Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 85 of 438
Found at i:23270072 original size:10 final size:10
Alignment explanation
Indices: 23270045--23270094 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
23270035 TTAAATTCTA
23270045 AAAGATAAAT
1 AAAGATAAAT
*
23270055 ACAA-ATAATT
1 A-AAGATAAAT
*
23270065 AAAGATAATT
1 AAAGATAAAT
23270075 AAAGATAAAT
1 AAAGATAAAT
*
23270085 AAAAATAAAT
1 AAAGATAAAT
23270095 CCTAAATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.24
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:23271146 original size:2 final size:2
Alignment explanation
Indices: 23271139--23271185 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
23271129 CATTACCAAA
*
23271139 AC AC AC AC AC AG AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
23271181 AC AC A
1 AC AC A
23271186 TATATGAACA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.47, G:0.02, T:0.00
Consensus pattern (2 bp):
AC
Found at i:23289818 original size:39 final size:39
Alignment explanation
Indices: 23289764--23289945 Score: 312
Period size: 39 Copynumber: 4.7 Consensus size: 39
23289754 GAATGTTCGA
23289764 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
23289803 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
23289842 GTGATA-CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
23289880 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
23289919 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
23289946 CTTTGTGCGG
Statistics
Matches: 134, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
38 35 0.26
39 90 0.67
40 9 0.07
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:23289856 original size:77 final size:78
Alignment explanation
Indices: 23289764--23289945 Score: 312
Period size: 77 Copynumber: 2.3 Consensus size: 78
23289754 GAATGTTCGA
*
23289764 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGCCCGAAGGC
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTATGATATCCGGGCTAAGCCCGAAGGC
23289829 AATTGTGCAAATT
66 AATTGTGCAAATT
* *
23289842 GTGATA-CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGC
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTATGATATCCGGGCTAAGCCCGAAGGC
23289906 AATTGTGCAAATT
66 AATTGTGCAAATT
*
23289919 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
23289946 CTTTGTGCGG
Statistics
Matches: 98, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
77 74 0.76
78 15 0.15
79 9 0.09
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.23
Consensus pattern (78 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTATGATATCCGGGCTAAGCCCGAAGGC
AATTGTGCAAATT
Found at i:23296893 original size:39 final size:39
Alignment explanation
Indices: 23296839--23297021 Score: 312
Period size: 39 Copynumber: 4.7 Consensus size: 39
23296829 GAATGTTCGA
23296839 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
23296878 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* * *
23296917 GTGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
23296956 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
23296995 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
23297022 CTTTGTGCGG
Statistics
Matches: 134, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 125 0.93
40 9 0.07
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:23303914 original size:28 final size:28
Alignment explanation
Indices: 23303873--23303928 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
23303863 ATGCTGTTGA
*
23303873 ATACTCAATGTCTC-TCACACTAAGTGCC
1 ATACTCAATATCTCGT-ACACTAAGTGCC
*
23303901 ATACTCGATATCTCGTACACTAAGTGCC
1 ATACTCAATATCTCGTACACTAAGTGCC
23303929 GTACATAGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 24 0.96
29 1 0.04
ACGTcount: A:0.29, C:0.30, G:0.12, T:0.29
Consensus pattern (28 bp):
ATACTCAATATCTCGTACACTAAGTGCC
Found at i:23304045 original size:40 final size:39
Alignment explanation
Indices: 23303917--23304049 Score: 167
Period size: 40 Copynumber: 3.3 Consensus size: 39
23303907 GATATCTCGT
* * * *
23303917 ACACTAAGTGCCGTACATAGCTGAAGCTATCTCAAATCAC
1 ACACTAAGTGCCATATATAGCTGAAGCTATGTC-AATCGC
*
23303957 ACACTAAGTGCCATATATAGCTGAAGCTATGTCGAATCGA
1 ACACTAAGTGCCATATATAGCTGAAGCTATGTC-AATCGC
* *
23303997 ACACTAAGTGCCATATATAGCTGAAGCTAGGTCATATTGC
1 ACACTAAGTGCCATATATAGCTGAAGCTATGTCA-ATCGC
*
23304037 ACATTAAGTGCCA
1 ACACTAAGTGCCA
23304050 CAAATAACCG
Statistics
Matches: 82, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
39 1 0.01
40 81 0.99
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.25
Consensus pattern (39 bp):
ACACTAAGTGCCATATATAGCTGAAGCTATGTCAATCGC
Found at i:23305743 original size:40 final size:40
Alignment explanation
Indices: 23305698--23305865 Score: 189
Period size: 40 Copynumber: 4.2 Consensus size: 40
23305688 CGGAATACAA
*
23305698 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* * *
23305738 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* * **
23305778 CCAGATATAACAACTTGCACGAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* * *
23305818 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTATTAGC
23305858 CCGGATAT
1 CCGGATAT
23305866 CATTCAATTG
Statistics
Matches: 110, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
39 4 0.04
40 106 0.96
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
Found at i:23305838 original size:80 final size:80
Alignment explanation
Indices: 23305714--23305865 Score: 218
Period size: 80 Copynumber: 1.9 Consensus size: 80
23305704 ATAACCACAC
* * *
23305714 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGCC
1 GCACGAATGCCTTCGGGTATTAGCCCGGATATAACGACTAGCACAAATGCCTTCGGGTATTAACC
23305779 CAGATATAACAACTT
66 CAGATATAACAACTT
* *
23305794 GCACGAATGCCTTCGGGTATTAGCCCGGATA-AA-GTCACTAGCACAATTGCCTTCGGGTCTTAA
1 GCACGAATGCCTTCGGGTATTAGCCCGGATATAACG--ACTAGCACAAATGCCTTCGGGTATTAA
*
23305857 CCCGGATAT
64 CCCAGATAT
23305866 CATTCAATTG
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
78 1 0.02
79 2 0.03
80 61 0.95
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (80 bp):
GCACGAATGCCTTCGGGTATTAGCCCGGATATAACGACTAGCACAAATGCCTTCGGGTATTAACC
CAGATATAACAACTT
Found at i:23307794 original size:20 final size:20
Alignment explanation
Indices: 23307755--23307794 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
23307745 ACTTGTATAT
* **
23307755 TTATCATCAAGCATTCAAAA
1 TTATCATCAAACATAAAAAA
23307775 TTATCATCAAACATAAAAAA
1 TTATCATCAAACATAAAAAA
23307795 ATGCTATTTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.17, G:0.03, T:0.28
Consensus pattern (20 bp):
TTATCATCAAACATAAAAAA
Found at i:23317927 original size:27 final size:27
Alignment explanation
Indices: 23317897--23318042 Score: 188
Period size: 27 Copynumber: 5.4 Consensus size: 27
23317887 ATTACCAAAG
* *
23317897 TACCTTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
23317924 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
23317951 TACCCTCAATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
23317978 TACCCTCGATTTACAAAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
*
23318005 TACCCTCGATTTACAGAATTA-TCATTT
1 TACCCTCGATTTACAGAATTACT-GTTT
23318032 TACCCTCGATT
1 TACCCTCGATT
23318043 GTGAAATTAC
Statistics
Matches: 107, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
26 1 0.01
27 106 0.99
ACGTcount: A:0.28, C:0.22, G:0.08, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:23317944 original size:54 final size:54
Alignment explanation
Indices: 23317886--23317990 Score: 138
Period size: 54 Copynumber: 1.9 Consensus size: 54
23317876 CAAGTTGTAA
* *
23317886 AATTACCAAAGTACCTTCGATTTACAAAATTACTGTTTTACCCTCGATTTATAG
1 AATTACCAAAGTACCCTCAATTTACAAAATTACTGTTTTACCCTCGATTTATAG
**** * *
23317940 AATTACCGTTTTACCCTCAATTTATAGAATTACTGTTTTACCCTCGATTTA
1 AATTACCAAAGTACCCTCAATTTACAAAATTACTGTTTTACCCTCGATTTA
23317991 CAAAATTATC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.40
Consensus pattern (54 bp):
AATTACCAAAGTACCCTCAATTTACAAAATTACTGTTTTACCCTCGATTTATAG
Found at i:23318115 original size:54 final size:53
Alignment explanation
Indices: 23318032--23318173 Score: 137
Period size: 54 Copynumber: 2.7 Consensus size: 53
23318022 ATTATCATTT
* * *
23318032 TACCCTCGA-TTGTGAAATTACTAAAATACCCCTGTAGGGT-AGAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGT-GGGTGA-AATTACCAAAA
* * ** * *
23318085 TACCC-CTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTATCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCCCT-GTGGGTGAAATTACCAAAA
*
23318139 TACCCTCAATTTGTAAAATTACCAAAACACCCCTG
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTG
23318174 ATTTACAAAA
Statistics
Matches: 72, Mismatches: 12, Indels: 10
0.77 0.13 0.11
Matches are distributed among these distances:
52 1 0.01
53 6 0.08
54 61 0.85
55 4 0.06
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.28
Consensus pattern (53 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCCTGTGGGTGAAATTACCAAAA
Found at i:23318177 original size:27 final size:27
Alignment explanation
Indices: 23318041--23318186 Score: 118
Period size: 27 Copynumber: 5.4 Consensus size: 27
23318031 TTACCCTCGA
* *
23318041 TTGTGAAATTACTAAAATACCCCTG-T
1 TTGTAAAATTACCAAAATACCCCTGAT
** *
23318067 AGGGTAGAATTACCAAAATACCCCT-AGT
1 -TTGTAAAATTACCAAAATACCCCTGA-T
* *
23318095 TTGTAAAATTACCAAAATACCACTGGT
1 TTGTAAAATTACCAAAATACCCCTGAT
* * * *
23318122 TTGTGAAATTATCGAAATA-CCCTCAAT
1 TTGTAAAATTACCAAAATACCCCT-GAT
*
23318149 TTGTAAAATTACCAAAACACCCCTGAT
1 TTGTAAAATTACCAAAATACCCCTGAT
**
23318176 TTACAAAATTA
1 TTGTAAAATTA
23318187 TAGAAATACC
Statistics
Matches: 91, Mismatches: 23, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
26 3 0.03
27 83 0.91
28 5 0.05
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTGAT
Found at i:23318185 original size:54 final size:54
Alignment explanation
Indices: 23318094--23318279 Score: 151
Period size: 54 Copynumber: 3.4 Consensus size: 54
23318084 ATACCCCTAG
* * *** *
23318094 TTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTATCGAAATACCCTCAA
1 TTTGTAAAATTACCAAAACACCACTGATTTACAAAATTATAGAAATACCCTCAA
* * *
23318148 TTTGTAAAATTACCAAAACACCCCTGATTTACAAAATTATAGAAATACCCTTGAC
1 TTTGTAAAATTACCAAAACACCACTGATTTACAAAATTATAGAAATACCC-TCAA
