Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 198 of 352
Found at i:65306886 original size:19 final size:20
Alignment explanation
Indices: 65306838--65306895 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 20
65306828 ATCTGTCAGA
* *
65306838 AGAAAAT-AAATGAAGAATT
1 AGAAAATAAAATTAAAAATT
*
65306857 AGAAAAGAAAATTAAAAATT
1 AGAAAATAAAATTAAAAATT
*
65306877 A-AAAATAAAAATAAAAATT
1 AGAAAATAAAATTAAAAATT
65306896 TGAATTGCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
19 22 0.67
20 11 0.33
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.21
Consensus pattern (20 bp):
AGAAAATAAAATTAAAAATT
Found at i:65308262 original size:20 final size:20
Alignment explanation
Indices: 65308224--65308262 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
65308214 TCCCATGTTA
*
65308224 GCCCGTTTTCTCTGTTTTTG
1 GCCCGTTTTCTCGGTTTTTG
65308244 GCCCG-TTTCTCGGTCTTTT
1 GCCCGTTTTCTCGGT-TTTT
65308263 ACTCTCTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.00, C:0.28, G:0.21, T:0.51
Consensus pattern (20 bp):
GCCCGTTTTCTCGGTTTTTG
Found at i:65308904 original size:43 final size:42
Alignment explanation
Indices: 65308857--65308951 Score: 120
Period size: 42 Copynumber: 2.2 Consensus size: 42
65308847 TCCCAGACGT
* * **
65308857 GGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGAAAG
1 GGTCTTACACGAAATCAAATAT-GATGCCACCATCCCAGAAAG
*
65308900 GGTCTTACACGAAATCAAATATGATGCCACCATCCCAG-ATG
1 GGTCTTACACGAAATCAAATATGATGCCACCATCCCAGAAAG
65308941 TGGTCTTACAC
1 -GGTCTTACAC
65308952 ATAAAACATA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
41 2 0.04
42 24 0.52
43 20 0.43
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (42 bp):
GGTCTTACACGAAATCAAATATGATGCCACCATCCCAGAAAG
Found at i:65308946 original size:42 final size:43
Alignment explanation
Indices: 65308838--65308994 Score: 178
Period size: 43 Copynumber: 3.7 Consensus size: 43
65308828 AGCTCGTACA
* *
65308838 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAAATATCG
*
65308881 ATGCC-ACTGTCCCAGAAAG-GGTCTTACACGAAATCAAATAT-G
1 ATGCCAAC-GTCCCAG-ACGTGGTCTTACACGAAATCAAATATCG
* * * * *
65308923 ATGCCACCATCCCAGATGTGGTCTTACACATAAAACATAAT-TCG
1 ATGCCAACGTCCCAGACGTGGTCTTACAC-GAAATCA-AATATCG
65308967 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
65308995 TGATAACAAG
Statistics
Matches: 96, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
41 2 0.02
42 24 0.25
43 39 0.41
44 31 0.32
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAAATATCG
Found at i:65313056 original size:37 final size:37
Alignment explanation
Indices: 65313006--65313076 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
65312996 ATCTATATAA
* *
65313006 TTTAGAGTTTACACACCCCTAAACTTAATTCATTACT
1 TTTAGAGTTTACACACCCCCAAACTTAATCCATTACT
65313043 TTTAGAGTTTACACACCCCCAAACTTAATCCATT
1 TTTAGAGTTTACACACCCCCAAACTTAATCCATT
65313077 GCTTGTCTCG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (37 bp):
TTTAGAGTTTACACACCCCCAAACTTAATCCATTACT
Found at i:65317403 original size:43 final size:42
Alignment explanation
Indices: 65317316--65317471 Score: 104
Period size: 43 Copynumber: 3.6 Consensus size: 42
65317306 AGCTCATACA
* ** * *
65317316 ATGCCATATCCCAGATATGGTCTTACATGTTATCATATATCG
1 ATGCCATAGCCCAGATATGGTCTTACATGAAATCAAATAACG
*
65317358 ATGCCGATAGCCCAGCTATGGTCTTAC-TCGAAATCAAATAACG
1 ATGCC-ATAGCCCAGATATGGTCTTACAT-GAAATCAAATAACG
* * * * *
65317401 ATG-CAAATGTCCCAGACATGGTCTTACA-CATAATCACATAATG
1 ATGCCATA-G-CCCAGATATGGTCTTACATGA-AATCAAATAACG
**
65317444 ATGCCA-ATGTCCCAGGCATGGTCTTACA
1 ATGCCATA-G-CCCAGATATGGTCTTACA
65317472 CATAATCACT
Statistics
Matches: 94, Mismatches: 13, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
41 2 0.02
42 9 0.10
43 81 0.86
44 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (42 bp):
ATGCCATAGCCCAGATATGGTCTTACATGAAATCAAATAACG
Found at i:65317472 original size:43 final size:43
Alignment explanation
Indices: 65317375--65317480 Score: 151
Period size: 43 Copynumber: 2.5 Consensus size: 43
65317365 TAGCCCAGCT
* *
65317375 ATGGTCTTACTCGA-AATCAAATAACGATGCAAATGTCCCAGAC
1 ATGGTCTTACAC-ATAATCACATAACGATGCAAATGTCCCAGAC
* * *
65317418 ATGGTCTTACACATAATCACATAATGATGCCAATGTCCCAGGC
1 ATGGTCTTACACATAATCACATAACGATGCAAATGTCCCAGAC
65317461 ATGGTCTTACACATAATCAC
1 ATGGTCTTACACATAATCAC
65317481 TGCTCGTTAA
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
42 1 0.02
43 56 0.98
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (43 bp):
ATGGTCTTACACATAATCACATAACGATGCAAATGTCCCAGAC
Found at i:65327511 original size:37 final size:37
Alignment explanation
Indices: 65327452--65327560 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
65327442 AGCTCAGACG
* * *
65327452 AAATTTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
65327489 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
65327526 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
65327561 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:65327815 original size:47 final size:46
Alignment explanation
Indices: 65327723--65327859 Score: 186
Period size: 47 Copynumber: 3.0 Consensus size: 46
65327713 TTTCACACTA
* *
65327723 GCCATTCGGCTTTACCACATATA-CATGCTCACATTCATCACATTG
1 GCCATTCGGCTTTATCACATATATCATGTTCACATTCATCACATTG
*
65327768 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCTTTATCACATATAT-CATGTTCACATTCATCACATTG
* ** *
65327815 GCCATTCGGCTTTATCTCATATATACACATTCATATTCATCACAT
1 GCCATTCGGCTTTATCACATATAT-CATGTTCACATTCATCACAT
65327860 AAAATCCTAA
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
45 21 0.26
47 60 0.74
ACGTcount: A:0.27, C:0.28, G:0.10, T:0.34
Consensus pattern (46 bp):
GCCATTCGGCTTTATCACATATATCATGTTCACATTCATCACATTG
Found at i:65336752 original size:27 final size:26
Alignment explanation
Indices: 65336708--65336758 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
65336698 CTCGCTACAA
*
65336708 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
65336735 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
65336759 AGCAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:65337768 original size:47 final size:48
Alignment explanation
Indices: 65337699--65337822 Score: 146
Period size: 47 Copynumber: 2.6 Consensus size: 48
65337689 GTATAATGTC
** * *
65337699 GATGCCATG-CCCTAGACATGGTCTTACACTGGCTCATC-CATCAA-GTT
1 GATGCCATGTCCC-AGACATGGTCTTACACTAACT-ATCAAATCAAGGCT
65337746 GATGCCATGTCCCAGACATGGTCTTACACTAACTATCGAAATCAAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAACTATC-AAATCAAGGCT
**
65337795 GACACCATGTCCCAGACATGGTCTTACA
1 GATGCCATGTCCCAGACATGGTCTTACA
65337823 TTAGCTCTCA
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
46 3 0.04
47 28 0.42
48 8 0.12
49 28 0.42
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAACTATCAAATCAAGGCT
Found at i:65337931 original size:46 final size:47
Alignment explanation
Indices: 65337800--65337962 Score: 140
Period size: 46 Copynumber: 3.5 Consensus size: 47
65337790 AGGCTGACAC
* * *
65337800 CATGTCCCAGACATGGTCTTACATTAGCTCTCACATATTCGT-GCCGATG
1 CATGTCCCAGACATAGTCTTACATTGGCT-T-ACAT-CTCGTAGCCGATG
* * * * *
65337849 CCATGTCCCAAACATACTCTTACACTGAC--ACGTCTCGTAGCCGATG
1 -CATGTCCCAGACATAGTCTTACATTGGCTTACATCTCGTAGCCGATG
* * *
65337895 CATGTCCCAGACAT-GTCTTACGTTGGCTTACATCTCG-AGGCCAATA
1 CATGTCCCAGACATAGTCTTACATTGGCTTACATCTCGTA-GCCGATG
65337941 CATGTCCCAGACAT-GTCTTACA
1 CATGTCCCAGACATAGTCTTACA
65337963 CTAGCTCTTG
Statistics
Matches: 92, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
44 9 0.10
45 18 0.20
46 43 0.47
50 22 0.24
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACATAGTCTTACATTGGCTTACATCTCGTAGCCGATG
Found at i:65338007 original size:94 final size:92
Alignment explanation
Indices: 65337889--65338058 Score: 209
Period size: 94 Copynumber: 1.8 Consensus size: 92
65337879 CGTCTCGTAG
* ** *
65337889 CCGATGCATGTCCCAGACATGTCTTACGTTGGCT-TACAT-CTCGAGGCCAATACATGTCCCAGA
1 CCGATGCATGTACCAGACATGTCTTACACTGGCTCT-CATAAT-GAGGCCAATACATGTCCCAGA
*
65337952 CATGTCTTACACTAGCTCTTGTCTCAATA
64 CATGTCATACACTAGCTCTTGTCTCAATA
* * * *
65337981 CCGATGCCATGTACCGGACATGGTCTTACACTGGCTCTCGTAATGTGGCCAATGCATGTCCCAGA
1 CCGATG-CATGTACCAGACAT-GTCTTACACTGGCTCTCATAATGAGGCCAATACATGTCCCAGA
65338046 CATGTCATACACT
64 CATGTCATACACT
65338059 GGCACACAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
92 6 0.09
93 12 0.18
94 45 0.69
95 2 0.03
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (92 bp):
CCGATGCATGTACCAGACATGTCTTACACTGGCTCTCATAATGAGGCCAATACATGTCCCAGACA
TGTCATACACTAGCTCTTGTCTCAATA
Found at i:65343947 original size:45 final size:45
Alignment explanation
Indices: 65343877--65344002 Score: 152
Period size: 45 Copynumber: 2.8 Consensus size: 45
65343867 TCTCACATAT
*
65343877 TCGT-GCCGATGCCATGTCCCAGACATACTCTTACACTGAC-ACATC
1 TCGTAGCCGATG-CATGTCCCAGACAT-GTCTTACACTGACTACATC
* *
65343922 TCGTAGCCGATGCATGTCCTAGACATGTCTTACACTGGCTTACATC
1 TCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGAC-TACATC
*
65343968 TC--AGGCCAATGCATGTCCCAGACATGTCTTACACT
1 TCGTA-GCCGATGCATGTCCCAGACATGTCTTACACT
65344003 AGCTCTTGTC
Statistics
Matches: 72, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
44 12 0.17
45 46 0.64
46 14 0.19
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (45 bp):
TCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGACTACATC
Found at i:65344015 original size:45 final size:45
Alignment explanation
Indices: 65343931--65344097 Score: 158
Period size: 45 Copynumber: 3.6 Consensus size: 45
65343921 CTCGTAGCCG
* **
65343931 ATGCATGTCCTAGACATGTCTTACACTGGCT-TACATCTCAGGCCA
1 ATGCATGTCCCAGACATGTCTTACACTGGCTCT-TGTCTCAGGCCA
* * *
65343976 ATGCATGTCCCAGACATGTCTTACACTAGCTCTTGTCTCAATGCCG
1 ATGCATGTCCCAGACATGTCTTACACTGGCTCTTGTCTC-AGGCCA
* * * * ** *
65344022 ATGCCATGTTCCGGACATGGTCTTACACTGGCTCCTGTAATGTGGCCC
1 ATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTTGT-CTCAGGCCA
65344070 ATGCATGT-CCAGACATGTCTTACACTGG
