Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01013049.1 Corchorus capsularis cultivar CVL-1 contig13070, 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: 23359
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.35
Found at i:9553 original size:12 final size:12
Alignment explanation
Indices: 9536--9562 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
9526 GAAGTCACGG
9536 AATTTCTTAATT
1 AATTTCTTAATT
9548 AATTTCTTAATT
1 AATTTCTTAATT
9560 AAT
1 AAT
9563 ATTAATTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (12 bp):
AATTTCTTAATT
Found at i:10741 original size:32 final size:32
Alignment explanation
Indices: 10687--11113 Score: 316
Period size: 32 Copynumber: 13.0 Consensus size: 32
10677 CAGGCAGAAA
* * *
10687 ACTCCATTTTACTGATTGCTTCTTCTT-CTTTT
1 ACTCCATTCTGCTGATTACTTCTT-TTACTTTT
* *
10719 ACTCCCTTCTGCCGATTACTTCTTTTACTCCTTTT
1 ACTCCATTCTGCTGATTACTTCTTTTA---CTTTT
*
10754 ACTTCTACTTCATTCCGCTGATTACTTCTTTTACTTTT
1 A---CT-C--CATTCTGCTGATTACTTCTTTTACTTTT
*
10792 ACTTCATTCTGCTGATTACTTCTTTTACTTTT
1 ACTCCATTCTGCTGATTACTTCTTTTACTTTT
* *
10824 ACTTCATTCTGCTGATTATTTCTTTTACTTTT
1 ACTCCATTCTGCTGATTACTTCTTTTACTTTT
* * * *
10856 A-TCTTACTCTGCTGATTACTCCTTTTACTATT
1 ACTC-CATTCTGCTGATTACTTCTTTTACTTTT
* *
10888 ACTTCATTTTGCTGATTACTTCTTTTACTTTT
1 ACTCCATTCTGCTGATTACTTCTTTTACTTTT
** * *
10920 ACTCTTTTCTACTGATTACTCCTTTTACTTTT
1 ACTCCATTCTGCTGATTACTTCTTTTACTTTT
* * **
10952 ACTCTTAATTACCATTTTTCTGATTACTTCTTTCGCTTTT
1 A--C-----T-CCATTCTGCTGATTACTTCTTTTACTTTT
10992 ACTCCATT-TGACTGATTACTTC--TT-CTTTT
1 ACTCCATTCTG-CTGATTACTTCTTTTACTTTT
* *
11021 ACTTC-TT-TACTGATTACTTCTTTTACTTTT
1 ACTCCATTCTGCTGATTACTTCTTTTACTTTT
* * * *
11051 GC-CAATT-TTCTGATTACTTCCTTTACTTTT
1 ACTCCATTCTGCTGATTACTTCTTTTACTTTT
* * *
11081 ACTCTATTTTACTGATTACTTCTTTTACTTTT
1 ACTCCATTCTGCTGATTACTTCTTTTACTTTT
11113 A
1 A
11114 TTCTTAATTA
Statistics
Matches: 319, Mismatches: 49, Indels: 54
0.76 0.12 0.13
Matches are distributed among these distances:
27 11 0.03
28 3 0.01
29 11 0.03
30 31 0.10
31 8 0.03
32 190 0.60
33 2 0.01
34 1 0.00
35 8 0.03
38 9 0.03
39 2 0.01
40 23 0.07
41 20 0.06
ACGTcount: A:0.16, C:0.23, G:0.05, T:0.55
Consensus pattern (32 bp):
ACTCCATTCTGCTGATTACTTCTTTTACTTTT
Found at i:10781 original size:17 final size:17
Alignment explanation
Indices: 10759--10909 Score: 86
Period size: 16 Copynumber: 9.4 Consensus size: 17
10749 CTTTTACTTC
*
10759 TACTTCATTCCGCTGAT
1 TACTTCATTCTGCTGAT
* * *
10776 TACTTC-TTTTACT-TT
1 TACTTCATTCTGCTGAT
10791 TACTTCATTCTGCTGAT
1 TACTTCATTCTGCTGAT
* * *
10808 TACTTC-TTTTACT-TT
1 TACTTCATTCTGCTGAT
10823 TACTTCATTCTGCTGAT
1 TACTTCATTCTGCTGAT
* * * *
10840 TATTTC-TTTTACT-TT
1 TACTTCATTCTGCTGAT
*
10855 TATCTT-ACTCTGCTGAT
1 TA-CTTCATTCTGCTGAT
* * *
10872 TAC-TCCTTTTACT-AT
1 TACTTCATTCTGCTGAT
*
10887 TACTTCATTTTGCTGAT
1 TACTTCATTCTGCTGAT
10904 TACTTC
1 TACTTC
10910 TTTTACTTTT
Statistics
Matches: 96, Mismatches: 28, Indels: 20
0.67 0.19 0.14
Matches are distributed among these distances:
15 23 0.24
16 43 0.45
17 30 0.31
ACGTcount: A:0.17, C:0.23, G:0.07, T:0.54
Consensus pattern (17 bp):
TACTTCATTCTGCTGAT
Found at i:10870 original size:96 final size:95
Alignment explanation
Indices: 10770--11118 Score: 365
Period size: 96 Copynumber: 3.6 Consensus size: 95
10760 ACTTCATTCC
* *
10770 GCTGATTACTTCTTTTACTTTTACTTCATTCTGCTGATTACTTCTTTTACTTTTACTTCATTCTG
1 GCTGATTACTTCTTTTACTTTTACTTCATTTTGCTGATTACTTCTTTTACTTTTACTTC-TTCTA
* *
10835 CTGATTATTTCTTTTACTTTTATCTTACTCT
65 CTGATTACTTCTTTTACTTTTATCTTACTTT
* * *
10866 GCTGATTACTCCTTTTACTATTACTTCATTTTGCTGATTACTTCTTTTACTTTTACTCTTTTCTA
1 GCTGATTACTTCTTTTACTTTTACTTCATTTTGCTGATTACTTCTTTTACTTTTACT-TCTTCTA
*
10931 CTGATTACTCCTTTTACTTTTACTCTTAATTACCATTTT
