Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002069.1 Hibiscus syriacus cultivar Beakdansim tig00004222_pilon, 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: 68307
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Found at i:3105 original size:12 final size:12
Alignment explanation
Indices: 3088--3127 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
3078 GAGATAATCC
3088 ACTGAGCCGTTG
1 ACTGAGCCGTTG
3100 ACTGAGCCGTT-
1 ACTGAGCCGTTG
*
3111 AGCCGAGCCGTTG
1 A-CTGAGCCGTTG
3124 ACTG
1 ACTG
3128 TTAACCGAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 1 0.04
12 22 0.92
13 1 0.04
ACGTcount: A:0.17, C:0.28, G:0.33, T:0.23
Consensus pattern (12 bp):
ACTGAGCCGTTG
Found at i:6125 original size:47 final size:47
Alignment explanation
Indices: 6073--6231 Score: 230
Period size: 47 Copynumber: 3.4 Consensus size: 47
6063 ATTTAATATA
* *
6073 TATGGCATCCTTTAATTCTTTAATGCATCATTTCAAT-CATTTTCAAT
1 TATGGCATCCTTTCATTCCTTAATGCATCATTTC-ATGCATTTTCAAT
* *
6120 TATGGCATCCATTCATGCCTTAATGCATCATTTCATGCATTTTCAAT
1 TATGGCATCCTTTCATTCCTTAATGCATCATTTCATGCATTTTCAAT
* * * *
6167 TATGACATCCTTTTATTCCTTAATGCATCCTTTCATGCATTTTCAAC
1 TATGGCATCCTTTCATTCCTTAATGCATCATTTCATGCATTTTCAAT
6214 TATGGCATCCTTTCATTC
1 TATGGCATCCTTTCATTC
6232 ATTTTCAATT
Statistics
Matches: 99, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
46 2 0.02
47 97 0.98
ACGTcount: A:0.25, C:0.23, G:0.08, T:0.44
Consensus pattern (47 bp):
TATGGCATCCTTTCATTCCTTAATGCATCATTTCATGCATTTTCAAT
Found at i:6175 original size:27 final size:26
Alignment explanation
Indices: 6095--6291 Score: 112
Period size: 27 Copynumber: 8.1 Consensus size: 26
6085 TAATTCTTTA
*
6095 ATGCATCATTTCAAT-CATTTTCAATT
1 ATGCATCCTTTC-ATGCATTTTCAATT
* *
6121 ATGGCATCCATTCATGC--CTT--A--
1 AT-GCATCCTTTCATGCATTTTCAATT
*
6142 ATGCATCATTTCATGCATTTTCAATT
1 ATGCATCCTTTCATGCATTTTCAATT
*
6168 ATGACATCCTTT--T--A--TTC-CTT
1 ATG-CATCCTTTCATGCATTTTCAATT
*
6188 AATGCATCCTTTCATGCATTTTCAACT
1 -ATGCATCCTTTCATGCATTTTCAATT
*
6215 ATGGCATCCTTTCATTCATTTTCAATT
1 AT-GCATCCTTTCATGCATTTTCAATT
*
6242 ATGGCAT-CTGTTCATGC--CTT--A--
1 AT-GCATCCT-TTCATGCATTTTCAATT
6263 ATGCATCCTTTCATGCATTTTCAATT
1 ATGCATCCTTTCATGCATTTTCAATT
6289 ATG
1 ATG
6292 AATTTGATTT
Statistics
Matches: 130, Mismatches: 15, Indels: 52
0.66 0.08 0.26
Matches are distributed among these distances:
20 33 0.25
21 12 0.09
22 5 0.04
23 3 0.02
24 3 0.02
25 5 0.04
26 17 0.13
27 52 0.40
ACGTcount: A:0.24, C:0.23, G:0.09, T:0.44
Consensus pattern (26 bp):
ATGCATCCTTTCATGCATTTTCAATT
Found at i:6265 original size:74 final size:74
Alignment explanation
Indices: 6144--6291 Score: 226
Period size: 74 Copynumber: 2.0 Consensus size: 74
6134 ATGCCTTAAT
* *
6144 GCATCATTTCATGCATTTTCAATTATGACATCCTTTTATTCCTTAATGCATCCTTTCATGCATTT
1 GCATCATTTCATGCATTTTCAATTATGACATCCTTTCATGCCTTAATGCATCCTTTCATGCATTT
6209 TCAACTATG
66 TCAACTATG
* * *
6218 GCATCCTTTCATTCATTTTCAATTATGGCAT-CTGTTCATGCCTTAATGCATCCTTTCATGCATT
1 GCATCATTTCATGCATTTTCAATTATGACATCCT-TTCATGCCTTAATGCATCCTTTCATGCATT
*
6282 TTCAATTATG
65 TTCAACTATG
6292 AATTTGATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
73 2 0.03
74 65 0.97
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (74 bp):
GCATCATTTCATGCATTTTCAATTATGACATCCTTTCATGCCTTAATGCATCCTTTCATGCATTT
TCAACTATG
Found at i:6808 original size:92 final size:92
Alignment explanation
Indices: 6660--6845 Score: 257
Period size: 92 Copynumber: 2.0 Consensus size: 92
6650 ATCGATACTT
* * * *
6660 CTATACTATGGTACCGATACCCCCTTCCGGTATCGATACCGAATTTAGTTTTGATGTTGCCTGGT
1 CTATACTATGGTACCGATACCCCCTTCCGGTATCGATACCAAAATTAGTTTCGATGTTGACTGGT
* *
6725 ATTGATACCCTTATCATGGTATCAATA
66 ATCGATACCCTTACCATGGTATCAATA
* * * *
6752 CTATATTATGGTACCGATACCCCTTTCTGGTATCGATACCAAAATTA-TATTCGATGTTTACTGG
1 CTATACTATGGTACCGATACCCCCTTCCGGTATCGATACCAAAATTAGT-TTCGATGTTGACTGG
*