* * * * * ***
23318203 TTTCTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACT-GAAATACCCTTGG
1 TTTGT-AAAATTACCA-AAACACCACTGATTTACAAAATTA-TAGAAATACCCTCAA
* *
23318258 TTTGTAGATTTACCAAAACACC
1 TTTGTAAAATTACCAAAACACC
23318280 CTTGTGGGAT
Statistics
Matches: 104, Mismatches: 23, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
54 54 0.52
55 13 0.12
56 36 0.35
57 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.32
Consensus pattern (54 bp):
TTTGTAAAATTACCAAAACACCACTGATTTACAAAATTATAGAAATACCCTCAA
Found at i:23318197 original size:27 final size:27
Alignment explanation
Indices: 23318127--23318256 Score: 104
Period size: 27 Copynumber: 4.7 Consensus size: 27
23318117 CTGGTTTGTG
* ** **
23318127 AAATTATCGAAATACCCTCAATTTGTA
1 AAATTATAGAAATACCCTTGATTTACA
* * *
23318154 AAATTACCA-AAACACCCCTGATTTACA
1 AAATTA-TAGAAATACCCTTGATTTACA
23318181 AAATTATAGAAATACCCTTGACTTT-CTAA
1 AAATTATAGAAATACCCTTGA-TTTAC--A
* *
23318210 AAATTATAGAAATACCATTGGTTTACA
1 AAATTATAGAAATACCCTTGATTTACA
23318237 AAATTACT-GAAATACCCTTG
1 AAATTA-TAGAAATACCCTTG
23318257 GTTTGTAGAT
Statistics
Matches: 82, Mismatches: 14, Indels: 14
0.75 0.13 0.13
Matches are distributed among these distances:
26 1 0.01
27 53 0.65
28 7 0.09
29 21 0.26
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTATAGAAATACCCTTGATTTACA
Found at i:23318344 original size:27 final size:27
Alignment explanation
Indices: 23318301--23318374 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 27
23318291 AAATGACTAA
*
23318301 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
23318328 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
*
23318355 AATACCCCTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
23318375 TGTCGAATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
26 3 0.08
27 35 0.90
28 1 0.03
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:23319048 original size:21 final size:20
Alignment explanation
Indices: 23319021--23319097 Score: 64
Period size: 21 Copynumber: 3.7 Consensus size: 20
23319011 ATATTGTTAT
23319021 ACATGATATGACATGATATGC
1 ACATGATATG-CATGATATGC
* * * *
23319042 ATATGATCTGTTATGAGATGC
1 ACATGATATG-CATGATATGC
*
23319063 ACATGATATGCTATGATATAC
1 ACATGATATGC-ATGATATGC
* *
23319084 TCATTATATGCATG
1 ACATGATATGCATG
23319098 GGTTGGGTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
20 3 0.07
21 40 0.93
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (20 bp):
ACATGATATGCATGATATGC
Found at i:23321059 original size:40 final size:39
Alignment explanation
Indices: 23320973--23321156 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 39
23320963 AAATTGAATG
* * * * *
23320973 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGAA-AATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC--AAGTAGT
* * *
23321013 ACATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAG-T
* *
23321053 ATATCCGGGCCAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTAG-T
* * * *
23321093 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
* * *
23321132 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
23321157 CTTGGTGCGG
Statistics
Matches: 116, Mismatches: 23, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
38 1 0.01
39 5 0.04
40 108 0.93
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
Found at i:23329176 original size:40 final size:39
Alignment explanation
Indices: 23329132--23329272 Score: 142
Period size: 40 Copynumber: 3.6 Consensus size: 39
23329122 TGAAAATTAC
*
23329132 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTAT
1 ATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTAG-TAT
* * *
23329172 ATCCGGG-CAAGACCCGAAGGC-ATTCGTGCAAGTTGTTAA
1 ATCCGGGTTAAGACCCGAAGGCAATT-GTGCAAGTAG-TAT
* * * *
23329211 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTGAT
1 ATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTAGT-AT
* *
23329251 ATCCGGGTTAAGTCCCGTAGGC
1 ATCCGGGTTAAGACCCGAAGGC
23329273 CTTGGTGCGG
Statistics
Matches: 84, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
38 3 0.04
39 31 0.37
40 48 0.57
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (39 bp):
ATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTAGTAT
Found at i:23329191 original size:39 final size:39
Alignment explanation
Indices: 23329132--23329242 Score: 134
Period size: 39 Copynumber: 2.8 Consensus size: 39
23329122 TGAAAATTAC
* * *
23329132 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTAT
1 ATCCGGG-CAAGACCCGAAGGCAATTGTGCAAGTAGCTAA
* *
23329172 ATCCGGGCAAGACCCGAAGGC-ATTCGTGCAAGTTGTTAA
1 ATCCGGGCAAGACCCGAAGGCAATT-GTGCAAGTAGCTAA
*
23329211 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAA
1 ATCCGGGC-AAGACCCGAAGGCAATTGTGCAA
23329243 ATCGTGATAT
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
38 3 0.05
39 31 0.50
40 26 0.42
41 2 0.03
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.22
Consensus pattern (39 bp):
ATCCGGGCAAGACCCGAAGGCAATTGTGCAAGTAGCTAA
Found at i:23333868 original size:39 final size:39
Alignment explanation
Indices: 23333762--23333964 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
23333752 CGGAATACAA
*
23333762 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-CACTTGCACGAATGCCTTCGGGTCTTAGC
* * *
23333802 CCGGATACAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAAC-ACTTGCACGAATGCCTTCGGGTCTTAGC
23333842 CCGGAT-TAACAACTTGCACGAATGCCTTC-GGTCTTAGC
1 CCGGATATAAC-ACTTGCACGAATGCCTTCGGGTCTTAGC
* ** * *
23333880 CCGGATGTGTCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACACTTGCACGAA-TGCCTTCGGGTCTTAGC
* * * *
23333919 CCGGATATAATTACTAGCA-TAATGTCTTCGGG-CTTAGC
1 CCGGATATAA-CACTTGCACGAATGCCTTCGGGTCTTAGC
23333957 CCGGATAT
1 CCGGATAT
23333965 CATTCAATTG
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
37 2 0.01
38 41 0.29
39 47 0.34
40 49 0.35
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:23333912 original size:77 final size:79
Alignment explanation
Indices: 23333762--23333963 Score: 230
Period size: 77 Copynumber: 2.6 Consensus size: 79
23333752 CGGAATACAA
* * *
23333762 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATACAACGACTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTC-GGTCTTAGCCCGGATACAACGACTAGCACAAATG
*
23333827 CCTTCGGGTATTAGC
65 CCTTCGGGTATTAAC
**** *
23333842 CCGGAT-TAACAACTTGCACGAATGCCTTCGGTCTTAGCCCGGATGTGTC-ACTAGCACAATTGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGTCTTAGCCCGGATACAACGACTAGCACAAATGC
*
23333905 CTTCGGGTCTTAAC
66 CTTCGGGTATTAAC
** * * * *
23333919 CCGGATATAATTACTAGCA-TAATGTCTTCGGGCTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGTCTTAGCCCGGATA
23333964 TCATTCAATT
Statistics
Matches: 104, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
77 52 0.50
78 25 0.24
79 21 0.20
80 6 0.06
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGTCTTAGCCCGGATACAACGACTAGCACAAATGC
CTTCGGGTATTAAC
Found at i:23338894 original size:39 final size:40
Alignment explanation
Indices: 23338832--23339055 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
23338822 CCGTACAAAG
* * * *
23338832 GCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATCACAATTTGCACAATT
23338872 GCCTTCGGG-CTTAGCCCGGATATCACAATTTGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATCACAATTTGCACAATT
* *
23338911 ACCTTCGGG-CTTAGCCCGGATATCACAATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATCACAATTTGCACAATT
* *
23338950 GCCTTTGGGTCTTAGCCCGGATATCACAATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATCACAATTTGCACAATT
*
23338990 GCCTTCGGGTCTTAGCCCGGATGTAGTCAC---TAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGA--TA-TCACAATTTGCACAATT
* * *
23339030 GCCTTCAGGTCTTAACCCGGGTATCA
1 GCCTTCGGGTCTTAGCCCGGATATCA
23339056 TTCAAATACT
Statistics
Matches: 167, Mismatches: 13, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
37 3 0.02
38 2 0.01
39 71 0.43
40 85 0.51
42 2 0.01
43 4 0.02
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATCACAATTTGCACAATT
Found at i:23338919 original size:79 final size:78
Alignment explanation
Indices: 23338833--23339055 Score: 270
Period size: 79 Copynumber: 2.8 Consensus size: 78
23338823 CGTACAAAGG
* *
23338833 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CCTTCGGG-CTTAGCCCGGATATCACAACTAGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
*
23338898 AATTTGCACAATTA
65 AATTTGCACAAATA
* * * *
23338912 CCTTCGGGCTTAGCCCGGATATCACAATTTGCACAAATGCCTTTGGGTCTTAGCCCGGATATCAC
1 CCTTCGGGCTTAGCCCGGATATCACAACTAGCACAATTGCCTTCGGG-CTTAGCCCGGATATCAC
*
23338977 AATTTGCACAAATG
65 AATTTGCACAAATA
* * * *
23338991 CCTTCGGGTCTTAGCCCGGATGT-AGTC-ACTAGCACAATTGCCTTCAGGTCTTAACCCGGGTAT
1 CCTTCGGG-CTTAGCCCGGATATCA--CAACTAGCACAATTGCCTTC-GGGCTTAGCCCGGATAT
23339054 CA
62 CA
23339056 TTCAAATACT
Statistics
Matches: 124, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
78 34 0.27
79 46 0.37
80 41 0.33
81 3 0.02
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (78 bp):
CCTTCGGGCTTAGCCCGGATATCACAACTAGCACAATTGCCTTCGGGCTTAGCCCGGATATCACA
ATTTGCACAAATA
Found at i:23340291 original size:16 final size:16
Alignment explanation
Indices: 23340270--23340300 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23340260 TCCATGCTCA
*
23340270 TTTTTTTCTTTTCTTT
1 TTTTTTTCATTTCTTT
23340286 TTTTTTTCATTTCTT
1 TTTTTTTCATTTCTT
23340301 AATTCTTTCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTTTTCATTTCTTT
Found at i:23342537 original size:23 final size:23
Alignment explanation
Indices: 23342496--23342610 Score: 90
Period size: 23 Copynumber: 4.9 Consensus size: 23
23342486 AAGCTCCTCA
*
23342496 TGAGCTGATGAACAATAAGCTCTAT
1 TGAGCTGA--AACAGTAAGCTCTAT
23342521 TGAGCTGAAACAGTAAGCTCTAT
1 TGAGCTGAAACAGTAAGCTCTAT
* *
23342544 CGAGCT-AAATAGTAAGCTC-AT
1 TGAGCTGAAACAGTAAGCTCTAT
** * ** * *
23342565 ACAAGCTAAAATGGTAAGCTCCAA
1 -TGAGCTGAAACAGTAAGCTCTAT
23342589 TGAGCTGAAAACAGTAAGCTCT
1 TGAGCTG-AAACAGTAAGCTCT
23342611 TACGAGCTAA
Statistics
Matches: 74, Mismatches: 12, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.03
22 17 0.23
23 35 0.47
24 12 0.16
25 8 0.11
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.23
Consensus pattern (23 bp):
TGAGCTGAAACAGTAAGCTCTAT
Found at i:23342620 original size:69 final size:70