65 CTGATTACTTCTTTTACTTTTA-TC----TTA-C--TTT
* ** *
10970 TCTGATTACTTCTTTCGCTTTTACTCCA-TTTGACTGATTACTTC--TT-CTTTTACTTCTT-TA
1 GCTGATTACTTCTTTTACTTTTACTTCATTTTG-CTGATTACTTCTTTTACTTTTACTTCTTCTA
* * *
11030 CTGATTACTTCTTTTACTTTT-GC-CAATTT
65 CTGATTACTTCTTTTACTTTTATCTTACTTT
* * *
11059 TCTGATTACTTCCTTTACTTTTAC-TCTATTTTACTGATTACTTCTTTTACTTTTA-TTCTT
1 GCTGATTACTTCTTTTACTTTTACTTC-ATTTTGCTGATTACTTCTTTTACTTTTACTTCTT
11119 AATTACCAAC
Statistics
Matches: 214, Mismatches: 24, Indels: 35
0.78 0.09 0.13
Matches are distributed among these distances:
88 1 0.00
89 36 0.17
90 3 0.01
91 7 0.03
92 7 0.03
96 78 0.36
97 4 0.02
99 22 0.10
100 3 0.01
101 11 0.05
102 3 0.01
103 4 0.02
104 35 0.16
ACGTcount: A:0.17, C:0.21, G:0.05, T:0.56
Consensus pattern (95 bp):
GCTGATTACTTCTTTTACTTTTACTTCATTTTGCTGATTACTTCTTTTACTTTTACTTCTTCTAC
TGATTACTTCTTTTACTTTTATCTTACTTT
Found at i:10940 original size:17 final size:15
Alignment explanation
Indices: 10870--10957 Score: 70
Period size: 16 Copynumber: 5.6 Consensus size: 15
10860 TACTCTGCTG
*
10870 ATTACTCCTTTTACT
1 ATTACTCTTTTTACT
* *
10885 ATTACTTCATTTTGCT
1 ATTAC-TCTTTTTACT
10901 GATTACT-TCTTTTACT
1 -ATTACTCT-TTTTACT
*
10917 TTTACTCTTTTCTACT
1 ATTACTCTTTT-TACT
*
10933 GATTACTCCTTTTACT
1 -ATTACTCTTTTTACT
*
10949 TTTACTCTT
1 ATTACTCTT
10958 AATTACCATT
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
15 20 0.34
16 24 0.41
17 14 0.24
ACGTcount: A:0.17, C:0.23, G:0.03, T:0.57
Consensus pattern (15 bp):
ATTACTCTTTTTACT
Found at i:10975 original size:72 final size:71
Alignment explanation
Indices: 10893--11158 Score: 217
Period size: 72 Copynumber: 3.5 Consensus size: 71
10883 CTATTACTTC
10893 ATTTTGCTGATTACTTCTTTTACTTTTACTCTTTTCTACTGATTACTCCTTTTACTTTTACTCTT
1 ATTTT-CTGATTACTTCTTTTACTTTTACTCTTTT-TACTGATTACTCCTTTTACTTTTACTCTT
10958 AATTACCA
64 AATTACCA
* ** * *
10966 TTTTTCTGATTACTTCTTTCGCTTTTACTCCATTTGACTGATTACTTCTTCTTTTACTTCTTTAC
1 ATTTTCTGATTACTTCTTTTACTTTTACT-CTTTTTACTGATTAC-TC--CTTTTA---C--T--
* *
11031 TGATTACTTCTTTTACTTTTGCCA
55 T--TTAC-TC--TTA--ATTACCA
* * *
11055 ATTTTCTGATTACTTCCTTTACTTTTACTCTATTTTACTGATTACTTCTTTTACTTTTATTCTTA
1 ATTTTCTGATTACTTCTTTTACTTTTACTCT-TTTTACTGATTACTCCTTTTACTTTTACTCTTA
11120 ATTACCA
65 ATTACCA
* * * *
11127 ACTTACTGATTTCCTCTTTTACTTTTACTCTT
1 ATTTTCTGATTACTTCTTTTACTTTTACTCTT
11159 AACTACCAAC
Statistics
Matches: 152, Mismatches: 22, Indels: 40
0.71 0.10 0.19
Matches are distributed among these distances:
71 1 0.01
72 62 0.41
73 10 0.07
74 3 0.02
75 6 0.04
76 2 0.01
77 3 0.02
78 1 0.01
79 1 0.01
80 1 0.01
81 1 0.01
82 1 0.01
83 1 0.01
84 4 0.03
85 2 0.01
86 6 0.04
87 3 0.02
88 2 0.01
89 42 0.28
ACGTcount: A:0.18, C:0.22, G:0.05, T:0.56
Consensus pattern (71 bp):
ATTTTCTGATTACTTCTTTTACTTTTACTCTTTTTACTGATTACTCCTTTTACTTTTACTCTTAA
TTACCA
Found at i:11036 original size:27 final size:30
Alignment explanation
Indices: 10971--11104 Score: 107
Period size: 30 Copynumber: 4.4 Consensus size: 30
10961 TACCATTTTT
10971 CTGATTACTTCTTTCGCTTTTACTCCATTTGA
1 CTGATTACTTC-TTC-CTTTTACTCCATTTGA
*
11003 CTGATTACTTCTT-CTTTTACTTC-TTT-A
1 CTGATTACTTCTTCCTTTTACTCCATTTGA
* * * *
11030 CTGATTACTTCTTTTACTTTTGC-CAATTT-T
1 CTGATTACTTC--TTCCTTTTACTCCATTTGA
* * *
11060 CTGATTACTTCCTTTACTTTTACTCTATTTTA
1 CTGATTACTT-C-TTCCTTTTACTCCATTTGA
11092 CTGATTACTTCTT
1 CTGATTACTTCTT
11105 TTACTTTTAT
Statistics
Matches: 87, Mismatches: 8, Indels: 16
0.78 0.07 0.14
Matches are distributed among these distances:
27 12 0.14
28 3 0.03
29 11 0.13
30 31 0.36
31 9 0.10
32 21 0.24
ACGTcount: A:0.16, C:0.22, G:0.06, T:0.55
Consensus pattern (30 bp):
CTGATTACTTCTTCCTTTTACTCCATTTGA
Found at i:11096 original size:161 final size:166
Alignment explanation
