment explanation
Indices: 66458954--66459027 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
66458944 GTTGTGAGAT
* *
66458954 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
66458983 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
66459012 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
66459028 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:66462238 original size:80 final size:80
Alignment explanation
Indices: 66462154--66462302 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
66462144 TATGGTAACC
* * * *
66462154 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
66462218 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
66462234 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
66462299 CCGG
66 CCGG
66462303 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:66462244 original size:40 final size:38
Alignment explanation
Indices: 66462195--66462302 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
66462185 ATCACGATTT
*
66462195 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
66462235 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
66462275 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
66462303 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:66467151 original size:43 final size:43
Alignment explanation
Indices: 66466996--66467152 Score: 131
Period size: 43 Copynumber: 3.7 Consensus size: 43
66466986 TGTGTTTTCG
* *
66466996 TGTAAGACCACGTCTGGGACGTTGGCATCGACT-TCTGTTTTACA
1 TGTAAGACCACATCTGGGACGTTGGCATCGA-TATCTG-ATTACA
* ** * * *
66467040 TGTAAGATCATGTCTGGGACATTGGCATCG-TATCTAATTTCA
1 TGTAAGACCACATCTGGGACGTTGGCATCGATATCTGATTACA
* ** * * *
66467082 TGTGAGACCGTATCTGGGATAG-TGGCATCGATATTTGATTGCA
1 TGTAAGACCACATCTGGGA-CGTTGGCATCGATATCTGATTACA
*
66467125 TGTAAGACCACATTTGGGACGTTGGCAT
1 TGTAAGACCACATCTGGGACGTTGGCAT
66467153 TGTATATGCT
Statistics
Matches: 89, Mismatches: 20, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
42 29 0.33
43 33 0.37
44 27 0.30
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (43 bp):
TGTAAGACCACATCTGGGACGTTGGCATCGATATCTGATTACA
Found at i:66469085 original size:20 final size:21
Alignment explanation
Indices: 66469060--66469099 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
66469050 TCTTAGAAAC
66469060 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
66469080 AGGGCAATACGCCCGTGTGG
1 AGGGCAACACGCCCGTGTGG
66469100 CCAATTCGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.20, C:0.28, G:0.40, T:0.12
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:66472032 original size:27 final size:28
Alignment explanation
Indices: 66471975--66472044 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
66471965 AAACTTGTAC
*
66471975 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
66472003 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
66472030 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
66472045 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:66472055 original size:27 final size:27
Alignment explanation
Indices: 66471975--66472056 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
66471965 AAACTTGTAC
* * *
66471975 AGCACTAAGTGTGCGAGTTTGA-TCATGT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
66472003 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
66472030 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
66472057 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:66479970 original size:27 final size:28
Alignment explanation
Indices: 66479913--66479982 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
66479903 AAACTTGTAC
*
66479913 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
66479941 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
66479968 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
66479983 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:66479993 original size:27 final size:27
Alignment explanation
Indices: 66479913--66479994 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
66479903 AAACTTGTAC
* * *
66479913 AGCACTAAGTGTGCGAGTTTGA-TCATGT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
66479941 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
66479968 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
66479995 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:66487956 original size:30 final size:30
Alignment explanation
Indices: 66487920--66488020 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
66487910 ACGGTGATTG
* * *
66487920 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
66487950 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
66487978 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
66488007 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
66488021 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:66488032 original size:29 final size:28
Alignment explanation
Indices: 66487949--66488024 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
66487939 AAAATTGTAC
* *
66487949 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
66487977 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
66488006 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
66488025 CACTATATGA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:66499269 original size:80 final size:80
Alignment explanation
Indices: 66499185--66499333 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
66499175 TATGGTAACC
* * * *
66499185 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
66499249 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
66499265 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
66499330 CCGG
66 CCGG
66499334 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:66499275 original size:40 final size:38
Alignment explanation
Indices: 66499226--66499333 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
66499216 ATCACGATTT
*
66499226 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
66499266 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
66499306 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
66499334 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:66510035 original size:71 final size:71
Alignment explanation
Indices: 66509947--66510181 Score: 452
Period size: 71 Copynumber: 3.3 Consensus size: 71
66509937 GAGATGTATC
*
66509947 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
66510012 AGGACA
66 AGGACA
66510018 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
66510083 AGGACA
66 AGGACA
66510089 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
*
66510154 CGGACA
66 AGGACA
66510160 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
66510182 AGACAAATCG
Statistics
Matches: 162, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 162 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:66514341 original size:25 final size:25
Alignment explanation
Indices: 66514287--66514343 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 25
66514277 AAGTGTATGG
*
66514287 TATGTATA-GTGACATGTGTAATAT
1 TATGTATATGTGACATGTGTAAAAT
*
66514311 TA-GTATATGT-ACATTTGTAAAAT
1 TATGTATATGTGACATGTGTAAAAT
66514334 ATATGTATAT
1 -TATGTATAT
66514344 TTACTTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
23 16 0.57
24 6 0.21
25 6 0.21
ACGTcount: A:0.37, C:0.04, G:0.16, T:0.44
Consensus pattern (25 bp):
TATGTATATGTGACATGTGTAAAAT
Found at i:66515024 original size:21 final size:19
Alignment explanation
Indices: 66514985--66515024 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
66514975 TGAATATGTG
*
66514985 TTTATTGTGAAATTGAATA
1 TTTATTGTGAAAGTGAATA
66515004 TTTATTAGTGAAAAGTGAATA
1 TTTATT-GTG-AAAGTGAATA
66515025 GAATTATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 3 0.17
21 9 0.50
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.42
Consensus pattern (19 bp):
TTTATTGTGAAAGTGAATA
Found at i:66515375 original size:48 final size:47
Alignment explanation
Indices: 66515266--66515383 Score: 157
Period size: 48 Copynumber: 2.5 Consensus size: 47
66515256 GATATTGTTA
* * *
66515266 CTGT-TACCGTTACTATTACTATTTCGAATTTGTTCTGATGAGGTACT
1 CTGTGTACCG-TACTGTTACTGTTTCGAATTTGTTCCGATGAGGTACT
*
66515313 CTGTGTACCGTACTGTTACTGTTTCCGGATTTGTTCCGATGAGGTACT
1 CTGTGTACCGTACTGTTACTGTTT-CGAATTTGTTCCGATGAGGTACT
* *
66515361 CTGTGTATCGTACTGCTACTGTT
1 CTGTGTACCGTACTGTTACTGTT
66515384 GCTGTTACTG
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
47 16 0.25
48 47 0.75
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.42
Consensus pattern (47 bp):
CTGTGTACCGTACTGTTACTGTTTCGAATTTGTTCCGATGAGGTACT
Found at i:66515569 original size:18 final size:18
Alignment explanation
Indices: 66515500--66515685 Score: 110
Period size: 18 Copynumber: 10.3 Consensus size: 18
66515490 AAAGGTATAA
* * *
66515500 AATAACTGATTATTATTG
1 AATAACTGAATGTTACTG
* *
66515518 AATAATTGACTGTTACTG
1 AATAACTGAATGTTACTG
* * *
66515536 GAT-ATTAGACTGTTACTG
1 AATAACT-GAATGTTACTG
*
66515554 AATAACTGAATATTACTG
1 AATAACTGAATGTTACTG
* * *
66515572 AATAATTG-ATCATTACTA
1 AATAACTGAAT-GTTACTG
