Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01011228.1 Corchorus capsularis cultivar CVL-1 contig11249, 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: 23991
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Found at i:1019 original size:8 final size:8
Alignment explanation
Indices: 1008--1042 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
998 GATTGATTGA
*
1008 TTTTGACT
1 TTTTGATT
1016 TTTTGATT
1 TTTTGATT
1024 TTTTGATT
1 TTTTGATT
1032 TTTTGATT
1 TTTTGATT
1040 TTT
1 TTT
1043 ATTTTTATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.11, C:0.03, G:0.11, T:0.74
Consensus pattern (8 bp):
TTTTGATT
Found at i:1041 original size:23 final size:24
Alignment explanation
Indices: 1008--1058 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
998 GATTGATTGA
1008 TTTTGACTTTTTGATTTTT-TGATT
1 TTTTGACTTTTT-ATTTTTATGATT
*
1032 TTTTGA-TTTTTATTTTTATTATT
1 TTTTGACTTTTTATTTTTATGATT
1055 TTTT
1 TTTT
1059 TAGTCTCACC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 6 0.24
23 13 0.52
24 6 0.24
ACGTcount: A:0.14, C:0.02, G:0.08, T:0.76
Consensus pattern (24 bp):
TTTTGACTTTTTATTTTTATGATT
Found at i:1046 original size:14 final size:14
Alignment explanation
Indices: 1004--1048 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
994 CTTTGATTGA
* *
1004 TTGATTTTGACTTT
1 TTGATTTTTATTTT
1018 TTGATTTTTTGATTTT
1 TTGA-TTTTT-ATTTT
1034 TTGATTTTTATTTT
1 TTGATTTTTATTTT
1048 T
1 T
1049 ATTATTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 10 0.37
15 9 0.33
16 8 0.30
ACGTcount: A:0.13, C:0.02, G:0.11, T:0.73
Consensus pattern (14 bp):
TTGATTTTTATTTT
Found at i:1169 original size:92 final size:88
Alignment explanation
Indices: 1068--1236 Score: 221
Period size: 91 Copynumber: 1.9 Consensus size: 88
1058 TTAGTCTCAC
* * * * ** *
1068 CATGCACTTGCATTTGCAAAGCTTTTTTGAAAACAATTTTCTTTAAAAACCTTTTTTGAGAAAAA
1 CATGCACTTGCATTTGAAAAAC-TTTTTGAAAACAAATTTATCCAAAAACC--TTTCGAGAAAAA
*
1133 CCCTTTTTCTTTTGCAAAAATAATAGG
63 -CATTTTTCTTTTGCAAAAATAATAGG
*
1160 CATGCACTTGCATTTGAAAAACTTTTTGAAACCAAATTTATCCAAAAACCTTTCGAGAAAAACAT
1 CATGCACTTGCATTTGAAAAACTTTTTGAAAACAAATTTATCCAAAAACCTTTCGAGAAAAACAT
1225 TTTTCTTTTGCA
66 TTTTCTTTTGCA
1237 CAAACAATTT
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
88 14 0.21
89 11 0.16
91 23 0.34
92 20 0.29
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (88 bp):
CATGCACTTGCATTTGAAAAACTTTTTGAAAACAAATTTATCCAAAAACCTTTCGAGAAAAACAT
TTTTCTTTTGCAAAAATAATAGG
Found at i:2095 original size:49 final size:49
Alignment explanation
Indices: 2032--2443 Score: 491
Period size: 49 Copynumber: 8.4 Consensus size: 49
2022 TTTTCGTCCA
* *
2032 GGAAGGGCGTTTTGGGAAATAGCAAGCAAAAATAAATGGCTTCCGACTG
1 GGAAGGGCGTTTTGGGAAATAGCAAGTAAAAATAAATGGCTTCCGTCTG
* * *
2081 GGAAGGACGCTTTGGGAGATAGCAAGTAAAAATAAATGGCTTCCGTCTG
1 GGAAGGGCGTTTTGGGAAATAGCAAGTAAAAATAAATGGCTTCCGTCTG
* * **
2130 GGAAGGGCGCTTTGGGAAATAGCAAGCAAAAGCAAATGGCTTCCGTCTG
1 GGAAGGGCGTTTTGGGAAATAGCAAGTAAAAATAAATGGCTTCCGTCTG
* * *
2179 GGAAGGGTGTTTTGGGAGATAGCAAGTAAAAATAAATGGCTTCCGTCAG
1 GGAAGGGCGTTTTGGGAAATAGCAAGTAAAAATAAATGGCTTCCGTCTG
* * **
2228 GGAATGGCGTTTTGGGAAATAGCAAGCAAAAGCAGAATGGCTTCCGTCTG
1 GGAAGGGCGTTTTGGGAAATAGCAAGTAAAAATA-AATGGCTTCCGTCTG
* * * *
2278 GGAAGGGCGCTTTGGGAAATTGCGAGTAAAAATGAATGGCTTCCGTCTG
1 GGAAGGGCGTTTTGGGAAATAGCAAGTAAAAATAAATGGCTTCCGTCTG
* ** * * *
2327 GGAAGGGTGTTTTGGGGGATAGCAAGTAAAGATGAATGGCTTCCGTCCG
1 GGAAGGGCGTTTTGGGAAATAGCAAGTAAAAATAAATGGCTTCCGTCTG
* * * * * * * *
2376 GGAAGGGTGTTTTAGGAAAAAGTAGGTAAAGATGAATGGCTTCCGTCCG
1 GGAAGGGCGTTTTGGGAAATAGCAAGTAAAAATAAATGGCTTCCGTCTG
* *
2425 GGAAGGGTGTTTTAGGAAA
1 GGAAGGGCGTTTTGGGAAA
2444 AAGTAGGTAA
Statistics
Matches: 316, Mismatches: 46, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
49 276 0.87
50 40 0.13
ACGTcount: A:0.30, C:0.13, G:0.34, T:0.23
Consensus pattern (49 bp):
GGAAGGGCGTTTTGGGAAATAGCAAGTAAAAATAAATGGCTTCCGTCTG
