Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 285 of 345
Found at i:85160112 original size:20 final size:22
Alignment explanation
Indices: 85160080--85160121 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
85160070 CTAAACCGAT
85160080 AACTTAGGAAAATTTTT-AAAA
1 AACTTAGGAAAATTTTTCAAAA
85160101 AACTTA-GAAAATTTTTCAAAA
1 AACTTAGGAAAATTTTTCAAAA
85160122 TATAGGGGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.33
Consensus pattern (22 bp):
AACTTAGGAAAATTTTTCAAAA
Found at i:85163082 original size:46 final size:46
Alignment explanation
Indices: 85163029--85163204 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
85163019 TATTTGGGCA
85163029 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
85163075 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
85163122 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
85163168 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
85163205 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:85163184 original size:93 final size:93
Alignment explanation
Indices: 85163025--85163196 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
85163015 GGGATATTTG
* *
85163025 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
85163090 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
85163118 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
85163183 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
85163197 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:85166176 original size:15 final size:15
Alignment explanation
Indices: 85166156--85166224 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
85166146 GTATCTTGGG
85166156 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
85166171 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
85166186 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
85166201 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
85166216 TTTCTTTAT
1 TTTCTTTAT
85166225 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:85166225 original size:30 final size:30
Alignment explanation
Indices: 85166147--85166234 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
85166137 CATAGTATCG
* * * *
85166147 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
85166177 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
85166207 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
85166235 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:85168202 original size:46 final size:46
Alignment explanation
Indices: 85168149--85168324 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
85168139 TATTTGGGCA
85168149 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
85168195 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
85168242 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
85168288 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
85168325 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:85168304 original size:93 final size:93
Alignment explanation
Indices: 85168145--85168316 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
85168135 GGGATATTTG
* *
85168145 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
85168210 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
85168238 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
85168303 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
85168317 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:85171684 original size:13 final size:13
Alignment explanation
Indices: 85171666--85171693 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
85171656 GGTACCTTGG
85171666 AGAATTTCTATCA
1 AGAATTTCTATCA
85171679 AGAATTTCTATCA
1 AGAATTTCTATCA
85171692 AG
1 AG
85171694 GATTCTAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (13 bp):
AGAATTTCTATCA
Found at i:85174391 original size:40 final size:40
Alignment explanation
Indices: 85174345--85174526 Score: 247
Period size: 40 Copynumber: 4.5 Consensus size: 40
85174335 TTATACTCTT
* * *
85174345 TGTTTGGTGTGTTTTGGTTGGATCAGCTCTTATAAGCTTC
1 TGTTTGGTGTGTTTCGGTTGGATCAGATCTTATGAGCTTC
* ** * * *
85174385 TATTTGGCATGTTTTGGTTCGATCAGATATTATGAGCTTC
1 TGTTTGGTGTGTTTCGGTTGGATCAGATCTTATGAGCTTC
*
85174425 TGTTTGGTGTGTTTCGGTTGGATCAAATCTTATGAGCTTC
1 TGTTTGGTGTGTTTCGGTTGGATCAGATCTTATGAGCTTC
* *
85174465 TGTTTGGTGTGTTTCAGTTGGATCAGCTCTTATGAGCTTC
1 TGTTTGGTGTGTTTCGGTTGGATCAGATCTTATGAGCTTC
*
85174505 TGTATGGTGTGTTTCGGTTGGA
1 TGTTTGGTGTGTTTCGGTTGGA
85174527 CTAGATTTCC
Statistics
Matches: 123, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 123 1.00
ACGTcount: A:0.14, C:0.12, G:0.28, T:0.46
Consensus pattern (40 bp):
TGTTTGGTGTGTTTCGGTTGGATCAGATCTTATGAGCTTC
Found at i:85179972 original size:20 final size:20
Alignment explanation
Indices: 85179943--85179987 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
85179933 AGCACATGTA
* *
85179943 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
85179963 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
85179983 TTCAT
1 TTCAT
85179988 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:85196925 original size:11 final size:12
Alignment explanation
Indices: 85196909--85196945 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
85196899 AGGTTTCTAG
85196909 AAGAGTTTGAA-
1 AAGAGTTTGAAT
85196920 AAGAGTTTGAAT
1 AAGAGTTTGAAT
85196932 AAG-GTTTGAAT
1 AAGAGTTTGAAT
85196943 AAG
1 AAG
85196946 TTGTTGCTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 22 0.88
12 3 0.12
ACGTcount: A:0.43, C:0.00, G:0.27, T:0.30
Consensus pattern (12 bp):
AAGAGTTTGAAT
Found at i:85198456 original size:27 final size:27
Alignment explanation
Indices: 85198399--85198459 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
85198389 CCCCCTATTT
* *
85198399 GTAAAATTACCCAAATAACATTGTAGT
1 GTAAAATTACCCAAATAACATTATAGG
* * *
85198426 GTAAAATTACCGAAATACCCTTATAGG
1 GTAAAATTACCCAAATAACATTATAGG
85198453 GTAAAAT
1 GTAAAAT
85198460 GACTGTTTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (27 bp):
GTAAAATTACCCAAATAACATTATAGG
Found at i:85198841 original size:22 final size:22
Alignment explanation
Indices: 85198807--85198886 Score: 88
Period size: 22 Copynumber: 3.6 Consensus size: 22
85198797 GCCGCTTAAT
*
85198807 CTGATTATGGCTCTGTGCCAAC
1 CTGAATATGGCTCTGTGCCAAC
* * **
85198829 CTGAATATTGCTCTGTGCTATG
1 CTGAATATGGCTCTGTGCCAAC
* *
85198851 CTGATTATGGCTCTGTACCAAC
1 CTGAATATGGCTCTGTGCCAAC
*
85198873 CTAAATATGGCTCT
1 CTGAATATGGCTCT
85198887 ATGCTATGTT
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (22 bp):
CTGAATATGGCTCTGTGCCAAC
Found at i:85198857 original size:44 final size:44
Alignment explanation
Indices: 85198807--85198912 Score: 149
Period size: 44 Copynumber: 2.4 Consensus size: 44
85198797 GCCGCTTAAT
* * * *
85198807 CTGATTATGGCTCTGTGCCAACCTGAATATTGCTCTGTGCTATG
1 CTGATTATGGCTCTGTACCAACCTAAATATGGCTCTATGCTATG
85198851 CTGATTATGGCTCTGTACCAACCTAAATATGGCTCTATGCTATG
1 CTGATTATGGCTCTGTACCAACCTAAATATGGCTCTATGCTATG
* * *
85198895 TTAATTATGGCTTTGTAC
1 CTGATTATGGCTCTGTAC
85198913 AAATCGTATT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 55 1.00
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.38
Consensus pattern (44 bp):
CTGATTATGGCTCTGTACCAACCTAAATATGGCTCTATGCTATG
Found at i:85205412 original size:68 final size:68
Alignment explanation
Indices: 85205329--85205486 Score: 298
Period size: 68 Copynumber: 2.3 Consensus size: 68
85205319 GATATATATA
85205329 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
85205394 AAT
66 AAT
85205397 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
85205462 AAT
66 AAT
* *
85205465 GTAGCTAGGTCGCATGAGTGAT
1 GTAGCTAGGTCACATGTGTGAT
85205487 TCCAAGTGAA
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 88 1.00
ACGTcount: A:0.31, C:0.15, G:0.30, T:0.24
Consensus pattern (68 bp):
GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
AAT
Found at i:85212073 original size:17 final size:18
Alignment explanation
Indices: 85212031--85212079 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
85212021 AGTTGAAAAG
85212031 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
85212050 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
85212067 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
85212080 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:85212967 original size:40 final size:40
Alignment explanation
Indices: 85212901--85213067 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
85212891 AAATTGAATG
* * *
85212901 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
85212940 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
85212980 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
85213020 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
85213060 ATATCCGG
1 ATATCCGG
85213068 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:85220034 original size:17 final size:18
Alignment explanation
Indices: 85219992--85220040 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
85219982 AGTTGAAAAG
85219992 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
85220011 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
85220028 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
85220041 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:85220926 original size:40 final size:40
Alignment explanation
Indices: 85220860--85221026 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
85220850 AAATTGAATG
* * *
85220860 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
85220899 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
85220939 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
85220979 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
85221019 ATATCCGG
1 ATATCCGG
85221027 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:85224968 original size:29 final size:27
Alignment explanation
Indices: 85224934--85225036 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
85224924 TACTCAATCA
*
85224934 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