* *
66515590 AATAACTGATTGTCACTG
1 AATAACTGAATGTTACTG
* *
66515608 AATGAA-TGACTGCTACTG
1 AAT-AACTGAATGTTACTG
*
66515626 AATAACTTAATTGTTACTG
1 AATAACTGAA-TGTTACTG
* *
66515645 AATATCTG-ATTTTACTG
1 AATAACTGAATGTTACTG
* *
66515662 AATAATTGACTGTTACTG
1 AATAACTGAATGTTACTG
*
66515680 GATAAC
1 AATAAC
66515686 CGATCAATTG
Statistics
Matches: 129, Mismatches: 31, Indels: 16
0.73 0.18 0.09
Matches are distributed among these distances:
17 20 0.16
18 91 0.71
19 18 0.14
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.38
Consensus pattern (18 bp):
AATAACTGAATGTTACTG
Found at i:66515570 original size:36 final size:34
Alignment explanation
Indices: 66515516--66515679 Score: 130
Period size: 36 Copynumber: 4.6 Consensus size: 34
66515506 TGATTATTAT
* * *
66515516 TGAATAATTGACTGTTACTGGATATTAGACTGTTAC
1 TGAATAACTGAATGTTACTGAATATT-GA-TGTTAC
* *
66515552 TGAATAACTGAATATTACTGAATAATTGATCATTAC
1 TGAATAACTGAATGTTACTGAAT-ATTGAT-GTTAC
* * * * *
66515588 TAAATAACTGATTGTCACTGAATGAATGACTGCTAC
1 TGAATAACTGAATGTTACTGAAT-ATTGA-TGTTAC
* *
66515624 TGAATAACTTAATTGTTACTGAATATCTGATTTTAC
1 TGAATAACTGAA-TGTTACTGAATAT-TGATGTTAC
* *
66515660 TGAATAATTGACTGTTACTG
1 TGAATAACTGAATGTTACTG
66515680 GATAACCGAT
Statistics
Matches: 100, Mismatches: 23, Indels: 11
0.75 0.17 0.08
Matches are distributed among these distances:
35 9 0.09
36 74 0.74
37 17 0.17
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (34 bp):
TGAATAACTGAATGTTACTGAATATTGATGTTAC
Found at i:66515625 original size:54 final size:54
Alignment explanation
Indices: 66515567--66515685 Score: 134
Period size: 54 Copynumber: 2.2 Consensus size: 54
66515557 AACTGAATAT
*
66515567 TACTGAATAA-TTGATCATTACTAAATAACTGATTGTCACTGAATGAA-TGACTGC
1 TACTGAATAACTTAATCATTACTAAATAACTGATT-TCACTGAAT-AATTGACTGC
** * * * *
66515621 TACTGAATAACTTAATTGTTACTGAATATCTGATTTTACTGAATAATTGACTGT
1 TACTGAATAACTTAATCATTACTAAATAACTGATTTCACTGAATAATTGACTGC
*
66515675 TACTGGATAAC
1 TACTGAATAAC
66515686 CGATCAATTG
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
53 2 0.04
54 34 0.62
55 19 0.35
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.37
Consensus pattern (54 bp):
TACTGAATAACTTAATCATTACTAAATAACTGATTTCACTGAATAATTGACTGC
Found at i:66516448 original size:18 final size:19
Alignment explanation
Indices: 66516411--66516448 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
66516401 ACCCCCGCAT
66516411 CACACGCCCGTGCTCGCCAC
1 CACACGCCCGTGC-CGCCAC
*
66516431 CACATGCCCGTG-CGCCAC
1 CACACGCCCGTGCCGCCAC
66516449 AATACAACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.16, C:0.53, G:0.21, T:0.11
Consensus pattern (19 bp):
CACACGCCCGTGCCGCCAC
Found at i:66517952 original size:5 final size:5
Alignment explanation
Indices: 66517942--66518039 Score: 83
Period size: 5 Copynumber: 18.2 Consensus size: 5
66517932 TGAATCCTCC
*
66517942 TATTT TATTT TA-TT TATTCT TATTTT TATTT T-CTT TATTT TATTTT
1 TATTT TATTT TATTT TATT-T TA-TTT TATTT TATTT TATTT TA-TTT
*
66517988 TATTT TGATTTT TATTTT TATTT TCATTT CAATTT TATTAT TATTT TATTT
1 TATTT T-A-TTT TA-TTT TATTT T-ATTT -TATTT TATT-T TATTT TATTT
66518039 T
1 T
66518040 GAAAGACATA
Statistics
Matches: 79, Mismatches: 4, Indels: 20
0.77 0.04 0.19
Matches are distributed among these distances:
4 7 0.09
5 34 0.43
6 32 0.41
7 6 0.08
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.76
Consensus pattern (5 bp):
TATTT
Found at i:66517964 original size:10 final size:9
Alignment explanation
Indices: 66517945--66518038 Score: 57
Period size: 9 Copynumber: 9.3 Consensus size: 9
66517935 ATCCTCCTAT
66517945 TTTATTTTA
1 TTTATTTTA
66517954 TTTATTCTTA
1 TTTATT-TTA
*
66517964 TTTTTATTTTC
1 --TTTATTTTA
66517975 TTTATTTTA
1 TTTATTTTA
66517984 TTTTTATTTTGA
1 --TTTATTTT-A
66517996 TTT-TTATT-
1 TTTATT-TTA
66518004 TTTATTTTCA
1 TTTATTTT-A
66518014 TTTCAATTTTA
1 TTT--ATTTTA
66518025 TTATTATTTTA
1 -T-TTATTTTA
66518036 TTT
1 TTT
66518039 TGAAAGACAT
Statistics
Matches: 69, Mismatches: 2, Indels: 28
0.70 0.02 0.28
Matches are distributed among these distances:
8 5 0.07
9 20 0.29
10 12 0.17
11 17 0.25
12 13 0.19
13 2 0.03
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.76
Consensus pattern (9 bp):
TTTATTTTA
Found at i:66517970 original size:6 final size:6
Alignment explanation
Indices: 66517954--66518039 Score: 77
Period size: 6 Copynumber: 14.3 Consensus size: 6
66517944 TTTTATTTTA
* * *
66517954 TTTATT CTTATT TTTATT TTCTTTAT TTTATT TTTATT TTGATT TTTATT
1 TTTATT TTTATT TTTATT TT-TAT-T TTTATT TTTATT TTTATT TTTATT
* * * *
66518004 TTTATT TTCA-T TTCAAT TTTATT ATTA-T TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TT
66518040 GAAAGACATA
Statistics
Matches: 65, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
5 9 0.14
6 49 0.75
7 4 0.06
8 3 0.05
ACGTcount: A:0.19, C:0.05, G:0.01, T:0.76
Consensus pattern (6 bp):
TTTATT
Found at i:66517971 original size:12 final size:11
Alignment explanation
Indices: 66517944--66518039 Score: 85
Period size: 11 Copynumber: 8.8 Consensus size: 11
66517934 AATCCTCCTA
66517944 TTTTATTTTA-
1 TTTTATTTTAT
66517954 -TTTATTCTTAT
1 TTTTATT-TTAT
66517965 TTTTA-TTT-T
1 TTTTATTTTAT
*
66517974 CTTTATTTTAT
1 TTTTATTTTAT
66517985 TTTTATTTTGAT
1 TTTTATTTT-AT
66517997 TTTTATTTTTAT
1 TTTTA-TTTTAT
* * *
66518009 TTTCATTTCAA
1 TTTTATTTTAT
66518020 TTTTATTATTA-
1 TTTTATT-TTAT
66518031 TTTTATTTT
1 TTTTATTTT
66518040 GAAAGACATA
Statistics
Matches: 71, Mismatches: 7, Indels: 16
0.76 0.07 0.17
Matches are distributed among these distances:
9 11 0.15
10 10 0.14
11 27 0.38
12 19 0.27
13 4 0.06
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.76
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:66517983 original size:26 final size:25
Alignment explanation
Indices: 66517950--66517999 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
66517940 CCTATTTTAT
*
66517950 TTTATTTATTCTTATTTTTATTTTC
1 TTTATTTATTCTTATTTTGATTTTC
*
66517975 TTTATTTTATTTTTATTTTGATTTT
1 TTTA-TTTATTCTTATTTTGATTTT
66518000 TATTTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (25 bp):
TTTATTTATTCTTATTTTGATTTTC
Found at i:66518023 original size:41 final size:37
Alignment explanation
Indices: 66517942--66518039 Score: 128
Period size: 38 Copynumber: 2.6 Consensus size: 37
66517932 TGAATCCTCC
*
66517942 TATTTTA-TTTTA-TTTATTCTTATTTTTATTTTCTT
1 TATTTTATTTTTATTTTATTTTTATTTTTATTTTCTT
66517977 TATTTTATTTTTATTTTGATTTTTATTTTTATTTTCATT
1 TATTTTATTTTTATTTT-ATTTTTATTTTTATTTTC-TT
*
66518016 TCAATTTTATTATTATTTTATTTT
1 T--ATTTTATTTTTATTTTATTTT
66518040 GAAAGACATA
Statistics
Matches: 55, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
35 7 0.13
36 5 0.09
37 3 0.05
38 17 0.31
39 3 0.05
40 5 0.09
41 15 0.27
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.76
Consensus pattern (37 bp):
TATTTTATTTTTATTTTATTTTTATTTTTATTTTCTT
Found at i:66519899 original size:21 final size:21
Alignment explanation
Indices: 66519874--66519914 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
66519864 AGAGCACCAA
* *
66519874 GAGTTGAAAAGAGCCAAAAAC
1 GAGTTAAAAAGAGACAAAAAC
*
66519895 GAGTTAAAAAGGGACAAAAA
1 GAGTTAAAAAGAGACAAAAA
66519915 TTGACCAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.56, C:0.10, G:0.24, T:0.10
Consensus pattern (21 bp):
GAGTTAAAAAGAGACAAAAAC
Found at i:66531906 original size:12 final size:12
Alignment explanation
Indices: 66531889--66531918 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
66531879 AGCCATACGC
66531889 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
66531901 CCGTGTGCTAGG
1 CCGTGTGCCAGG
66531913 CCGTGT
1 CCGTGT
66531919 AATTGCCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:66532869 original size:21 final size:21
Alignment explanation
Indices: 66532840--66532908 Score: 93
Period size: 21 Copynumber: 3.3 Consensus size: 21
66532830 GCTTTTGTTC
* *
66532840 AGCTTATGAGAGTTGAATAGA
1 AGCTCATGAGAGCTGAATAGA
66532861 AGCTCATGAGAGCTGAATAGA
1 AGCTCATGAGAGCTGAATAGA
* * *
66532882 AGCTCGTGAGAGCTAAAAAGA
1 AGCTCATGAGAGCTGAATAGA
66532903 AGCTCA
1 AGCTCA
66532909 AAAGAGTTGA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.39, C:0.13, G:0.28, T:0.20
Consensus pattern (21 bp):
AGCTCATGAGAGCTGAATAGA
Found at i:66536864 original size:48 final size:48
Alignment explanation
Indices: 66536812--66536949 Score: 123
Period size: 48 Copynumber: 2.9 Consensus size: 48
66536802 TACAAGAAAC
* * * *
66536812 CACATACCGATGCCGATGCCATATCCCAGATATGGCCTTACACTAGCA
1 CACATACCAACGCCGATGCCATATCCCAGACAAGGCCTTACACTAGCA
* * * * *
66536860 CACATATCAACGCCGATGCCATGTCCCAGACAAGGTCTTACACTGGCT
1 CACATACCAACGCCGATGCCATATCCCAGACAAGGCCTTACACTAGCA
* * * * * * * *
66536908 CTCAAATCAACGCAGATGCCATGTCCCAAACATGGTCTTACA
1 CACATACCAACGCCGATGCCATATCCCAGACAAGGCCTTACA
66536950 TTGGCTCTCA
Statistics
Matches: 76, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 76 1.00
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.21
Consensus pattern (48 bp):
CACATACCAACGCCGATGCCATATCCCAGACAAGGCCTTACACTAGCA
Found at i:66536955 original size:48 final size:48
Alignment explanation
Indices: 66536865--66536959 Score: 154
