Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008536.1 Hibiscus syriacus cultivar Beakdansim tig00111423_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: 76052
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Found at i:5753 original size:28 final size:27
Alignment explanation
Indices: 5713--5770 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
5703 AGCTATTATA
*
5713 TTTTAGTTATATTT-TCATTGATGAAAG
1 TTTTACTTATATTTGTCA-TGATGAAAG
*
5740 TTTTACTTGATATTTGTTATGATGAAAG
1 TTTTACTT-ATATTTGTCATGATGAAAG
5768 TTT
1 TTT
5771 AGTTATGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 7 0.26
28 18 0.67
29 2 0.07
ACGTcount: A:0.28, C:0.03, G:0.16, T:0.53
Consensus pattern (27 bp):
TTTTACTTATATTTGTCATGATGAAAG
Found at i:10963 original size:5 final size:4
Alignment explanation
Indices: 10952--11172 Score: 136
Period size: 4 Copynumber: 60.8 Consensus size: 4
10942 ATATAATACA
* * *
10952 ATAT ATAGT ATAT -TAT A-AT ATAT ATACT ATAA ACAT GCTAT ATAT ACTAT
1 ATAT ATA-T ATAT ATAT ATAT ATAT ATA-T ATAT ATAT -ATAT ATAT A-TAT
* *
11002 ATA- ATGT A-AT ATAG ATAT ATA- ATAT ATAT ACTAT A-AT ATA- ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT A-TAT ATAT ATAT ATAT
* * *
11046 GTA- ATAT ATA- ATGT ATA- ATGT ATAT A-AT ATA- ATAT ATAT A-AT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
11088 ATA- ATAT ATAT A-AT ATA- ATA- ATAT A-AT ATA- ATAT A-AT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
11129 A-AT ATA- ATAT ATA- ATAT ATAT A-AT A-AT ATA- ATAT A-AT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
11170 ATA
1 ATA
11173 ATACCATATA
Statistics
Matches: 171, Mismatches: 16, Indels: 60
0.69 0.06 0.24
Matches are distributed among these distances:
3 76 0.44
4 77 0.45
5 18 0.11
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (4 bp):
ATAT
Found at i:10995 original size:27 final size:28
Alignment explanation
Indices: 10956--11168 Score: 96
Period size: 27 Copynumber: 7.9 Consensus size: 28
10946 AATACAATAT
10956 ATAGTATATTATAATATATATACTATAAAC
1 ATAG-ATA-TATAATATATATACTATAAAC
* * * *
10986 AT-GCTATAT-ATACTATATAATGT-AAT
1 ATAGATATATAATA-TATATACTATAAAC
*
11012 ATAGATATATAATATATATACTAT-AAT
1 ATAGATATATAATATATATACTATAAAC
* * *
11039 ATA-ATATGTAATATATA-A-TGTATAAT
1 ATAGATATATAATATATATACTATA-AAC
* * * *
11065 GTATATAATATAATATATATAATAT-AAT
1 ATAGAT-ATATAATATATATACTATAAAC
* * *
11093 ATATATAATATAATA-ATATAATAT-AAT
1 ATAGAT-ATATAATATATATACTATAAAC
*
11120 ATA-ATATATAATATA-ATA-TAT-AAT
1 ATAGATATATAATATATATACTATAAAC
* *
11144 ATATATA-ATAATATAATATAATATA
1 ATAGATATATAATAT-ATATACTATA
11169 TATAATACCA
Statistics
Matches: 155, Mismatches: 13, Indels: 32
0.77 0.06 0.16
Matches are distributed among these distances:
24 18 0.12
25 16 0.10
26 31 0.20
27 51 0.33
28 33 0.21
29 2 0.01
30 4 0.03
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.41
Consensus pattern (28 bp):
ATAGATATATAATATATATACTATAAAC
Found at i:11028 original size:7 final size:7
Alignment explanation
Indices: 10991--11175 Score: 136
Period size: 7 Copynumber: 25.4 Consensus size: 7
10981 TAAACATGCT
10991 ATATATA
1 ATATATA
*
10998 CTATATA
1 ATATATA
11005 ATGTAATATA
1 A--T-ATATA
11015 GATATATA
1 -ATATATA
11023 ATATAT-
1 ATATATA
11029 ATACTAT-
1 ATA-TATA
11036 A-ATATA
1 ATATATA
*
11042 ATATGTA
1 ATATATA
11049 ATATATA
1 ATATATA
*
11056 ATGTATA
1 ATATATA
11063 ATGTATATA
1 A--TATATA
11072 ATATA-A
1 ATATATA
11078 TATATATA
1 -ATATATA
11086 ATATA-A
1 ATATATA
11092 TATATATA
1 -ATATATA
11100 ATATAATA
1 ATAT-ATA
11108 ATATA-A
1 ATATATA
11114 TATAATATA
1 -AT-ATATA
11123 ATATAT-
1 ATATATA
11129 A-ATATA
1 ATATATA
11135 ATATATAA
1 ATATAT-A
11143 TATATATA
1 -ATATATA
11151 ATAATATA
1 AT-ATATA
11159 ATATA-A
1 ATATATA
11165 TATATATA
1 -ATATATA
11173 ATA
1 ATA
11176 CCATATAACA
Statistics
Matches: 148, Mismatches: 6, Indels: 48
0.73 0.03 0.24
