Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01007258.1 Corchorus capsularis cultivar CVL-1 contig07279, 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: 41680
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Found at i:3207 original size:10 final size:10
Alignment explanation
Indices: 3192--3217 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
3182 AGTTGCTAAC
3192 AAATTCCAGA
1 AAATTCCAGA
3202 AAATTCCAGA
1 AAATTCCAGA
3212 AAATTC
1 AAATTC
3218 TAGAGTCCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.50, C:0.19, G:0.08, T:0.23
Consensus pattern (10 bp):
AAATTCCAGA
Found at i:4157 original size:6 final size:6
Alignment explanation
Indices: 4146--4175 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
4136 ATTAATTTGC
4146 TTTAGA TTTAGA TTTAGA TTTAGA TTTAGA
1 TTTAGA TTTAGA TTTAGA TTTAGA TTTAGA
4176 ATTGCTTTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
TTTAGA
Found at i:10863 original size:16 final size:16
Alignment explanation
Indices: 10842--10882 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
10832 CACGCCATAT
*
10842 CAGGCCATGACCGCAC
1 CAGGCCACGACCGCAC
*
10858 CAGGCCACGACTGCAC
1 CAGGCCACGACCGCAC
10874 CAGGCCACG
1 CAGGCCACG
10883 CCACCAGCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.24, C:0.44, G:0.27, T:0.05
Consensus pattern (16 bp):
CAGGCCACGACCGCAC
Found at i:15765 original size:48 final size:48
Alignment explanation
Indices: 15703--16174 Score: 242
Period size: 48 Copynumber: 10.8 Consensus size: 48
15693 TTGTTTCCAC
* * *
15703 TTTTCCAAAATTGCCCTTCCTCATCGGAAGGTGTTGTCTAGGTCTGCT
1 TTTTCCCAAATTGCCCTTCCTCATCGGAAGGTGTTGTCTAAGTCTACT
* * *
15751 TTTTCCCAAGTTGCCCTTCCTCATCGAAAGGAGTTGTCTAAGTCTACT
1 TTTTCCCAAATTGCCCTTCCTCATCGGAAGGTGTTGTCTAAGTCTACT
* *
15799 TTTTCCCAAATTGCCTTTCCCCATCGGAAGGTGTTG--T---T-TA--
1 TTTTCCCAAATTGCCCTTCCTCATCGGAAGGTGTTGTCTAAGTCTACT
* ** * * *
15839 GTTTCCCAGTTTGCCCTTCCCCATCGGAA-G-G-TGT-T-ACT-TA-G
1 TTTTCCCAAATTGCCCTTCCTCATCGGAAGGTGTTGTCTAAGTCTACT