85224963 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
85224992 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
85225021 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
85225037 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:85230206 original size:43 final size:43
Alignment explanation
Indices: 85230128--85230298 Score: 136
Period size: 43 Copynumber: 4.0 Consensus size: 43
85230118 AGCTCGTATA
* ** ***
85230128 ATGCCA-ACGTCCCAGATGTGGTCTTACATGTAATCAAATATC
1 ATGCCACACATCCCAGACATGGTCTTACACAAAATCAAATATC
* * *
85230170 ATTGCCACA-ATCCCAGACAGGGTTTTACACAAAATCAAATATG
1 A-TGCCACACATCCCAGACATGGTCTTACACAAAATCAAATATC
** * *
85230213 ATGCC-CATGTCCCAGACATGGTCTTACACGTAAATCTCAA-ATC
1 ATGCCACACATCCCAGACATGGTCTTACAC-AAAATC-AAATATC
* *
85230256 GATGCCA-ACATCCCAGACATGGTCTTACACGAAATCACATATC
1 -ATGCCACACATCCCAGACATGGTCTTACACAAAATCAAATATC
85230299 GGAATCCTAT
Statistics
Matches: 101, Mismatches: 20, Indels: 15
0.74 0.15 0.11
Matches are distributed among these distances:
41 2 0.02
42 24 0.24
43 46 0.46
44 29 0.29
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.25
Consensus pattern (43 bp):
ATGCCACACATCCCAGACATGGTCTTACACAAAATCAAATATC
Found at i:85233615 original size:27 final size:27
Alignment explanation
Indices: 85233580--85233836 Score: 324
Period size: 27 Copynumber: 9.7 Consensus size: 27
85233570 CGTACTTGAA
*
85233580 CCCTCATGTGATAAAATGACGATTTTG
1 CCCTTATGTGATAAAATGACGATTTTG
*
85233607 CCCTTATGTGATAAAATGACGATTTCG
1 CCCTTATGTGATAAAATGACGATTTTG
*
85233634 CCCTTATGTGATAAAATGATGATTTTG
1 CCCTTATGTGATAAAATGACGATTTTG
* *
85233661 TCC-T-TGTGATAAAATGACGATTTTA
1 CCCTTATGTGATAAAATGACGATTTTG
* *
85233686 CCCTCATGTGATAAAATGACAATTTTG
1 CCCTTATGTGATAAAATGACGATTTTG
* * * *
85233713 CCCTCATATGATAAAATGACAATTTTT
1 CCCTTATGTGATAAAATGACGATTTTG
*
85233740 CCCTTATGTGATAAAATGAAGATTTTG
1 CCCTTATGTGATAAAATGACGATTTTG
* *
85233767 CCCTTATATGATAAAATGACAATTTT-
1 CCCTTATGTGATAAAATGACGATTTTG
**
85233793 ATCTTATGTGATAAAATGACGATTTTG
1 CCCTTATGTGATAAAATGACGATTTTG
* *
85233820 -CCTTATATGATCAAATG
1 CCCTTATGTGATAAAATG
85233837 GTCGAAATTC
Statistics
Matches: 199, Mismatches: 28, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
25 21 0.11
26 37 0.19
27 141 0.71
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (27 bp):
CCCTTATGTGATAAAATGACGATTTTG
Found at i:85233764 original size:106 final size:108
Alignment explanation
Indices: 85233579--85233836 Score: 371
Period size: 106 Copynumber: 2.4 Consensus size: 108
85233569 GCGTACTTGA
* *
85233579 ACCCTCATGTGATAAAATGACGATTTTGCCCTTATGTGATAAAATGACGATTTCGCCCTTATGTG
1 ACCCTCATGTGATAAAATGACGATTTTGCCCTTATATGATAAAATGACAATTTCGCCCTTATGTG
* * * *
85233644 ATAAAATGATGATTTTGTCC-T-TGTGATAAAATGACGATTTT
66 ATAAAATGAAGATTTTGCCCTTATATGATAAAATGACAATTTT
* * **
85233685 ACCCTCATGTGATAAAATGACAATTTTGCCCTCATATGATAAAATGACAATTTTTCCCTTATGTG
1 ACCCTCATGTGATAAAATGACGATTTTGCCCTTATATGATAAAATGACAATTTCGCCCTTATGTG
85233750 ATAAAATGAAGATTTTGCCCTTATATGATAAAATGACAATTTT
66 ATAAAATGAAGATTTTGCCCTTATATGATAAAATGACAATTTT
* * *
85233793 A-TCTTATGTGATAAAATGACGATTTTG-CCTTATATGATCAAATG
1 ACCCTCATGTGATAAAATGACGATTTTGCCCTTATATGATAAAATG
85233837 GTCGAAATTC
Statistics
Matches: 135, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
106 92 0.68
107 24 0.18
108 19 0.14
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (108 bp):
ACCCTCATGTGATAAAATGACGATTTTGCCCTTATATGATAAAATGACAATTTCGCCCTTATGTG
ATAAAATGAAGATTTTGCCCTTATATGATAAAATGACAATTTT
Found at i:85233870 original size:27 final size:26
Alignment explanation
Indices: 85233840--85233929 Score: 92
Period size: 27 Copynumber: 3.3 Consensus size: 26
85233830 TCAAATGGTC
*
85233840 GAAATTCCCTCATAGGGTAAAATGACT
1 GAAATACCC-CATAGGGTAAAATGACT
* *
85233867 GAAATACCCCCATGGGGTAGAATGACT
1 GAAATA-CCCCATAGGGTAAAATGACT
* *
85233894 AAAATACCCCTGTAGGGTAAAATGACT
1 GAAATACCCC-ATAGGGTAAAATGACT
85233921 -ATAATACCC
1 GA-AATACCC
85233930 TTGTAAGTTA
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
26 5 0.09
27 45 0.85
28 3 0.06
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (26 bp):
GAAATACCCCATAGGGTAAAATGACT
Found at i:85233934 original size:27 final size:26
Alignment explanation
Indices: 85233852--85233946 Score: 100
Period size: 27 Copynumber: 3.5 Consensus size: 26
85233842 AATTCCCTCA
**
85233852 TAGGGTAAAATGACTGAAATACCCCCA
1 TAGGGTAAAATGACT-AAATACCCCTG
* *
85233879 TGGGGTAGAATGACTAAAATACCCCTG
1 TAGGGTAAAATGACT-AAATACCCCTG
*
85233906 TAGGGTAAAATGACTATAATACCCTTG
1 TAGGGTAAAATGACTA-AATACCCCTG
* *
85233933 TAAGTTAAAATGAC
1 TAGGGTAAAATGAC
85233947 AGACTTGTTC
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 1 0.02
27 56 0.98
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (26 bp):
TAGGGTAAAATGACTAAATACCCCTG
Found at i:85234344 original size:18 final size:18
Alignment explanation
Indices: 85234298--85234346 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
85234288 ATATTGCATC
* *
85234298 GATTACTGTTACTGTATT
1 GATTACTGTTACTGCACT
*
85234316 GATCA-TGGTTACTGCACT
1 GATTACT-GTTACTGCACT
85234334 GATTACTGTTACT
1 GATTACTGTTACT
85234347 AAAATGGGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 1 0.04
18 23 0.92
19 1 0.04
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.43
Consensus pattern (18 bp):
GATTACTGTTACTGCACT
Found at i:85237116 original size:125 final size:125
Alignment explanation
Indices: 85236894--85237132 Score: 361
Period size: 125 Copynumber: 1.9 Consensus size: 125
85236884 CTCCCCACTC
** * * *
85236894 TGTTTTCGGCTTTTGCAAGTGTTCTCTGATATTGGGGGTGCCTCTATCATTCTATATGTAGTCTT
1 TGTTTTCGGCTTTTGCAAGTGTTCTCTGATATTGGGGGCACCCCTATCATTCTATATGTACTCTC
* * *
85236959 GACTTGTATGGGCAAGAGCTGATTGTTCTTCCCTCCTAAATCTGGACTCCGTGTTTTCAG
66 AACTTGTATGGGCAAGAGCCGATTGTTCTTCCCTCCTAAATCTAGACTCCGTGTTTTCAG
* * * *
85237019 TGTTTTTGGCTTTTGCAAGTGTTCTTTGATATTGGGGGCACCCCTATCATTCTGTTTGTACTCTC
1 TGTTTTCGGCTTTTGCAAGTGTTCTCTGATATTGGGGGCACCCCTATCATTCTATATGTACTCTC
*
85237084 AACTTGTATGGGTAAGAGCCGATTGTTCTTCCCTCCTAAATCTAGACTC
66 AACTTGTATGGGCAAGAGCCGATTGTTCTTCCCTCCTAAATCTAGACTC
85237133 TGCGTTTTGG
Statistics
Matches: 101, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
125 101 1.00
ACGTcount: A:0.17, C:0.21, G:0.22, T:0.41
Consensus pattern (125 bp):
TGTTTTCGGCTTTTGCAAGTGTTCTCTGATATTGGGGGCACCCCTATCATTCTATATGTACTCTC
AACTTGTATGGGCAAGAGCCGATTGTTCTTCCCTCCTAAATCTAGACTCCGTGTTTTCAG
Found at i:85238956 original size:40 final size:40
Alignment explanation
Indices: 85238896--85239127 Score: 369
Period size: 40 Copynumber: 5.8 Consensus size: 40
85238886 TGGATGATAA
85238896 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * *
85238936 CCGGACTAAGTCTCGAAGGCATTTGTACGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
85238976 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
85239016 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
85239056 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
*
85239096 CCGGGCTATA-TCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTA-AGTCCCGAAGGCATTTGTGCGAGT
85239128 AGCTATATCC
Statistics
Matches: 178, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
40 175 0.98
41 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:85241239 original size:27 final size:27
Alignment explanation
Indices: 85241209--85241435 Score: 307
Period size: 27 Copynumber: 8.5 Consensus size: 27
85241199 CTGAACCCAC
*
85241209 ATGTGATAAAATGACGATTTTACCCTT
1 ATGTGATAAAATGACGATTTTGCCCTT
*
85241236 ATGTGATAAAATGACGATTTTGCCCTC
1 ATGTGATAAAATGACGATTTTGCCCTT
* *
85241263 ATGTGATAAAATGACGATTTTGTCCTC
1 ATGTGATAAAATGACGATTTTGCCCTT
* * *
85241290 ATGTGATAAAATAATGATTTTGCCCTC
1 ATGTGATAAAATGACGATTTTGCCCTT
85241317 ATGTGATAAAATGA--ATTTT-CCCTT
1 ATGTGATAAAATGACGATTTTGCCCTT
*
85241341 ATGTGATAAAATGACGATTTGGCCCTT
1 ATGTGATAAAATGACGATTTTGCCCTT
*
85241368 ATGTGATAAAATGACGATTTTACCCTT
1 ATGTGATAAAATGACGATTTTGCCCTT
* ** *
85241395 GTGTGATAAAATGTTGATTTTTCCCTT
1 ATGTGATAAAATGACGATTTTGCCCTT
*
85241422 ATGTGATCAAATGA
1 ATGTGATAAAATGA
85241436 TCGAAATTCC
Statistics
Matches: 179, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
24 18 0.10
25 5 0.03
26 4 0.02
27 152 0.85
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.37
Consensus pattern (27 bp):
ATGTGATAAAATGACGATTTTGCCCTT
Found at i:85241400 original size:105 final size:107
Alignment explanation
Indices: 85241208--85241435 Score: 334
Period size: 105 Copynumber: 2.1 Consensus size: 107
85241198 CCTGAACCCA
*
85241208 CATGTGATAAAATGACGATTTTACCCTTATGTGATAAAATGACGATTTTGCCCTCATGTGATAAA
1 CATGTGATAAAATGAC-ATTTTACCCTTATGTGATAAAATGACGATTTGGCCCTCATGTGATAAA
**
85241273 ATGACGATTTTGTCCTCATGTGATAAAATAATGATTTTGCCCT
65 ATGACGATTTTACCCTCATGTGATAAAATAATGATTTTGCCCT
*
85241316 CATGTGATAAAATGA-ATTTT-CCCTTATGTGATAAAATGACGATTTGGCCCTTATGTGATAAAA
1 CATGTGATAAAATGACATTTTACCCTTATGTGATAAAATGACGATTTGGCCCTCATGTGATAAAA
** ** *
85241379 TGACGATTTTACCCTTGTGTGATAAAATGTTGATTTTTCCCT
66 TGACGATTTTACCCTCATGTGATAAAATAATGATTTTGCCCT
* *
85241421 TATGTGATCAAATGA
1 CATGTGATAAAATGA
85241436 TCGAAATTCC
Statistics
Matches: 109, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
105 89 0.82
106 5 0.05
108 15 0.14
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.37
Consensus pattern (107 bp):
CATGTGATAAAATGACATTTTACCCTTATGTGATAAAATGACGATTTGGCCCTCATGTGATAAAA
TGACGATTTTACCCTCATGTGATAAAATAATGATTTTGCCCT
Found at i:85241448 original size:132 final size:132
Alignment explanation
Indices: 85241209--85241450 Score: 344
Period size: 132 Copynumber: 1.8 Consensus size: 132
85241199 CTGAACCCAC
* *
85241209 ATGTGATAAAATGACGATTTTACCCTTATGTGATAAAATGACGATTTTGCCCTCATGTGATAAAA
1 ATGTGATAAAATGACGATTTGACCCTTATGTGATAAAATGACGATTTTACCCTCATGTGATAAAA
**
85241274 TGACGATTTTGTCCTCATGTGATAAAATAATGATTTTGCCCTCATGTGATAAAATGAATTTTCCC
66 TGACGATTTTGTCCTCATGTGATAAAATAATGAAATTGCCCTCATGTGATAAAATGAATTTTCCC
85241339 TT
131 TT
* **
85241341 ATGTGATAAAATGACGATTTGGCCCTTATGTGATAAAATGACGATTTTACCCTTGTGTGATAAAA
1 ATGTGATAAAATGACGATTTGACCCTTATGTGATAAAATGACGATTTTACCCTCATGTGATAAAA