6816 TATCGATACCCTTACCATGGTATCGATA
65 TATCGATACCCTTACCATGGTATCAATA
6844 CT
1 CT
6846 GCATCTTCGG
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
91 1 0.01
92 81 0.99
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (92 bp):
CTATACTATGGTACCGATACCCCCTTCCGGTATCGATACCAAAATTAGTTTCGATGTTGACTGGT
ATCGATACCCTTACCATGGTATCAATA
Found at i:12194 original size:15 final size:16
Alignment explanation
Indices: 12169--12199 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
12159 GAAGATTTTG
12169 ACATCAATAATAACAT
1 ACATCAATAATAACAT
12185 ACAT-AATAATAACAT
1 ACATCAATAATAACAT
12200 TTCAATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.58, C:0.16, G:0.00, T:0.26
Consensus pattern (16 bp):
ACATCAATAATAACAT
Found at i:13015 original size:27 final size:27
Alignment explanation
Indices: 12983--13138 Score: 151
Period size: 27 Copynumber: 6.3 Consensus size: 27
12973 TAATGTATCA
12983 TTTCATGCATTTTCAATTATGGCATCC
1 TTTCATGCATTTTCAATTATGGCATCC
* *
13010 CTTCATGC--CTT--A--AT-GCATCC
1 TTTCATGCATTTTCAATTATGGCATCC
*
13030 TTTCATGCATTTTCAATTATGGCATCT
1 TTTCATGCATTTTCAATTATGGCATCC
*
13057 TTTCATGC--CTT--A--AT-GCATCC
1 TTTCATGCATTTTCAATTATGGCATCC
13077 TTTCATGCATTTTCAATTATGGCATCC
1 TTTCATGCATTTTCAATTATGGCATCC
* *
13104 CTTCATGTATTTTCAATTATGGCATCC
1 TTTCATGCATTTTCAATTATGGCATCC
*
13131 GTTCATGC
1 TTTCATGC
13139 CTTAATGCAT
Statistics
Matches: 103, Mismatches: 12, Indels: 28
0.72 0.08 0.20
Matches are distributed among these distances:
20 26 0.25
21 4 0.04
22 4 0.04
23 2 0.02
24 2 0.02
25 4 0.04
26 4 0.04
27 57 0.55
ACGTcount: A:0.21, C:0.24, G:0.12, T:0.43
Consensus pattern (27 bp):
TTTCATGCATTTTCAATTATGGCATCC
Found at i:13019 original size:47 final size:47
Alignment explanation
Indices: 12933--13110 Score: 250
Period size: 47 Copynumber: 3.8 Consensus size: 47
12923 TTAACACATC
* ** * *
12933 CATTT-ATGCATTTTAATATATATGGCATCTTTTCTTGCCTTAATGTAT
1 CATTTCATGCATTTTCA-AT-TATGGCATCCCTTCATGCCTTAATGCAT
12981 CATTTCATGCATTTTCAATTATGGCATCCCTTCATGCCTTAATGCAT
1 CATTTCATGCATTTTCAATTATGGCATCCCTTCATGCCTTAATGCAT
* **
13028 CCTTTCATGCATTTTCAATTATGGCATCTTTTCATGCCTTAATGCAT
1 CATTTCATGCATTTTCAATTATGGCATCCCTTCATGCCTTAATGCAT
*
13075 CCTTTCATGCATTTTCAATTATGGCATCCCTTCATG
1 CATTTCATGCATTTTCAATTATGGCATCCCTTCATG
13111 TATTTTCAAT
Statistics
Matches: 119, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
47 102 0.86
48 7 0.06
49 10 0.08
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.44
Consensus pattern (47 bp):
CATTTCATGCATTTTCAATTATGGCATCCCTTCATGCCTTAATGCAT
Found at i:13060 original size:94 final size:96
Alignment explanation
Indices: 12929--13110 Score: 298
Period size: 94 Copynumber: 1.9 Consensus size: 96
12919 CATATTAACA
* *
12929 CATCCATTTATGCATTTTAATATATATGGCATCTTTTCTTGCCTTAATGTATCATTTCATGCATT
1 CATCCATTTATGCATTTTAATATATATGGCATCTTTTCATGCCTTAATGCATCATTTCATGCATT
12994 TTCAATTATGGCATCCCTTCATGCCTTAATG
66 TTCAATTATGGCATCCCTTCATGCCTTAATG
* *
13025 CATCC-TTTCATGCATTTTCA-AT-TATGGCATCTTTTCATGCCTTAATGCATCCTTTCATGCAT
1 CATCCATTT-ATGCATTTTAATATATATGGCATCTTTTCATGCCTTAATGCATCATTTCATGCAT
13087 TTTCAATTATGGCATCCCTTCATG
65 TTTCAATTATGGCATCCCTTCATG
13111 TATTTTCAAT
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
94 61 0.75
95 5 0.06
96 15 0.19
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.44
Consensus pattern (96 bp):
CATCCATTTATGCATTTTAATATATATGGCATCTTTTCATGCCTTAATGCATCATTTCATGCATT
TTCAATTATGGCATCCCTTCATGCCTTAATG
Found at i:13061 original size:74 final size:67
Alignment explanation
Indices: 13004--13191 Score: 250
Period size: 74 Copynumber: 2.7 Consensus size: 67
12994 TTCAATTATG
* *
13004 GCATCCCTTCATGCCTTAATGCATCCTTTCATGCATTTTCAATTATGGCATCTTTTCATGCCTTA
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTCAATTATGGCATCCTTTCATGCCTTA
13069 AT
66 AT
* * * *
13071 GCATCCTTTCATGCATTTTCAATTATGGCATCCCTTCATGTATTTTCAATTATGGCATCCGTTCA
