Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 100 of 160
Found at i:18956653 original size:31 final size:31
Alignment explanation
Indices: 18956582--18956654 Score: 78
Period size: 31 Copynumber: 2.3 Consensus size: 31
18956572 TATATTTAAA
* **
18956582 AAATTATTTAAAATTTTATTTTGATTATAATT
1 AAATT-TTTATAATTTTATTTACATTATAATT
18956614 -AATATTTTATAATATTTATTTACATT-TAATT
1 AAAT-TTTTATAAT-TTTATTTACATTATAATT
18956645 AAATTTTTAT
1 AAATTTTTAT
18956655 TTAAATAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
31 21 0.60
32 14 0.40
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (31 bp):
AAATTTTTATAATTTTATTTACATTATAATT
Found at i:18957085 original size:16 final size:17
Alignment explanation
Indices: 18957049--18957099 Score: 77
Period size: 16 Copynumber: 3.0 Consensus size: 17
18957039 TGTTTGGATG
18957049 AAAAATTTTAAAATTTCA
1 AAAAATTTTAAAA-TTCA
18957067 AAAAATTTTAAAATT-A
1 AAAAATTTTAAAATTCA
*
18957083 AAATATTTTAAAATTCA
1 AAAAATTTTAAAATTCA
18957100 TCATTTTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
16 15 0.48
17 3 0.10
18 13 0.42
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (17 bp):
AAAAATTTTAAAATTCA
Found at i:18960715 original size:21 final size:23
Alignment explanation
Indices: 18960659--18960708 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
18960649 ATACTCAGAA
*
18960659 GTTTTAGAAAATG-ATACCTAAAG
1 GTTTCAGAAAA-GAATACCTAAAG
18960682 GTTTCAGAAAAGAATACC-AAAG
1 GTTTCAGAAAAGAATACCTAAAG
18960704 GTTTC
1 GTTTC
18960709 TAAAAGATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 10 0.40
23 15 0.60
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.28
Consensus pattern (23 bp):
GTTTCAGAAAAGAATACCTAAAG
Found at i:18960780 original size:23 final size:22
Alignment explanation
Indices: 18960754--18960810 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
18960744 GAGGTCTTAT
*
18960754 AAATCATGCTTAAAGGTTTTTAG
1 AAATCATGCTTAAAGGTTTTT-C
* * *
18960777 AAATTATGCTCATAGGTTTTTC
1 AAATCATGCTTAAAGGTTTTTC
*
18960799 AAATCATTCTTA
1 AAATCATGCTTA
18960811 TCATTGAAAA
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
22 9 0.33
23 18 0.67
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (22 bp):
AAATCATGCTTAAAGGTTTTTC
Found at i:18961157 original size:18 final size:18
Alignment explanation
Indices: 18961134--18961171 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
18961124 TAATGCATGA
*
18961134 AATGCATGCAATAAA-TGC
1 AATGCAT-CAAAAAATTGC
18961152 AATGCATCAAAAAATTGC
1 AATGCATCAAAAAATTGC
18961170 AA
1 AA
18961172 ATAAAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.50, C:0.16, G:0.13, T:0.21
Consensus pattern (18 bp):
AATGCATCAAAAAATTGC
Found at i:18961558 original size:24 final size:23
Alignment explanation
Indices: 18961516--18961640 Score: 164
Period size: 24 Copynumber: 5.3 Consensus size: 23
18961506 TATTAGCATC
**
18961516 CATGCAATAAAGATAAAATCATAT
1 CATGCAATAATCAT-AAATCATAT
*
18961540 CATGCATTAATCATGAAATCATAT
1 CATGCAATAATCAT-AAATCATAT
18961564 CATGCAATAAT-A-AAATCATAT
1 CATGCAATAATCATAAATCATAT
*
18961585 CATGCAATAAACATAAATTCATAT
1 CATGCAATAATCATAAA-TCATAT
18961609 CATGCAATAATCATAAAATCATAT
1 CATGCAATAATCAT-AAATCATAT
18961633 CATGCAAT
1 CATGCAAT
18961641 CATGCAATCA
Statistics
Matches: 90, Mismatches: 7, Indels: 8
0.86 0.07 0.08
Matches are distributed among these distances:
21 19 0.21
22 1 0.01
23 4 0.04
24 63 0.70
25 3 0.03
ACGTcount: A:0.49, C:0.16, G:0.06, T:0.29
Consensus pattern (23 bp):
CATGCAATAATCATAAATCATAT
Found at i:18961584 original size:45 final size:46
Alignment explanation
Indices: 18961516--18961675 Score: 177
Period size: 45 Copynumber: 3.5 Consensus size: 46
18961506 TATTAGCATC
*
18961516 CATGCAATAAAGATAAAATCATATCATGCATTAATCATGAAATCATAT
1 CATGCAAT-AACATAAAATCATATCATGCA-TAATCATGAAATCATAT
*
18961564 CATGCAAT-A-ATAAAATCATATCATGCAATAAACAT-AAATTCATAT
1 CATGCAATAACATAAAATCATATCATGC-ATAATCATGAAA-TCATAT
*
18961609 CATGCAATAATCATAAAATCATATCATGC--AATCATGCAATCATAT
1 CATGCAATAA-CATAAAATCATATCATGCATAATCATGAAATCATAT
* **
18961654 TATGTGATAAACATAAAATCAT
1 CATGCAAT-AACATAAAATCAT
18961676 GCAATAATAA
Statistics
Matches: 99, Mismatches: 6, Indels: 17
0.81 0.05 0.14
Matches are distributed among these distances:
44 3 0.03
45 64 0.65
46 7 0.07
48 25 0.25
ACGTcount: A:0.48, C:0.16, G:0.07, T:0.29
Consensus pattern (46 bp):
CATGCAATAACATAAAATCATATCATGCATAATCATGAAATCATAT
Found at i:18961595 original size:69 final size:69
Alignment explanation
Indices: 18961516--18961675 Score: 230
Period size: 69 Copynumber: 2.3 Consensus size: 69
18961506 TATTAGCATC
* * *
18961516 CATGCAATAAAGATAAAATCATATCATGCATTAATCATGAAATCATATCATGCAATAATAAAATC
1 CATGCAATAAACATAAAATCATATCATGCAATAATCATAAAATCATATCATGCAATAATAAAATC
18961581 ATAT
66 ATAT
* * **
18961585 CATGCAATAAACATAAATTCATATCATGCAATAATCATAAAATCATATCATGCAATCATGCAATC
1 CATGCAATAAACATAAAATCATATCATGCAATAATCATAAAATCATATCATGCAATAATAAAATC
18961650 ATAT
66 ATAT
* **
18961654 TATGTGATAAACATAAAATCAT
1 CATGCAATAAACATAAAATCAT
18961676 GCAATAATAA
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
69 80 1.00
ACGTcount: A:0.48, C:0.16, G:0.07, T:0.29
Consensus pattern (69 bp):
CATGCAATAAACATAAAATCATATCATGCAATAATCATAAAATCATATCATGCAATAATAAAATC
ATAT
Found at i:18961817 original size:55 final size:58
Alignment explanation
Indices: 18961750--18962058 Score: 273
Period size: 60 Copynumber: 5.5 Consensus size: 58
18961740 AATTAATTAA
* * *
18961750 TAATCATACAAATAAATATGCAATTAAATATATTAATAATCATGC-AA-AGAATA-AT
1 TAATCATGCAAATAAATATGCAATTAAATATAATAATAATCATGCAAATATAATATAT
*
18961805 TAATCATGC----AAATA--CAATT-AA-AT-CT-ATAATCATGCAAATAATAATATAT
1 TAATCATGCAAATAAATATGCAATTAAATATAATAATAATCATGCAAAT-ATAATATAT
* * *
18961854 AAATTATGCAAATAAAAATGCAATT-AA-AT-AT-ATAATCATGCAAATTATAATATAT
1 TAATCATGCAAATAAATATGCAATTAAATATAATAATAATCATGCAAA-TATAATATAT
*
18961909 AAATCATGCAAAT-AATCATGCAATTAAATATAATATATAATCATGCAAATTATAATATAT
1 TAATCATGCAAATAAAT-ATGCAATTAAATATAATA-ATAATCATGCAAA-TATAATATAT
* ** *
18961969 AAATCATGCAAAT-AATCATGCAATTAAATATAATATATAATCACACAAATTACAATATA-
1 TAATCATGCAAATAAAT-ATGCAATTAAATATAATA-ATAATCATGCAAA-TATAATATAT
18962028 TAGATCATGCAAAT-AATCATGCAATTAAATA
1 TA-ATCATGCAAATAAAT-ATGCAATTAAATA
18962059 CATAATCATA
Statistics
Matches: 223, Mismatches: 13, Indels: 31
0.84 0.05 0.12
Matches are distributed among these distances:
45 10 0.04
46 3 0.01
47 2 0.01
48 7 0.03
49 14 0.06
51 5 0.02
53 4 0.02
54 2 0.01
55 60 0.27
56 3 0.01
57 2 0.01
58 2 0.01
59 1 0.00
60 108 0.48
ACGTcount: A:0.53, C:0.11, G:0.05, T:0.31
Consensus pattern (58 bp):
TAATCATGCAAATAAATATGCAATTAAATATAATAATAATCATGCAAATATAATATAT
Found at i:18961828 original size:19 final size:19
Alignment explanation
Indices: 18961786--18961825 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
18961776 AATATATTAA
*
18961786 TAATCATGCAAAGAATAAT
1 TAATCATGCAAAGAACAAT
*
18961805 TAATCATGCAAA-TACAAT
1 TAATCATGCAAAGAACAAT
18961823 TAA
1 TAA
18961826 ATCTATAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.53, C:0.12, G:0.07, T:0.28
Consensus pattern (19 bp):
TAATCATGCAAAGAACAAT
Found at i:18961888 original size:20 final size:22
Alignment explanation
Indices: 18961865--18961921 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
18961855 AATTATGCAA
18961865 ATAAAAATGC-AATTA-AATAT
1 ATAAAAATGCAAATTATAATAT
**
18961885 ATAATCATGCAAATTATAATAT
1 ATAAAAATGCAAATTATAATAT
*
18961907 ATAAATCATGCAAAT
1 ATAAA-AATGCAAAT
18961922 AATCATGCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.26
21 5 0.16
22 9 0.29
23 9 0.29
ACGTcount: A:0.54, C:0.09, G:0.05, T:0.32
Consensus pattern (22 bp):
ATAAAAATGCAAATTATAATAT
Found at i:18961908 original size:22 final size:22
Alignment explanation
Indices: 18961871--18962041 Score: 108
Period size: 22 Copynumber: 8.4 Consensus size: 22
18961861 GCAAATAAAA
18961871 ATGC-AATTA-AATATATAATC
1 ATGCAAATTATAATATATAATC
18961891 ATGCAAATTATAATATATAAATC
1 ATGCAAATTATAATATAT-AATC
**
18961914 ATGC-AA--ATAATCATGCAAT-
1 ATGCAAATTATAAT-ATATAATC
18961933 -T--AAA-TATAATATATAATC
1 ATGCAAATTATAATATATAATC
18961951 ATGCAAATTATAATATATAAATC
1 ATGCAAATTATAATATAT-AATC
**
18961974 ATGC-AA--ATAATCATGCAAT-
1 ATGCAAATTATAAT-ATATAATC
18961993 -T--AAA-TATAATATATAATC
1 ATGCAAATTATAATATATAATC
** *
18962011 ACACAAATTACAATATATAGATC
1 ATGCAAATTATAATATATA-ATC
18962034 ATGCAAAT
1 ATGCAAAT
18962042 AATCATGCAA
Statistics
Matches: 118, Mismatches: 12, Indels: 39
0.70 0.07 0.23
Matches are distributed among these distances:
17 14 0.12
18 12 0.10
19 1 0.01
20 20 0.17
21 15 0.13
22 31 0.26
23 25 0.21
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (22 bp):
ATGCAAATTATAATATATAATC
Found at i:18961917 original size:23 final size:21
Alignment explanation
Indices: 18961871--18961981 Score: 94
Period size: 23 Copynumber: 5.4 Consensus size: 21
18961861 GCAAATAAAA
18961871 ATGC-AATTAAATATATAATC
1 ATGCAAATTAAATATATAATC
18961891 ATGCAAATTATAATATATAAATC
1 ATGCAAATTA-AATATAT-AATC
**
18961914 ATGCAAA-T-AATCATGCAAT-
1 ATGCAAATTAAAT-ATATAATC
18961933 -T--AAA-TATAATATATAATC
1 ATGCAAATTA-AATATATAATC
18961951 ATGCAAATTATAATATATAAATC
1 ATGCAAATTA-AATATAT-AATC
18961974 ATGCAAAT
1 ATGCAAAT
18961982 AATCATGCAA
Statistics
Matches: 75, Mismatches: 4, Indels: 21
0.75 0.04 0.21
Matches are distributed among these distances:
16 4 0.05
17 5 0.07
18 4 0.05
19 1 0.01
20 10 0.13
21 10 0.13
22 18 0.24
23 23 0.31
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.33
Consensus pattern (21 bp):
ATGCAAATTAAATATATAATC
Found at i:18961927 original size:12 final size:12
Alignment explanation
Indices: 18961910--18961991 Score: 55
Period size: 12 Copynumber: 6.8 Consensus size: 12
18961900 ATAATATATA
18961910 AATCATGCAAAT
1 AATCATGCAAAT
*
18961922 AATCATGCAATT
1 AATCATGCAAAT
*
18961934 AAAT-AT-AATATAT
1 -AATCATGCA-A-AT
18961947 AATCATGCAAAT
1 AATCATGCAAAT
* * *
18961959 TATAAT--ATAT
1 AATCATGCAAAT
18961969 AAATCATGCAAAT
1 -AATCATGCAAAT
18961982 AATCATGCAA
1 AATCATGCAA
18961992 TTAAATATAA
Statistics
Matches: 52, Mismatches: 10, Indels: 16
0.67 0.13 0.21
Matches are distributed among these distances:
10 3 0.06
11 5 0.10
12 33 0.63
13 10 0.19
14 1 0.02
ACGTcount: A:0.51, C:0.12, G:0.06, T:0.30
Consensus pattern (12 bp):
AATCATGCAAAT
Found at i:18961967 original size:60 final size:60
Alignment explanation
Indices: 18961805--18962058 Score: 358
Period size: 60 Copynumber: 4.3 Consensus size: 60
18961795 AAAGAATAAT
* * * *
18961805 TAATCATGCAAATACAAT-TAAATCTATAATCATGCAAATAATAATATATAAATTATGCAAA
1 TAATCATGCAATTA-AATAT-AATATATAATCATGCAAATTATAATATATAAATCATGCAAA
**
18961866 TAAAAATGCAA-T---TA-AATATATAATCATGCAAATTATAATATATAAATCATGCAAA
1 TAATCATGCAATTAAATATAATATATAATCATGCAAATTATAATATATAAATCATGCAAA
18961921 TAATCATGCAATTAAATATAATATATAATCATGCAAATTATAATATATAAATCATGCAAA
1 TAATCATGCAATTAAATATAATATATAATCATGCAAATTATAATATATAAATCATGCAAA
** * *
18961981 TAATCATGCAATTAAATATAATATATAATCACACAAATTACAATATATAGATCATGCAAA
1 TAATCATGCAATTAAATATAATATATAATCATGCAAATTATAATATATAAATCATGCAAA
18962041 TAATCATGCAATTAAATA
1 TAATCATGCAATTAAATA
18962059 CATAATCATA
Statistics
Matches: 176, Mismatches: 11, Indels: 13
0.88 0.05 0.06
Matches are distributed among these distances:
55 47 0.27
56 2 0.01
59 2 0.01
60 116 0.66
61 9 0.05
ACGTcount: A:0.52, C:0.11, G:0.05, T:0.31
Consensus pattern (60 bp):
TAATCATGCAATTAAATATAATATATAATCATGCAAATTATAATATATAAATCATGCAAA
Found at i:18962065 original size:20 final size:19
Alignment explanation
Indices: 18962040--18962077 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
18962030 GATCATGCAA
*
18962040 ATAATCATGCAATTAAATAC
1 ATAATCATACAA-TAAATAC
18962060 ATAATCATACAATAAATA
1 ATAATCATACAATAAATA
18962078 ATCTTACCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.55, C:0.13, G:0.03, T:0.29
Consensus pattern (19 bp):
ATAATCATACAATAAATAC
Found at i:18962079 original size:115 final size:110