Matches are distributed among these distances:
5 7 0.05
6 11 0.07
7 80 0.54
8 29 0.20
9 15 0.10
10 5 0.03
11 1 0.01
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.42
Consensus pattern (7 bp):
ATATATA
Found at i:11102 original size:51 final size:48
Alignment explanation
Indices: 10942--11175 Score: 183
Period size: 49 Copynumber: 4.9 Consensus size: 48
10932 ATAAAATCTA
* * *
10942 ATATAATACAATATATAGT-ATATTATAATAT-ATATACTATAAACATGCTAT
1 ATATAATATAATATATA-TAATA-TATAATATAATATA-TAT-AATAT-ATAT
*
10993 ATATACTATATAATGTAATATAGATATATAATAT-ATATACTATAATATA-AT
1 ATATA--ATATAATAT-ATATA-ATATATAATATAATATA-TATAATATATAT
* *
11044 ATGTAATAT-ATAATGTATAATGTATATAATATAATATATATAATATAATAT
1 ATATAATATAAT-ATATATAA--TATATAATATAATATATATAATAT-ATAT
11095 ATATAATATAATA-ATAT-A-ATATAATAT-A-ATATATAATATA-AT
1 ATATAATATAATATATATAATATATAATATAATATATATAATATATAT
11137 ATATAATAT-ATATA-AT-A-ATATAATATAATATATATAATA
1 ATATAATATAATATATATAATATATAATATAATATATATAATA
11176 CCATATAACA
Statistics
Matches: 159, Mismatches: 9, Indels: 38
0.77 0.04 0.18
Matches are distributed among these distances:
41 15 0.09
42 13 0.08
43 11 0.07
44 11 0.07
45 1 0.01
46 9 0.06
47 1 0.01
48 6 0.04
49 24 0.15
50 9 0.06
51 22 0.14
52 2 0.01
53 12 0.08
54 20 0.13
55 3 0.02
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (48 bp):
ATATAATATAATATATATAATATATAATATAATATATATAATATATAT
Found at i:11182 original size:12 final size:10
Alignment explanation
Indices: 11016--11175 Score: 87
Period size: 9 Copynumber: 16.3 Consensus size: 10
11006 TGTAATATAG
11016 ATATATAAT-
1 ATATATAATA
*
11025 ATATATACT-
1 ATATATAATA
11034 ATA-AT-ATA
1 ATATATAATA
*
11042 ATATGTAAT-
1 ATATATAATA
*
11051 ATATAATGTATA
1 ATAT-AT-AATA
*
11063 ATGTAT-AT-
1 ATATATAATA
11071 A-ATATAAT-
1 ATATATAATA
11079 ATATATAAT-
1 ATATATAATA
11088 ATAATATATATA
1 AT-ATATA-ATA
11100 ATATAATAAT-
1 ATAT-ATAATA
11110 ATAATATAATATA
1 AT-ATAT-A-ATA
11123 ATATATAATATA
1 ATATAT-A-ATA
11135 ATATATAAT-
1 ATATATAATA
11144 ATATATAATA
1 ATATATAATA
11154 ATATA-ATATA
1 ATATATA-ATA
11164 ATATAT-ATA
1 ATATATAATA
11173 ATA
1 ATA
11176 CCATATAACA
Statistics
Matches: 125, Mismatches: 7, Indels: 38
0.74 0.04 0.22
Matches are distributed among these distances:
7 4 0.03
8 9 0.07
9 43 0.34
10 27 0.22
11 14 0.11
12 26 0.21
13 2 0.02
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.42
Consensus pattern (10 bp):
ATATATAATA
Found at i:11182 original size:41 final size:42
Alignment explanation
Indices: 10940--11196 Score: 201
Period size: 41 Copynumber: 6.0 Consensus size: 42
10930 TAATAAAATC
* *
10940 TAATATAATACAATATATAGT-ATAT-TATAATATATATACTA
1 TAATATAATATAATATATA-TAATATATATAATATATATAATA
* ** * *
10981 TAAACATGCTATATATACTATATAATGTA-ATATAGATATATAATA
1 T-AATATAATATA-ATA-TATATAATATATATA-ATATATATAATA
* * * *
11026 T-ATATACTATAATATA-ATATGTAATATATAATGTATAATGTATA
1 TAATATAATATAATATATATA-AT-ATATATAATATAT-AT-AATA
11070 TAATATAATAT-ATATAATATAATATATATAATATA-ATAATA
1 TAATATAATATAATAT-ATATAATATATATAATATATATAATA
11111 TAATATAATATAATATATA-ATATAATATATAATATATAT-A-A
1 TAATATAATATAATATATATA-AT-ATATATAATATATATAATA
* * *
11152 TAATATAATATAATATATATAATACCATATAACATATATCATA
1 TAATATAATATAATATATATAATA-TATATAATATATATAATA
11195 TA
1 TA
11197 TTGTAATACC
Statistics
Matches: 174, Mismatches: 20, Indels: 42
0.74 0.08 0.18
Matches are distributed among these distances:
40 5 0.03
41 57 0.33
42 37 0.21
43 22 0.13
44 29 0.17
45 21 0.12
46 3 0.02
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (42 bp):
TAATATAATATAATATATATAATATATATAATATATATAATA
Found at i:11196 original size:46 final size:45
Alignment explanation
Indices: 10918--11196 Score: 215
Period size: 46 Copynumber: 6.1 Consensus size: 45
10908 ATTAAAAACA
* *
10918 AATA-AATAATATTAATA-AA-ATCTA-ATATAATACAATATATAGT
1 AATATAATAATA-TAATATAATATATATATATAATATAATATATA-T
* * * * *
10961 ATATTATAATATATATACTATAAACATGCTATATATACTAT-ATA-ATGT