1 GCATCCTTTCATGC--CTT--A--AT-GCATCCTTTCATGCATTTTCAATTATGGCATCCTTTCA
13136 TGCCTTAAT
59 TGCCTTAAT
*
13145 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTCACTTATG
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTCAATTATG
13192 AATTTGATTT
Statistics
Matches: 104, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
67 37 0.36
68 2 0.02
69 2 0.02
70 1 0.01
71 1 0.01
72 2 0.02
73 2 0.02
74 57 0.55
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (67 bp):
GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTCAATTATGGCATCCTTTCATGCCTTA
AT
Found at i:13080 original size:20 final size:20
Alignment explanation
Indices: 13004--13084 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 20
12994 TTCAATTATG
*
13004 GCATCCCTTCATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
*
13024 GCATCCTTTCATGCATTTTCAATTAT
1 GCATCCTTTCATGC--CTT--A--AT
*
13050 GGCATCTTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
13071 GCATCCTTTCATGC
1 GCATCCTTTCATGC
13085 ATTTTCAATT
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
20 26 0.53
21 2 0.04
22 2 0.04
23 1 0.02
24 1 0.02
25 2 0.04
26 2 0.04
27 13 0.27
ACGTcount: A:0.20, C:0.28, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATCCTTTCATGCCTTAAT
Found at i:13150 original size:20 final size:20
Alignment explanation
Indices: 13125--13178 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
13115 TTCAATTATG
*
13125 GCATCCGTTCATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
13145 GCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
13165 GCATCCTTTCATGC
1 GCATCCTTTCATGC
13179 ATTTTCACTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.19, C:0.31, G:0.13, T:0.37
Consensus pattern (20 bp):
GCATCCTTTCATGCCTTAAT
Found at i:13757 original size:20 final size:20
Alignment explanation
Indices: 13728--13777 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
13718 ATGTTTACCA
13728 GTATCGATACCCTTACCATG
1 GTATCGATACCCTTACCATG
*
13748 GTATCAATACCCTTACCATG
1 GTATCGATACCCTTACCATG
13768 GTATCGATAC
1 GTATCGATAC
13778 TACATCTTCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (20 bp):
GTATCGATACCCTTACCATG
Found at i:19929 original size:47 final size:47
Alignment explanation
Indices: 19869--19986 Score: 157
Period size: 47 Copynumber: 2.5 Consensus size: 47
19859 TATATGGCAA
*
19869 CCTTTTATGCATTTTCAATTATGACATTC-GTTCATGCCATAATGCAT
1 CCTTTAATGCATTTTCAATTATGACA-TCAGTTCATGCCATAATGCAT
* * * *
19916 CCTTTAATACATTTTCAATTATGGCATCATTTCATGCCTTAATGCAT
1 CCTTTAATGCATTTTCAATTATGACATCAGTTCATGCCATAATGCAT
* *
19963 CATTTCATGCATTTTCAATTATGA
1 CCTTTAATGCATTTTCAATTATGA
19987 ATTTGGTTTA
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 2 0.03
47 59 0.97
ACGTcount: A:0.27, C:0.20, G:0.09, T:0.43
Consensus pattern (47 bp):
CCTTTAATGCATTTTCAATTATGACATCAGTTCATGCCATAATGCAT
Found at i:22361 original size:11 final size:11
Alignment explanation
Indices: 22345--22372 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
22335 GATTGTATAA
22345 TTTTTATTATT
1 TTTTTATTATT
22356 TTTTTATTATT
1 TTTTTATTATT
22367 TTTTTA
1 TTTTTA
22373 ATTTCCATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTTATTATT
Found at i:24900 original size:21 final size:20
Alignment explanation
Indices: 24854--24907 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
24844 GATTCTAACT
24854 ATCGCATTGCGATTTTCCAA
1 ATCGCATTGCGATTTTCCAA
* *
24874 ATTCGCGTTGCGATTTTCGTAA
1 A-TCGCATTGCGATTTTC-CAA
*
24896 ATCGCAATGCGA
1 ATCGCATTGCGA
24908 ATACGTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 1 0.04
21 24 0.86
22 3 0.11
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.33
Consensus pattern (20 bp):
ATCGCATTGCGATTTTCCAA
Found at i:24916 original size:20 final size:20
Alignment explanation
Indices: 24891--24929 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