1 ATGCATGTCCCAGACATGTCTTACACTGG
65344098 TTCACAAATA
Statistics
Matches: 101, Mismatches: 16, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
45 45 0.45
46 15 0.15
47 17 0.17
48 23 0.23
49 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (45 bp):
ATGCATGTCCCAGACATGTCTTACACTGGCTCTTGTCTCAGGCCA
Found at i:65344054 original size:93 final size:89
Alignment explanation
Indices: 65343927--65344095 Score: 209
Period size: 93 Copynumber: 1.8 Consensus size: 89
65343917 ACATCTCGTA
65343927 GCCGATGCATGTCCTAGACATGTCTTACACTGG-CT-TACATCTCAGGCCAATGCATGTCCCAGA
1 GCCGATGCATGTCCTAGACATGTCTTACACTGGCCTGTA-ATCT--GGCCAATGCATGT-CCAGA
65343990 CATGTCTTACACTAGCTCTTGTCTCAAT
62 CATGTCTTACACTAGCTCTTGTCTCAAT
* * *
65344018 GCCGATGCCATGTTCC-GGACATGGTCTTACACTGGCTCCTGTAATGTGGCCCATGCATGTCCAG
1 GCCGATG-CATG-TCCTAGACAT-GTCTTACACTGG--CCTGTAATCTGGCCAATGCATGTCCAG
65344082 ACATGTCTTACACT
61 ACATGTCTTACACT
65344096 GGTTCACAAA
Statistics
Matches: 68, Mismatches: 3, Indels: 12
0.82 0.04 0.14
Matches are distributed among these distances:
91 7 0.10
92 9 0.13
93 33 0.49
94 12 0.18
96 5 0.07
97 2 0.03
ACGTcount: A:0.21, C:0.30, G:0.20, T:0.29
Consensus pattern (89 bp):
GCCGATGCATGTCCTAGACATGTCTTACACTGGCCTGTAATCTGGCCAATGCATGTCCAGACATG
TCTTACACTAGCTCTTGTCTCAAT
Found at i:65346477 original size:60 final size:60
Alignment explanation
Indices: 65346338--65346486 Score: 151
Period size: 60 Copynumber: 2.5 Consensus size: 60
65346328 CTATTCAAAA
* * *
65346338 ATCAGAGCTA-ACTGGGCCTTAACCCATATCAATATTAATCTGGGCCATAGCCCCTTACAAT
1 ATCAGAG-TATACTGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAAT
* * * *
65346399 ATCAGAGTATACTAGGCCTAGCCCATGTCAATATCAATCTGGGTCGTAGCCCTATTACAAGT
1 ATCAGAGTATACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTACAA-T
* * *
65346461 -TGAGA-TATATTGGGCCTTGCCCATAT
1 ATCAGAGTATACTGGGCCTAGCCCATAT
65346487 TAACATAGTT
Statistics
Matches: 73, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
60 48 0.66
61 24 0.33
62 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (60 bp):
ATCAGAGTATACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAAT
Found at i:65351652 original size:43 final size:43
Alignment explanation
Indices: 65351605--65351702 Score: 124
Period size: 43 Copynumber: 2.3 Consensus size: 43
65351595 TAGCTTAGCT
*
65351605 ATGGTCTTACTCGAAATCAAATAACAATGCCAATGTCCCAAAC
1 ATGGTCTTACACGAAATCAAATAACAATGCCAATGTCCCAAAC
* * *** * *
65351648 ATGGTCTTACACGTAATCACATATTGATGCCAATGTCCTAGAC
1 ATGGTCTTACACGAAATCAAATAACAATGCCAATGTCCCAAAC
65351691 ATGGTCTTACAC
1 ATGGTCTTACAC
65351703 ATAATCACAC
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACACGAAATCAAATAACAATGCCAATGTCCCAAAC
Found at i:65355806 original size:28 final size:29
Alignment explanation
Indices: 65355766--65355878 Score: 149
Period size: 29 Copynumber: 4.0 Consensus size: 29
65355756 CATGACTGTA
65355766 AATGTGATTTGGGCCTAAT-GGCCATATG
1 AATGTGATTTGGGCCTAATGGGCCATATG
*
65355794 AATGTGATTTGGGCCTAATGGGCCATATA
1 AATGTGATTTGGGCCTAATGGGCCATATG
* *
65355823 AATTTGATTTGGGCCTCATGGGCCATATG
1 AATGTGATTTGGGCCTAATGGGCCATATG
* * * *
65355852 AAAGAGA-TTGGGCCTAGTGGGCTATAT
1 AATGTGATTTGGGCCTAATGGGCCATAT
65355879 ACAGGTATGT
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
28 36 0.49
29 38 0.51
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (29 bp):
AATGTGATTTGGGCCTAATGGGCCATATG
Found at i:65355830 original size:29 final size:29
Alignment explanation
Indices: 65355764--65355879 Score: 148
Period size: 28 Copynumber: 4.1 Consensus size: 29
65355754 AGCATGACTG
65355764 TAAATGTGATTTGGGCCTAAT-GGCCATA
1 TAAATGTGATTTGGGCCTAATGGGCCATA
*
65355792 TGAATGTGATTTGGGCCTAATGGGCCATA
1 TAAATGTGATTTGGGCCTAATGGGCCATA
* *
65355821 TAAATTTGATTTGGGCCTCATGGGCCATA
1 TAAATGTGATTTGGGCCTAATGGGCCATA
* * *
65355850 TGAAA-GAGA-TTGGGCCTAGTGGGCTATA
1 T-AAATGTGATTTGGGCCTAATGGGCCATA
65355878 TA
1 TA
65355880 CAGGTATGTG
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
27 1 0.01
28 37 0.48
29 36 0.47
30 3 0.04
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (29 bp):
TAAATGTGATTTGGGCCTAATGGGCCATA
Found at i:65355863 original size:57 final size:57
Alignment explanation
Indices: 65355764--65355879 Score: 162
Period size: 57 Copynumber: 2.0 Consensus size: 57
65355754 AGCATGACTG
* *
65355764 TAAATGTGATTTGGGCCTAATGGCCATATGAATGTGATTTGGGCCTAATGGGCCATA
1 TAAATGTGATTTGGGCCTAATGGCCATATGAAAGAGATTTGGGCCTAATGGGCCATA
* * * *
65355821 TAAATTTGATTTGGGCCTCATGGGCCATATGAAAGAGA-TTGGGCCTAGTGGGCTATA
1 TAAATGTGATTTGGGCCTAAT-GGCCATATGAAAGAGATTTGGGCCTAATGGGCCATA
65355878 TA
1 TA
65355880 CAGGTATGTG
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
57 38 0.73
58 14 0.27
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (57 bp):
TAAATGTGATTTGGGCCTAATGGCCATATGAAAGAGATTTGGGCCTAATGGGCCATA
Found at i:65357488 original size:28 final size:28
Alignment explanation
Indices: 65357390--65357488 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
65357380 GTTGATTTCG
* * **
65357390 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
65357419 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
65357447 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
65357475 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
65357489 GACTTACTAT
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 46 0.73
29 17 0.27
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:65364382 original size:28 final size:28
Alignment explanation
Indices: 65364316--65364443 Score: 175
Period size: 28 Copynumber: 4.5 Consensus size: 28
65364306 CATGAGATTG
* * **
65364316 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
65364345 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
65364373 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
65364402 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
65364430 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
65364444 GACTTACTAT
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 45 0.51
29 44 0.49
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:65364405 original size:57 final size:57
Alignment explanation
Indices: 65364316--65364443 Score: 186
Period size: 57 Copynumber: 2.2 Consensus size: 57
65364306 CATGAGATTG
*
65364316 GCACTAAGTGTGCGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
* * * *
65364373 GCACTAAGTGTGCGAGTTTGATTATGTA-AGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAAT-TGCATAGCACTAAGTGTGCAAGTTTGATTATATA
*
65364430 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
65364444 GACTTACTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
Found at i:65375422 original size:19 final size:19
Alignment explanation
Indices: 65375398--65375436 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
65375388 ATATTACATG
* *
65375398 CACACATGATTCCACTAAT
1 CACACACGATTCCACCAAT
*
65375417 CACACACGGTTCCACCAAT
1 CACACACGATTCCACCAAT
65375436 C
1 C
65375437 CATTAATGAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.33, C:0.38, G:0.08, T:0.21
Consensus pattern (19 bp):
CACACACGATTCCACCAAT
Found at i:65385349 original size:24 final size:24
Alignment explanation
Indices: 65385298--65385466 Score: 241
Period size: 24 Copynumber: 7.0 Consensus size: 24
65385288 GCTTTATCAT
*
65385298 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
65385323 ATAACTAGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
65385347 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
65385371 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
65385395 ATAACTGGGGCATAAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
* *
65385420 ATAACAGGGGAATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
65385444 ATAACTGGGGCATAAGCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTT
65385467 GCACTTCCTC
Statistics
Matches: 130, Mismatches: 12, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
24 97 0.75
25 33 0.25
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:65385541 original size:20 final size:20
Alignment explanation
Indices: 65385516--65385582 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
65385506 TTATGAATAC
65385516 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
65385536 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
65385556 GTCATGTGCATATCATGCAT
1 ATCATGTGCATATCATACAT
*
65385576 ACCATGT
1 ATCATGT
65385583 TTATCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:65385547 original size:11 final size:11
Alignment explanation
Indices: 65385516--65385572 Score: 59
Period size: 11 Copynumber: 5.5 Consensus size: 11
65385506 TTATGAATAC
65385516 ATCATGTGCAT
1 ATCATGTGCAT
*
65385527 ATCA--TACAT
1 ATCATGTGCAT
65385536 ATCATGTGCAT
1 ATCATGTGCAT
*
65385547 ATCA--TACAT
1 ATCATGTGCAT
*
65385556 GTCATGTGCAT
1 ATCATGTGCAT
65385567 ATCATG
1 ATCATG
65385573 CATACCATGT
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
9 15 0.42
11 21 0.58
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:65385647 original size:25 final size:25
Alignment explanation
Indices: 65385619--65385666 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
65385609 ATATATAAAC
* * *
65385619 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTTATTTTTA
65385644 CCTAGGGGCAAAACGGTTATTTT
1 CCTAGGGGCAAAACGGTTATTTT
65385667 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:0.25, C:0.12, G:0.25, T:0.38
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTTATTTTTA
Found at i:65391771 original size:21 final size:20
Alignment explanation
Indices: 65391745--65391783 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
65391735 GATTATTTTT
65391745 ATGTTTAATGATAGATTATGA
1 ATGTTTAATGATAG-TTATGA
*
65391766 ATGTTTGATGATAGTTAT
1 ATGTTTAATGATAGTTAT
65391784 ACAAGTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
ATGTTTAATGATAGTTATGA
Found at i:65395226 original size:39 final size:39
Alignment explanation