Alignment explanation
Indices: 18961819--18962067 Score: 311
Period size: 115 Copynumber: 2.2 Consensus size: 110
18961809 CATGCAAATA
*
18961819 CAATTAAAT-CTATAATCATGCAAATAATAATATATAAATTATGCAAATAAAAATGCAATTAAAT
1 CAATTAAATAC-ATAATCATGCAAATAATAATATATAAATCATGCAAATAAAAATGCAATTAAAT
** *
18961883 ATATAATCATGCAAATTATAATATATAAATCATGCAAATAATCATG
65 ATATAATCACACAAATTACAATATATAAATCATGCAAATAATCATG
* * **
18961929 CAATTAAATATAATATATAATCATGCAAATTATAATATATAAATCATGCAAATAATCATGCAATT
1 CAA-T---TA-AATACATAATCATGCAAATAATAATATATAAATCATGCAAATAAAAATGCAA-T
*
18961994 AAATATAATATATAATCACACAAATTACAATATATAGATCATGCAAATAATCATG
60 ---TA-AATATATAATCACACAAATTACAATATATAAATCATGCAAATAATCATG
18962049 CAATTAAATACATAATCAT
1 CAATTAAATACATAATCAT
18962068 ACAATAAATA
Statistics
Matches: 118, Mismatches: 10, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
110 3 0.03
111 1 0.01
114 2 0.02
115 58 0.49
116 3 0.03
119 3 0.03
120 48 0.41
ACGTcount: A:0.52, C:0.11, G:0.05, T:0.32
Consensus pattern (110 bp):
CAATTAAATACATAATCATGCAAATAATAATATATAAATCATGCAAATAAAAATGCAATTAAATA
TATAATCACACAAATTACAATATATAAATCATGCAAATAATCATG
Found at i:18962143 original size:6 final size:6
Alignment explanation
Indices: 18962114--18962217 Score: 68
Period size: 6 Copynumber: 17.0 Consensus size: 6
18962104 CTTCATTCTT
* * * * *
18962114 AAAATT AAAATA ATAACA ATAATA AAAATA GAAAATA AAAATA AAAACA
1 AAAATA AAAATA AAAATA AAAATA AAAATA -AAAATA AAAATA AAAATA
* * * * *
18962163 AGAAAT- AAAACA GAAAT- AAGATA AAAATC AAAATAA AAAATA ATAAAAA
1 A-AAATA AAAATA AAAATA AAAATA AAAATA AAAAT-A AAAATA A-AAATA
18962212 AAAATA
1 AAAATA
18962218 CATGTGATCG
Statistics
Matches: 75, Mismatches: 17, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
5 6 0.08
6 50 0.67
7 19 0.25
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:18962152 original size:13 final size:12
Alignment explanation
Indices: 18962114--18962217 Score: 68
Period size: 13 Copynumber: 8.5 Consensus size: 12
18962104 CTTCATTCTT
*
18962114 AAAATTAAAATA
1 AAAATAAAAATA
* * *
18962126 ATAACAATAATA
1 AAAATAAAAATA
18962138 AAAATAGAAAATA
1 AAAATA-AAAATA
*
18962151 AAAATAAAAACA
1 AAAATAAAAATA
*
18962163 AGAAAT-AAAACA
1 A-AAATAAAAATA
* *
18962175 GAAAT-AAGATA
1 AAAATAAAAATA
*
18962186 AAAATCAAAATAA
1 AAAATAAAAAT-A
*
18962199 AAAATAATAAAAA
1 AAAATAA-AAATA
18962212 AAAATA
1 AAAATA
18962218 CATGTGATCG
Statistics
Matches: 72, Mismatches: 15, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
11 12 0.17
12 28 0.39
13 29 0.40
14 3 0.04
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.16
Consensus pattern (12 bp):
AAAATAAAAATA
Found at i:18962178 original size:31 final size:31
Alignment explanation
Indices: 18962114--18962201 Score: 85
Period size: 31 Copynumber: 2.9 Consensus size: 31
18962104 CTTCATTCTT
* * * *
18962114 AAAATTAAAATAATAACAATAATAAAAATAG
1 AAAATAAAAATAAAAACAAAAATAAAAACAG
18962145 AAAATAAAAATAAAAACAAGAAAT-AAAACAG
1 AAAATAAAAATAAAAACAA-AAATAAAAACAG
*
18962176 -AAAT-AAGATAAAAATC-AAAATAAAAA
1 AAAATAAAAATAAAAA-CAAAAATAAAAA
18962202 ATAATAAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
28 4 0.08
29 14 0.29
30 5 0.10
31 23 0.47
32 3 0.06
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.16
Consensus pattern (31 bp):
AAAATAAAAATAAAAACAAAAATAAAAACAG
Found at i:18962680 original size:20 final size:20
Alignment explanation
Indices: 18962655--18962709 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 20
18962645 AATCAAACCT
*
18962655 AAAAATTAAAACCCAATTCC
1 AAAAATTAAAACCCAATACC
*
18962675 AAAAATTCAAA--CAATACC
1 AAAAATTAAAACCCAATACC
*
18962693 AGAAATTAAAACTCCAA
1 AAAAATTAAAAC-CCAA
18962710 AAAAATCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
18 15 0.54
20 10 0.36
21 3 0.11
ACGTcount: A:0.58, C:0.22, G:0.02, T:0.18
Consensus pattern (20 bp):
AAAAATTAAAACCCAATACC
Found at i:18963335 original size:6 final size:6
Alignment explanation
Indices: 18963324--18963391 Score: 66
Period size: 6 Copynumber: 11.5 Consensus size: 6
18963314 AAAACTAGAA
* * * * *
18963324 TAAAAT TAAAAT CAAAAT CAAAAC TAAAAT TAAAAC T-AAAT TCAAAT
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT
* *
18963371 TGAAAT CAAAAT TAAAAT TAA
1 TAAAAT TAAAAT TAAAAT TAA
18963392 GATAAGATTT
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
5 4 0.08
6 47 0.92
ACGTcount: A:0.63, C:0.09, G:0.01, T:0.26
Consensus pattern (6 bp):
TAAAAT
Found at i:18963346 original size:18 final size:18
Alignment explanation
Indices: 18963325--18963391 Score: 82
Period size: 18 Copynumber: 3.8 Consensus size: 18
18963315 AAACTAGAAT
*
18963325 AAAATTAAAATCAAAATC
1 AAAATTAAAATTAAAATC
*
18963343 AAAACTAAAATTAAAA-C
1 AAAATTAAAATTAAAATC
* * *
18963360 TAAATTCAAATTGAAATC
1 AAAATTAAAATTAAAATC
18963378 AAAATTAAAATTAA
1 AAAATTAAAATTAA
18963392 GATAAGATTT
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
17 13 0.33
18 26 0.67
ACGTcount: A:0.64, C:0.09, G:0.01, T:0.25
Consensus pattern (18 bp):
AAAATTAAAATTAAAATC
Found at i:18963703 original size:43 final size:43
Alignment explanation
Indices: 18963658--18963984 Score: 262
Period size: 42 Copynumber: 7.7 Consensus size: 43
18963648 CCCCTACCAT
*
18963658 TGAGGCTTTGAAACTTTTGAAAAATAAAATGCTCATCCACAAT
1 TGAGGCTTTGAAACTTTTGAAAAATAAAATGCTCATCCACAAC
* * * **
18963701 TGAGG-TTTAAAATTTTTGAAAAATAAAATACTCATTAACAAC
1 TGAGGCTTTGAAACTTTTGAAAAATAAAATGCTCATCCACAAC
* * * **
18963743 TTAGGCTTTAAAACTTTAGAAAAATAAAATGCTCCCCCACAAC
1 TGAGGCTTTGAAACTTTTGAAAAATAAAATGCTCATCCACAAC
** * * * * *
18963786 AAATGCCTTGAAA-TTTTTAAAAATAAAATGCT-TTCTCATAAC
1 TGAGGCTTTGAAACTTTTGAAAAATAAAATGCTCATC-CACAAC
** *
18963828 TGAGGCCCTGAAACTTTTG-AAAATAAATTGCTC--CCTTACAAC
1 TGAGGCTTTGAAACTTTTGAAAAATAAAATGCTCATCC--ACAAC
* ** *
18963870 TAAAGG-TTTGAAA--TTTGAAAAA-AAAATGCTCCCCCTATAAC
1 T-GAGGCTTTGAAACTTTTGAAAAATAAAATGCTCATCC-ACAAC
* *
18963911 TGAGGCTTTGAAACTTTTGGAAAATAAAATGCTCCAT-CACTAC
1 TGAGGCTTTGAAACTTTTGAAAAATAAAATGCT-CATCCACAAC
**
18963954 TGAGAATTTGAAACTTTTGAAAAATAAAATG
1 TGAGGCTTTGAAACTTTTGAAAAATAAAATG
18963985 AGATATTTGA
Statistics
Matches: 224, Mismatches: 45, Indels: 30
0.75 0.15 0.10
Matches are distributed among these distances:
40 16 0.07
41 19 0.08
42 90 0.40
43 89 0.40
44 9 0.04
45 1 0.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.30
Consensus pattern (43 bp):
TGAGGCTTTGAAACTTTTGAAAAATAAAATGCTCATCCACAAC
Found at i:18963881 original size:84 final size:84
Alignment explanation
Indices: 18963666--18963984 Score: 240
Period size: 85 Copynumber: 3.8 Consensus size: 84
18963656 ATTGAGGCTT
* * * * *
18963666 TGAAACTTTTGAAAAATAAAATGCT-CATCCACAATTGAGGTTTAAAATTTTTGAAAAATAAAAT
1 TGAAACTTTTG-AAAATAAAATGCTCCCT-CACAACTAAAGTTTGAAA-TTTTGAAAAATAAAAT
* ** * * **
18963730 ACT--CATTAACAACTTAGGCTT
63 GCTCCCCCT-ATAACTGAGGCCC
* * * * *
18963751 TAAAACTTTAGAAAAATAAAATGCTCCCCCACAAC-AAATGCCTTGAAATTTTTAAAAATAAAAT
1 TGAAACTTTTG-AAAATAAAATGCTCCCTCACAACTAAA-G-TTTGAAATTTTGAAAAATAAAAT
** *
18963815 GCTTTCTC-ATAACTGAGGCCC
63 GCTCCCCCTATAACTGAGGCCC
* *
18963836 TGAAACTTTTGAAAATAAATTGCTCCCTTACAACTAAAGGTTTGAAA-TTTGAAAAA-AAAATGC
1 TGAAACTTTTGAAAATAAAATGCTCCCTCACAACTAAA-GTTTGAAATTTTGAAAAATAAAATGC
**
18963899 TCCCCCTATAACTGAGGCTT
65 TCCCCCTATAACTGAGGCCC
* *
18963919 TGAAACTTTTGGAAAATAAAATGCTCCATCACTACTGAGAA-TTTGAAACTTTTGAAAAATAAAA
1 TGAAACTTTT-GAAAATAAAATGCTCCCTCACAACT-A-AAGTTTGAAA-TTTTGAAAAATAAAA
18963983 TG
62 TG
18963985 AGATATTTGA
Statistics
Matches: 187, Mismatches: 34, Indels: 24
0.76 0.14 0.10
Matches are distributed among these distances:
82 10 0.05
83 29 0.16
84 55 0.29
85 69 0.37
86 17 0.09
87 7 0.04
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (84 bp):
TGAAACTTTTGAAAATAAAATGCTCCCTCACAACTAAAGTTTGAAATTTTGAAAAATAAAATGCT
CCCCCTATAACTGAGGCCC
Found at i:18964210 original size:13 final size:13
Alignment explanation
Indices: 18964194--18964228 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
18964184 CAAATGTATG
18964194 CAATGAATGCAAA
1 CAATGAATGCAAA
* *
18964207 CAATGAATGTAAG
1 CAATGAATGCAAA
18964220 CAATGAATG
1 CAATGAATG
18964229 AAAAGATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.49, C:0.11, G:0.20, T:0.20
Consensus pattern (13 bp):
CAATGAATGCAAA
Found at i:18964937 original size:52 final size:51
Alignment explanation
Indices: 18964866--18964964 Score: 135
Period size: 52 Copynumber: 1.9 Consensus size: 51
18964856 TATATTGGGT
*
18964866 AAACAAAAAACAATAATCAATCAATAACTAAATGGGTATCAAATATCTAAG
1 AAACAAAAAACAATAATCAATCAATAACTAAATAGGTATCAAATATCTAAG
* * * * *
18964917 AAACAAAAGGACAATGATCAATCAATAATTGAATAGGTTTCAAATATC
1 AAACAAAA-AACAATAATCAATCAATAACTAAATAGGTATCAAATATC
18964965 CAAATAATGA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
51 8 0.20
52 33 0.80
ACGTcount: A:0.54, C:0.13, G:0.10, T:0.23
Consensus pattern (51 bp):
AAACAAAAAACAATAATCAATCAATAACTAAATAGGTATCAAATATCTAAG
Found at i:18965219 original size:12 final size:12
Alignment explanation
Indices: 18965202--18965226 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18965192 TTAACTCTTG
18965202 CTTTTTTTTTTT
1 CTTTTTTTTTTT
18965214 CTTTTTTTTTTT
1 CTTTTTTTTTTT
18965226 C
1 C
18965227 ATCTTTTCAT
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:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (12 bp):
CTTTTTTTTTTT
Found at i:18969847 original size:10 final size:10
Alignment explanation
Indices: 18969832--18969881 Score: 55
Period size: 10 Copynumber: 4.7 Consensus size: 10
18969822 GGCAGGGGTC
18969832 TGCAATATCA
1 TGCAATATCA
18969842 TGCAATATCA
1 TGCAATATCA
*
18969852 TGTAATAATATCA
1 TG---CAATATCA
18969865 TGCAATATCA
1 TGCAATATCA
*
18969875 TGTAATA
1 TGCAATA
18969882 AATCATGCCA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
10 25 0.74
13 9 0.26
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.34
Consensus pattern (10 bp):
TGCAATATCA
Found at i:18969862 original size:23 final size:23
Alignment explanation
Indices: 18969835--18969889 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
18969825 AGGGGTCTGC
18969835 AATATCATGCAATATCATGTAAT
1 AATATCATGCAATATCATGTAAT
18969858 AATATCATGCAATATCATGTAAT
1 AATATCATGCAATATCATGTAAT
18969881 AA-ATCATGC
1 AATATCATGC
18969890 CATTAATATT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 7 0.22
23 25 0.78
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.33
Consensus pattern (23 bp):
AATATCATGCAATATCATGTAAT
Found at i:18969863 original size:13 final size:13
Alignment explanation
Indices: 18969845--18969888 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
18969835 AATATCATGC
18969845 AATATCATGTAAT
1 AATATCATGTAAT
*
18969858 AATATCATG---C
1 AATATCATGTAAT
18969868 AATATCATGTAAT
1 AATATCATGTAAT
18969881 AA-ATCATG
1 AATATCATG
18969889 CCATTAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
10 9 0.35
12 6 0.23
13 11 0.42
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.34
Consensus pattern (13 bp):
AATATCATGTAAT
Found at i:18969979 original size:24 final size:24
Alignment explanation
Indices: 18969947--18970247 Score: 252
Period size: 24 Copynumber: 12.9 Consensus size: 24
18969937 ATAATTATAC
* * * *
18969947 CATGTAATAAAGATAAAATAATCT
1 CATGCAATAAACATAAAATCATAT
* * *
18969971 CATGCAATAATCATAAAATTATAG
1 CATGCAATAAACATAAAATCATAT
18969995 CATGCAAT--A-ATAAAATCATAT
1 CATGCAATAAACATAAAATCATAT
* *
18970016 CATGCAATATACATAAATTCATAT
1 CATGCAATAAACATAAAATCATAT
* * *
18970040 CATGTAATAATCATAATATCATAT
1 CATGCAATAAACATAAAATCATAT
*
18970064 TATGCAAT--A-ATAAAATCATAT
1 CATGCAATAAACATAAAATCATAT
18970085 CATGCAATAAACATAAAATCATAT
1 CATGCAATAAACATAAAATCATAT
18970109 CATGCAATAAACAT--AA--A-AT
1 CATGCAATAAACATAAAATCATAT
* *
18970128 CATGCAATAATAAATAATGAATGACTAT
1 CATGCAATAA-ACATAA--AATCA-TAT
*** *
18970156 GCAAATAATAAACATAAATTCATAT
1 -CATGCAATAAACATAAAATCATAT
* * *
18970181 CATGTAATAATCATAATATCATAT
1 CATGCAATAAACATAAAATCATAT
*
18970205 TATGCAAT--A-ATAAAATCATAT