Period size: 48 Copynumber: 2.0 Consensus size: 48
66536855 TAGCACACAT
* *
66536865 ATCAACGCCGATGCCATGTCCCAGACAAGGTCTTACACTGGCTCTCAA
1 ATCAACGCAGATGCCATGTCCCAAACAAGGTCTTACACTGGCTCTCAA
* *
66536913 ATCAACGCAGATGCCATGTCCCAAACATGGTCTTACATTGGCTCTCA
1 ATCAACGCAGATGCCATGTCCCAAACAAGGTCTTACACTGGCTCTCA
66536960 TTGGCCATGG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.23
Consensus pattern (48 bp):
ATCAACGCAGATGCCATGTCCCAAACAAGGTCTTACACTGGCTCTCAA
Found at i:66548178 original size:34 final size:35
Alignment explanation
Indices: 66548115--66548199 Score: 109
Period size: 34 Copynumber: 2.5 Consensus size: 35
66548105 GCGAATACAT
66548115 TCTGGGCCTAAGCCCATATTAATAACAGT-AACAA
1 TCTGGGCCTAAGCCCATATTAATAACAGTAAACAA
* * * * *
66548149 TCTGGGCCTTAGCCTATTTTAGTATCAGTAAACAA
1 TCTGGGCCTAAGCCCATATTAATAACAGTAAACAA
*
66548184 TCTGGGCCTAAACCCA
1 TCTGGGCCTAAGCCCA
66548200 CCTCAATACA
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
34 24 0.57
35 18 0.43
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (35 bp):
TCTGGGCCTAAGCCCATATTAATAACAGTAAACAA
Found at i:66548664 original size:27 final size:27
Alignment explanation
Indices: 66548634--66548710 Score: 118
Period size: 27 Copynumber: 2.9 Consensus size: 27
66548624 CTTACCATAT
* *
66548634 AAGGGGAAAATAGTCATTTTGCCTCAC
1 AAGGGCAAAATAGTCATTTTACCTCAC
* *
66548661 AAGGGCAAAATAATCATTTTACCTTAC
1 AAGGGCAAAATAGTCATTTTACCTCAC
66548688 AAGGGCAAAATAGTCATTTTACC
1 AAGGGCAAAATAGTCATTTTACC
66548711 CTATAGGGGA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (27 bp):
AAGGGCAAAATAGTCATTTTACCTCAC
Found at i:66548731 original size:27 final size:26
Alignment explanation
Indices: 66548699--66548871 Score: 184
Period size: 27 Copynumber: 6.5 Consensus size: 26
66548689 AGGGCAAAAT
* *
66548699 AGTCATTTTACCCTATAGGGGAATTAC
1 AGTCATTTTACCCTAT-GGGGTATTTC
* * * * * *
66548726 AATCATTATAACTTATAGGATATTTC
1 AGTCATTTTACCCTATGGGGTATTTC
* *
66548752 GGTCACTTTACCCTATGGGGGTATTTC
1 AGTCATTTTACCCTAT-GGGGTATTTC
* *
66548779 GGTCATTTTACACTATGGGGGTATTTC
1 AGTCATTTTACCCTAT-GGGGTATTTC
*
66548806 AATCATTTTACCCTATGCGGGTATTTC
1 AGTCATTTTACCCTATG-GGGTATTTC
*
66548833 GGTCATTTTACCCTATGGGGTATTTC
1 AGTCATTTTACCCTATGGGGTATTTC
66548859 AGTCATTTTACCC
1 AGTCATTTTACCC
66548872 GATTAAGGGT
Statistics
Matches: 120, Mismatches: 24, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
26 38 0.32
27 82 0.68
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.39
Consensus pattern (26 bp):
AGTCATTTTACCCTATGGGGTATTTC
Found at i:66548785 original size:53 final size:52
Alignment explanation
Indices: 66548699--66548871 Score: 193
Period size: 53 Copynumber: 3.2 Consensus size: 52
66548689 AGGGCAAAAT
* * * ** * * *
66548699 AGTCATTTTACCCTATAGGGGAATTACAATCATTATAACTTATAGGATATTTC
1 AGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTAAC-TATGGGGTATTTC
* *
66548752 GGTCACTTTACCCTATGGGGGTATTTCGGTCATTTTACACTATGGGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTA-ACTAT-GGGGTATTTC
* * *
66548806 AATCATTTTACCCTATGCGGGTATTTCGGTCATTTTACCCTATGGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTA-ACTATGGGGTATTTC
66548859 AGTCATTTTACCC
1 AGTCATTTTACCC
66548872 GATTAAGGGT
Statistics
Matches: 102, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
53 54 0.53
54 48 0.47
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.39
Consensus pattern (52 bp):
AGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTAACTATGGGGTATTTC
Found at i:66553618 original size:27 final size:26
Alignment explanation
Indices: 66553588--66553688 Score: 139
Period size: 27 Copynumber: 3.7 Consensus size: 26
66553578 TTAGTTTACC
66553588 AAATTATCAAAATACCCTTGGTTTGTA
1 AAATTA-CAAAATACCCTTGGTTTGTA
*
66553615 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTAC-AAAATACCCTTGGTTTGTA
* *
66553642 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTA-CAAAATACCCTTGGTTTGTA
66553669 AAATTACAGAAATACCCTTG
1 AAATTACA-AAATACCCTTG
66553689 TAGGGTAGAA
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
26 3 0.05
27 61 0.94
28 1 0.02
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.32
Consensus pattern (26 bp):
AAATTACAAAATACCCTTGGTTTGTA
Found at i:66553707 original size:27 final size:27
Alignment explanation
Indices: 66553677--66553875 Score: 121
Period size: 27 Copynumber: 6.9 Consensus size: 27
66553667 TAAAATTACA
66553677 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
*
66553704 GAAATACTAAAATACCCCTGTAGGGTAGAAATACC
1 G-------A-AATACCCTTGTAGGGTAGAAATACC
* * * *
66553739 AAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAAATACC
* * * *
66553766 AAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCTTGTAGGGTAGAAATACC
* *
66553793 AAAATACCCTTGTAGGGTAGAAATAGAATTACT
1 GAAATACCCTTGTAGGGTAG----A-AA-TACC
* * *
66553826 GAAATACTCTTGTAAGGTAGAACTACC
1 GAAATACCCTTGTAGGGTAGAAATACC
* *
66553853 GAGATACCCTTGTGGGGTA-AAAT
1 GAAATACCCTTGTAGGGTAGAAAT
66553876 TACCATTTTA
Statistics
Matches: 138, Mismatches: 20, Indels: 29
0.74 0.11 0.16
Matches are distributed among these distances:
26 3 0.02
27 86 0.62
28 2 0.01
29 1 0.01
31 1 0.01
32 1 0.01
33 19 0.14
34 1 0.01
35 24 0.17
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (27 bp):
GAAATACCCTTGTAGGGTAGAAATACC
Found at i:66553726 original size:35 final size:35
Alignment explanation
Indices: 66553678--66553745 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
66553668 AAAATTACAG
* *
66553678 AAATACCCTTGTAGGGTAGAAATACCGAAATACTA
1 AAATACCCCTGTAGGGTAGAAATACCAAAATACTA
66553713 AAATACCCCTGTAGGGTAGAAATACCAAAATAC
1 AAATACCCCTGTAGGGTAGAAATACCAAAATAC
66553746 CCCTGTAGGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.21
Consensus pattern (35 bp):
AAATACCCCTGTAGGGTAGAAATACCAAAATACTA
Found at i:66553768 original size:54 final size:54
Alignment explanation
Indices: 66553708--66553814 Score: 187
Period size: 54 Copynumber: 2.0 Consensus size: 54
66553698 AATACCGAAA
66553708 TACTAAAATACCCCTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAAT
1 TACTAAAATACCCCTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAAT
* * *
66553762 TACTAAAATACCCCTGTAGGGTAGAATTATCAAAATACCCTTGTAGGGTAGAA
1 TACTAAAATACCCCTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAA
66553815 ATAGAATTAC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (54 bp):
TACTAAAATACCCCTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAAT
Found at i:66554215 original size:2 final size:2
Alignment explanation
Indices: 66554208--66554239 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
66554198 GCTTCGCCAC
66554208 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
66554240 CTGTTCTGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:66554265 original size:26 final size:27
Alignment explanation
Indices: 66554236--66554295 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
66554226 ATATATATAT
*
66554236 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
66554262 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
66554289 ATATCTG
1 ATATCTG
66554296 GCAGGCTCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:66554452 original size:6 final size:6
Alignment explanation
Indices: 66554435--66554522 Score: 72
Period size: 6 Copynumber: 14.3 Consensus size: 6
66554425 ATTTTGTTAC
* * * *
66554435 CTGATA CTGATT CTGATT CTAATT CTG-TCGC CTAATT CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGAT--T CTGATT CTGATT CTGATT
* *
66554484 CTG-TCAC CTGATT CTGATT CTGATT CTAATT CTGATT CT
1 CTGAT--T CTGATT CTGATT CTGATT CTGATT CTGATT CT
66554523 AGTTTTGATA
Statistics
Matches: 65, Mismatches: 11, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
5 2 0.03
6 56 0.86
7 5 0.08
8 2 0.03
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.45
Consensus pattern (6 bp):
CTGATT
Found at i:66554476 original size:31 final size:31
Alignment explanation
Indices: 66554413--66554517 Score: 96
Period size: 31 Copynumber: 3.6 Consensus size: 31
66554403 TTGCATTCAC
* * * * * *
66554413 ATTCTGATTTTTATTTTGTTACCTGATACTG
1 ATTCTGATTCTAATTCTGTCACCTAATTCTG
*
66554444 ATTCTGATTCTAATTCTGTCGCCTAATTCTG
1 ATTCTGATTCTAATTCTGTCACCTAATTCTG
*
66554475 ATTCTG------ATTCTGTCACCTGATTCTG
1 ATTCTGATTCTAATTCTGTCACCTAATTCTG
66554500 ATTCTGATTCTAATTCTG
1 ATTCTGATTCTAATTCTG
66554518 ATTCTAGTTT
Statistics
Matches: 59, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
25 23 0.39
31 36 0.61
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTAATTCTGTCACCTAATTCTG
Found at i:66554478 original size:25 final size:25
Alignment explanation
Indices: 66554444--66554510 Score: 107
Period size: 25 Copynumber: 2.7 Consensus size: 25
66554434 CCTGATACTG
* *
66554444 ATTCTGATTCTAATTCTGTCGCCTA
1 ATTCTGATTCTGATTCTGTCACCTA
*
66554469 ATTCTGATTCTGATTCTGTCACCTG
1 ATTCTGATTCTGATTCTGTCACCTA
66554494 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
66554511 AATTCTGATT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.18, C:0.22, G:0.13, T:0.46
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTCACCTA
Found at i:66556464 original size:27 final size:27