Indices: 10803--11156 Score: 445
Period size: 161 Copynumber: 2.2 Consensus size: 166
10793 CTTCATTCTG
* * * *
10803 CTGATTACTTCTTTTACTTTTACTTCATTCTGCTGATTATTTCTTTTACTTTTATCTTACTCTGC
1 CTGATTACTTCTTTCACTTTTACTCCATTCTGCTGATTACTTC-TTTACTTTTATCTTACTCTAC
*
10868 TGATTACTCCTTTTACTATTACTTCATTTTGCTGATTACTTCTTTTACTTTTACTCTTTTCTACT
65 TGATTACTCCTTTTACTATTAC-TCATTTTGCTGATTACTTCCTTTACTTTTACTCTTTTCTACT
10933 GATTACTCCTTTTACTTTTACTCTTAATTACCATTTTT
129 GATTACTCCTTTTACTTTTACTCTTAATTACCATTTTT
* *
10971 CTGATTACTTCTTTCGCTTTTACTCCATT-TGACTGATTACTTC-TT-CTTTTA-CTT-CTTTAC
1 CTGATTACTTCTTTCACTTTTACTCCATTCTG-CTGATTACTTCTTTACTTTTATCTTACTCTAC
* * *
11031 TGATTACTTCTTTTACTTTTGC-CAATTTT-CTGATTACTTCCTTTACTTTTACTCTATTT-TAC
65 TGATTACTCCTTTTACTATTACTC-ATTTTGCTGATTACTTCCTTTACTTTTACTCT-TTTCTAC
* * ** *
11093 TGATTACTTCTTTTACTTTTATTCTTAATTACCAACTTA
128 TGATTACTCCTTTTACTTTTACTCTTAATTACCATTTTT
* * *
11132 CTGATTTCCTCTTTTACTTTTACTC
1 CTGATTACTTCTTTCACTTTTACTC
11157 TTAACTACCA
Statistics
Matches: 164, Mismatches: 19, Indels: 13
0.84 0.10 0.07
Matches are distributed among these distances:
161 84 0.51
162 8 0.05
163 23 0.14
164 3 0.02
165 6 0.04
166 2 0.01
167 2 0.01
168 36 0.22
ACGTcount: A:0.18, C:0.22, G:0.05, T:0.56
Consensus pattern (166 bp):
CTGATTACTTCTTTCACTTTTACTCCATTCTGCTGATTACTTCTTTACTTTTATCTTACTCTACT
GATTACTCCTTTTACTATTACTCATTTTGCTGATTACTTCCTTTACTTTTACTCTTTTCTACTGA
TTACTCCTTTTACTTTTACTCTTAATTACCATTTTT
Found at i:11134 original size:40 final size:40
Alignment explanation
Indices: 11089--11198 Score: 166
Period size: 40 Copynumber: 2.8 Consensus size: 40
11079 TTACTCTATT
* *
11089 TTACTGATTACTTCTTTTACTTTTATTCTTAATTACCAAC
1 TTACTGATTACTTCTTTTACTTTTACTCTTAACTACCAAC
* *
11129 TTACTGATTTCCTCTTTTACTTTTACTCTTAACTACCAAC
1 TTACTGATTACTTCTTTTACTTTTACTCTTAACTACCAAC
* *
11169 TTATTGATTACTTCTTCTACTTTTACTCTT
1 TTACTGATTACTTCTTTTACTTTTACTCTT
11199 TCACTTTTAC
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 62 1.00
ACGTcount: A:0.22, C:0.23, G:0.03, T:0.53
Consensus pattern (40 bp):
TTACTGATTACTTCTTTTACTTTTACTCTTAACTACCAAC
Found at i:11219 original size:22 final size:22
Alignment explanation
Indices: 11194--11253 Score: 86
Period size: 22 Copynumber: 2.7 Consensus size: 22
11184 TCTACTTTTA
*
11194 CTCTTTCACTTTTACTGA-TGAC
1 CTCTTTTACTTTTACTGATTG-C
11216 CTCTTTTACTTTTACTGATTGC
1 CTCTTTTACTTTTACTGATTGC
*
11238 TTCTTTTACTTTTACT
1 CTCTTTTACTTTTACT
11254 CTTGATTACC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 33 0.94
23 2 0.06
ACGTcount: A:0.15, C:0.23, G:0.07, T:0.55
Consensus pattern (22 bp):
CTCTTTTACTTTTACTGATTGC
Found at i:11262 original size:138 final size:139
Alignment explanation
Indices: 11087--11372 Score: 373
Period size: 138 Copynumber: 2.1 Consensus size: 139
11077 TTTTACTCTA
* *
11087 TTTTACTGATTACTTCTTTTACTTTTATTCTTAATTACCAACTTACTGATT-TCCTCTTTTACTT
1 TTTTACTGATTACTTCTTTTACTTTTACTCTTAATTACCAACTTACTGATTATCCT-TTTTACCT
11151 TTACTCTTAACTACCA-ACTTAT-TGATTACTTCTTCTACTTTTACTCTT-TCACTTTTACTGAT
65 TTACTCTTAACTA--ATACTTATCTGATTACTTCTTCTACTTTTACTCTTATCACTTTTACTGAT
11213 GACCTCTTTTAC
128 GACCTCTTTTAC
* * * *
11225 TTTTACTGATTGCTTCTTTTACTTTTACTCTTGATTACCAATTTACTGCTTACTCCTTTTTACCT
1 TTTTACTGATTACTTCTTTTACTTTTACTCTTAATTACCAACTTACTGATTA-TCCTTTTTACCT
* * * * * *
11290 TTACTCTTAATTAATACTTTTCTGATTATTTCTTTTACTTTTACTCTTAATTACTTTTACTGATT
65 TTACTCTTAACTAATACTTATCTGATTACTTCTTCTACTTTTACTCTT-ATCACTTTTACTGATG
*
11355 ACTTCTTTTAC
129 ACCTCTTTTAC
*
11366 TCTTACT
1 TTTTACT
11373 TTTTTACTTT
Statistics
Matches: 128, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
137 1 0.01
138 51 0.40
139 43 0.34
140 4 0.03
141 29 0.23
ACGTcount: A:0.20, C:0.22, G:0.04, T:0.54
Consensus pattern (139 bp):