1 CATGCAATAAACATAAAATCATAT
18970226 CATGCAATAAACATAAAATCAT
1 CATGCAATAAACATAAAATCAT
18970248 GCAATAATAA
Statistics
Matches: 221, Mismatches: 37, Indels: 38
0.75 0.12 0.13
Matches are distributed among these distances:
19 12 0.05
20 4 0.02
21 54 0.24
22 2 0.01
23 3 0.01
24 125 0.57
25 3 0.01
26 4 0.02
28 7 0.03
29 7 0.03
ACGTcount: A:0.51, C:0.13, G:0.06, T:0.30
Consensus pattern (24 bp):
CATGCAATAAACATAAAATCATAT
Found at i:18970019 original size:45 final size:44
Alignment explanation
Indices: 18969959--18970127 Score: 164
Period size: 45 Copynumber: 3.7 Consensus size: 44
18969949 TGTAATAAAG
* * *
18969959 ATAAAATAATCTCATGCAATAATCATAAAATTATAGCATGCAATA
1 ATAAAATCATATCATGCAAT-ATCATAAAATTATATCATGCAATA
*
18970004 ATAAAATCATATCATGCAATATACAT-AAATTCATATCATGTAATA
1 ATAAAATCATATCATGCAATAT-CATAAAATT-ATATCATGCAATA
* *
18970049 ATCATAATATCATATTATGCAATA--ATAAAATCATATCATGCAATAAA
1 AT-A-AA-ATCATATCATGCAATATCATAAAATTATATCATGCAAT--A
*
18970096 CATAAAATCATATCATGCAATAAACATAAAAT
1 -ATAAAATCATATCATGCAAT-ATCATAAAAT
18970128 CATGCAATAA
Statistics
Matches: 104, Mismatches: 8, Indels: 21
0.78 0.06 0.16
Matches are distributed among these distances:
44 7 0.07
45 61 0.59
46 8 0.08
47 4 0.04
48 24 0.23
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.30
Consensus pattern (44 bp):
ATAAAATCATATCATGCAATATCATAAAATTATATCATGCAATA
Found at i:18970043 original size:69 final size:69
Alignment explanation
Indices: 18969947--18970247 Score: 338
Period size: 69 Copynumber: 4.3 Consensus size: 69
18969937 ATAATTATAC
* * * * *
18969947 CATGTAATAAAGATAAAATAATCTCATGCAATAATCATAAAATTATAGCATGCAATAATAAAATC
1 CATGCAATAAACATAAAATCATATCATGCAATAATCATAAAATCATAGCATGCAATAATAAAATC
18970012 ATAT
66 ATAT
* * * * **
18970016 CATGCAATATACATAAATTCATATCATGTAATAATCATAATATCATATTATGCAATAATAAAATC
1 CATGCAATAAACATAAAATCATATCATGCAATAATCATAAAATCATAGCATGCAATAATAAAATC
18970081 ATAT
66 ATAT
*
18970085 CATGCAATAAACATAAAATCATATCATGCAATAAACATAAAATCAT-GCAAT--AATAAATAATG
1 CATGCAATAAACATAAAATCATATCATGCAATAATCATAAAATCATAGC-ATGCAAT-AATAA--
*
18970147 AATGACTAT
62 AATCA-TAT
*** * * * **
18970156 GCAAATAATAAACATAAATTCATATCATGTAATAATCATAATATCATATTATGCAATAATAAAAT
1 -CATGCAATAAACATAAAATCATATCATGCAATAATCATAAAATCATAGCATGCAATAATAAAAT
18970221 CATAT
65 CATAT
18970226 CATGCAATAAACATAAAATCAT
1 CATGCAATAAACATAAAATCAT
18970248 GCAATAATAA
Statistics
Matches: 190, Mismatches: 33, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
67 3 0.02
68 5 0.03
69 119 0.63
70 7 0.04
71 7 0.04
72 41 0.22
73 5 0.03
74 3 0.02
ACGTcount: A:0.51, C:0.13, G:0.06, T:0.30
Consensus pattern (69 bp):
CATGCAATAAACATAAAATCATATCATGCAATAATCATAAAATCATAGCATGCAATAATAAAATC
ATAT
Found at i:18970216 original size:18 final size:19
Alignment explanation
Indices: 18970193--18970257 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
18970183 TGTAATAATC
*
18970193 ATAAT-ATCATATTATGCA
1 ATAATAATCATATCATGCA
18970211 ATAATAAAATCATATCATGCA
1 ATAAT--AATCATATCATGCA
* *
18970232 ATAA-ACATAAAATCATGCA
1 ATAATA-ATCATATCATGCA
18970251 ATAATAA
1 ATAATAA
18970258 ATAATGAATG
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
18 6 0.15
19 16 0.41
20 1 0.03
21 16 0.41
ACGTcount: A:0.54, C:0.12, G:0.05, T:0.29
Consensus pattern (19 bp):
ATAATAATCATATCATGCA
Found at i:18970218 original size:117 final size:116
Alignment explanation
Indices: 18969959--18970280 Score: 372
Period size: 117 Copynumber: 2.8 Consensus size: 116
18969949 TGTAATAAAG
* * * * * * *
18969959 ATAAAATAATCTCATGCAATAATCATAAAATTATAGCATGCAATAATAAAATCATATCATGCAAT
1 ATAAAATCATATCATGCAATAA-CATAAAATCATATCATGCAAT-A-AACATAAAATCATGCAAT
* * * ** * *
18970024 -ATACATAA--ATTCA-TAT-CATGTAATAATCATAATATCATATTATGCAATA
63 AATAAATAATGAATGACTATGCAAATAATAAACATAATATCATATCATGCAATA
18970073 ATAAAATCATATCATGCAATAAACATAAAATCATATCATGCAATAAACATAAAATCATGCAATAA
1 ATAAAATCATATCATGCAAT-AACATAAAATCATATCATGCAATAAACATAAAATCATGCAATAA
*
18970138 TAAATAATGAATGACTATGCAAATAATAAACATAA-ATTCATATCATGTAATA
65 TAAATAATGAATGACTATGCAAATAATAAACATAATA-TCATATCATGCAATA
*
18970190 ATCATAATATCATATTATGCAAT-A-ATAAAATCATATCATGCAATAAACATAAAATCATGCAAT
1 AT-A-AA-ATCATATCATGCAATAACATAAAATCATATCATGCAATAAACATAAAATCATGCAAT
18970253 AATAAATAATGAATGACTATGCAAATAA
63 AATAAATAATGAATGACTATGCAAATAA
18970281 ATATATTAAT
Statistics
Matches: 182, Mismatches: 16, Indels: 17
0.85 0.07 0.08
Matches are distributed among these distances:
112 15 0.08
113 8 0.04
114 37 0.20
115 5 0.03
116 4 0.02
117 95 0.52
118 2 0.01
119 2 0.01
120 14 0.08
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.30
Consensus pattern (116 bp):
ATAAAATCATATCATGCAATAACATAAAATCATATCATGCAATAAACATAAAATCATGCAATAAT
AAATAATGAATGACTATGCAAATAATAAACATAATATCATATCATGCAATA
Found at i:18970222 original size:21 final size:21
Alignment explanation
Indices: 18970169--18970258 Score: 85
Period size: 21 Copynumber: 4.2 Consensus size: 21
18970159 AATAATAAAC
* *
18970169 ATAAATTCATATCATGTAATA
1 ATAAAATCATATCATGCAATA
*
18970190 ATCATAATATCATATTATGCAATA
1 AT-A-AA-ATCATATCATGCAATA
18970214 ATAAAATCATATCATGCAAT-
1 ATAAAATCATATCATGCAATA
* * *
18970234 A-AACATAAAATCATGCAATA
1 ATAAAATCATATCATGCAATA
18970254 ATAAA
1 ATAAA
18970259 TAATGAATGA
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
19 15 0.27
20 2 0.04
21 18 0.32
22 3 0.05
23 3 0.05
24 15 0.27
ACGTcount: A:0.52, C:0.12, G:0.04, T:0.31
Consensus pattern (21 bp):
ATAAAATCATATCATGCAATA
Found at i:18970371 original size:32 final size:32
Alignment explanation
Indices: 18970273--18970372 Score: 87
Period size: 32 Copynumber: 3.0 Consensus size: 32
18970263 GAATGACTAT
18970273 GCAAATAAATATATTAATAATCATAC-AATCACA
1 GCAAATAAATATATTAATAATCATACAAAT-A-A
* * * *
18970306 -CAAAAAAATAAATTAATAAACATGCAAATAAATAA
1 GCAAATAAATATATTAAT--A-AT-CATACAAATAA
*
18970341 GCAAATAAATATATTAATAATCATTCAAATAA
1 GCAAATAAATATATTAATAATCATACAAATAA
18970373 TAATTAATCA
Statistics
Matches: 52, Mismatches: 9, Indels: 13
0.70 0.12 0.18
Matches are distributed among these distances:
32 23 0.44
33 2 0.04
34 2 0.04
35 3 0.06
36 19 0.37
37 3 0.06
ACGTcount: A:0.60, C:0.11, G:0.03, T:0.26
Consensus pattern (32 bp):
GCAAATAAATATATTAATAATCATACAAATAA
Found at i:18970437 original size:20 final size:21
Alignment explanation
Indices: 18970414--18970460 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
18970404 AATCATGCAA
18970414 ATAAACATGC-AATTA-AATAT
1 ATAAA-ATGCAAATTATAATAT
18970434 ATAATAATGCAAATTATAATAT
1 ATAA-AATGCAAATTATAATAT
18970456 ATAAA
1 ATAAA
18970461 TCATACAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 8 0.33
21 7 0.29
22 9 0.38
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.32
Consensus pattern (21 bp):
ATAAAATGCAAATTATAATAT
Found at i:18970463 original size:81 final size:81
Alignment explanation
Indices: 18970321--18970470 Score: 182
Period size: 81 Copynumber: 1.9 Consensus size: 81
18970311 AAATAAATTA
* * *
18970321 ATAAACATGCAAATAAATAAGCAAATAAATATATTAATAATCATTCAAATAATAATTAATCATGC
1 ATAAACATGCAAATAAACAAGCAAATAAATATATTAATAATCATTCAAATAATAATAAATCATAC
18970386 AAATTCAATTAAATCT
66 AAATTCAATTAAATCT
* * *
18970402 ATAATCATGCAAATAAACATGCAATTAAATATA-TAATAATGCA---AATTATAATATATAAATC
1 ATAAACATGCAAATAAACAAGCAAATAAATATATTAATAAT-CATTCAA--ATAATA-ATAAATC
18970463 ATACAAAT
62 ATACAAAT
18970471 AATCATGCAA
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
78 2 0.03
80 13 0.22
81 44 0.75
ACGTcount: A:0.55, C:0.11, G:0.04, T:0.31
Consensus pattern (81 bp):
ATAAACATGCAAATAAACAAGCAAATAAATATATTAATAATCATTCAAATAATAATAAATCATAC
AAATTCAATTAAATCT
Found at i:18970472 original size:32 final size:30
Alignment explanation
Indices: 18970436--18970497 Score: 72
Period size: 32 Copynumber: 1.9 Consensus size: 30
18970426 TTAAATATAT
18970436 AATAATGCA-AATTATAATATATAAATCATACA
1 AATAAT-CACAATTA-AATATAT-AATCATACA
18970468 AATAATCATGCAATTAAATATATAATCATA
1 AATAATCA--CAATTAAATATATAATCATA
18970498 TAATAAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
31 2 0.07
32 13 0.48
33 7 0.26
34 5 0.19
ACGTcount: A:0.55, C:0.10, G:0.03, T:0.32
Consensus pattern (30 bp):
AATAATCACAATTAAATATATAATCATACA
Found at i:18970473 original size:35 final size:32
Alignment explanation
Indices: 18970434--18970497 Score: 92
Period size: 35 Copynumber: 1.9 Consensus size: 32
18970424 AATTAAATAT
18970434 ATAATAATGCAAATTATAATATATAAATCATACAA
1 ATAATAATGC-AATTA-AATATAT-AATCATACAA
*
18970469 ATAATCATGCAATTAAATATATAATCATA
1 ATAATAATGCAATTAAATATATAATCATA
18970498 TAATAAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 7 0.25
33 7 0.25
34 5 0.18
35 9 0.32
ACGTcount: A:0.55, C:0.09, G:0.03, T:0.33
Consensus pattern (32 bp):
ATAATAATGCAATTAAATATATAATCATACAA
Found at i:18970492 original size:20 final size:20
Alignment explanation
Indices: 18970414--18970496 Score: 72
Period size: 20 Copynumber: 4.4 Consensus size: 20
18970404 AATCATGCAA
*
18970414 ATAAACATGCAATTAAATAT
1 ATAATCATGCAATTAAATAT
*
18970434 ATAATAATGCAAATTATAATAT
1 ATAATCATGC-AATTA-AATAT
*
18970456 ATAA--AT-C-A-TACA-A-
1 ATAATCATGCAATTAAATAT
18970469 ATAATCATGCAATTAAATAT
1 ATAATCATGCAATTAAATAT
18970489 ATAATCAT
1 ATAATCAT
18970497 ATAATAAATA
Statistics
Matches: 50, Mismatches: 4, Indels: 18
0.69 0.06 0.25
Matches are distributed among these distances:
13 4 0.08
14 1 0.02
15 3 0.06
16 3 0.06
17 2 0.04
18 3 0.06
19 2 0.04
20 18 0.36
21 5 0.10
22 9 0.18
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (20 bp):
ATAATCATGCAATTAAATAT
Found at i:18970506 original size:35 final size:36
Alignment explanation
Indices: 18970429--18970509 Score: 89
Period size: 35 Copynumber: 2.3 Consensus size: 36
18970419 CATGCAATTA
* *
18970429 AATATATAATAATGCAAATTATAATATATAAATCAT
1 AATAAATAATCATGCAAATTATAATATATAAATCAT
*
18970465 -ACAAATAATCATGC-AATTA-AATATAT-AATCATAT
1 AATAAATAATCATGCAAATTATAATATATAAATC--AT
18970499 AATAAATAATC
1 AATAAATAATC
18970510 TTACCAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
32 4 0.11
33 7 0.18
34 7 0.18
35 20 0.53
ACGTcount: A:0.56, C:0.09, G:0.02, T:0.33
Consensus pattern (36 bp):
AATAAATAATCATGCAAATTATAATATATAAATCAT
Found at i:18970572 original size:6 final size:6
Alignment explanation
Indices: 18970549--18970622 Score: 55
Period size: 6 Copynumber: 12.3 Consensus size: 6
18970539 TCTTAAAGTT
* * * **
18970549 AAAATA ATAACA ATAATA AAAATA AAAATA AAAATA AAAGCA AGAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA A-AAATA
18970598 AAACAT- -AAAT- AAAATA GAAAATA AA
1 AAA-ATA AAAATA AAAATA -AAAATA AA
18970623 CTGTAAAACG
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
4 2 0.04
5 6 0.11
6 35 0.64
7 12 0.22
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:18981407 original size:21 final size:19
Alignment explanation
Indices: 18981383--18981423 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
18981373 CTTGGATATC
*
18981383 CATTTCCAAGAAGCTCGATTT
1 CATTTCC-AGAAG-TAGATTT
18981404 CATTTCCAGAAGTAGATTT
1 CATTTCCAGAAGTAGATTT
18981423 C
1 C
18981424 TTACCTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 5 0.26
21 7 0.37
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (19 bp):
CATTTCCAGAAGTAGATTT
Found at i:18981863 original size:24 final size:24
Alignment explanation
Indices: 18981836--18981957 Score: 73
Period size: 24 Copynumber: 4.6 Consensus size: 24
18981826 TTGTCACATT
18981836 TGTATTATTTATTTTAAGATTAAA
1 TGTATTATTTATTTTAAGATTAAA
** *
18981860 TGTATTTATTTTATTTTATTATCTCCAA
1 TGTA-TTA-TTTATTTTAAGAT-T-AAA
** * *
18981888 TAAAATTATTTTATTTAAATTAAAATTTAA
1 T-GTATTA-TTTA-TT---TTAAGATTAAA
18981918 TGTATTATTTATTTTAAGATTAAA
1 TGTATTATTTATTTTAAGATTAAA
*
18981942 TGTATTTATGTATTTT
1 TGTA-TTATTTATTTT
18981958 CAAAGATGGA
Statistics
Matches: 75, Mismatches: 13, Indels: 19
0.70 0.12 0.18
Matches are distributed among these distances:
24 17 0.23
25 13 0.17
26 11 0.15
27 3 0.04
28 15 0.20
29 7 0.09
30 3 0.04
31 1 0.01