Alignment explanation
Indices: 66556434--66556540 Score: 124
Period size: 27 Copynumber: 4.0 Consensus size: 27
66556424 TAGAATAGTT
**
66556434 TAGTTTACCAAATTACCAAAATACCCC
1 TAGTTTATAAAATTACCAAAATACCCC
* * *
66556461 TAGTTTGTAAAATTACTAAAATACCCT
1 TAGTTTATAAAATTACCAAAATACCCC
* *
66556488 TGGTTTATAAAATCACCAAAATACCCC
1 TAGTTTATAAAATTACCAAAATACCCC
* * *
66556515 TGGTTTGTAAAATTACCGAAATACCC
1 TAGTTTATAAAATTACCAAAATACCC
66556541 TTGTAGGGTA
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 67 1.00
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.30
Consensus pattern (27 bp):
TAGTTTATAAAATTACCAAAATACCCC
Found at i:66556562 original size:27 final size:27
Alignment explanation
Indices: 66556532--66556760 Score: 232
Period size: 27 Copynumber: 8.3 Consensus size: 27
66556522 TAAAATTACC
* *
66556532 GAAATACCCTTGTAGGGTAGAAATGCT
1 GAAATACCCCTGTAGGGTAGAAATACT
* *
66556559 GAAATA-CCCTTTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAAATACT
66556585 GAAATACCCCTGTAGGGTAGAAATACCGAAAT
1 GAAATACCCCTGTAGGGTAGAAATA-C----T
* *
66556617 ACCGAAAAACCCCTGTAGGGTAGAAATACC
1 ---GAAATACCCCTGTAGGGTAGAAATACT
* *
66556647 AAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAAATACT
* *
66556674 AAAATACCCCTGTA-GGTAGAATTA-T
1 GAAATACCCCTGTAGGGTAGAAATACT
*
66556699 CGAAATACCCTTGTAGGGTAGAAATA-T
1 -GAAATACCCCTGTAGGGTAGAAATACT
*
66556726 GAAAATACCCCTGTAGGGTAGAATTACT
1 G-AAATACCCCTGTAGGGTAGAAATACT
66556754 GAAATAC
1 GAAATAC
66556761 TCTTGTAATA
Statistics
Matches: 172, Mismatches: 17, Indels: 26
0.80 0.08 0.12
Matches are distributed among these distances:
25 1 0.01
26 45 0.26
27 98 0.57
28 3 0.02
34 1 0.01
35 24 0.14
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAAATACT
Found at i:66556599 original size:53 final size:54
Alignment explanation
Indices: 66556528--66556760 Score: 238
Period size: 53 Copynumber: 4.2 Consensus size: 54
66556518 TTTGTAAAAT
* *
66556528 TACCGAAATACCCTTGTAGGGTAGAAATGCTGAAATA-CCCTTTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAATGCTGAAATACCCCTGTAGGGTAGAAA
* *
66556581 TACCGAAATACCCCTGTAGGGTAGAAATACCGAAATACCGAAAAACCCCTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAAT---G-----CTGAAATACCCCTGTAGGGTAGAAA
* * * * *
66556643 TACCAAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTA-GGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAATGCTGAAATACCCCTGTAGGGTAGAAA
* * * *
66556696 TATCGAAATACCCTTGTAGGGTAGAAAT-ATGAAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAATGCTG-AAATACCCCTGTAGGGTAGAAA
*
66556750 TACTGAAATAC
1 TACCGAAATAC
66556761 TCTTGTAATA
Statistics
Matches: 150, Mismatches: 19, Indels: 21
0.79 0.10 0.11
Matches are distributed among these distances:
52 1 0.01
53 71 0.47
54 30 0.20
56 1 0.01
61 6 0.04
62 41 0.27
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.23
Consensus pattern (54 bp):
TACCGAAATACCCCTGTAGGGTAGAAATGCTGAAATACCCCTGTAGGGTAGAAA
Found at i:66556614 original size:80 final size:79
Alignment explanation
Indices: 66556506--66556760 Score: 262
Period size: 80 Copynumber: 3.1 Consensus size: 79
66556496 AAAATCACCA
**
66556506 AAATACCCCTGGTTTGTA-AAATTACCGAAATACCCTTGTAGGGTAGAAATGCTGAAATA-CCCT
1 AAATACCCCT-GTAGGTAGAAA-TACCGAAATACCCTTGTAGGGTAGAAAT-CTGAAATACCCCT
* * *
66556569 TTAGGGTAGAAATACCG
63 GTAGGGTAGAATTACTG
* **
66556586 AAATACCCCTGTAGGGTAGAAATACCGAAATACCGAAAAACCCCTGTAGGGTAGAAATACCAAAA
1 AAATACCCCTGTA-GGTAGAAATACCGAAAT--------ACCCTTGTAGGGTAGAAAT-CTGAAA
*
66556651 TACCCCTGTAGGGTAGAATTACTA
56 TACCCCTGTAGGGTAGAATTACTG
* * *
66556675 AAATACCCCTGTAGGTAGAATTATCGAAATACCCTTGTAGGGTAGAAATATGAAAATACCCCTGT
1 AAATACCCCTGTAGGTAGAAATACCGAAATACCCTTGTAGGGTAGAAATCTG-AAATACCCCTGT
66556740 AGGGTAGAATTACTG
65 AGGGTAGAATTACTG
66556755 AAATAC
1 AAATAC
66556761 TCTTGTAATA
Statistics
Matches: 146, Mismatches: 17, Indels: 24
0.78 0.09 0.13
Matches are distributed among these distances:
79 2 0.01
80 72 0.49
81 3 0.02
88 39 0.27
89 30 0.21
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.24
Consensus pattern (79 bp):
AAATACCCCTGTAGGTAGAAATACCGAAATACCCTTGTAGGGTAGAAATCTGAAATACCCCTGTA
GGGTAGAATTACTG
Found at i:66556616 original size:35 final size:35
Alignment explanation
Indices: 66556577--66556654 Score: 138
Period size: 35 Copynumber: 2.2 Consensus size: 35
66556567 CTTTAGGGTA
*
66556577 GAAATACCGAAATACCCCTGTAGGGTAGAAATACC
1 GAAATACCGAAAAACCCCTGTAGGGTAGAAATACC
66556612 GAAATACCGAAAAACCCCTGTAGGGTAGAAATACC
1 GAAATACCGAAAAACCCCTGTAGGGTAGAAATACC
*
66556647 AAAATACC
1 GAAATACC
66556655 CCTGTAGGGT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.44, C:0.23, G:0.18, T:0.15
Consensus pattern (35 bp):
GAAATACCGAAAAACCCCTGTAGGGTAGAAATACC
Found at i:66556679 original size:62 final size:62
Alignment explanation
Indices: 66556565--66556681 Score: 189
Period size: 62 Copynumber: 1.9 Consensus size: 62
66556555 TGCTGAAATA
* * *
66556565 CCCTTTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAAATACCGAAATACCGAAAAAC
1 CCCTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAAATACCAAAATACCGAAAAAC
* *
66556627 CCCTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTACTAAAATACC
1 CCCTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAAATACCAAAATACC
66556682 CCTGTAGGTA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 50 1.00
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.20
Consensus pattern (62 bp):
CCCTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAAATACCAAAATACCGAAAAAC
Found at i:66556788 original size:54 final size:54
Alignment explanation
Indices: 66556616--66556789 Score: 183
Period size: 54 Copynumber: 3.2 Consensus size: 54
66556606 AATACCGAAA
* * ** *
66556616 TACCGAAAAACCCCTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAAT
** *
66556670 TACTAAAATACCCCTGTA-GGTAGAATTA-TCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAATTACT-GAAATACCCTTGTAGGGTAGAAT
* * ***
66556723 TA-TGAAAATACCCCTGTAGGGTAGAATTACTGAAATACTCTTGTAATATAGAAT
1 TACCG-AAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAAT
*
66556777 TACCGAGATACCC
1 TACCGAAATACCC
66556790 TTATGGGGTA
Statistics
Matches: 99, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
52 1 0.01
53 44 0.44
54 52 0.53
55 2 0.02
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (54 bp):
TACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAAT
Found at i:66558732 original size:40 final size:40
Alignment explanation
Indices: 66558673--66558814 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
66558663 AAATTGAATG
* * *
66558673 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
66558713 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
66558753 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
66558793 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
66558815 GCATTTGTGC
Statistics
Matches: 85, Mismatches: 16, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 3 0.04
40 82 0.96
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.21
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:66558838 original size:40 final size:39
Alignment explanation
Indices: 66558711--66558840 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 39
66558701 ATGCTGGAAA
* * *
66558711 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-A-CAGC
* *
66558752 -TATATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAG-C
*
66558790 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACA-GC
66558831 TTATATCCGG
1 TTATATCCGG
66558841 TTATATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
40 70 0.93
41 2 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAGC
Found at i:66561422 original size:40 final size:40
Alignment explanation
Indices: 66561377--66561544 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
66561367 CGGAATATAA
*
66561377 CCGGATATAAGCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAGCACT-AGCACAAATGCCTTCGGGTCTTAGC
* * *
66561417 CCGGATAGAATG-ACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-GCACTAGCACAAATGCCTTCGGGTCTTAGC
* *
66561457 CCGGATAT-AGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAG-CACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
66561497 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAAGCACTAGCACAAATGCCTTCGGGTCTTAGC
66561537 CCGGATAT
1 CCGGATAT
66561545 CATTCAATTT
Statistics
Matches: 107, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 102 0.95
41 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAAGCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:66561527 original size:80 final size:80
Alignment explanation
Indices: 66561393--66561544 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
66561383 ATAAGCATGT
* *
66561393 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
66561458 CGGATATAGCCACTA
66 CGGATATAGCCACTA
* * ** * *
66561473 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
66561536 CCCGGATAT
64 CCCGGATAT
66561545 CATTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.05
80 59 0.95
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCACTA
Found at i:66567604 original size:2 final size:2