**** * * *
15880 TTTTCCTGTTTTGCCCTCCCT-ACCGGAAGGTGTTGTTTAAG------
1 TTTTCCCAAATTGCCCTTCCTCATCGGAAGGTGTTGTCTAAGTCTACT
** * *
15921 -TTTCCCAGTTTGCCCTTCCCCATCGGAAGGTGTTGTCTACGTCTACT
1 TTTTCCCAAATTGCCCTTCCTCATCGGAAGGTGTTGTCTAAGTCTACT
*
15968 TTTTCCCAAATTGCCCTTCCCCATCGGAAGGTGTTG--T---T-TA--
1 TTTTCCCAAATTGCCCTTCCTCATCGGAAGGTGTTGTCTAAGTCTACT
* ** * *
16008 GTTTCCCAGTTTGCCCTTCCTCATCGAAAGGTGTTG--T---T-TA-G
1 TTTTCCCAAATTGCCCTTCCTCATCGGAAGGTGTTGTCTAAGTCTACT
**** * * * *
16049 TTTTCCTGTTTTGCTCTTCCACACCGGAAGGTGTTGTTTAAG------
1 TTTTCCCAAATTGCCCTTCCTCATCGGAAGGTGTTGTCTAAGTCTACT
**
16091 -TTTCCCAGTTTGCCCTTCCTCATCGGAAGGTGTTGTCTAAGTCTACT
1 TTTTCCCAAATTGCCCTTCCTCATCGGAAGGTGTTGTCTAAGTCTACT
* *
16138 TTTTCCCAAATTGCCCTTCCCCATCGGAAGGTATTGT
1 TTTTCCCAAATTGCCCTTCCTCATCGGAAGGTGTTGT
16175 TTTGTTTCCC
Statistics
Matches: 337, Mismatches: 57, Indels: 60
0.74 0.13 0.13
Matches are distributed among these distances:
37 2 0.01
38 2 0.01
39 1 0.00
40 84 0.25
41 95 0.28
42 5 0.01
43 6 0.02
44 1 0.00
45 1 0.00
46 2 0.01
48 138 0.41
ACGTcount: A:0.16, C:0.27, G:0.19, T:0.38
Consensus pattern (48 bp):
TTTTCCCAAATTGCCCTTCCTCATCGGAAGGTGTTGTCTAAGTCTACT
Found at i:15859 original size:40 final size:40
Alignment explanation
Indices: 15800--16506 Score: 714
Period size: 40 Copynumber: 17.1 Consensus size: 40
15790 AAGTCTACTT
** *
15800 TTTCCCAAATTGCCTTTCCCCATCGGAAGGTGTTGTTTAG
1 TTTCCCAGTTTGCCCTTCCCCATCGGAAGGTGTTGTTTAG
**
15840 TTTCCCAGTTTGCCCTTCCCCATCGGAAGGTGTTACTTAG
1 TTTCCCAGTTTGCCCTTCCCCATCGGAAGGTGTTGTTTAG
* * * *
15880 TTTTCCTGTTTTGCCC-TCCCTACCGGAAGGTGTTGTTTAAG
1 TTTCCCAG-TTTGCCCTTCCCCATCGGAAGGTGTTGTTT-AG
*
15921 TTTCCCAGTTTGCCCTTCCCCATCGGAAGGTGTTGTCTACGTCTACTT
1 TTTCCCAGTTTGCCCTTCCCCATCGGAAGGTGTTG--T---T-TA--G
**
15969 TTTCCCAAATTGCCCTTCCCCATCGGAAGGTGTTGTTTAG
1 TTTCCCAGTTTGCCCTTCCCCATCGGAAGGTGTTGTTTAG
* *
16009 TTTCCCAGTTTGCCCTTCCTCATCGAAAGGTGTTGTTTAG
1 TTTCCCAGTTTGCCCTTCCCCATCGGAAGGTGTTGTTTAG
* * * * *
16049 TTTTCCTGTTTTGCTCTTCCACACCGGAAGGTGTTGTTTAAG
1 TTTCCCAG-TTTGCCCTTCCCCATCGGAAGGTGTTGTTT-AG
* *