** * * *
85241406 TGTTGATTTT-TCCCTTATGTGATCAAATGATCGAAATT-CCCTCAT
66 TGACGATTTTGT-CCTCATGTGATAAAATAAT-GAAATTGCCCTCAT
85241451 AAGGTAAAAT
Statistics
Matches: 96, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
131 1 0.01
132 91 0.95
133 4 0.04
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (132 bp):
ATGTGATAAAATGACGATTTGACCCTTATGTGATAAAATGACGATTTTACCCTCATGTGATAAAA
TGACGATTTTGTCCTCATGTGATAAAATAATGAAATTGCCCTCATGTGATAAAATGAATTTTCCC
TT
Found at i:85241460 original size:27 final size:27
Alignment explanation
Indices: 85241430--85241489 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
85241420 TTATGTGATC
* *
85241430 AAATGATCGAAATTCCCTCATAAGGTA
1 AAATGATCGAAATACCCCCATAAGGTA
*
85241457 AAATGATCGAAATACCCCCATAGGGTA
1 AAATGATCGAAATACCCCCATAAGGTA
*
85241484 GAATGA
1 AAATGA
85241490 CTAAAATACC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.22
Consensus pattern (27 bp):
AAATGATCGAAATACCCCCATAAGGTA
Found at i:85241507 original size:27 final size:27
Alignment explanation
Indices: 85241477--85241544 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
85241467 AATACCCCCA
*
85241477 TAGGGTAGAATGACTAAAATACCATTG
1 TAGGGTAAAATGACTAAAATACCATTG
** *
85241504 TAGGGTAAAATGACTGTAATACCCTTG
1 TAGGGTAAAATGACTAAAATACCATTG
*
85241531 TAAGGTAAAATGAC
1 TAGGGTAAAATGAC
85241545 AGATTTATTC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.40, C:0.12, G:0.22, T:0.26
Consensus pattern (27 bp):
TAGGGTAAAATGACTAAAATACCATTG
Found at i:85241941 original size:18 final size:18
Alignment explanation
Indices: 85241889--85241944 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
85241879 GGTTGCATAT
*
85241889 TGCACCGATTACTGTTAC
1 TGCACTGATTACTGTTAC
* * *
85241907 TGTATTGATCA-TGGTTAC
1 TGCACTGATTACT-GTTAC
85241925 TGCACTGATTACTGTTAC
1 TGCACTGATTACTGTTAC
85241943 TG
1 TG
85241945 AAATGGGCTA
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
17 1 0.03
18 27 0.93
19 1 0.03
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (18 bp):
TGCACTGATTACTGTTAC
Found at i:85241977 original size:34 final size:34
Alignment explanation
Indices: 85241934--85242031 Score: 142
Period size: 34 Copynumber: 2.9 Consensus size: 34
85241924 CTGCACTGAT
* * *
85241934 TACTGTTACTGAAATGGGCTAAAGCCCAGATTGC
1 TACTGTTACTGAAATGGGCTAAGGCCCAGACTAC
85241968 TACTGTTACTGAAATGGGCTAAGGCCCAGACTAC
1 TACTGTTACTGAAATGGGCTAAGGCCCAGACTAC
* * *
85242002 TACTGTCACTGATATGGGCTTAGGCCCAGA
1 TACTGTTACTGAAATGGGCTAAGGCCCAGA
85242032 ATGTTTTCAC
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 58 1.00
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (34 bp):
TACTGTTACTGAAATGGGCTAAGGCCCAGACTAC
Found at i:85252607 original size:39 final size:38
Alignment explanation
Indices: 85252576--85252692 Score: 117
Period size: 39 Copynumber: 3.0 Consensus size: 38
85252566 TATATGTCCA
* *
85252576 GCACGTAGCCTGCGGACCTAAAGTCCGGATATAATTCTC
1 GCACATAGCCTGCGGACATAAAGTCCGGATAT-ATTCTC
* *
85252615 GCATATAGCCTGCGGACATGAAGTCCGGATATAATTCTC
1 GCACATAGCCTGCGGACATAAAGTCCGGATAT-ATTCTC
** * * * *
85252654 GCTTATAGCCTACGGACCTGAAGTCCAGATATAATTCTC
1 GCACATAGCCTGCGGACATAAAGTCCGGATAT-ATTCTC
85252693 ACATATATAT
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 70 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (38 bp):
GCACATAGCCTGCGGACATAAAGTCCGGATATATTCTC
Found at i:85256625 original size:23 final size:24
Alignment explanation
Indices: 85256587--85256631 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
85256577 TTTGCTCTTC
*
85256587 TAGCATGAACTTGTCTTACCTTTT
1 TAGCATGAACTCGTCTTACCTTTT
85256611 TAGCAT-AACTCGTCTTACCTT
1 TAGCATGAACTCGTCTTACCTT
85256632 ACCTTACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.42
Consensus pattern (24 bp):
TAGCATGAACTCGTCTTACCTTTT
Found at i:85256890 original size:55 final size:53
Alignment explanation
Indices: 85256760--85256954 Score: 205
Period size: 55 Copynumber: 3.6 Consensus size: 53
85256750 TTACCATTGT
*
85256760 CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGC
1 CATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATGC
* * * *
85256813 CATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTTATCAATGC
1 CATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AACTCACCAATGC
*** * *
85256868 CATGTCTTGACATGGTCTTACATGATTTCCTTGCCGTA-GAAACCTTACCAATTGC
1 CATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA-CTCACCAA-TGC
* * *
85256923 CATGCCTTGGCATGGTCTTACATGGTATCCTT
1 CATGTCTTGACATGGTCTTACATGGGATCCTT
85256955 AAACCCTAAT
Statistics
Matches: 119, Mismatches: 17, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
52 2 0.02
53 36 0.30
54 8 0.07
55 71 0.60
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (53 bp):
CATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATGC
Found at i:85258923 original size:26 final size:25
Alignment explanation
Indices: 85258894--85258968 Score: 65
Period size: 26 Copynumber: 3.2 Consensus size: 25
85258884 ACCATGTAAA
85258894 ATTTTCTATTTTTTAATATAATCCCT
1 ATTTTCTATTTTTTAATATAAT-CCT
*
85258920 ATTTGACT-TTTTTT-ATA-AA----
1 ATTT-TCTATTTTTTAATATAATCCT
85258939 ATTTTCTATTTTTTAATATAATCCTT
1 ATTTTCTATTTTTTAATATAATCC-T
85258965 ATTT
1 ATTT
85258969 GACTTTTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 18
0.66 0.03 0.31
Matches are distributed among these distances:
18 2 0.05
19 10 0.26
20 3 0.08
21 2 0.05
24 2 0.05
25 3 0.08
26 14 0.37
27 2 0.05
ACGTcount: A:0.28, C:0.11, G:0.01, T:0.60
Consensus pattern (25 bp):
ATTTTCTATTTTTTAATATAATCCT
Found at i:85258930 original size:25 final size:24
Alignment explanation
Indices: 85258902--85258978 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 24
85258892 AAATTTTCTA
85258902 TTTTTTAATATAATCCCTATTTGAC
1 TTTTTTAATATAAT-CCTATTTGAC
* *
85258927 TTTTTTTATAAAAT--T-TTCT-A-
1 TTTTTTAATATAATCCTATT-TGAC
85258947 TTTTTTAATATAATCCTTATTTGAC
1 TTTTTTAATATAATCC-TATTTGAC
85258972 TTTTTTA
1 TTTTTTA
85258979 TCAATTTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
20 12 0.29
21 3 0.07
22 2 0.05
23 2 0.05
24 3 0.07
25 19 0.46
ACGTcount: A:0.27, C:0.10, G:0.03, T:0.60
Consensus pattern (24 bp):
TTTTTTAATATAATCCTATTTGAC
Found at i:85258976 original size:26 final size:26
Alignment explanation
Indices: 85258902--85258977 Score: 76
Period size: 26 Copynumber: 3.2 Consensus size: 26
85258892 AAATTTTCTA
*
85258902 TTTTTTAATATAATCCCTATTTGACT
1 TTTTTTAATATAATCCTTATTTGACT
* *
85258928 TTTTTT-ATAAAAT--TT-TCT-A--
1 TTTTTTAATATAATCCTTATTTGACT
85258947 TTTTTTAATATAATCCTTATTTGACT
1 TTTTTTAATATAATCCTTATTTGACT
85258973 TTTTT
1 TTTTT
85258978 ATCAATTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 14
0.67 0.09 0.25
Matches are distributed among these distances:
19 6 0.16
20 6 0.16
21 1 0.03
22 4 0.11
23 3 0.08
24 1 0.03
25 6 0.16
26 11 0.29
ACGTcount: A:0.26, C:0.11, G:0.03, T:0.61
Consensus pattern (26 bp):
TTTTTTAATATAATCCTTATTTGACT
Found at i:85258979 original size:44 final size:45
Alignment explanation
Indices: 85258890--85258977 Score: 167
Period size: 45 Copynumber: 2.0 Consensus size: 45
85258880 TTTCACCATG
85258890 TAAAATTTTCTATTTTTTAATATAATCCCTATTTGACTTTTTTTA
1 TAAAATTTTCTATTTTTTAATATAATCCCTATTTGACTTTTTTTA
*
85258935 TAAAATTTTCTATTTTTTAATATAATCCTTATTTGACTTTTTT
1 TAAAATTTTCTATTTTTTAATATAATCCCTATTTGACTTTTTT
85258978 ATCAATTTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.28, C:0.10, G:0.02, T:0.59
Consensus pattern (45 bp):
TAAAATTTTCTATTTTTTAATATAATCCCTATTTGACTTTTTTTA
Found at i:85259917 original size:38 final size:35
Alignment explanation
Indices: 85259858--85259975 Score: 135
Period size: 31 Copynumber: 3.5 Consensus size: 35
85259848 TCAATCATGC
*
85259858 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
85259897 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
85259928 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
85259959 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
85259976 ACTGTAAACG
Statistics
Matches: 78, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
31 49 0.63
33 2 0.03
34 1 0.01
36 1 0.01
38 14 0.18
39 11 0.14
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:85259919 original size:31 final size:31
Alignment explanation
Indices: 85259881--85259975 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
85259871 CCTTTTCATA
*
85259881 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
85259912 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
85259943 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
85259974 TT
1 TT
85259976 ACTGTAAACG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:85260218 original size:24 final size:24
Alignment explanation
Indices: 85260167--85260333 Score: 248
Period size: 24 Copynumber: 7.0 Consensus size: 24
85260157 GCTTTATCAT
* *
85260167 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* * **
85260192 ATAACTGGGGCAAAATCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTG
85260216 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTG
85260239 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
85260263 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
85260287 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
85260311 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
85260334 TCACTTCCTC
Statistics
Matches: 133, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
23 23 0.17
24 99 0.74
25 11 0.08
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:85260267 original size:71 final size:71
Alignment explanation
Indices: 85260166--85260333 Score: 248
Period size: 71 Copynumber: 2.3 Consensus size: 71
85260156 TGCTTTATCA
* *
85260166 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAATCCCTTTCAATAACTGGGGCATA
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
85260230 AGCCCTTT
64 AGCCCTTT
* * **
85260238 TATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAG
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
85260303 CCCTTT
66 CCCTTT
85260309 TGATAACTGGGGCATAAGCCCTTTT
1 T-ATAACTGGGGCATAAGCCCTTTT
85260334 TCACTTCCTC
Statistics