TTTTACTGATTACTTCTTTTACTTTTACTCTTAATTACCAACTTACTGATTATCCTTTTTACCTT
TACTCTTAACTAATACTTATCTGATTACTTCTTCTACTTTTACTCTTATCACTTTTACTGATGAC
CTCTTTTAC
Found at i:11345 original size:16 final size:16
Alignment explanation
Indices: 11324--11370 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
11314 ATTATTTCTT
11324 TTACTTTTACTCTTAA
1 TTACTTTTACTCTTAA
* *
11340 TTACTTTTACTGATTAC
1 TTACTTTTACT-CTTAA
11357 TT-CTTTTACTCTTA
1 TTACTTTTACTCTTA
11371 CTTTTTTACT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 3 0.11
16 19 0.70
17 5 0.19
ACGTcount: A:0.21, C:0.19, G:0.02, T:0.57
Consensus pattern (16 bp):
TTACTTTTACTCTTAA
Found at i:11349 original size:22 final size:21
Alignment explanation
Indices: 11321--11375 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 21
11311 CTGATTATTT
11321 CTTTTACTTTTAC-TCTTAATTA
1 CTTTTACTTTTACTTCTT--TTA
*
11343 CTTTTACTGATTACTTCTTTTA
1 CTTTTACT-TTTACTTCTTTTA
*
11365 CTCTTACTTTT
1 CTTTTACTTTT
11376 TTACTTTTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 2 0.07
22 18 0.64
23 4 0.14
24 4 0.14
ACGTcount: A:0.18, C:0.20, G:0.02, T:0.60
Consensus pattern (21 bp):
CTTTTACTTTTACTTCTTTTA
Found at i:11519 original size:55 final size:56
Alignment explanation
Indices: 11410--11519 Score: 150
Period size: 55 Copynumber: 2.0 Consensus size: 56
11400 CTGCTTACTT
* *
11410 CTTTTACTTTTTTAGCTTAATTACTCTTGAATTAAACCATTTGCTGATTACTCTTC
1 CTTTTACTTTTTTAGCTTAATTACTCTTGAATTAAACCAATTACTGATTACTCTTC
* * * * *
11466 CTTTTAC-TTTTTAGTTTAATTACTCTTGGATTAAACTAATTACTGCTTGCTCTT
1 CTTTTACTTTTTTAGCTTAATTACTCTTGAATTAAACCAATTACTGATTACTCTT
11520 TCTTCTTTAG
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
55 40 0.85
56 7 0.15
ACGTcount: A:0.23, C:0.18, G:0.08, T:0.51
Consensus pattern (56 bp):
CTTTTACTTTTTTAGCTTAATTACTCTTGAATTAAACCAATTACTGATTACTCTTC
Found at i:13989 original size:22 final size:22
Alignment explanation
Indices: 13964--14217 Score: 141
Period size: 22 Copynumber: 11.9 Consensus size: 22
13954 TCTTTACCCT
*
13964 TTACCATTTTTTTCTTTACTGA
1 TTACCATTTTCTTCTTTACTGA
13986 TTACTC-TTTTACTT-TTTACTGA
1 TTAC-CATTTT-CTTCTTTACTGA
* *
14008 TTACCATTTTAC-TCTTTTCTAA
1 TTACCATTTT-CTTCTTTACTGA
*
14030 TTACTATTTTAC--CGTTTACTGA
1 TTACCATTTT-CTTC-TTTACTGA
14052 TTACC-TTTGTACTT-TTTACTGA
1 TTACCATTT-T-CTTCTTTACTGA
*
14074 TTACCA-TTGCTTC-TTACTGA
1 TTACCATTTTCTTCTTTACTGA
*
14094 TTACCA-TTACTTC-TTACTGA
1 TTACCATTTTCTTCTTTACTGA
* * *
14114 TCACTA-TTAC-TCTTTACTGA
1 TTACCATTTTCTTCTTTACTGA
* * *
14134 CTACTC-TTTTAATT-TTCACTGA
1 TTAC-CATTTT-CTTCTTTACTGA
*
14156 TTACCATTTTACTT-TTTACTAA
1 TTACCATTTT-CTTCTTTACTGA
*
14178 TTACCATTTTAC-CCTTTACTGA
1 TTACCATTTT-CTTCTTTACTGA
14200 TTACC-TTTTACTT-TTTAC
1 TTACCATTTT-CTTCTTTAC
14218 CATTTTACCT
Statistics
Matches: 190, Mismatches: 24, Indels: 37
0.76 0.10 0.15
Matches are distributed among these distances:
19 2 0.01
20 46 0.24
21 20 0.11
22 118 0.62
23 4 0.02
ACGTcount: A:0.22, C:0.22, G:0.05, T:0.52
Consensus pattern (22 bp):
TTACCATTTTCTTCTTTACTGA
Found at i:14004 original size:44 final size:44
Alignment explanation
Indices: 13904--14250 Score: 132
Period size: 44 Copynumber: 7.9 Consensus size: 44
13894 CTGATTAATA
13904 TTTTACTCTTTACCATTTTTTTTTCTTTACTGGATTACTCTTTACTCTACT
1 TTTTACTCTTTACCA--TTTTTTTCTTTACT-GATTACTC-TT--T-TACT
* *
13955 CTTTACCCTTTACCATTTTTTTCTTTACTGATTACTCTTTTACT
1 TTTTACTCTTTACCATTTTTTTCTTTACTGATTACTCTTTTACT
** ** * * * *
13999 TTTTACTGATTACCATTTTACTCTTTTCTAATTACTATTTTACC
1 TTTTACTCTTTACCATTTTTTTCTTTACTGATTACTCTTTTACT
* ** * * *
14043 GTTTACTGATTACC-TTTGTACTT-TTTACTGATTAC-C-ATTGCT
1 TTTTACTCTTTACCATTT-T-TTTCTTTACTGATTACTCTTTTACT
* ** ** * *
14085 TCTTACTGATTACCA-TTACTTC-TTACTGA-T-CACTATTACT
1 TTTTACTCTTTACCATTTTTTTCTTTACTGATTACTCTTTTACT