32 5 0.07
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (24 bp):
TGTATTATTTATTTTAAGATTAAA
Found at i:18986519 original size:18 final size:18
Alignment explanation
Indices: 18986480--18986521 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
18986470 ATATTTGAAG
18986480 ATATTTTTGAAAATAAAT
1 ATATTTTTGAAAATAAAT
*
18986498 -TATTTTTTATAAA-AAAT
1 ATATTTTTGA-AAATAAAT
18986515 ATATTTT
1 ATATTTT
18986522 GGATCTTCGA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
ATATTTTTGAAAATAAAT
Found at i:18989723 original size:17 final size:17
Alignment explanation
Indices: 18989701--18989740 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
18989691 TTCAAGTTTA
*
18989701 GCAAAGGTTCTAGGTTC
1 GCAAAGATTCTAGGTTC
18989718 GCAAAGATTCTAGGTTC
1 GCAAAGATTCTAGGTTC
18989735 G-AAAGA
1 GCAAAGA
18989741 AAAGAAAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.25
Consensus pattern (17 bp):
GCAAAGATTCTAGGTTC
Found at i:18989741 original size:69 final size:69
Alignment explanation
Indices: 18989636--18989783 Score: 167
Period size: 69 Copynumber: 2.1 Consensus size: 69
18989626 AATTTTACAG
* * *****
18989636 AGGTTCTAGATTCGTAAAGATCTCAAGTTCATAAGAACTTTTAGATTCATAAGATTTCAAGTTT-
1 AGGTTCTAGGTTCGCAAAGATCTCAAGTTCATAAGAAAAGAAAGATTCATAAGATTTCAAGTTTC
18989700 AGCAA
66 A-CAA
*
18989705 AGGTTCTAGGTTCGCAAAGAT-TCTAGGTTCGA-AAGAAAAGAAAGATTCATAAGATTTCAAGTT
1 AGGTTCTAGGTTCGCAAAGATCTC-AAGTTC-ATAAGAAAAGAAAGATTCATAAGATTTCAAGTT
*
18989768 TCATAA
64 TCACAA
18989774 AGGTTCTAGG
1 AGGTTCTAGG
18989784 CTTATAAAGA
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
68 2 0.03
69 63 0.94
70 2 0.03
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (69 bp):
AGGTTCTAGGTTCGCAAAGATCTCAAGTTCATAAGAAAAGAAAGATTCATAAGATTTCAAGTTTC
ACAA
Found at i:18989841 original size:86 final size:85
Alignment explanation
Indices: 18989737--18990036 Score: 325
Period size: 86 Copynumber: 3.5 Consensus size: 85
18989727 CTAGGTTCGA
* * * * *
18989737 AAGAAAAGAAAGATTCATAAGATTTCAAGTTTCATAAAGGTTCTAGGCTT-ATAAAGATTTTAGA
1 AAGAAAA-AAAGATTCACAAGATTTCAAGTTTCACAAAGGTTCCA-GATTAAAAAAGATTTTAGA
*
18989801 TTTACCAAGACTTTCAGATTTGT
64 TTT-CCAAGACTTTCAAATTTGT
* * *
18989824 AAGAAAAAAAGAGTCATAAGATTTCAAGTTTCACAAAGGTTCCAGATTAAAAAAGATTTCAGATT
1 AAGAAAAAAAGATTCACAAGATTTCAAGTTTCACAAAGGTTCCAGATTAAAAAAGATTTTAGATT
* * * **
18989889 TGCGAGGACTTTCATATTCAT
66 T-CCAAGACTTTCAAATTTGT
* * * * *
18989910 AAGAAAGAAAGATTTACAAGATTCCAAGTTTCGCAAAGGTTCCAGATTCACAAAA-ATTTTAGAT
1 AAGAAAAAAAGATTCACAAGATTTCAAGTTTCACAAAGGTTCCAGATT-AAAAAAGATTTTAGAT
* *
18989974 TTGCAAGGACTTTCAAATTTGA
65 TTCCAA-GACTTTCAAATTTGT
**
18989996 AAGAAAAAAAGATTCACAAGATTTCAAGTTTCGTAAAGGTT
1 AAGAAAAAAAGATTCACAAGATTTCAAGTTTCACAAAGGTT
18990037 TCCAAAAATG
Statistics
Matches: 179, Mismatches: 31, Indels: 7
0.82 0.14 0.03
Matches are distributed among these distances:
85 4 0.02
86 163 0.91
87 12 0.07
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.30
Consensus pattern (85 bp):
AAGAAAAAAAGATTCACAAGATTTCAAGTTTCACAAAGGTTCCAGATTAAAAAAGATTTTAGATT
TCCAAGACTTTCAAATTTGT
Found at i:18991336 original size:6 final size:6
Alignment explanation
Indices: 18991301--18991335 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
18991291 TCAAAATTTC
*
18991301 CTTTTC CTTTTT CTTTTT CTTTTT CTTTTT -TTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
18991336 TGTGGATGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
CTTTTT
Found at i:18995215 original size:25 final size:27
Alignment explanation
Indices: 18995159--18995223 Score: 116
Period size: 25 Copynumber: 2.5 Consensus size: 27
18995149 TTATTTTAAA
18995159 GACTTATTTGAAAAGATTTTTCTTTTT
1 GACTTATTTGAAAAGATTTTTCTTTTT
18995186 GACTTATTTGAAAAGA-TTTT-TTTTT
1 GACTTATTTGAAAAGATTTTTCTTTTT
18995211 GACTTATTTGAAA
1 GACTTATTTGAAA
18995224 GTGTTTTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
25 18 0.47
26 4 0.11
27 16 0.42
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.52
Consensus pattern (27 bp):
GACTTATTTGAAAAGATTTTTCTTTTT
Found at i:18995230 original size:25 final size:25
Alignment explanation
Indices: 18995159--18995234 Score: 109
Period size: 25 Copynumber: 3.0 Consensus size: 25
18995149 TTATTTTAAA
18995159 GACTTATTTGAAAAGATTTTTCTTTTT
1 GACTTATTTGAAAAG-TTTTT-TTTTT
*
18995186 GACTTATTTGAAAAGATTTTTTTTT
1 GACTTATTTGAAAAGTTTTTTTTTT
*
18995211 GACTTATTTG-AAAGTGTTTTTTTT
1 GACTTATTTGAAAAGTTTTTTTTTT
18995235 ATATAATTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
24 12 0.26
25 15 0.33
26 4 0.09
27 15 0.33
ACGTcount: A:0.25, C:0.05, G:0.13, T:0.57
Consensus pattern (25 bp):
GACTTATTTGAAAAGTTTTTTTTTT
Found at i:18995364 original size:19 final size:19
Alignment explanation
Indices: 18995329--18995370 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
18995319 AAATGAGCTA
*
18995329 AAAAATAAAATCAAAAAAT
1 AAAAATAAAATCAAAAAAG
**
18995348 AAAAATAAAATGGAAAAAG
1 AAAAATAAAATCAAAAAAG
18995367 AAAA
1 AAAA
18995371 CCTTGTGATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.79, C:0.02, G:0.07, T:0.12
Consensus pattern (19 bp):
AAAAATAAAATCAAAAAAG
Found at i:18995818 original size:21 final size:20
Alignment explanation
Indices: 18995794--18995842 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
18995784 AAAAAGTTCA
18995794 AGAATCCTAAAACTAAATCCT
1 AGAATCCTAAAACTAAAT-CT
* * **
18995815 AGAAACCCAAAACTTTATCT
1 AGAATCCTAAAACTAAATCT
18995835 AGAATCCT
1 AGAATCCT
18995843 TAATATTCCC
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.45, C:0.24, G:0.06, T:0.24
Consensus pattern (20 bp):
AGAATCCTAAAACTAAATCT
Found at i:18996229 original size:3 final size:3
Alignment explanation
Indices: 18996223--18996281 Score: 57
Period size: 3 Copynumber: 19.0 Consensus size: 3
18996213 GAAAAAAATG
* * *
18996223 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-C ATA ATA CTA TACA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
18996268 CACTA ATA ATA ATA
1 -A-TA ATA ATA ATA
18996282 CTGTAACATG
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
2 1 0.02
3 40 0.87
4 3 0.07
5 2 0.04
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:18997322 original size:21 final size:21
Alignment explanation
Indices: 18997298--18997340 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
18997288 CACATGACCA
18997298 AGGATCATCTAGGACATTCAT
1 AGGATCATCTAGGACATTCAT
*
18997319 AGGATCATTTAGGACATTCAT
1 AGGATCATCTAGGACATTCAT
18997340 A
1 A
18997341 AGTTTGTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (21 bp):
AGGATCATCTAGGACATTCAT
Found at i:18997627 original size:11 final size:11
Alignment explanation
Indices: 18997611--18997660 Score: 50
Period size: 10 Copynumber: 4.5 Consensus size: 11
18997601 GCTATCTTGA
18997611 TTTTTCTTTTC
1 TTTTTCTTTTC
18997622 TTTTTCTTTT-
1 TTTTTCTTTTC
*
18997632 TTTTTTTTTTC
1 TTTTTCTTTTC
*
18997643 AATTTTTC-ATTC
1 --TTTTTCTTTTC
18997655 TTTTTC
1 TTTTTC
18997661 CAAGCTTTAC
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
10 15 0.45
11 10 0.30
12 3 0.09
13 5 0.15
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTTCTTTTC
Found at i:18997942 original size:246 final size:248
Alignment explanation
Indices: 18997544--18998039 Score: 818
Period size: 246 Copynumber: 2.0 Consensus size: 248
18997534 CACCACTTTA
* *
18997544 TTGCTTTTGCTTTTGCTTTTCTTTTTCCTTTTCAAAATGTTTTTTTTTTTTTTGCAAGCTATCTT
1 TTGCTTTTGCTTTTGCTTTTCTTTTTCCTTTTCAAAA----TCTTTTTTTTTTGCAAGCTAGCTT
* *
18997609 GATTTTTCTTTTCTTTTTCTTTTTTTTTTTTTTCAATTTTTCATTCTTTTTCCAAGCTTTACCCT
62 GATTTTTCTTTTCTTTTTC---TTTTTTTTTTTCAATTTTTCATTATATTTCCAAGCTTTACCCT
* *
18997674 TCCTTCCTAATAATGCATAGCTCACAAATGTACATGAATGTCCTAATGTATATAGGGTAAGGGAC
124 TCCTTCCTAATAATGCATAGCTCACAAATGTACATGAATGTCCTAACGTATATAGGGCAAGGGAC
18997739 CAAAAAGATAGGAAATAAACAAAATAAGGCTATAGGGTTGTAATGTGGTTTCAAAACAAT
189 CAAAAAGATAGGAAATAAACAAAATAAGGCTATAGGGTTGTAATGTGGTTTCAAAACAAT
* *
18997799 TTGCTTTTGCTTTTGCTTTTTTTTTTCCTTTTCAAAA-CTTTTTTTTTTGCGAGCTAGCTTGATT
1 TTGCTTTTGCTTTTGCTTTTCTTTTTCCTTTTCAAAATCTTTTTTTTTTGCAAGCTAGCTTGATT
18997863 TTTCTTTTCTTTTTC-TTTTTTTTTTCAA-TTTTCTATTATATTTCCAAGCTTTACCCTTCCTTC
66 TTTCTTTTCTTTTTCTTTTTTTTTTTCAATTTTTC-ATTATATTTCCAAGCTTTACCCTTCCTTC
*
18997926 CTAATAATGTATAGCTCACAAATGTACATGAATGTCCTAACGTATATAGGGCAAGGGACCAAAAA
130 CTAATAATGCATAGCTCACAAATGTACATGAATGTCCTAACGTATATAGGGCAAGGGACCAAAAA
18997991 GATAGGAAATAAACAAAATAAGGCTATAGGGTTGTAATGTGGTTTCAAA
195 GATAGGAAATAAACAAAATAAGGCTATAGGGTTGTAATGTGGTTTCAAA
18998040 TCAAAGAAAA
Statistics
Matches: 231, Mismatches: 9, Indels: 11
0.92 0.04 0.04
Matches are distributed among these distances:
245 5 0.02
246 151 0.65
250 39 0.17
255 36 0.16
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.46
Consensus pattern (248 bp):
TTGCTTTTGCTTTTGCTTTTCTTTTTCCTTTTCAAAATCTTTTTTTTTTGCAAGCTAGCTTGATT
TTTCTTTTCTTTTTCTTTTTTTTTTTCAATTTTTCATTATATTTCCAAGCTTTACCCTTCCTTCC
TAATAATGCATAGCTCACAAATGTACATGAATGTCCTAACGTATATAGGGCAAGGGACCAAAAAG
ATAGGAAATAAACAAAATAAGGCTATAGGGTTGTAATGTGGTTTCAAAACAAT
Found at i:19008719 original size:22 final size:22
Alignment explanation
Indices: 19008694--19008741 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
19008684 AAAGTTGTGA
* *
19008694 AAAGCAAAGAAAGGAAAAAAAG
1 AAAGAAAAGAAAGCAAAAAAAG
*
19008716 AAAGAAAAGTAAGCAAAAAAAG
1 AAAGAAAAGAAAGCAAAAAAAG
19008738 AAAG
1 AAAG
19008742 TTTCGGGGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.73, C:0.04, G:0.21, T:0.02
Consensus pattern (22 bp):
AAAGAAAAGAAAGCAAAAAAAG
Found at i:19010585 original size:121 final size:121
Alignment explanation
Indices: 19010449--19010706 Score: 453
Period size: 121 Copynumber: 2.1 Consensus size: 121
19010439 ACCCCAAATC
* *
19010449 AAACCCTAAACCCTAACCAAGTCCTAAACTGTAAACCAAACCTGAAGCACCAAACCAAACCCTTA
1 AAACCCTAAACCCTAACCAAGTCCCAAACCGTAAACCAAACCTGAAGCACCAAACCAAACCCTTA
* * * * *
19010514 AACCTTAAACCAAACTCTTAAACCCTATACCAAACCTTTAGTGTATACCAAACCTT
66 AACCTTAAACCAAACTCTCAAACCCTAAACCAAACCTTTAATCTATACCAAACCCT
19010570 AAACCCTAAACCCTAACCAAGTCCCAAACCGTAAACCAAACCTGAAGCACCAAACCAAACCCTTA
1 AAACCCTAAACCCTAACCAAGTCCCAAACCGTAAACCAAACCTGAAGCACCAAACCAAACCCTTA
19010635 AACCTTAAACCAAACTCTCAAACCCTAAACCAAACCTTTAATCTATACCAAACCCT
66 AACCTTAAACCAAACTCTCAAACCCTAAACCAAACCTTTAATCTATACCAAACCCT
19010691 AAACCCTAAACCCTAA
1 AAACCCTAAACCCTAA
19010707 ACCCAAAGCC
Statistics
Matches: 130, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
121 130 1.00
ACGTcount: A:0.43, C:0.35, G:0.04, T:0.17
Consensus pattern (121 bp):
AAACCCTAAACCCTAACCAAGTCCCAAACCGTAAACCAAACCTGAAGCACCAAACCAAACCCTTA
AACCTTAAACCAAACTCTCAAACCCTAAACCAAACCTTTAATCTATACCAAACCCT
Found at i:19010696 original size:7 final size:7
Alignment explanation
Indices: 19010684--19010774 Score: 82
Period size: 7 Copynumber: 13.1 Consensus size: 7
19010674 AATCTATACC
19010684 AAACCCT
1 AAACCCT
19010691 AAACCCT
1 AAACCCT
19010698 AAACCCT
1 AAACCCT
19010705 AAACCC-
1 AAACCCT
19010711 AAAGCCCT
1 AAA-CCCT
*
19010719 AAACCTT
1 AAACCCT
*
19010726 TAACCCT
1 AAACCCT
* *
19010733 AAA-TCA
1 AAACCCT
19010739 AAACCCTT
1 AAACCC-T
19010747 AAACCC-
1 AAACCCT
*
19010753 AAAACC-
1 AAACCCT
19010759 AAACCACT
1 AAACC-CT
19010767 AAACCCT
1 AAACCCT
19010774 A
1 A
19010775 GCCTAAGTCT
Statistics
Matches: 68, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
6 16 0.24
7 38 0.56
8 14 0.21
ACGTcount: A:0.46, C:0.38, G:0.01, T:0.14
Consensus pattern (7 bp):
AAACCCT
Found at i:19010762 original size:20 final size:20
Alignment explanation
Indices: 19010425--19010774 Score: 158
Period size: 20 Copynumber: 18.1 Consensus size: 20
19010415 CCTAAATCCC
*
19010425 AAACCAAA-CCTTAAACCCC
1 AAACCAAACCCTTAAACCCT
*
19010444 AAATCAAACCC-TAAACCCT
1 AAACCAAACCCTTAAACCCT
** **
19010463 -AACCAAGTCC-TAAACTGT
1 AAACCAAACCCTTAAACCCT
* *
19010481 AAACCAAA-CCTGAAGCACC-
1 AAACCAAACCCTTAAAC-CCT
*
19010500 AAACCAAACCCTTAAACCTT
1 AAACCAAACCCTTAAACCCT
*
19010520 AAACCAAACTCTTAAACCCT