Indices: 65395169--65395246 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
65395159 TGGGACTAAG
*
65395169 CCAATAACTTTAGGAACTTTTTGAACACTTAAAAAATTT
1 CCAATAACTTTAGAAACTTTTTGAACACTTAAAAAATTT
*
65395208 CCAATAACTTTAGAAACTTTTTGAACACTTAGAAAATTT
1 CCAATAACTTTAGAAACTTTTTGAACACTTAAAAAATTT
65395247 TCTCAAAAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.41, C:0.15, G:0.08, T:0.36
Consensus pattern (39 bp):
CCAATAACTTTAGAAACTTTTTGAACACTTAAAAAATTT
Found at i:65399230 original size:98 final size:96
Alignment explanation
Indices: 65399039--65399234 Score: 322
Period size: 98 Copynumber: 2.0 Consensus size: 96
65399029 TTCTCTTATA
* *
65399039 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
1 TATGAGATATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
*
65399104 TGGTAAATCCGAATGGCTAATGTGAAATATG
66 TGGTAAAGCCGAATGGCTAATGTGAAATATG
65399135 TATGAGATATGCATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATGTAT
1 TATGAGATATGCATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATATATGAGATATGTAT
*
65399199 ATGTGGTAAAGCCGAATGGCTAGTGTGAAATATG
63 ATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
65399233 TA
1 TA
65399235 GGCGATGTGC
Statistics
Matches: 93, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
95 1 0.01
96 38 0.41
97 2 0.02
98 52 0.56
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.32
Consensus pattern (96 bp):
TATGAGATATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
TGGTAAAGCCGAATGGCTAATGTGAAATATG
Found at i:65399250 original size:50 final size:48
Alignment explanation
Indices: 65399039--65399234 Score: 322
Period size: 48 Copynumber: 4.0 Consensus size: 48
65399029 TTCTCTTATA
65399039 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
*
65399087 TATGAGATATGTATATGTGGTAAATCCGAATGGCTAATGTGAAATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
* *
65399135 TATGAGATATGCATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATA
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATG
*
65399185 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
65399233 TA
1 TA
65399235 GGCGATGTGC
Statistics
Matches: 137, Mismatches: 7, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
47 1 0.01
48 90 0.66
49 4 0.03
50 41 0.30
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.32
Consensus pattern (48 bp):
TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
Found at i:65399489 original size:37 final size:37
Alignment explanation
Indices: 65399381--65399489 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
65399371 GGAAATATAT
*
65399381 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
65399418 TCCGGCTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
65399455 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
65399490 CATCTGAGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:65405498 original size:28 final size:28
Alignment explanation
Indices: 65405443--65405525 Score: 89
Period size: 28 Copynumber: 3.0 Consensus size: 28
65405433 AGCATGGCTG
* *
65405443 CCAG-AACAGAT-ATTGTGACAGAGTCA
1 CCAGAAACAGATAATTGTGGCAGAGCCA
** *
65405469 CCAGTTACAGATAATTGTGGCAGGGCCA
1 CCAGAAACAGATAATTGTGGCAGAGCCA
* *
65405497 CCAGAAACAGATATTTGTAGCAGAGCCA
1 CCAGAAACAGATAATTGTGGCAGAGCCA
65405525 C
1 C
65405526 TAAAATGCTT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
26 4 0.09
27 6 0.13
28 36 0.78
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (28 bp):
CCAGAAACAGATAATTGTGGCAGAGCCA
Found at i:65406686 original size:15 final size:16
Alignment explanation
Indices: 65406655--65406708 Score: 58
Period size: 16 Copynumber: 3.3 Consensus size: 16
65406645 GGCCATAGAG
65406655 GAAAATAAGAAGAAGA
1 GAAAATAAGAAGAAGA
65406671 GAAAATAGATGAAG-AGA
1 GAAAATA-A-GAAGAAGA
*
65406688 GGAGAA-AAGAAGAAGA
1 -GAAAATAAGAAGAAGA
65406704 GAAAA
1 GAAAA
65406709 GAATTATCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
15 8 0.25
16 11 0.34
17 5 0.16
18 8 0.25
ACGTcount: A:0.65, C:0.00, G:0.30, T:0.06
Consensus pattern (16 bp):
GAAAATAAGAAGAAGA
Found at i:65406702 original size:18 final size:17
Alignment explanation
Indices: 65406651--65406705 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
65406641 ATTCGGCCAT
65406651 AGAGGAAAATAAGAAGAAG
1 AGAGG-AAA-AAGAAGAAG
* *
65406670 AGA--AAATAGATGAAG
1 AGAGGAAAAAGAAGAAG
65406685 AGAGGAGAAAAGAAGAAG
1 AGAGGA-AAAAGAAGAAG
65406703 AGA
1 AGA
65406706 AAAGAATTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
15 10 0.34
16 3 0.10
17 1 0.03
18 12 0.41
19 3 0.10
ACGTcount: A:0.62, C:0.00, G:0.33, T:0.05
Consensus pattern (17 bp):
AGAGGAAAAAGAAGAAG
Found at i:65407203 original size:168 final size:168
Alignment explanation
Indices: 65406900--65407231 Score: 540
Period size: 168 Copynumber: 2.0 Consensus size: 168
65406890 TGCCCTTGCA
65406900 CCTTCACCCGAGCTGCTAGCCACTGCACCACGCTTCTTCCTTTACTAATATATGGTCACAATTAA
1 CCTTCACCCGAGCTGCTAGCCACTGCACCACGCTTCTTCCTTTACTAATATATGGTCACAATTAA
* * *
65406965 TTTTAACCTTTAAACCACTTCAGTTCTGGCCCGTTTAAAAAATAAAACATAATTTGCCTACCGTT
66 TTTTAACCTTTAAACCACTTCAGTTCTGGCCCGTTTAAAAAATAAAACAGAATTCGCCTACCGCT
65407030 GGAATCGAACTCATAACCTCCCGACAGGCCTAGCTGTG
131 GGAATCGAACTCATAACCTCCCGACAGGCCTAGCTGTG
* * * * *
65407068 CCTTTACCCGAGCTGCTGGCCACTGCACCACGTTTTTTCCTTTATTAATATATGGTCACAATTAA
1 CCTTCACCCGAGCTGCTAGCCACTGCACCACGCTTCTTCCTTTACTAATATATGGTCACAATTAA
* * *
65407133 TTTTAACCTTTAACCCGCTTCAGTTCTGGCCCGTTTAAAAAATAAAACAGAATTCGCCTTCTC-C
66 TTTTAACCTTTAAACCACTTCAGTTCTGGCCCGTTTAAAAAATAAAACAGAATTCGCCTAC-CGC
*
65407197 TGGAATCGAACTCATAACCTCCCGGCAGGCCTAGC
130 TGGAATCGAACTCATAACCTCCCGACAGGCCTAGC
65407232 ACGCTGTTGC
Statistics
Matches: 151, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
168 150 0.99
169 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (168 bp):
CCTTCACCCGAGCTGCTAGCCACTGCACCACGCTTCTTCCTTTACTAATATATGGTCACAATTAA
TTTTAACCTTTAAACCACTTCAGTTCTGGCCCGTTTAAAAAATAAAACAGAATTCGCCTACCGCT
GGAATCGAACTCATAACCTCCCGACAGGCCTAGCTGTG
Found at i:65407520 original size:28 final size:29
Alignment explanation
Indices: 65407488--65407598 Score: 140
Period size: 28 Copynumber: 4.0 Consensus size: 29
65407478 CATGACTGTA
*
65407488 AATGTGATTTGGGCTTAAT-GGCCATATG
1 AATGTGATTTGGGCCTAATGGGCCATATG
* *
65407516 AATGTGATTTGGGCCTAATGGGCCACATA
1 AATGTGATTTGGGCCTAATGGGCCATATG
65407545 AATGTGA--TGGGCCTAATGGGCCATATG
1 AATGTGATTTGGGCCTAATGGGCCATATG
* * *
65407572 AAAGAGA-TTGGGCCTAGTGGGCCATAT
1 AATGTGATTTGGGCCTAATGGGCCATAT
65407599 ACAGGTATGT
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
27 23 0.32
28 36 0.49
29 14 0.19
ACGTcount: A:0.27, C:0.14, G:0.31, T:0.28
Consensus pattern (29 bp):
AATGTGATTTGGGCCTAATGGGCCATATG
Found at i:65407583 original size:55 final size:56
Alignment explanation
Indices: 65407486--65407595 Score: 152
Period size: 55 Copynumber: 2.0 Consensus size: 56
65407476 AGCATGACTG
* * *
65407486 TAAATGTGATTTGGGCTTAATGGCCATATGAATGTGATTTGGGCCTAATGGGCCACA
1 TAAATGTGA-TTGGGCCTAATGGCCATATGAAAGAGATTTGGGCCTAATGGGCCACA
*
65407543 TAAATGTGA-TGGGCCTAATGGGCCATATGAAAGAGA-TTGGGCCTAGTGGGCCA
1 TAAATGTGATTGGGCCTAAT-GGCCATATGAAAGAGATTTGGGCCTAATGGGCCA
65407596 TATACAGGTA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
55 25 0.52
56 14 0.29
57 9 0.19
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (56 bp):
TAAATGTGATTGGGCCTAATGGCCATATGAAAGAGATTTGGGCCTAATGGGCCACA
Found at i:65422434 original size:36 final size:37
Alignment explanation
Indices: 65422294--65422445 Score: 261
Period size: 37 Copynumber: 4.1 Consensus size: 37
65422284 TTATTACGAA
* * * *
65422294 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
65422331 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
65422368 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
65422405 GTCTTACCCGGACAAAAT-CCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
65422441 GTCTT
1 GTCTT
65422446 TAGAGCTCGG
Statistics
Matches: 111, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
36 23 0.21
37 88 0.79
ACGTcount: A:0.26, C:0.33, G:0.19, T:0.22
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
Found at i:65422642 original size:47 final size:47
Alignment explanation
Indices: 65422564--65422881 Score: 496
Period size: 47 Copynumber: 6.7 Consensus size: 47
65422554 CCCTTCGGGA
* * * * * *
65422564 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65422611 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65422658 CTTATCACATATATACACTTTCACATTCATCACAT-GGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65422704 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65422751 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65422798 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACA--TATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
65422847 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
65422882 AGAATCCTAA
Statistics
Matches: 254, Mismatches: 13, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
46 47 0.19
47 161 0.63
49 46 0.18
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:65422732 original size:93 final size:93
Alignment explanation
Indices: 65422564--65422881 Score: 494
Period size: 93 Copynumber: 3.4 Consensus size: 93
65422554 CCCTTCGGGA
* * * * * *
65422564 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCAC-ATGGCCATTAGGCCTTATCACATATATACAC
65422629 TTTCACATTCATCACATCGGCCATTAGGC
65 TTTCACATTCATCACATCGGCCATTAGGC
*
65422658 CTTATCACATATATACACTTTCACATTCATCACATGGCCATTAGGCCTTATCACATATATACACT
1 CTTATCACATATATACACTTTCACATCCATCACATGGCCATTAGGCCTTATCACATATATACACT
65422723 TTCACATTCATCACATCGGCCATTAGGC
66 TTCACATTCATCACATCGGCCATTAGGC
*
65422751 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATGTATATAC
1 CTTATCACATATATACACTTTCACATCCATCACAT-GGCCATTAGGCCTTATCACA--TATATAC
65422816 ACTTTCACATTCATCACATCGGCCATTAGGC
63 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