1 A-A-TATAATA-ATATAATAT-AATAT-ATATATATAATATAATATATAT
*
11009 AATATAGAT-ATATAATAT-ATATACTATAATATAATAT-GTAATATAT
1 AATATA-ATAATATAATATAATATA-TAT-ATATAATATAAT-ATATAT
* *
11055 AATGT-ATAATGT-ATATAATATAATATATATAATATAATATATAT
1 AATATAATAATATAATATAATAT-ATATATATAATATAATATATAT
11099 AATATAATAATATAATATAATATA-ATATATAATATAATATATAAT
1 AATATAATAATATAATATAATATATATATATAATATAATATAT-AT
*
11144 ATATATAATAATATAATATAATATATATA-ATACCATATAACATATAT
1 A-ATATAATAATATAATATAATATATATATATA--ATATAATATATAT
*
11191 CATATA
1 AATATA
11197 TTGTAATACC
Statistics
Matches: 194, Mismatches: 17, Indels: 47
0.75 0.07 0.18
Matches are distributed among these distances:
43 7 0.04
44 53 0.27
45 32 0.16
46 60 0.31
47 11 0.06
48 14 0.07
49 4 0.02
50 6 0.03
51 7 0.04
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.40
Consensus pattern (45 bp):
AATATAATAATATAATATAATATATATATATAATATAATATATAT
Found at i:11397 original size:2 final size:2
Alignment explanation
Indices: 11390--11421 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
11380 ACTATAGTAG
11390 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11422 GAAATAAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12073 original size:20 final size:20
Alignment explanation
Indices: 12050--12113 Score: 119
Period size: 20 Copynumber: 3.2 Consensus size: 20
12040 GTGGTATAGT
12050 TACCATGGTAAGGGTATCGA
1 TACCATGGTAAGGGTATCGA
12070 TACCATGGTAAGGGTATCGA
1 TACCATGGTAAGGGTATCGA
*
12090 TACCATGGTAAGGGTGTCGA
1 TACCATGGTAAGGGTATCGA
12110 TACC
1 TACC
12114 GGTAAACATC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (20 bp):
TACCATGGTAAGGGTATCGA
Found at i:12200 original size:20 final size:20
Alignment explanation
Indices: 12136--12210 Score: 66
Period size: 22 Copynumber: 3.8 Consensus size: 20
12126 ATTTAATTTT
12136 GGTATCGATACC-TAAG-G-G
1 GGTATCGATACCAT-AGTGAG
* * *
12154 GGTATCGGTATCATAGTATAGG
1 GGTATCGATACCATAGT-GA-G
12176 GGTATCGATACCATAGTGAG
1 GGTATCGATACCATAGTGAG
*
12196 GGTATCAATACCATA
1 GGTATCGATACCATA
12211 CTACATTGAA
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
18 12 0.27
19 1 0.02
20 15 0.33
21 1 0.02
22 16 0.36
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.27
Consensus pattern (20 bp):
GGTATCGATACCATAGTGAG
Found at i:12838 original size:79 final size:79
Alignment explanation
Indices: 12706--12857 Score: 207
Period size: 79 Copynumber: 1.9 Consensus size: 79
12696 TGAAACGAAT
* * * * * *
12706 ATAAAAGAATAATGCATATGGGTGCATTATTGGCTTGAAATAATGCTATAGTTGAAATGTATATG
1 ATAAAAGAATAATGCATATGGATGCATTATTGGCATGAAAGAATACTAGAGTTGAAATGCATATG
12771 GGTACATTGCCAGC
66 GGTACATTGCCAGC
* *
12785 ATAAAGGAATAATGCATATGGATGCATTATTGGCATGAAAGGATAAC-AGAGTTGAAATGCATAT
1 ATAAAAGAATAATGCATATGGATGCATTATTGGCATGAAAGAAT-ACTAGAGTTGAAATGCATAT
*
12849 GGGTGCATT
65 GGGTACATT
12858 ATCAACAGAA
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
79 62 0.98
80 1 0.02
ACGTcount: A:0.37, C:0.09, G:0.24, T:0.30
Consensus pattern (79 bp):
ATAAAAGAATAATGCATATGGATGCATTATTGGCATGAAAGAATACTAGAGTTGAAATGCATATG
GGTACATTGCCAGC
Found at i:12948 original size:90 final size:90
Alignment explanation
Indices: 12832--13162 Score: 387
Period size: 90 Copynumber: 3.7 Consensus size: 90
12822 AAAGGATAAC
* *
12832 AGAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTAAACTATAGTTAAAATGCATATGGG
1 AGAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACTATAGTTAAAATGCATATGGG
* *
12897 TGCATTATCAACAGAAAAGTATGCT
66 TACATTATCAACAGAAAAGTATACT
* * * * * * *
12922 AGAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTTTACTATGGTTGAGATGTATGTGGG
1 AGAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACTATAGTTAAAATGCATATGGG
* *
12987 CACATTATCAACAGAAAAGTTTACT
66 TACATTATCAACAGAAAAGTATACT
* * * * * * * *
13012 ATG-GTTGAGATGTATGTGGGTACATTATCAACAGAAAAGTTTACTATGGTTGAGATGTATATGG
1 A-GAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACTATAGTTAAAATGCATATGG
*
13076 GTACATTATCAACATAAAAGTATACT
65 GTACATTATCAACAGAAAAGTATACT
* * * **
13102 ATAGTTTAAATGCATATGGGTGCATTATCAACAGAAAAG-ATGTTATAGTTTAAAATGCATA
1 AGAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACTATAG-TTAAAATGCATA
13163 ATGATGTATT
Statistics
Matches: 206, Mismatches: 32, Indels: 6
0.84 0.13 0.02
Matches are distributed among these distances:
89 5 0.02
90 200 0.97
91 1 0.00
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (90 bp):
AGAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACTATAGTTAAAATGCATATGGG
TACATTATCAACAGAAAAGTATACT
Found at i:13044 original size:135 final size:135
Alignment explanation
Indices: 12834--13162 Score: 401
Period size: 135 Copynumber: 2.4 Consensus size: 135
12824 AGGATAACAG
** *
12834 AGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTAAACTATAGTTAAAATGCATATGGGTG
1 AGTTGAAATGCATATGGGCACATTATCAACAGAAAAGTAAACTATAGTTAAAATGCATATGGGTA
* *
12899 CATTATCAACAGAAAAGTATGCTA-GAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTT
66 CATTATCAACAGAAAAGTATACTATG-GTTGAAATGTATATGGGTACATTATCAACAGAAAAGTA
12963 TACTAT
130 TACTAT
* * * * ** * * * * *
12969 GGTTGAGATGTATGTGGGCACATTATCAACAGAAAAGTTTACTATGGTTGAGATGTATGTGGGTA
1 AGTTGAAATGCATATGGGCACATTATCAACAGAAAAGTAAACTATAGTTAAAATGCATATGGGTA
* * *
13034 CATTATCAACAGAAAAGTTTACTATGGTTGAGATGTATATGGGTACATTATCAACATAAAAGTAT
66 CATTATCAACAGAAAAGTATACTATGGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTAT
13099 ACTAT
131 ACTAT
* ** ***
13104 AGTTTAAATGCATATGGGTGCATTATCAACAGAAAAG-ATGTTATAGTTTAAAATGCATA
1 AGTTGAAATGCATATGGGCACATTATCAACAGAAAAGTAAACTATAG-TTAAAATGCATA
13163 ATGATGTATT
Statistics
Matches: 158, Mismatches: 34, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
134 5 0.03
135 152 0.96
136 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (135 bp):
AGTTGAAATGCATATGGGCACATTATCAACAGAAAAGTAAACTATAGTTAAAATGCATATGGGTA
CATTATCAACAGAAAAGTATACTATGGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTAT
ACTAT
Found at i:13174 original size:45 final size:45
Alignment explanation
Indices: 12795--13162 Score: 292
Period size: 45 Copynumber: 8.2 Consensus size: 45
12785 ATAAAGGAAT
*** * * *
12795 AATGCATATGGATGCATTATTGGCATG-AAAGGATAAC-AGAGTTGA
1 AATGCATATGGATGCATTATCAACA-GAAAAGTAT-ACTATAGTTTA
* * *
12840 AATGCATATGGGTGCATTATCAACAGAAAAGTAAACTATAGTTAA
1 AATGCATATGGATGCATTATCAACAGAAAAGTATACTATAGTTTA
* * * *
12885 AATGCATATGGGTGCATTATCAACAGAAAAGTATGCTAGAGTTGA
1 AATGCATATGGATGCATTATCAACAGAAAAGTATACTATAGTTTA
* * * * * *
12930 AATGTATATGGGTACATTATCAACAGAAAAGTTTACTATGGTTGA
1 AATGCATATGGATGCATTATCAACAGAAAAGTATACTATAGTTTA
* * * *** * * *
12975 GATGTATGTGGGCACATTATCAACAGAAAAGTTTACTATGGTTGA
1 AATGCATATGGATGCATTATCAACAGAAAAGTATACTATAGTTTA
* * * * * * * *
13020 GATGTATGTGGGTACATTATCAACAGAAAAGTTTACTATGGTTGA
1 AATGCATATGGATGCATTATCAACAGAAAAGTATACTATAGTTTA
* * * * *
13065 GATGTATATGGGTACATTATCAACATAAAAGTATACTATAGTTTA
1 AATGCATATGGATGCATTATCAACAGAAAAGTATACTATAGTTTA
* **
13110 AATGCATATGGGTGCATTATCAACAGAAAAG-ATGTTATAGTTTAA
1 AATGCATATGGATGCATTATCAACAGAAAAGTATACTATAGTTT-A
13155 AATGCATA
1 AATGCATA
13163 ATGATGTATT
Statistics
Matches: 287, Mismatches: 33, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
44 13 0.05
45 274 0.95
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.30
Consensus pattern (45 bp):
AATGCATATGGATGCATTATCAACAGAAAAGTATACTATAGTTTA
Found at i:17911 original size:24 final size:24
Alignment explanation
Indices: 17819--17951 Score: 122
Period size: 24 Copynumber: 5.5 Consensus size: 24
17809 GAATGTTTTA
* *
17819 TCTGATTTCTGATTTGAATTTTGT
1 TCTGATTTCTGATCTGAATTCTGT
* * *
17843 TCTGATTTCCGATTTGAATTATGT
1 TCTGATTTCTGATCTGAATTCTGT
* * * *
17867 TCTAATTTCTAATATGAATTCGGT
1 TCTGATTTCTGATCTGAATTCTGT
* *
17891 TCTGATTTCTGATCTGGATTCTAT
1 TCTGATTTCTGATCTGAATTCTGT
* * *
17915 TCTGATATCTAATCTGAATTCTAT