Alignment explanation
Indices: 23342511--23342645 Score: 195
Period size: 69 Copynumber: 1.9 Consensus size: 70
23342501 TGATGAACAA
* *
23342511 TAAGCTCTATTGAGCTGAAACAGTAAGCTCTATCGAGCTAA-ATA-GTAAGCTCATACAAGCTAA
1 TAAGCTCCAATGAGCTGAAACAGTAAGCTCTATCGAGCTAATATACGTAAGCTCATACAAGCTAA
23342574 AATGG
66 AATGG
23342579 TAAGCTCCAATGAGCTGAAAACAGTAAGCTCT-TACGAGCTAATATATCGGTAAGCTCATACAAG
1 TAAGCTCCAATGAGCTG-AAACAGTAAGCTCTAT-CGAGCTAATATA-C-GTAAGCTCATACAAG
23342643 CTA
62 CTA
23342646 TGGTGAGTCC
Statistics
Matches: 59, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
68 16 0.27
69 22 0.37
70 3 0.05
73 18 0.31
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (70 bp):
TAAGCTCCAATGAGCTGAAACAGTAAGCTCTATCGAGCTAATATACGTAAGCTCATACAAGCTAA
AATGG
Found at i:23344325 original size:29 final size:29
Alignment explanation
Indices: 23344293--23344427 Score: 155
Period size: 29 Copynumber: 4.7 Consensus size: 29
23344283 ATACCCTCCG
** * *
23344293 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
23344322 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
23344351 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
23344380 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
23344409 AGCACGCACACTTAGTGCC
1 AGCTCGCACACTTAGTGCC
23344428 GATCTCGTCA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 92 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:23344360 original size:58 final size:58
Alignment explanation
Indices: 23344239--23344428 Score: 179
Period size: 58 Copynumber: 3.3 Consensus size: 58
23344229 TACTCGATTT
* * * *** *
23344239 CGCACACTTAGTGCCACGTA-ATTT-AAGCCCGCACACACAGTGCCATA-CCCTCCGAGCT
1 CGCACACTTAGTG-C-CGTATATTTCCAGCACGCACACATAGTGCCATATATTTCC-AGCA
** * ** * *
23344297 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
* * *
23344355 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
23344413 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
23344429 ATCTCGTCAC
Statistics
Matches: 105, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
56 4 0.04
57 4 0.04
58 94 0.90
59 3 0.03
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
Found at i:23349507 original size:71 final size:71
Alignment explanation
Indices: 23349391--23349542 Score: 295
Period size: 71 Copynumber: 2.1 Consensus size: 71
23349381 CCAAGCCAAA
23349391 ACATCTTTATCATACTAAATACACATACACTTATGTGCATACACTCATAAGTCAAAGTATAACAA
1 ACATCTTTATCATACTAAATACACATACACTTATGTGCATACACTCATAAGTCAAAGTATAACAA
23349456 TTATAT
66 TTATAT
23349462 ACATCTTTATCATACTAAATACACATACACTTATGTGCATACACTCATAAGTCAAAGTATAACAA
1 ACATCTTTATCATACTAAATACACATACACTTATGTGCATACACTCATAAGTCAAAGTATAACAA
23349527 TTATAT
66 TTATAT
*
23349533 ACATATTTAT
1 ACATCTTTAT
23349543 ATCAACGGTC
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 80 1.00
ACGTcount: A:0.42, C:0.19, G:0.05, T:0.34
Consensus pattern (71 bp):
ACATCTTTATCATACTAAATACACATACACTTATGTGCATACACTCATAAGTCAAAGTATAACAA
TTATAT
Found at i:23351434 original size:27 final size:26
Alignment explanation
Indices: 23351396--23351456 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 26
23351386 ATATGTCTAG
23351396 GTTCAAATGCATCTGGACAACTAACTT
1 GTTCAAATGCATCTGGACAACT-ACTT
23351423 GTTCAAATGCATCTGGACAACTACTT
1 GTTCAAATGCATCTGGACAACTACTT
*
23351449 GTCCAAAT
1 GTTCAAAT
23351457 TCATTCCATG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 11 0.33
27 22 0.67
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.30
Consensus pattern (26 bp):
GTTCAAATGCATCTGGACAACTACTT
Found at i:23351770 original size:28 final size:28
Alignment explanation
Indices: 23351738--23351793 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
23351728 TGTCATTAAC
23351738 GAGATGATTGAGAAAACAAAGCTAAGGT
1 GAGATGATTGAGAAAACAAAGCTAAGGT
23351766 GAGATGATTGAGAAAACAAAGCTAAGGT
1 GAGATGATTGAGAAAACAAAGCTAAGGT
23351794 TTGTATTCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.07, G:0.29, T:0.18
Consensus pattern (28 bp):
GAGATGATTGAGAAAACAAAGCTAAGGT
Found at i:23352868 original size:53 final size:53
Alignment explanation
Indices: 23352764--23352871 Score: 173
Period size: 53 Copynumber: 2.0 Consensus size: 53
23352754 ACTTGTATAA
** *
23352764 GCTATTTTGAGGTCTTAAATCCAAGATTGGCACATTGATATTCGGTGTAAACT
1 GCTATTTTGAGGTCTTAAATCCAAGATTGGCACATTGATATTCAATATAAACT
23352817 GCTATTTTGAGGTCTTAAATCCAAGGA-TGGCACATTGATATTCAATATAAACT
1 GCTATTTTGAGGTCTTAAATCCAA-GATTGGCACATTGATATTCAATATAAACT
23352870 GC
1 GC
23352872 CATCAAACTT
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
53 49 0.96
54 2 0.04
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (53 bp):
GCTATTTTGAGGTCTTAAATCCAAGATTGGCACATTGATATTCAATATAAACT
Found at i:23353356 original size:26 final size:26
Alignment explanation
Indices: 23353327--23353377 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
23353317 AGTTTAAATT
* * * *
23353327 CTTACAAAATTAAAATTAGAGATTAC
1 CTTAAAAAACTAAAATCAGAAATTAC
23353353 CTTAAAAAACTAAAATCAGAAATTA
1 CTTAAAAAACTAAAATCAGAAATTA
23353378 AATTCATAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.55, C:0.12, G:0.06, T:0.27
Consensus pattern (26 bp):
CTTAAAAAACTAAAATCAGAAATTAC
Found at i:23354564 original size:5 final size:6
Alignment explanation
Indices: 23354540--23354573 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
23354530 AAATAATTAC
23354540 TAAAACA TACAAAA TAAAAA TAAAAA TAAAAA TA
1 TAAAA-A TA-AAAA TAAAAA TAAAAA TAAAAA TA
23354574 TTATGAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 18 0.69
7 5 0.19
8 3 0.12
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (6 bp):
TAAAAA
Found at i:23355370 original size:20 final size:21
Alignment explanation
Indices: 23355345--23355385 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
23355335 AGTTCTTTTA
23355345 AATTTAATATATTTA-AAAAT
1 AATTTAATATATTTATAAAAT
*
23355365 AATTTAATATTTTTATAAAAT
1 AATTTAATATATTTATAAAAT
23355386 TTTAAAATCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATTTAATATATTTATAAAAT
Found at i:23355386 original size:18 final size:19
Alignment explanation
Indices: 23355344--23355390 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
23355334 AAGTTCTTTT
23355344 AAATTTAATATATTTAAAA
1 AAATTTAATATATTTAAAA
* *
23355363 ATAATTTAATATTTTTATAA
1 A-AATTTAATATATTTAAAA
*
23355383 AATTTTAA
1 AAATTTAA
23355391 AATCCGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
AAATTTAATATATTTAAAA
Found at i:23356872 original size:2 final size:2
Alignment explanation
Indices: 23356865--23356894 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
23356855 ACTCCAAAAC
23356865 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23356895 GATTAAGCGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23357333 original size:21 final size:21
Alignment explanation
Indices: 23357309--23357369 Score: 54
Period size: 21 Copynumber: 2.9 Consensus size: 21
23357299 AGATCCTGAA
23357309 TTTTCGTAATATTGTCAAAAC
1 TTTTCGTAATATTGTCAAAAC
* *
23357330 TTTTACG-ATTATT-TCCAAATC
1 TTTT-CGTAATATTGT-CAAAAC
* *
23357351 TTTTAGTAATCTTGTCAAA
1 TTTTCGTAATATTGTCAAA
23357370 TCTTGAAACC
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
20 2 0.06
21 26 0.84
22 3 0.10
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (21 bp):
TTTTCGTAATATTGTCAAAAC
Found at i:23361103 original size:90 final size:90
Alignment explanation
Indices: 23360940--23361122 Score: 233
Period size: 90 Copynumber: 2.0 Consensus size: 90
23360930 GGCTGTTACA
* ** * ** * * *
23360940 TAACCTGCAACACTGGTGGTTCATCCACCTATTTTCTGGCTGCTCTTATCTGCAATTTTGTTGTG
1 TAACCTGCAACACTGGTGGTTCATCCACCCACATTCTGACAACTCTTATCTACAATTATGTTATG
*
23361005 TATCCACAACCATCTGGCAACATAT
66 CATCCACAACCATCTGGCAACATAT
*
23361030 TAACCTGCAACATTGGTGGTTCATCCACCCACATTCTGACAACTCTTATCTACAATTATGTTATG
1 TAACCTGCAACACTGGTGGTTCATCCACCCACATTCTGACAACTCTTATCTACAATTATGTTATG
* *
23361095 CA-CTCACAATCATCTGGCAACGTAT
66 CATC-CACAACCATCTGGCAACATAT
23361120 TAA
1 TAA
23361123 ACTACAACTT
Statistics
Matches: 79, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
89 1 0.01
90 78 0.99
ACGTcount: A:0.26, C:0.27, G:0.14, T:0.33
Consensus pattern (90 bp):
TAACCTGCAACACTGGTGGTTCATCCACCCACATTCTGACAACTCTTATCTACAATTATGTTATG
CATCCACAACCATCTGGCAACATAT
Found at i:23363489 original size:10 final size:10
Alignment explanation
Indices: 23363443--23363494 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
23363433 CAAACATTAT
*
23363443 AAAAGAAGAAG
1 AAAAGAA-AAA
*
23363454 AAAGGAAAACA
1 AAAAGAAAA-A
23363465 AAAAG-AAAA
1 AAAAGAAAAA
*
23363474 ATAAGAAAAA
1 AAAAGAAAAA
23363484 AAAAGAAAAA
1 AAAAGAAAAA
23363494 A
1 A
23363495 TAATGTAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
9 5 0.15
10 19 0.56
11 10 0.29
ACGTcount: A:0.81, C:0.02, G:0.15, T:0.02
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:23363504 original size:20 final size:20
Alignment explanation
Indices: 23363458--23363497 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
23363448 AAGAAGAAAG
23363458 GAAAACAAAAAG-AAAAATAA
1 GAAAA-AAAAAGAAAAAATAA
23363478 GAAAAAAAAAGAAAAAATAA
1 GAAAAAAAAAGAAAAAATAA
23363498 TGTAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.82, C:0.03, G:0.10, T:0.05
Consensus pattern (20 bp):
GAAAAAAAAAGAAAAAATAA
Found at i:23363512 original size:20 final size:19
Alignment explanation
Indices: 23363458--23363513 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
23363448 AAGAAGAAAG
*
23363458 GAAAACAAAAAGAAAAATAA
1 GAAAA-AAAAAAAAAAATAA
23363478 GAAAAAAAAAGAAAAAATAA
1 GAAAAAAAAA-AAAAAATAA
* *
23363498 TGTAAAAGAAAAAAAA
1 -GAAAAAAAAAAAAAA
23363514 GTGAAATCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 5 0.16
20 18 0.58
21 8 0.26
ACGTcount: A:0.80, C:0.02, G:0.11, T:0.07
Consensus pattern (19 bp):
GAAAAAAAAAAAAAAATAA
Found at i:23366682 original size:11 final size:11
Alignment explanation
Indices: 23366668--23366698 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
23366658 TGATTACAAA
*
23366668 GTGATATTAAG
1 GTGAAATTAAG
23366679 GTGAAATTAAG
1 GTGAAATTAAG
23366690 GTGAAATTA
1 GTGAAATTA
23366699 TAGTAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.26, T:0.32
Consensus pattern (11 bp):
GTGAAATTAAG
Found at i:23372195 original size:42 final size:42
Alignment explanation