65422847 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATCCATCACAT
65422882 AGAATCCTAA
Statistics
Matches: 210, Mismatches: 10, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
93 90 0.43
94 51 0.24
95 1 0.00
96 68 0.32
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (93 bp):
CTTATCACATATATACACTTTCACATCCATCACATGGCCATTAGGCCTTATCACATATATACACT
TTCACATTCATCACATCGGCCATTAGGC
Found at i:65434012 original size:23 final size:23
Alignment explanation
Indices: 65433985--65434031 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
65433975 TTTCTCAAAG
65433985 TAAGTTTAAGCTACTGTGTTTCT
1 TAAGTTTAAGCTACTGTGTTTCT
65434008 TAAGTTTAAGCTACTGTGTTTCT
1 TAAGTTTAAGCTACTGTGTTTCT
65434031 T
1 T
65434032 TCCTTTTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.21, C:0.13, G:0.17, T:0.49
Consensus pattern (23 bp):
TAAGTTTAAGCTACTGTGTTTCT
Found at i:65434152 original size:24 final size:24
Alignment explanation
Indices: 65434102--65434147 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
65434092 TTTTACTTTT
65434102 TTTTTATTATAAAACAATTTTTAA
1 TTTTTATTATAAAACAATTTTTAA
*
65434126 TTTTTATTA-AATA-AATTTTTAA
1 TTTTTATTATAAAACAATTTTTAA
65434148 CATTTAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 9 0.43
23 3 0.14
24 9 0.43
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
TTTTTATTATAAAACAATTTTTAA
Found at i:65434731 original size:71 final size:71
Alignment explanation
Indices: 65434615--65434756 Score: 275
Period size: 71 Copynumber: 2.0 Consensus size: 71
65434605 TTTAAAAAGA
65434615 AATTCATTATACTGGGCCATTCCAACCAAGTGTTACTGTACTCTAACTCGTTCATTTGTGGGGAG
1 AATTCATTATACTGGGCCATTCCAACCAAGTGTTACTGTACTCTAACTCGTTCATTTGTGGGGAG
65434680 CCTAAT
66 CCTAAT
*
65434686 AATTCATTATACTGGGCCATTCCAACCAAGTGTTACTGTACTCTAACTCGTTCGTTTGTGGGGAG
1 AATTCATTATACTGGGCCATTCCAACCAAGTGTTACTGTACTCTAACTCGTTCATTTGTGGGGAG
65434751 CCTAAT
66 CCTAAT
65434757 CCGAAATCAT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.34
Consensus pattern (71 bp):
AATTCATTATACTGGGCCATTCCAACCAAGTGTTACTGTACTCTAACTCGTTCATTTGTGGGGAG
CCTAAT
Found at i:65434799 original size:47 final size:47
Alignment explanation
Indices: 65434726--65434821 Score: 165
Period size: 47 Copynumber: 2.0 Consensus size: 47
65434716 TGTTACTGTA
65434726 CTCTAACTCGTTCGTTTGTGGGGAGCCTAATCCGAAATCATTTCCAT
1 CTCTAACTCGTTCGTTTGTGGGGAGCCTAATCCGAAATCATTTCCAT
* * *
65434773 CTCTAACTCTTTCGTTTGTGGTGAGCCTAGTCCGAAATCATTTCCAT
1 CTCTAACTCGTTCGTTTGTGGGGAGCCTAATCCGAAATCATTTCCAT
65434820 CT
1 CT
65434822 ATCAGCATTG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.36
Consensus pattern (47 bp):
CTCTAACTCGTTCGTTTGTGGGGAGCCTAATCCGAAATCATTTCCAT
Found at i:65437730 original size:3 final size:3
Alignment explanation
Indices: 65437710--65437744 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
65437700 TTATACCAAA
*
65437710 AAT AA- AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
65437745 TTTTTTTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:65438435 original size:19 final size:20
Alignment explanation
Indices: 65438392--65438435 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
65438382 GATTTTCAGG
* *
65438392 TATATTTTATTATGATTTAT
1 TATATTATATCATGATTTAT
65438412 T-TATTATATCATG-TTTAT
1 TATATTATATCATGATTTAT
65438430 TATATT
1 TATATT
65438436 TGGAGACCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 6 0.29
19 14 0.67
20 1 0.05
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (20 bp):
TATATTATATCATGATTTAT
Found at i:65442674 original size:19 final size:19
Alignment explanation
Indices: 65442652--65442691 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
65442642 ATGCCATGTC
65442652 AAGAGTTTTATGTCTATTG
1 AAGAGTTTTATGTCTATTG
65442671 AAGAGTTTTATGTCTATTG
1 AAGAGTTTTATGTCTATTG
65442690 AA
1 AA
65442692 TCATTGAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.45
Consensus pattern (19 bp):
AAGAGTTTTATGTCTATTG
Found at i:65445046 original size:18 final size:19
Alignment explanation
Indices: 65445020--65445057 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
65445010 TGTTTATATA
*
65445020 TATTATAGATTTAATATTT
1 TATTATAGAATTAATATTT
*
65445039 TATT-TAGAATTAGTATTT
1 TATTATAGAATTAATATTT
65445057 T
1 T
65445058 TATAATGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (19 bp):
TATTATAGAATTAATATTT
Found at i:65447000 original size:25 final size:24
Alignment explanation
Indices: 65446972--65447018 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
65446962 AATATCAACA
*
65446972 TTAAAATATATTTTAATAATAAAAG
1 TTAAAACATATTTTAA-AATAAAAG
*
65446997 TTAAAACATTTTTTAAAATAAA
1 TTAAAACATATTTTAAAATAAA
65447019 TCAATTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (24 bp):
TTAAAACATATTTTAAAATAAAAG
Found at i:65457479 original size:37 final size:37
Alignment explanation
Indices: 65457438--65457512 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
65457428 TGTTAATTTC
* *
65457438 AAGACTTATGTAATGTTTTTAATTATGTAGTGGTTCA
1 AAGACTTATGTAATGTTTCTAATTATGTAGTGATTCA
*
65457475 AAGACTTATGTAATGTTTCTAATTATTTAGTGATTCA
1 AAGACTTATGTAATGTTTCTAATTATGTAGTGATTCA
65457512 A
1 A
65457513 TATCTAATCG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.32, C:0.07, G:0.16, T:0.45
Consensus pattern (37 bp):
AAGACTTATGTAATGTTTCTAATTATGTAGTGATTCA
Found at i:65464916 original size:3 final size:3
Alignment explanation
Indices: 65464908--65464934 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
65464898 GATATATTGT
65464908 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
65464935 CTACTTTACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:65466478 original size:6 final size:6
Alignment explanation
Indices: 65466464--65466529 Score: 87
Period size: 6 Copynumber: 10.7 Consensus size: 6
65466454 TTGAGTCCGA
* * *
65466464 TTATTT TTATGT TTATGT TTATCT TTATTT TTATCTT TTATTT TTATCTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTAT-TT TTATTT TTAT-TT
65466514 TTATTT TTATTT TTAT
1 TTATTT TTATTT TTAT
65466530 GTCTATTTTG
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
6 43 0.78
7 12 0.22
ACGTcount: A:0.17, C:0.05, G:0.03, T:0.76
Consensus pattern (6 bp):
TTATTT
Found at i:65477744 original size:16 final size:16
Alignment explanation
Indices: 65477723--65477754 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
65477713 AACCTTACCA
65477723 CGAGTTTATCACTTAT
1 CGAGTTTATCACTTAT
*
65477739 CGAGTTTATTACTTAT
1 CGAGTTTATCACTTAT
65477755 GAATTTTACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.12, T:0.47
Consensus pattern (16 bp):
CGAGTTTATCACTTAT
Found at i:65479240 original size:46 final size:47
Alignment explanation
Indices: 65479173--65479390 Score: 177
Period size: 47 Copynumber: 4.7 Consensus size: 47
65479163 AACCCGCCCC
* * *
65479173 TAAGTGAACTCGAACTCAACTCAACGAGCTCGG-G-C-A-TTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCCTAGTT-ACAT--A
*
65479219 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATT
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-GCCTAGTTACATA
* * * *
65479267 TCA-CGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATT
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-GCCTAGTTACATA
* * *
65479314 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA--C-A-TTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCCTAGTT-ACAT--A
* *
65479359 TAAGTGAACTCAGACTCAACTCAACGATTTCG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
65479391 AATGCTCAAC
Statistics
Matches: 149, Mismatches: 14, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
42 2 0.01
43 4 0.03
44 1 0.01
45 2 0.01
46 56 0.38
47 74 0.50
48 3 0.02
49 1 0.01
50 4 0.03
51 2 0.01
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.23
Consensus pattern (47 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCCTAGTTACATA
Found at i:65479286 original size:47 final size:47
Alignment explanation
Indices: 65479224--65479346 Score: 237
Period size: 47 Copynumber: 2.6 Consensus size: 47
65479214 ATCCATAAGT
65479224 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
*
65479271 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
65479318 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
65479347 CATTCGCATC
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 74 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:65482505 original size:47 final size:47
Alignment explanation
Indices: 65482441--65482566 Score: 234
Period size: 47 Copynumber: 2.7 Consensus size: 47
65482431 ATCCATAAGT
65482441 GAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACATTTCAC
*
65482488 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACATTTCAC
*
65482535 GAACTCGGACTCAACTCAATGAGTTCGAATGC
1 GAACTCGGACTCAACTCAATGAGTTCGGATGC
65482567 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 76 1.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:65494167 original size:13 final size:13
Alignment explanation
Indices: 65494149--65494180 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
65494139 CATATACCAA
65494149 ATTCATTCATATG
1 ATTCATTCATATG
65494162 ATTCATTCATATG
1 ATTCATTCATATG
*
65494175 AATCAT
1 ATTCAT
65494181 AACATATCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.34, C:0.16, G:0.06, T:0.44
Consensus pattern (13 bp):
ATTCATTCATATG
Found at i:65494508 original size:43 final size:43
Alignment explanation
Indices: 65494461--65494565 Score: 106
Period size: 42 Copynumber: 2.4 Consensus size: 43
65494451 ATACGTGGTT
* *
65494461 TTACATGTAATCAAATATCGATG-CCACTGTCCTAGACAGGATC
1 TTACACGTAATCAAATATCGATGTCCA-TGTCCCAGACAGGATC
** * * *
65494504 TTACACAAAATCAAATA-AGATGTCGATGTCCCAGACAGGGTC
1 TTACACGTAATCAAATATCGATGTCCATGTCCCAGACAGGATC
*
65494546 TTACACGTAAATCACATATC
1 TTACACGT-AATCAAATATC
65494566 AGAAATCCTA
Statistics
Matches: 48, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
42 24 0.50
43 24 0.50
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (43 bp):