1 TCTGATTTCTGATCTGAATTCTGT
* *
17939 TTTGATTTATGAT
1 TCTGATTTCTGAT
17952 ATCTTCGTTT
Statistics
Matches: 88, Mismatches: 21, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 88 1.00
ACGTcount: A:0.23, C:0.12, G:0.14, T:0.51
Consensus pattern (24 bp):
TCTGATTTCTGATCTGAATTCTGT
Found at i:18252 original size:154 final size:153
Alignment explanation
Indices: 17968--18284 Score: 460
Period size: 154 Copynumber: 2.1 Consensus size: 153
17958 GTTTACTGAC
* *
17968 TGATAAATGTTTTATTTGGGGGTTTATTGTTGGAGGAAAAATAATTACAGGTTCCTCGGCTTTGT
1 TGATAAATGTTTTATTTGGGGG-TTATTGTTGGAGGAAAAATAATTACAGGCTCCTCGGCTTTAT
* * *
18033 GCTCAGGGCCTAACTGTTGTGTCGGGGTTGTATGGTTTTGGGGAACCAACACATTATGTTTTGTT
65 GCTCAGGGCCTAACTGTTGTGTCGGGGTTGTATGGTTCTGGGGAACCAACACATCATGTTGTGTT
18098 CGGTTTGG-GGAATTTACTATGGTTTT
130 CGG--TGGAGGAA-TTACTATGGTTTT
* *
18124 TGATAAATGTTTTATTTGGGGG-TATTGTTGGAGGAAGAAT-ATATGCAGGCTCCTCGGCTTTAT
1 TGATAAATGTTTTATTTGGGGGTTATTGTTGGAGGAAAAATAAT-TACAGGCTCCTCGGCTTTAT
* *
18187 GCTCATGGCCTAACTGTTGTGTCGGGGTTGTATGGTTCTGGGGAACCTACACATCATGTTGTGTT
65 GCTCAGGGCCTAACTGTTGTGTCGGGGTTGTATGGTTCTGGGGAACCAACACATCATGTTGTGTT
*
18252 CGGTGGAAGGGATTACTATGGTTTT
130 CGGTGG-AGGAATTACTATGGTTTT
*
18277 TTATAAAT
1 TGATAAAT
18285 AAAAATATGT
Statistics
Matches: 147, Mismatches: 11, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
152 3 0.02
153 22 0.15
154 100 0.68
156 22 0.15
ACGTcount: A:0.21, C:0.12, G:0.29, T:0.39
Consensus pattern (153 bp):
TGATAAATGTTTTATTTGGGGGTTATTGTTGGAGGAAAAATAATTACAGGCTCCTCGGCTTTATG
CTCAGGGCCTAACTGTTGTGTCGGGGTTGTATGGTTCTGGGGAACCAACACATCATGTTGTGTTC
GGTGGAGGAATTACTATGGTTTT
Found at i:22599 original size:24 final size:24
Alignment explanation
Indices: 22571--22627 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 24
22561 GTTTTATCTA
*
22571 ATTTCTGATTTGAATTTTGTTCTG
1 ATTTCTGATTTGAATTATGTTCTG
*
22595 ATTTCTGATTTTAATTATGTTCTG
1 ATTTCTGATTTGAATTATGTTCTG
22619 ATTTCTGAT
1 ATTTCTGAT
22628 CTGATTTCCG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.19, C:0.09, G:0.14, T:0.58
Consensus pattern (24 bp):
ATTTCTGATTTGAATTATGTTCTG
Found at i:25417 original size:2 final size:2
Alignment explanation
Indices: 25410--25468 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
25400 TTTATCATGG
25410 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
25452 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
25469 TAGAGAAATA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:28373 original size:20 final size:21
Alignment explanation
Indices: 28333--28409 Score: 138
Period size: 21 Copynumber: 3.7 Consensus size: 21
28323 GTCGAGGGTT
28333 ATACAGTGGTCCTTCGGGATA
1 ATACAGTGGTCCTTCGGGATA
28354 ATACAGTGGTCCTT-GGGATA
1 ATACAGTGGTCCTTCGGGATA
*
28374 ATACAGTGGTCCTTCGGGACA
1 ATACAGTGGTCCTTCGGGATA
28395 ATACAGTGGTCCTTC
1 ATACAGTGGTCCTTC
28410 AAGACAAATT
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
20 20 0.37
21 34 0.63
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (21 bp):
ATACAGTGGTCCTTCGGGATA
Found at i:29081 original size:21 final size:22
Alignment explanation
Indices: 29055--29095 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
29045 AGCAGTACTG
*
29055 TAGCA-GGGTATCGGTTCCCTA
1 TAGCAGGGGAATCGGTTCCCTA
29076 TAGCAGGGGAATCGGTTCCC
1 TAGCAGGGGAATCGGTTCCC
29096 CTATGACAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.20, C:0.24, G:0.32, T:0.24
Consensus pattern (22 bp):
TAGCAGGGGAATCGGTTCCCTA
Found at i:29154 original size:21 final size:21
Alignment explanation
Indices: 29128--29195 Score: 73
Period size: 21 Copynumber: 3.1 Consensus size: 21
29118 AACATTCGGG
29128 TATTGTTCACGGTACTGTTCA
1 TATTGTTCACGGTACTGTTCA
* * *
29149 TATTGTTCACAGTAATGTTAA
1 TATTGTTCACGGTACTGTTCA
*
29170 TTATTGTTCATATGGTACTGTTCA
1 -TATTGTTC--ACGGTACTGTTCA
29194 TA
1 TA
29196 CCGTATTTAC
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