Indices: 23372136--23372295 Score: 223
Period size: 42 Copynumber: 3.8 Consensus size: 42
23372126 TTAGAGCTAC
*
23372136 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCTATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
* *
23372178 TGAGATTTCGTGTAAGACCATATCTAGGATATGGCATCGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
* * *
23372220 TGAGACTT-CGTGTAAGACCATAGCTGAGCTATTGGCATCGATA
1 TGAGA-TTACGTGTAAGACCATATCTGGGATA-TGGCATCGATA
* *
23372263 CGAGATTACATGTAAGACCATATCTGGGATATG
1 TGAGATTACGTGTAAGACCATATCTGGGATATG
23372296 ACATTGGTAT
Statistics
Matches: 103, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
42 67 0.65
43 36 0.35
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:23372278 original size:85 final size:84
Alignment explanation
Indices: 23372136--23372295 Score: 223
Period size: 85 Copynumber: 1.9 Consensus size: 84
23372126 TTAGAGCTAC
* * * * * *
23372136 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCTATATGAGATTTCGTGTAAGACCATAT
1 TGAGATTACGTGTAAGACCATAGCTGAGATATGGCATCGATACGAGATTACATGTAAGACCATAT
23372201 CTAGGATATGGCATCGATA
66 CTAGGATATGGCATCGATA
*
23372220 TGAGACTT-CGTGTAAGACCATAGCTGAGCTATTGGCATCGATACGAGATTACATGTAAGACCAT
1 TGAGA-TTACGTGTAAGACCATAGCTGAGATA-TGGCATCGATACGAGATTACATGTAAGACCAT
*
23372284 ATCTGGGATATG
64 ATCTAGGATATG
23372296 ACATTGGTAT
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
84 25 0.38
85 41 0.62
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (84 bp):
TGAGATTACGTGTAAGACCATAGCTGAGATATGGCATCGATACGAGATTACATGTAAGACCATAT
CTAGGATATGGCATCGATA
Found at i:23372895 original size:20 final size:20
Alignment explanation
Indices: 23372870--23372925 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
23372860 TGATTTTAGG
23372870 ATTTATTTTCATTTATC-TAT
1 ATTTATTTTCATTTATCAT-T
*
23372890 ATTTATCTTT-AATTATCATT
1 ATTTAT-TTTCATTTATCATT
*
23372910 ATTTATTTGCATTTAT
1 ATTTATTTTCATTTAT
23372926 ATTTTAGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 2 0.07
20 24 0.80
21 4 0.13
ACGTcount: A:0.27, C:0.09, G:0.02, T:0.62
Consensus pattern (20 bp):
ATTTATTTTCATTTATCATT
Found at i:23376691 original size:15 final size:14
Alignment explanation
Indices: 23376673--23376749 Score: 70
Period size: 15 Copynumber: 5.3 Consensus size: 14
23376663 TTTTCTTAAT
23376673 TTTTATTCATTATTA
1 TTTTATTCATT-TTA
23376688 TTTTATTTCATTTTA
1 TTTTA-TTCATTTTA
23376703 TTATTATT--TTTTA
1 TT-TTATTCATTTTA
*
23376716 TTTTACTTTATTTTA
1 TTTTA-TTCATTTTA
23376731 TTATTTATT-ATTTTA
1 -T-TTTATTCATTTTA
23376746 TTTT
1 TTTT
23376750 TGGATATTAA
Statistics
Matches: 55, Mismatches: 0, Indels: 16
0.77 0.00 0.23
Matches are distributed among these distances:
12 3 0.05
13 12 0.22
14 1 0.02
15 23 0.42
16 12 0.22
17 4 0.07
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTATTCATTTTA
Found at i:23376695 original size:5 final size:5
Alignment explanation
Indices: 23376685--23376749 Score: 60
Period size: 5 Copynumber: 12.4 Consensus size: 5
23376675 TTATTCATTA
* *
23376685 TTATT TTATT TCATT TTATT ATTATTTT TTATT TTACT TTATT TTATT
1 TTATT TTATT TTATT TTATT -TTA--TT TTATT TTATT TTATT TTATT
*
23376733 ATT-TA TTATT TTATT TT
1 -TTATT TTATT TTATT TT
23376750 TGGATATTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
4 2 0.04
5 37 0.76
6 5 0.10
7 3 0.06
8 2 0.04
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (5 bp):
TTATT
Found at i:23376716 original size:28 final size:30
Alignment explanation
Indices: 23376649--23376749 Score: 113
Period size: 28 Copynumber: 3.4 Consensus size: 30
23376639 ACCTTTACTT
* *
23376649 TTATTTTTTTTTACTTT-TCTTAATT-TTTA
1 TTATTTTATTTTACTTTAT-TTTATTATTTA
23376678 TTCATTATTATTTTA-TTTCATTTTATTA-TTA
1 TT-ATT-TTATTTTACTTT-ATTTTATTATTTA
23376709 TT-TTTTATTTTACTTTATTTTATTATTTA
1 TTATTTTATTTTACTTTATTTTATTATTTA
23376738 TTATTTTATTTT
1 TTATTTTATTTT
23376750 TGGATATTAA
Statistics
Matches: 62, Mismatches: 2, Indels: 15
0.78 0.03 0.19
Matches are distributed among these distances:
28 17 0.27
29 12 0.19
30 15 0.24
31 17 0.27
32 1 0.02
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (30 bp):
TTATTTTATTTTACTTTATTTTATTATTTA
Found at i:23376758 original size:25 final size:25
Alignment explanation
Indices: 23376682--23376745 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 25
23376672 TTTTTATTCA
23376682 TTATTATTTTA-TTTCATTTTATTATTAT
1 TTATTATTTTACTTT-A--TTA-TATTAT
* *
23376710 TTTTTATTTTACTTTATTTTATTAT
1 TTATTATTTTACTTTATTATATTAT
23376735 TTATTATTTTA
1 TTATTATTTTA
23376746 TTTTTGGATA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
25 16 0.50
26 2 0.06
28 11 0.34
29 3 0.09
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (25 bp):
TTATTATTTTACTTTATTATATTAT
Found at i:23377346 original size:2 final size:2
Alignment explanation
Indices: 23377339--23377366 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
23377329 GTTTCTGCCC
23377339 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23377367 TAAGAATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23379858 original size:40 final size:40
Alignment explanation
Indices: 23379813--23379898 Score: 136
Period size: 40 Copynumber: 2.1 Consensus size: 40
23379803 CGGAATACAA
*
23379813 CCGGATATAACCACATGCACGAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACATGCACGAATGCCTTCGGGTATTAGC
* * *
23379853 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACATGCACGAATGCCTTCGGGTATTAGC
23379893 CCGGAT
1 CCGGAT
23379899 GTGGTCACTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAACAACATGCACGAATGCCTTCGGGTATTAGC
Found at i:23379921 original size:40 final size:40
Alignment explanation
Indices: 23379829--23379978 Score: 135
Period size: 40 Copynumber: 3.8 Consensus size: 40
23379819 ATAACCACAT
* * *
23379829 GCACGAATGCCTTCGGGTATTAGCCCGGATTTAACAACTT
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATTGAACAACTA
**
23379869 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTA
1 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-TGAACAACTA
* * **
23379909 GCAC-AATGGCCTTCGGGTCTTAACCCGGGTAT-AATTACTA
1 GCACGAAT-GCCTTCGGGTCTTAGCCCGGAT-TGAACAACTA
** * *
23379949 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACGAATGCCTTCGGGTCTTAGCCCGGAT
23379979 ATCATTCAAT
Statistics
Matches: 90, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
39 3 0.03
40 82 0.91
41 5 0.06
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (40 bp):
GCACGAATGCCTTCGGGTCTTAGCCCGGATTGAACAACTA
Found at i:23384411 original size:10 final size:10
Alignment explanation
Indices: 23384396--23384455 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
23384386 TAATTTTAGG
23384396 ATTTAT-TTT
1 ATTTATCTTT
23384405 CATTTATCTTT
1 -ATTTATCTTT
23384416 ATTTATCTTT
1 ATTTATCTTT
*
23384426 AATTATCTTT
1 ATTTATCTTT
23384436 ATTTAT-TTGT
1 ATTTATCTT-T
23384446 ATTTATCTTT
1 ATTTATCTTT
23384456 TAGAATTTGA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:23388786 original size:46 final size:46
Alignment explanation
Indices: 23388732--23388998 Score: 365
Period size: 46 Copynumber: 5.8 Consensus size: 46
23388722 CTCTGATAGA
*
23388732 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG
* * *
23388778 AAACGTGTAAGACCATGGTTGAAACATACCATGGCAACCTGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG
* *
23388824 AAATGTGTAAGACCAAGGTTGAAAGATACCATGGCAACGTGACATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG
* *
23388870 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACGAGG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAC-ATG
** * *
23388917 AAATGAATAAGACCATGGTTGAATGATACCATGGCAACATGACA-G
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG
* * * *
23388962 AAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 -AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
23388999 TCATGTCGAA
Statistics
Matches: 201, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
45 1 0.00
46 159 0.79
47 41 0.20
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.21
Consensus pattern (46 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG
Found at i:23389115 original size:26 final size:26
Alignment explanation
Indices: 23389076--23389125 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
23389066 GGTAATTAAC
*
23389076 AAATGGTTAAATGAATTGGTTATACA
1 AAATGGTTAAATGAAATGGTTATACA
*
23389102 AAATGG-TAATATGAAATGTTTATA
1 AAATGGTTAA-ATGAAATGGTTATA
23389126 GGAATTGGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 3 0.14
26 18 0.86
ACGTcount: A:0.44, C:0.02, G:0.18, T:0.36
Consensus pattern (26 bp):
AAATGGTTAAATGAAATGGTTATACA
Found at i:23394499 original size:42 final size:42
Alignment explanation
Indices: 23394453--23394605 Score: 157
Period size: 42 Copynumber: 3.6 Consensus size: 42
23394443 CTGAGATTAC
* * * * *
23394453 GTAAGACTATATCTGGGATATGGCACCTATATAAGATTTCTT
1 GTAAGACCATATCTGGGATATGGCATCGATATGAGATTTCAT
* * * *
23394495 GTAAGATCATATCTAGGATATGGCATCGATATGAGACTTCGT
1 GTAAGACCATATCTGGGATATGGCATCGATATGAGATTTCAT
* *
23394537 GTAAGACCATAGT-T-GGACTATTGGCATCGATACGAGATTACAT
1 GTAAGACCATA-TCTGGGA-TA-TGGCATCGATATGAGATTTCAT
*
23394580 GTAAGACCATATCTGGGACATGGCAT
1 GTAAGACCATATCTGGGATATGGCAT
23394606 TGGTACGGCA
Statistics
Matches: 92, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
41 3 0.03
42 54 0.59
43 32 0.35
44 3 0.03
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (42 bp):
GTAAGACCATATCTGGGATATGGCATCGATATGAGATTTCAT
Found at i:23395550 original size:17 final size:18
Alignment explanation
Indices: 23395518--23395551 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23395508 TGATCATGGT
*
23395518 ATGCTTGGTGAATGTGAA
1 ATGCTTGGTAAATGTGAA
23395536 ATGCTTGG-AAATGTGA
1 ATGCTTGGTAAATGTGA
23395552 TTTATGGCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.29, C:0.06, G:0.32, T:0.32
Consensus pattern (18 bp):
ATGCTTGGTAAATGTGAA
Found at i:23397243 original size:25 final size:25
Alignment explanation
Indices: 23397213--23397268 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
23397203 TTTCTAAAAG
23397213 ATATTTTTA-TATATAAAAATATAAA
1 ATATTTTTACTAT-TAAAAATATAAA
* **
23397238 TTATTTTTACTATTTTAAATATAAA
1 ATATTTTTACTATTAAAAATATAAA
23397263 ATATTT
1 ATATTT
23397269 ATTTTTACAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 23 0.88