24881 TTGCGATTTT
*
24891 CGTAAATCGCAATGCGAATA
1 CGTAAATCGCAACGCGAATA
24911 CGTAAATCGCAACGCGAAT
1 CGTAAATCGCAACGCGAAT
24930 CTGACTATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (20 bp):
CGTAAATCGCAACGCGAATA
Found at i:25140 original size:22 final size:22
Alignment explanation
Indices: 25115--25190 Score: 80
Period size: 22 Copynumber: 3.5 Consensus size: 22
25105 CACTCTCTAA
* *
25115 GACGACATCCGTCCCCATCTCT
1 GACGAAATCAGTCCCCATCTCT
*
25137 GACGAAATCAGTCCCCATCTCC
1 GACGAAATCAGTCCCCATCTCT
* * * *
25159 GATGATATCAGTCTCCATCTCC
1 GACGAAATCAGTCCCCATCTCT
*
25181 GGCGAAATCA
1 GACGAAATCA
25191 TTCACGGTCA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.25, C:0.37, G:0.16, T:0.22
Consensus pattern (22 bp):
GACGAAATCAGTCCCCATCTCT
Found at i:25619 original size:20 final size:20
Alignment explanation
Indices: 25566--25620 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
25556 GGTAGTTAAA
* **
25566 TTCGCGTTGCGATAGTCATT
1 TTCGTGTTGCGATTTTCATT
25586 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
25606 TTCGTGTTGCGATTT
1 TTCGTGTTGCGATTT
25621 AAAGTTTCAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.11, C:0.16, G:0.24, T:0.49
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:25628 original size:20 final size:20
Alignment explanation
Indices: 25585--25628 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
25575 CGATAGTCAT
** *
25585 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTAAAG
25605 TTTCGTGTTGCGATTTAAAG
1 TTTCGTGTTGCGATTTAAAG
25625 TTTC
1 TTTC
25629 AGAAATTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTAAAG
Found at i:27541 original size:20 final size:20
Alignment explanation
Indices: 27516--27772 Score: 308
Period size: 20 Copynumber: 13.5 Consensus size: 20
27506 AGAATAGTTT
27516 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
27536 ACTATCGCAATGCAAAAATG
1 ACTATCGCAATGCGAAAATG
*
27556 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
*
27572 A--ATTGCAATGCG-AAATG
1 ACTATCGCAATGCGAAAATG
**
27589 AAAATCGCAA--C-AACAA--
1 ACTATCGCAATGCGAA-AATG
*
27605 A--ATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
27623 ACTATCGCAATGAGAAAATG
1 ACTATCGCAATGCGAAAATG
27643 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
27663 ACTACCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
27683 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
27703 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
27723 ACTATCGCAATGCAAAAATG
1 ACTATCGCAATGCGAAAATG
**
27743 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
27763 ACTATCGCAA
1 ACTATCGCAA
27773 CGAAAGAATC
Statistics
Matches: 208, Mismatches: 15, Indels: 28
0.83 0.06 0.11
Matches are distributed among these distances:
14 13 0.06
16 10 0.05
17 8 0.04
18 4 0.02
19 6 0.03
20 167 0.80
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.19
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:27661 original size:40 final size:40
Alignment explanation
Indices: 27516--27810 Score: 308
Period size: 40 Copynumber: 7.9 Consensus size: 40
27506 AGAATAGTTT
*
27516 ACTATCGCAATGCGAAAATGACTATCGCAATGCAAAAATG
1 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
* *
27556 ACTATCGCAA--CG-AGA-GA--ATTGCAATGCG-AAATG
1 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
** *
27589 AAAATCGCAA--C-AACAA--A--ATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAA-AATGACTATCGCAATGCGAAAATG
*
27623 ACTATCGCAATGAGAAAATGACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
*
27663 ACTACCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
*
27703 ACTATCGCAATGCGAAAATGACTATCGCAATGCAAAAATG
1 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
**
27743 ACTATCGCAATGCGAATTTGACTATCGCAA--CG-AAA-G
1 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
** *
27779 A--ATCGCAATGCG-AAATGAAAATCGCATTGCGA