16091 TTTCCCAGTTTGCCCTTCCTCATCGGAAGGTGTTGTCTAAGTCTACTT
1 TTTCCCAGTTTGCCCTTCCCCATCGGAAGGTGTTG--T---T-TA--G
** * *
16139 TTTCCCAAATTGCCCTTCCCCATCGGAAGGTATTGTTTTG
1 TTTCCCAGTTTGCCCTTCCCCATCGGAAGGTGTTGTTTAG
* * ** * *
16179 TTTCCCGGGTTGCCCTTCCCGGTCAGAAGGTGTTGTTAAG
1 TTTCCCAGTTTGCCCTTCCCCATCGGAAGGTGTTGTTTAG
*
16219 TTTCCCAGTTCGCCCTTCCCCATCGGAAGGTGTTGTTTAG
1 TTTCCCAGTTTGCCCTTCCCCATCGGAAGGTGTTGTTTAG
* * * *
16259 TTTTCCTGTTTTGCCCTTCCCCACCGGAAGGTGTTTTTTAAG
1 TTTCCCAG-TTTGCCCTTCCCCATCGGAAGGTGTTGTTT-AG
* * *
16301 TTTCCAAGTTCGCCCTTCCCCATCGGAAGTTGTTGTTTAG
1 TTTCCCAGTTTGCCCTTCCCCATCGGAAGGTGTTGTTTAG
* * * * * *
16341 TTTTCCTGTTTTGCCCTTCCCGACCGGAAGATGTTTTTTAAG
1 TTTCCCAG-TTTGCCCTTCCCCATCGGAAGGTGTTGTTT-AG
*
16383 TTTCCCAGTTTGCCCTTCCCCATAGGAAGGTGTTGTTTAG
1 TTTCCCAGTTTGCCCTTCCCCATCGGAAGGTGTTGTTTAG
* * * * *
16423 TTTTCCAGCTTGCCCTTCCCCACCGGAAGGTGTTGTCTACA
1 TTTCCCAGTTTGCCCTTCCCCATCGGAAGGTGTTGTTTA-G
*
16464 TTTCCCAATTTGCCCTTCCCCATCGGAAGGTGTTGTTTAG
1 TTTCCCAGTTTGCCCTTCCCCATCGGAAGGTGTTGTTTAG
16504 TTT
1 TTT
16507 TCCTATCTCA
Statistics
Matches: 545, Mismatches: 96, Indels: 52
0.79 0.14 0.08
Matches are distributed among these distances:
40 224 0.41
41 219 0.40
42 26 0.05
43 4 0.01
46 6 0.01
47 2 0.00
48 64 0.12
ACGTcount: A:0.14, C:0.27, G:0.21, T:0.38
Consensus pattern (40 bp):
TTTCCCAGTTTGCCCTTCCCCATCGGAAGGTGTTGTTTAG
Found at i:15923 original size:41 final size:40
Alignment explanation
Indices: 15809--16509 Score: 686
Period size: 41 Copynumber: 16.9 Consensus size: 40
15799 TTTTCCCAAA
* *
15809 TTGCCTTTCCCCATCGGAAGGTGTTGTTTAGTTTCCCAGT
1 TTGCCCTTCCCCATCGGAAGGTGTTGTTTAGTTTTCCAGT
** *
15849 TTGCCCTTCCCCATCGGAAGGTGTTACTTAGTTTTCCTGTT
1 TTGCCCTTCCCCATCGGAAGGTGTTGTTTAGTTTTCCAG-T
* * *
15890 TTGCCC-TCCCTACCGGAAGGTGTTGTTTAAGTTTCCCAGT
1 TTGCCCTTCCCCATCGGAAGGTGTTGTTT-AGTTTTCCAGT
* **
15930 TTGCCCTTCCCCATCGGAAGGTGTTGTCTACGTCTACTTTTTCCCAAA
1 TTGCCCTTCCCCATCGGAAGGTGTTG--T---T-TA-GTTTT-CCAGT
*
15978 TTGCCCTTCCCCATCGGAAGGTGTTGTTTAGTTTCCCAGT
1 TTGCCCTTCCCCATCGGAAGGTGTTGTTTAGTTTTCCAGT