26 3 0.12
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (25 bp):
ATATTTTTACTATTAAAAATATAAA
Found at i:23397681 original size:38 final size:37
Alignment explanation
Indices: 23397598--23397679 Score: 139
Period size: 38 Copynumber: 2.2 Consensus size: 37
23397588 TTGTCTAAAA
23397598 ACATTTTTACTAATTCTCTTTATAAAATATGTTTATT
1 ACATTTTTACTAATTCTCTTTATAAAATATGTTTATT
23397635 ACATTTTTACTAACTTCTCTTTATAAAATATGTTTA-T
1 ACATTTTTACTAA-TTCTCTTTATAAAATATGTTTATT
*
23397672 ACTTTTTT
1 ACATTTTT
23397680 TATTTACTAC
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
37 21 0.49
38 22 0.51
ACGTcount: A:0.30, C:0.12, G:0.02, T:0.55
Consensus pattern (37 bp):
ACATTTTTACTAATTCTCTTTATAAAATATGTTTATT
Found at i:23402911 original size:78 final size:80
Alignment explanation
Indices: 23402776--23402956 Score: 217
Period size: 78 Copynumber: 2.3 Consensus size: 80
23402766 TCGAATGATG
* * *
23402776 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGCCATTT
*
23402841 GTGCGAGTTACTA-A
66 GTACGAGTTACTATA
* * * **
23402855 TTCCGGGCTAAG-CCCGAAGGCATGGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGCCAT
1 -TCCGGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGCCAT
23402917 TTGTACGAGTTACTATA
64 TTGTACGAGTTACTATA
* *
23402934 ACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCAT
23402957 TTGAGCGAGT
Statistics
Matches: 87, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
77 1 0.01
78 49 0.56
79 26 0.30
80 11 0.13
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGCCATTT
GTACGAGTTACTATA
Found at i:23402966 original size:40 final size:40
Alignment explanation
Indices: 23402776--23402992 Score: 223
Period size: 40 Copynumber: 5.5 Consensus size: 40
23402766 TCGAATGATG
* *
23402776 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
23402816 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
23402856 TCCGGGCTAAG-CCCGAAGGCA-TGGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
23402894 TCCGGGTTAAGTCCCGAAGCCATTTGTACGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
23402935 -CCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAA
* *
23402974 TCC-GGTTAAATCCCGAAGG
1 TCCGGGCTAAGTCCCGAAGG
23402993 TACTTGGCTT
Statistics
Matches: 147, Mismatches: 22, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
38 24 0.16
39 34 0.23
40 79 0.54
41 10 0.07
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:23404547 original size:16 final size:16
Alignment explanation
Indices: 23404526--23404582 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 16
23404516 TTAAAATAAA
23404526 TTTATATTTTATTATT
1 TTTATATTTTATTATT
23404542 TTTATA-TTTA-TA-T
1 TTTATATTTTATTATT
* *
23404555 TTTATAGTTT-TTATAA
1 TTTATATTTTATTAT-T
23404571 TTT-TATTTTATT
1 TTTATATTTTATT
23404583 TAATAAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
13 7 0.21
14 7 0.21
15 9 0.26
16 11 0.32
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (16 bp):
TTTATATTTTATTATT
Found at i:23404626 original size:25 final size:23
Alignment explanation
Indices: 23404596--23404653 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 23
23404586 TAAAAATGAC
23404596 TAAATTTTT-TTATTTTCATAATTA
1 TAAATTTTTATT-TTTT-ATAATTA
23404620 TATAATTTTTAATTTTTTATAATTA
1 TA-AATTTTT-ATTTTTTATAATTA
23404645 TAAATTTTT
1 TAAATTTTT
23404654 GAATTTTTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
24 9 0.29
25 16 0.52
26 4 0.13
27 2 0.06
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (23 bp):
TAAATTTTTATTTTTTATAATTA
Found at i:23404640 original size:17 final size:17
Alignment explanation
Indices: 23404620--23404653 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
23404610 TTCATAATTA
* *
23404620 TATAATTTTTAATTTTT
1 TATAATTATAAATTTTT
23404637 TATAATTATAAATTTTT
1 TATAATTATAAATTTTT
23404654 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TATAATTATAAATTTTT
Found at i:23404658 original size:25 final size:25
Alignment explanation
Indices: 23404608--23404661 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
23404598 AATTTTTTTA
23404608 TTTTCATAATTATATAATTTTTAAT
1 TTTTCATAATTATATAATTTTTAAT
*
23404633 TTTTTATAATTATA-AATTTTTGAAT
1 TTTTCATAATTATATAATTTTT-AAT
23404658 TTTT
1 TTTT
23404662 GAGAAAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 7 0.26
25 20 0.74
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (25 bp):
TTTTCATAATTATATAATTTTTAAT
Found at i:23405128 original size:19 final size:20
Alignment explanation
Indices: 23405106--23405143 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
23405096 ATTTAAATTT
23405106 AAAATACAAA-TAAATATAA
1 AAAATACAAAGTAAATATAA
*
23405125 AAAATAGAAAGTAAATATA
1 AAAATACAAAGTAAATATA
23405144 TAATGTCTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (20 bp):
AAAATACAAAGTAAATATAA
Found at i:23407200 original size:43 final size:43
Alignment explanation
Indices: 23407139--23407224 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
23407129 GATGATGGGT
23407139 TTCGATATGGTCAGATGACCACCAACCTGGCACAAGTGGTTAA
1 TTCGATATGGTCAGATGACCACCAACCTGGCACAAGTGGTTAA
23407182 TTCGATATGGTCAGATGACCACCAACCTGGCACAAGTGGTTAA
1 TTCGATATGGTCAGATGACCACCAACCTGGCACAAGTGGTTAA
23407225 CTTAGTGTTG
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:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (43 bp):
TTCGATATGGTCAGATGACCACCAACCTGGCACAAGTGGTTAA
Found at i:23407982 original size:33 final size:33
Alignment explanation
Indices: 23407938--23408017 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 33
23407928 AGTTTGTTCC
*
23407938 AAGTTTTTTCCAATAAATCTAATTGAAATTACA
1 AAGTTTGTTCCAATAAATCTAATTGAAATTACA
*
23407971 AAGTTTGTTCCAATAAATCTAATTTAAATTACA
1 AAGTTTGTTCCAATAAATCTAATTGAAATTACA
*
23408004 AAGTTTGATCCAAT
1 AAGTTTGTTCCAAT
23408018 TTTGATGCCA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.39
Consensus pattern (33 bp):
AAGTTTGTTCCAATAAATCTAATTGAAATTACA
Found at i:23411782 original size:22 final size:22
Alignment explanation
Indices: 23411754--23411798 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
23411744 GTATGTGAGA
23411754 TACTTGAGGATAAAATCAGTGC
1 TACTTGAGGATAAAATCAGTGC
23411776 TACTTGAGGATAAAATCAGTGC
1 TACTTGAGGATAAAATCAGTGC
23411798 T
1 T
23411799 TCTTTTGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (22 bp):
TACTTGAGGATAAAATCAGTGC
Found at i:23418554 original size:23 final size:23
Alignment explanation
Indices: 23418521--23418567 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
23418511 AATGACCACA
* *
23418521 AAAAGGTTTCTATAATCCATGCT
1 AAAAGGATTCTACAATCCATGCT
*
23418544 AAAAGGATTCTCCAATCCATGCT
1 AAAAGGATTCTACAATCCATGCT
23418567 A
1 A
23418568 TCTTGGTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (23 bp):
AAAAGGATTCTACAATCCATGCT
Found at i:23424983 original size:22 final size:23
Alignment explanation
Indices: 23424935--23424983 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
23424925 ATTGATTTAG
* *
23424935 GGTTAAGGTTTTTTAGAATTTAG
1 GGTTAAGGTTTTTTAGAAGTTAA
* *
23424958 GGTTAGGGTTTTTT-TAAGTTAA
1 GGTTAAGGTTTTTTAGAAGTTAA
23424980 GGTT
1 GGTT
23424984 TTTTAGGGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (23 bp):
GGTTAAGGTTTTTTAGAAGTTAA
Found at i:23425112 original size:34 final size:36
Alignment explanation
Indices: 23425069--23425138 Score: 92
Period size: 38 Copynumber: 1.9 Consensus size: 36
23425059 AATACTAAAT
23425069 ATTAAATTA-GA-G-TTTAGGGTATTAGGGTTAATTG
1 ATTAAATTAGGATGATTTAGGGT-TTAGGGTTAATTG
23425103 ATTAAATTAGGGATTGATTTAGGGTTTAGGGTTAAT
1 ATTAAATTA-GGA-TGATTTAGGGTTTAGGGTTAAT
23425139 CGATACATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
34 9 0.29
36 2 0.06
38 12 0.39
39 8 0.26
ACGTcount: A:0.31, C:0.00, G:0.27, T:0.41
Consensus pattern (36 bp):
ATTAAATTAGGATGATTTAGGGTTTAGGGTTAATTG
Found at i:23425902 original size:126 final size:126
Alignment explanation
Indices: 23425673--23426055 Score: 532
Period size: 126 Copynumber: 3.0 Consensus size: 126
23425663 TTTCAGCAAG
* * *
23425673 AATAATTATGAGCAGACGTTTCTGAACAAATAGTGTCGAAAAATGCTTCAAGCAGGATGCACTGT
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCG-AAAACGCTTCAAGCAGGATGCACTGT
* * * *
23425738 CAGCAAAATTTTTAGAAAAAGCTCTCATATGGACGCTCTTTTGCTACAGCAGTTCGTAGAAA
65 CAGCAAAATTTCTAGAAAAAGCTCCCATGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* * *
23425800 AATAATTCTGAGTAAACATTTCTGAACAAATAATGTCGAAAACGCTTCAAGCAGGATGCACTGTC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
* ** * *
23425865 AGCAAAATTTCTGGAAAAAGCTCCCATGTAAATGCTCTTTTACTACAGTAGTTCGTAGAAA
66 AGCAAAATTTCTAGAAAAAGCTCCCATGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* ** * *
23425926 AATAATTCTGAGTAGACGTTTCTGAACAAGTAGTGTAAAAAACGCTTCAAGTAGGATGCACTGTT
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
* * * *
23425991 AGCAAAATTTCAAAAAAAAAGCTCCCACGTGGACGTTCTTTTGCTACAGTAGTTCGTAGAAA
66 AGCAAAATTTC-TAGAAAAAGCTCCCATGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
23426053 AAT
1 AAT
23426056 GAGGCTATAA
Statistics
Matches: 223, Mismatches: 32, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
126 146 0.65
127 77 0.35
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.28
Consensus pattern (126 bp):
AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
AGCAAAATTTCTAGAAAAAGCTCCCATGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
Found at i:23430145 original size:7 final size:7
Alignment explanation
Indices: 23430135--23430170 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
23430125 CATAATACAT
23430135 AATACTA
1 AATACTA
23430142 AATACTA
1 AATACTA
23430149 AATACTA
1 AATACTA
*
23430156 AATACGA
1 AATACTA
23430163 AATGACTA
1 AAT-ACTA
23430171 TTTTATTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
7 23 0.88
8 3 0.12
ACGTcount: A:0.56, C:0.14, G:0.06, T:0.25
Consensus pattern (7 bp):
AATACTA
Found at i:23431029 original size:48 final size:46
Alignment explanation
Indices: 23430977--23431085 Score: 121
Period size: 47 Copynumber: 2.3 Consensus size: 46
23430967 AATCAAGCAG
* *
23430977 TATTGAAATTGTAATTATAA-TTGCATAAATGAATAAAATACCAAATAA
1 TATTGAAATT-TAATTA-AATTTACATAAAT-AAAAAAATACCAAATAA
* * *
23431025 TATTGTAAATTTAATTAAATTTACATAAATAAAAAAATATCGAATAG
1 TATTG-AAATTTAATTAAATTTACATAAATAAAAAAATACCAAATAA