1 ACTATCGCAATGCGAAAATGACTATCGCAATGCGA
27811 TTCTCTTGTT
Statistics
Matches: 218, Mismatches: 24, Indels: 30
0.80 0.09 0.11
Matches are distributed among these distances:
33 35 0.16
34 34 0.16
35 2 0.01
36 6 0.03
37 7 0.03
38 4 0.02
40 130 0.60
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.18
Consensus pattern (40 bp):
ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
Found at i:27844 original size:20 final size:20
Alignment explanation
Indices: 27818--27905 Score: 131
Period size: 20 Copynumber: 4.4 Consensus size: 20
27808 CGATTCTCTT
**
27818 GTTGCGATAGTCAAATTCGC
1 GTTGCGATAGTCATTTTCGC
* *
27838 ATTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGC
*
27858 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGC
27878 GTTGCGATAGTCATTTTCGC
1 GTTGCGATAGTCATTTTCGC
27898 GTTGCGAT
1 GTTGCGAT
27906 TTTAAGTTTC
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 62 1.00
ACGTcount: A:0.18, C:0.17, G:0.25, T:0.40
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGC
Found at i:28430 original size:18 final size:19
Alignment explanation
Indices: 28391--28432 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
28381 CTCACCTGTC
28391 ATCGTTCAAGAGGCCTCCCCT
1 ATCGTTCAAGAGG-C-CCCCT
28412 ATCGTTCAAGAGG-CCCCT
1 ATCGTTCAAGAGGCCCCCT
28430 ATC
1 ATC
28433 ATCCCTCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
21 13 0.62
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (19 bp):
ATCGTTCAAGAGGCCCCCT
Found at i:28486 original size:42 final size:42
Alignment explanation
Indices: 28414--28496 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
28404 CCTCCCCTAT
* *
28414 CGTTCAAGAGGCCCCTATCATCCCTCAAGA-GTCCCCTCCCAC
1 CGTTCAAGAGGCCACTATCATCACTCAAGAGGT-CCCTCCCAC
* * *
28456 CGTTCAAGAGGCCACTGTCATCATTGAAGAGGTCCCTCCCA
1 CGTTCAAGAGGCCACTATCATCACTCAAGAGGTCCCTCCCA
28497 ACATTCTAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 33 0.94
43 2 0.06
ACGTcount: A:0.23, C:0.39, G:0.18, T:0.20
Consensus pattern (42 bp):
CGTTCAAGAGGCCACTATCATCACTCAAGAGGTCCCTCCCAC
Found at i:29899 original size:14 final size:14
Alignment explanation
Indices: 29880--29915 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
29870 ATTGTTTAAT
29880 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
29894 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
29908 TGATTTGT
1 TGATTTGT
29916 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:30083 original size:33 final size:34
Alignment explanation
Indices: 30046--30116 Score: 117
Period size: 33 Copynumber: 2.1 Consensus size: 34
30036 TGACTATCGT
30046 AACGAGAGAATCGCAATGCG-AAATGAAAATCAC
1 AACGAGAGAATCGCAATGCGAAAATGAAAATCAC
* *
30079 AACGAGTGAATCGCAATGCGAAAATGAAAATCGC
1 AACGAGAGAATCGCAATGCGAAAATGAAAATCAC
30113 AACG
1 AACG
30117 TGAAACTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
33 19 0.54
34 16 0.46
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.13
Consensus pattern (34 bp):
AACGAGAGAATCGCAATGCGAAAATGAAAATCAC
Found at i:30200 original size:33 final size:34
Alignment explanation
Indices: 30131--30218 Score: 108
Period size: 33 Copynumber: 2.6 Consensus size: 34
30121 ACTAAATTCG
* *
30131 CGTTGCGATTTTCATTTTCGCATTTCGATTCACT
1 CGTTGCGAGTTTCATTTTCGCATTGCGATTCACT
* *
30165 CGTTGCGAGTTTCA-TTTCGCATTGCTATTCTCT
1 CGTTGCGAGTTTCATTTTCGCATTGCGATTCACT
*
30198 CGTTGCGA-TAGTCATTTTCGC
1 CGTTGCGAGT-TTCATTTTCGC
30219 GTTTTGATAG
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
32 1 0.02
33 27 0.57
34 19 0.40
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (34 bp):
CGTTGCGAGTTTCATTTTCGCATTGCGATTCACT
Found at i:30267 original size:20 final size:19
Alignment explanation
Indices: 30198--30266 Score: 75
Period size: 20 Copynumber: 3.5 Consensus size: 19
30188 GCTATTCTCT
30198 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCA-TTTCG