1 AAACCAAACCCTTAAACCCT
* *
19010540 ATACCAAACCTTTAGTGTATA-CC-
1 AAACCAAACCCTTA----A-ACCCT
19010563 AAACCTTAAACCC-TAAACCCT
1 AAACC--AAACCCTTAAACCCT
* *
19010584 -AACCAAGTCCC--AAACCGT
1 AAACCAA-ACCCTTAAACCCT
* *
19010602 AAACCAAA-CCTGAAGCACC-
1 AAACCAAACCCTTAAAC-CCT
*
19010621 AAACCAAACCCTTAAACCTT
1 AAACCAAACCCTTAAACCCT
* *
19010641 AAACCAAACTCTCAAACCCT
1 AAACCAAACCCTTAAACCCT
* *
19010661 AAACCAAA-CCTTTAA-TCT
1 AAACCAAACCCTTAAACCCT
*
19010679 ATACCAAACCC-TAAACCCT
1 AAACCAAACCCTTAAACCCT
19010698 -----AAACCC-TAAACCC-
1 AAACCAAACCCTTAAACCCT
*
19010711 AAAGCCCTAAA-CCTTTAACCCT
1 AAA--CC-AAACCCTTAAACCCT
* *
19010733 AAATCAAAACCCTTAAACCCA
1 AAA-CCAAACCCTTAAACCCT
19010754 AAACCAAACCAC-TAAACCCT
1 AAACCAAACC-CTTAAACCCT
19010774 A
1 A
19010775 GCCTAAGTCT
Statistics
Matches: 248, Mismatches: 47, Indels: 71
0.68 0.13 0.19
Matches are distributed among these distances:
14 13 0.05
17 2 0.01
18 35 0.14
19 62 0.25
20 95 0.38
21 23 0.09
22 3 0.01
23 4 0.02
24 5 0.02
25 6 0.02
ACGTcount: A:0.44, C:0.36, G:0.03, T:0.17
Consensus pattern (20 bp):
AAACCAAACCCTTAAACCCT
Found at i:19017164 original size:161 final size:160
Alignment explanation
Indices: 19016969--19017705 Score: 782
Period size: 160 Copynumber: 4.6 Consensus size: 160
19016959 GGTAAAATTG
* * *
19016969 TAAATATGTTGGTATATTTCTATTTCAATGACTTAGATAGCTCGAATATATGATATTAAATTTGT
1 TAAATATGTTAGTATATTTCTGTTTCAATGACTTAGATAGCTCGAATATATGATATTAAACTTGT
* * * * * *
19017034 TCAAATTGTTGAAGATGGTTGCCATGCTTGATACATGGGAATATGTGACAATTTATTTGTTTTTA
66 TCAAATTGTTGAAGTTGGCTGCCATGCTTGATACATGGGAAAATGTTACGATTTATGTGTTTTTA
*
19017099 GGACTTTTATTGTCGTAAAAGGGAAAAACTA
131 GGACTTTT-TTGTCGTAAAAAGGAAAAACTA
* * *
19017130 TAAATATGTTAGTATATTTCTATTTCATTGACTTAGATAGCTCAAATATATGATATTAAACTTGT
1 TAAATATGTTAGTATATTTCTGTTTCAATGACTTAGATAGCTCGAATATATGATATTAAACTTGT
* * * *
19017195 TCATATTGTTGAATTTGGCTGCCATGCTTGATACATAGGAAAATGTTACGGTTTATGTGTTTTTA
66 TCAAATTGTTGAAGTTGGCTGCCATGCTTGATACATGGGAAAATGTTACGATTTATGTGTTTTTA
* * *
19017260 GGA-TTTTTTATGCTATAAAAAGG-CAAACTA
131 GGACTTTTTTGT-C-GTAAAAAGGAAAAACTA
* ** * * * * * *
19017290 TAATTATACTAGTCTATTTTTGTTTTAATGGCTTAGATAGCTCGAATAGATGACATTAAACTTGT
1 TAAATATGTTAGTATATTTCTGTTTCAATGACTTAGATAGCTCGAATATATGATATTAAACTTGT
* * * ** * * *
19017355 TCAAATTGTTGAAGTTGGCTTCCATACTTGGTATGTGGGAAAATATTATGGTTTATGTGTTTTTA
66 TCAAATTGTTGAAGTTGGCTGCCATGCTTGATACATGGGAAAATGTTACGATTTATGTGTTTTTA
* * * * *
19017420 AGACTTTTGGTGTTGT-AAAAGGACCAAACTG
131 GGACTTTT-TTGTCGTAAAAAGGA-AAAACTA
* * * ** * * *
19017451 TAAATATGTTGGTAT-TTTACTGTTTTAATAACTTTTATAGTTCAAATATATGGTATTAAACTTG
1 TAAATATGTTAGTATATTT-CTGTTTCAATGACTTAGATAGCTCGAATATATGATATTAAACTTG
* * ** * *
19017515 TTCAAATTGTTGAAGTTGGCT-ACATGCCTGATATGTGGGGAAATGTTACGATTTATGTTTTTTT
65 TTCAAATTGTTGAAGTTGGCTGCCATGCTTGATACATGGGAAAATGTTACGATTTATGTGTTTTT
* *
19017579 AGGACTTTTTGTGTAGTAAAAAGGCAAAACTA
130 AGGACTTTTT-TGTCGTAAAAAGGAAAAACTA
* * * * * *
19017611 TAAATTTGCTAGTATATTTTTGTTTAAATAACTTAGATAGCTTGAATATATGATATTAAACTTGT
1 TAAATATGTTAGTATATTTCTGTTTCAATGACTTAGATAGCTCGAATATATGATATTAAACTTGT
* *
19017676 TCAAATTATTGAAGTTAGCTGCCATGCTTG
66 TCAAATTGTTGAAGTTGGCTGCCATGCTTG
19017706 CTAGTAAATT
Statistics
Matches: 474, Mismatches: 91, Indels: 22
0.81 0.16 0.04
Matches are distributed among these distances:
159 9 0.02
160 245 0.52
161 218 0.46
162 2 0.00
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (160 bp):
TAAATATGTTAGTATATTTCTGTTTCAATGACTTAGATAGCTCGAATATATGATATTAAACTTGT
TCAAATTGTTGAAGTTGGCTGCCATGCTTGATACATGGGAAAATGTTACGATTTATGTGTTTTTA
GGACTTTTTTGTCGTAAAAAGGAAAAACTA
Found at i:19017440 original size:321 final size:321
Alignment explanation
Indices: 19016980--19017705 Score: 870
Period size: 321 Copynumber: 2.3 Consensus size: 321
19016970 AAATATGTTG
* * * *
19016980 GTATATTTCTATTTCAATGACTTAGATAGCTCGAATATATGATATTAAATTTGTTCAAATTGTTG
1 GTATATTTTTGTTTAAATGACTTAGATAGCTCGAATATATGATATTAAACTTGTTCAAATTGTTG
* * * * * *
19017045 AAGATGG-TTGCCATGCTTGATACATGGGAATATGTGACAATTTATTTGTTTTTAGGACTTTTAT
66 AAGTTGGCTT-CCATGCTTGATACATGGGAAAATATGACAATTTATGTGTTTTTAAGACTTTTAG
* *
19017109 TGTCGTAAAAGGGA-AAAACTATAAATATGTTAGTATATTT-CTATTTCATTGACTTAGATAGCT
130 TGTCGTAAAA-GGACAAAACTATAAATATGTTAGTAT-TTTACTATTTCAATAACTTAGATAGCT
* * * *
19017172 CAAATATATGATATTAAACTTGTTCATATTGTTGAATTTGGCTGCCATGCTTGATACATAGGAAA
193 CAAATATATGATATTAAACTTGTTCAAATTGTTGAAGTTGGCT-ACATGCCTGATACATAGGAAA
* *
19017237 ATGTTACGGTTTATGTGTTTTTAGGATTTTTTATGCTA-TAAAAAGGC-AAACTAT-AATTATAC
257 ATGTTACGATTTATGTGTTTTTAGGACTTTTTATG-TAGTAAAAAGGCAAAACTATAAATT-TAC
19017299 TA
320 TA
* * * * *
19017301 GTCTATTTTTGTTTTAATGGCTTAGATAGCTCGAATAGATGACATTAAACTTGTTCAAATTGTTG
1 GTATATTTTTGTTTAAATGACTTAGATAGCTCGAATATATGATATTAAACTTGTTCAAATTGTTG
* * ** * *** *
19017366 AAGTTGGCTTCCATACTTGGTATGTGGGAAAATATTATGGTTTATGTGTTTTTAAGACTTTTGGT
66 AAGTTGGCTTCCATGCTTGATACATGGGAAAATATGACAATTTATGTGTTTTTAAGACTTTTAGT
* * * * * * ** *
19017431 GTTGTAAAAGGACCAAACTGTAAATATGTTGGTATTTTACTGTTTTAATAACTTTTATAGTTCAA
131 GTCGTAAAAGGACAAAACTATAAATATGTTAGTATTTTACTATTTCAATAACTTAGATAGCTCAA
* ** * *
19017496 ATATATGGTATTAAACTTGTTCAAATTGTTGAAGTTGGCTACATGCCTGATATGTGGGGAAATGT
196 ATATATGATATTAAACTTGTTCAAATTGTTGAAGTTGGCTACATGCCTGATACATAGGAAAATGT
* * *
19017561 TACGATTTATGTTTTTTTAGGACTTTTTGTGTAGTAAAAAGGCAAAACTATAAATTTGCTA
261 TACGATTTATGTGTTTTTAGGACTTTTTATGTAGTAAAAAGGCAAAACTATAAATTTACTA
* * *
19017622 GTATATTTTTGTTTAAATAACTTAGATAGCTTGAATATATGATATTAAACTTGTTCAAATTATTG
1 GTATATTTTTGTTTAAATGACTTAGATAGCTCGAATATATGATATTAAACTTGTTCAAATTGTTG
* *
19017687 AAGTTAGCTGCCATGCTTG
66 AAGTTGGCTTCCATGCTTG
19017706 CTAGTAAATT
Statistics
Matches: 340, Mismatches: 59, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
319 2 0.01
320 61 0.18
321 271 0.80
322 6 0.02
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (321 bp):
GTATATTTTTGTTTAAATGACTTAGATAGCTCGAATATATGATATTAAACTTGTTCAAATTGTTG
AAGTTGGCTTCCATGCTTGATACATGGGAAAATATGACAATTTATGTGTTTTTAAGACTTTTAGT
GTCGTAAAAGGACAAAACTATAAATATGTTAGTATTTTACTATTTCAATAACTTAGATAGCTCAA
ATATATGATATTAAACTTGTTCAAATTGTTGAAGTTGGCTACATGCCTGATACATAGGAAAATGT
TACGATTTATGTGTTTTTAGGACTTTTTATGTAGTAAAAAGGCAAAACTATAAATTTACTA
Found at i:19018496 original size:21 final size:21
Alignment explanation
Indices: 19018472--19018553 Score: 78
Period size: 21 Copynumber: 3.9 Consensus size: 21
19018462 AAGCAAAAAG
19018472 AGAAGCAGAGCATGCTAGAAT
1 AGAAGCAGAGCATGCTAGAAT
* *
19018493 AGAA-TAGGAACATGCTAGAAT
1 AGAAGCA-GAGCATGCTAGAAT
* *
19018514 ATAAGCAGAGCGTGCTAGAAT
1 AGAAGCAGAGCATGCTAGAAT
* *
19018535 -GCACCAAGAGCATGCTAGA
1 AGAAGC-AGAGCATGCTAGA
19018554 TACTAGCAAC
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
20 3 0.06
21 44 0.92
22 1 0.02
ACGTcount: A:0.41, C:0.16, G:0.27, T:0.16
Consensus pattern (21 bp):
AGAAGCAGAGCATGCTAGAAT
Found at i:19021755 original size:24 final size:22
Alignment explanation
Indices: 19021728--19021772 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 22
19021718 TACTTTAATT
19021728 TAATAAAAATATTATATTTATATA
1 TAATAAAAATA-TA-ATTTATATA
* *
19021752 TAATTAAGATATAATTTATAT
1 TAATAAAAATATAATTTATAT
19021773 TAAAAACTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 8 0.42
23 2 0.11
24 9 0.47
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (22 bp):
TAATAAAAATATAATTTATATA
Found at i:19021755 original size:29 final size:29
Alignment explanation
Indices: 19021698--19021756 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
19021688 AGGTATTATA
* *
19021698 TTAATAAAACTATTATTTAATACTTTAAT
1 TTAATAAAAATATTATTTAATACTATAAT
*
19021727 TTAATAAAAATATTATATTTATA-TATAAT
1 TTAATAAAAATATTAT-TTAATACTATAAT
19021756 T
1 T
19021757 AAGATATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.49
Consensus pattern (29 bp):
TTAATAAAAATATTATTTAATACTATAAT
Found at i:19032455 original size:21 final size:22
Alignment explanation
Indices: 19032431--19032484 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
19032421 AACATATCAT
* *
19032431 TTATAATT-TTTTATTACAATA
1 TTATAATTATTTAATTAAAATA
19032452 TTATAATTATTTAATTAAAATA
1 TTATAATTATTTAATTAAAATA
*
19032474 TAAATAATTAT
1 T-TATAATTAT
19032485 ATAGGGATCT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 8 0.29
22 12 0.43
23 8 0.29
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
TTATAATTATTTAATTAAAATA
Found at i:19033406 original size:4 final size:4
Alignment explanation
Indices: 19033397--19033424 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
19033387 AAAATATATG
19033397 CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA
19033425 TATATAGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:19034740 original size:12 final size:13
Alignment explanation
Indices: 19034723--19034752 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
19034713 AAAAATAGTT
19034723 ATAAATT-AAAAA
1 ATAAATTGAAAAA
19034735 ATAAATTGAAAAA
1 ATAAATTGAAAAA
19034748 ATAAA
1 ATAAA
19034753 CAAGTGGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (13 bp):
ATAAATTGAAAAA
Found at i:19036920 original size:211 final size:212
Alignment explanation
Indices: 19036681--19037068 Score: 472
Period size: 214 Copynumber: 1.8 Consensus size: 212
19036671 AAAAATTATA
* *
19036681 ATAATTCTAAACATATGAATAGTAAGAACAAAT-GTAAAAAGATATTATT-TAA-ATGTAATA-A
1 ATAATTCTAAACATATGAAAAGTAAGAAC-AATCGT-AAAAGATATTATTGTAACAT-AAATATA
* * **
19036742 A-TTGGTAACACAAAACAAATTAGTATTATAAATAAAA-AA-TTCAATTAAAAAATAAATATTAA
63 AGTTGATAACA-AAAA-AAATTAGTATTATAAATAAAATAATTTAAACCAAAAAATAAATATTAA
*
19036804 AGTAAAAAAGTGAGAATAATCGT-AAAA-TTAGTATCATTTGGTGTAAAATATATTAAAAGTGTC
126 AGTAAAAAAGTGAGAATAAT--TAAAAATTTAGAATCATTTGGTGTAAAATATATTAAAAGTGTC
19036867 AAAATACCTTAAGAAAAACTTGTG
189 AAAATACCTTAAGAAAAACTTGTG
*
19036891 ATAATTCTAAACATAAT-AAAAGTTAAGAACAATCGTAAAAGATTTTATTGTAACATAAATATAA
1 ATAATTCTAAACAT-ATGAAAAG-TAAGAACAATCGTAAAAGATATTATTGTAACATAAATATAA
* * ** * *
19036955 GTTGATAACATAAAAAATTATTATTATAAATAAAATAATTTTAAACCAAAAAATACGTGTTAACG
64 GTTGATAACAAAAAAAATTAGTATTATAAATAAAATAA-TTTAAACCAAAAAATAAATATTAAAG
* *
19037020 TAAAAAGGTGAGAATAATTAAAAATTTGGAATCATTTGGTGTAAAATAT
128 TAAAAAAGTGAGAATAATTAAAAATTTAGAATCATTTGGTGTAAAATAT
19037069 GTTACAATGT
Statistics
Matches: 150, Mismatches: 16, Indels: 20
0.81 0.09 0.11
Matches are distributed among these distances:
210 33 0.22
211 38 0.25
212 10 0.07
213 12 0.08
214 57 0.38
ACGTcount: A:0.52, C:0.06, G:0.11, T:0.31
Consensus pattern (212 bp):
ATAATTCTAAACATATGAAAAGTAAGAACAATCGTAAAAGATATTATTGTAACATAAATATAAGT
TGATAACAAAAAAAATTAGTATTATAAATAAAATAATTTAAACCAAAAAATAAATATTAAAGTAA
AAAAGTGAGAATAATTAAAAATTTAGAATCATTTGGTGTAAAATATATTAAAAGTGTCAAAATAC
CTTAAGAAAAACTTGTG
Found at i:19037056 original size:214 final size:212
Alignment explanation
Indices: 19036412--19037068 Score: 543
Period size: 211 Copynumber: 3.0 Consensus size: 212
19036402 ATTATTTAAC
* * * * * *
19036412 GTAAAATA-A-TAAGAAATATCATAACACCTTTAA-AAAAAAGTGATAATACTTCTAAACGTAAT
1 GTAAAATATATTAA-AAGTATCAAAACACC-TTAAGAAAAAAATTATAATAATTCTAAACAT-AT
* * * * * *
19036474 GAAAAGTAATAACATATGTAAAAAAAAAAATTTATTATAACATAAATAACTAAGTTGACAATATA
63 GAAAAGTAAGAACAAATGT---AAAAAGATTTTATT-TAACATAAAT-A-TAAGTTGATAACATA
* * * * * *
19036539 AAAGAACTATTTTTATAAACAAAAAATAATTTTAAATAAAAAGTTAAGAGTTAAAGTAAAATGGT
122 AAA-AATTATTATTAT-AA-ATAAAATAATTTTAAATAAAAA-ATAAGTGTTAAAGTAAAAAGGT
* **
19036604 GTA-AATAATTATAAAATTGGTATTATTTAAT
183 G-AGAATAATTA-AAAATTGGTATCATTTGGT
* * ** *
19036635 GTAAAATA-GTTAGAAGTATCATTACATCTTAAGAAAAAAAATTATAATAATTCTAAACATATGA
1 GTAAAATATATTAAAAGTATCAAAACACCTTAAG-AAAAAAATTATAATAATTCTAAACATATGA
* * * * *
19036699 ATAGTAAGAACAAATGTAAAAAGATATTATTTAA-ATGTAATA-AA-TTGGTAACACAAAACAAA
65 AAAGTAAGAACAAATGTAAAAAGATTTTATTTAACAT-AAATATAAGTTGATAACA-TAAA-AAA
* * * * * *
19036761 TTAGTATTATAAATAAAA-AA-TTCAATTAAAAAATAAATATTAAAGTAAAAAAGTGAGAATAAT
127 TTATTATTATAAATAAAATAATTTTAAATAAAAAATAAGTGTTAAAGTAAAAAGGTGAGAATAAT
*
19036824 CGT-AAAATTAGTATCATTTGGT