Matches: 88, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
71 52 0.59
72 36 0.41
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (71 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
CCCTTT
Found at i:85260408 original size:20 final size:20
Alignment explanation
Indices: 85260383--85260443 Score: 113
Period size: 20 Copynumber: 3.0 Consensus size: 20
85260373 TTATGATTAC
85260383 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
85260403 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
85260423 TTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
85260443 A
1 A
85260444 CCATATTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:85260414 original size:11 final size:11
Alignment explanation
Indices: 85260383--85260438 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
85260373 TTATGATTAC
85260383 ATCATGTGCAT
1 ATCATGTGCAT
*
85260394 ATCA--TACAT
1 ATCATGTGCAT
85260403 ATCATGTGCAT
1 ATCATGTGCAT
*
85260414 ATCA--TACAT
1 ATCATGTGCAT
*
85260423 TTCATGTGCAT
1 ATCATGTGCAT
85260434 ATCAT
1 ATCAT
85260439 ACATACCATA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:85260518 original size:25 final size:25
Alignment explanation
Indices: 85260486--85260533 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
85260476 ATACATAAAC
* * *
85260486 CCTAGGGGTATAATGGTCATTTTAA
1 CCTAGGGGCAAAACGGTCATTTTAA
85260511 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
85260534 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTAA
Found at i:85261722 original size:27 final size:27
Alignment explanation
Indices: 85261692--85261756 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
85261682 GGGCATATTC
* *
85261692 GTCATTTTACCATAC-AGGGGTATCACG
1 GTCACTTTACCATACAAGGGCT-TCACG
* *
85261719 GTCACTTTACCCTACAAGGGCTTTACG
1 GTCACTTTACCATACAAGGGCTTCACG
85261746 GTCACTTTACC
1 GTCACTTTACC
85261757 TAATAGGGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 28 0.85
28 5 0.15
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCATACAAGGGCTTCACG
Found at i:85261856 original size:27 final size:27
Alignment explanation
Indices: 85261827--85262062 Score: 300
Period size: 27 Copynumber: 8.8 Consensus size: 27
85261817 GGGTATTTTA
* *
85261827 GTAATTTTGTAAATC-GAGGGTAAAACA
1 GTAATTATGTAAATCAG-GGGTAAAACG
* * *
85261854 GTAATTCTATAAATCA-AGGTAAAACG
1 GTAATTATGTAAATCAGGGGTAAAACG
*
85261880 ATAATTATGTAAATCAGGGGTAAAACG
1 GTAATTATGTAAATCAGGGGTAAAACG
*
85261907 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAGGGGTAAAACG
*
85261934 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAGGGGTAAAACG
* *
85261961 GTAATTCTGTAAGTC-GAGGGTAAAACG
1 GTAATTATGTAAATCAG-GGGTAAAACG
* *
85261988 ATAATTATGTAAATCAGGGGTAAAAAG
1 GTAATTATGTAAATCAGGGGTAAAACG
*
85262015 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAGGGGTAAAACG
*
85262042 GTAATTCTGTAAATC-GGGGTA
1 GTAATTATGTAAATCAGGGGTA
85262063 CTTTAGTAAT
Statistics
Matches: 183, Mismatches: 22, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
26 28 0.15
27 154 0.84
28 1 0.01
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.28
Consensus pattern (27 bp):
GTAATTATGTAAATCAGGGGTAAAACG
Found at i:85262098 original size:27 final size:26
Alignment explanation
Indices: 85262068--85262157 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 26
85262058 GGGTACTTTA
85262068 GTAATTTTACAAGTCGAAGGTATTTCG
1 GTAATTTTACAA-TCGAAGGTATTTCG
* * *
85262095 GTAAATTTACAAATCGAGGGTATTTCA
1 GTAATTTTAC-AATCGAAGGTATTTCG
* * *
85262122 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAATCGAA-GGTATTTCG
85262149 GTAATTTTA
1 GTAATTTTA
85262158 GTAAACTAAA
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
26 4 0.08
27 45 0.88
28 2 0.04
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (26 bp):
GTAATTTTACAATCGAAGGTATTTCG
Found at i:85262144 original size:54 final size:53
Alignment explanation
Indices: 85262052--85262157 Score: 135
Period size: 54 Copynumber: 2.0 Consensus size: 53
85262042 GTAATTCTGT
*
85262052 AAATCGGGGTACTTTAGTAATTTTACAAGTCGAAGGTATTTCGGTAAATTTAC
1 AAATCGGGGTACTTTAGTAATTTTACAAGACGAAGGTATTTCGGTAAATTTAC
* * *
85262105 AAATCGAGGGTA-TTTCAGTATTTTTACAA-ACTAAGGGTATTTCGGTAATTTTA
1 AAATCG-GGGTACTTT-AGTAATTTTACAAGACGAA-GGTATTTCGGTAAATTTA
85262158 GTAAACTAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
53 12 0.26
54 34 0.74
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (53 bp):
AAATCGGGGTACTTTAGTAATTTTACAAGACGAAGGTATTTCGGTAAATTTAC
Found at i:85265444 original size:26 final size:27
Alignment explanation
Indices: 85265411--85265474 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 27
85265401 CAAAATTAAC
* *
85265411 CCTAGGGGTATAACGGTCATTTTGA-A
1 CCTAGGGGTATAACGGTAATTTTCATA
* *
85265437 CCTAGGGGTAAAATGGTAATTTTCATA
1 CCTAGGGGTATAACGGTAATTTTCATA
*
85265464 CTTAGGGGTAT
1 CCTAGGGGTAT
85265475 TTTAGTAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
26 21 0.68
27 10 0.32
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.33
Consensus pattern (27 bp):
CCTAGGGGTATAACGGTAATTTTCATA
Found at i:85267398 original size:3 final size:3
Alignment explanation
Indices: 85267392--85267422 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
85267382 TTTCCCTATC
*
85267392 TAA TAA TAA TAA TTA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
85267423 TTTATAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:85267555 original size:19 final size:18
Alignment explanation
Indices: 85267518--85267561 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
85267508 ATACATGCAG
85267518 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
85267535 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
85267554 TACTAATT
1 TAATAATT
85267562 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:85270780 original size:26 final size:27
Alignment explanation
Indices: 85270747--85270810 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 27
85270737 CAAAATTAAC
* *
85270747 CCTAGGGGTATAACGGTCATTTTGA-A
1 CCTAGGGGTATAACGGTAATTTTCATA
* *
85270773 CCTAGGGGTAAAATGGTAATTTTCATA
1 CCTAGGGGTATAACGGTAATTTTCATA
*
85270800 CTTAGGGGTAT
1 CCTAGGGGTAT
85270811 TTTAGTAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
26 21 0.68
27 10 0.32
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.33
Consensus pattern (27 bp):
CCTAGGGGTATAACGGTAATTTTCATA
Found at i:85276355 original size:27 final size:27
Alignment explanation
Indices: 85276315--85276419 Score: 140
Period size: 27 Copynumber: 3.9 Consensus size: 27
85276305 AATGATGACC
85276315 AAATACCCCCATAGGGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGATCG
**
85276342 AAATACCCAAATAGGGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGATCG
* * *
85276369 AAATACCCTCATTGGATAAAATGA-CTG
1 AAATACCCCCATAGGGTAAAATGATC-G
*
85276396 AAATACCCCTATAGGGTAAAATGA
1 AAATACCCCCATAGGGTAAAATGA
85276420 CAGTAATACC
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
26 1 0.01
27 66 0.99
ACGTcount: A:0.44, C:0.18, G:0.17, T:0.21
Consensus pattern (27 bp):
AAATACCCCCATAGGGTAAAATGATCG
Found at i:85276420 original size:27 final size:27
Alignment explanation
Indices: 85276315--85276432 Score: 134
Period size: 27 Copynumber: 4.4 Consensus size: 27
85276305 AATGATGACC
*
85276315 AAATACCCCCATAGGGTAAAATGATCG
1 AAATACCCCTATAGGGTAAAATGATCG
**
85276342 AAATACCCAAATAGGGTAAAATGATCG
1 AAATACCCCTATAGGGTAAAATGATCG
* *
85276369 AAATA-CCCTCATTGGATAAAATGA-CTG
1 AAATACCCCT-ATAGGGTAAAATGATC-G
85276396 AAATACCCCTATAGGGTAAAATGA-CAG
1 AAATACCCCTATAGGGTAAAATGATC-G
*
85276423 TAATACCCCT
1 AAATACCCCT
85276433 GTTGTGAGGT
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
26 3 0.04
27 71 0.91
28 4 0.05
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.21
Consensus pattern (27 bp):
AAATACCCCTATAGGGTAAAATGATCG
Found at i:85279274 original size:56 final size:56
Alignment explanation
Indices: 85279188--85279320 Score: 169
Period size: 56 Copynumber: 2.4 Consensus size: 56
85279178 TCCTAGAAAG
* *
85279188 GGTCTTACTCGTAAACACATATCAAAATCACCA-ATTGATACCAAAGTATTAAACGT
1 GGTCTTACTCGCAAACACATATCAAAATCA-CATATCGATACCAAAGTATTAAACGT
* * * * *
85279244 GGTCTTGCTCGCACACACATATCAGAATCACATATCGATGCCAATGTATTAAACGT
1 GGTCTTACTCGCAAACACATATCAAAATCACATATCGATACCAAAGTATTAAACGT
* *
85279300 GGTCTTACTCGTAATCACATA
1 GGTCTTACTCGCAAACACATA
85279321 CCGATGCCAA
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
55 2 0.03
56 63 0.97
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGCAAACACATATCAAAATCACATATCGATACCAAAGTATTAAACGT
Found at i:85279330 original size:43 final size:43
Alignment explanation
Indices: 85279269--85279582 Score: 484
Period size: 43 Copynumber: 7.3 Consensus size: 43
85279259 CACATATCAG
*** * *
85279269 AATCACATATCGATGCCAATGTATTAAACGTGGTCTTACTCGT
1 AATCACATATCGATGCCAATGTCCCAGACGTGGTCTTACACGT
* *
85279312 AATCACATACCGATGCCAATGTCCCAGACATGGTCTTACACGT
1 AATCACATATCGATGCCAATGTCCCAGACGTGGTCTTACACGT
* *
85279355 AATCACATATCGATGCCAACGTCCCAAACGTGGTCTTACACGT
1 AATCACATATCGATGCCAATGTCCCAGACGTGGTCTTACACGT
* * *
85279398 AATCACATATTGATGCCAACGTCCCAGACATGGTCTTACACGT
1 AATCACATATCGATGCCAATGTCCCAGACGTGGTCTTACACGT
85279441 AATCACATATCGATGCCAATGTCCCAGACGTGGTCTTACACGT
1 AATCACATATCGATGCCAATGTCCCAGACGTGGTCTTACACGT
* *
85279484 AATCACATATCGATGCCAATGTCCCAGACGTTGTCTTACACTT
1 AATCACATATCGATGCCAATGTCCCAGACGTGGTCTTACACGT
*
85279527 AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGT
1 AATCACATATCGATGCCAATGTCCCAGACGTGGTCTTACACGT
*
85279570 AATCACACATCGA
1 AATCACATATCGA
85279583 AAATTTTATG
Statistics
Matches: 248, Mismatches: 23, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 248 1.00
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (43 bp):
AATCACATATCGATGCCAATGTCCCAGACGTGGTCTTACACGT
Found at i:85280132 original size:28 final size:27
Alignment explanation
Indices: 85280084--85280136 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
85280074 TACATTTCAT
*
85280084 TTATTTTACATTTTAGTCCCTCAATTTA
1 TTATTTTACAATTTAGTCCCT-AATTTA
85280112 TTATTTCTACAATTTAG-CCCTAATT
1 TTATTT-TACAATTTAGTCCCTAATT