TTACACGTAATCAAATATCGATGTCCATGTCCCAGACAGGATC
Found at i:65502092 original size:43 final size:41
Alignment explanation
Indices: 65502030--65502147 Score: 146
Period size: 43 Copynumber: 2.8 Consensus size: 41
65502020 AGCTCGTACA
*
65502030 ATGCCAATGTCCCAAACAGGGTCTTACATGTAATTAAATATCG
1 ATGCC-ATGTCCCAGACAGGGTCTTACATGTAATTAAATA-CG
*
65502073 ATGCCACTGTCCCAGACAGGGTCTTACATGAAATTAAATACG
1 ATGCCA-TGTCCCAGACAGGGTCTTACATGTAATTAAATACG
* * **
65502115 ATGTCGATGTCCCAGATAATGTCTTACATGTAA
1 ATG-CCATGTCCCAGACAGGGTCTTACATGTAA
65502148 ATCACATATT
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
42 28 0.42
43 38 0.58
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (41 bp):
ATGCCATGTCCCAGACAGGGTCTTACATGTAATTAAATACG
Found at i:65503839 original size:14 final size:14
Alignment explanation
Indices: 65503816--65503858 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
65503806 ATGGAGAGAT
65503816 CAAAAGAAAAAGAG
1 CAAAAGAAAAAGAG
*
65503830 CAAAATAAAAAGAATG
1 CAAAAGAAAAAG-A-G
65503846 -AAAAGAAAAAGAG
1 CAAAAGAAAAAGAG
65503859 TGGGAAAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
13 1 0.04
14 12 0.48
15 11 0.44
16 1 0.04
ACGTcount: A:0.72, C:0.05, G:0.19, T:0.05
Consensus pattern (14 bp):
CAAAAGAAAAAGAG
Found at i:65512750 original size:19 final size:19
Alignment explanation
Indices: 65512726--65512771 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
65512716 GGACACAGGA
65512726 ACACGCCCGTGTGCCCTGG
1 ACACGCCCGTGTGCCCTGG
65512745 ACACGCCCGTGTGCCCTGG
1 ACACGCCCGTGTGCCCTGG
65512764 ACACGCCC
1 ACACGCCC
65512772 ATGTCCTTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.13, C:0.46, G:0.28, T:0.13
Consensus pattern (19 bp):
ACACGCCCGTGTGCCCTGG
Found at i:65514697 original size:48 final size:48
Alignment explanation
Indices: 65514604--65514721 Score: 130
Period size: 48 Copynumber: 2.5 Consensus size: 48
65514594 CATATCGTTT
* * ** * *
65514604 CCATATCCCAGATATGGTCTTATACAAGGTCTCATGTCAGTGCCGATG
1 CCATGTCCCAGACATGGTCTTATACAAGCACACATATCAGTGCCGATG
*
65514652 CCATGTCCCAGACATGGTCTTATACTAGCACACATATCA-TCGCCGATG
1 CCATGTCCCAGACATGGTCTTATACAAGCACACATATCAGT-GCCGATG
** *
65514700 CCATGTCTTAAACATGGTCTTA
1 CCATGTCCCAGACATGGTCTTA
65514722 CATAGGCACA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
47 1 0.02
48 58 0.98
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (48 bp):
CCATGTCCCAGACATGGTCTTATACAAGCACACATATCAGTGCCGATG
Found at i:65514731 original size:48 final size:48
Alignment explanation
Indices: 65514645--65514739 Score: 122
Period size: 48 Copynumber: 2.0 Consensus size: 48
65514635 TCATGTCAGT
* *
65514645 GCCGATGCCATGTCCCAGACATGGTCTTATACTAGCACACA-TATCATC
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCACA-ATTATCATC
**
65514693 GCCGATGCCATGTCTTAAACATGGTCTTACA-TAGGCACAATTATCAT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTA-GCACAATTATCAT
65514740 TAATCACAGT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
47 3 0.07
48 38 0.93
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCACAATTATCATC
Found at i:65517688 original size:27 final size:27
Alignment explanation
Indices: 65517626--65517691 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
65517616 AATACTTTAG
* * *
65517626 TTTACCAAATTACTAAAATACCCTCGA
1 TTTACAAAATTACCAAAATACCCCCGA
* ** *
65517653 CTTGTAAAATTACCAAAGTACCCCCGA
1 TTTACAAAATTACCAAAATACCCCCGA
65517680 TTTACAAAATTA
1 TTTACAAAATTA
65517692 TCGTTTTACT
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.29
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCCCGA
Found at i:65517744 original size:27 final size:27
Alignment explanation
Indices: 65517714--65517853 Score: 176
Period size: 27 Copynumber: 5.2 Consensus size: 27
65517704 CGATTTACAA
*
65517714 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
*
65517741 AATTA-CTAAAATACCCCTGTAGGGTAG
1 AATTATC-GAAATACCCCTGTAGGGTAG
*
65517768 AATTATCGAAATACCCTTGTAGGGTAGG
1 AATTATCGAAATACCCCTGTAGGGTA-G
* *
65517796 AA-TACCAAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
* * *
65517822 AATTATCGAGATACCCTTGTAGGGTAA
1 AATTATCGAAATACCCCTGTAGGGTAG
65517849 AATTA
1 AATTA
65517854 CCATTTTGCC
Statistics
Matches: 97, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
26 3 0.03
27 90 0.93
28 4 0.04
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (27 bp):
AATTATCGAAATACCCCTGTAGGGTAG
Found at i:65517772 original size:54 final size:54
Alignment explanation
Indices: 65517714--65517856 Score: 225
Period size: 54 Copynumber: 2.6 Consensus size: 54
65517704 CGATTTACAA
* * *
65517714 AATTATTGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
65517768 AATTATCGAAATACCCTTGTAGGGTAGGAA-TACCAAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCTTGTAGGGTA-GAATTACCAAAATACCCCTGTAGGGTAG
* *
65517822 AATTATCGAGATACCCTTGTAGGGTAAAATTACCA
1 AATTATCGAAATACCCTTGTAGGGTAGAATTACCA
65517857 TTTTGCCCCT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
53 2 0.02
54 77 0.94
55 3 0.04
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (54 bp):
AATTATCGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
Found at i:65518429 original size:21 final size:22
Alignment explanation
Indices: 65518369--65518430 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
65518359 GCCAATTATT
*
65518369 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTTTGTGCCAAC
*
65518391 CT-ACATATGGCTTTGTGCCAAC
1 CTGA-TTATGGCTTTGTGCCAAC
65518413 CTGATTATGGC-TTGTGCC
1 CTGATTATGGCTTTGTGCC
65518431 GTTATTGTGG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 8 0.23
22 26 0.74
23 1 0.03
ACGTcount: A:0.18, C:0.26, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTTTGTGCCAAC
Found at i:65518473 original size:20 final size:20
Alignment explanation
Indices: 65518421--65518473 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
65518411 ACCTGATTAT
*
65518421 GGCTT-GTGCCGTTATTGTG
1 GGCTTCGTGCCGATATTGTG
**
65518440 GGCTTCGTATCGATATTGTG
1 GGCTTCGTGCCGATATTGTG
65518460 GGCTTCGTGCCGAT
1 GGCTTCGTGCCGAT
65518474 TATAGACCCG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 5 0.18
20 23 0.82
ACGTcount: A:0.09, C:0.19, G:0.34, T:0.38
Consensus pattern (20 bp):
GGCTTCGTGCCGATATTGTG
Found at i:65518695 original size:6 final size:6
Alignment explanation
Indices: 65518685--65518834 Score: 85
Period size: 6 Copynumber: 24.3 Consensus size: 6
65518675 TTGCATTCAC
* * * *
65518685 ATTCTG GTTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * *
65518735 ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTA ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
65518784 ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG
65518833 AT
1 AT
65518835 AATGTTTCTT
Statistics
Matches: 108, Mismatches: 22, Indels: 28
0.68 0.14 0.18
Matches are distributed among these distances:
5 6 0.06
6 88 0.81
7 10 0.09
8 4 0.04
ACGTcount: A:0.19, C:0.21, G:0.13, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:65518720 original size:25 final size:25
Alignment explanation
Indices: 65518685--65518777 Score: 141
Period size: 25 Copynumber: 3.7 Consensus size: 25
65518675 TTGCATTCAC
* * *
65518685 ATTCTGGTTCTGATTCTGTTACCTG
1 ATTCTGATTCTGATTCTGTCACCTA
*
65518710 ATACTGATTCTGATTCTGTCACCTA
1 ATTCTGATTCTGATTCTGTCACCTA
65518735 ATTCTGATTCTGATTCTGTCACCTA
1 ATTCTGATTCTGATTCTGTCACCTA
*
65518760 ATTCTGATTCTAATTCTG
1 ATTCTGATTCTGATTCTG
65518778 ATTCTGATTC
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 62 1.00
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.45
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTCACCTA
Found at i:65518773 original size:37 final size:37
Alignment explanation
Indices: 65518732--65518825 Score: 161
Period size: 37 Copynumber: 2.5 Consensus size: 37
65518722 ATTCTGTCAC
65518732 CTAATTCTGATTCTGATTCTGTCACCTAATTCTGATT
1 CTAATTCTGATTCTGATTCTGTCACCTAATTCTGATT
65518769 CTAATTCTGATTCTGATTCTGTCACCTAATTCTGATT
1 CTAATTCTGATTCTGATTCTGTCACCTAATTCTGATT
* * *
65518806 CTGATTCTCATTTTGATTCT
1 CTAATTCTGATTCTGATTCT
65518826 AGTTCTGATA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 54 1.00
ACGTcount: A:0.20, C:0.21, G:0.11, T:0.48
Consensus pattern (37 bp):
CTAATTCTGATTCTGATTCTGTCACCTAATTCTGATT
Found at i:65524404 original size:23 final size:23
Alignment explanation
Indices: 65524374--65524420 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
65524364 TTTGCCAAAA
65524374 TTAGACAAGGATGCAAGACTGTT
1 TTAGACAAGGATGCAAGACTGTT
*
65524397 TTAGACAAGGATGCAAGTCTGTT
1 TTAGACAAGGATGCAAGACTGTT
65524420 T
1 T
65524421 AGTGATTAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.30
Consensus pattern (23 bp):
TTAGACAAGGATGCAAGACTGTT
Found at i:65527309 original size:14 final size:14
Alignment explanation
Indices: 65527290--65527320 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
65527280 AGGTGGTGTT
65527290 TCGGGGGCTTGAAA
1 TCGGGGGCTTGAAA
65527304 TCGGGGGCTTGAAA
1 TCGGGGGCTTGAAA
65527318 TCG
1 TCG
65527321 TTTGACGGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.16, G:0.42, T:0.23
Consensus pattern (14 bp):
TCGGGGGCTTGAAA
Found at i:65530716 original size:27 final size:27
Alignment explanation
Indices: 65530683--65530744 Score: 92
Period size: 26 Copynumber: 2.3 Consensus size: 27
65530673 ATTCACTAAA
65530683 ATACCCCTAAGTATG-AAAATTACCATT
1 ATACCCCTAAG-ATGCAAAATTACCATT
*
65530710 ATACCCCT-AGGTGCAAAATTACCATT
1 ATACCCCTAAGATGCAAAATTACCATT
65530736 ATACCCCTA
1 ATACCCCTA
65530745 GGGTTAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 2 0.06
26 22 0.69
27 8 0.25
ACGTcount: A:0.37, C:0.27, G:0.08, T:0.27
Consensus pattern (27 bp):
ATACCCCTAAGATGCAAAATTACCATT
Found at i:65530889 original size:28 final size:27
Alignment explanation
Indices: 65530849--65530928 Score: 106
Period size: 27 Copynumber: 2.9 Consensus size: 27
65530839 GGAAGAAGCA
65530849 TTCTGGTGGCTCTGCCACAAATATCTAT
1 TTCTGGTGGCTCTGCCAC-AATATCTAT
* *
65530877 TTCTGGTGGCTCTGCAACAATATCTGT