* *** * *
14125 CTTTACTGACTACTC-TTTTAATT-TTCACTGATTAC-CATTTTACT
1 TTTTACTCTTTAC-CATTTT-TTTCTTTACTGATTACTC-TTTTACT
** ***
14169 TTTTACTAATTACCATTTTACCCTTTACTGATTAC-CTTTTACT
1 TTTTACTCTTTACCATTTTTTTCTTTACTGATTACTCTTTTACT
*
14212 TTTTAC-CATTTTACC--TTTTTACTCTTACT-ATTACTCTTT
1 TTTTACTC--TTTACCATTTTTTTCT-TTACTGATTACTCTTT
14251 CTTTATCATT
Statistics
Matches: 234, Mismatches: 43, Indels: 46
0.72 0.13 0.14
Matches are distributed among these distances:
38 1 0.00
39 2 0.01
40 25 0.11
41 3 0.01
42 35 0.15
43 29 0.12
44 100 0.43
45 2 0.01
47 2 0.01
48 8 0.03
49 14 0.06
51 13 0.06
ACGTcount: A:0.20, C:0.22, G:0.04, T:0.53
Consensus pattern (44 bp):
TTTTACTCTTTACCATTTTTTTCTTTACTGATTACTCTTTTACT
Found at i:14021 original size:66 final size:66
Alignment explanation
Indices: 13951--14562 Score: 173
Period size: 66 Copynumber: 9.4 Consensus size: 66
13941 CTCTTTACTC
** **
13951 TACTCTTTACCCTTTACCATTTTTTTC-TTTACTGATTACTCTTT-TACTTTTTACTGATTACCA
1 TACTCTTTACCAATTACCA-TTTTACCGTTTACTGATTAC-CTTTGTACTTTTTACTGATTACCA
14014 TTT
64 TTT
* * *
14017 TACTCTTTTCTAATTACTATTTTACCGTTTACTGATTACCTTTGTACTTTTTACTGATTACCA--
1 TACTCTTTACCAATTACCATTTTACCGTTTACTGATTACCTTTGTACTTTTTACTGATTACCATT
14080 T
66 T
* ** * * * * *
14081 TGCT-TCTTACTGATTACCA--TTA-CTTCTTACTGATCA-CTAT-TACTCTTTACTGACTACTC
1 TACTCT-TTACCAATTACCATTTTACCGT-TTACTGATTACCTTTGTACTTTTTACTGATTAC-C
14140 -TTT
63 ATTT
* ** ** * **
14143 TAAT-TTTCACTGATTACCATTTTACTTTTTACTAATTACCATTT-TACCCTTTACTGATTACC-
1 TACTCTTT-ACCAATTACCATTTTACCGTTTACTGATTACC-TTTGTACTTTTTACTGATTACCA
14205 TTT
64 TTT
* * * *
14208 TACTTTTTACCATTTTACCTTTTTA-C-TCTTACT-ATTACTCTTTCTTTATCATTTTTGTCTTT
1 TACTCTTTACCA-ATTACCATTTTACCGT-TTACTGATTAC-C-TT-TGTA-C-----T-T-TTT
*
14270 ACTGATT-GC-TCTT
53 ACTGATTACCAT-TT
* * * * * *
14283 TACTATTTACTAATTACCATTTTACCCTTT-CAGA-TACCTTTTTACTTTTTACTGATTACCTTT
1 TACTCTTTACCAATTACCATTTTACCGTTTACTGATTACCTTTGTACTTTTTACTGATTACCATT
14346 T
66 T
** * * * **
14347 TACT-TTTGACTGATTACCATTTTACTC-TTTTCTAATTA-CTATTTTACCGTTTACTGATTACC
1 TACTCTTT-ACCAATTACCATTTTAC-CGTTTACTGATTACCT-TTGTACTTTTTACTGATTACC
14409 -TTT
63 ATTT
* ** * * * *
14412 GTACTTTTTACTGATTACCATTGCTT--C--TTACTAATTACC-AT-TACTTCTTACTGATCA-C
1 -TACTCTTTACCAATTACCATT--TTACCGTTTACTGATTACCTTTGTACTTTTTACTGATTACC
*
14470 -TGT
63 ATTT
** * ** *
14473 TACTCTTTACTGACTACTC-TTTTA-ATTTTCACTGATTACCATTT-TACTTTTTACTAATTACC
1 TACTCTTTACCAATTAC-CATTTTACCGTTT-ACTGATTACC-TTTGTACTTTTTACTGATTACC
14535 ATTT
63 ATTT
* **
14539 TACCCTTTACTGATTACC-TTTTAC
1 TACTCTTTACCAATTACCATTTTAC
14563 TTTTTACCAT
Statistics
Matches: 430, Mismatches: 63, Indels: 106
0.72 0.11 0.18
Matches are distributed among these distances:
58 2 0.00
60 32 0.07
61 14 0.03
62 48 0.11
63 15 0.03
64 81 0.19
65 48 0.11
66 131 0.30
67 5 0.01
68 3 0.01
70 1 0.00
71 4 0.01
72 2 0.00
73 1 0.00
74 16 0.04
75 26 0.06
76 1 0.00
ACGTcount: A:0.21, C:0.22, G:0.05, T:0.52
Consensus pattern (66 bp):
TACTCTTTACCAATTACCATTTTACCGTTTACTGATTACCTTTGTACTTTTTACTGATTACCATT
T
Found at i:14131 original size:40 final size:41
Alignment explanation
Indices: 14044--14133 Score: 103
Period size: 40 Copynumber: 2.2 Consensus size: 41
14034 TATTTTACCG
* * * *
14044 TTTACTGATTACCTTTGTACTTTTTACTGATTACCATTGCT
1 TTTACTGATTACCTATGTACTTCTTACTGATCACCATTACT
*
14085 TCTTACTGATTACC-AT-TACTTCTTACTGATCACTATTACT
1 T-TTACTGATTACCTATGTACTTCTTACTGATCACCATTACT
14125 CTTTACTGA
1 -TTTACTGA
14134 CTACTCTTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
40 27 0.64
41 3 0.07
42 12 0.29
ACGTcount: A:0.22, C:0.22, G:0.08, T:0.48
Consensus pattern (41 bp):
TTTACTGATTACCTATGTACTTCTTACTGATCACCATTACT
Found at i:14245 original size:148 final size:148
Alignment explanation
Indices: 13976--14367 Score: 409