Found at i:2371 original size:197 final size:195
Alignment explanation
Indices: 2032--2443 Score: 556
Period size: 197 Copynumber: 2.1 Consensus size: 195
2022 TTTTCGTCCA
*
2032 GGAAGGGCGTTTTGGGAAATAGCAAGCAAAAATAAATGGCTTCCGACTGGGAAGGACGCTTTGGG
1 GGAAGGGCGTTTTGGGAAATAGCAAGCAAAAACAAATGGCTTCCGACTGGGAAGGACGCTTTGGG
*
2097 AGATAGCAAGTAAAAATAAATGGCTTCCGTCTGGGAAGGGCGCTTTGGGAAATAGCAAGCAAAAG
66 AAATAGCAAGTAAAAATAAATGGCTTCCGTCTGGGAAGGGCGCTTTGGGAAATAGCAAGCAAAAG
* * * *
2162 CAAATGGCTTCCGTCTGGGAAGGGTGTTTTGGGAGATAGCAAGTAAAAATAAATGGCTTCCGTCA
131 -AAATGGCTTCCGTCCGGGAAGGGTGTTTTAGGAAAAAGCAAGTAAAAATAAATGGCTTCCGTCA
2227 G
195 G
* * * *
2228 GGAATGGCGTTTTGGGAAATAGCAAGCAAAAGCAGAATGGCTTCCGTCTGGGAAGGGCGCTTTGG
1 GGAAGGGCGTTTTGGGAAATAGCAAGCAAAAACA-AATGGCTTCCGACTGGGAAGGACGCTTTGG
* * * * * ** *
2293 GAAATTGCGAGTAAAAATGAATGGCTTCCGTCTGGGAAGGGTGTTTTGGGGGATAGCAAG-TAAA
65 GAAATAGCAAGTAAAAATAAATGGCTTCCGTCTGGGAAGGGCGCTTTGGGAAATAGCAAGCAAAA
* * * *
2357 GATGAATGGCTTCCGTCCGGGAAGGGTGTTTTAGGAAAAAGTAGGTAAAGATGAATGGCTTCCGT
130 GA--AATGGCTTCCGTCCGGGAAGGGTGTTTTAGGAAAAAGCAAGTAAAAATAAATGGCTTCCGT
*
2422 CCG
193 CAG
* *
2425 GGAAGGGTGTTTTAGGAAA
1 GGAAGGGCGTTTTGGGAAA
2444 AAGTAGGTAA
Statistics
Matches: 187, Mismatches: 26, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
195 1 0.01
196 35 0.19
197 151 0.81
ACGTcount: A:0.30, C:0.13, G:0.34, T:0.23
Consensus pattern (195 bp):
GGAAGGGCGTTTTGGGAAATAGCAAGCAAAAACAAATGGCTTCCGACTGGGAAGGACGCTTTGGG
AAATAGCAAGTAAAAATAAATGGCTTCCGTCTGGGAAGGGCGCTTTGGGAAATAGCAAGCAAAAG
AAATGGCTTCCGTCCGGGAAGGGTGTTTTAGGAAAAAGCAAGTAAAAATAAATGGCTTCCGTCAG
Found at i:6069 original size:29 final size:29
Alignment explanation
Indices: 6036--6091 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
6026 AAATTAAAAG
*
6036 TGAACTTAAAAATGACCAAAATGCCCCCC
1 TGAACGTAAAAATGACCAAAATGCCCCCC
*
6065 TGAACGTGAAAATGACCAAAATGCCCC
1 TGAACGTAAAAATGACCAAAATGCCCC
6092 TATGCGACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.41, C:0.29, G:0.14, T:0.16
Consensus pattern (29 bp):
TGAACGTAAAAATGACCAAAATGCCCCCC
Found at i:6967 original size:14 final size:13
Alignment explanation
Indices: 6942--6999 Score: 64
Period size: 14 Copynumber: 4.3 Consensus size: 13
6932 TAAAAACTCA
6942 AAAACC-TTTTTG
1 AAAACCATTTTTG
6954 AAAACTCATTTTTG
1 AAAAC-CATTTTTG
*
6968 AAAACCTTTTCTTG
1 AAAACCATTT-TTG
*
6982 AAAACAATTTTTTG
1 AAAACCA-TTTTTG
6996 AAAA
1 AAAA
7000 AATGTCTCTT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
12 5 0.13
13 5 0.13
14 26 0.67
15 3 0.08
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.40
Consensus pattern (13 bp):
AAAACCATTTTTG
Found at i:6992 original size:26 final size:25
Alignment explanation
Indices: 6942--6992 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
6932 TAAAAACTCA
*
6942 AAAACCTTTTTGAAAACTCATTTTTG
1 AAAACCTTTTTGAAAAC-CAATTTTG
6968 AAAACCTTTTCTTGAAAA-CAATTTT
1 AAAACC-TTT-TTGAAAACCAATTTT
6993 TTGAAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
26 12 0.55
27 3 0.14
28 7 0.32
ACGTcount: A:0.37, C:0.16, G:0.06, T:0.41
Consensus pattern (25 bp):
AAAACCTTTTTGAAAACCAATTTTG
Found at i:6993 original size:28 final size:26
Alignment explanation
Indices: 6942--6999 Score: 73
Period size: 28 Copynumber: 2.2 Consensus size: 26
6932 TAAAAACTCA
*
6942 AAAACCTTTTTGAAAACTCATTTTTG
1 AAAACCTTTTTGAAAACTAATTTTTG
6968 AAAACCTTTTCTTGAAAAC-AATTTTTTG
1 AAAACC-TTT-TTGAAAACTAA-TTTTTG
6996 AAAA
1 AAAA
7000 AATGTCTCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 6 0.21
27 4 0.14
28 18 0.64
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.40
Consensus pattern (26 bp):
AAAACCTTTTTGAAAACTAATTTTTG
Found at i:9734 original size:28 final size:29
Alignment explanation
Indices: 9637--9742 Score: 118
Period size: 27 Copynumber: 3.8 Consensus size: 29
9627 TACTCCCTTT
9637 TTACCATTTTC-TACCTTCTTCTTTTACTAA
1 TTACCATTTTCTTA-C-TCTTCTTTTACTAA
*