192 --TAAAAATTGGTATCATTTGGT
* * * * *
19036846 GTAAAATATATTAAAAGTGTCAAAATACCTTAAG-AAAAACTTGTGATAATTCTAAACATAAT-A
1 GTAAAATATATTAAAAGTATCAAAACACCTTAAGAAAAAAATTATAATAATTCTAAACAT-ATGA
19036909 AAAGTTAAGAAC-AATCGT-AAAAGATTTTATTGTAACATAAATATAAGTTGATAACATAAAAAA
65 AAAG-TAAGAACAAAT-GTAAAAAGATTTTATT-TAACATAAATATAAGTTGATAACATAAAAAA
* * *
19036972 TTATTATTATAAATAAAATAATTTTAAACCAAAAAATACGTGTTAACGTAAAAAGGTGAGAATAA
127 TTATTATTATAAATAAAATAATTTTAAA-TAAAAAATAAGTGTTAAAGTAAAAAGGTGAGAATAA
*
19037037 TTAAAAATTTGGAATCATTTGGT
191 TTAAAAA-TTGGTATCATTTGGT
19037060 GTAAAATAT
1 GTAAAATAT
19037069 GTTACAATGT
Statistics
Matches: 350, Mismatches: 62, Indels: 53
0.75 0.13 0.11
Matches are distributed among these distances:
210 42 0.12
211 84 0.24
212 38 0.11
213 19 0.05
214 58 0.17
215 8 0.02
216 14 0.04
217 1 0.00
218 3 0.01
219 6 0.02
220 11 0.03
222 4 0.01
223 38 0.11
224 24 0.07
ACGTcount: A:0.53, C:0.06, G:0.10, T:0.31
Consensus pattern (212 bp):
GTAAAATATATTAAAAGTATCAAAACACCTTAAGAAAAAAATTATAATAATTCTAAACATATGAA
AAGTAAGAACAAATGTAAAAAGATTTTATTTAACATAAATATAAGTTGATAACATAAAAAATTAT
TATTATAAATAAAATAATTTTAAATAAAAAATAAGTGTTAAAGTAAAAAGGTGAGAATAATTAAA
AATTGGTATCATTTGGT
Found at i:19037690 original size:926 final size:920
Alignment explanation
Indices: 19035813--19037975 Score: 2348
Period size: 926 Copynumber: 2.3 Consensus size: 920
19035803 CATAAATAAT
* * * * *
19035813 TAAATTGATAATGAAAAAAATTAGCATTATAAATAAAAAATCCTACACCAAAAAATAGGTATTAA
1 TAAATTGGTAATGAAAAAAATTAGTATTATAAATAAAAAATTCTA-ATCAAAAAATAAGTATTAA
* * * *
19035878 TGT-AAAAGGAT-AAAACTAATCGTAAAATTGGTATATTTTGACGTAAAATGTGTTAAAAATGTC
65 AGTAAAAAGG-TGAGAA-TAATCGTAAAATTGGTATA-TTTGACGTAAAATATGTTAAAAGTGTC
* * * * * *
19035941 ATAATACCTTAAGAAAAAGTTATAACAATTTTAAACATATTAAAAGATAAGAACAAGCATAAAAG
127 ATAATACCTTAAGAAAAA-TTGTGATAATTTTAAACATAATAAAAGTTAAGAACAA-CGTAAAAG
* * * * *
19036006 ATGTTATTAT-AATGTAATAATTAAGTTGATAACATAAAAAAATTATTATTATAAATAAAAAAAC
190 ATTTTATTGTAAAT-AAATAATTAAGTTGATAACAT-AAAAAATTATTATTATAAATAAAATAAT
**
19036070 TTTAAA-CAAAAAA-AGTGTTAACGTAAAAAAATGAAAGTAACTGT-AAAATTTAAATCATTGGC
253 TTTAAACCAAAAAATAGTGTTAACGTAAAAAGGTGAAA-TAA-T-TAAAAATTTAAATCATTGGC
* * * * * *
19036132 GTAAAATGTGCTAGAAGTGTCGTAATGTAAAAAGGTTAAGAATAATTGTAAAATTGATGTCACTT
315 GTAAAATATGCTACAAGTGTCATAATGTAAAAAGGATAAGAATAACTGTAAAATTGATATCACTT
* * *
19036197 GACATAAATTAGATTAAAATTATTGTAACACCCTAACAAAGAGTTTTGATAAATTTAAAAGTAAC
380 GACATAAATTAGATTAAAATTATCGTAACACCCTAACAAAAAGTTGTGATAAATTTAAAAGTAAC
* * * * * * * *
19036262 AAAAACTAAGAACATGTGTAAACAAATATTATTGTAACATAAATAATATTTTTGGCAACGTAAAA
445 AAAAAATAAAAACAAGTATAAAAAAATACTATTATAACATAAATAATATTTTTGGCAACATAAAA
* * ** * **
19036327 AAATTATTATTACAAGTAAGTAATAATTCTAAACTGAAAAATAAGTGTTAGTATAAGAGTAATTG
510 AAATTATTATTACAAATAAATAATAATTCTAAACCAAAAAATAAGTGTTAATATAAGAGTAATCA
* *
19036392 TAAAATTAGTATTATTTAACGTAAAATAATAAGAAATATCATAACACCTTTAAAAAAAAGTGATA
575 TAAAATTAGTATCATTTAACATAAAATAATAAGAAATATCATAACACCTTTAAAAAAAAGTGATA
* * * *
19036457 ATACTTCTAAACGTAATGAAAAGTAATAACATATGTAAAAAAAAAAATTTATTATAACATAAATA
640 ATACTCCTAAACATAATGAAAAGTAACAACATACGT-AAAAAAAAAATTTATTATAACATAAATA
* * * *
19036522 ACTAAGTTGACAATATAAAAGAACTATTTTTATAAACAAAAAATAATTTTAAATAAAAAGTTAAG
704 ACTAAATTGACAATATAAAAGAACTATTTTTACAAACAAAAAATAAGTTTAAACAAAAAGTTAAG
* * * * **
19036587 AGTTAAAGTAAAATGGTGTAAATAATTATAAAATTGGTATTATTTAATGTAAAATAGTTAGAAGT
769 AGTTAAAATAAAACGGTGAAAATAATCATAAAATTAATATTATTTAATGTAAAATAGTTAGAAGT
* *
19036652 ATCATTACATCTTAAGAAAAAAAATTATAATAATTCTAAACATATGAATAGTAAGAACAAATGTA
834 ATCATTACACCTTAAGAAAAAAAATTATAATAATTCTAAACATATGAAAAGTAAGAACAAATGTA
*
19036717 AAAAGATATTATTTAAATGTAA
899 AAAAGATATTATTGAAATGTAA
** * *
19036739 TAAATTGGTAACACAAAACAAATTAGTATTATAAATAAAAAATTC-AATTAAAAAATAAATATTA
1 TAAATTGGTAA-TGAAAA-AAATTAGTATTATAAATAAAAAATTCTAATCAAAAAATAAGTATTA
* * ** *
19036803 AAGTAAAAAAGTGAGAATAATCGTAAAATTAGTATCATTTGGTGTAAAATATATTAAAAGTGTCA
64 AAGTAAAAAGGTGAGAATAATCGTAAAATTGGTAT-ATTTGACGTAAAATATGTTAAAAGTGTCA
* *
19036868 AAATACCTTAAGAAAAACTTGTGATAATTCTAAACATAATAAAAGTTAAGAACAATCGTAAAAGA
128 TAATACCTTAAGAAAAA-TTGTGATAATTTTAAACATAATAAAAGTTAAGAACAA-CGTAAAAGA
19036933 TTTTATTGTAACATAAAT-A-TAAGTTGATAACATAAAAAATTATTATTATAAATAAAATAATTT
191 TTTTATTGTAA-ATAAATAATTAAGTTGATAACATAAAAAATTATTATTATAAATAAAATAATTT
* *
19036996 TAAACCAAAAAATACGTGTTAACGTAAAAAGGTGAGAATAATTAAAAATTTGGAATCATTTGGTG
255 TAAACCAAAAAATA-GTGTTAACGTAAAAAGGTGA-AATAATTAAAAATTT-AAATCA-TTGGCG
* * * *
19037061 TAAAATATGTTACAA-TGTCATAATGT-TAAAGGATAAGAATAGCTGTAAAATTGGTATC-CTTT
316 TAAAATATGCTACAAGTGTCATAATGTAAAAAGGATAAGAATAACTGTAAAATTGATATCAC-TT
* * *
19037123 GACATAAATTAGATTAGAAGTT-TCGTAATACCTTAACAAAAAGTTGTGAT-AATTCTAAACA-T
380 GACATAAATTAGATTA-AAATTATCGTAACACCCTAACAAAAAGTTGTGATAAATT-TAAA-AGT
* * *
19037185 AATAAAAAATAAAAATAAGTATAAAAAAATCCTATTATAACATAAATAATATTTTTGGCAACATA
442 AACAAAAAATAAAAACAAGTATAAAAAAATACTATTATAACATAAATAATATTTTTGGCAACATA
* *
19037250 AAAGAATTATTATTACAAATAAATAATAATTTTAAACCAAAAAATAAGTGTTAATATAAAAAAGA
507 AAAAAATTATTATTACAAATAAATAATAATTCTAAACCAAAAAATAAGTGTTAATAT-------A
** * ** * *
19037315 TGAGAGTAATCATAAAATTGAG-ATCATTTGGCATACAATGGTTAA-AAATATCGTAATACCTTT
565 --AGAGTAATCATAAAATT-AGTATCATTTAACATAAAAT-AATAAGAAATATCATAACACCTTT
* * *
19037378 AAAAAAAA-TTATAATTA-TCCTAAACATAAT-AAAAGGTAACAACA-AGCGT-GAAAAAATA-T
626 AAAAAAAAGTGATAA-TACTCCTAAACATAATGAAAA-GTAACAACATA-CGTAAAAAAAAAATT
* * ** *
19037437 TATTATAACGTAAATAATTAAATTGGTAATATAAAA-AACT-TGTTATTACAAATAAAAAAT-AG
688 TATTATAACATAAATAACTAAATTGACAATATAAAAGAACTAT-TT-TTACAAACAAAAAATAAG
* *
19037499 TTTAAACAAAAA-TTAAGAG-TAAACATAAAACGGTGAAAATAATCGTAAAATTAATATTATTTT
751 TTTAAACAAAAAGTTAAGAGTTAAA-ATAAAACGGTGAAAATAATCATAAAATTAATATTATTTA
* * * *
19037562 ATGTAAAATTGTTAGAATTATCATTACACCTT-A-ATAAAAAATTATAATAATTTTAAACATAAT
815 ATGTAAAATAGTTAGAAGTATCATTACACCTTAAGAAAAAAAATTATAATAATTCTAAACAT-AT
* *
19037625 GAAAAGTAATAATAAATGTAAAAAGATATTATTGAAATGTAA
879 GAAAAGTAAGAACAAATGTAAAAAGATATTATTGAAATGTAA
** * * *
19037667 TAAATTTTTAATGTAAAAAATTAGTATTATTAATAAAAATAATTCTAAATCAAAATATAAGTATT
1 TAAATTGGTAATGAAAAAAATTAGTATTATAAAT-AAAA-AATTCT-AATCAAAAAATAAGTATT
* * ** *
19037732 AAAGTAAAAAGGTGAGAATAATTGTAAAATTGGTATAATTTGACATAAAATATGTTTGAAGTGTT
63 AAAGTAAAAAGGTGAGAATAATCGTAAAATTGGTAT-ATTTGACGTAAAATATGTTAAAAGTGTC
* * *
19037797 GTAATA-TTTAAGAAAAGATTGTGATAATTTTAAATATAATAAAA-TGTAAGAACAA-GTATAAC
127 ATAATACCTTAAGAAAA-ATTGTGATAATTTTAAACATAATAAAAGT-TAAGAACAACGTA-AA-
* * *
19037859 AGATTTAATTGTAAAGTAAATAATTAAATTG-TCAACAT-AAAAATTATTA-TA-AATAAAAAAT
188 AGATTTTATTGTAAA-TAAATAATTAAGTTGAT-AACATAAAAAATTATTATTATAA-ATAAAAT
* * **
19037920 AATTCTAAACCTAAAAATAAGCATTAACGTAAAAAGGTGAAAATAATTATAAAATT
250 AATTTTAAACCAAAAAAT-AGTGTTAACGTAAAAAGGTG-AAATAATTA-AAAATT
19037976 GGTATAATTT
Statistics
Matches: 1038, Mismatches: 147, Indels: 100
0.81 0.11 0.08
Matches are distributed among these distances:
924 32 0.03
925 27 0.03
926 332 0.32
927 94 0.09
928 110 0.11
929 177 0.17
930 113 0.11
931 56 0.05
932 7 0.01
933 6 0.01
934 26 0.03
935 53 0.05
936 5 0.00
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.31
Consensus pattern (920 bp):
TAAATTGGTAATGAAAAAAATTAGTATTATAAATAAAAAATTCTAATCAAAAAATAAGTATTAAA
GTAAAAAGGTGAGAATAATCGTAAAATTGGTATATTTGACGTAAAATATGTTAAAAGTGTCATAA
TACCTTAAGAAAAATTGTGATAATTTTAAACATAATAAAAGTTAAGAACAACGTAAAAGATTTTA
TTGTAAATAAATAATTAAGTTGATAACATAAAAAATTATTATTATAAATAAAATAATTTTAAACC
AAAAAATAGTGTTAACGTAAAAAGGTGAAATAATTAAAAATTTAAATCATTGGCGTAAAATATGC
TACAAGTGTCATAATGTAAAAAGGATAAGAATAACTGTAAAATTGATATCACTTGACATAAATTA
GATTAAAATTATCGTAACACCCTAACAAAAAGTTGTGATAAATTTAAAAGTAACAAAAAATAAAA
ACAAGTATAAAAAAATACTATTATAACATAAATAATATTTTTGGCAACATAAAAAAATTATTATT
ACAAATAAATAATAATTCTAAACCAAAAAATAAGTGTTAATATAAGAGTAATCATAAAATTAGTA
TCATTTAACATAAAATAATAAGAAATATCATAACACCTTTAAAAAAAAGTGATAATACTCCTAAA
CATAATGAAAAGTAACAACATACGTAAAAAAAAAATTTATTATAACATAAATAACTAAATTGACA
ATATAAAAGAACTATTTTTACAAACAAAAAATAAGTTTAAACAAAAAGTTAAGAGTTAAAATAAA
ACGGTGAAAATAATCATAAAATTAATATTATTTAATGTAAAATAGTTAGAAGTATCATTACACCT
TAAGAAAAAAAATTATAATAATTCTAAACATATGAAAAGTAAGAACAAATGTAAAAAGATATTAT
TGAAATGTAA
Found at i:19038032 original size:67 final size:67
Alignment explanation
Indices: 19037949--19038082 Score: 173
Period size: 67 Copynumber: 2.0 Consensus size: 67
19037939 AGCATTAACG
* *
19037949 TAAAAAGGTGAAAATAATTATAAAATTGGTATAATTTAAG-GTAAAAT-GTGTTAAAAGTATCGT
1 TAAAAAGGTGAAAATAATCATAAAATTAGTATAATTT-AGTGTAAAATAG-GTTAAAAGTATCGT
19038012 AATA
64 AATA
* * * * *
19038016 TAAAAATGTGAGAATAATCATAAAATTAGTATCATTTAGTGTAAAATAGGTTAGAATTATCGTAA
1 TAAAAAGGTGAAAATAATCATAAAATTAGTATAATTTAGTGTAAAATAGGTTAAAAGTATCGTAA
19038081 TA
66 TA
19038083 CCTAGAAAAG
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
66 2 0.03
67 55 0.95
68 1 0.02
ACGTcount: A:0.48, C:0.03, G:0.16, T:0.34
Consensus pattern (67 bp):
TAAAAAGGTGAAAATAATCATAAAATTAGTATAATTTAGTGTAAAATAGGTTAAAAGTATCGTAA
TA
Found at i:19038807 original size:18 final size:18
Alignment explanation
Indices: 19038784--19038820 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
19038774 TGTACCTAAT
* *
19038784 TAAATTGATTTTGTAAAA
1 TAAATTGATATTATAAAA
19038802 TAAATTGATATTATAAAA
1 TAAATTGATATTATAAAA
19038820 T
1 T
19038821 TAAAAAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (18 bp):
TAAATTGATATTATAAAA
Found at i:19040115 original size:35 final size:35
Alignment explanation
Indices: 19040065--19040132 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
19040055 ATGTACATTA
* *
19040065 GTTATGGAAGCACATTGCTA-CAAGACTCTTAATTT
1 GTTATGGAAGCACATTAC-AGCAAGACTCCTAATTT
*
19040100 GTTATGGAAGTACATTACAGCAAGACTCCTAAT
1 GTTATGGAAGCACATTACAGCAAGACTCCTAAT
19040133 AATGGTGACT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 1 0.03
35 28 0.97
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.31
Consensus pattern (35 bp):
GTTATGGAAGCACATTACAGCAAGACTCCTAATTT
Found at i:19049003 original size:158 final size:157
Alignment explanation
Indices: 19048715--19049025 Score: 604
Period size: 158 Copynumber: 2.0 Consensus size: 157
19048705 GCGAGGGAAA
19048715 GTGAGACAAGATAAGCTTCAAGCAAGGTAAAGATGGTAGGAACAAAATTTTCACTCTTTTTGTTT
1 GTGAGACAAGATAAGCTTCAAGCAAGGTAAAGATGGTAGGAACAAAATTTTCACTCTTTTTGTTT
19048780 TAATAAGTTTAGATTTTTTTAAAAAGGCTTTTATTCCCAAGATGTAGGAGCATAAGGTAAGGATA
66 TAATAAGTTTAGATTTTTTTAAAAAGGCTTTTATTCCCAAGATGTAGGAGCATAAGGTAAGGATA
19048845 GTGAATTATTAAAGGATATTTTTTTGTC
131 GTGAATTATTAAAGG-TATTTTTTTGTC
*
19048873 GTGAGACGAGATAAGCTTCAAGCAAGGTAAAGATGGTAGGAACAAAATTTTCACTCTTTTTGTTT
1 GTGAGACAAGATAAGCTTCAAGCAAGGTAAAGATGGTAGGAACAAAATTTTCACTCTTTTTGTTT
19048938 TAATAAGTTTAGATTTTTTTAAAAAGGCTTTTATTCCCAAGATGTAGGAGCATAAGGTAAGGATA
66 TAATAAGTTTAGATTTTTTTAAAAAGGCTTTTATTCCCAAGATGTAGGAGCATAAGGTAAGGATA
19049003 GTGAATTATTAAAGGTATTTTTT
131 GTGAATTATTAAAGGTATTTTTT
19049026 GCTAAAAATG
Statistics
Matches: 152, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
157 8 0.05
158 144 0.95
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.36
Consensus pattern (157 bp):
GTGAGACAAGATAAGCTTCAAGCAAGGTAAAGATGGTAGGAACAAAATTTTCACTCTTTTTGTTT
TAATAAGTTTAGATTTTTTTAAAAAGGCTTTTATTCCCAAGATGTAGGAGCATAAGGTAAGGATA
GTGAATTATTAAAGGTATTTTTTTGTC
Found at i:19049686 original size:21 final size:21
Alignment explanation
Indices: 19049657--19049713 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
19049647 TTTTGGCAAG
*
19049657 AAACGCCTTCAATAACCCTAA
1 AAACACCTTCAATAACCCTAA
19049678 AAACACCTTCAATAACCCTAA
1 AAACACCTTCAATAACCCTAA
19049699 AAACACCTTCAATAA
1 AAACACCTTCAATAA
19049714 TCTCTTCCAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.47, C:0.32, G:0.02, T:0.19
Consensus pattern (21 bp):
AAACACCTTCAATAACCCTAA
Found at i:19054018 original size:62 final size:62
Alignment explanation
Indices: 19053949--19054091 Score: 198
Period size: 62 Copynumber: 2.3 Consensus size: 62
19053939 TTTTTGTGAG
*