Period size: 148 Copynumber: 2.7 Consensus size: 148
13966 ACCATTTTTT
* * * *
13976 TCTTTACTGATTACTCTTTTACTTTTTACTGATTACCATTTTACTCTTTTCTAATTACTATTTTA
1 TCTTTACTGACTACTCTTTTAATTTTCACTGATTACCATTTTACTCTTTTCTAATTACCATTTTA
* *
14041 CCGTTTACTGATTACCTTTGTACTTTTTACTGATTACCATTGCTTCTTACTGATTACCATTACTT
66 CCCTTTACTGATTACCTTTGTACTTTTTACTGATTACCATTACTTCTTACTGATTACCATTACTT
14106 CTTACTGATCACTATTAC
131 CTTACTGATCACTATTAC
14124 TCTTTACTGACTACTCTTTTAATTTTCACTGATTACCATTTTACT-TTTTACTAATTACCATTTT
1 TCTTTACTGACTACTCTTTTAATTTTCACTGATTACCATTTTACTCTTTT-CTAATTACCATTTT
* * * *
14188 ACCCTTTACTGATTACCTTT-TACTTTTTAC-CATT----TTACCTTTTTACT-CTTACTATTAC
65 ACCCTTTACTGATTACCTTTGTACTTTTTACTGATTACCATTA-CTTCTTACTGATTACCATTAC
* * * **
14246 -TCTTTCTTTATCA-TTTTTG
129 TTCTTAC-TGATCACTATTAC
* * * * * *
14265 TCTTTACTGATTGCTC-TTTACTATTT-ACTAATTACCATTTTAC-CCTTTC-AGA-TACCTTTT
1 TCTTTACTGACTACTCTTTTAAT-TTTCACTGATTACCATTTTACTCTTTTCTA-ATTACCATTT
** * *
14325 TACTTTTTACTGATTACCTTTTTACTTTTGACTGATTACCATT
64 TACCCTTTACTGATTACCTTTGTACTTTTTACTGATTACCATT
14368 TTACTCTTTT
Statistics
Matches: 207, Mismatches: 25, Indels: 28
0.80 0.10 0.11
Matches are distributed among these distances:
138 27 0.13
139 11 0.05
140 27 0.13
141 25 0.12
142 16 0.08
143 8 0.04
144 2 0.01
146 3 0.01
147 14 0.07
148 74 0.36
ACGTcount: A:0.21, C:0.22, G:0.05, T:0.52
Consensus pattern (148 bp):
TCTTTACTGACTACTCTTTTAATTTTCACTGATTACCATTTTACTCTTTTCTAATTACCATTTTA
CCCTTTACTGATTACCTTTGTACTTTTTACTGATTACCATTACTTCTTACTGATTACCATTACTT
CTTACTGATCACTATTAC
Found at i:14342 original size:22 final size:22
Alignment explanation
Indices: 14267--14848 Score: 261
Period size: 22 Copynumber: 27.1 Consensus size: 22
14257 CATTTTTGTC
* * *
14267 TTTACTGATT-GCTCTTTACTA
1 TTTACTGATTACCTTTTTACTT
* * **
14288 TTTACTAATTACCATTTTACCC
1 TTTACTGATTACCTTTTTACTT
*
14310 TTT-CAGA-TACCTTTTTACTT
1 TTTACTGATTACCTTTTTACTT
14330 TTTACTGATTACCTTTTTACTT
1 TTTACTGATTACCTTTTTACTT
* *
14352 TTGACTGATTACCATTTTACTCT
1 TTTACTGATTACCTTTTTACT-T
* **
14375 TTT-CTAATTA-CTATTTTACCG
1 TTTACTGATTACCT-TTTTACTT
*
14396 TTTACTGATTACCTTTGTACTT
1 TTTACTGATTACCTTTTTACTT
* *
14418 TTTACTGATTACC--ATTGCTT
1 TTTACTGATTACCTTTTTACTT
* * *
14438 CTTACTAATTACC--ATTACTT
1 TTTACTGATTACCTTTTTACTT
* * * *
14458 CTTACTGATCA-C-TGTTACTC
1 TTTACTGATTACCTTTTTACTT
* *
14478 TTTACTGACTA-CTCTTTTAATT
1 TTTACTGATTACCT-TTTTACTT
* *
14500 TTCACTGATTACCATTTTACTT
1 TTTACTGATTACCTTTTTACTT
* * **
14522 TTTACTAATTACCATTTTACCC
1 TTTACTGATTACCTTTTTACTT
14544 TTTACTGATTACC-TTTTACTT
1 TTTACTGATTACCTTTTTACTT
*
14565 TTTACCAT-TTTACCTTTTTAC-T
1 TTTA-C-TGATTACCTTTTTACTT
*
14587 CTTACT-ATTACTCTTTCTTTATCATT
1 TTTACTGATTAC-C-TT-TTTA-C-TT
* **
14613 TTTGTCT--TTA-CTGATTACTC-T
1 TTT-ACTGATTACCTTTTTA--CTT
** * *
14634 TCCACTGATTAC-TCTTTACTC
1 TTTACTGATTACCTTTTTACTT
* **
14655 TTTACT-AGTTACCATTTTACCC
1 TTTACTGA-TTACCTTTTTACTT
*
14677 TTT-CAGA-TACCTTTTTACTT
1 TTTACTGATTACCTTTTTACTT
14697 TTTACTGATTACCTTTTTACTT
1 TTTACTGATTACCTTTTTACTT
* * *
14719 TTGACTGTTTA-C-TATTACTT
1 TTTACTGATTACCTTTTTACTT
* * * *
14739 CTTACTGATT-TC-TATTACTC
1 TTTACTGATTACCTTTTTACTT
* * ** *
14759 TTTACCGATTATCACTTTACTC
1 TTTACTGATTACCTTTTTACTT
* * **
14781 TTTACTAATTACCATTTTACCC
1 TTTACTGATTACCTTTTTACTT
*
14803 TTT-CAGA-TACCTTTTTACTT
1 TTTACTGATTACCTTTTTACTT
*
14823 TTTACTGATTGCCCTTTTTACTT
1 TTTACTGATT-ACCTTTTTACTT
14846 TTT
1 TTT
14849 TGGAACTTAA
Statistics
Matches: 428, Mismatches: 96, Indels: 72
0.72 0.16 0.12
Matches are distributed among these distances:
19 1 0.00
20 122 0.29
21 52 0.12
22 209 0.49
23 34 0.08
24 2 0.00
26 6 0.01
27 2 0.00
ACGTcount: A:0.21, C:0.22, G:0.05, T:0.52
Consensus pattern (22 bp):
TTTACTGATTACCTTTTTACTT
Found at i:14571 original size:352 final size:356