23431072 TATTGAAAATTTAA
1 TATTG-AAATTTAA
23431086 AATTATCACT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
47 28 0.53
48 20 0.38
49 5 0.09
ACGTcount: A:0.52, C:0.05, G:0.07, T:0.36
Consensus pattern (46 bp):
TATTGAAATTTAATTAAATTTACATAAATAAAAAAATACCAAATAA
Found at i:23431082 original size:47 final size:46
Alignment explanation
Indices: 23430952--23431085 Score: 137
Period size: 48 Copynumber: 2.8 Consensus size: 46
23430942 ATACAAACAT
* * *
23430952 CATAAATGAAAAAAAAATCAAGCAGTATTGAAATTGTAATTATAATTG
1 CATAAATGAAAAAAATATCAA-TAGTATTGAAATT-TAATTATAATTA
* * *
23431000 CATAAATGAATAAAATACCAAATAATATTGTAAATTTAATTA-AATTTA
1 CATAAATGAAAAAAATATC-AATAGTATTG-AAATTTAATTATAA-TTA
23431048 CATAAAT-AAAAAAATATCGAATAGTATTGAAAATTTAA
1 CATAAATGAAAAAAATATC-AATAGTATTG-AAATTTAA
23431086 AATTATCACT
Statistics
Matches: 72, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
47 28 0.39
48 37 0.51
49 7 0.10
ACGTcount: A:0.54, C:0.06, G:0.08, T:0.31
Consensus pattern (46 bp):
CATAAATGAAAAAAATATCAATAGTATTGAAATTTAATTATAATTA
Found at i:23438746 original size:68 final size:70
Alignment explanation
Indices: 23438674--23438871 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
23438664 ACACCCTGTA
* * * *
23438674 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
23438736 ATAAAT
65 ATAAAT
*
23438742 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
23438807 ATAAAT
65 ATAAAT
*
23438813 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
23438872 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:23438785 original size:41 final size:41
Alignment explanation
Indices: 23438740--23438857 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
23438730 TGAAAGATAA
23438740 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
23438781 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
23438811 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
23438852 ATGTAG
1 ATGTAG
23438858 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:23438797 original size:71 final size:71
Alignment explanation
Indices: 23438708--23438871 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
23438698 GAGATGTATC
23438708 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
23438773 AGGACA
66 AGGACA
23438779 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
23438844 AGGACA
66 AGGACA
23438850 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
23438872 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:23445872 original size:68 final size:70
Alignment explanation
Indices: 23445800--23445997 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
23445790 ACACCCTGTA
* * * *
23445800 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
23445862 ATAAAT
65 ATAAAT
*
23445868 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
23445933 ATAAAT
65 ATAAAT
*
23445939 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
23445998 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:23445911 original size:41 final size:41
Alignment explanation
Indices: 23445866--23445983 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
23445856 TGAAAGATAA
23445866 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
23445907 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
23445937 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
23445978 ATGTAG
1 ATGTAG
23445984 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:23445923 original size:71 final size:71
Alignment explanation
Indices: 23445834--23445997 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
23445824 GAGATGTATC
23445834 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
23445899 AGGACA
66 AGGACA
23445905 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
23445970 AGGACA
66 AGGACA
23445976 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
23445998 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:23450118 original size:30 final size:30
Alignment explanation
Indices: 23450084--23450143 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
23450074 TAGACACTTC
23450084 CACACGGGT-GATCCACACACCCGTGTGTCA
1 CACACGGGTAGA-CCACACACCCGTGTGTCA
*
23450114 CACACGGGTAGACCACACGCCCGTGTGTCA
1 CACACGGGTAGACCACACACCCGTGTGTCA
23450144 TGGCCGTGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 26 0.93
31 2 0.07
ACGTcount: A:0.23, C:0.37, G:0.25, T:0.15
Consensus pattern (30 bp):
CACACGGGTAGACCACACACCCGTGTGTCA
Found at i:23457894 original size:29 final size:29
Alignment explanation
Indices: 23457861--23457991 Score: 163
Period size: 29 Copynumber: 4.5 Consensus size: 29
23457851 TGACGAGATC
*
23457861 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* *
23457890 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
*
23457919 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* * ** *
23457948 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
**
23457977 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
23457992 AGCTCGGAGG
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 90 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAAAATAT
Found at i:23470362 original size:12 final size:12
Alignment explanation
Indices: 23470345--23470369 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23470335 ATGTAAGTGA
23470345 TCTTGATGATTT
1 TCTTGATGATTT
23470357 TCTTGATGATTT
1 TCTTGATGATTT
23470369 T
1 T
23470370 TACTTTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:23471161 original size:47 final size:46
Alignment explanation
Indices: 23471093--23471400 Score: 225
Period size: 47 Copynumber: 6.6 Consensus size: 46
23471083 TTTGTGCGCT
* *
23471093 AGTGTAAGACATGTTTGGGACATGCTTCAGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCC
* * * * *
23471139 AGTGTAAGACCATGTCTGGGACATGGCATC-GGCATCCA-GACGAGGGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCA--CATTATGAGAGCC
* * * *
23471187 AGTGTAAGACATGTTTGGGACATGCTTCAGCCATATTATGAGTGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCC
* * * * *
23471233 AGAGTAAGACATGCCTGGGACATGCATCGGCCTCGACA-GA-GATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAG-C-C-ACATTATGAGAGCC
* * * * * * * *
23471280 AGTGTAAGACGTGTCTGGGACACGCATCGGGCAAGAGT-TGTG-G-T
1 AGTGTAAGACATGTCTGGGACATGCATC-AGCCACATTATGAGAGCC
*
23471324 AGTGTAAGACATGTCTGGGACATGCATCAGCACGCATATATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGC-CACAT-TATGAGAGCC
**
23471372 AGTAAAAGAGCATGTCTGGGACATGCATC
1 AGTGTAAGA-CATGTCTGGGACATGCATC
23471401 GACATTTTAT
Statistics
Matches: 199, Mismatches: 45, Indels: 33
0.72 0.16 0.12
Matches are distributed among these distances:
43 2 0.01
44 27 0.14
45 5 0.03
46 48 0.24
47 64 0.32
48 30 0.15
49 23 0.12
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCC
Found at i:23477277 original size:11 final size:11
Alignment explanation
Indices: 23477261--23477285 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
23477251 TTCAGCTGAT
23477261 GAAAATGAAGA
1 GAAAATGAAGA
23477272 GAAAATGAAGA
1 GAAAATGAAGA
23477283 GAA
1 GAA
23477286 TTCTAGATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.28, T:0.08
Consensus pattern (11 bp):
GAAAATGAAGA
Found at i:23482479 original size:69 final size:68
Alignment explanation
Indices: 23482406--23482534 Score: 195
Period size: 69 Copynumber: 1.9 Consensus size: 68
23482396 TCTTTAAACT
* *
23482406 TAATCACTTTAATATTAAATTAATATAATATTTATAAAGATAAAAATTAAATTAAATTTAATATT
1 TAATCACTTTAATATTAAATTAATAAAATA-CTATAAAGATAAAAATTAAATTAAATTTAATATT
23482471 AAGA
65 AAGA
* * **
23482475 TAATCACTTTAATATTAAATTAATAAAATACTATTAGGATAAGTATTAAATTAAATTTAA
1 TAATCACTTTAATATTAAATTAATAAAATACTATAAAGATAAAAATTAAATTAAATTTAA
23482535 CATCAAACTA
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
68 25 0.46
69 29 0.54
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (68 bp):
TAATCACTTTAATATTAAATTAATAAAATACTATAAAGATAAAAATTAAATTAAATTTAATATTA
AGA
Found at i:23482498 original size:20 final size:18
Alignment explanation
Indices: 23482399--23482499 Score: 61
Period size: 20 Copynumber: 5.6 Consensus size: 18
23482389 AAGGCTCTCT
23482399 TTAAACTTAATCACTTTAATA
1 TTAAA-TTAAT-A-TTTAATA
23482420 TTAAATTAATA--TAATA
1 TTAAATTAATATTTAATA
* * * * *
23482436 TT-TATAAAGA-TAAAAA
1 TTAAATTAATATTTAATA
23482452 TTAAATTAA-ATTTAATA
1 TTAAATTAATATTTAATA
23482469 TTAAGA-TAATCACTTTAATA
1 TTAA-ATTAAT-A-TTTAATA
23482489 TTAAATTAATA
1 TTAAATTAATA
23482500 AAATACTATT
Statistics
Matches: 63, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
15 5 0.08
16 13 0.21
17 15 0.24
18 1 0.02
19 4 0.06
20 20 0.32
21 5 0.08
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (18 bp):
TTAAATTAATATTTAATA
Found at i:23485638 original size:40 final size:40
Alignment explanation
Indices: 23485579--23485786 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 40
23485569 CAATTGAATG
* * * *
23485579 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
23485619 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * * **
23485659 ACATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
23485699 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
23485739 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
23485779 ATATCCGG
1 ATATCCGG
23485787 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:23485717 original size:80 final size:80
Alignment explanation
Indices: 23485581--23485786 Score: 220
Period size: 80 Copynumber: 2.6 Consensus size: 80
23485571 ATTGAATGAT
* ** * * *
23485581 ATCCGGGCTAAGT-CCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA
1 ATCCGGGCTAA-TACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CA
*
23485645 -TTGTGCTAGT-GACCAC
64 TTTGTGCAAGTCGACC-C
* * *
23485661 ATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
23485726 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* * *
23485741 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
23485787 TTGTATTCCG
Statistics
Matches: 106, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
79 3 0.03
80 101 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:23488506 original size:48 final size:48
Alignment explanation
Indices: 23488452--23488716 Score: 315
Period size: 48 Copynumber: 5.5 Consensus size: 48
23488442 TATGTGTGAG