9667 TTACCA--TTCTTACTC-T-TTTTACTGA
1 TTACCATTTTCTTACTCTTCTTTTACTAA
* *
9692 TTACAATTTT-TTACTCTT-TTTTACTTA
1 TTACCATTTTCTTACTCTTCTTTTACTAA
9719 TTACCATTTTCTTACTCTTCTTTT
1 TTACCATTTTCTTACTCTTCTTTT
9743 CTTCTTTCTT
Statistics
Matches: 66, Mismatches: 4, Indels: 13
0.80 0.05 0.16
Matches are distributed among these distances:
25 13 0.20
26 7 0.11
27 22 0.33
28 12 0.18
29 6 0.09
30 6 0.09
ACGTcount: A:0.19, C:0.23, G:0.01, T:0.58
Consensus pattern (29 bp):
TTACCATTTTCTTACTCTTCTTTTACTAA
Found at i:9810 original size:26 final size:25
Alignment explanation
Indices: 9755--9896 Score: 81
Period size: 26 Copynumber: 5.2 Consensus size: 25
9745 TCTTTCTTTT
*
9755 TTTTTACTGATTATCC-TTTTCTGACT-
1 TTTTTACTGAATA-CCATTTT-T-ACTC
9781 TTTTTACTGAATACCATTCTTTACTC
1 TTTTTACTGAATACCATT-TTTACTC
* *
9807 TTTTTTCCTTTACTGAATACCATTTTTTCTAT
1 ----TT--TTTACTGAATACCATTTTTACT-C
* *
9839 TTTTTACTAAATACCGTTTTTACTC
1 TTTTTACTGAATACCATTTTTACTC
* *
9864 TTTATACTCTTGAATACCATTTTTAATC
1 TTTTTA--C-TGAATACCATTTTTACTC
9892 TTTTT
1 TTTTT
9897 TTCTAATTAC
Statistics
Matches: 91, Mismatches: 12, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
25 10 0.11
26 34 0.37
27 3 0.03
28 21 0.23
30 2 0.02
31 5 0.05
32 16 0.18
ACGTcount: A:0.21, C:0.19, G:0.04, T:0.56
Consensus pattern (25 bp):
TTTTTACTGAATACCATTTTTACTC
Found at i:9822 original size:32 final size:31
Alignment explanation
Indices: 9783--9843 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 31
9773 TTCTGACTTT
*
9783 TTTACTGAATACCATTCTTTACTCTTTTTTCC
1 TTTACTGAATACCATT-TTTACTATTTTTTCC
*
9815 TTTACTGAATACCATTTTTTCTATTTTTT
1 TTTACTGAATACCATTTTTACTATTTTTT
9844 ACTAAATACC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 11 0.41
32 16 0.59
ACGTcount: A:0.20, C:0.20, G:0.03, T:0.57
Consensus pattern (31 bp):
TTTACTGAATACCATTTTTACTATTTTTTCC
Found at i:9896 original size:54 final size:57
Alignment explanation
Indices: 9779--9910 Score: 144
Period size: 54 Copynumber: 2.4 Consensus size: 57
9769 CCTTTTCTGA
* * * * **
9779 CTTTTTTACTGAATACCATTCTTTACTCTTTTTTCCTTTACTGAATACCATTTTTTCT
1 CTTTTTTACTAAATACCATTCTTTACTCTTTTATACTCTA-TGAATACCATTTTTAAT
* *
9837 ATTTTTTACTAAATACCGTT-TTTACTC-TTTATACTCT-TGAATACCATTTTTAAT
1 CTTTTTTACTAAATACCATTCTTTACTCTTTTATACTCTATGAATACCATTTTTAAT
* *
9891 CTTTTTTTCTAATTACCATT
1 CTTTTTTACTAAATACCATT
9911 TACTTTTTAC
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
54 31 0.50
56 7 0.11
57 7 0.11
58 17 0.27
ACGTcount: A:0.23, C:0.20, G:0.03, T:0.55
Consensus pattern (57 bp):
CTTTTTTACTAAATACCATTCTTTACTCTTTTATACTCTATGAATACCATTTTTAAT
Found at i:9919 original size:7 final size:7
Alignment explanation
Indices: 9909--9991 Score: 60
Period size: 7 Copynumber: 11.4 Consensus size: 7
9899 CTAATTACCA
9909 TTTACTT
1 TTTACTT
9916 TTTACCATT
1 TTTA-C-TT
9925 TTTACTT
1 TTTACTT
*
9932 TTTACTG
1 TTTACTT
* *
9939 ATTACTC
1 TTTACTT
9946 TTTACTT
1 TTTACTT
*
9953 TTTACCAT
1 TTTA-CTT
*
9961 TTTACTC
1 TTTACTT
*
9968 TTTACTG
1 TTTACTT
*
9975 ATTA-TT
1 TTTACTT
9981 CTTTACTT
1 -TTTACTT
9989 TTT
1 TTT
9992 TTACCATTTT
Statistics
Matches: 59, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
6 1 0.02
7 42 0.71
8 10 0.17
9 6 0.10
ACGTcount: A:0.18, C:0.18, G:0.02, T:0.61
Consensus pattern (7 bp):
TTTACTT
Found at i:9922 original size:14 final size:15
Alignment explanation
Indices: 9903--9936 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
9893 TTTTTTCTAA
9903 TTACCA-TTTACTTT
1 TTACCATTTTACTTT
9917 TTACCATTTTTACTTT
1 TTACCA-TTTTACTTT
9933 TTAC
1 TTAC
9937 TGATTACTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.33
16 12 0.67
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.59
Consensus pattern (15 bp):
TTACCATTTTACTTT
Found at i:9957 original size:14 final size:14
Alignment explanation
Indices: 9909--10039 Score: 60
Period size: 14 Copynumber: 9.4 Consensus size: 14
9899 CTAATTACCA
*
9909 TTTACTTTTTACCATT