19053949 AAAACGCCTTGAATAATCCCTTA-AAAATAATTGAATGGGGTTAGTCAAGGTGTTTATGGCCA
1 AAAACGCCTTAAATAATCCCTTACAAAAT-ATTGAATGGGGTTAGTCAAGGTGTTTATGGCCA
* * * * **
19054011 AAAACGCCTTAAATAATCCCTTACAAAATATTTAATGGGGTTATTGAAGGTGTTTCTGGTTA
1 AAAACGCCTTAAATAATCCCTTACAAAATATTGAATGGGGTTAGTCAAGGTGTTTATGGCCA
*
19054073 AAAACGCCTTCAATAATCC
1 AAAACGCCTTAAATAATCC
19054092 ATGAATTATT
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
62 67 0.93
63 5 0.07
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (62 bp):
AAAACGCCTTAAATAATCCCTTACAAAATATTGAATGGGGTTAGTCAAGGTGTTTATGGCCA
Found at i:19056346 original size:18 final size:17
Alignment explanation
Indices: 19056325--19056372 Score: 71
Period size: 19 Copynumber: 2.8 Consensus size: 17
19056315 TTATATAATT
19056325 ATATTTATATTAAAAATA
1 ATATTTATATTAAAAA-A
19056343 ATATTTTATATTAAAAAA
1 ATA-TTTATATTAAAAAA
19056361 ATATTT-TATTAA
1 ATATTTATATTAA
19056373 TTTTTGATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.21
17 3 0.10
18 7 0.24
19 13 0.45
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
ATATTTATATTAAAAAA
Found at i:19056352 original size:19 final size:18
Alignment explanation
Indices: 19056328--19056369 Score: 75
Period size: 19 Copynumber: 2.3 Consensus size: 18
19056318 TATAATTATA
19056328 TTTATATTAAAAATAATAT
1 TTTATATTAAAAA-AATAT
19056347 TTTATATTAAAAAAATAT
1 TTTATATTAAAAAAATAT
19056365 TTTAT
1 TTTAT
19056370 TAATTTTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTATATTAAAAAAATAT
Found at i:19056363 original size:21 final size:21
Alignment explanation
Indices: 19056319--19056359 Score: 68
Period size: 19 Copynumber: 2.0 Consensus size: 21
19056309 AAATATTTAT
19056319 ATAATTATATTTATATTAAAA
1 ATAATTATATTTATATTAAAA
19056340 ATAA-TAT-TTTATATTAAAA
1 ATAATTATATTTATATTAAAA
19056359 A
1 A
19056360 AATATTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 13 0.65
20 3 0.15
21 4 0.20
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
ATAATTATATTTATATTAAAA
Found at i:19056680 original size:20 final size:20
Alignment explanation
Indices: 19056655--19056696 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
19056645 ATTTATTATT
*
19056655 AATAATAAAATTAA-AATTAA
1 AATAAT-AAATAAATAATTAA
19056675 AATAATAAATAAATAATTAA
1 AATAATAAATAAATAATTAA
19056695 AA
1 AA
19056697 ATTAAATTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (20 bp):
AATAATAAATAAATAATTAA
Found at i:19064204 original size:23 final size:20
Alignment explanation
Indices: 19064153--19064193 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
19064143 TATTGGACTT
*
19064153 GAAGCAATAAACACAATAAC
1 GAAGCAATAAACACAACAAC
19064173 GAAGCAATAAACACAACAAC
1 GAAGCAATAAACACAACAAC
19064193 G
1 G
19064194 TAGAAGCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.59, C:0.22, G:0.12, T:0.07
Consensus pattern (20 bp):
GAAGCAATAAACACAACAAC
Found at i:19065269 original size:375 final size:374
Alignment explanation
Indices: 19064563--19065309 Score: 1059
Period size: 375 Copynumber: 2.0 Consensus size: 374
19064553 TTAACTTACA
*
19064563 TTCAACTAACTCTCTTTTTTTCCTTTTCTCTCTATTTTTCTTGGCTTTTTTTCTTTATCTTGGTT
1 TTCAACTAACTCTCTCTTTTTCCTTTTCTCTCTATTTTTCTTGGCTTTTTTTCTTTATCTTGGTT
** * * ** * *
19064628 TCGATGCCACCACCTTCTGTTTCTTTATTATATAGCTCTTTTTTATTGTTTAAGGTTTTATATAA
66 TCGACACCACCACCTTCTGTTTCTCTATTATACAGCTCCCTTTTATTATTTAAGGCTTTATATAA
** * *
19064693 GTAAGATTCTCTTAGGTCAAAGACAAAAAGAAAAAAAAAAGGCATTAGGCCTTTTAATTGGCCAA
131 GTAAGACACTCTTAGGTCAAAGACAAAAAGAAAAAAAAAAGGCATTAGACCTTTTAATTAGCCAA
*
19064758 AACCAAAGGGGCTAGACCCTAATCTTCCTAACAATTATTACTTTTGTATATATGAATTATATTCT
196 AACCAAAGAGGCTAGACCCTAATCTTCCTAACAATTATTACTTTTGTATATATGAATTATATTCT
* ** * *
19064823 CACTTCAAAGATATATGAAAGATTATGTTCTGGCATCTTACATGTAGTAATAGTAGCAGCATCTA
261 CACTACAAAGATATATGAAAGATTATGTTCTGGCATCTTACATGTAGTAATAACACCAACATCTA
* *
19064888 ATGAAGCATTCTACAATATTAGTTTCTAGATTTAGGTTCAGTCATTTTG
326 ATGAAGCATCCTACAATATTAGTTTCTAGATTTAGGTTCAATCATTTTG
* * * *
19064937 TTCAACTAACTCT-TCTTTTTCCTTTTTTCCTTTTATTTTTTTTGGCTTTTTTTCTTTCTCTTGG
1 TTCAACTAACTCTCTCTTTTTCCTTTTCT-C-TCTATTTTTCTTGGCTTTTTTTCTTTATCTTGG
* * **
19065001 TTTTGGCACCATGACCTTCTGTTTCTCTATTATACAGCTCCCCTTTTATTATTTAAGGCTTTATA
64 TTTCGACACCACCACCTTCTGTTTCTCTATTATACAGCT-CCCTTTTATTATTTAAGGCTTTATA
* * *
19065066 TAAGTAAGGCACTCTTAGGTCAAAGATAAAAAGAAAAAAAAAAGGCTTTAGACCTTTTAATTAGC
128 TAAGTAAGACACTCTTAGGTCAAAGACAAAAAGAAAAAAAAAAGGCATTAGACCTTTTAATTAGC
* * * *
19065131 C-AAACCAATGAGGCTGGATCCC-ACTTTTCCTAACAATTATTACTTTTGTATATATGAATTATA
193 CAAAACCAAAGAGGCTAGA-CCCTAATCTTCCTAACAATTATTACTTTTGTATATATGAATTATA
*
19065194 TTCTTACTACAAAGATATATGAAAGATTATGTTCTGGCATCTTACATGTAGTAATAACACCAACA
257 TTCTCACTACAAAGATATATGAAAGATTATGTTCTGGCATCTTACATGTAGTAATAACACCAACA
* * * * *
19065259 TTTGATGAAGCATCCTACAATATTAGTTTTTGGGTTTAGGTTCAATCATTT
322 TCTAATGAAGCATCCTACAATATTAGTTTCTAGATTTAGGTTCAATCATTT
19065310 CTAGCATAAT
Statistics
Matches: 327, Mismatches: 42, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
373 13 0.04
374 14 0.04
375 217 0.66
376 83 0.25
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (374 bp):
TTCAACTAACTCTCTCTTTTTCCTTTTCTCTCTATTTTTCTTGGCTTTTTTTCTTTATCTTGGTT
TCGACACCACCACCTTCTGTTTCTCTATTATACAGCTCCCTTTTATTATTTAAGGCTTTATATAA
GTAAGACACTCTTAGGTCAAAGACAAAAAGAAAAAAAAAAGGCATTAGACCTTTTAATTAGCCAA
AACCAAAGAGGCTAGACCCTAATCTTCCTAACAATTATTACTTTTGTATATATGAATTATATTCT
CACTACAAAGATATATGAAAGATTATGTTCTGGCATCTTACATGTAGTAATAACACCAACATCTA
ATGAAGCATCCTACAATATTAGTTTCTAGATTTAGGTTCAATCATTTTG
Found at i:19067773 original size:34 final size:33
Alignment explanation
Indices: 19067710--19067780 Score: 81
Period size: 34 Copynumber: 2.1 Consensus size: 33
19067700 ATTTAAATTT
*
19067710 CATGCATGTTTAATTTCCTTATTAGTTTAATGTC
1 CATGCATGTTTAATTT-CTTATTAATTTAATGTC
* *
19067744 CATGCATGTTTTAGTTT-TTATGTAATTTAATTTC
1 CATGCATG-TTTAATTTCTTAT-TAATTTAATGTC
19067778 CAT
1 CAT
19067781 ATTGTAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
33 4 0.12
34 21 0.66
35 7 0.22
ACGTcount: A:0.24, C:0.13, G:0.11, T:0.52
Consensus pattern (33 bp):
CATGCATGTTTAATTTCTTATTAATTTAATGTC
Found at i:19068378 original size:13 final size:13
Alignment explanation
Indices: 19068362--19068386 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19068352 AACCGTAATG
19068362 TGAAACCCTAAAA
1 TGAAACCCTAAAA
19068375 TGAAACCCTAAA
1 TGAAACCCTAAA
19068387 CCCTTAGATG
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:0.52, C:0.24, G:0.08, T:0.16
Consensus pattern (13 bp):
TGAAACCCTAAAA
Found at i:19068397 original size:20 final size:20
Alignment explanation
Indices: 19068364--19068436 Score: 60
Period size: 19 Copynumber: 3.8 Consensus size: 20
19068354 CCGTAATGTG
* *
19068364 AAACCCTAAAATGAAACCCT
1 AAACCCTTAGATGAAACCCT
* *
19068384 AAACCCTTAGATGAAAACTT
1 AAACCCTTAGATGAAACCCT
** *
19068404 AAGTCC-TAGGTGAAACCCT
1 AAACCCTTAGATGAAACCCT
*
19068423 AAA-CCTTAGGTGAA
1 AAACCCTTAGATGAA
19068437 GTCCAAAACC
Statistics
Matches: 42, Mismatches: 10, Indels: 3
0.76 0.18 0.05
Matches are distributed among these distances:
18 2 0.05
19 20 0.48
20 20 0.48
ACGTcount: A:0.42, C:0.23, G:0.14, T:0.21
Consensus pattern (20 bp):
AAACCCTTAGATGAAACCCT
Found at i:19068432 original size:19 final size:19
Alignment explanation
Indices: 19068375--19068436 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
19068365 AACCCTAAAA
*
19068375 TGAAACCCTAAACCCTTAGA
1 TGAAACCCTAAA-CCTTAGG
* * *
19068395 TGAAAACTTAAGTCC-TAGG
1 TGAAACCCTAA-ACCTTAGG
19068414 TGAAACCCTAAACCTTAGG
1 TGAAACCCTAAACCTTAGG
19068433 TGAA
1 TGAA
19068437 GTCCAAAACC
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
18 2 0.06
19 20 0.61
20 11 0.33
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.23
Consensus pattern (19 bp):
TGAAACCCTAAACCTTAGG
Found at i:19068624 original size:7 final size:7
Alignment explanation
Indices: 19068598--19068642 Score: 54
Period size: 7 Copynumber: 6.0 Consensus size: 7
19068588 TCATAAGTTA
19068598 AAATAAT
1 AAATAAT
19068605 AAAATTAAAT
1 -AAA-T-AAT
19068615 AAATAAT
1 AAATAAT
19068622 AAATAAT
1 AAATAAT
*
19068629 AAATAAC
1 AAATAAT
19068636 AAATAAT
1 AAATAAT
19068643 GGTATCTTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
7 22 0.67
8 4 0.12
9 4 0.12
10 3 0.09
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (7 bp):
AAATAAT
Found at i:19071173 original size:13 final size:13
Alignment explanation
Indices: 19071155--19071179 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19071145 TCTGCCAATT
19071155 TTTTCACGTCACA
1 TTTTCACGTCACA
19071168 TTTTCACGTCAC
1 TTTTCACGTCAC
19071180 CACTAAATTC
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:0.20, C:0.32, G:0.08, T:0.40
Consensus pattern (13 bp):
TTTTCACGTCACA
Found at i:19073442 original size:9 final size:9
Alignment explanation
Indices: 19073428--19073467 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
19073418 GAAATGCATT
19073428 AAAAAAGAA
1 AAAAAAGAA
*
19073437 AAAAAAGAG
1 AAAAAAGAA
**
19073446 AAAAAATTA
1 AAAAAAGAA
19073455 AAAAAAGAA
1 AAAAAAGAA
19073464 AAAA
1 AAAA
19073468 TAAAGCTTTG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.05
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:19073457 original size:16 final size:16
Alignment explanation
Indices: 19073437--19073468 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
19073427 TAAAAAAGAA
19073437 AAAAAAGAGAAAAAATT
1 AAAAAA-AGAAAAAATT
19073454 AAAAAAAGAAAAAAT
1 AAAAAAAGAAAAAAT
19073469 AAAGCTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.81, C:0.00, G:0.09, T:0.09
Consensus pattern (16 bp):
AAAAAAAGAAAAAATT
Found at i:19074572 original size:7 final size:7
Alignment explanation
Indices: 19074560--19074596 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
19074550 GAAAAAGAAT
19074560 GAAAAGA
1 GAAAAGA
19074567 GAAAAGA
1 GAAAAGA
19074574 GAAAAGA
1 GAAAAGA
19074581 -AAAAGA
1 GAAAAGA
*
19074587 -AAAAGT
1 GAAAAGA
19074593 GAAA
1 GAAA
19074597 GAATTAAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
6 11 0.39
7 17 0.61
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.03
Consensus pattern (7 bp):
GAAAAGA
Found at i:19074590 original size:12 final size:12
Alignment explanation
Indices: 19074561--19074638 Score: 52
Period size: 12 Copynumber: 6.2 Consensus size: 12
19074551 AAAAAGAATG
19074561 AAAAGAGAAAAGA
1 AAAAGA-AAAAGA
19074574 GAAAAGAAAAAGA
1 -AAAAGAAAAAGA
**
19074587 AAAAGTGAAAGA
1 AAAAGAAAAAGA
*
19074599 ATTAAG-AAAAGA
1 A-AAAGAAAAAGA
*
19074611 AAGAA-AGAAAGA
1 AA-AAGAAAAAGA
19074623 AAAAGGAAAAAAGA
1 AAAA-G-AAAAAGA
19074637 AA
1 AA
19074639 TGAATGGTGG
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
11 2 0.04
12 26 0.51
13 9 0.18
14 14 0.27
ACGTcount: A:0.74, C:0.00, G:0.22, T:0.04
Consensus pattern (12 bp):
AAAAGAAAAAGA
Found at i:19075591 original size:22 final size:22
Alignment explanation
Indices: 19075566--19075611 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
19075556 ATGCAAGCTT
19075566 AGTTTAGCTAGCACATAAACCC
1 AGTTTAGCTAGCACATAAACCC
* * *
19075588 AGTTTAGCTGGCAGATAAGCCC
1 AGTTTAGCTAGCACATAAACCC
19075610 AG
1 AG
19075612 CTTGCATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.22
Consensus pattern (22 bp):
AGTTTAGCTAGCACATAAACCC
Found at i:19075963 original size:33 final size:34
Alignment explanation
Indices: 19075902--19075974 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 34
19075892 TTTGAAGTTT
*
19075902 AGTTTAGCTGGCACCCTAACGAAAATTTAAACCC
1 AGTTTAGCTAGCACCCTAACGAAAATTTAAACCC
* * **
19075936 AGTTTAGCTAGCATCC-AATGAAAATTTAGGCCC
1 AGTTTAGCTAGCACCCTAACGAAAATTTAAACCC
19075969 AGTTTA
1 AGTTTA
19075975 ATTGGCATCA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 20 0.59
34 14 0.41
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.27
Consensus pattern (34 bp):
AGTTTAGCTAGCACCCTAACGAAAATTTAAACCC
Found at i:19078421 original size:34 final size:34
Alignment explanation
Indices: 19078372--19078454 Score: 91