1 TTCTGGTGGCTCTGCCACAATATCTAT
* * *
65530904 ATCTGGTGACTCTGTCACAATATCT
1 TTCTGGTGGCTCTGCCACAATATCT
65530929 GTTTTGGCAG
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 29 0.63
28 17 0.37
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.36
Consensus pattern (27 bp):
TTCTGGTGGCTCTGCCACAATATCTAT
Found at i:65534502 original size:27 final size:27
Alignment explanation
Indices: 65534469--65534530 Score: 92
Period size: 26 Copynumber: 2.3 Consensus size: 27
65534459 ATTCACTAAA
65534469 ATACCCCTAAGTATG-AAAATTACCATT
1 ATACCCCTAAG-ATGCAAAATTACCATT
*
65534496 ATACCCCT-AGGTGCAAAATTACCATT
1 ATACCCCTAAGATGCAAAATTACCATT
65534522 ATACCCCTA
1 ATACCCCTA
65534531 GGGTTAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 2 0.06
26 22 0.69
27 8 0.25
ACGTcount: A:0.37, C:0.27, G:0.08, T:0.27
Consensus pattern (27 bp):
ATACCCCTAAGATGCAAAATTACCATT
Found at i:65534674 original size:27 final size:26
Alignment explanation
Indices: 65534634--65534721 Score: 113
Period size: 27 Copynumber: 3.3 Consensus size: 26
65534624 TTGAGGAAGC
65534634 GTTCTGGTGGCTCTGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCA-AAATATCT
*
65534661 GATCTGGTGGCTCTGCCAGAAATATCT
1 GTTCTGGTGGCTCTGCCA-AAATATCT
* **
65534688 GTTTCTGGTGACTCTATCAAAATATCT
1 G-TTCTGGTGGCTCTGCCAAAATATCT
65534715 GTTCTGG
1 GTTCTGG
65534722 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
26 6 0.11
27 35 0.65
28 13 0.24
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCAAAATATCT
Found at i:65536926 original size:39 final size:39
Alignment explanation
Indices: 65536871--65537152 Score: 404
Period size: 39 Copynumber: 7.2 Consensus size: 39
65536861 GAAATGTGTA
65536871 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
* * *
65536910 TGGAAATATATTCGGGCCAAAGACCCGCAGGCTTCGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
* * *
65536949 TGGAAATGTACCCGGGCTAAAAGACCCGCAGGCTTTGTGT
1 TGGAAATATATCCGGGCT-AAAGACCCGCAGGCTTTGTGC
* *
65536989 TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
* *
65537028 TGGAAATATATCCGGGCCAAAGACCCGCAGGCTTCGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
*
65537067 TGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
* * *
65537106 TGGAAATGA-ATCCGGGCTAAAGTCCCACAAGCTTTGTGC
1 TGGAAAT-ATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
*
65537145 TGGTAATA
1 TGGAAATA
65537153 AAATTTCGGG
Statistics
Matches: 217, Mismatches: 24, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
38 1 0.00
39 180 0.83
40 36 0.17
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (39 bp):
TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
Found at i:65537082 original size:118 final size:117
Alignment explanation
Indices: 65536865--65537152 Score: 477
Period size: 118 Copynumber: 2.4 Consensus size: 117
65536855 GAAGACGAAA
* * *
65536865 TGTGTATGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGCTGGAAATATATTCGGGCCAA
1 TGTGT-TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGAAATATATCCGGGCCAA
65536930 AGACCCGCAGGCTTCGTGCTGGAAATGTACCCGGGCTAAAAGACCCGCAGGCTT
65 AGACCCGCAGGCTTCGTGCTGGAAATGTACCCGGGCT-AAAGACCCGCAGGCTT
65536984 TGTGTTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGAAATATATCCGGGCCAAA
1 TGTGTTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGAAATATATCCGGGCCAAA
*
65537049 GACCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTT
66 GACCCGCAGGCTTCGTGCTGGAAATGTACCCGGGCTAAAGACCCGCAGGCTT
* * * * *
65537101 TGTGCTGGAAATGAATCCGGGCTAAAGTCCCACAAGCTTTGTGCTGGTAATA
1 TGTGTTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGAAATA
65537153 AAATTTCGGG
Statistics
Matches: 160, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
117 63 0.39
118 92 0.57
119 5 0.03
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (117 bp):
TGTGTTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGAAATATATCCGGGCCAAA
GACCCGCAGGCTTCGTGCTGGAAATGTACCCGGGCTAAAGACCCGCAGGCTT
Found at i:65548924 original size:20 final size:20
Alignment explanation
Indices: 65548899--65548945 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
65548889 AGGGGCACAC
*
65548899 GCCCGTGTGACCTGGGACAT
1 GCCCGTGTGACCTGGAACAT
*
65548919 GCCCGTGTGGCCTGGAACAT
1 GCCCGTGTGACCTGGAACAT
*
65548939 GGCCGTG
1 GCCCGTG
65548946 GGGCTAAGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.13, C:0.30, G:0.38, T:0.19
Consensus pattern (20 bp):
GCCCGTGTGACCTGGAACAT
Found at i:65554289 original size:5 final size:5
Alignment explanation
Indices: 65554279--65554307 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
65554269 TAATAATAAT
65554279 AATTA AATTA AATTA AATTA AATTA AATT
1 AATTA AATTA AATTA AATTA AATTA AATT
65554308 CCAAGAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
AATTA
Found at i:65572417 original size:40 final size:40
Alignment explanation
Indices: 65572308--65572564 Score: 297
Period size: 40 Copynumber: 6.5 Consensus size: 40
65572298 CGGATGATAA
* * * * * * *
65572308 CCGGACTAAGATCCGAACGAATTCGTGCGAGTTGCTATAA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * * *
65572348 CCGGGCTATGTCCTGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
* * *
65572388 CCGAGCTAAGACCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
65572428 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
65572468 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
65572508 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
65572548 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
65572565 ATACTTGGGT
Statistics
Matches: 191, Mismatches: 23, Indels: 7
0.86 0.10 0.03
Matches are distributed among these distances:
38 1 0.01
39 14 0.07
40 174 0.91
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:65582738 original size:46 final size:45
Alignment explanation
Indices: 65582688--65582857 Score: 175
Period size: 46 Copynumber: 3.7 Consensus size: 45
65582678 TTGAGCATCC
65582688 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA-GTCT
* * * *
65582734 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A-G--TCT
* * **
65582781 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACCCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGTCT
*
65582826 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 -GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
65582858 GGGGTGGGTT
Statistics
Matches: 102, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 56 0.55
47 28 0.27
48 3 0.03
50 4 0.04
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (45 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGTCT
Found at i:65582841 original size:93 final size:93
Alignment explanation
Indices: 65582682--65582852 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
65582672 GGATGGTTGA
* **
65582682 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACCTCTGAACTCGTTGAGT
65582747 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
65582775 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACC-CTCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACCTCT-GAACTCGTTGAG
65582839 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
65582853 ACTTAGGGGT
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACCTCTGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:65584775 original size:5 final size:5
Alignment explanation
Indices: 65584765--65584800 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
65584755 CATTCAATCA
65584765 TTCAT TTCA- TTCAT TTCA- TTCAT TTCA- TTCAT TTCA
1 TTCAT TTCAT TTCAT TTCAT TTCAT TTCAT TTCAT TTCA
65584801 CTCAATATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
4 12 0.43
5 16 0.57
ACGTcount: A:0.22, C:0.22, G:0.00, T:0.56
Consensus pattern (5 bp):
TTCAT
Found at i:65584776 original size:9 final size:9
Alignment explanation
Indices: 65584762--65584800 Score: 78
Period size: 9 Copynumber: 4.3 Consensus size: 9
65584752 AACCATTCAA
65584762 TCATTCATT
1 TCATTCATT
65584771 TCATTCATT
1 TCATTCATT
65584780 TCATTCATT
1 TCATTCATT
65584789 TCATTCATT
1 TCATTCATT
65584798 TCA
1 TCA
65584801 CTCAATATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.54
Consensus pattern (9 bp):
TCATTCATT
Found at i:65584777 original size:4 final size:4
Alignment explanation
Indices: 65584755--65584797 Score: 50
Period size: 4 Copynumber: 10.0 Consensus size: 4
65584745 CAAATTCAAC
*
65584755 CATT CAAT CATT CATTT CATT CATTT CATT CATTT CATT CATT
1 CATT CATT CATT CA-TT CATT CA-TT CATT CA-TT CATT CATT
65584798 TCACTCAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
4 22 0.65
5 12 0.35
ACGTcount: A:0.26, C:0.23, G:0.00, T:0.51
Consensus pattern (4 bp):
CATT
Found at i:65591494 original size:41 final size:41
Alignment explanation
Indices: 65591437--65591517 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 41
65591427 TGAAGTGAAA
*
65591437 GAACTGAGAAATAAGAAGGTAGCTTTAGTAAAACTTTTCTG
1 GAACTAAGAAATAAGAAGGTAGCTTTAGTAAAACTTTTCTG
65591478 GAACTAAGAAATAAGAAGGTAGCTTTAGTAAAACTTTTCT
1 GAACTAAGAAATAAGAAGGTAGCTTTAGTAAAACTTTTCT
65591518 AGAAATGATC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.30
Consensus pattern (41 bp):
GAACTAAGAAATAAGAAGGTAGCTTTAGTAAAACTTTTCTG
Found at i:65598195 original size:47 final size:47
Alignment explanation
Indices: 65598119--65598319 Score: 296
Period size: 47 Copynumber: 4.3 Consensus size: 47
65598109 CTTCGGGACT
* * * * * *
65598119 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
65598166 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-CC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
65598212 TCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCT
1 T-ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
65598260 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
65598307 TATCACATATATA
1 TATCACATATATA
65598320 TATACATTCA
Statistics
Matches: 141, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
46 3 0.02
47 136 0.96
48 2 0.01