21 18 0.49
22 8 0.22
23 2 0.05
24 9 0.24
ACGTcount: A:0.25, C:0.13, G:0.16, T:0.46
Consensus pattern (21 bp):
TATTGTTCACGGTACTGTTCA
Found at i:29542 original size:45 final size:45
Alignment explanation
Indices: 29456--29711 Score: 302
Period size: 45 Copynumber: 5.7 Consensus size: 45
29446 ATAAAGGAAT
* * * * * *
29456 AATGCATATGGGTGCATTATTAGCATG-AAAGGATGCCAGAGTTGA
1 AATGTATATGGGTGCATTATCAACA-GAAAAGTATACTAGAGTTGA
* * *
29501 AACGCATATGGGTGCATTATCAACAGAAAAATATACTAGAGTTGA
1 AATGTATATGGGTGCATTATCAACAGAAAAGTATACTAGAGTTGA
* *
29546 AATGTATATGGGTGCATTATCAACAGAAAAGTATGCTAGAATTGA
1 AATGTATATGGGTGCATTATCAACAGAAAAGTATACTAGAGTTGA
*
29591 AATGTATATGGGTACATTATCAACAGAAAAGTATACTATG-GTT-A
1 AATGTATATGGGTGCATTATCAACAGAAAAGTATACTA-GAGTTGA
* * * * *
29635 AGATGTATATGAGTACATTATCAACATAAAAGTATATTATAGTTGA
1 A-ATGTATATGGGTGCATTATCAACAGAAAAGTATACTAGAGTTGA
*
29681 AATGCATATGGGTGCATTATCAACAGAAAAG
1 AATGTATATGGGTGCATTATCAACAGAAAAG
29712 ATGTTATAGT
Statistics
Matches: 183, Mismatches: 23, Indels: 10
0.85 0.11 0.05
Matches are distributed among these distances:
44 3 0.02
45 177 0.97
46 3 0.02
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (45 bp):
AATGTATATGGGTGCATTATCAACAGAAAAGTATACTAGAGTTGA
Found at i:30797 original size:36 final size:36
Alignment explanation
Indices: 30757--30828 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
30747 TACTGGGAAG
30757 AAGTGAATGAAGAATTATGTAAGACACTGGTTGTAT
1 AAGTGAATGAAGAATTATGTAAGACACTGGTTGTAT
30793 AAGTGAATGAAGAATTATGTAAGACACTGGTTGTAT
1 AAGTGAATGAAGAATTATGTAAGACACTGGTTGTAT
30829 TTTTTGATGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.39, C:0.06, G:0.25, T:0.31
Consensus pattern (36 bp):
AAGTGAATGAAGAATTATGTAAGACACTGGTTGTAT
Found at i:33190 original size:14 final size:15
Alignment explanation
Indices: 33170--33208 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
33160 TACTAAATAC
33170 TATTTAAATATTTAG
1 TATTTAAATATTTAG
33185 -ATTTAAAT-TTTAG
1 TATTTAAATATTTAG
33198 TATTATAAATA
1 TATT-TAAATA
33209 GAATAAGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 5 0.24
14 11 0.52
15 5 0.24
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (15 bp):
TATTTAAATATTTAG
Found at i:41341 original size:25 final size:24
Alignment explanation
Indices: 41307--41353 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
41297 ATAATTTTAA
* *
41307 TAAATTAAAATAAATTATATATTTT
1 TAAATGAAAATAAAATAT-TATTTT
41332 TAAATGAAAATAAAATATTATT
1 TAAATGAAAATAAAATATTATT
41354 AAATTAAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
TAAATGAAAATAAAATATTATTTT
Found at i:41401 original size:25 final size:24
Alignment explanation
Indices: 41359--41407 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
41349 TTATTAAATT
*
41359 AAGTTAATAGTAATATATATTTAAG
1 AAGTTAATAGTAAAATAT-TTTAAG
41384 AAGTTAATA-TAAAAATATTTTAAG
1 AAGTTAATAGT-AAAATATTTTAAG
41408 TTAATATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (24 bp):
AAGTTAATAGTAAAATATTTTAAG
Found at i:41410 original size:21 final size:22
Alignment explanation
Indices: 41357--41421 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 22
41347 TATTATTAAA
*
41357 TTAAGTTAATAGTAATATATATT
1 TTAAGTTAATA-TAATAAATATT
*
41380 TAAGAAGTTAATATAA-AAATATT
1 T--TAAGTTAATATAATAAATATT
41403 TTAAGTTAATATATATAAA
1 TTAAGTTAATATA-ATAAA
41422 ATTATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
21 11 0.31
22 1 0.03
23 11 0.31
24 3 0.09
25 9 0.26
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.42
Consensus pattern (22 bp):
TTAAGTTAATATAATAAATATT
Found at i:43329 original size:21 final size:21
Alignment explanation
Indices: 43303--43347 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
43293 GATTTCTGGG
* *
43303 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
43324 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
43345 CAA
1 CAA