**
30218 CGTTTTGATAGTCATTTCCG
1 CGTTGCGATAGTCATTT-CG
* *
30238 TGTTGCGATTGTCATATTCG
1 CGTTGCGATAGTCAT-TTCG
30258 CGTTGCGAT
1 CGTTGCGAT
30267 TTCCGCGTTG
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
19 3 0.08
20 35 0.88
21 2 0.05
ACGTcount: A:0.14, C:0.19, G:0.25, T:0.42
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:33619 original size:20 final size:20
Alignment explanation
Indices: 33594--33647 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
33584 AAATTCAGTA
33594 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
33614 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
33634 TTGCGATAGTCAGA
1 TTGCGATAGTCAGA
33648 TTCGCATTGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCTCG
Found at i:33657 original size:20 final size:20
Alignment explanation
Indices: 33593--33660 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
33583 GAAATTCAGT
33593 ATTGCGATAGTCAGAATCTC
1 ATTGCGATAGTCAGAATCTC
*
33613 GTTGCGATAGTCAGAATCTC
1 ATTGCGATAGTCAGAATCTC
* * *
33633 GTTGCGATAGTCAGATTCGC
1 ATTGCGATAGTCAGAATCTC
33653 ATTGCGAT
1 ATTGCGAT
33661 TTACGTATTC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (20 bp):
ATTGCGATAGTCAGAATCTC
Found at i:33670 original size:20 final size:20
Alignment explanation
Indices: 33647--33779 Score: 230
Period size: 20 Copynumber: 6.7 Consensus size: 20
33637 CGATAGTCAG
33647 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
33667 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* *
33687 CTTCGTATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
33707 ATTCGCATTACGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
33727 ATTCTCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
33747 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
33767 ATTCGCATTGCGA
1 ATTCGCATTGCGA
33780 ATTAGGAAAA
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 105 1.00
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.41
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:33678 original size:40 final size:40
Alignment explanation
Indices: 33634--33760 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
33624 CAGAATCTCG
33634 TTGCGATAGTCAGATTCGCATTGCGATTTACGTATTCGCA
1 TTGCGATAGTCAGATTCGCATTGCGATTTACGTATTCGCA
*
33674 TTGCGATTTACGTC---TTCGTATTGCGATTTACGTATTCGCA
1 TTGCGA--TA-GTCAGATTCGCATTGCGATTTACGTATTCGCA
* * *
33714 TTACGAT--TTACGTATTCTCATTGCGATTTACGTATTCGCA
1 TTGCGATAGTCA-G-ATTCGCATTGCGATTTACGTATTCGCA
33754 TTGCGAT
1 TTGCGAT
33761 TTACGTATTC
Statistics
Matches: 73, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
35 1 0.01
38 1 0.01
40 66 0.90
42 2 0.03
43 3 0.04
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (40 bp):
TTGCGATAGTCAGATTCGCATTGCGATTTACGTATTCGCA
Found at i:33799 original size:21 final size:21
Alignment explanation
Indices: 33769--33821 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
33759 ATTTACGTAT
*
33769 TCGCATTGCGAATTAGGAAAA
1 TCGCAATGCGAATTAGGAAAA
*
33790 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAGGAAAA
33811 TCGCAATGCGA
1 TCGCAATGCGA
33822 TAGTCAGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTAGGAAAA
Found at i:38813 original size:25 final size:25
Alignment explanation
Indices: 38784--38839 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
38774 TATAACTGAA
38784 AATAATGACAAGATAACCACATGAT
1 AATAATGACAAGATAACCACATGAT
*
38809 AATAATGACAAGATAATCACATGAT
1 AATAATGACAAGATAACCACATGAT
*
38834 AGTAAT
1 AATAAT
38840 AGTATATGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.23
Consensus pattern (25 bp):
AATAATGACAAGATAACCACATGAT
Found at i:41594 original size:42 final size:42
Alignment explanation
Indices: 41548--41736 Score: 163
Period size: 41 Copynumber: 4.6 Consensus size: 42
41538 TAGCGGTATT
** ** *
41548 TTTAGCAGCATTTTTAGAACAAACGTCATTAAATACTTATAC
1 TTTAGCAGTGTTTTTAGAACAAACGTCGCTAAATACTTGTAC