1 TTTACTTTTTA-C-TC
*
9925 TTTACTTTTTACTG
1 TTTACTTTTTACTC
* * *
9939 ATTACTCTTTACTT
1 TTTACTTTTTACTC
*
9953 TTTACCATTTTACTC
1 TTTA-CTTTTTACTC
** *
9968 TTTACTGATTATTC
1 TTTACTTTTTACTC
9982 TTTAC--TTT--T-
1 TTTACTTTTTACTC
*
9991 TTTACCATTTTACTC
1 TTTA-CTTTTTACTC
*
10006 TTTA-TTGATTACTC
1 TTTACTT-TTTACTC
10020 TTTACTCTTTT-CTC
1 TTTACT-TTTTACTC
10034 TTTACT
1 TTTACT
10040 GGTTACTATT
Statistics
Matches: 89, Mismatches: 16, Indels: 22
0.70 0.13 0.17
Matches are distributed among these distances:
9 4 0.04
10 2 0.02
12 5 0.06
13 1 0.01
14 46 0.52
15 19 0.21
16 12 0.13
ACGTcount: A:0.18, C:0.20, G:0.02, T:0.60
Consensus pattern (14 bp):
TTTACTTTTTACTC
Found at i:10002 original size:38 final size:37
Alignment explanation
Indices: 9909--10030 Score: 176
Period size: 38 Copynumber: 3.3 Consensus size: 37
9899 CTAATTACCA
*
9909 TTTAC-TTTTTACCATTTTTACTTTTTACTGATTACTC
1 TTTACTTTTTTACCA-TTTTACTCTTTACTGATTACTC
*
9946 TTTAC-TTTTTACCATTTTACTCTTTACTGATTATTC
1 TTTACTTTTTTACCATTTTACTCTTTACTGATTACTC
*
9982 TTTACTTTTTTTACCATTTTACTCTTTATTGATTACTC
1 TTTAC-TTTTTTACCATTTTACTCTTTACTGATTACTC
*
10020 TTTACTCTTTT
1 TTTACTTTTTT
10031 CTCTTTACTG
Statistics
Matches: 78, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
36 25 0.32
37 19 0.24
38 34 0.44
ACGTcount: A:0.18, C:0.19, G:0.02, T:0.61
Consensus pattern (37 bp):
TTTACTTTTTTACCATTTTACTCTTTACTGATTACTC
Found at i:10096 original size:26 final size:26
Alignment explanation
Indices: 10042--10129 Score: 88
Period size: 32 Copynumber: 3.2 Consensus size: 26
10032 TCTTTACTGG
**
10042 TTACTA-TTTTACTCTCTTGAATTTAA
1 TTACTACTTTTACTCT-TTGAATTGGA
10068 TTACTACTTTTACTCTTTGAATTGGA
1 TTACTACTTTTACTCTTTGAATTGGA
10094 TTACCATATGTCATTTTACTCTTTGAATTGGA
1 TTA-C-TA---C-TTTTACTCTTTGAATTGGA
10126 TTAC
1 TTAC
10130 CATCTTACCA
Statistics
Matches: 53, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
26 17 0.32
27 10 0.19
28 2 0.04
31 2 0.04
32 22 0.42
ACGTcount: A:0.25, C:0.16, G:0.09, T:0.50
Consensus pattern (26 bp):
TTACTACTTTTACTCTTTGAATTGGA
Found at i:10148 original size:33 final size:32
Alignment explanation
Indices: 10079--10150 Score: 101
Period size: 32 Copynumber: 2.2 Consensus size: 32
10069 TACTACTTTT
*
10079 ACTCTTTGAATTGGATTACCATATGTCATTTT
1 ACTCTTTGAATTGGATTACCATATGTCATTTC
*
10111 ACTCTTTGAATTGGATTACCATCT-TACCATTTC
1 ACTCTTTGAATTGGATTACCATATGT--CATTTC
10144 ACTCTTT
1 ACTCTTT
10151 ACTGATTACT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
31 1 0.03
32 23 0.64
33 12 0.33
ACGTcount: A:0.24, C:0.21, G:0.10, T:0.46
Consensus pattern (32 bp):
ACTCTTTGAATTGGATTACCATATGTCATTTC
Found at i:10219 original size:30 final size:30
Alignment explanation
Indices: 10185--10290 Score: 86
Period size: 30 Copynumber: 3.2 Consensus size: 30
10175 AGTTTCATTC
*
10185 TTTACTGATTTACTGATTACTTCTTTTACT
1 TTTACTAATTTACTGATTACTTCTTTTACT
10215 TTTACTCTTAATTACCATTTTACTGATTACTTCTTTTACT
1 TTTA--C-----TA--ATT-TACTGATTACTTCTTTTACT
* * *
10255 TTTACCAACTTACTAATTACTTCTTTTACT
1 TTTACTAATTTACTGATTACTTCTTTTACT
10285 TTTACT
1 TTTACT
10291 CTTAATTACC
Statistics
Matches: 61, Mismatches: 5, Indels: 20
0.71 0.06 0.23
Matches are distributed among these distances:
30 28 0.46
31 2 0.03
32 1 0.02
33 1 0.02
37 1 0.02
38 1 0.02
39 3 0.05
40 24 0.39
ACGTcount: A:0.23, C:0.20, G:0.03, T:0.55
Consensus pattern (30 bp):
TTTACTAATTTACTGATTACTTCTTTTACT
Found at i:10268 original size:70 final size:70
Alignment explanation
Indices: 10194--10326 Score: 230
Period size: 70 Copynumber: 1.9 Consensus size: 70
10184 CTTTACTGAT
* **
10194 TTACTGATTACTTCTTTTACTTTTACTCTTAATTACCATTTTACTGATTACTTCTTTTACTTTTA
1 TTACTAATTACTTCTTTTACTTTTACTCTTAATTACCAACTTACTGATTACTTCTTTTACTTTTA
10259 CCAAC
66 CCAAC
*
10264 TTACTAATTACTTCTTTTACTTTTACTCTTAATTACCAACTTGCTGATTACTTCTTTTACTTT
1 TTACTAATTACTTCTTTTACTTTTACTCTTAATTACCAACTTACTGATTACTTCTTTTACTTT
10327 CCCTCCATTC