43348 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:45051 original size:23 final size:22
Alignment explanation
Indices: 44992--45058 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
44982 TATGGACATC
*
44992 ATTCTACGGGCACTACGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
45014 ATTCTACGGGCACTTCGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
45036 ATTCTACGGGGCACTTCGGTGCA
1 ATTCTAC-GGGCACTTCGGTGCA
45059 TTTATACGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 28 0.65
23 15 0.35
ACGTcount: A:0.19, C:0.27, G:0.28, T:0.25
Consensus pattern (22 bp):
ATTCTACGGGCACTTCGGTGCA
Found at i:46589 original size:22 final size:22
Alignment explanation
Indices: 46559--46642 Score: 132
Period size: 22 Copynumber: 3.8 Consensus size: 22
46549 ATTCAGCTGT
*
46559 TATAACTCCTGAAATTATATCA
1 TATAACTCCTGAAATTAAATCA
*
46581 TGTAACTCCTGAAATTAAATCA
1 TATAACTCCTGAAATTAAATCA
46603 TATAACTCCTGAAATTAAATCA
1 TATAACTCCTGAAATTAAATCA
* *
46625 TATAACTCTTGATATTAA
1 TATAACTCCTGAAATTAA
46643 CAGCTTGTCT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 57 1.00
ACGTcount: A:0.42, C:0.17, G:0.06, T:0.36
Consensus pattern (22 bp):
TATAACTCCTGAAATTAAATCA
Found at i:48630 original size:21 final size:21
Alignment explanation
Indices: 48606--48665 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
48596 ACACCGCCAG
48606 TTCAGATGGCACCACAACCAT
1 TTCAGATGGCACCACAACCAT
* * *
48627 TTCAGATAGCACCGCAACTAT
1 TTCAGATGGCACCACAACCAT
* *
48648 TTTAGACGGCACCACAAC
1 TTCAGATGGCACCACAAC
48666 TGTTTTAGAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.33, C:0.32, G:0.15, T:0.20
Consensus pattern (21 bp):
TTCAGATGGCACCACAACCAT
Found at i:48666 original size:21 final size:21
Alignment explanation
Indices: 48613--48684 Score: 74
Period size: 21 Copynumber: 3.4 Consensus size: 21
48603 CAGTTCAGAT
* *
48613 GGCACCACAACCATTTCAGATA
1 GGCACCACAACTATTTTAGA-A
* *
48635 -GCACCGCAACTATTTTAGAC
1 GGCACCACAACTATTTTAGAA
*
48655 GGCACCACAACTGTTTTAGAA
1 GGCACCACAACTATTTTAGAA
*
48676 GCCACCACA
1 GGCACCACA
48685 GCCGTATCAG
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.33, C:0.32, G:0.15, T:0.19
Consensus pattern (21 bp):
GGCACCACAACTATTTTAGAA
Found at i:49223 original size:13 final size:13
Alignment explanation
Indices: 49182--49228 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
49172 ATGTTTTTAT
49182 TATTTAATTGTTTG
1 TATTTAA-TGTTTG
* *
49196 AATTGTAACGTTTG
1 TATT-TAATGTTTG
49210 TATTTAATGTTTG
1 TATTTAATGTTTG
49223 TATTTA
1 TATTTA
49229 CTTATTTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
13 14 0.50
14 11 0.39
15 3 0.11
ACGTcount: A:0.26, C:0.02, G:0.15, T:0.57
Consensus pattern (13 bp):
TATTTAATGTTTG
Found at i:49267 original size:13 final size:13
Alignment explanation
Indices: 49251--49278 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
49241 ATTTATTTTG
49251 TAATGTTTTAATT
1 TAATGTTTTAATT
49264 TAATGTTTTAATT
1 TAATGTTTTAATT
49277 TA
1 TA
49279 TTTTTCTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (13 bp):
TAATGTTTTAATT
Found at i:50934 original size:21 final size:20
Alignment explanation
Indices: 50910--50959 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
50900 GGATGAACAA
50910 TATCGATACTGATTGAAGTA-G
1 TATCGATACTGA-TGAAG-AGG
* *
50931 TATCGATATTGATGTAGAGG
1 TATCGATACTGATGAAGAGG
50951 TATCGATAC
1 TATCGATAC
50960 CAAGGGTAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 1 0.04
20 13 0.52
21 11 0.44
ACGTcount: A:0.32, C:0.10, G:0.24, T:0.34
Consensus pattern (20 bp):
TATCGATACTGATGAAGAGG
Found at i:51905 original size:23 final size:23
Alignment explanation
Indices: 51879--51984 Score: 99
Period size: 23 Copynumber: 4.6 Consensus size: 23
51869 CTACAAGGTC
51879 CTTCGGGACAAATCTATGTGGTT
1 CTTCGGGACAAATCTATGTGGTT
* *
51902 CTTCGGGACAATTCTACGTGG-T
1 CTTCGGGACAAATCTATGTGGTT
* *
51924 CATTCGGGACAAAT-TATACGCGGTG