* * * *
41590 TTTAGTAGTGTTTTTA-TACAAACGCCGCTAAAGAC-TGTAC
1 TTTAGCAGTGTTTTTAGAACAAACGTCGCTAAATACTTGTAC
* *
41630 TTTAGCAGTGCTTTTAGAACAAACGTCGCTAAATACTCGTAC
1 TTTAGCAGTGTTTTTAGAACAAACGTCGCTAAATACTTGTAC
** * * *
41672 TTTAGTGGTGTTTTTA-ATACAAACGCCGATAAAGA-TTGTAC
1 TTTAGCAGTGTTTTTAGA-ACAAACGTCGCTAAATACTTGTAC
* * *
41713 TTTAGCGGCGTTTTTATAA-AAACG
1 TTTAGCAGTGTTTTTAGAACAAACG
41737 CTGTAGACTC
Statistics
Matches: 119, Mismatches: 24, Indels: 10
0.78 0.16 0.07
Matches are distributed among these distances:
40 23 0.19
41 51 0.43
42 45 0.38
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (42 bp):
TTTAGCAGTGTTTTTAGAACAAACGTCGCTAAATACTTGTAC
Found at i:42125 original size:41 final size:41
Alignment explanation
Indices: 41587--42117 Score: 669
Period size: 41 Copynumber: 13.0 Consensus size: 41
41577 TAAATACTTA
* * *
41587 TACTTTAGTAGTGTTTTTATACAAACGCCGCTAAAGACT-G
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCG
** * * * * * *
41627 TACTTTAGCAGTGCTTTTAGAACAAACGTCGCTAAATACTCG
1 TACTTTAGTGGCGTTTTTA-TACAAACGCCGCTATAGACTCG
* * * *
41669 TACTTTAGTGGTGTTTTTAATACAAACGCCGATAAAGA-TTG
1 TACTTTAGTGGCGTTTTT-ATACAAACGCCGCTATAGACTCG
* * *
41710 TACTTTAGCGGCGTTTTTATA-AAA--ACGCTGTAGACTCG
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCG
* *
41748 TACTTTAGTGGC-TTTTTATACAAACGCCGCTAAAGACTTG
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCG
* * *
41788 TACTTTAGTGGCGTTTTTATTCAAACGCCGCTAAAGACTCA
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCG
*
41829 TTCTTTAGTGGCGTTTTTAATACAAACGCCGCTATAGACTCG
1 TACTTTAGTGGCGTTTTT-ATACAAACGCCGCTATAGACTCG
* * *
41871 TATTTTAGTGGCGTTTTTATACAAACGCCGCTAGAGACTCA
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCG
*
41912 TACTTTAGTGGCGTTTTAATACAAACGCCGCTATAGACTCG
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCG
*
41953 TACTTTAGTGGCGTTTTAATACAAACGCCGCTATAGACTCG
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCG
* *
41994 TACTTTATTGGCGTTTTTATACAAACGCCACTATAGACTCG
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCG
* *
42035 TACTTTAGTGGAGTTTTTATACAAACGCCGCTATAGACTCA
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCG
* * *
42076 TACTTTAGTGGCGTTTTTTTACAAACTCCGCTGTAGACTCG
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCG
42117 T
1 T
42118 GCCTTAGTTG
Statistics
Matches: 430, Mismatches: 52, Indels: 17
0.86 0.10 0.03
Matches are distributed among these distances:
37 14 0.03
38 16 0.04
39 3 0.01
40 42 0.10
41 288 0.67
42 66 0.15
43 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (41 bp):
TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCG
Found at i:43478 original size:43 final size:43
Alignment explanation
Indices: 43428--43675 Score: 295
Period size: 43 Copynumber: 5.8 Consensus size: 43
43418 CGTTTTTACT
* * * * *
43428 AAAAACGCCGCTATAGATATGACTTTTTGCGACGTTTTTATCC
1 AAAAACGCCACTATAGATCTGACCTTTTGCGGCGTTTGTATCC
*
43471 AAAAACGCCACTATAGTTCTGACCTTTTGCGGCGTTTGTATCC
1 AAAAACGCCACTATAGATCTGACCTTTTGCGGCGTTTGTATCC
* * *
43514 AAAAATGCCACTATATATCTGACCTTTTACGGCGTTTGTATCC
1 AAAAACGCCACTATAGATCTGACCTTTTGCGGCGTTTGTATCC
* *
43557 AAAAACGCCGCTATAGATCTCGACATTTTGCGGCGTTTGT-TCC
1 AAAAACGCCACTATAGATCT-GACCTTTTGCGGCGTTTGTATCC
* * *
43600 -AAAATGCCGCTATAGATATCGACCTTTTGCGGCGTTTGT-TCC
1 AAAAACGCCACTATAGATCT-GACCTTTTGCGGCGTTTGTATCC
* * *
43642 AGAAACGCCACGATAGATCTTGACCTATTGCGGC
1 AAAAACGCCACTATAGATC-TGACCTTTTGCGGC
43676 ATTTTTTTGT
Statistics
Matches: 178, Mismatches: 24, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
42 39 0.22
43 121 0.68
44 18 0.10
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.31
Consensus pattern (43 bp):
AAAAACGCCACTATAGATCTGACCTTTTGCGGCGTTTGTATCC
Found at i:43624 original size:129 final size:129
Alignment explanation
Indices: 43428--43667 Score: 326
Period size: 129 Copynumber: 1.9 Consensus size: 129