Alignment explanation
Indices: 66567597--66567640 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
66567587 AGTATAGTTG
* * *
66567597 AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AT AG AT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
66567639 AT
1 AT
66567641 TCGGCCATCA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (2 bp):
AT
Found at i:66568303 original size:29 final size:29
Alignment explanation
Indices: 66568268--66568341 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
66568258 GTTGTGAGAT
* *
66568268 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
66568297 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
*
66568326 TGACACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
66568342 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 5 0.12
29 35 0.88
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:66570762 original size:13 final size:13
Alignment explanation
Indices: 66570744--66570775 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
66570734 GTTGTTAGGG
66570744 GAAATCCACTAAC
1 GAAATCCACTAAC
66570757 GAAATCCACTAAC
1 GAAATCCACTAAC
*
66570770 AAAATC
1 GAAATC
66570776 AATAGTCACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.50, C:0.28, G:0.06, T:0.16
Consensus pattern (13 bp):
GAAATCCACTAAC
Found at i:66585869 original size:24 final size:25
Alignment explanation
Indices: 66585837--66585888 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
66585827 GCCTATCCTC
*
66585837 TTTTAGT-AACTGGGGCAAAGCCCT
1 TTTTAGTAAACTAGGGCAAAGCCCT
*
66585861 TTTTGGTAAACTAGGGCAAAGCCCT
1 TTTTAGTAAACTAGGGCAAAGCCCT
66585886 TTT
1 TTT
66585889 AGCACTTCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (25 bp):
TTTTAGTAAACTAGGGCAAAGCCCT
Found at i:66586125 original size:27 final size:27
Alignment explanation
Indices: 66586095--66586319 Score: 285
Period size: 27 Copynumber: 8.3 Consensus size: 27
66586085 GGCAAAATGG
* * * *
66586095 TAATTTTACCCCACAAGGGTATCTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
*
66586122 TAATTCTACCCTATAGGGGTATTTC-A
1 TAATTCTACCCTACAGGGGTATTTCGA
* * * *
66586148 GTATTTCTACCCTACAAGGGTATCTCGG
1 -TAATTCTACCCTACAGGGGTATTTCGA
66586176 TAATTCTACCCTACAGGGGTATTTC-A
1 TAATTCTACCCTACAGGGGTATTTCGA
*
66586202 GTAGTTCTACCCTACAGGGGTATTTCGA
1 -TAATTCTACCCTACAGGGGTATTTCGA
* *
66586230 TAATTCTACCCTACAGGGTTATTT-TA
1 TAATTCTACCCTACAGGGGTATTTCGA
66586256 GTAATTCTACCCTACAGGGGTATTTCGA
1 -TAATTCTACCCTACAGGGGTATTTCGA
*
66586284 TAATTCTACCCTACAGGGGTATTTTGA
1 TAATTCTACCCTACAGGGGTATTTCGA
66586311 TAATTCTAC
1 TAATTCTAC
66586320 AAATCGAGAG
Statistics
Matches: 171, Mismatches: 21, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
26 2 0.01
27 167 0.98
28 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGA
Found at i:66586334 original size:54 final size:54
Alignment explanation
Indices: 66586094--66586307 Score: 320
Period size: 54 Copynumber: 4.0 Consensus size: 54
66586084 GGGCAAAATG
* * * * *
66586094 GTAATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCA
* * * *
66586148 GTATTTCTACCCTACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCA
* * *
66586202 GTAGTTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGTTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCA
66586256 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTT
1 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTT
66586308 TGATAATTCT
Statistics
Matches: 147, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 147 1.00
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (54 bp):
GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCA
Found at i:66586355 original size:54 final size:55
Alignment explanation
Indices: 66586271--66586545 Score: 258
Period size: 54 Copynumber: 5.1 Consensus size: 55
66586261 TCTACCCTAC
* * ** * *
66586271 AGGGGTATTTCGATAATTCTACCCTAC-AGGGGTATTTTGATAATTCTACAAATCG
1 AGGGGTATTTTGATAATTTTA-CAAACTAGGGGTATTTTGGTAATTTTACAAATCG
* * * *
66586326 A-GAGTATTTTGATAATTTCACAAA-TCAGGGGTATTTTGGTAATTTTAC-AAGCT
1 AGGGGTATTTTGATAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAATCG
* * *
66586379 AGGGGTATTTTGGTAATTTTACAAGCTAGGGGTATTTTGGTAATTTTACAAA-CC
1 AGGGGTATTTTGATAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATCG
**
66586433 AGGGGTATTTT-AGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACTGATCG
1 AGGGGTATTTTGA-TAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATCG
* ** * * ** **
66586488 A-GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTATTAATTTTGTAAATCG
1 AGGGGTATTTTGATAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATCG
66586542 AGGG
1 AGGG
66586546 TAAAACGATA
Statistics
Matches: 180, Mismatches: 31, Indels: 18
0.79 0.14 0.08
Matches are distributed among these distances:
53 6 0.03
54 166 0.92
55 8 0.04
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.39
Consensus pattern (55 bp):
AGGGGTATTTTGATAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATCG
Found at i:66586355 original size:81 final size:81
Alignment explanation
Indices: 66586189--66586505 Score: 233
Period size: 81 Copynumber: 3.9 Consensus size: 81
66586179 TTCTACCCTA
* * * **
66586189 CAGGGGTATTTC-AGTAGTTCTACCCTAC-AGGGGTATTTCGATAATTCTACCCTAC-AGGGTTA
1 CAGGGGTATTTCGAGTAATTCTA-CCAACTAGGGGTATTTTGATAATTCTACAAT-CGAGGG-TA
**
66586251 TTTT-AGTAA-TTCTAC-CCT
63 TTTTGA-TAATTTC-ACAAAT
* *
66586269 ACAGGGGTATTTCGA-TAATTCTACCCTAC-AGGGGTATTTTGATAATTCTACAAATCGAGAGTA
1 -CAGGGGTATTTCGAGTAATTCTA-CCAACTAGGGGTATTTTGATAATTCTAC-AATCGAGGGTA
66586332 TTTTGATAATTTCACAAAT
63 TTTTGATAATTTCACAAAT
* * * * * *
66586351 CAGGGGTATTTTG-GTAATTTTA-CAAGCTAGGGGTATTTTGGTAATTTTACAAGCTAGGGGTAT
1 CAGGGGTATTTCGAGTAATTCTACCAA-CTAGGGGTATTTTGATAATTCTACAATCGA-GGGTAT
* * *
66586414 TTTGGTAATTTTACAAAC
64 TTTGATAATTTCACAAAT
* * * * * *
66586432 CAGGGGTATTT-TAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACTGATCGAGGGTATT
1 CAGGGGTATTTCGAGTAATTCTACCAACTAGGGGTATTTTGATAATTCTAC-AATCGAGGGTATT
*
66586496 TTGGTAATTT
65 TTGATAATTT
66586506 TGTAAACCAA
Statistics
Matches: 200, Mismatches: 23, Indels: 26
0.80 0.09 0.10
Matches are distributed among these distances:
79 2 0.01
80 5 0.03
81 178 0.89
82 15 0.08
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.38
Consensus pattern (81 bp):
CAGGGGTATTTCGAGTAATTCTACCAACTAGGGGTATTTTGATAATTCTACAATCGAGGGTATTT
TGATAATTTCACAAAT
Found at i:66586506 original size:81 final size:80
Alignment explanation
Indices: 66586298--66586533 Score: 310
Period size: 81 Copynumber: 2.9 Consensus size: 80
66586288 TCTACCCTAC
* * * * * *
66586298 AGGGGTATTTTGATAATTCTACAAATCGAGAGTATTTTGATAATTTCACAAATCAGGGGTATTTT
1 AGGGGTATTTTGGTAATTTTAC-AATCGAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTT
* *
66586363 GGTAATTTTACAAGCT
65 AGTAATTTTACAAACT
* *
66586379 AGGGGTATTTTGGTAATTTTACAAGCTAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAATCGA-GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTT
66586444 AGTAATTTTACAAACT
65 AGTAATTTTACAAACT
* ** *
66586460 AGGGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTAC-AATCGAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTT
*
66586525 ATTAATTTT
65 AGTAATTTT
66586534 GTAAATCGAG
Statistics
Matches: 136, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
80 4 0.03
81 129 0.95
82 3 0.02
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (80 bp):
AGGGGTATTTTGGTAATTTTACAATCGAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTA
GTAATTTTACAAACT
Found at i:66586518 original size:27 final size:27
Alignment explanation
Indices: 66586297--66586533 Score: 253
Period size: 27 Copynumber: 8.8 Consensus size: 27
66586287 TTCTACCCTA
* * *
66586297 CAGGGGTATTTTGATAATTCTACAAAT
1 CAGGGGTATTTTGGTAATTTTACAAAC
* * * *
66586324 C-GAGAGTATTTTGATAATTTCACAAAT
1 CAG-GGGTATTTTGGTAATTTTACAAAC
*
66586351 CAGGGGTATTTTGGTAATTTTACAAGC
1 CAGGGGTATTTTGGTAATTTTACAAAC
* *
66586378 TAGGGGTATTTTGGTAATTTTACAAGC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
66586405 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
66586432 CAGGGGTATTTTAGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
* ** *
66586459 TAGGGGTATTTTGGTAATTTTACTGAT
1 CAGGGGTATTTTGGTAATTTTACAAAC
**
66586486 C-GAGGGTATTTTGGTAATTTTGTAAAC
1 CAG-GGGTATTTTGGTAATTTTACAAAC
* **
66586513 CAAGGGTATTTTATTAATTTT
1 CAGGGGTATTTTGGTAATTTT
66586534 GTAAATCGAG
Statistics
Matches: 180, Mismatches: 26, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
26 2 0.01
27 177 0.98
28 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTACAAAC
Found at i:66586558 original size:81 final size:81
Alignment explanation
Indices: 66586322--66586558 Score: 190
Period size: 81 Copynumber: 2.9 Consensus size: 81
66586312 AATTCTACAA
* * * * * * * * *
66586322 ATCGAGAGTATTTTGATAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAGCTAGGGGTAT
1 ATCGAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACGAGGGGTAA
*** * *
66586387 TTTGGTAATTTTAC-A
66 AACGATAATTTTACTG
* * * *
66586402 AGCTAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACTAGGGGTA
1 ATCGA-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACGAGGGGTA
**** *
66586467 TTTTGGTAATTTTACTG
65 AAACGATAATTTTACTG
** * **
66586484 ATCGAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTATTAATTTTGTAAATCGA-GGGTA
1 ATCGAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAA-CGAGGGGTA
66586548 AAACGATAATT
65 AAACGATAATT
66586559 CTATAAATCG
Statistics
Matches: 131, Mismatches: 23, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
80 3 0.02
81 123 0.94
82 5 0.04
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (81 bp):
ATCGAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACGAGGGGTAA
AACGATAATTTTACTG
Found at i:66586569 original size:81 final size:81
Alignment explanation
Indices: 66586498--66586702 Score: 196
Period size: 81 Copynumber: 2.5 Consensus size: 81
66586488 AGGGTATTTT
* *** * * *
66586498 GGTAATTTTGTAAACCAAGGGTATTTTATTAATTTTGTAAATCGAGGGTAAAACGATAATTCTAT
1 GGTAATTTTATAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGATAATTCTAT
66586563 AAATCGAGGGTAAAAC
66 AAATCGAGGGTAAAAC
* * * * * *
66586579 GGTAATTTTATAAATCGAGGGTAAAATAGTACTTCTATAAATCGAGGGTAAAATGGTAATTCTGT
1 GGTAATTTTATAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGATAATTCTAT
* *
66586644 AAATCAAGGGTAAAAT
66 AAATCGAGGGTAAAAC
* * * * * * *
66586660 GGTCATTCTGTAAATCGAGGGTAAAA-CGATAATTCTGTAAATC
1 GGTAATTTTATAAACCAAGGGTAAAATAG-TAATTCTATAAATC
66586703 AAAGGTACTT
Statistics
Matches: 102, Mismatches: 21, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
80 1 0.01
81 101 0.99
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.32
Consensus pattern (81 bp):
GGTAATTTTATAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGATAATTCTAT
AAATCGAGGGTAAAAC
Found at i:66586709 original size:27 final size:27
Alignment explanation
Indices: 66586527--66586702 Score: 210
Period size: 27 Copynumber: 6.5 Consensus size: 27
66586517 GGTATTTTAT
*
66586527 TAATTTTGTAAATCGAGGGTAAAACGA
1 TAATTCTGTAAATCGAGGGTAAAACGA
* *
66586554 TAATTCTATAAATCGAGGGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAACGA
* * *
66586581 TAATTTTATAAATCGAGGGTAAAA-TA
1 TAATTCTGTAAATCGAGGGTAAAACGA
* * * *
66586607 GTACTTCTATAAATCGAGGGTAAAATGG
1 -TAATTCTGTAAATCGAGGGTAAAACGA
* * *
66586635 TAATTCTGTAAATCAAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAACGA
*
66586662 TCATTCTGTAAATCGAGGGTAAAACGA
1 TAATTCTGTAAATCGAGGGTAAAACGA
66586689 TAATTCTGTAAATC
1 TAATTCTGTAAATC
66586703 AAAGGTACTT
Statistics
Matches: 129, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
27 129 1.00
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (27 bp):
TAATTCTGTAAATCGAGGGTAAAACGA
Found at i:66586728 original size:27 final size:27
Alignment explanation
Indices: 66586706--66586884 Score: 175
Period size: 27 Copynumber: 6.7 Consensus size: 27
66586696 GTAAATCAAA
*
66586706 GGTACTTT-GGTAATTTTACAAATTGAG
1 GGTA-TTTCGGTAATTTTACAAATCGAG
* ** *
66586733 GGCATTTTAGTAATTTTAC-AATCGAC
1 GGTATTTCGGTAATTTTACAAATCGAG
* * *
66586759 GGTATTTCGGTAATTTTATAAACCGGG
1 GGTATTTCGGTAATTTTACAAATCGAG
* * *
66586786 GGTACTTT-GGTAATTTTACAAGTTGAA
1 GGTA-TTTCGGTAATTTTACAAATCGAG
*
66586813 GGTATTTCAGTAATTTTACAAATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAG
* **
66586840 GGTATTTCAGTAATTTTACAAATTAAG
1 GGTATTTCGGTAATTTTACAAATCGAG
*
66586867 GGTATTTCGATAATTTTA
1 GGTATTTCGGTAATTTTA
66586885 GTAAACTAAA
Statistics
Matches: 123, Mismatches: 25, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
26 26 0.21
27 94 0.76
28 3 0.02
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
GGTATTTCGGTAATTTTACAAATCGAG
Found at i:66586734 original size:54 final size:54
Alignment explanation
Indices: 66586527--66586734 Score: 191
Period size: 54 Copynumber: 3.9 Consensus size: 54
66586517 GGTATTTTAT
* * * * * * *
66586527 TAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGG
1 TAATTCTGTAAATCAAAGGTAAAATGGTAATTCTACAAATCGAGGGTAAAACGA
* * * * * * * * *
66586581 TAATTTTATAAATCGAGGGTAAAATAGTACTTCTATAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATCAAAGGTAAAATGGTAATTCTACAAATCGAGGGTAAAACGA
* * **
66586635 TAATTCTGTAAATCAAGGGTAAAATGGTCATTCTGTAAATCGAGGGTAAAACGA
1 TAATTCTGTAAATCAAAGGTAAAATGGTAATTCTACAAATCGAGGGTAAAACGA
*** * *
66586689 TAATTCTGTAAATCAAAGGTACTTTGGTAATTTTACAAATTGAGGG
1 TAATTCTGTAAATCAAAGGTAAAATGGTAATTCTACAAATCGAGGG
66586735 CATTTTAGTA
Statistics
Matches: 130, Mismatches: 24, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 130 1.00
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.31
Consensus pattern (54 bp):
TAATTCTGTAAATCAAAGGTAAAATGGTAATTCTACAAATCGAGGGTAAAACGA
Found at i:66586795 original size:80 final size:81
Alignment explanation
Indices: 66586706--66586857 Score: 243
Period size: 80 Copynumber: 1.9 Consensus size: 81
66586696 GTAAATCAAA
* * *
66586706 GGTACTTTGGTAATTTTACAAATTGAGGGCATTTTAGTAATTTTAC-AATCGACGGTATTTCGGT
1 GGTACTTTGGTAATTTTACAAATTGAAGGCATTTCAGTAATTTTACAAATCGACGGTATTTCAGT
66586770 AATTTTATAAACCGGG
66 AATTTTATAAACCGGG
* * *
66586786 GGTACTTTGGTAATTTTACAAGTTGAAGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGT
1 GGTACTTTGGTAATTTTACAAATTGAAGGCATTTCAGTAATTTTACAAATCGACGGTATTTCAGT
66586851 AATTTTA
66 AATTTTA
66586858 CAAATTAAGG
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
80 42 0.65
81 23 0.35
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (81 bp):
GGTACTTTGGTAATTTTACAAATTGAAGGCATTTCAGTAATTTTACAAATCGACGGTATTTCAGT
AATTTTATAAACCGGG
Found at i:66586882 original size:81 final size:80
Alignment explanation
Indices: 66586706--66586884 Score: 216
Period size: 80 Copynumber: 2.2 Consensus size: 80
66586696 GTAAATCAAA
* * * *
66586706 GGTACTTTGGTAATTTTACAAATTGAGGGCATTTTAGTAATTTTACAATCGACGGTATTTCGGTA
1 GGTACTTTGATAATTTTACAAATTGAAGGCATTTCAGTAATTTTACAATCGACGGTATTTCAGTA
* **
66586771 ATTTTATAAACCGGG
66 ATTTTACAAACCAAG
* * * *
66586786 GGTACTTTGGTAATTTTACAAGTTGAAGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGT
1 GGTACTTTGATAATTTTACAAATTGAAGGCATTTCAGTAATTTTAC-AATCGACGGTATTTCAGT
**
66586851 AATTTTACAAATTAAG
65 AATTTTACAAACCAAG
66586867 GGTA-TTTCGATAATTTTA
1 GGTACTTT-GATAATTTTA
66586885 GTAAACTAAA
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
80 45 0.53
81 40 0.47
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (80 bp):
GGTACTTTGATAATTTTACAAATTGAAGGCATTTCAGTAATTTTACAATCGACGGTATTTCAGTA
ATTTTACAAACCAAG
Found at i:66592599 original size:64 final size:64
Alignment explanation
Indices: 66592525--66592652 Score: 229
Period size: 64 Copynumber: 2.0 Consensus size: 64
66592515 AAAGAAAATG
* *
66592525 AAACTAATTTTAAAGAAATAAACTAGGTTAATGGAAAGGTGTCTTTAACATGTTCCAAAGGTGC
1 AAACTAATTTTAAAGAAAGAAACTAGGTTAATGGAAAGGTGTCTTTAACATGTGCCAAAGGTGC
*
66592589 AAACTAATTTTAAAGAAAGAAACTAGGTTAATGGAAAGTTGTCTTTAACATGTGCCAAAGGTGC
1 AAACTAATTTTAAAGAAAGAAACTAGGTTAATGGAAAGGTGTCTTTAACATGTGCCAAAGGTGC
66592653 CTATTTATAG
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 61 1.00
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.29
Consensus pattern (64 bp):
AAACTAATTTTAAAGAAAGAAACTAGGTTAATGGAAAGGTGTCTTTAACATGTGCCAAAGGTGC
Found at i:66593274 original size:13 final size:13
Alignment explanation
Indices: 66593256--66593282 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
66593246 TCAAGTGGAA
66593256 CTTATCATAGTAT
1 CTTATCATAGTAT
66593269 CTTATCATAGTAT
1 CTTATCATAGTAT
66593282 C
1 C
66593283 CATAAATTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.19, G:0.07, T:0.44
Consensus pattern (13 bp):
CTTATCATAGTAT
Found at i:66601837 original size:42 final size:43
Alignment explanation
Indices: 66601776--66601895 Score: 140
Period size: 43 Copynumber: 2.8 Consensus size: 43
66601766 AGGGTTACTG
* **
66601776 AGATTACATGTAAGGCCATATCT-GGCATATGGCATCGATATG
1 AGATTACATGTAAGACCATATCTAGGCATATGGCATCGATACA
* * *
66601818 AGACTT-CGTGTAAGACCATAGCTGGGC-TATTGGCATCGATACA
1 AGA-TTACATGTAAGACCATATCTAGGCATA-TGGCATCGATACA
66601861 AGATTACATGTAAGACCATATCTAGG-ATATGGCAT
1 AGATTACATGTAAGACCATATCTAGGCATATGGCAT
66601896 TGGTACGGTA
Statistics
Matches: 65, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
42 27 0.42
43 38 0.58
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (43 bp):
AGATTACATGTAAGACCATATCTAGGCATATGGCATCGATACA
Found at i:66603791 original size:24 final size:24
Alignment explanation
Indices: 66603764--66603810 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
66603754 AAACCTAATT
66603764 CTAATCAAA-ATCAAATATATTATG
1 CTAAT-AAATATCAAATATATTATG
* *
66603788 CTAATAAATGTTAAATATATTAT
1 CTAATAAATATCAAATATATTAT
66603811 ATTTATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.38
Consensus pattern (24 bp):
CTAATAAATATCAAATATATTATG
Found at i:66603826 original size:24 final size:24
Alignment explanation
Indices: 66603776--66603827 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
66603766 AATCAAAATC
* **
66603776 AAATATATTATGCTAATAAATGTT
1 AAATATATTATACTAATAAATACT
* *
66603800 AAATATATTATATTTATAAATACT
1 AAATATATTATACTAATAAATACT
66603824 AAAT
1 AAAT
66603828 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:66608230 original size:24 final size:24