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 59 1.00
ACGTcount: A:0.23, C:0.21, G:0.03, T:0.53
Consensus pattern (70 bp):
TTACTAATTACTTCTTTTACTTTTACTCTTAATTACCAACTTACTGATTACTTCTTTTACTTTTA
CCAAC
Found at i:13647 original size:22 final size:23
Alignment explanation
Indices: 13600--13648 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
13590 TTATGAACAC
13600 AATTTACTAAATGCCAAAGAGTG
1 AATTTACTAAATGCCAAAGAGTG
13623 AATTTACTAAATGCCAAA-AGTG
1 AATTTACTAAATGCCAAAGAGTG
13645 AATT
1 AATT
13649 AGAAAATGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 8 0.31
23 18 0.69
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (23 bp):
AATTTACTAAATGCCAAAGAGTG
Found at i:13864 original size:44 final size:44
Alignment explanation
Indices: 13816--13953 Score: 128
Period size: 44 Copynumber: 3.2 Consensus size: 44
13806 AGTTCATGGT
13816 GATTCGGTGAATCAAGTTAATGCAGTGCATTTATTCAAAAATTG
1 GATTCGGTGAATCAAGTTAATGCAGTGCATTTATTCAAAAATTG
* * * * *
13860 GATTCGGTGAGCTC-GGTGT-A-GCA---AATTT-TTCAAACATGG
1 GATTCGGTGA-ATCAAGT-TAATGCAGTGCATTTATTCAAAAATTG
* * *
13899 TGTTTCGGTGAATCAAGTTAATGCGGTGCATTTATTCAAAGATTG
1 -GATTCGGTGAATCAAGTTAATGCAGTGCATTTATTCAAAAATTG
13944 GATTCGGTGA
1 GATTCGGTGA
13954 GCTCGGTGCA
Statistics
Matches: 71, Mismatches: 13, Indels: 20
0.68 0.12 0.19
Matches are distributed among these distances:
39 12 0.17
40 16 0.23
41 2 0.03
43 3 0.04
44 26 0.37
45 12 0.17
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.34
Consensus pattern (44 bp):
GATTCGGTGAATCAAGTTAATGCAGTGCATTTATTCAAAAATTG
Found at i:13890 original size:89 final size:88
Alignment explanation
Indices: 13726--14156 Score: 606
Period size: 89 Copynumber: 4.9 Consensus size: 88
13716 GTGTCTACAA
* * *
13726 TGATTCGGTGAATCAAGTCAATGCGGTGCATTTCTTCAAAGATTGGAATTCGGTGAGCTCGATGC
1 TGATTCGGTGAATCAAGTTAATGCGGTGCATTTATTCAAAGATTGG-ATTCGGTGAGCTCGGTGC
13791 AGCAAATTTTCAAACAGTTCATGG
65 AGCAAATTTTCAAACAGTTCATGG
* * *
13815 TGATTCGGTGAATCAAGTTAATGCAGTGCATTTATTCAAAAATTGGATTCGGTGAGCTCGGTGTA
1 TGATTCGGTGAATCAAGTTAATGCGGTGCATTTATTCAAAGATTGGATTCGGTGAGCTCGGTGCA
13880 GCAAATTTTTC-AA-A---CATGG
66 GCAAA-TTTTCAAACAGTTCATGG
*
13899 TGTTTCGGTGAATCAAGTTAATGCGGTGCATTTATTCAAAGATTGGATTCGGTGAGCTCGGTGCA
1 TGATTCGGTGAATCAAGTTAATGCGGTGCATTTATTCAAAGATTGGATTCGGTGAGCTCGGTGCA
*
13964 GCAAAATTTTCAAATAGTTCATGG
66 GC-AAATTTTCAAACAGTTCATGG
*
13988 TGATTCGGTGAATCAAGTTAATGCGGTGCATTCATTCAAAGATTGGATTCGGTGAGCTCGGTGCA
1 TGATTCGGTGAATCAAGTTAATGCGGTGCATTTATTCAAAGATTGGATTCGGTGAGCTCGGTGCA
* *
14053 GCAAATTTTAAAACAGTT-AAGG
66 GCAAATTTTCAAACAGTTCATGG
* * *
14075 ATGATTCGGTGAATCAAGTTAAGGCGGTGCCTTATTTCTTCAAAGATTGGGATTCGGTGAGCTCT
1 -TGATTCGGTGAATCAAGTTAATGCGGTG-C--ATTTATTCAAAGATT-GGATTCGGTGAGCTCG
*
14140 GTGCAGCACA-TTTCAAA
61 GTGCAGCAAATTTTCAAA
14157 ATAGTTCAGG
Statistics
Matches: 309, Mismatches: 21, Indels: 22
0.88 0.06 0.06
Matches are distributed among these distances:
84 73 0.24
85 5 0.02
86 1 0.00
87 4 0.01
88 65 0.21
89 118 0.38
91 19 0.06
92 24 0.08
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (88 bp):
TGATTCGGTGAATCAAGTTAATGCGGTGCATTTATTCAAAGATTGGATTCGGTGAGCTCGGTGCA
GCAAATTTTCAAACAGTTCATGG
Found at i:14019 original size:173 final size:174
Alignment explanation
Indices: 13725--14478 Score: 678
Period size: 173 Copynumber: 4.3 Consensus size: 174
13715 GGTGTCTACA
* *
13725 ATGATTCGGTGAATCAAGTCAATGCGGTGCATTTCTTCAAAGATTGGAATTCGGTGAGCTCGATG
1 ATGATTCGGTGAATCAAGTTAATGCGGTGCATTTCTTCAAAGATTGG-ATTCGGTGAGCTCGGTG
* *
13790 CAGCAAATTTTCAAACAGTTCATGGTGATTCGGTGAATCAAGTTAATGCAGTGCATTTATTCAAA
65 CAGCAAATTTTCAAATAGTTCATGGTGATTCGGTGAATCAAGTTAATGCAGTGCATTCATTCAAA
* *
13855 AATTGGATTCGGTGAGCTCGGTGTAGCAAATTTTTCAAACA-T-GG
130 AATTGGATTCGGTGAGCTCGGTGCAGCAAA-TTTTAAAACAGTAGG
* *
13899 -TGTTTCGGTGAATCAAGTTAATGCGGTGCATTTATTCAAAGATTGGATTCGGTGAGCTCGGTGC
1 ATGATTCGGTGAATCAAGTTAATGCGGTGCATTTCTTCAAAGATTGGATTCGGTGAGCTCGGTGC
*
13963 AGCAAAATTTTCAAATAGTTCATGGTGATTCGGTGAATCAAGTTAATGCGGTGCATTCATTCAAA