* * *
16018 TTGCCCTTCCTCATCGAAAGGTGTTGTTTAGTTTTCCTGTT
1 TTGCCCTTCCCCATCGGAAGGTGTTGTTTAGTTTTCCAG-T
* * * *
16059 TTGCTCTTCCACACCGGAAGGTGTTGTTTAAGTTTCCCAGT
1 TTGCCCTTCCCCATCGGAAGGTGTTGTTT-AGTTTTCCAGT
* * **
16100 TTGCCCTTCCTCATCGGAAGGTGTTGTCTAAGTCTACTTTTTCCCAAA
1 TTGCCCTTCCCCATCGGAAGGTGTTG--T---T-TA-GTTTT-CCAGT
* * * * *
16148 TTGCCCTTCCCCATCGGAAGGTATTGTTTTGTTTCCCGGG
1 TTGCCCTTCCCCATCGGAAGGTGTTGTTTAGTTTTCCAGT
** * * *
16188 TTGCCCTTCCCGGTCAGAAGGTGTTGTTAAGTTTCCCAGT
1 TTGCCCTTCCCCATCGGAAGGTGTTGTTTAGTTTTCCAGT
* *
16228 TCGCCCTTCCCCATCGGAAGGTGTTGTTTAGTTTTCCTGTT
1 TTGCCCTTCCCCATCGGAAGGTGTTGTTTAGTTTTCCAG-T
* *
16269 TTGCCCTTCCCCACCGGAAGGTGTTTTTTAAG-TTTCCAAGT
1 TTGCCCTTCCCCATCGGAAGGTGTTGTTT-AGTTTTCC-AGT
* * *
16310 TCGCCCTTCCCCATCGGAAGTTGTTGTTTAGTTTTCCTGTT
1 TTGCCCTTCCCCATCGGAAGGTGTTGTTTAGTTTTCCAG-T
* * * * *
16351 TTGCCCTTCCCGACCGGAAGATGTTTTTTAAGTTTCCCAGT
1 TTGCCCTTCCCCATCGGAAGGTGTTGTTT-AGTTTTCCAGT
* *
16392 TTGCCCTTCCCCATAGGAAGGTGTTGTTTAGTTTTCCAGC
1 TTGCCCTTCCCCATCGGAAGGTGTTGTTTAGTTTTCCAGT
* * * * *
16432 TTGCCCTTCCCCACCGGAAGGTGTTGTCTACATTTCCCAAT
1 TTGCCCTTCCCCATCGGAAGGTGTTGTTTA-GTTTTCCAGT
16473 TTGCCCTTCCCCATCGGAAGGTGTTGTTTAGTTTTCC
1 TTGCCCTTCCCCATCGGAAGGTGTTGTTTAGTTTTCC
16510 TATCTCACCC
Statistics
Matches: 538, Mismatches: 95, Indels: 56
0.78 0.14 0.08
Matches are distributed among these distances:
40 207 0.38
41 235 0.44
42 22 0.04
43 4 0.01
46 6 0.01
47 8 0.01
48 56 0.10
ACGTcount: A:0.14, C:0.27, G:0.21, T:0.38
Consensus pattern (40 bp):
TTGCCCTTCCCCATCGGAAGGTGTTGTTTAGTTTTCCAGT
Found at i:16041 original size:169 final size:167
Alignment explanation
Indices: 15752--16506 Score: 864
Period size: 169 Copynumber: 4.5 Consensus size: 167
15742 AGGTCTGCTT
* * * *
15752 TTTCCCAAG-TTGCCCTTCCTCATCGAAAGGAGTTGTCTAAGTCTACTTTTTCCCAAATTGCCTT
1 TTTCCC-AGTTTGCCCTTCCCCATCGGAAGGTGTTGTCT-AGTCTACTTTTTCCCAAATTGCCCT
* * *
15816 TCCCCATCGGAAGGTGTTGTTTAGTTTCCCAGTTTGCCCTTCCCCATCGGAAGGTGTTACTT-AG
64 TCCCCATCGGAAGGTGTTGTTTAGTTTCCCAGTTTGCCCTTCCCGATCGAAAGGTGTT-TTTAAG