Alignment explanation
Indices: 66608178--66608231 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
66608168 AATCAAAGTC
* *
66608178 AAATATATTATGCTAATAAATACT
1 AAATCTATTATACTAATAAATACT
*
66608202 AAATCTATTATACTCATAAATACT
1 AAATCTATTATACTAATAAATACT
66608226 AAATCT
1 AAATCT
66608232 TTTAGAAAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.37
Consensus pattern (24 bp):
AAATCTATTATACTAATAAATACT
Found at i:66608705 original size:7 final size:7
Alignment explanation
Indices: 66608693--66608723 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
66608683 AGGAAAAGAA
66608693 AAAGGGG
1 AAAGGGG
66608700 AAAGGGG
1 AAAGGGG
66608707 AAAGGGG
1 AAAGGGG
66608714 AAAGGGG
1 AAAGGGG
66608721 AAA
1 AAA
66608724 AAGGGAAGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (7 bp):
AAAGGGG
Found at i:66608732 original size:14 final size:15
Alignment explanation
Indices: 66608690--66608730 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
66608680 GGAAGGAAAA
66608690 GAAAAAGGGGAAAGGG
1 GAAAAA-GGGAAAGGG
*
66608706 G-AAAGGGGAAAGGG
1 GAAAAAGGGAAAGGG
66608720 GAAAAAGGGAA
1 GAAAAAGGGAA
66608731 GGAAGGGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 10 0.45
15 11 0.50
16 1 0.05
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (15 bp):
GAAAAAGGGAAAGGG
Found at i:66609868 original size:19 final size:20
Alignment explanation
Indices: 66609836--66609873 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
66609826 CAAATACATC
66609836 TAAAACATAAAAACAAATAT
1 TAAAACATAAAAACAAATAT
66609856 TAAAACA-AAAAACAAATA
1 TAAAACATAAAAACAAATA
66609874 AAAAATGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.16
Consensus pattern (20 bp):
TAAAACATAAAAACAAATAT
Found at i:66616905 original size:21 final size:21
Alignment explanation
Indices: 66616879--66616924 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
66616869 TTAATGAGTT
66616879 ACACGGGCGTGTGTAGTAGCC
1 ACACGGGCGTGTGTAGTAGCC
* *
66616900 ACACGGGTGTGTGTAGTAGTC
1 ACACGGGCGTGTGTAGTAGCC
66616921 ACAC
1 ACAC
66616925 AGTTTAGGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.22, C:0.22, G:0.35, T:0.22
Consensus pattern (21 bp):
ACACGGGCGTGTGTAGTAGCC
Found at i:66624348 original size:26 final size:26
Alignment explanation
Indices: 66624318--66624425 Score: 191
Period size: 26 Copynumber: 4.2 Consensus size: 26
66624308 TGAAATTCCC
66624318 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
66624344 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
66624370 ATCAT-GAAGCATTTACCTAACCCATT
1 ATCATGGAA-CATTTACCTAACCCATT
*
66624396 ATCATGGAACATTTACCTAGCCCATT
1 ATCATGGAACATTTACCTAACCCATT
66624422 ATCA
1 ATCA
66624426 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
25 3 0.04
26 73 0.92
27 3 0.04
ACGTcount: A:0.34, C:0.27, G:0.08, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:66636164 original size:50 final size:49
Alignment explanation
Indices: 66636089--66636323 Score: 208
Period size: 50 Copynumber: 4.7 Consensus size: 49
66636079 TGAATACACG
* *
66636089 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCATACTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGACTGTTAA-TCGCA
* * *
66636139 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACT-TTGAT--CA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TC-A-GACTGTTAATCGCA
* * * * *
66636188 TGTTTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TGATGAGGTCACG
1 TG--TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGACTG-TTA-ATCGCA
* * * * * *
66636240 TGTGTAGTACTAAGTGTAGGCTACTACATGTACCGGATTGTTGATCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGACTGTTAATCGCA
* *
66636289 TGTGTAGTACTAAGTGCAGGCTACTATGCGTATCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCA
66636324 AATAGCTTCG
Statistics
Matches: 148, Mismatches: 26, Indels: 23
0.75 0.13 0.12
Matches are distributed among these distances:
47 1 0.01
48 2 0.01
49 38 0.26
50 64 0.43
51 33 0.22
52 7 0.05
53 3 0.02
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGACTGTTAATCGCA
Found at i:66636291 original size:101 final size:98
Alignment explanation
Indices: 66636089--66636314 Score: 251
Period size: 101 Copynumber: 2.3 Consensus size: 98
66636079 TGAATACACG
* * * * *
66636089 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCATACTGTTAAGTCGCATGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTGAAGTCACATGTGTAGTACTAAGT
** *
66636154 GCAGGCTACTATGCGTACTCAATGACTTTGATCA
66 GCAGGCTACTACACGTACTC-AGGACTTTGATCA
* *
66636188 TGTTTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TGATGAGGTCACGTGTGTAGTACTA
1 TG--TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTG-TGAAGTCACATGTGTAGTACTA
* * *
66636252 AGTGTAGGCTACTACATGTAC-C-GGATTGTTGATCGCA
63 AGTGCAGGCTACTACACGTACTCAGGACT-TTGAT--CA
66636289 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
66636315 TGCGTATCAA
Statistics
Matches: 108, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
98 3 0.03
99 31 0.29
100 3 0.03
101 71 0.66
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (98 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTGAAGTCACATGTGTAGTACTAAGT
GCAGGCTACTACACGTACTCAGGACTTTGATCA
Found at i:66647916 original size:40 final size:40
Alignment explanation
Indices: 66647871--66648000 Score: 158
Period size: 40 Copynumber: 3.2 Consensus size: 40
66647861 CGGAATATAA
*
66647871 CCGGATATAAGCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAGCACT-AGCACAAATGCCTTCGGGTCTTAGC
* * *
66647911 CCGGATAGAATG-ACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-GCACTAGCACAAATGCCTTCGGGTCTTAGC
* *
66647951 CCGGATAT-AGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAG-CACTAGCACAAATGCCTTCGGGTCTTAGC
66647991 CCGGATATAA
1 CCGGATATAA
66648001 TTTTCAGCAT
Statistics
Matches: 77, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 72 0.94
41 3 0.04
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAAGCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:66648015 original size:40 final size:40
Alignment explanation
Indices: 66647887--66648038 Score: 157
Period size: 40 Copynumber: 3.8 Consensus size: 40
66647877 ATAAGCATGT
* *
66647887 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAAT-ACTCA
**
66647927 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACT-A
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATA-ATACTCA
* **
66647967 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATACTCA
* * * *
66648007 GCATAATTGTCTTTGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
66648039 CATTCAATTT
Statistics
Matches: 94, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
39 3 0.03
40 89 0.95
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATACTCA
Found at i:66650330 original size:49 final size:49
Alignment explanation
Indices: 66650270--66650432 Score: 209
Period size: 49 Copynumber: 3.5 Consensus size: 49
66650260 TACATATGTG
* * *
66650270 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCAATGTGGTGAATGTGAAAGTGTATGTATA
*
66650319 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAA--G--TG--TA
1 TGTGATAAGGCCTAATGGCCAATGTGGTGAATGTGAAAGTGTATGTATA
*
66650362 --TG-TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCAATGTGGTGAATGTGAAAGTGTATGTATA
*
66650408 TGTGATAAGGCCTAATGGCTAATGT
1 TGTGATAAGGCCTAATGGCCAATGT
66650433 AAAATATATG
Statistics
Matches: 99, Mismatches: 6, Indels: 18
0.80 0.05 0.15
Matches are distributed among these distances:
40 33 0.33
41 2 0.02
42 1 0.01
43 2 0.02
44 2 0.02
45 2 0.02
46 2 0.02
47 1 0.01
48 2 0.02
49 52 0.53
ACGTcount: A:0.29, C:0.10, G:0.32, T:0.29
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCAATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:66650368 original size:40 final size:40
Alignment explanation
Indices: 66650324--66650405 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
66650314 GTATATGTGA
66650324 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
1 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
66650364 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
1 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
66650404 TA
1 TA
66650406 TATGTGATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.28, C:0.10, G:0.34, T:0.28
Consensus pattern (40 bp):
TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
Found at i:66650578 original size:37 final size:37
Alignment explanation
Indices: 66650528--66650612 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
66650518 GGAATATGTT
*
66650528 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
66650565 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
66650602 CCGGGTAAGAC
1 CCGGGTAAGAC
66650613 TTCTTTTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:66652484 original size:40 final size:40
Alignment explanation
Indices: 66652429--66652673 Score: 355
Period size: 40 Copynumber: 6.1 Consensus size: 40
66652419 GAGAATTGAG
*
66652429 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCATGCT
1 AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCATGCT
*
66652469 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCATGCT
1 AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCATGCT
*
66652509 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCATGCT
1 AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCATGCT
* * * *
66652549 AGTGATGTATCCGGGCAAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCATGCT
* * * *
66652589 AGTGATGTATCCGGGCAAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCATGCT
* * * *
66652629 AGTGATGTATCCGGGCTAGGTCCCGAAGAGCAATCATGCT
1 AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCATGCT
66652669 AGTGA
1 AGTGA
66652674 CGTGTATTCG
Statistics
Matches: 196, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 196 1.00
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCATGCT
Found at i:66652889 original size:29 final size:29
Alignment explanation
Indices: 66652847--66653010 Score: 283
Period size: 29 Copynumber: 5.7 Consensus size: 29
66652837 CGAATGAATA
66652847 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
66652876 GAGGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTATGTGTGCGAGATCAGTAATC
66652905 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
66652934 GAGGCACTATGTGTGCGAGATTAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
* *
66652963 GAGGCACTACGTGTGCGAGATCAGTAATT
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
66652992 GAGGCACTGTGTGTGCGAG
1 GAGGCACTATGTGTGCGAG
66653011 TTTTTCAACA
Statistics
Matches: 127, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 127 1.00
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
GAGGCACTATGTGTGCGAGATCAGTAATC
Found at i:66656448 original size:49 final size:49
Alignment explanation
Indices: 66656388--66656550 Score: 209
Period size: 49 Copynumber: 3.5 Consensus size: 49
66656378 TACATATGTG
* * *
66656388 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCAATGTGGTGAATGTGAAAGTGTATGTATA
*
66656437 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAA--G--TG--TA
1 TGTGATAAGGCCTAATGGCCAATGTGGTGAATGTGAAAGTGTATGTATA
*
66656480 --TG-TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCAATGTGGTGAATGTGAAAGTGTATGTATA
*
66656526 TGTGATAAGGCCTAATGGCTAATGT
1 TGTGATAAGGCCTAATGGCCAATGT
66656551 AAAATATATG
Statistics
Matches: 99, Mismatches: 6, Indels: 18
0.80 0.05 0.15
Matches are distributed among these distances:
40 33 0.33
41 2 0.02
42 1 0.01
43 2 0.02
44 2 0.02
45 2 0.02
46 2 0.02
47 1 0.01
48 2 0.02
49 52 0.53
ACGTcount: A:0.29, C:0.10, G:0.32, T:0.29
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCAATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:66656486 original size:40 final size:40
Alignment explanation
Indices: 66656442--66656523 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
66656432 GTATATGTGA
66656442 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
1 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
66656482 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
1 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
66656522 TA
1 TA
66656524 TATGTGATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.28, C:0.10, G:0.34, T:0.28
Consensus pattern (40 bp):
TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
Found at i:66656696 original size:37 final size:37
Alignment explanation
Indices: 66656646--66656730 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
66656636 GGAATATGTT
*
66656646 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
66656683 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
66656720 CCGGGTAAGAC
1 CCGGGTAAGAC
66656731 TTCTTTTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:66663870 original size:49 final size:47
Alignment explanation
Indices: 66663697--66663872 Score: 199
Period size: 51 Copynumber: 3.6 Consensus size: 47
66663687 TGAATACACG
* * *
66663697 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCATACTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA-A-TGTTGA-TCGCA
* * * *
66663747 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAATG--TT-GATCGCA
*
66663798 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTGTTGATCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACC--AATGTTGATCGCA
66663847 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
66663873 TGCGTATCAG
Statistics
Matches: 108, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
49 33 0.31
50 33 0.31
51 38 0.35
52 4 0.04
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (47 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAATGTTGATCGCA
Found at i:66663891 original size:100 final size:101
Alignment explanation
Indices: 66663693--66663878 Score: 311
Period size: 101 Copynumber: 1.9 Consensus size: 101
66663683 ATTGTGAATA
* * *
66663693 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCATACTGTTAAGTCGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCGCATGTGTAGTACT
66663758 AAGTGCAGGCTACTATGCGTACTCAATGACTTCGAT
66 AAGTGCAGGCTACTATGCGTACTCAATGACTTCGAT
* * *
66663794 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTGTTGA-TCGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCGCATGTGTAGTACT
66663858 AAGTGCAGGCTACTATGCGTA
66 AAGTGCAGGCTACTATGCGTA
66663879 TCAGATAGCT
Statistics
Matches: 79, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
100 37 0.47
101 42 0.53
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.31
Consensus pattern (101 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACTCAATGACTTCGAT
Found at i:66664001 original size:27 final size:26
Alignment explanation
Indices: 66663971--66664022 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
66663961 GGGAAAATCG
66663971 ATAAAGTGGTAATATGTG-AAAGTTATT
1 ATAAAGT-G-AATATGTGCAAAGTTATT
* *
66663998 ATAAGGTGAATATGTGCAAATTTAT
1 ATAAAGTGAATATGTGCAAAGTTAT
66664023 GTTTAAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 8 0.36
26 8 0.36
27 6 0.27
ACGTcount: A:0.40, C:0.02, G:0.21, T:0.37
Consensus pattern (26 bp):
ATAAAGTGAATATGTGCAAAGTTATT
Found at i:66668565 original size:25 final size:25
Alignment explanation
Indices: 66668521--66668589 Score: 68
Period size: 25 Copynumber: 2.7 Consensus size: 25
66668511 TCATCCCAAT
** *
66668521 TTTACCCTAGTAAAATTTTTTAC-AA
1 TTTACCCCGGTAAAA-TTTTGACGAA
*
66668546 TTTACTCCCGGTAAAATTTTGACGAT
1 TTTAC-CCCGGTAAAATTTTGACGAA
*
66668572 TTTACCCTGGTAAAATTT
1 TTTACCCCGGTAAAATTT
66668590 CAAGAAAACT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 23 0.62
26 14 0.38
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.42
Consensus pattern (25 bp):
TTTACCCCGGTAAAATTTTGACGAA
Found at i:66668757 original size:18 final size:18
Alignment explanation
Indices: 66668734--66668776 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
66668724 TGCAACTTTT
*
66668734 CATTTTTATTTTCGTTTC
1 CATTTTTATTTTCATTTC
66668752 CATTTTTATTTTCATTTC
1 CATTTTTATTTTCATTTC
66668770 CATTTTT
1 CATTTTT
66668777 GGAAACCTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.14, C:0.16, G:0.02, T:0.67
Consensus pattern (18 bp):
CATTTTTATTTTCATTTC
Found at i:66673604 original size:40 final size:40
Alignment explanation
Indices: 66673560--66673714 Score: 114
Period size: 40 Copynumber: 3.8 Consensus size: 40
66673550 GCTATGTTTG
* *
66673560 GCACTTAGTGTGCATTTCGAGATAGCTTCGGCTATATATA
1 GCACTAAGTGTGCAATTCGAGATAGCTTCGGCTATATATA
* * * * * *
66673600 GCACTCAGTGTGCGAATTGGA-ATAACTTTGGCTATATGTG
1 GCACTAAGTGTGC-AATTCGAGATAGCTTCGGCTATATATA
* * * * *
66673640 GCACTAAGTGTGCAATACTAAGATAGCTTCGGTTTAACATGATG
1 GCACTAAGTGTGCAATTC-GAGATAGCTTCGG-CT-ATAT-ATA
**
66673684 GCACTAAGTGTGCAATATCGTCATAGCTTCG
1 GCACTAAGTGTGCAAT-TCGAGATAGCTTCG
66673715 ACTAATCATT
Statistics
Matches: 88, Mismatches: 20, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
39 3 0.03
40 40 0.45
41 13 0.15
42 1 0.01
43 3 0.03
44 27 0.31
45 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (40 bp):
GCACTAAGTGTGCAATTCGAGATAGCTTCGGCTATATATA
Found at i:66673710 original size:44 final size:43
Alignment explanation
Indices: 66673638--66673740 Score: 111
Period size: 44 Copynumber: 2.3 Consensus size: 43
66673628 TGGCTATATG
* **
66673638 TGGCACTAAGTGTGCAATACTAAGATAGCTTCGGTTTAA-CATGA
1 TGGCACTAAGTGTGCAATACT-ACATAGCTTC-GACTAATCATGA
**
66673682 TGGCACTAAGTGTGCAATATCGT-CATAGCTTCGACTAATCATTT
1 TGGCACTAAGTGTGCAATA-C-TACATAGCTTCGACTAATCATGA
66673726 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
66673741 GAGTTCCTTG
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.08
44 45 0.88
45 1 0.02
46 1 0.02
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.31
Consensus pattern (43 bp):
TGGCACTAAGTGTGCAATACTACATAGCTTCGACTAATCATGA
Found at i:66674360 original size:19 final size:20
Alignment explanation
Indices: 66674322--66674364 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
66674312 ATGTTTTCTA
66674322 TAGTTGTTGATATAGCTAAT
1 TAGTTGTTGATATAGCTAAT
* *
66674342 TAGTTG-TGATTTAGTTAAT
1 TAGTTGTTGATATAGCTAAT
66674361 TAGT
1 TAGT
66674365 AGATGATGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.28, C:0.02, G:0.21, T:0.49
Consensus pattern (20 bp):
TAGTTGTTGATATAGCTAAT
Done.