66 AGC-AAATTTTCAAATAGTTCATGGTGATTCGGTGAATCAAGTTAATGCAGTGCATTCATTCAAA
*
14028 GATTGGATTCGGTGAGCTCGGTGCAGCAAATTTTAAAACAGTTAAGG
130 AATTGGATTCGGTGAGCTCGGTGCAGCAAATTTTAAAACAG-T-AGG
* *
14075 ATGATTCGGTGAATCAAGTTAAGGCGGTGCCTTATTTCTTCAAAGATTGGGATTCGGTGAGCTCT
1 ATGATTCGGTGAATCAAGTTAATGCGGTG-C--ATTTCTTCAAAGATT-GGATTCGGTGAGCTCG
* ** *
14140 GTGCAGCACA-TTTCAAAATAGTTCA-GGACCATGCGGTG---C-A--T--T--A-T---TTC-T
62 GTGCAGCAAATTTTC-AAATAGTTCATGG-TGATTCGGTGAATCAAGTTAATGCAGTGCATTCAT
* * * * * *
14188 T-TAAAGTTGGATTCGGTGAGCTCGGTGCAACACATTTTCAAACAGTTCCGG
125 TCAAAAATTGGATTCGGTGAGCTCGGTGCAGCAAATTTTAAAACAG-T-AGG
* * * *
14239 ATGATTCAGTGAATCAGGTTGATGCGGTGCAGTATTTCTTC-AAGATTGGACTCGGTGAGCTCGG
1 ATGATTCGGTGAATCAAGTTAATGCGGTGC---ATTTCTTCAAAGATTGGATTCGGTGAGCTCGG
* *** * * *
14303 TGCAGCACATTTTCAGGCAGTTCA-GGATGATTCGGTGAATCAAGTTGAGGCGGTGTCTTATTTC
63 TGCAGCAAATTTTCAAATAGTTCATGG-TGATTCGGTGAATCAAGTTAATGCAGTG-C--A-TTC
* ** * * *
14367 -TTC-AAGATTGGATTTAGTGAGCTCGGTGCAGCACATTTTCAAACAGTTCAAAGT
123 ATTCAAAAATTGGATTCGGTGAGCTCGGTGCAGCAAATTTTAAAACAG-T---AGG
* * * * *
14421 TTGATTCTGTGGATCAAGTTAATGCGGTGCAATATTTCTTCAAA-ATTTGACTCGGTGA
1 ATGATTCGGTGAATCAAGTTAATGCGGTGC---ATTTCTTCAAAGATTGGATTCGGTGA
14479 ATCAAATATT
Statistics
Matches: 487, Mismatches: 57, Indels: 64
0.80 0.09 0.11
Matches are distributed among these distances:
162 41 0.08
163 11 0.02
164 76 0.16
165 3 0.01
166 4 0.01
168 1 0.00
169 1 0.00
172 30 0.06
173 130 0.27
174 2 0.00
176 3 0.01
177 27 0.06
178 1 0.00
179 6 0.01
180 78 0.16
181 22 0.05
182 49 0.10
183 2 0.00
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (174 bp):
ATGATTCGGTGAATCAAGTTAATGCGGTGCATTTCTTCAAAGATTGGATTCGGTGAGCTCGGTGC
AGCAAATTTTCAAATAGTTCATGGTGATTCGGTGAATCAAGTTAATGCAGTGCATTCATTCAAAA
ATTGGATTCGGTGAGCTCGGTGCAGCAAATTTTAAAACAGTAGG
Found at i:14235 original size:72 final size:74
Alignment explanation
Indices: 14098--14235 Score: 201
Period size: 72 Copynumber: 1.9 Consensus size: 74
14088 TCAAGTTAAG
* * * *
14098 GCGGTGCCTTATTTCTTCAAAGATTGGGATTCGGTGAGCTCTGTGCAGCACATTTCAAAATAGTT
1 GCGGTGCATTATTTCTTCAAAGATTGGGATTCGGTGAGCTCGGTGCAACACATTTCAAAACAGTT
14163 CAGGACCAT
66 CAGGACCAT
*
14172 GCGGTGCATTATTTCTTTAAAG-TT-GGATTCGGTGAGCTCGGTGCAACACATTTTC-AAACAGT
1 GCGGTGCATTATTTCTTCAAAGATTGGGATTCGGTGAGCTCGGTGCAACACA-TTTCAAAACAGT
14234 TC
65 TC
14236 CGGATGATTC
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
72 32 0.55
73 6 0.10
74 20 0.34
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.33
Consensus pattern (74 bp):
GCGGTGCATTATTTCTTCAAAGATTGGGATTCGGTGAGCTCGGTGCAACACATTTCAAAACAGTT
CAGGACCAT
Found at i:14315 original size:90 final size:90
Alignment explanation
Indices: 14170--14478 Score: 379
Period size: 90 Copynumber: 3.4 Consensus size: 90
14160 GTTCAGGACC
* * *
14170 ATGCGGTGCATTATTTCTTTAA-AGTTGGATTCGGTGAGCTCGGTGCAACACATTTTCAAACAGT
1 ATGCGGTGCATTATTTCTTCAAGA-TTGGACTCGGTGAGCTCGGTGCAGCACATTTTCAAACAGT
* *
14234 TCCGGATGATTCAGTGAATCAGGTTG
65 TCAGGATGATTCAGTGAATCAAGTTG
* **
14260 ATGCGGTGCAGTATTTCTTCAAGATTGGACTCGGTGAGCTCGGTGCAGCACATTTTCAGGCAGTT
1 ATGCGGTGCATTATTTCTTCAAGATTGGACTCGGTGAGCTCGGTGCAGCACATTTTCAAACAGTT
*
14325 CAGGATGATTCGGTGAATCAAGTTG
66 CAGGATGATTCAGTGAATCAAGTTG
* * **
14350 AGGCGGTGTC-TTATTTCTTCAAGATTGGATTTAGTGAGCTCGGTGCAGCACATTTTCAAACAGT
1 ATGCGGTG-CATTATTTCTTCAAGATTGGACTCGGTGAGCTCGGTGCAGCACATTTTCAAACAGT
** * * *
14414 TCAAAGTTTGATTCTGTGGATCAAGTTA
65 TC--AGGATGATTCAGTGAATCAAGTTG
* * *
14442 ATGCGGTGCAATATTTCTTCAAAATTTGACTCGGTGA
1 ATGCGGTGCATTATTTCTTCAAGATTGGACTCGGTGA
14479 ATCAAATATT
Statistics
Matches: 186, Mismatches: 28, Indels: 8
0.84 0.13 0.04
Matches are distributed among these distances:
90 136 0.73
91 3 0.02
92 47 0.25
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (90 bp):
ATGCGGTGCATTATTTCTTCAAGATTGGACTCGGTGAGCTCGGTGCAGCACATTTTCAAACAGTT
CAGGATGATTCAGTGAATCAAGTTG