Period size: 34 Copynumber: 2.4 Consensus size: 34
19078362 GTTTGAGTTC
19078372 AATTTAAATTT-CATGCATG-TTTAATTTCCTTAT-T
1 AATTT-AATTTCCATGCATGTTTTAATTT--TTATGT
* * *
19078406 AGTTTAATTTCCATGCTTGTTTTAGTTTTTATGT
1 AATTTAATTTCCATGCATGTTTTAATTTTTATGT
19078440 AATTTAATTTCCATG
1 AATTTAATTTCCATG
19078455 TTCTAAATTG
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
33 9 0.21
34 26 0.62
35 7 0.17
ACGTcount: A:0.25, C:0.11, G:0.10, T:0.54
Consensus pattern (34 bp):
AATTTAATTTCCATGCATGTTTTAATTTTTATGT
Found at i:19078427 original size:17 final size:17
Alignment explanation
Indices: 19078378--19078427 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
19078368 GTTCAATTTA
*
19078378 AATTT-CATGCATGTTT
1 AATTTCCATGCTTGTTT
**
19078394 AATTTCC-TTATTAGTTT
1 AATTTCCATGCTT-GTTT
19078411 AATTTCCATGCTTGTTT
1 AATTTCCATGCTTGTTT
19078428 TAGTTTTTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
16 7 0.27
17 16 0.62
18 3 0.12
ACGTcount: A:0.22, C:0.14, G:0.10, T:0.54
Consensus pattern (17 bp):
AATTTCCATGCTTGTTT
Found at i:19078564 original size:15 final size:15
Alignment explanation
Indices: 19078527--19078581 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
19078517 CTTCTTAAAA
*
19078527 AATGATAATAAA-AC
1 AATGATAATAAATAT
*
19078541 AA-AATAATAAATAT
1 AATGATAATAAATAT
19078555 AATGATAAT-AATAT
1 AATGATAATAAATAT
19078569 AAATGATAA-AAAT
1 -AATGATAATAAAT
19078582 TTTAAATCCC
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
13 8 0.24
14 10 0.29
15 16 0.47
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.27
Consensus pattern (15 bp):
AATGATAATAAATAT
Found at i:19078930 original size:84 final size:80
Alignment explanation
Indices: 19078694--19078908 Score: 337
Period size: 77 Copynumber: 2.7 Consensus size: 80
19078684 ATAACAAAAG
* *
19078694 ATAAATAATAATAATAATTATAAAGAAAAAAAAATATACGAAAATATAAAAATCCATTTTTAGAA
1 ATAAATAATAATAATAATTTTAAAGAAAAAAAAATATATGAAAATAT-AAAATCCATTTTTAGAA
19078759 AAATAAATAAAAGTAA
65 AAATAAATAAAAGTAA
19078775 ATAAATAATAATAATAATTTTAAAG--AAAAAAA-ATATGAAAATATAAAATCCATTTTTAGAAA
1 ATAAATAATAATAATAATTTTAAAGAAAAAAAAATATATGAAAATATAAAATCCATTTTTAGAAA
*
19078837 AATAGATAAAAGTAA
66 AATAAATAAAAGTAA
19078852 ATAAAGAATAATAATAATAATTTTAAAGAAAAAGAAAATATATGAAAATATAAAATC
1 AT--A-AATAATAATAATAATTTTAAAGAAAAA-AAAATATATGAAAATATAAAATC
19078909 TGATTTTTGG
Statistics
Matches: 124, Mismatches: 3, Indels: 11
0.90 0.02 0.08
Matches are distributed among these distances:
77 34 0.27
78 11 0.09
79 8 0.06
80 22 0.18
81 24 0.19
82 3 0.02
83 4 0.03
84 18 0.15
ACGTcount: A:0.64, C:0.03, G:0.06, T:0.27
Consensus pattern (80 bp):
ATAAATAATAATAATAATTTTAAAGAAAAAAAAATATATGAAAATATAAAATCCATTTTTAGAAA
AATAAATAAAAGTAA
Found at i:19079112 original size:20 final size:20
Alignment explanation
Indices: 19079089--19079126 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
19079079 TCTTAAACCT
* *
19079089 AAAACCTTAATTTGAAACTC
1 AAAACCCTAATGTGAAACTC
19079109 AAAACCCTAATGTGAAAC
1 AAAACCCTAATGTGAAAC
19079127 CCTAAAATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.21, G:0.08, T:0.24
Consensus pattern (20 bp):
AAAACCCTAATGTGAAACTC
Found at i:19079165 original size:20 final size:20
Alignment explanation
Indices: 19079123--19079205 Score: 62
Period size: 19 Copynumber: 4.2 Consensus size: 20
19079113 CCCTAATGTG
* * * *
19079123 AAACCCTAAAATGAAGCCAT
1 AAACCCTTACATGAAACCCT
*
19079143 AAACCCTTAGATGAAACCCT
1 AAACCCTTACATGAAACCCT
* * *
19079163 AAATCC-TACATAAAATCCT
1 AAACCCTTACATGAAACCCT
* *
19079182 AAATCC-TACATAAAACCCT
1 AAACCCTTACATGAAACCCT
19079201 AAACC
1 AAACC
19079206 TTAGGTGAAG
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
19 32 0.60
20 21 0.40
ACGTcount: A:0.47, C:0.29, G:0.05, T:0.19
Consensus pattern (20 bp):
AAACCCTTACATGAAACCCT
Found at i:19079184 original size:19 final size:19
Alignment explanation
Indices: 19079156--19079203 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
19079146 CCCTTAGATG
19079156 AAACCCTAAATCCTACATA
1 AAACCCTAAATCCTACATA
*
19079175 AAATCCTAAATCCTACATA
1 AAACCCTAAATCCTACATA
19079194 AAACCCTAAA
1 AAACCCTAAA
19079204 CCTTAGGTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (19 bp):
AAACCCTAAATCCTACATA
Found at i:19082711 original size:21 final size:21
Alignment explanation
Indices: 19082673--19082712 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
19082663 GGTCTGGTGA
*
19082673 TTTTAAAGAAAGATAATGAAT
1 TTTTAAAGAAAGAGAATGAAT
* *
19082694 TTTTAGAGAGAGAGAATGA
1 TTTTAAAGAAAGAGAATGA
19082713 GTTAATGATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.23, T:0.30
Consensus pattern (21 bp):
TTTTAAAGAAAGAGAATGAAT
Found at i:19088886 original size:38 final size:38
Alignment explanation
Indices: 19088844--19088920 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
19088834 TTGAGTTGTG
*
19088844 TTGGATTAGGACGCATAAATTGAGGGGGAGTTTTACCA
1 TTGGATTAGGACGCACAAATTGAGGGGGAGTTTTACCA
* *
19088882 TTGGATTAGGATGCACAAATTGAGGGGGAGTTTTGCCA
1 TTGGATTAGGACGCACAAATTGAGGGGGAGTTTTACCA
19088920 T
1 T
19088921 ACATTGTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.27, C:0.10, G:0.32, T:0.30
Consensus pattern (38 bp):
TTGGATTAGGACGCACAAATTGAGGGGGAGTTTTACCA
Found at i:19096966 original size:20 final size:21
Alignment explanation
Indices: 19096928--19096966 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
19096918 ATATTTGTAC
19096928 TAATACACTTATAATTTTTTG
1 TAATACACTTATAATTTTTTG
*
19096949 TAATACATTTAT-ATTTTT
1 TAATACACTTATAATTTTT
19096967 ATGTTGAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.33, C:0.08, G:0.03, T:0.56
Consensus pattern (21 bp):
TAATACACTTATAATTTTTTG
Found at i:19097051 original size:20 final size:19
Alignment explanation
Indices: 19097026--19097075 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 19
19097016 TGTTTATTGA
*
19097026 TTTGTAATTTTATTTTATAT
1 TTTGTAATTTTA-TGTATAT
19097046 TTTGT-ATTTTATGTATAT
1 TTTGTAATTTTATGTATAT
19097064 TTTGTATATTTT
1 TTTGTA-ATTTT
19097076 TGGAAATGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 11 0.41
19 6 0.22
20 10 0.37
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.70
Consensus pattern (19 bp):
TTTGTAATTTTATGTATAT
Found at i:19097069 original size:9 final size:9
Alignment explanation
Indices: 19097041--19097075 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
19097031 AATTTTATTT
19097041 TATATTTTG
1 TATATTTTG
19097050 TAT-TTTATG
1 TATATTT-TG
19097059 TATATTTTG
1 TATATTTTG
19097068 TATATTTT
1 TATATTTT
19097076 TGGAAATGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 3 0.12
9 18 0.75
10 3 0.12
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.69
Consensus pattern (9 bp):
TATATTTTG
Found at i:19097150 original size:34 final size:34
Alignment explanation
Indices: 19097112--19097231 Score: 123
Period size: 34 Copynumber: 3.5 Consensus size: 34
19097102 TATATTATCG
19097112 GATATACATATCCAATAAGTTTCATATGTTATAA
1 GATATACATATCCAATAAGTTTCATATGTTATAA
* * * * *
19097146 GATATACATATCCGATAAATTTTATATATTATTA
1 GATATACATATCCAATAAGTTTCATATGTTATAA
** * * ***
19097180 GATATGTATATTCGATAAGTTTCATATGTTCCCA
1 GATATACATATCCAATAAGTTTCATATGTTATAA
*
19097214 TATATACATATCCAATAA
1 GATATACATATCCAATAA
19097232 ATTCTAAATG
Statistics
Matches: 67, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
34 67 1.00
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.40
Consensus pattern (34 bp):
GATATACATATCCAATAAGTTTCATATGTTATAA
Found at i:19097259 original size:68 final size:70
Alignment explanation
Indices: 19097116--19097259 Score: 152
Period size: 68 Copynumber: 2.1 Consensus size: 70
19097106 TTATCGGATA
* * * * * *
19097116 TACATATCCAATAAGTTTCATATGTTATAAGATATACATATCCGATAAATTTTATATATTATTAG
1 TACATATTCAATAAGTTTCATATGTTACAAGATATACATATCCAATAAATTCTAAATATTACTAG
19097181 ATATG
66 ATATG
* * * * *
19097186 T--ATATTCGATAAGTTTCATATGTTCCCATATATACATATCCAATAAATTCTAAATGTTACT-G
1 TACATATTCAATAAGTTTCATATGTTACAAGATATACATATCCAATAAATTCTAAATATTACTAG
*
19097248 A-ATT
66 ATATG
19097252 TACATATT
1 TACATATT
19097260 TGAAAACATT
Statistics
Matches: 60, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
66 3 0.05
67 2 0.03
68 54 0.90
70 1 0.02
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (70 bp):
TACATATTCAATAAGTTTCATATGTTACAAGATATACATATCCAATAAATTCTAAATATTACTAG
ATATG
Found at i:19098493 original size:23 final size:22
Alignment explanation
Indices: 19098473--19098523 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
19098463 AAAGAAAAGG
19098473 AAAAGGTCAAAAAAAAAAAAAAA
1 AAAAGG-CAAAAAAAAAAAAAAA
* **
19098496 AAAAGGCAAAAAACAATTAAAA
1 AAAAGGCAAAAAAAAAAAAAAA
19098518 AAAAGG
1 AAAAGG
19098524 AGGTTGTTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 19 0.76
23 6 0.24
ACGTcount: A:0.76, C:0.06, G:0.12, T:0.06
Consensus pattern (22 bp):
AAAAGGCAAAAAAAAAAAAAAA
Found at i:19100150 original size:17 final size:17
Alignment explanation
Indices: 19100111--19100166 Score: 69
Period size: 16 Copynumber: 3.2 Consensus size: 17
19100101 ATCTAATTTG
19100111 AAATATTATTATATTAATAA
1 AAATATTA--ATATTAAT-A
*
19100131 AAATATTAATATAAATA
1 AAATATTAATATTAATA
19100148 AAATA-TAATATTAATA
1 AAATATTAATATTAATA
19100164 AAA
1 AAA
19100167 ATCAGCTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
16 13 0.38
17 6 0.18
18 7 0.21
20 8 0.24
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATATTAATATTAATA
Found at i:19101064 original size:17 final size:17
Alignment explanation
Indices: 19101031--19101063 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
19101021 TAAAATTTTA
19101031 AAATAATATATTTATAT
1 AAATAATATATTTATAT
19101048 AAAT-ATATA-TTATAT
1 AAATAATATATTTATAT
19101063 A
1 A
19101064 TTAATTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 5 0.31
17 4 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AAATAATATATTTATAT
Found at i:19108909 original size:16 final size:17
Alignment explanation
Indices: 19108870--19108910 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
19108860 CTTTGTTCAA
*
19108870 AAGAAAATTAAAATCTT
1 AAGAAAATTAAAATCGT
*
19108887 AAAAAAATTAAAAT-GT
1 AAGAAAATTAAAATCGT
19108903 AAGAAAAT
1 AAGAAAAT
19108911 AAATAAGCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.24
Consensus pattern (17 bp):
AAGAAAATTAAAATCGT
Found at i:19110929 original size:21 final size:21
Alignment explanation
Indices: 19110903--19110945 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
19110893 CAGCTAATTG
19110903 ATGCAATGTACAACTTATTCA
1 ATGCAATGTACAACTTATTCA
19110924 ATGCAATGTACAACTTATTCA
1 ATGCAATGTACAACTTATTCA
19110945 A
1 A
19110946 GCATAATGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.33
Consensus pattern (21 bp):
ATGCAATGTACAACTTATTCA
Found at i:19116767 original size:37 final size:38
Alignment explanation
Indices: 19116701--19116776 Score: 100
Period size: 37 Copynumber: 2.0 Consensus size: 38
19116691 ATGAATTGTC
* *
19116701 AGTAAAGAGTTTTTAGTTTTTTTCATCGGTGAACCATT
1 AGTAAAGAGTTTCTAGTTTTTTTCATCGGTAAACCATT
** *
19116739 AGTAAAGAGTTTCTA-TTTTTTTTGTCGGTAAACTATT
1 AGTAAAGAGTTTCTAGTTTTTTTCATCGGTAAACCATT
19116776 A
1 A
19116777 AGAATCCATT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
37 19 0.58
38 14 0.42
ACGTcount: A:0.28, C:0.09, G:0.17, T:0.46
Consensus pattern (38 bp):
AGTAAAGAGTTTCTAGTTTTTTTCATCGGTAAACCATT
Found at i:19119213 original size:46 final size:46
Alignment explanation
Indices: 19119144--19119236 Score: 141
Period size: 46 Copynumber: 2.0 Consensus size: 46
19119134 TTGAAAAAAA
* * ***
19119144 ATGTTGAAGATTTTGCAATAAATTTTGGTGCTTGATTTATGCAATT
1 ATGTTAAAGATTTTGCAAGAAATTTCAATGCTTGATTTATGCAATT
19119190 ATGTTAAAGATTTTGCAAGAAATTTCAATGCTTGATTTATGCAATT
1 ATGTTAAAGATTTTGCAAGAAATTTCAATGCTTGATTTATGCAATT
19119236 A
1 A
19119237 ATTCACATTC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (46 bp):
ATGTTAAAGATTTTGCAAGAAATTTCAATGCTTGATTTATGCAATT
Done.