23488452 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
* *** * * *
23488500 AGTGTAAGGCCATGTCTGGGACATGGCATCGGCGTTGA-TATGTGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CACATTATGAGAGCC
23488548 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
*
23488596 AGTGTAAGACCATGTCTGGGACATGGCATC-G--ACATTGAGATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATT---ATGAGAGCC
* ** * *
23488644 AGTGTAAGACCATGTCTGGGATATGGCATCGGCCTTGA-CATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCC-ACATTATGAGAGCC
* *
23488692 AATGTAAAACCATGTCTGGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
23488717 ACATTGGCAT
Statistics
Matches: 184, Mismatches: 24, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
45 5 0.03
47 2 0.01
48 174 0.95
49 2 0.01
52 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
Found at i:23488553 original size:96 final size:96
Alignment explanation
Indices: 23488434--23488716 Score: 406
Period size: 96 Copynumber: 2.9 Consensus size: 96
23488424 CAATATGCGA
**
23488434 ACATGTGATATGTGTGAGAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGC
1 ACAT-TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGC
*
23488499 CAGTGTAAGGCCATGTCTGGGACATGGCATCG
65 CAGTGTAAGACCATGTCTGGGACATGGCATCG
* *
23488531 GCGTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
1 ACATTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
23488596 AGTGTAAGACCATGTCTGGGACATGGCATCG
66 AGTGTAAGACCATGTCTGGGACATGGCATCG
* * * * ** * *
23488627 ACATTGAGATGAGAGCTAGTGTAAGACCATGTCTGGGATATGGCATCGGCCTTGA-CATGTGAGC
1 ACATTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCC-ACATTATGAGAGC
* *
23488691 CAATGTAAAACCATGTCTGGGACATG
65 CAGTGTAAGACCATGTCTGGGACATG
23488717 ACATTGGCAT
Statistics
Matches: 168, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
96 165 0.98
97 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (96 bp):
ACATTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
AGTGTAAGACCATGTCTGGGACATGGCATCG
Found at i:23488712 original size:144 final size:143
Alignment explanation
Indices: 23488452--23488716 Score: 399
Period size: 144 Copynumber: 1.8 Consensus size: 143
23488442 TATGTGTGAG
*
23488452 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGGCCATGTCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CACATTATGAGAGCCAGTGTAAGACCATGTCT
* * * * * *
23488517 GGGACATGGCATCGGCGTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCC
65 GGGACATGGCATCGGCCTTGACATGTGAGCCAATGTAAAACCATGTCTGGGACATGGCATCGGCC
23488582 ACATTATGAGAGCC
130 ACATTATGAGAGCC
*
23488596 AGTGTAAGACCATGTCTGGGACATGGCATC-G-ACATTGAGATGAGAGCTAGTGTAAGACCATGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACATT---ATGAGAGCCAGTGTAAGACCATGT
*
23488659 CTGGGATATGGCATCGGCCTTGACATGTGAGCCAATGTAAAACCATGTCTGGGACATG
63 CTGGGACATGGCATCGGCCTTGACATGTGAGCCAATGTAAAACCATGTCTGGGACATG
23488717 ACATTGGCAT
Statistics
Matches: 109, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
141 5 0.05
143 1 0.01
144 103 0.94
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.24
Consensus pattern (143 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACATTATGAGAGCCAGTGTAAGACCATGTCTG
GGACATGGCATCGGCCTTGACATGTGAGCCAATGTAAAACCATGTCTGGGACATGGCATCGGCCA
CATTATGAGAGCC
Found at i:23500153 original size:48 final size:46
Alignment explanation
Indices: 23500031--23500350 Score: 270
Period size: 48 Copynumber: 6.7 Consensus size: 46
23500021 TAATGTTGAG
* * *
23500031 GCCGATGCCATGTCCTAGACA-GGTCTTACAATGGCT-TGCATATCCCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAT----AT
* *
23500080 GCCGAT-ACATGTCCCAGACAT-GTCTTACACTGGCTCTCATAATGT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATAT
* * * *
23500125 GGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAT--AT
* * * * *
23500174 GCAGATGCCATGTCCTAGACATGGTCTTACACTAGCACACATATCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAT--AT
*
23500222 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATTACATT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA-TATA-T
* * * * * *
23500270 GCCGATGCAATATCCCAAACATGGTCTTATACTGGCTCTCATGTTGT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATAT
* *
23500317 GGCCAATGCCATGTCCCTGACATGGTCTTACACT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACT
23500351 AGCACACATA
Statistics
Matches: 227, Mismatches: 32, Indels: 25
0.80 0.11 0.09
Matches are distributed among these distances:
46 5 0.02
47 19 0.08
48 191 0.84
49 12 0.05
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (46 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATAT
Found at i:23500293 original size:144 final size:143
Alignment explanation
Indices: 23500030--23500363 Score: 369
Period size: 144 Copynumber: 2.3 Consensus size: 143
23500020 TTAATGTTGA
* * *** *
23500030 GGCC-GATGCCATGTCCTAGACA-GGTCTTACAATGGCTTGCATATCCCGAGGCCGATACATGTC
1 GGCCAGATGCCATGTCCTAGACATGGTCTTACACTAGCACACATAT--CAAGGCCGATACATGTC
* * * *
23500093 CCAGACATGTCTTACACTGGCTCTCATAATGTGGCTGATGCCATGTCCCAGACATGGTCTTACAC
64 CCAGACATGTCTTACACTGGCTCTCATAATGTGGCCGATGCAATATCCCAAACATGGTCTTACAC
23500158 TAGCACACATATCAAT
129 TAGCACACATAT-AAT
* *
23500174 -G-CAGATGCCATGTCCTAGACATGGTCTTACACTAGCACACATATCAATGCCGATGCCATGTCC
1 GGCCAGATGCCATGTCCTAGACATGGTCTTACACTAGCACACATATCAAGGCCGAT-ACATGTCC
*
23500237 CAGACATGGTCTTACACTGGCTCTCATTACAT-T-GCCGATGCAATATCCCAAACATGGTCTTAT
65 CAGACAT-GTCTTACACTGGCTCTCA-TA-ATGTGGCCGATGCAATATCCCAAACATGGTCTTAC
* * * * **
23500300 ACTGGCTCTCATGTTGT
127 ACTAGCACACATATAAT
23500317 GGCCA-ATGCCATGTCCCT-GACATGGTCTTACACTAGCACACATATCA
1 GGCCAGATGCCATGT-CCTAGACATGGTCTTACACTAGCACACATATCA
23500364 CCCAAATGTC
Statistics
Matches: 162, Mismatches: 19, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
142 9 0.06
143 34 0.21
144 109 0.67
145 8 0.05
146 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (143 bp):
GGCCAGATGCCATGTCCTAGACATGGTCTTACACTAGCACACATATCAAGGCCGATACATGTCCC
AGACATGTCTTACACTGGCTCTCATAATGTGGCCGATGCAATATCCCAAACATGGTCTTACACTA
GCACACATATAAT
Found at i:23500914 original size:57 final size:57
Alignment explanation
Indices: 23500843--23500958 Score: 232
Period size: 57 Copynumber: 2.0 Consensus size: 57
23500833 ACATTTACCA
23500843 CATAATTTATAACTTATGCAAAATGGTCCTTAGTTAGGGTTTTCATGAAAACTACTT
1 CATAATTTATAACTTATGCAAAATGGTCCTTAGTTAGGGTTTTCATGAAAACTACTT
23500900 CATAATTTATAACTTATGCAAAATGGTCCTTAGTTAGGGTTTTCATGAAAACTACTT
1 CATAATTTATAACTTATGCAAAATGGTCCTTAGTTAGGGTTTTCATGAAAACTACTT
23500957 CA
1 CA
23500959 CAAAGGTTGT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.38
Consensus pattern (57 bp):
CATAATTTATAACTTATGCAAAATGGTCCTTAGTTAGGGTTTTCATGAAAACTACTT
Found at i:23503678 original size:20 final size:19
Alignment explanation
Indices: 23503642--23503692 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
23503632 AAGGGCCATT
*
23503642 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTGAAATAA
23503661 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTGAAATAA
23503681 TTG-AAAT-TGTGA
1 TTGTAAATGTGTGA
23503693 GTTGCTATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 3 0.10
20 16 0.55
21 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (19 bp):
TTGTAAATGTGTGAAATAA
Found at i:23504541 original size:48 final size:49
Alignment explanation
Indices: 23504477--23504604 Score: 165
Period size: 48 Copynumber: 2.7 Consensus size: 49
23504467 TGACATGTGT
23504477 CAGTGTAAGACCTGTCTGGGACATGGCATCGACGC-CGATAGAGAG-AGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGAGAGAAGC
* * * * *
23504525 CAGTGTAAGACCTGTCTGGAACATGGCATCGGCCTCGATATATAGAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGAGAGAAGC
*
23504574 CAGTGTAAGA-CTGCCT-GGACATGGCATCGAC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC
23504605 TTAGATGTGT
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
47 14 0.20
48 44 0.63
49 12 0.17
ACGTcount: A:0.27, C:0.23, G:0.30, T:0.20
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGAGAGAAGC
Found at i:23504640 original size:95 final size:97
Alignment explanation
Indices: 23504475--23504652 Score: 245
Period size: 95 Copynumber: 1.9 Consensus size: 97
23504465 CTTGACATGT
* *
23504475 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACGCCGATAGAGAGAGCCAGTGTAAGACCTGT
1 GTCAGTGTAAGACCTGCCTGGGACATGGCATCGACGCAGATAGAGAGAGCCAGTGTAAGACCTGT
*
23504540 CTGGAACATGGCATCGGCCTCGATATATAGAA
66 CTGGAACAAGGCATCGGCCTCGATATATAGAA
** * * *
23504572 GTCAGTGTAAGA-CTGCCT-GGACATGGCATCGACTTAGAT-GTGTGAGCTAGTGTAAGACCATG
1 GTCAGTGTAAGACCTGCCTGGGACATGGCATCGACGCAGATAGAGAGAGCCAGTGTAAGACC-TG
*
23504634 TTTGGAACAAGGCATCGGC
65 TCTGGAACAAGGCATCGGC
23504653 ATCGTACCCT
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
94 17 0.24
95 37 0.52
96 5 0.07
97 12 0.17
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.22
Consensus pattern (97 bp):
GTCAGTGTAAGACCTGCCTGGGACATGGCATCGACGCAGATAGAGAGAGCCAGTGTAAGACCTGT
CTGGAACAAGGCATCGGCCTCGATATATAGAA
Found at i:23510256 original size:20 final size:19
Alignment explanation
Indices: 23510220--23510270 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
23510210 AAGGGCCATT
*
23510220 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTGAAATAA
23510239 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTGAAATAA
23510259 TTG-AAAT-TGTGA
1 TTGTAAATGTGTGA
23510271 GTTGCTATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 3 0.10
20 16 0.55
21 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (19 bp):
TTGTAAATGTGTGAAATAA
Found at i:23510562 original size:65 final size:65
Alignment explanation
Indices: 23510456--23510585 Score: 235
Period size: 65 Copynumber: 2.0 Consensus size: 65
23510446 AATTTTATCA
*
23510456 TTCTAGATCAAGAAACCGAGATTCGGGCTTCAATCAGAAAGTACAAGGTTATAGACTAAAGCGGC
1 TTCTAGATCAAGAAACCGAGATTCGGGCTTAAATCAGAAAGTACAAGGTTATAGACTAAAGCGGC
23510521 TTCTAGATCAAGAAACCGAGATTCGGGCTTAAATC-GAAAAGTACAAGGTTATAGACTAAAGCGG
1 TTCTAGATCAAGAAACCGAGATTCGGGCTTAAATCAG-AAAGTACAAGGTTATAGACTAAAGCGG
23510585 C
65 C
23510586 GTAATTAGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
64 1 0.02
65 62 0.98
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.22
Consensus pattern (65 bp):
TTCTAGATCAAGAAACCGAGATTCGGGCTTAAATCAGAAAGTACAAGGTTATAGACTAAAGCGGC