85280137 CTCAAATTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 4 0.17
28 10 0.43
29 9 0.39
ACGTcount: A:0.26, C:0.19, G:0.04, T:0.51
Consensus pattern (27 bp):
TTATTTTACAATTTAGTCCCTAATTTA
Found at i:85282763 original size:43 final size:43
Alignment explanation
Indices: 85282697--85282910 Score: 220
Period size: 43 Copynumber: 5.0 Consensus size: 43
85282687 AACTGGTACA
* * * *
85282697 ATGCCAACGTCCTAGAC-GTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACACGAAATCAAATATCG
* *
85282740 ATGCCATTGTCCCAGACAGGGTCTTACACGAAATTAAATAT-G
1 ATGCCAATGTCCCAGACAGGGTCTTACACGAAATCAAATATCG
* *
85282782 ATGCCAATGTCCCAGACATGGTCTTACACGAAAATCTCAA-ATCG
1 ATGCCAATGTCCCAGACAGGGTCTTACACG-AAATC-AAATATCG
** * *
85282826 ATGCCAACATCCCAGAC-GTGGTCTTACATGAAATCATATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACACGAAATCAAATATCG
* * * *
85282869 ATGCCACTGTCCCAGATAGGGTCTTACACGATATCATATATC
1 ATGCCAATGTCCCAGACAGGGTCTTACACGAAATCAAATATC
85282911 TCGGAAGCTC
Statistics
Matches: 142, Mismatches: 22, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
42 30 0.21
43 82 0.58
44 30 0.21
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACGAAATCAAATATCG
Found at i:85289264 original size:21 final size:21
Alignment explanation
Indices: 85289239--85289279 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
85289229 TTGATTTGGC
* *
85289239 ATGATTTGAGTAGGTTTAATG
1 ATGATTTGAATAGGTATAATG
85289260 ATGATTTGAATAGGTATAAT
1 ATGATTTGAATAGGTATAAT
85289280 AACTAGATAA
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:0.34, C:0.00, G:0.24, T:0.41
Consensus pattern (21 bp):
ATGATTTGAATAGGTATAATG
Found at i:85291214 original size:39 final size:39
Alignment explanation
Indices: 85291171--85291334 Score: 199
Period size: 40 Copynumber: 4.2 Consensus size: 39
85291161 CCAACGGAAT
* *
85291171 TTAGCCGGATATAACT-ACTTGCTCAAATGCCTTCGGGAC
1 TTAGCCGGATAT-AGTAACTTGCACAAATGCCTTCGGGAC
* *
85291210 TTAGCTCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGC-CGGATATAGTAACTTGCACAAATGCCTTCGGGAC
*
85291250 TTAGCCCGGATATAGTAGCTTGCACAAATGCCTTCGGG-C
1 TTAG-CCGGATATAGTAACTTGCACAAATGCCTTCGGGAC
* *
85291289 TTAGCCCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGAC
1 TTAG-CCGGATA-TAGTAACTTGCACAAATGCCTTCGGGAC
85291329 TTAGCC
1 TTAGCC
85291335 CGGTTATTAT
Statistics
Matches: 110, Mismatches: 10, Indels: 10
0.85 0.08 0.08
Matches are distributed among these distances:
38 1 0.01
39 43 0.39
40 65 0.59
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
TTAGCCGGATATAGTAACTTGCACAAATGCCTTCGGGAC
Found at i:85291238 original size:40 final size:40
Alignment explanation
Indices: 85291194--85291341 Score: 210
Period size: 40 Copynumber: 3.7 Consensus size: 40
85291184 ACTACTTGCT
* *
85291194 CAAATGCCTTCGGGACTTAGCTCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTAGCA
* * *
85291234 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTAGCA
* *
85291274 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTAGCA
85291313 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
85291342 TATCCAAATA
Statistics
Matches: 96, Mismatches: 9, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
38 1 0.01
39 33 0.34
40 61 0.64
41 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTAGCA
Found at i:85291325 original size:79 final size:80
Alignment explanation
Indices: 85291171--85291337 Score: 234
Period size: 79 Copynumber: 2.1 Consensus size: 80
85291161 CCAACGGAAT
* * * *
85291171 TTAG-CCGGATATAACTACTTGCTCAAATGCCTTCGGGACTTAGCTCGGTTATAGTAACTCGCAC
1 TTAGCCCGGATATAACTACTTGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCAC
85291235 AAATGCCTTCGGGAC
66 AAATGCCTTCGGGAC
* *
85291250 TTAGCCCGGATAT-AGTAGCTTGCACAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTCACTAGC
1 TTAGCCCGGATATAACTA-CTTGCACAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTAGC
85291312 ACAAATGCCTTCGGGAC
64 ACAAATGCCTTCGGGAC
85291329 TTAGCCCGG
1 TTAGCCCGG
85291338 TTATTATCCA
Statistics
Matches: 79, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
78 1 0.01
79 51 0.65
80 27 0.34
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (80 bp):
TTAGCCCGGATATAACTACTTGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCAC
AAATGCCTTCGGGAC
Found at i:85295024 original size:2 final size:2
Alignment explanation
Indices: 85295017--85295048 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
85295007 AGCATAGTTG
*
85295017 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
85295049 TCGACCATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:85295765 original size:27 final size:27
Alignment explanation
Indices: 85295681--85295834 Score: 173
Period size: 27 Copynumber: 5.5 Consensus size: 27
85295671 TGACGAGAAT
* * *
85295681 GCACTAAGTGTGCAAGCTGGAAATATATG
1 GCACTAAGTGTGCGAGCT-G-ATTATATA
*
85295710 GCACTAAGTGTGCGAGCTCAAATTATATA
1 GCACTAAGTGTGCGAGCT--GATTATATA
* *
85295739 GCACTATGTGTGCGAGCTGATTTTATA
1 GCACTAAGTGTGCGAGCTGATTATATA
**
85295766 GCACTAAGTGTGCGAATTTGATTATATA
1 GCACTAAGTGTGCG-AGCTGATTATATA
* *
85295794 GCACTATGTGTGCGAGCTGATTTTATA
1 GCACTAAGTGTGCGAGCTGATTATATA
85295821 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
85295835 GATTCACTAT
Statistics
Matches: 106, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
27 43 0.41
28 23 0.22
29 40 0.38
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTGATTATATA
Found at i:85295802 original size:55 final size:55
Alignment explanation
Indices: 85295731--85295834 Score: 208
Period size: 55 Copynumber: 1.9 Consensus size: 55
85295721 GCGAGCTCAA
85295731 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCGAATTTG
1 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCGAATTTG
85295786 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCG
1 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCG
85295835 GATTCACTAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.36
Consensus pattern (55 bp):
ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCGAATTTG
Found at i:85302314 original size:40 final size:40
Alignment explanation
Indices: 85302270--85302413 Score: 231
Period size: 40 Copynumber: 3.6 Consensus size: 40
85302260 ACTACTTGCT
85302270 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
85302310 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
*
85302350 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTCA-CTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGT-AGCTCGCA
*
85302389 CAAATGCCTGCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
85302414 TTATCATCCA
Statistics
Matches: 99, Mismatches: 2, Indels: 6
0.93 0.02 0.06
Matches are distributed among these distances:
38 1 0.01
39 33 0.33
40 65 0.66
ACGTcount: A:0.24, C:0.28, G:0.26, T:0.22
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
Found at i:85311616 original size:40 final size:39
Alignment explanation
Indices: 85311454--85311635 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
85311444 AATGTTCGAG
85311454 TGATATCCGGGCTAAG-CCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
85311492 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
85311531 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
85311570 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** *
85311610 CCATATCCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
85311636 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
38 16 0.13
39 71 0.56
40 39 0.31
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:85314982 original size:40 final size:39
Alignment explanation
Indices: 85314937--85315144 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
85314927 CGGAATACAA
*
85314937 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
85314977 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
85315017 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
85315057 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
85315097 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
85315137 CCGGATAT
1 CCGGATAT
85315145 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:85315077 original size:80 final size:81
Alignment explanation
Indices: 85314937--85315142 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
85314927 CGGAATACAA
* * *
85314937 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
85315001 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
85315017 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
85315080 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * ** * *
85315097 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
85315143 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 104 0.96
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:85320765 original size:40 final size:40
Alignment explanation
Indices: 85320710--85320919 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
85320700 AACATTGGAA
85320710 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
85320750 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
85320790 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
85320830 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
85320869 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
85320910 CTATATCCGG
1 ATATATCCGG
85320920 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:85328797 original size:40 final size:40
Alignment explanation
Indices: 85328742--85328951 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
85328732 AACATTGGAA
85328742 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
85328782 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
85328822 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
85328862 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
85328901 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
85328942 CTATATCCGG
1 ATATATCCGG
85328952 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:85333403 original size:40 final size:40
Alignment explanation
Indices: 85333359--85333544 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