Found at i:14332 original size:254 final size:253
Alignment explanation
Indices: 13936--14409 Score: 681
Period size: 254 Copynumber: 1.9 Consensus size: 253
13926 GCATTTATTC
* * * *
13936 AAAGATTGGATTCGGTGAGCTCGGTGCAGCAAAATTTTCAAATAGTTCATGGTGATTCGGTGAAT
1 AAAGATTGGATTCGGTGAGCTCGGTGCAACAAAATTTTCAAACAGTTCACGGTGATTCAGTGAAT
*
14001 CAAGTTAATGCGGTGCATTCATTCAAAGATTGGATTCGGTGAGCTCGGTGCAGCAAATTTTAAAA
66 CAAGTTAATGCGGTGCATTCATTCAAAGATTGGACTCGGTGAGCTCGGTGCAGCAAATTTTAAAA
*
14066 CAGTTAAGGATGATTCGGTGAATCAAGTTAAGGCGGTGCCTTATTTCTTCAAAGATTGGGATTCG
131 CAGTTAAGGATGATTCGGTGAATCAAGTTAAGGCGGTGCCTTATTTCTTC-AAGATT-GGATTCA
*
14131 GTGAGCTCTGTGCAGCACA-TTTCAAAATAGTTCAGGACCATGCGGTGCATTATTTCTTT
194 GTGAGCTCGGTGCAGCACATTTTCAAAATAGTTCAGGACCATGCGGTGCATTATTTCTTT
*
14190 AAAG-TTGGATTCGGTGAGCTCGGTGCAAC-ACATTTTCAAACAGTTC-CGGATGATTCAGTGAA
1 AAAGATTGGATTCGGTGAGCTCGGTGCAACAAAATTTTCAAACAGTTCACGG-TGATTCAGTGAA
* * *
14252 TCAGGTTGATGCGGTGCAGTATTTC-TTC-AAGATTGGACTCGGTGAGCTCGGTGCAGCACATTT
65 TCAAGTTAATGCGGTGC---A-TTCATTCAAAGATTGGACTCGGTGAGCTCGGTGCAGCAAATTT
* ** * * *
14315 TCAGGCAGTTCAGGATGATTCGGTGAATCAAGTTGAGGCGGTGTCTTATTTCTTCAAGATTGGAT
126 TAAAACAGTTAAGGATGATTCGGTGAATCAAGTTAAGGCGGTGCCTTATTTCTTCAAGATTGGAT
*
14380 TTAGTGAGCTCGGTGCAGCACATTTTCAAA
191 TCAGTGAGCTCGGTGCAGCACATTTTCAAA
14410 CAGTTCAAAG
Statistics
Matches: 196, Mismatches: 18, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
251 2 0.01
252 64 0.33
253 37 0.19
254 86 0.44
255 4 0.02
256 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (253 bp):
AAAGATTGGATTCGGTGAGCTCGGTGCAACAAAATTTTCAAACAGTTCACGGTGATTCAGTGAAT
CAAGTTAATGCGGTGCATTCATTCAAAGATTGGACTCGGTGAGCTCGGTGCAGCAAATTTTAAAA
CAGTTAAGGATGATTCGGTGAATCAAGTTAAGGCGGTGCCTTATTTCTTCAAGATTGGATTCAGT
GAGCTCGGTGCAGCACATTTTCAAAATAGTTCAGGACCATGCGGTGCATTATTTCTTT
Found at i:20104 original size:15 final size:17
Alignment explanation
Indices: 20084--20116 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
20074 TGCATGCATT
20084 TTTA-TTTG-TCTTATG
1 TTTATTTTGATCTTATG
20099 TTTATTTTGATCTTATG
1 TTTATTTTGATCTTATG
20116 T
1 T
20117 GAGACTTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 4 0.25
17 8 0.50
ACGTcount: A:0.15, C:0.06, G:0.12, T:0.67
Consensus pattern (17 bp):
TTTATTTTGATCTTATG
Found at i:21243 original size:25 final size:27
Alignment explanation
Indices: 21206--21256 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 27
21196 TCAAGAAATA
*
21206 GCCAGGGGGCATTTTCGTCAT-TTTAC
1 GCCAGGGGGCATTTTCATCATCTTTAC
21232 GCCA-GGGGCATTTTCATCATCTTTA
1 GCCAGGGGGCATTTTCATCATCTTTA
21257 AACTAGACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.35
Consensus pattern (27 bp):
GCCAGGGGGCATTTTCATCATCTTTAC
Found at i:23296 original size:35 final size:35
Alignment explanation
Indices: 23257--23738 Score: 561
Period size: 35 Copynumber: 13.7 Consensus size: 35
23247 TTCTTACTAA
*
23257 ACTTAATTACCCTGAATTAAGTT-ACTTATTGAACT
1 ACTTAATTACCCTGAATTAAGTTGA-TTACTGAACT
* *
23292 ACTTAATTACCCTGAAATAAGTT-ACTTA-TTAACT
1 ACTTAATTACCCTGAATTAAGTTGA-TTACTGAACT
23326 CACTTAATTACCCTGAATTACAGTTGATTACTG-ACT
1 -ACTTAATTACCCTGAATTA-AGTTGATTACTGAACT
* * * *
23362 CACTTAATTATCCTGGATTAAGTTGCTTACCG-ACT
1 -ACTTAATTACCCTGAATTAAGTTGATTACTGAACT
* * *
23397 CACTTAATTACCTTGAATTAAGTTAATTACTGAATT
1 -ACTTAATTACCCTGAATTAAGTTGATTACTGAACT
*
23433 ACTTAATTACCCTGAATTAAGTTGATTACTG-ATT
1 ACTTAATTACCCTGAATTAAGTTGATTACTGAACT
* * *
23467 CACTTAATTACCCCGAATTAAGTTGATTATTGAATT
1 -ACTTAATTACCCTGAATTAAGTTGATTACTGAACT
*
23503 ACTTAATTACCCCGAATTAAGTT-ACTTACTG-ACT
1 ACTTAATTACCCTGAATTAAGTTGA-TTACTGAACT
23537 CACTTAATTACCCTGAATTAAGTTGATTACTGAA-T
1 -ACTTAATTACCCTGAATTAAGTTGATTACTGAACT
* *
23572 CACTTAATTACCCTGAATTAGGTTGATTACTGAATT
1 -ACTTAATTACCCTGAATTAAGTTGATTACTGAACT
*
23608 ACTTAATTACCCTGAATTAAGTTGATTACTGAATT
1 ACTTAATTACCCTGAATTAAGTTGATTACTGAACT
* *
23643 ACTTAATTACCCCGAATTAAGTTACTTATTACTG-ACTT
1 ACTTAATTACCCTGAATTAAG-T--TGATTACTGAAC-T