Found at i:23511113 original size:46 final size:46
Alignment explanation
Indices: 23510985--23511154 Score: 173
Period size: 46 Copynumber: 3.6 Consensus size: 46
23510975 TTTGTGTGCT
* * ** * *
23510985 AGTGTAAGACATGCCTGGGACATGCATCGGCC-ACATTATGAGAGCC
1 AGTGTAAGACAAGTCTGGGACATGCATCGGCCTTGA-GATGAAAGCC
* *
23511031 AGTGTAAGA-AATGTCTGGGACATGCATCGGCATTGAGACGAAAGCC
1 AGTGTAAGACAA-GTCTGGGACATGCATCGGCCTTGAGATGAAAGCC
*
23511077 AGTGTAAGACAAGTCTGGGACATGCATCGGCCTTGAGATATGCAAGCC
1 AGTGTAAGACAAGTCTGGGACATGCATCGGCCTTGAG--ATGAAAGCC
* * *
23511125 AGTGTAATACCATTCTGGGACATGACATCG
1 AGTGTAAGACAAGTCTGGGACATG-CATCG
23511155 ACACCGATAG
Statistics
Matches: 104, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
45 1 0.01
46 67 0.64
47 3 0.03
48 28 0.27
49 5 0.05
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (46 bp):
AGTGTAAGACAAGTCTGGGACATGCATCGGCCTTGAGATGAAAGCC
Found at i:23511231 original size:19 final size:17
Alignment explanation
Indices: 23511189--23511224 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
23511179 GACCTAGGAC
23511189 ATGGCATCGACCTCGAT
1 ATGGCATCGACCTCGAT
*
23511206 ATGGCATCGACCTTGAT
1 ATGGCATCGACCTCGAT
23511223 AT
1 AT
23511225 ATGGCATGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (17 bp):
ATGGCATCGACCTCGAT
Found at i:23511238 original size:24 final size:24
Alignment explanation
Indices: 23511206--23511252 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
23511196 CGACCTCGAT
*
23511206 ATGGCATCGACCTTGATATATGGC
1 ATGGCATCGACCTCGATATATGGC
23511230 ATGGCATCGACCTCGATATATGG
1 ATGGCATCGACCTCGATATATGG
23511253 AAGTCAATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (24 bp):
ATGGCATCGACCTCGATATATGGC
Found at i:23511670 original size:20 final size:21
Alignment explanation
Indices: 23511642--23511680 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
23511632 TTTGTGATGA
* *
23511642 ACTTGTGAT-TATAGATATAT
1 ACTTATGATGTATAAATATAT
23511662 ACTTATGATGTATAAATAT
1 ACTTATGATGTATAAATAT
23511681 GTATCTTTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (21 bp):
ACTTATGATGTATAAATATAT
Found at i:23521298 original size:48 final size:48
Alignment explanation
Indices: 23521224--23521457 Score: 168
Period size: 48 Copynumber: 4.9 Consensus size: 48
23521214 AGGGTGAATT
* * * *
23521224 GCCGACGCCGTGTTCCAAACATGGTCTTACACTGGCTCACATGTCAAG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATCTCAAG
* * * * * * * *
23521272 GCTGATGCGATGTCCTAAACAAGGTCTTACAGTAGCTCACGTCTCAAT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATCTCAAG
* * * **
23521320 GCCGATGCCATGTCCCAAACATGG-CATTTCACTGGCTCTCATAAT-GTG
1 GCCGATGCCATGTCCCAAACATGGTC-TTACACTGGCTCACAT-CTCAAG
* * * * **
23521368 GCCGATGCCATATCCCAGAGATGGTCTTACACTGGCTCTCAT-TACATT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATCT-CAAG
* * * * *
23521416 GCCGATGCCTTGTTCTAAACATGGTCTTACACTAGCACACAT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACAT
23521458 ATCACCCAAA
Statistics
Matches: 141, Mismatches: 40, Indels: 10
0.74 0.21 0.05
Matches are distributed among these distances:
46 1 0.01
47 1 0.01
48 137 0.97
49 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATCTCAAG
Found at i:23525740 original size:20 final size:20
Alignment explanation
Indices: 23525715--23525752 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
23525705 TTGTTATTTT
23525715 TTGAAAGTT-AAGTGATTGAG
1 TTGAAAGTTGAA-TGATTGAG
23525735 TTGAAAGTTGAATGATTG
1 TTGAAAGTTGAATGATTG
23525753 TTTTGTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (20 bp):
TTGAAAGTTGAATGATTGAG
Found at i:23527601 original size:43 final size:42
Alignment explanation
Indices: 23527554--23527699 Score: 145
Period size: 42 Copynumber: 3.4 Consensus size: 42
23527544 TCCTAGAGGT
* *
23527554 GGTCTTACATGTAATCAAATATCGATGCC-ACTGTCCCAGACAG
1 GGTCTTACACGAAATCAAATA-CGATGCCGA-TGTCCCAGACAG
*
23527597 GGTCTTACACGAAATCAAATACGATGCCGATGTCCCAGACAT
1 GGTCTTACACGAAATCAAATACGATGCCGATGTCCCAGACAG
* * ***
23527639 GGTCTTACACATAAATCTCAAAT-CGATGCCAACAACCCAGAC-G
1 GGTCTTACAC-GAAA--TCAAATACGATGCCGATGTCCCAGACAG
23527682 TGGTCTTACACGAAATCA
1 -GGTCTTACACGAAATCA
23527700 CATATCGAAA
Statistics
Matches: 88, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
41 3 0.03
42 28 0.32
43 26 0.30
44 25 0.28
45 6 0.07
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.23
Consensus pattern (42 bp):
GGTCTTACACGAAATCAAATACGATGCCGATGTCCCAGACAG
Found at i:23530467 original size:22 final size:22
Alignment explanation
Indices: 23530442--23530529 Score: 115
Period size: 23 Copynumber: 3.8 Consensus size: 22
23530432 CGAGCTAATG
23530442 AACAGTAAGCTCTATCGAGCTG-
1 AACAGTAAGCTCTAT-GAGCTGA
23530464 AACAGTAAGCTCATATGAGCTGA
1 AACAGTAAGCTC-TATGAGCTGA
*
23530487 AACGGTAAGCTCTAGTGAGCTGA
1 AACAGTAAGCTCTA-TGAGCTGA
23530510 TAACAGTAAGCTCTTATGAG
1 -AACAGTAAGCTC-TATGAG
23530530 TTGATATATT
Statistics
Matches: 59, Mismatches: 2, Indels: 8
0.86 0.03 0.12
Matches are distributed among these distances:
22 20 0.34
23 22 0.37
24 15 0.25
25 2 0.03
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (22 bp):
AACAGTAAGCTCTATGAGCTGA
Found at i:23534740 original size:15 final size:17
Alignment explanation
Indices: 23534712--23534746 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
23534702 CTATTTAATT
23534712 TTTTATCATCTTTT-AA
1 TTTTATCATCTTTTCAA
23534728 TTTTATC-TCTTTTCAA
1 TTTTATCATCTTTTCAA
23534744 TTT
1 TTT
23534747 AGTCCTTAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.20, C:0.14, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTATCATCTTTTCAA
Found at i:23536268 original size:23 final size:23
Alignment explanation
Indices: 23536242--23536285 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
23536232 ACTCCCAAAA
* *
23536242 GTAATGATGTAATATTAGTAACT
1 GTAATAATATAATATTAGTAACT
23536265 GTAATAATATAATATTAGTAA
1 GTAATAATATAATATTAGTAA
23536286 TAAAATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.45, C:0.02, G:0.14, T:0.39
Consensus pattern (23 bp):
GTAATAATATAATATTAGTAACT
Found at i:23536287 original size:17 final size:17
Alignment explanation
Indices: 23536265--23536298 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
23536255 ATTAGTAACT
*
23536265 GTAATAATATAATATTA
1 GTAATAAAATAATATTA
23536282 GTAATAAAATAATATTA
1 GTAATAAAATAATATTA
23536299 TTATTATTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (17 bp):
GTAATAAAATAATATTA
Found at i:23549471 original size:39 final size:39
Alignment explanation
Indices: 23549359--23549580 Score: 295
Period size: 39 Copynumber: 5.6 Consensus size: 39
23549349 TCGTTCAAAC
* * * * *
23549359 GCCTTCGGGACATAGCCC-GATTATGATAACCCGCACAAAT
1 GCCTTCGGG-CTTAGCCCGGA-TATCATATCTCGCACAATT
* * * *
23549399 GCCTTCGAGACTTAACCCGGATATCACAACTCGCACAATT
1 GCCTTCG-GGCTTAGCCCGGATATCATATCTCGCACAATT
23549439 GCCTTCGGGCTTAGCCCGGATATCATATCTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATATCTCGCACAATT
23549478 GCCTTCGGGCTTAGCCCGGATATCATATCTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATATCTCGCACAATT
* *
23549517 GCCTTCGGGCTTAGCCCGGATATCACAAT-TCGCACATTT
1 GCCTTCGGGCTTAGCCCGGATATCA-TATCTCGCACAATT
23549556 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
23549581 CAATTCGCAC
Statistics
Matches: 166, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
39 126 0.76
40 37 0.22
41 3 0.02
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.25
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATATCTCGCACAATT
Found at i:23549558 original size:117 final size:119
Alignment explanation
Indices: 23549359--23549580 Score: 333
Period size: 117 Copynumber: 1.9 Consensus size: 119
23549349 TCGTTCAAAC
*
23549359 GCCTTCGGGACATAGCCCGATTATGATAACCCGCACAAATGCCTTCGAGACTTAACCCGGATATC
1 GCCTTCGGGACATAGCCCGATTATCATAACCCGCACAAATGCCTTCGAGACTTAACCCGGATATC
23549424 ACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCATATCTCGCACAATT
66 ACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCATATCTCGCACAATT
* * * * * *
23549478 GCCTTCGGG-CTTAGCCCGGA-TATCATATCTCGCACAATTGCCTTCG-GGCTTAGCCCGGATAT
1 GCCTTCGGGACATAGCCC-GATTATCATAACCCGCACAAATGCCTTCGAGACTTAACCCGGATAT
* *
23549540 CACAATTCGCACATTTGCCTTCGGGCTTAGCCCGGATATCA
65 CACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
23549581 CAATTCGCAC
Statistics
Matches: 93, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
117 53 0.57
118 29 0.31
119 11 0.12
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.25
Consensus pattern (119 bp):
GCCTTCGGGACATAGCCCGATTATCATAACCCGCACAAATGCCTTCGAGACTTAACCCGGATATC
ACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCATATCTCGCACAATT
Found at i:23549593 original size:39 final size:39
Alignment explanation
Indices: 23549390--23549591 Score: 300
Period size: 39 Copynumber: 5.2 Consensus size: 39
23549380 TATGATAACC
* * * *
23549390 CGCACAAATGCCTTCGAGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCG-GGCTTAGCCCGGATATCACAATT
*
23549430 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA-TATCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAAT-T
*
23549469 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA-TATCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAAT-T
23549508 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
*
23549547 CGCACATTTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
23549586 CGCACA
1 CGCACA
23549592 TTCATACACA
Statistics
Matches: 153, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
38 1 0.01
39 135 0.88
40 17 0.11
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
Found at i:23561951 original size:40 final size:40
Alignment explanation
Indices: 23561869--23561968 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 40
23561859 GAAATTATAA
* * *
23561869 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACAT
1 CCGGGTTAAGACCCGAAGGCAATTGTGCAAATCGCTACAT
* * *
23561909 CCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATAT
1 CCGGGTTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACAT
* *
23561949 CCGGGTTAAGTCCCGTAGGC
1 CCGGGTTAAGACCCGAAGGC
23561969 CTTGGTGCGG
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.02
40 49 0.98
ACGTcount: A:0.24, C:0.24, G:0.30, T:0.22
Consensus pattern (40 bp):
CCGGGTTAAGACCCGAAGGCAATTGTGCAAATCGCTACAT
Done.