85333349 GCTACTCGTT
* * *
85333359 CAAATACCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
85333399 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
85333439 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
85333479 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
85333520 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
85333545 CATCATTCGA
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 116 0.88
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:85340886 original size:40 final size:40
Alignment explanation
Indices: 85340842--85341027 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
85340832 GCTACTCGTT
* * *
85340842 CAAATACCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
85340882 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
85340922 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
85340962 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
85341003 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
85341028 CATCATTCGA
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 116 0.88
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:85348379 original size:40 final size:40
Alignment explanation
Indices: 85348335--85348514 Score: 199
Period size: 40 Copynumber: 4.5 Consensus size: 40
85348325 CGTTCAAATA
* *
85348335 CCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAAAG
85348375 CCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATA-
1 CCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAA-AG
* * *
85348415 CCTTC-GGATCTTAGTCCGGATTTAGTAACTCACACAAATG
1 CCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACAAAAG
* * * *
85348455 CCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCAC-AAAG
1 CCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACAAAAG
85348495 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAGCCCGGA
85348515 CATCATTCGA
Statistics
Matches: 123, Mismatches: 11, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
39 3 0.02
40 110 0.89
41 10 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAAAG
Found at i:85348451 original size:80 final size:82
Alignment explanation
Indices: 85348329--85348514 Score: 222
Period size: 80 Copynumber: 2.3 Consensus size: 82
85348319 GCTACTCGTT
* * *
85348329 CAAATACCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCACAAAAGCCTTCGGGA-CTTAGCCC
1 CAAATACCTTCGGGACTTAGCCCGGATTATAGTAACTCACACAAAAGCCTTC-GGATCTTAGCCC
* *
85348392 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* * *
85348409 CAAATACCTTC-GGATCTTAGTCCGGATT-TAGTAACTCACACAAATGCCTTCGGATCTTAGTCC
1 CAAATACCTTCGGGA-CTTAGCCCGGATTATAGTAACTCACACAAAAGCCTTCGGATCTTAGCCC
*
85348472 GGATATAGTCACTTAGCA
65 GGATATAGTAACTTAGCA
*
85348490 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATACCTTCGGGACTTAGCCCGGA
85348515 CATCATTCGA
Statistics
Matches: 90, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
79 6 0.07
80 71 0.79
81 13 0.14
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (82 bp):
CAAATACCTTCGGGACTTAGCCCGGATTATAGTAACTCACACAAAAGCCTTCGGATCTTAGCCCG
GATATAGTAACTTAGCA
Found at i:85350383 original size:18 final size:17
Alignment explanation
Indices: 85350349--85350383 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
85350339 TATCCATGTG
*
85350349 AAGCCCACAATCCCATT
1 AAGCCCACAAGCCCATT
85350366 AAGCCCACATAGCCCATT
1 AAGCCCACA-AGCCCATT
85350384 TTAGCCCAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.34, C:0.40, G:0.09, T:0.17
Consensus pattern (17 bp):
AAGCCCACAAGCCCATT
Found at i:85355544 original size:22 final size:22
Alignment explanation
Indices: 85355517--85355560 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
85355507 GAAAATAATA
85355517 AAAATTAATCAAAATTAATTAT
1 AAAATTAATCAAAATTAATTAT
* *
85355539 AAAATTAATTAAAATTCATTAT
1 AAAATTAATCAAAATTAATTAT
85355561 GTTAATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (22 bp):
AAAATTAATCAAAATTAATTAT
Found at i:85355559 original size:10 final size:10
Alignment explanation
Indices: 85355508--85355559 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
85355498 AAATCTGTGG
*
85355508 AAAA-TAATA
1 AAAATTAATT
*
85355517 AAAATTAATC
1 AAAATTAATT
85355527 AAAATTAATTAT
1 AAAATTAA-T-T
85355539 AAAATTAATT
1 AAAATTAATT
*
85355549 AAAATTCATT
1 AAAATTAATT
85355559 A
1 A
85355560 TGTTAATAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
9 4 0.11
10 23 0.62
11 2 0.05
12 8 0.22
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (10 bp):
AAAATTAATT
Found at i:85360213 original size:40 final size:40
Alignment explanation
Indices: 85360149--85360339 Score: 192
Period size: 39 Copynumber: 4.8 Consensus size: 40
85360139 GCTACTCGTT
* * * ***
85360149 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* *
85360189 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* * *
85360229 CAATTGCCTTCGGG-CTTAGCCCGGATATCATC-GCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCA-CAACCCGCA
* * * *
85360268 CCATTTCCTTCGGG-CTTAGCCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* *
85360307 CAATTGCCTTCAGG-CTTAGCCCGGATATCACAA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAA
85360340 TTCGCACATT
Statistics
Matches: 132, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
38 1 0.01
39 85 0.64
40 46 0.35
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
Found at i:85360266 original size:39 final size:39
Alignment explanation
Indices: 85360185--85360347 Score: 238
Period size: 39 Copynumber: 4.2 Consensus size: 39
85360175 TATGGTAACC
* *
85360185 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
*
85360225 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATC-GCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA-CAACT
* *
85360264 CGCACCATTTCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
85360303 CGCACAATTGCCTTCAGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
85360342 CGCACA
1 CGCACA
85360348 TTCATACACA
Statistics
Matches: 111, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
38 1 0.01
39 92 0.83
40 18 0.16
ACGTcount: A:0.24, C:0.34, G:0.19, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:85368152 original size:39 final size:39
Alignment explanation
Indices: 85368083--85368234 Score: 214
Period size: 39 Copynumber: 3.9 Consensus size: 39
85368073 GGTAACCCGC
* *
85368083 ACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGT
1 ACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACTCGT
* * *
85368123 ACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCTCGC
1 ACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGT
* * * *
85368162 ACCATTTCCTTCGAGCTTAGCCCGGATACCACAACTCGT
1 ACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGT
85368201 ACAATTGCCTTCGGGCTTAGCCCGGATATCACAA
1 ACAATTGCCTTCGGGCTTAGCCCGGATATCACAA
85368235 TTCGCACATT
Statistics
Matches: 96, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 82 0.85
40 14 0.15
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (39 bp):
ACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGT
Found at i:85368240 original size:78 final size:79
Alignment explanation
Indices: 85368090--85368241 Score: 243
Period size: 78 Copynumber: 1.9 Consensus size: 79
85368080 CGCACAAATG
* * *
85368090 CCTTCGGGACTTAACCCGGATATCACAACTCGTACAATTGCCTTCGGGCTTAGCCCGGATATCAT
1 CCTTCGAGACTTAACCCGGATACCACAACTCGTACAATTGCCTTCGGGCTTAGCCCGGATATCAC
*
85368155 AGCTCGCACCATTT
66 AACTCGCACCATTT
*
85368169 CCTTCGAG-CTTAGCCCGGATACCACAACTCGTACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CCTTCGAGACTTAACCCGGATACCACAACTCGTACAATTGCCTTCGGGCTTAGCCCGGATATCAC
*
85368233 AATTCGCAC
66 AACTCGCAC
85368242 ATTCATACAC
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
78 60 0.90
79 7 0.10
ACGTcount: A:0.23, C:0.33, G:0.19, T:0.25
Consensus pattern (79 bp):
CCTTCGAGACTTAACCCGGATACCACAACTCGTACAATTGCCTTCGGGCTTAGCCCGGATATCAC
AACTCGCACCATTT
Found at i:85375543 original size:30 final size:30
Alignment explanation
Indices: 85375509--85375569 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
85375499 TTCCCGAGCC
85375509 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
85375539 TAGGGGCAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
85375569 T
1 T
85375570 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:85381675 original size:18 final size:17
Alignment explanation
Indices: 85381648--85381681 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
85381638 AATAAATATT
85381648 ATTAATAAATTAATTTA
1 ATTAATAAATTAATTTA
85381665 ATTAGATAAATTAATTT
1 ATTA-ATAAATTAATTT
85381682 TCCAATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
ATTAATAAATTAATTTA
Found at i:85388302 original size:15 final size:16
Alignment explanation
Indices: 85388282--85388319 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
85388272 TATTGCGGCT
85388282 ATAAAATAGTCCAAA-
1 ATAAAATAGTCCAAAC
* *
85388297 ATAAAATATTCTAAAC
1 ATAAAATAGTCCAAAC
85388313 ATAAAAT
1 ATAAAAT
85388320 CAGTAATCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.61, C:0.11, G:0.03, T:0.26
Consensus pattern (16 bp):
ATAAAATAGTCCAAAC
Found at i:85402645 original size:53 final size:53
Alignment explanation
Indices: 85402523--85402789 Score: 229
Period size: 54 Copynumber: 5.1 Consensus size: 53
85402513 CGTACCTGAA
** * * *
85402523 CCCTTATGAGATAAAATGATTATTTTTCCCTTAGGTGACAAAATG-T-TTTT-
1 CCCTTATGAGATAAAATGACGATTTTGCCCTTATGTGGCAAAATGATGTTTTG
* * * *
85402573 CCCTTAGGTGATTAAATGACGATTTTGCCCTTATGTGGCAAAATGATGTTTTT
1 CCCTTATGAGATAAAATGACGATTTTGCCCTTATGTGGCAAAATGATGTTTTG
* * * * *
85402626 CTCTTATGCGATAAAATGACGATTTTG-CTTTATG-AGCTAAAATGACAGTTTTG
1 CCCTTATGAGATAAAATGACGATTTTGCCCTTATGTGGC-AAAATGA-TGTTTTG
* * ** * ** *
85402679 CCCTTAAGTGGCAAAATGACTATTTTGCCCTTATGTGATAAAATTATGATTTTG
1 CCCTTATGAGATAAAATGACGATTTTGCCCTTATGTGGCAAAATGATG-TTTTG
* * * *
85402733 CCCTTATGAGGTAAAATGACGATTTTGCCCTTATGAGGTAAAATGACTATTTTG
1 CCCTTATGAGATAAAATGACGATTTTGCCCTTATGTGGCAAAATGA-TGTTTTG
85402787 CCC
1 CCC
85402790 CTTTGTGATG
Statistics
Matches: 172, Mismatches: 36, Indels: 14