* *
23681 ACTTAATTACCTTGAATTAAGTTGATTACTGAATT
1 ACTTAATTACCCTGAATTAAGTTGATTACTGAACT
*
23716 ACTTAATTACCCCGAATTAAGTT
1 ACTTAATTACCCTGAATTAAGTT
23739 ACTTATTACT
Statistics
Matches: 397, Mismatches: 33, Indels: 34
0.86 0.07 0.07
Matches are distributed among these distances:
34 11 0.03
35 316 0.80
36 38 0.10
37 4 0.01
38 28 0.07
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.39
Consensus pattern (35 bp):
ACTTAATTACCCTGAATTAAGTTGATTACTGAACT
Found at i:23456 original size:70 final size:70
Alignment explanation
Indices: 23257--23743 Score: 665
Period size: 70 Copynumber: 6.9 Consensus size: 70
23247 TTCTTACTAA
* * * *
23257 ACTTAATTACCCTGAATTAAGTT-ACTTATTGAACTACTTAATTACCCTGAAATAAGTTACTTAT
1 ACTTAATTACCCTGAATTAAGTTGA-TTACTGAATTACTTAATTACCCTGAATTAAGTTACTTAC
*
23321 TAACTC
65 TGACTC
* * * * *
23327 ACTTAATTACCCTGAATTACAGTTGATTACTGACTCACTTAATTATCCTGGATTAAGTTGCTTAC
1 ACTTAATTACCCTGAATTA-AGTTGATTACTGAATTACTTAATTACCCTGAATTAAGTTACTTAC
*
23392 CGACTC
65 TGACTC
* *
23398 ACTTAATTACCTTGAATTAAGTTAATTACTGAATTACTTAATTACCCTGAATTAAGTTGA-TTAC
1 ACTTAATTACCCTGAATTAAGTTGATTACTGAATTACTTAATTACCCTGAATTAAGTT-ACTTAC
*
23462 TGATTC
65 TGACTC
* * *
23468 ACTTAATTACCCCGAATTAAGTTGATTATTGAATTACTTAATTACCCCGAATTAAGTTACTTACT
1 ACTTAATTACCCTGAATTAAGTTGATTACTGAATTACTTAATTACCCTGAATTAAGTTACTTACT
23533 GACTC
66 GACTC
* *
23538 ACTTAATTACCCTGAATTAAGTTGATTACTGAATCACTTAATTACCCTGAATTAGGTTGA-TTAC
1 ACTTAATTACCCTGAATTAAGTTGATTACTGAATTACTTAATTACCCTGAATTAAGTT-ACTTAC
* *
23602 TGAATT
65 TGACTC
*
23608 ACTTAATTACCCTGAATTAAGTTGATTACTGAATTACTTAATTACCCCGAATTAAGTTACTTATT
1 ACTTAATTACCCTGAATTAAGTTGATTACTGAATTACTTAATTACCCTGAATTAAGTTAC---TT
*
23673 ACTGACTT
63 ACTGACTC
* *
23681 ACTTAATTACCTTGAATTAAGTTGATTACTGAATTACTTAATTACCCCGAATTAAGTTACTTA
1 ACTTAATTACCCTGAATTAAGTTGATTACTGAATTACTTAATTACCCTGAATTAAGTTACTTA
23744 TTACTGATTC
Statistics
Matches: 370, Mismatches: 38, Indels: 18
0.87 0.09 0.04
Matches are distributed among these distances:
69 2 0.01
70 242 0.65
71 57 0.15
72 1 0.00
73 68 0.18
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.39
Consensus pattern (70 bp):
ACTTAATTACCCTGAATTAAGTTGATTACTGAATTACTTAATTACCCTGAATTAAGTTACTTACT
GACTC
Found at i:23507 original size:105 final size:105
Alignment explanation
Indices: 23257--23739 Score: 639
Period size: 105 Copynumber: 4.6 Consensus size: 105
23247 TTCTTACTAA
* * * *
23257 ACTTAATTACCCTGAATTAAGTT-ACTTATTGAACTACTTAATTACCCTGAAATAAGTTACTTA-
1 ACTTAATTACCCTGAATTAAGTTGA-TTACTGAATTACTTAATTACCCTGAATTAAGTTAATTAC
* *
23320 TTAACTCACTTAATTACCCTGAATTACAGTTGATTACTGACTC
65 TGAA-TCACTTAATTACCCTGAATTA-AGTTGATTACTGATTC
* * * * * * *
23363 ACTTAATTATCCTGGATTAAGTTGCTTACCGACTCACTTAATTACCTTGAATTAAGTTAATTACT
1 ACTTAATTACCCTGAATTAAGTTGATTACTGAATTACTTAATTACCCTGAATTAAGTTAATTACT
*
23428 GAATTACTTAATTACCCTGAATTAAGTTGATTACTGATTC
66 GAATCACTTAATTACCCTGAATTAAGTTGATTACTGATTC
* * * *
23468 ACTTAATTACCCCGAATTAAGTTGATTATTGAATTACTTAATTACCCCGAATTAAGTTACTTACT
1 ACTTAATTACCCTGAATTAAGTTGATTACTGAATTACTTAATTACCCTGAATTAAGTTAATTACT
* *
23533 GACTCACTTAATTACCCTGAATTAAGTTGATTACTGAATC
66 GAATCACTTAATTACCCTGAATTAAGTTGATTACTGATTC
* *
23573 ACTTAATTACCCTGAATTAGGTTGATTACTGAATTACTTAATTACCCTGAATTAAGTTGATTACT
1 ACTTAATTACCCTGAATTAAGTTGATTACTGAATTACTTAATTACCCTGAATTAAGTTAATTACT
* * *
23638 GAATTACTTAATTACCCCGAATTAAGTTACTTATTACTGACTT-
66 GAATCACTTAATTACCCTGAATTAAG-T--TGATTACTGA-TTC
* *
23681 ACTTAATTACCTTGAATTAAGTTGATTACTGAATTACTTAATTACCCCGAATTAAGTTA
1 ACTTAATTACCCTGAATTAAGTTGATTACTGAATTACTTAATTACCCTGAATTAAGTTA
23740 CTTATTACTG
Statistics
Matches: 328, Mismatches: 43, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
105 188 0.57
106 72 0.22
107 3 0.01
108 64 0.20
109 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.39
Consensus pattern (105 bp):
ACTTAATTACCCTGAATTAAGTTGATTACTGAATTACTTAATTACCCTGAATTAAGTTAATTACT
GAATCACTTAATTACCCTGAATTAAGTTGATTACTGATTC
Done.