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
Found at i:65601341 original size:43 final size:45
Alignment explanation
Indices: 65601288--65601376 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
65601278 TCAGCATTTC
* *
65601288 GCCTGCTAGGCTCG-AGGCCCG-ATA-TCATTTCACCGGCATTATA
1 GCCTGCTAGGCTCGAAAGCCCGAATAGT-ATCTCACCGGCATTATA
*
65601331 GCCTGCTAGGCTCGAAAGCCCGAATAGTATCTCACTGGCATTATA
1 GCCTGCTAGGCTCGAAAGCCCGAATAGTATCTCACCGGCATTATA
65601376 G
1 G
65601377 TCTACTAAGC
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
43 14 0.35
44 6 0.15
45 19 0.47
46 1 0.03
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (45 bp):
GCCTGCTAGGCTCGAAAGCCCGAATAGTATCTCACCGGCATTATA
Found at i:65601778 original size:43 final size:43
Alignment explanation
Indices: 65601730--65601841 Score: 197
Period size: 43 Copynumber: 2.6 Consensus size: 43
65601720 CCGGCATTAC
*
65601730 GCCTGCTAGGCACGAAAGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
65601773 GCCTGCTAGGTACGAAGGCCCGAATACACATCACCGGCATGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
65601816 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
65601842 TAATACCAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 65 1.00
ACGTcount: A:0.30, C:0.32, G:0.26, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:65601907 original size:38 final size:38
Alignment explanation
Indices: 65601834--65601917 Score: 96
Period size: 38 Copynumber: 2.2 Consensus size: 38
65601824 GGCACGAAGG
* * * ** *
65601834 CCCGAATATAATACCAGCACTAGGCCTACGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTACAAGATTTAA
* *
65601872 CCTGGATATAATACCAGCACGAAGCCTGCAAGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTACAAGATTTAA
65601910 CCCGGATA
1 CCCGGATA
65601918 CACATCAAAT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.21
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTACAAGATTTAA
Found at i:65608012 original size:30 final size:30
Alignment explanation
Indices: 65607955--65608015 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
65607945 TTCCCGAGTC
*
65607955 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGAAAAAGTT
* * * *
65607985 TAGGGGCAAAATTGTAATTTTTAAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGAAAAAGTT
65608015 T
1 T
65608016 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.41, C:0.05, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGAAAAAGTT
Found at i:65613033 original size:27 final size:27
Alignment explanation
Indices: 65612992--65613060 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 27
65612982 TTGTTTTGGT
* *
65612992 GAAGAAGTAGGAGAAGTGGCCTGCTTA
1 GAAGATGTAGAAGAAGTGGCCTGCTTA
*
65613019 GAAGATGTAGAAGAAGTGGGCTGCTTA
1 GAAGATGTAGAAGAAGTGGCCTGCTTA
*
65613046 GACGATGTAGAAGAA
1 GAAGATGTAGAAGAA
65613061 AGTTTTGTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.36, C:0.09, G:0.36, T:0.19
Consensus pattern (27 bp):
GAAGATGTAGAAGAAGTGGCCTGCTTA
Found at i:65615131 original size:28 final size:27
Alignment explanation
Indices: 65615063--65615154 Score: 91
Period size: 28 Copynumber: 3.4 Consensus size: 27
65615053 GATATGACAT
* * *
65615063 TGTGCTAAATGAAATAAGACCATGGCA
1 TGTGCTAAGTGAAATAAGTCCATGGAA
*
65615090 --T-CTAAGTGGAATAAGTCCATGGTAA
1 TGTGCTAAGTGAAATAAGTCCATGG-AA
*
65615115 TGTGCTAAGTGAAATAAGTCCATGGCAT
1 TGTGCTAAGTGAAATAAGTCCATGG-AA
*
65615143 TGTGTTAAGTGA
1 TGTGCTAAGTGA
65615155 GAAAGTTCCC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
24 18 0.34
25 2 0.04
27 1 0.02
28 32 0.60
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (27 bp):
TGTGCTAAGTGAAATAAGTCCATGGAA
Found at i:65615233 original size:51 final size:51
Alignment explanation
Indices: 65615173--65615377 Score: 234
Period size: 51 Copynumber: 4.0 Consensus size: 51
65615163 CCAATTGAAC
* *
65615173 CTTTG-GAATAAAATAGCTTTGGACACAAGTGTGGTACCATGTGAAGGCTA
1 CTTTGTGAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCA
* * * *
65615223 CTTTTTGAATATAATAGCTTTGGACACAAGTATGGTACTATGTGATGGCCA
1 CTTTGTGAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCA
** *
65615274 CTTTGTGAGGAAAGATAGCTTTGGTCACAAGTGTGGTACTATGTGAAGGCCA
1 CTTTGTGAATAAA-ATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCA
* * * ** * *
65615326 CCTTGCGAAGAAGGTAGCTTT-GACAACAAGGGTGGTACTATGTGCAGGCCA
1 CTTTGTGAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCA
65615377 C
1 C
65615378 CGAGAATCCG
Statistics
Matches: 131, Mismatches: 21, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
50 6 0.05
51 81 0.62
52 44 0.34
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (51 bp):
CTTTGTGAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCA
Found at i:65615364 original size:103 final size:103
Alignment explanation
Indices: 65615185--65615377 Score: 248
Period size: 103 Copynumber: 1.9 Consensus size: 103
65615175 TTGGAATAAA
* * ** *
65615185 ATAGCTTTGGACACAAGTGTGGTACCATGTGAAGGCTACTTTTTGAATATAATAGCTTTGGACAC
1 ATAGCTTTGGACACAAGTGTGGTACCATGTGAAGGCCACCTTGCGAAGATAATAGCTTTGGACAC
*
65615250 AAGTATGGTACTATGTG-ATGGCCACTTTGTGAGGAAAG
66 AAGGATGGTACTATGTGCA-GGCCACTTTGTGAGGAAAG
* * *
65615288 ATAGCTTTGGTCACAAGTGTGGTACTATGTGAAGGCCACCTTGCGAAGA-AGGTAGCTTT-GACA
1 ATAGCTTTGGACACAAGTGTGGTACCATGTGAAGGCCACCTTGCGAAGATA-ATAGCTTTGGAC-
*
65615351 ACAAGGGTGGTACTATGTGCAGGCCAC
64 ACAAGGATGGTACTATGTGCAGGCCAC
65615378 CGAGAATCCG
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
102 4 0.05
103 72 0.94
104 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (103 bp):
ATAGCTTTGGACACAAGTGTGGTACCATGTGAAGGCCACCTTGCGAAGATAATAGCTTTGGACAC
AAGGATGGTACTATGTGCAGGCCACTTTGTGAGGAAAG
Found at i:65622887 original size:46 final size:46
Alignment explanation
Indices: 65622820--65622948 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
65622810 TGTAACCCGC
* * * *
65622820 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
65622866 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
65622912 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
65622949 TGCTCAACCA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:65622967 original size:46 final size:45
Alignment explanation
Indices: 65622828--65622967 Score: 140
Period size: 46 Copynumber: 3.0 Consensus size: 45
65622818 GCCCATAAGC
* ** * *
65622828 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
*** *
65622874 GAACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
65622920 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCTAGT
65622966 GA
1 GA
65622968 CATGTCACTT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
46 79 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCTAGT
Found at i:65632011 original size:121 final size:121
Alignment explanation
Indices: 65631884--65632265 Score: 424
Period size: 121 Copynumber: 3.0 Consensus size: 121
65631874 TTGAATTTAT
* * * * *
65631884 TAATATAAATAGTTATATTAATAAATTTTGGTCAAAATATAAAAGATATGGAAATTAATATTCTT
1 TAATATAAATAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTT
* * *
65631949 TTGGCAAGAATATAATCAATATATGAATTTGATTCATATAAAATATTTATTGTATA
66 TTGGAAAGAATATAATAAATATATGAATTTGATTCATACAAAATATTTATTGTATA
* * * *
65632005 TAATATAAACAATTATATTAACTAATTTCAGTCAAAATATAAAAGACATGAAAATTAATATTATT
1 TAATATAAATAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTT
* *
65632070 TTGGAAAGAATATAATTAATATATGAATTTGATTAATACAAAATA-TTAGTTGTATA
66 TTGGAAAGAATATAATAAATATATGAATTTGATTCATACAAAATATTTA-TTGTATA
* * * *
65632126 TATTTTACCGAATTTATTAATATAAACAGTTATATTTTAATTTCGGTCAAAATATAAAAAACATG
1 TA--ATA--TAA---A-TAAT-T--ATA-TTA-A--TTAATTTCGGTCAAAATATAAAAGACATG
*
65632191 AAAATTAATATTCTTTTGGAAAGAATATAATTAATATATATGAATTTGATTCATACAAAATATTA
51 AAAATTAATATTCTTTTGGAAAGAATATAA-TAA-ATATATGAATTTGATTCATACAAAATATTT
65632256 ATTGTATA
114 ATTGTATA
65632264 TA
1 TA
65632266 GTTTACCGAA
Statistics
Matches: 218, Mismatches: 24, Indels: 21
0.83 0.09 0.08
Matches are distributed among these distances:
120 3 0.01
121 106 0.49
123 2 0.01
125 2 0.01
128 1 0.00
129 3 0.01
130 1 0.00
132 2 0.01
133 3 0.01
134 1 0.00
136 55 0.25
137 2 0.01
138 35 0.16
139 2 0.01
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (121 bp):
TAATATAAATAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTT
TTGGAAAGAATATAATAAATATATGAATTTGATTCATACAAAATATTTATTGTATA
Found at i:65632159 original size:138 final size:140
Alignment explanation
Indices: 65632005--65632362 Score: 589
Period size: 138 Copynumber: 2.6 Consensus size: 140
65631995 TTATTGTATA
* * * *
65632005 TAATATAAACAATTATATTAACTAATTTCAGTCAAAATATAAAAGACATGAAAATTAATATTATT
1 TAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTT
* *
65632070 TTGGAAAGAATATAATT-A-ATATATGAATTTGATTAATACAAAATATTAGTTGTATATATTTTA
66 TTGGAAAGAATATAATTAATATATATGAATTTGATTAATACAAAATATTAATTGTATATAGTTTA
* *
65632133 CCGAATTTAT
131 CCGAATTCAC
*
65632143 TAATATAAACAGTTATATT--TTAATTTCGGTCAAAATATAAAAAACATGAAAATTAATATTCTT
1 TAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTT
*
65632206 TTGGAAAGAATATAATTAATATATATGAATTTGATTCATACAAAATATTAATTGTATATAGTTTA
66 TTGGAAAGAATATAATTAATATATATGAATTTGATTAATACAAAATATTAATTGTATATAGTTTA
65632271 CCGAATTCAC
131 CCGAATTCAC
*
65632281 TAATATAAACAGTTATATTAATTAATTTCGGTTAAAATATAAAAGACATGAAAATTAATATTCTT
1 TAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTT
65632346 TTGGAAAGAATATAATT
66 TTGGAAAGAATATAATT
65632363 CCTTGTTCTA
Statistics
Matches: 204, Mismatches: 12, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
136 57 0.28
137 1 0.00
138 87 0.43
140 59 0.29
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.39
Consensus pattern (140 bp):
TAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTT
TTGGAAAGAATATAATTAATATATATGAATTTGATTAATACAAAATATTAATTGTATATAGTTTA
CCGAATTCAC
Found at i:65637419 original size:20 final size:20
Alignment explanation
Indices: 65637394--65637443 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
65637384 TGGCTTAAAA