43418 CGTTTTTACT
* *
43428 AAAAACGCCGCTATAGATATGACTTTTTGCGACGTTTTTATCCAAAAACGCCACTATAGTTCTGA
1 AAAAACGCCGCTATAGATATGACATTTTGCGACGTTTGTATCCAAAAACGCCACTATAGTTCTGA
* * *
43493 CCTTTTGCGGCGTTTGTATCCAAAAATGCCACTATATATC-TGACCTTTTACGGCGTTTGTATCC
66 CCTTTTGCGGCGTTTGT-TCCAAAAACGCCACGATAGATCTTGACCTTTTACGGCGTTTGTATCC
* * * *
43557 AAAAACGCCGCTATAGATCTCGACATTTTGCGGCGTTTGT-TCC-AAAATGCCGCTATAGATATC
1 AAAAACGCCGCTATAGATAT-GACATTTTGCGACGTTTGTATCCAAAAACGCCACTATAG-T-TC
*
43620 -GACCTTTTGCGGCGTTTGTTCCAGAAACGCCACGATAGATCTTGACCT
63 TGACCTTTTGCGGCGTTTGTTCCAAAAACGCCACGATAGATCTTGACCT
43668 ATTGCGGCAT
Statistics
Matches: 97, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
128 31 0.32
129 48 0.49
130 18 0.19
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (129 bp):
AAAAACGCCGCTATAGATATGACATTTTGCGACGTTTGTATCCAAAAACGCCACTATAGTTCTGA
CCTTTTGCGGCGTTTGTTCCAAAAACGCCACGATAGATCTTGACCTTTTACGGCGTTTGTATCC
Found at i:58698 original size:20 final size:20
Alignment explanation
Indices: 58675--58751 Score: 68
Period size: 23 Copynumber: 3.8 Consensus size: 20
58665 TTGGTGCAGA
*
58675 GGGAATCGATACCCCCATGA-
1 GGGAACCGATACCCCC-TGAG
*
58695 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATACCCCC--TG-AG
*
58718 GGGAACCGATTCCCCCT-AG
1 GGGAACCGATACCCCCTGAG
*
58737 GGGAATCGATACCCC
1 GGGAACCGATACCCC
58752 ATGGGGTTCT
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
19 15 0.31
20 14 0.29
21 3 0.06
22 1 0.02
23 16 0.33
ACGTcount: A:0.25, C:0.32, G:0.26, T:0.17
Consensus pattern (20 bp):
GGGAACCGATACCCCCTGAG
Found at i:58757 original size:18 final size:19
Alignment explanation
Indices: 58716--58757 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
58706 CCCCCTTTGA
* *
58716 AGGGGAACCGATTCCCCCT
1 AGGGGAACCGATACCCCAT
*
58735 AGGGGAATCGATACCCCAT
1 AGGGGAACCGATACCCCAT
58754 -GGGG
1 AGGGG
58758 TTCTGGTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.24, C:0.29, G:0.33, T:0.14
Consensus pattern (19 bp):
AGGGGAACCGATACCCCAT
Found at i:61550 original size:20 final size:19
Alignment explanation
Indices: 61513--61549 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
61503 AATTTTACAC
61513 TTAGGGAACCGATTCCCCA
1 TTAGGGAACCGATTCCCCA
*
61532 TTAGGGGACCGATTCCCC
1 TTAGGGAACCGATTCCCC
61550 CCACGCTCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.32, G:0.24, T:0.22
Consensus pattern (19 bp):
TTAGGGAACCGATTCCCCA
Found at i:64514 original size:191 final size:192
Alignment explanation
Indices: 64207--64551 Score: 464
Period size: 191 Copynumber: 1.8 Consensus size: 192
64197 GTTACGTCAT
* * *
64207 TAAATTATATAAAATTTTGTTATTAATAATTCACATCTTCACGAATAATACATTAAAACCAATCT
1 TAAATTATATAAAATCTTGTTATTAATAATTCACATCGTCACGAATAATACAATAAAACCAATCT
* * *
64272 ATATGTGACAAAATAGATATTGTCACATTTTCAGTGACCTAATATAATGTTACCTAATAGTATTA
66 ATATGTGACAAAAGAGATATTGTCAAATTTTCAGTGACATAATATAATGTTACCTAATAGTATTA
64337 TGAATGACAGA-TATGCATAACGTCATTTTATAACTTATATTGCATGATAGTTAGTTAGATCAC
131 TGAATGA-AGATTATGCAT-ACGTCATTTTATAACTTATATTGCATGATAGTTAGTTAGATCAC
* * * * *
64400 TAAATTATATAAAA-CTT-TTATTAATAATTTATATCGTCACGCATACTACAATAAAATCAA-CA
1 TAAATTATATAAAATCTTGTTATTAATAATTCACATCGTCACGAATAATACAATAAAACCAATC-
* * * * **
64462 TATATGTTACGAAAGAGATATTTTCAAATTTTTAGTGACATAATATAATGTTATGTAATAGTATT
65 TATATGTGACAAAAGAGATATTGTCAAATTTTCAGTGACATAATATAATGTTACCTAATAGTATT
* *
64527 TTGAATGATGATTATGCATACGTCA
130 ATGAATGAAGATTATGCATACGTCA
64552 CCTTATACAA
Statistics
Matches: 131, Mismatches: 19, Indels: 7
0.83 0.12 0.04
Matches are distributed among these distances:
190 9 0.07
191 106 0.81
192 2 0.02
193 14 0.11
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (192 bp):
TAAATTATATAAAATCTTGTTATTAATAATTCACATCGTCACGAATAATACAATAAAACCAATCT
ATATGTGACAAAAGAGATATTGTCAAATTTTCAGTGACATAATATAATGTTACCTAATAGTATTA
TGAATGAAGATTATGCATACGTCATTTTATAACTTATATTGCATGATAGTTAGTTAGATCAC
Done.