1 C-TTCGGGACAAATCTAT--GTGGTT
* **
51949 CTTTGGGACAAATCTATGTGGCA
1 CTTCGGGACAAATCTATGTGGTT
*
51972 CTTCGGTACAAAT
1 CTTCGGGACAAAT
51985 TATACGCAGC
Statistics
Matches: 66, Mismatches: 12, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
22 4 0.06
23 44 0.67
24 14 0.21
25 4 0.06
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (23 bp):
CTTCGGGACAAATCTATGTGGTT
Found at i:51977 original size:47 final size:48
Alignment explanation
Indices: 51875--51991 Score: 136
Period size: 47 Copynumber: 2.5 Consensus size: 48
51865 AGTTCTACAA
* * *
51875 GGTC-CTTCGGGACAAATCTAT--GTGGTTCTTCGGGACAATTCTACGT
1 GGTCACTTCGGGACAAAT-TATACGCGGTGCTTCGGGACAAATCTACGT
* *
51921 GGTCA-TTCGGGACAAATTATACGCGGTGCTTTGGGACAAATCTATGT
1 GGTCACTTCGGGACAAATTATACGCGGTGCTTCGGGACAAATCTACGT
*
51968 GG-CACTTCGGTACAAATTATACGC
1 GGTCACTTCGGGACAAATTATACGC
51992 AGCACTTCGG
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
45 3 0.05
46 18 0.30
47 40 0.66
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.30
Consensus pattern (48 bp):
GGTCACTTCGGGACAAATTATACGCGGTGCTTCGGGACAAATCTACGT
Found at i:58093 original size:24 final size:24
Alignment explanation
Indices: 58022--58107 Score: 86
Period size: 24 Copynumber: 3.6 Consensus size: 24
58012 CTACATGGTC
* *
58022 CTTCGGAGACAAATTCTACGCGGTA
1 CTTCGGTG-CAAATTCTACGCGGCA
* * * *
58047 TTTCGAG-ACAAA-TCTATGTGGCA
1 CTTCG-GTGCAAATTCTACGCGGCA
58070 CTTCGGTGCAAATTCTACGCGGCA
1 CTTCGGTGCAAATTCTACGCGGCA
58094 CTTCGGTGCAAATT
1 CTTCGGTGCAAATT
58108 ATATGAGCAG
Statistics
Matches: 49, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
22 1 0.02
23 16 0.33
24 27 0.55
25 4 0.08
26 1 0.02
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (24 bp):
CTTCGGTGCAAATTCTACGCGGCA
Found at i:63499 original size:10 final size:10
Alignment explanation
Indices: 63484--63522 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
63474 AACGAACACA
63484 ATAAATGAAC
1 ATAAATGAAC
63494 ATAAATGAAC
1 ATAAATGAAC
* *
63504 GTAAACGAAC
1 ATAAATGAAC
63514 ATAAATGAA
1 ATAAATGAA
63523 AATATTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.59, C:0.10, G:0.13, T:0.18
Consensus pattern (10 bp):
ATAAATGAAC
Found at i:63513 original size:20 final size:20
Alignment explanation
Indices: 63485--63522 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
63475 ACGAACACAA
*
63485 TAAATGAACATAAATGAACG
1 TAAACGAACATAAATGAACG
63505 TAAACGAACATAAATGAA
1 TAAACGAACATAAATGAA
63523 AATATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (20 bp):
TAAACGAACATAAATGAACG
Found at i:63719 original size:10 final size:10
Alignment explanation
Indices: 63704--63740 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
63694 AAATGAATGC
63704 ACATAAACGA
1 ACATAAACGA
*
63714 ACATAAACAA
1 ACATAAACGA
63724 ACATAAACGA
1 ACATAAACGA
63734 ACATAAA
1 ACATAAA
63741 TTAACGAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.65, C:0.19, G:0.05, T:0.11
Consensus pattern (10 bp):
ACATAAACGA
Found at i:64643 original size:18 final size:19
Alignment explanation
Indices: 64620--64657 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
64610 TATAGCTTAT
64620 CATGCAA-AAATATAACAG
1 CATGCAAGAAATATAACAG
64638 CATGCAATGAAATATAACAG
1 CATGCAA-GAAATATAACAG
64658 GCAAGTCCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
20 11 0.61
ACGTcount: A:0.53, C:0.16, G:0.13, T:0.18
Consensus pattern (19 bp):
CATGCAAGAAATATAACAG
Found at i:71827 original size:17 final size:17
Alignment explanation
Indices: 71801--71851 Score: 66
Period size: 17 Copynumber: 3.0 Consensus size: 17
71791 TAATAGAGAC
* *
71801 TTATTTTGTTTTTTACA
1 TTATTCTGTTTTCTACA
71818 TTATTCTGTTTTCTACA
1 TTATTCTGTTTTCTACA
* *
71835 TTACTCTATTTTCTACA
1 TTATTCTGTTTTCTACA
71852 CTACCATTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.20, C:0.16, G:0.04, T:0.61
Consensus pattern (17 bp):
TTATTCTGTTTTCTACA
Done.