65637394 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
65637414 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
65637431 GTGGTAGTGGATT
1 TTGGTAGTGGATT
65637444 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:65642047 original size:20 final size:20
Alignment explanation
Indices: 65642022--65642071 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
65642012 TGGCTTAAAA
65642022 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
65642042 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
65642059 GTGGTAGTGGATT
1 TTGGTAGTGGATT
65642072 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:65644567 original size:20 final size:20
Alignment explanation
Indices: 65644542--65644582 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
65644532 TATTTCACGG
* *
65644542 AAAATTGACTTAACATCTTT
1 AAAATTAACTCAACATCTTT
65644562 AAAATTAACTCAACATCTTT
1 AAAATTAACTCAACATCTTT
65644582 A
1 A
65644583 CTTAACATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.17, G:0.02, T:0.37
Consensus pattern (20 bp):
AAAATTAACTCAACATCTTT
Found at i:65649187 original size:39 final size:39
Alignment explanation
Indices: 65649123--65649228 Score: 108
Period size: 40 Copynumber: 2.7 Consensus size: 39
65649113 TAGCTCCTCG
* * *
65649123 TTCAAGTGCCTTC-GGACATAGCCCGG-TTATAGTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATA-AAACTCA
* *
65649162 TTCAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATAAAACTCA
**
65649201 CACGAATGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
65649229 ATTAGTATCT
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
38 7 0.12
39 22 0.39
40 28 0.49
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATAAAACTCA
Found at i:65649214 original size:40 final size:40
Alignment explanation
Indices: 65649165--65649387 Score: 224
Period size: 40 Copynumber: 5.6 Consensus size: 40
65649155 TAACTCATTC
* *
65649165 AATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAGAAACTCGCACA
* *
65649205 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAGAAACTCGCACA
* * *
65649245 AAGGCCTTC-GGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAGAAACTCGCACA
*
65649284 AAGGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAGA-AACTCGCACA
* ** ** *
65649324 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAGAAAC-TCGCACA
*
65649365 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
65649388 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 16, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
39 47 0.30
40 100 0.63
41 11 0.07
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAGAAACTCGCACA
Found at i:65649260 original size:79 final size:79
Alignment explanation
Indices: 65649168--65649387 Score: 239
Period size: 79 Copynumber: 2.8 Consensus size: 79
65649158 CTCATTCAAT
* * *
65649168 GCCTTCGGGACTTAACCCGGATTTTA-AAACTCGCACGAATGCCTTCGGGACTTAACCCGGAATT
1 GCCTTC-GGACTTAACCCGGA-ATTAGAAACTCGCACAAAGGCCTTCGGGACTTAACCCGGAATT
* *
65649232 AGTATCTCGCACAAAG
64 AATAACTCGCACAAAG
* *
65649248 GCCTTCGGACTTAACCCGGAATTAGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATTAA
1 GCCTTCGGACTTAACCCGGAATTAGAAACTCGCACAAAGGCCTTCGGGACTTAACCCGGAATTAA
*
65649313 TAACTCGCACAAAT
66 TAACTCGCACAAAG
* ** ** * *
65649327 ACCTTCGGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGA-CTTAACCCGGAAT-TAGAAAC-TCGCACAAAGGCCTTCGGGACTTAACCCGGA
65649388 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 15, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
78 3 0.02
79 71 0.59
80 39 0.32
81 8 0.07
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
GCCTTCGGACTTAACCCGGAATTAGAAACTCGCACAAAGGCCTTCGGGACTTAACCCGGAATTAA
TAACTCGCACAAAG
Found at i:65649347 original size:119 final size:120
Alignment explanation
Indices: 65649168--65649387 Score: 290
Period size: 119 Copynumber: 1.8 Consensus size: 120
65649158 CTCATTCAAT
* * *
65649168 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGACTTAACCCGGA-ATT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGGACTTAACCCGGATA-T
*
65649232 AGT-A-TCTCGCACAAAGGCCTTC-GGACTTAACCCGGAATTAGTATCTCGCACAAAG
65 AGTCACT-TAGCACAAA-GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
**
65649287 GCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTC-GGATCTTAGTCCGGATA
1 GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGGA-CTTAACCCGGATA
*
65649350 TAGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 TAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
65649388 CAGCATTCAA
Statistics
Matches: 88, Mismatches: 7, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
118 7 0.08
119 57 0.65
120 23 0.26
121 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (120 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGGACTTAACCCGGATATA
GTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
Found at i:65654484 original size:20 final size:20
Alignment explanation
Indices: 65654436--65654533 Score: 74
Period size: 20 Copynumber: 4.9 Consensus size: 20
65654426 CTTGTACGAG
65654436 ATTTGCACTTCGATGCCCCT
1 ATTTGCACTTCGATGCCCCT
* * * * *
65654456 ATATACACTTCGGTGTCTCT
1 ATTTGCACTTCGATGCCCCT
*
65654476 ATTTGCACTATTG-TGCCCCT
1 ATTTGCACT-TCGATGCCCCT
* *
65654496 ATTTGCATATTTG-TGCCCCT
1 ATTTGCA-CTTCGATGCCCCT
* *
65654516 GTTTGCACTTTGATGCCC
1 ATTTGCACTTCGATGCCC
65654534 TTGTTTTGCA
Statistics
Matches: 62, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
19 4 0.06
20 55 0.89
21 3 0.05
ACGTcount: A:0.15, C:0.29, G:0.16, T:0.40
Consensus pattern (20 bp):
ATTTGCACTTCGATGCCCCT
Found at i:65654962 original size:25 final size:25
Alignment explanation
Indices: 65654924--65654975 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
65654914 AGTGATTTAA
* *
65654924 GAATGACATGTTTATAGGAAAGTTT
1 GAATGACATATTTATACGAAAGTTT
65654949 GAATGACATATTTATACGAAAGTTT
1 GAATGACATATTTATACGAAAGTTT
65654974 GA
1 GA
65654976 GACAAATGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.38, C:0.06, G:0.21, T:0.35
Consensus pattern (25 bp):
GAATGACATATTTATACGAAAGTTT
Found at i:65663088 original size:27 final size:26
Alignment explanation
Indices: 65663006--65663089 Score: 105
Period size: 27 Copynumber: 3.2 Consensus size: 26
65662996 ATGGAAGAAG
* *
65663006 TACTGTACTGGTGACTATGTCACATT
1 TACTGTACTGGTGGCTATGCCACATT
* *
65663032 AACTGTTACTGGTGGCTATGCCACAAT
1 TACTG-TACTGGTGGCTATGCCACATT
*
65663059 TACTGATACTGGTGGCTTTGCCACATT
1 TACTG-TACTGGTGGCTATGCCACATT
65663086 TACT
1 TACT
65663090 ATTTTTGGCA
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
26 4 0.08
27 45 0.92
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (26 bp):
TACTGTACTGGTGGCTATGCCACATT
Found at i:65665856 original size:13 final size:13
Alignment explanation
Indices: 65665838--65665862 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65665828 ACATGGCATG
65665838 TGTCTCAGTCGTA
1 TGTCTCAGTCGTA
65665851 TGTCTCAGTCGT
1 TGTCTCAGTCGT
65665863 GTGTGACACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.24, G:0.24, T:0.40
Consensus pattern (13 bp):
TGTCTCAGTCGTA
Found at i:65667606 original size:54 final size:54
Alignment explanation
Indices: 65667538--65667646 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
65667528 ATTATAGTAT
*
65667538 ACTAAGGAATCCAAAACATCCACAATCATGGCTAATACATGTCAATGTAATACC
1 ACTAAGGAAACCAAAACATCCACAATCATGGCTAATACATGTCAATGTAATACC
65667592 ACTAAGGAAACCAAAACATCCACAATCATGGCTAATACATGTCAATGTAATACC
1 ACTAAGGAAACCAAAACATCCACAATCATGGCTAATACATGTCAATGTAATACC
65667646 A
1 A
65667647 TCATCTAACA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.44, C:0.24, G:0.11, T:0.21
Consensus pattern (54 bp):
ACTAAGGAAACCAAAACATCCACAATCATGGCTAATACATGTCAATGTAATACC
Found at i:65672581 original size:42 final size:42
Alignment explanation
Indices: 65672493--65672583 Score: 103
Period size: 42 Copynumber: 2.2 Consensus size: 42
65672483 AGACTATGTG
* * *
65672493 TAAGACCTTATCTGGGATATGGAATCAATATGAGTCTTCGTG
1 TAAGACCATATCTAGGATATGGAATCAATATGAGTCTTCGTA
* * * *
65672535 TAAGACCATATCTAGGATATGGCATCGATGTGAGATTTTC-TA
1 TAAGACCATATCTAGGATATGGAATCAATATGAG-TCTTCGTA
65672577 TAAGACC
1 TAAGACC
65672584 GTAGCTGGGC
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 37 0.90
43 4 0.10
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (42 bp):
TAAGACCATATCTAGGATATGGAATCAATATGAGTCTTCGTA
Found at i:65672619 original size:30 final size:30
Alignment explanation
Indices: 65672579--65672641 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
65672569 ATTTTCTATA
*
65672579 AGACCGTAGCTGGGCTATTGGCATGATACG
1 AGACCATAGCTGGGCTATTGGCATGATACG
65672609 AGACCATAGCTGGGCTATTGGCATGATACG
1 AGACCATAGCTGGGCTATTGGCATGATACG
65672639 AGA
1 AGA
65672642 TCCCATATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.27, C:0.19, G:0.32, T:0.22
Consensus pattern (30 bp):
AGACCATAGCTGGGCTATTGGCATGATACG
Found at i:65679432 original size:22 final size:22
Alignment explanation
Indices: 65679394--65679469 Score: 73
Period size: 24 Copynumber: 3.3 Consensus size: 22
65679384 AGTAAGCATT
* *
65679394 GAGCTGAAATAGTAAGCTCTAAT
1 GAGCTG-AACAGTAAGCTCTAAC
*
65679417 GAGCTGAACAGTAAGC-CCATAC
1 GAGCTGAACAGTAAGCTCTA-AC
*
65679439 GAGCTGAGAACAGTAAGCTCTTAC
1 GAGCT--GAACAGTAAGCTCTAAC
65679463 GAGCTGA
1 GAGCTGA
65679470 TATATCGGTA
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
21 2 0.05
22 17 0.39
23 6 0.14
24 18 0.41
25 1 0.02
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.20
Consensus pattern (22 bp):
GAGCTGAACAGTAAGCTCTAAC
Found at i:65679454 original size:24 final size:24
Alignment explanation
Indices: 65679422--65679469 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
65679412 CTAATGAGCT
65679422 GAACAGTAAGCCCATACGAGCTGA
1 GAACAGTAAGCCCATACGAGCTGA
* *
65679446 GAACAGTAAGCTCTTACGAGCTGA
1 GAACAGTAAGCCCATACGAGCTGA
65679470 TATATCGGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (24 bp):
GAACAGTAAGCCCATACGAGCTGA
Done.