0.77 0.16 0.06
Matches are distributed among these distances:
50 37 0.22
51 3 0.02
52 17 0.10
53 50 0.29
54 64 0.37
55 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.38
Consensus pattern (53 bp):
CCCTTATGAGATAAAATGACGATTTTGCCCTTATGTGGCAAAATGATGTTTTG
Found at i:85402739 original size:27 final size:27
Alignment explanation
Indices: 85402523--85402798 Score: 203
Period size: 27 Copynumber: 10.4 Consensus size: 27
85402513 CGTACCTGAA
* * *
85402523 CCCTTATGAGATAAAATGATTATTTTT
1 CCCTTATGTGATAAAATGATGATTTTG
* *
85402550 CCCTTAGGTGACAAAATG-T--TTTT-
1 CCCTTATGTGATAAAATGATGATTTTG
* * *
85402573 CCCTTAGGTGATTAAATGACGATTTTG
1 CCCTTATGTGATAAAATGATGATTTTG
** *
85402600 CCCTTATGTGGCAAAATGATG-TTTTT
1 CCCTTATGTGATAAAATGATGATTTTG
* * *
85402626 CTCTTATGCGATAAAATGACGATTTTG
1 CCCTTATGTGATAAAATGATGATTTTG
* * * *
85402653 -CTTTATGAGCTAAAATGA-CAGTTTTG
1 CCCTTATGTGATAAAATGATGA-TTTTG
* **
85402679 CCCTTAAGTGGCAAAATGACT-ATTTTG
1 CCCTTATGTGATAAAATGA-TGATTTTG
*
85402706 CCCTTATGTGATAAAATTATGATTTTG
1 CCCTTATGTGATAAAATGATGATTTTG
* * *
85402733 CCCTTATGAGGTAAAATGACGATTTTG
1 CCCTTATGTGATAAAATGATGATTTTG
* *
85402760 CCCTTATGAGGTAAAATGACT-ATTTTG
1 CCCTTATGTGATAAAATGA-TGATTTTG
85402787 CCCCTT-TGTGAT
1 -CCCTTATGTGAT
85402799 GTATGTGTAT
Statistics
Matches: 198, Mismatches: 39, Indels: 24
0.76 0.15 0.09
Matches are distributed among these distances:
23 16 0.08
24 4 0.02
25 1 0.01
26 45 0.23
27 126 0.64
28 6 0.03
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (27 bp):
CCCTTATGTGATAAAATGATGATTTTG
Found at i:85402761 original size:81 final size:80
Alignment explanation
Indices: 85402586--85402798 Score: 279
Period size: 81 Copynumber: 2.7 Consensus size: 80
85402576 TTAGGTGATT
* * * *
85402586 AAATGACGATTTTGCCCTTATGTGGCAAAATGA-TGTTTTTCTCTTATGCGATAAAATGACGATT
1 AAATGACGATTTTGCCCTTATGTGGCAAAATGACTATTTTGCCCTTATGTGATAAAATGACGATT
*
85402650 TTGCTTTATGAGCTA
66 TTGCCTTATGAGCTA
* * *
85402665 AAATGAC-AGTTTTGCCCTTAAGTGGCAAAATGACTATTTTGCCCTTATGTGATAAAATTATGAT
1 AAATGACGA-TTTTGCCCTTATGTGGCAAAATGACTATTTTGCCCTTATGTGATAAAATGACGAT
*
85402729 TTTGCCCTTATGAGGTA
65 TTTG-CCTTATGAGCTA
* *
85402746 AAATGACGATTTTGCCCTTATGAGGTAAAATGACTATTTTGCCCCTT-TGTGAT
1 AAATGACGATTTTGCCCTTATGTGGCAAAATGACTATTTTG-CCCTTATGTGAT
85402799 GTATGTGTAT
Statistics
Matches: 117, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
78 1 0.01
79 30 0.26
80 28 0.24
81 52 0.44
82 6 0.05
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (80 bp):
AAATGACGATTTTGCCCTTATGTGGCAAAATGACTATTTTGCCCTTATGTGATAAAATGACGATT
TTGCCTTATGAGCTA
Found at i:85407695 original size:27 final size:27
Alignment explanation
Indices: 85407656--85407932 Score: 253
Period size: 27 Copynumber: 10.3 Consensus size: 27
85407646 CCTACCTGAA
**
85407656 CCCTTATGAGATAAAATGATTGTTTTG
1 CCCTTATGAGATAAAATGACCGTTTTG
*
85407683 CCCTTATGTGATAAAATGA-CGATTTTG
1 CCCTTATGAGATAAAATGACCG-TTTTG
* **
85407710 CCCTTATGAGGTAAAATGATGGTTTTG
1 CCCTTATGAGATAAAATGACCGTTTTG
*
85407737 CCCTTTTATG-GA-AAAATGACTGTTTTG
1 CCC--TTATGAGATAAAATGACCGTTTTG
85407764 CCCTTAT-ATGATAAAATGA-CGATTTTG
1 CCCTTATGA-GATAAAATGACCG-TTTTG
* *
85407791 CCCTTATGAGCTAAAATGACGGTTTTG
1 CCCTTATGAGATAAAATGACCGTTTTG
* * ** *
85407818 CCATTATGTGGCAAAATGACTGTTTTG
1 CCCTTATGAGATAAAATGACCGTTTTG
*
85407845 CCCTTATGTGATAAAATGA-CGATTTTG
1 CCCTTATGAGATAAAATGACCG-TTTTG
* *
85407872 CCCTTATGAGGTAAAATGACAGTTTTG
1 CCCTTATGAGATAAAATGACCGTTTTG
* * **
85407899 CCATTATGAG-TAGAATGACAATTTTG
1 CCCTTATGAGATAAAATGACCGTTTTG
*
85407925 CCCCTATG
1 CCCTTATG
85407933 TGATGTATGT
Statistics
Matches: 210, Mismatches: 28, Indels: 25
0.80 0.11 0.10
Matches are distributed among these distances:
25 4 0.02
26 25 0.12
27 171 0.81
28 5 0.02
29 5 0.02
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (27 bp):
CCCTTATGAGATAAAATGACCGTTTTG
Found at i:85407725 original size:54 final size:54
Alignment explanation
Indices: 85407656--85407932 Score: 316
Period size: 54 Copynumber: 5.1 Consensus size: 54
85407646 CCTACCTGAA
* * *
85407656 CCCTTATGAGATAAAATGATTGTTTTGCCCTTATGTGATAAAATGACGATTTTG
1 CCCTTATGAGGTAAAATGACTGTTTTGCCCTTATGAGATAAAATGACGATTTTG
85407710 CCCTTATGAGGTAAAATGA-TGGTTTTGCCCTTTTATG-GA-AAAATGACTG-TTTTG
1 CCCTTATGAGGTAAAATGACT-GTTTTGCCC--TTATGAGATAAAATGAC-GATTTTG
* * *
85407764 CCCTTAT-ATGATAAAATGAC-GATTTTGCCCTTATGAGCTAAAATGACGGTTTTG
1 CCCTTATGA-GGTAAAATGACTG-TTTTGCCCTTATGAGATAAAATGACGATTTTG
* * * *
85407818 CCATTATGTGGCAAAATGACTGTTTTGCCCTTATGTGATAAAATGACGATTTTG
1 CCCTTATGAGGTAAAATGACTGTTTTGCCCTTATGAGATAAAATGACGATTTTG
* * * *
85407872 CCCTTATGAGGTAAAATGACAGTTTTGCCATTATGAG-TAGAATGACAATTTTG
1 CCCTTATGAGGTAAAATGACTGTTTTGCCCTTATGAGATAAAATGACGATTTTG
*
85407925 CCCCTATG
1 CCCTTATG
85407933 TGATGTATGT
Statistics
Matches: 192, Mismatches: 19, Indels: 25
0.81 0.08 0.11
Matches are distributed among these distances:
52 5 0.03
53 26 0.14
54 152 0.79
55 4 0.02
56 5 0.03
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (54 bp):
CCCTTATGAGGTAAAATGACTGTTTTGCCCTTATGAGATAAAATGACGATTTTG
Found at i:85407904 original size:81 final size:81
Alignment explanation
Indices: 85407668--85407906 Score: 397
Period size: 81 Copynumber: 3.0 Consensus size: 81
85407658 CTTATGAGAT
* *
85407668 AAAATGATTGTTTTGCCCTTATGTGATAAAATGACGATTTTGCCCTTATGAGGTAAAATGATGGT
1 AAAATGACTGTTTTGCCCTTATGTGATAAAATGACGATTTTGCCCTTATGAGGTAAAATGACGGT
* * *
85407733 TTTGCCCTTTTATGGA
66 TTTGCCATTATGTGGA
* *
85407749 AAAATGACTGTTTTGCCCTTATATGATAAAATGACGATTTTGCCCTTATGAGCTAAAATGACGGT
1 AAAATGACTGTTTTGCCCTTATGTGATAAAATGACGATTTTGCCCTTATGAGGTAAAATGACGGT
*
85407814 TTTGCCATTATGTGGC
66 TTTGCCATTATGTGGA
*
85407830 AAAATGACTGTTTTGCCCTTATGTGATAAAATGACGATTTTGCCCTTATGAGGTAAAATGACAGT
1 AAAATGACTGTTTTGCCCTTATGTGATAAAATGACGATTTTGCCCTTATGAGGTAAAATGACGGT
85407895 TTTGCCATTATG
66 TTTGCCATTATG
85407907 AGTAGAATGA
Statistics
Matches: 147, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
81 147 1.00
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.37
Consensus pattern (81 bp):
AAAATGACTGTTTTGCCCTTATGTGATAAAATGACGATTTTGCCCTTATGAGGTAAAATGACGGT
TTTGCCATTATGTGGA
Found at i:85407951 original size:81 final size:81
Alignment explanation
Indices: 85407678--85407936 Score: 322
Period size: 81 Copynumber: 3.2 Consensus size: 81
85407668 AAAATGATTG
* * ** * *
85407678 TTTTGCCCTTATGTGATAAAATGACGATTTTGCCCTTATGAGGTAAAATGATGGTTTTGCCCTTT
1 TTTTGCCCCTATGTGATAAAATGACGATTTTGCCCTTATGAGCTAAAATGACAGTTTTGCCATTA
* * * **
85407743 TATGGAAAAATGACTG
66 TGTAGCAAAATGACAA
* * *
85407759 TTTTGCCCTTATATGATAAAATGACGATTTTGCCCTTATGAGCTAAAATGACGGTTTTGCCATTA
1 TTTTGCCCCTATGTGATAAAATGACGATTTTGCCCTTATGAGCTAAAATGACAGTTTTGCCATTA
* **
85407824 TGTGGCAAAATGACTG
66 TGTAGCAAAATGACAA
* *
85407840 TTTTGCCCTTATGTGATAAAATGACGATTTTGCCCTTATGAGGTAAAATGACAGTTTTGCCATTA
1 TTTTGCCCCTATGTGATAAAATGACGATTTTGCCCTTATGAGCTAAAATGACAGTTTTGCCATTA
* *
85407905 TG-AGTAGAATGACAA
66 TGTAGCAAAATGACAA
85407920 TTTTGCCCCTATGTGAT
1 TTTTGCCCCTATGTGAT
85407937 GTATGTGTAT
Statistics
Matches: 162, Mismatches: 16, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
80 24 0.15
81 138 0.85
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (81 bp):
TTTTGCCCCTATGTGATAAAATGACGATTTTGCCCTTATGAGCTAAAATGACAGTTTTGCCATTA
TGTAGCAAAATGACAA
Found at i:85408266 original size:18 final size:18
Alignment explanation
Indices: 85408245--85408286 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
85408235 GTTTACTGTA
85408245 ACTGCACTGA-TTATTGTT
1 ACTGCACT-ATTTATTGTT
85408263 ACTGCACTATTTATTGTT
1 ACTGCACTATTTATTGTT
*
85408281 ATTGCA
1 ACTGCA
85408287 ATGAGCCAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 1 0.05
18 21 0.95
ACGTcount: A:0.24, C:0.17, G:0.14, T:0.45
Consensus pattern (18 bp):
ACTGCACTATTTATTGTT
Found at i:85413060 original size:43 final size:43
Alignment explanation
Indices: 85412991--85413074 Score: 107
Period size: 43 Copynumber: 2.0 Consensus size: 43
85412981 ATATGAATCA
* *
85412991 CATCCATCATGAACATGGACCACTCAATGAGCTCAGATGCTTG
1 CATCCATAATGAACATGGACCACTCAACGAGCTCAGATGCTTG
* * *
85413034 CATCCATAATGAAC-TCTGACCTCTCAACGAGCTCTGATGCT
1 CATCCATAATGAACAT-GGACCACTCAACGAGCTCAGATGCT
85413075 ATATACCTCA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 1 0.03
43 34 0.97
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.25
Consensus pattern (43 bp):
CATCCATAATGAACATGGACCACTCAACGAGCTCAGATGCTTG
Found at i:85417898 original size:23 final size:23
Alignment explanation
Indices: 85417868--85417927 Score: 111
Period size: 23 Copynumber: 2.6 Consensus size: 23
85417858 GATTAAGCCC
85417868 CACACGCCCGTGTGGAGGCAATG
1 CACACGCCCGTGTGGAGGCAATG
85417891 CACACGCCCGTGTGGAGGCAATG
1 CACACGCCCGTGTGGAGGCAATG
*
85417914 TACACGCCCGTGTG
1 CACACGCCCGTGTG
85417928 CTTTAGGACA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.20, C:0.32, G:0.33, T:0.15
Consensus pattern (23 bp):
CACACGCCCGTGTGGAGGCAATG
Found at i:85422431 original size:30 final size:30
Alignment explanation
Indices: 85422395--85422554 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
85422385 GACAAGATTG
* * * * *
85422395 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
* *
85422425 GCACTAAGTGTGCGAGTTTG---ATTATACA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
85422453 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
85422482 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
85422512 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
85422541 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
85422555 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 23 0.19
29 48 0.40
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:85422523 original size:59 final size:57
Alignment explanation
Indices: 85422395--85422554 Score: 214
Period size: 59 Copynumber: 2.8 Consensus size: 57
85422385 GACAAGATTG
* * * * * *
85422395 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATACA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATACA
*
85422453 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATACA
85422512 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
85422555 GATTCACTAT
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 50 0.54
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATACA
Found at i:85430464 original size:30 final size:30
Alignment explanation
Indices: 85430428--85430587 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
85430418 GACAAGATTG
* * * * *
85430428 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
* *
85430458 GCACTAAGTGTGCGAGTTTG---ATTATACA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
85430486 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
85430515 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
85430545 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
85430574 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
85430588 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 23 0.19
29 48 0.40
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:85430556 original size:59 final size:57
Alignment explanation
Indices: 85430428--85430587 Score: 214
Period size: 59 Copynumber: 2.8 Consensus size: 57
85430418 GACAAGATTG
* * * * * *
85430428 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATACA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATACA
*
85430486 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATACA
85430545 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
85430588 GATTCACTAT
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 50 0.54
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATACA
Found at i:85433215 original size:42 final size:42
Alignment explanation
Indices: 85433133--85433215 Score: 96
Period size: 42 Copynumber: 2.0 Consensus size: 42
85433123 AGGTCGCGTA
* * * *
85433133 CCTCACACAGCTGAGACATACGCTCGTGTCTCAGGCCGTGTG
1 CCTCACACAGCTGAGACACACGCTCGGGCCTCAAGCCGTGTG
* *
85433175 CCTCACACAGCTGAGACACATG-TCCGGGCCTCAAGTCGTGT
1 CCTCACACAGCTGAGACACACGCT-CGGGCCTCAAGCCGTGT
85433216 AACCCTCAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
41 1 0.03
42 33 0.97
ACGTcount: A:0.20, C:0.34, G:0.25, T:0.20
Consensus pattern (42 bp):
CCTCACACAGCTGAGACACACGCTCGGGCCTCAAGCCGTGTG
Found at i:85436343 original size:25 final size:25
Alignment explanation
Indices: 85436315--85436362 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
85436305 TTATACCATG
* * *
85436315 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
85436340 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
85436363 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:85436465 original size:20 final size:20
Alignment explanation
Indices: 85436405--85436465 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
85436395 ATAAATATGG
*
85436405 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
85436425 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
85436445 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
85436465 T
1 T
85436466 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:85436541 original size:24 final size:24
Alignment explanation
Indices: 85436514--85436632 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
85436504 GAGGAAGTGA
*
85436514 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
85436538 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
85436561 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
85436585 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
85436609 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
85436633 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 22 0.26
24 53 0.62
25 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:85436583 original size:47 final size:48
Alignment explanation
Indices: 85436514--85436632 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
85436504 GAGGAAGTGA
85436514 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
85436561 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
85436609 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
85436633 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 43 0.66
48 11 0.17
49 11 0.17
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:85436858 original size:31 final size:31
Alignment explanation
Indices: 85436823--85436886 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
85436813 CGTTTACAGT
85436823 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
85436854 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
85436885 AA
1 AA
85436887 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:85444416 original size:25 final size:25
Alignment explanation
Indices: 85444388--85444435 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
85444378 TTATACCATG
* * *
85444388 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
85444413 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
85444436 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:85444538 original size:20 final size:20
Alignment explanation
Indices: 85444478--85444538 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
85444468 ATAAATATGG
*
85444478 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
85444498 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
85444518 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
85444538 T
1 T
85444539 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:85444614 original size:24 final size:24
Alignment explanation
Indices: 85444587--85444705 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
85444577 GAGGAAGTGA
*
85444587 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
85444611 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
85444634 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
85444658 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
85444682 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
85444706 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 22 0.26
24 53 0.62
25 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:85444656 original size:47 final size:48
Alignment explanation
Indices: 85444587--85444705 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
85444577 GAGGAAGTGA
85444587 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
85444634 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
85444682 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
85444706 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 43 0.66
48 11 0.17
49 11 0.17
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:85444931 original size:31 final size:31
Alignment explanation
Indices: 85444896--85444959 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
85444886 CGTTTACAGT
85444896 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
85444927 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
85444958 AA
1 AA
85444960 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:85453199 original size:14 final size:15
Alignment explanation
Indices: 85453180--85453217 Score: 69
Period size: 14 Copynumber: 2.6 Consensus size: 15
85453170 ACTTACTTAC
85453180 CATTTAATTCAT-AA
1 CATTTAATTCATCAA
85453194 CATTTAATTCATCAA
1 CATTTAATTCATCAA
85453209 CATTTAATT
1 CATTTAATT
85453218 TGCTTACTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.39, C:0.16, G:0.00, T:0.45
Consensus pattern (15 bp):
CATTTAATTCATCAA
Found at i:85455011 original size:43 final size:43
Alignment explanation
Indices: 85454963--85455048 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
85454953 TTGTGGCTTT
85454963 GAAACCACTATTTTTGACATTATTGATAAACGGGCTATTACAC
1 GAAACCACTATTTTTGACATTATTGATAAACGGGCTATTACAC
85455006 GAAACCACTATTTTTGACATTATTGATAAACGGGCTATTACAC
1 GAAACCACTATTTTTGACATTATTGATAAACGGGCTATTACAC
85455049 TATGGCTACA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.33
Consensus pattern (43 bp):
GAAACCACTATTTTTGACATTATTGATAAACGGGCTATTACAC
Found at i:85457512 original size:40 final size:40
Alignment explanation
Indices: 85457444--85457606 Score: 179
Period size: 40 Copynumber: 4.1 Consensus size: 40
85457434 CGGGATTTAA
** *
85457444 CCGGATATAAC-ACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
* *** *
85457483 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
85457523 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATTGCCTTCGGGTCTTAGC
* * * *
85457563 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTCGCACAATTGCCTTCGGGTCTTAGC
85457603 CCGG
1 CCGG
85457607 GTATCATTCA
Statistics
Matches: 105, Mismatches: 15, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
39 9 0.09
40 93 0.89
41 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
Found at i:85457566 original size:80 final size:79
Alignment explanation
Indices: 85457430--85457606 Score: 205
Period size: 80 Copynumber: 2.2 Consensus size: 79
85457420 GAATCACGTA
* * * **
85457430 CCTTCGGGATTTA-ACCGGATATAACACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CCTTCGGGACTTAGCCCGGATATAACACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAAT
* *
85457494 AACTTGCACAATTG
66 AACTAGCACAAATG
* ** *
85457508 CCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAAC-ACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATA
* *
85457572 ATCACTAGCATAAATG
64 ATAACTAGCACAAATG
85457588 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
85457607 GTATCATTCA
Statistics
Matches: 82, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 11 0.13
79 11 0.13
80 58 0.71
81 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAACACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAAT
AACTAGCACAAATG
Found at i:85463950 original size:40 final size:40
Alignment explanation
Indices: 85463891--85464032 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
85463881 AAATTGAATG
* * *
85463891 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
85463931 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
85463971 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
85464011 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
85464033 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Done.