Alignment explanation
Indices: 13978--14730 Score: 1309
Period size: 352 Copynumber: 2.1 Consensus size: 356
13968 CATTTTTTTC
*
13978 TTTACTGATTA-CTCTTTTACTTTTTACTGATTACCATTTTACTCTTTTCTAATTACTATTTTAC
1 TTTACTGATTACCT-TTTTACTTTTGACTGATTACCATTTTACTCTTTTCTAATTACTATTTTAC
*
14042 CGTTTACTGATTACCTTTGTACTTTTTACTGATTACCATTGCTTCTTACTGATTACCATTACTTC
65 CGTTTACTGATTACCTTTGTACTTTTTACTGATTACCATTGCTTCTTACTAATTACCATTACTTC
14107 TTACTGATCACTATTACTCTTTACTGACTACTCTTTTAATTTTCACTGATTACCATTTTACTTTT
130 TTACTGATCACTATTACTCTTTACTGACTACTCTTTTAATTTTCACTGATTACCATTTTACTTTT
14172 TACTAATTACCATTTTACCCTTTACTGATTACCTTTTACTTTTTACCATTTTACCTTTTTACTCT
195 TACTAATTACCATTTTACCCTTTACTGATTACCTTTTACTTTTTACCATTTTACCTTTTTACTCT
14237 TACTATTACTCTTTCTTTATCATTTTTGTCTTTACTG-A-T-TG-CTCTTTACTATTTACTAATT
260 TACTATTACTCTTTCTTTATCATTTTTGTCTTTACTGTACTCTGACTCTTTACTATTTACTAATT
14298 ACCATTTTACCCTTTCAGATACCTTTTTACTT
325 ACCATTTTACCCTTTCAGATACCTTTTTACTT
14330 TTTACTGATTACCTTTTTACTTTTGACTGATTACCATTTTACTCTTTTCTAATTACTATTTTACC
1 TTTACTGATTACCTTTTTACTTTTGACTGATTACCATTTTACTCTTTTCTAATTACTATTTTACC
14395 GTTTACTGATTACCTTTGTACTTTTTACTGATTACCATTGCTTCTTACTAATTACCATTACTTCT
66 GTTTACTGATTACCTTTGTACTTTTTACTGATTACCATTGCTTCTTACTAATTACCATTACTTCT
*
14460 TACTGATCACTGTTACTCTTTACTGACTACTCTTTTAATTTTCACTGATTACCATTTTACTTTTT
131 TACTGATCACTATTACTCTTTACTGACTACTCTTTTAATTTTCACTGATTACCATTTTACTTTTT
14525 ACTAATTACCATTTTACCCTTTACTGATTACCTTTTACTTTTTACCATTTTACCTTTTTACTCTT
196 ACTAATTACCATTTTACCCTTTACTGATTACCTTTTACTTTTTACCATTTTACCTTTTTACTCTT
*
14590 ACTATTACTCTTTCTTTATCATTTTTGTCTTTACTGATTACTCTTCCACTGATTACTCTTTACTC
261 ACTATTACTCTTTCTTTATCATTTTTGTCTTTACTG--TA--C-T---CTG---ACTCTTTACTA
*
14655 TTTACTAGTTACCATTTTACCCTTTCAGATACCTTTTTACTT
315 TTTACTAATTACCATTTTACCCTTTCAGATACCTTTTTACTT
*
14697 TTTACTGATTACCTTTTTACTTTTGACTGTTTAC
1 TTTACTGATTACCTTTTTACTTTTGACTGATTAC
14731 TATTACTTCT
Statistics
Matches: 379, Mismatches: 6, Indels: 17
0.94 0.01 0.04
Matches are distributed among these distances:
352 290 0.77
353 2 0.01
355 1 0.00
359 1 0.00
363 2 0.01
367 83 0.22
ACGTcount: A:0.21, C:0.22, G:0.05, T:0.52
Consensus pattern (356 bp):
TTTACTGATTACCTTTTTACTTTTGACTGATTACCATTTTACTCTTTTCTAATTACTATTTTACC
GTTTACTGATTACCTTTGTACTTTTTACTGATTACCATTGCTTCTTACTAATTACCATTACTTCT
TACTGATCACTATTACTCTTTACTGACTACTCTTTTAATTTTCACTGATTACCATTTTACTTTTT
ACTAATTACCATTTTACCCTTTACTGATTACCTTTTACTTTTTACCATTTTACCTTTTTACTCTT
ACTATTACTCTTTCTTTATCATTTTTGTCTTTACTGTACTCTGACTCTTTACTATTTACTAATTA
CCATTTTACCCTTTCAGATACCTTTTTACTT
Found at i:14606 original size:126 final size:127
Alignment explanation
Indices: 14476--14844 Score: 348
Period size: 126 Copynumber: 2.9 Consensus size: 127
14466 TCACTGTTAC
* * *
14476 TCTTTACTGACTACTCTTTTAAT-TTTCACTGATTACCATTTTACTTTTTACTAATTACCATTTT
1 TCTTTACTGACTACTCTATTACTCTTTCACTGATTA-CATTTTACTCTTTACTAATTACCATTTT
* * *
14540 ACCCTTTACTGATTACC-TTTTACTTTTTACCAT-TTTACCTTTTTACTCTT-ACT-ATTACTCT
65 ACCCTTT-CAGA-TACCTTTTTACTTTTTACC-TGATTACCTTTTTACTCTTGACTGATTACTAT
14601 T
127 T
* * * *
14602 TCTTTATCATTTTTGTCTTTACT-GATTACTCTTCCACTGATTAC-TCTTTACTCTTTACTAGTT
1 TCTTTA-C-----TGAC--TACTCTATTACTCTTTCACTGATTACAT-TTTACTCTTTACTAATT
* *
14665 ACCATTTTACCCTTTCAGATACCTTTTTACTTTTTA-CTGATTACCTTTTTACTTTTGACTGTTT
57 ACCATTTTACCCTTTCAGATACCTTTTTACTTTTTACCTGATTACCTTTTTACTCTTGACTGATT
14729 ACTATT
122 ACTATT
* * * *
14735 ACTTCTTACTGA-T-TTCTATTACTCTTT-ACCGATTATCACTTTACTCTTTACTAATTACCATT
1 TC-T-TTACTGACTACTCTATTACTCTTTCACTGATTA-CATTTTACTCTTTACTAATTACCATT
*
14797 TTACCCTTTCAGATACCTTTTTACTTTTTA-CTGATTGCCCTTTTTACT
63 TTACCCTTTCAGATACCTTTTTACTTTTTACCTGATT-ACCTTTTTACT
14845 TTTTTGGAAC
Statistics
Matches: 202, Mismatches: 21, Indels: 39
0.77 0.08 0.15
Matches are distributed among these distances:
125 8 0.04
126 75 0.37
127 11 0.05
129 2 0.01
130 1 0.00
131 20 0.10
132 22 0.11
133 43 0.21
134 17 0.08
135 3 0.01
ACGTcount: A:0.20, C:0.23, G:0.04, T:0.52
Consensus pattern (127 bp):
TCTTTACTGACTACTCTATTACTCTTTCACTGATTACATTTTACTCTTTACTAATTACCATTTTA
CCCTTTCAGATACCTTTTTACTTTTTACCTGATTACCTTTTTACTCTTGACTGATTACTATT
Found at i:14709 original size:42 final size:43
Alignment explanation
Indices: 14648--14832 Score: 134
Period size: 42 Copynumber: 4.4 Consensus size: 43
14638 CTGATTACTC
*
14648 TTTACTCTTTACT-AGTTACCATTTTACCCTTT-CAGATACCTT
1 TTTACTTTTTACTGA-TTACCATTTTACCCTTTACAGATACCTT
* * * *
14690 TTTACTTTTTACTGATTACCTTTTTA-CTTTTGACTGTTTA-C-T
1 TTTACTTTTTACTGATTACCATTTTACCCTTT-ACAG-ATACCTT
* * * * * * * **
14732 ATTACTTCTTACTGATT-TC-TATTACTCTTTACCGATTATCAC
1 TTTACTTTTTACTGATTACCATTTTACCCTTTACAGA-TACCTT
* *
14774 TTTACTCTTTACTAATTACCATTTTACCCTTT-CAGATACCTT
1 TTTACTTTTTACTGATTACCATTTTACCCTTTACAGATACCTT
14816 TTTACTTTTTACTGATT
1 TTTACTTTTTACTGATT
14833 GCCCTTTTTA
Statistics
Matches: 106, Mismatches: 27, Indels: 20
0.69 0.18 0.13
Matches are distributed among these distances:
40 9 0.08
41 9 0.08
42 69 0.65
43 8 0.08
44 11 0.10
ACGTcount: A:0.21, C:0.22, G:0.05, T:0.52
Consensus pattern (43 bp):
TTTACTTTTTACTGATTACCATTTTACCCTTTACAGATACCTT
Found at i:14763 original size:20 final size:19
Alignment explanation
Indices: 14713--14768 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
14703 GATTACCTTT
14713 TTACTTTTGACTG-TTTACTA
1 TTACTTTT-ACTGATTT-CTA
14733 TTACTTCTTACTGATTTCTA
1 TTACTT-TTACTGATTTCTA
*
14753 TTACTCTTTACCGATT
1 TTACT-TTTACTGATT
14769 ATCACTTTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 26 0.81
21 6 0.19
ACGTcount: A:0.20, C:0.20, G:0.07, T:0.54
Consensus pattern (19 bp):
TTACTTTTACTGATTTCTA
Found at i:16488 original size:11 final size:12
Alignment explanation
Indices: 16464--16490 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
16454 AGACGGTGCA
16464 TTTTTGGTATTT
1 TTTTTGGTATTT
16476 TTTTTGGTATTT
1 TTTTTGGTATTT
16488 TTT
1 TTT
16491 GCTTCTGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.00, G:0.15, T:0.78
Consensus pattern (12 bp):
TTTTTGGTATTT
Found at i:22153 original size:31 final size:31
Alignment explanation
Indices: 22099--22258 Score: 133
Period size: 31 Copynumber: 5.5 Consensus size: 31
22089 TTTTGTGCAC
** * **
22099 GTGGCATGCCACGTCCCATTTTTTGAAACAT
1 GTGGCATGCCACGTGTCACTTTTTGGTACAT
*
22130 GTGGCATGCCACGTGTCACTTTTTGGTACAC
1 GTGGCATGCCACGTGTCACTTTTTGGTACAT
* * *
22161 GTGGCGTGACATGTGTCACTTTTTGGTACAT
1 GTGGCATGCCACGTGTCACTTTTTGGTACAT
22192 GT-G---G-CAC--G--ACTTTTTGGTACAT
1 GTGGCATGCCACGTGTCACTTTTTGGTACAT
* * *
22214 GTGGCGTGCCACATGTCACTTTTTGGTACAC
1 GTGGCATGCCACGTGTCACTTTTTGGTACAT
22245 GTGG-AGTGCCACGT
1 GTGGCA-TGCCACGT
22259 CGGACACCGT
Statistics
Matches: 105, Mismatches: 14, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
22 16 0.15
23 1 0.01
24 1 0.01
26 3 0.03
27 4 0.04
29 1 0.01
30 1 0.01
31 78 0.74
ACGTcount: A:0.17, C:0.23, G:0.27, T:0.33
Consensus pattern (31 bp):
GTGGCATGCCACGTGTCACTTTTTGGTACAT
Found at i:22210 original size:53 final size:53
Alignment explanation
Indices: 22147--22248 Score: 159
Period size: 53 Copynumber: 1.9 Consensus size: 53
22137 GCCACGTGTC
** *
22147 ACTTTTTGGTACACGTGGCGTGACATGTGTCACTTTTTGGTACATGTGGCACG
1 ACTTTTTGGTACACGTGGCGTGACACATGTCACTTTTTGGTACACGTGGCACG
* *
22200 ACTTTTTGGTACATGTGGCGTGCCACATGTCACTTTTTGGTACACGTGG
1 ACTTTTTGGTACACGTGGCGTGACACATGTCACTTTTTGGTACACGTGG
22249 AGTGCCACGT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 44 1.00
ACGTcount: A:0.17, C:0.20, G:0.27, T:0.36
Consensus pattern (53 bp):
ACTTTTTGGTACACGTGGCGTGACACATGTCACTTTTTGGTACACGTGGCACG
Done.