* * *
15880 TTTTCCTGTTTTGCCC-TCCCTACCGGAAGGTGTTGTTTAAG
128 TTTCCCAG-TTTGCCCTTCCCCACCGGAAGGTGTTGTTT-AG
15921 TTTCCCAGTTTGCCCTTCCCCATCGGAAGGTGTTGTCTACGTCTACTTTTTCCCAAATTGCCCTT
1 TTTCCCAGTTTGCCCTTCCCCATCGGAAGGTGTTGTCTA-GTCTACTTTTTCCCAAATTGCCCTT
15986 CCCCATCGGAAGGTGTTGTTTAGTTTCCCAGTTTGCCCTTCCTC-ATCGAAAGGTGTTGTTT-AG
65 CCCCATCGGAAGGTGTTGTTTAGTTTCCCAGTTTGCCCTTCC-CGATCGAAAGGTGTT-TTTAAG
* * * *
16049 TTTTCCTGTTTTGCTCTTCCACACCGGAAGGTGTTGTTTAAG
128 TTTCCCAG-TTTGCCCTTCCCCACCGGAAGGTGTTGTTT-AG
*
16091 TTTCCCAGTTTGCCCTTCCTCATCGGAAGGTGTTGTCTAAGTCTACTTTTTCCCAAATTGCCCTT
1 TTTCCCAGTTTGCCCTTCCCCATCGGAAGGTGTTGTCT-AGTCTACTTTTTCCCAAATTGCCCTT
* * * * * *
16156 CCCCATCGGAAGGTATTGTTTTGTTTCCCGGGTTGCCCTTCCCGGTC-AGAAGGTGTTGTTAAGT
65 CCCCATCGGAAGGTGTTGTTTAGTTTCCCAGTTTGCCCTTCCCGATCGA-AAGGTGTTTTTAAGT
* *
16220 TTCCCAGTTCGCCCTTCCCCATCGGAAGGTGTTGTTTAG
129 TTCCCAGTTTGCCCTTCCCCACCGGAAGGTGTTGTTTAG
* * * ** *
16259 TTTTCCTGTTTTGCCCTTCCCCACCGGAAGGTGTT-T-T--T-TA-AGTTT-CCAAGTTCGCCCT
1 TTTCCCAG-TTTGCCCTTCCCCATCGGAAGGTGTTGTCTAGTCTACTTTTTCCCAAATT-GCCCT
* * * * * *
16317 TCCCCATCGGAAGTTGTTGTTTAGTTTTCCTGTTTTGCCCTTCCCGACCGGAAGATGTTTTTTAA
64 TCCCCATCGGAAGGTGTTGTTTAGTTTCCCAG-TTTGCCCTTCCCGATCGAAAGGTG-TTTTTAA
**
16382 GTTTCCCAGTTTGCCCTTCCCCATAGGAAGGTGTTGTTTAG
127 GTTTCCCAGTTTGCCCTTCCCCACCGGAAGGTGTTGTTTAG
* * * *
16423 TTTTCCAGCTTGCCCTTCCCCACCGGAAGGTGTTGTCTA--C-A---TTTCCCAATTTGCCCTTC
1 TTTCCCAGTTTGCCCTTCCCCATCGGAAGGTGTTGTCTAGTCTACTTTTTCCCAAATTGCCCTTC
16482 CCCATCGGAAGGTGTTGTTTAGTTT
66 CCCATCGGAAGGTGTTGTTTAGTTT
16507 TCCTATCTCA
Statistics
Matches: 521, Mismatches: 47, Indels: 42
0.85 0.08 0.07
Matches are distributed among these distances:
161 6 0.01
162 35 0.07
163 79 0.15
164 60 0.12
165 2 0.00
167 1 0.00
168 12 0.02
169 183 0.35
170 142 0.27
171 1 0.00
ACGTcount: A:0.15, C:0.27, G:0.20, T:0.38
Consensus pattern (167 bp):
TTTCCCAGTTTGCCCTTCCCCATCGGAAGGTGTTGTCTAGTCTACTTTTTCCCAAATTGCCCTTC
CCCATCGGAAGGTGTTGTTTAGTTTCCCAGTTTGCCCTTCCCGATCGAAAGGTGTTTTTAAGTTT
CCCAGTTTGCCCTTCCCCACCGGAAGGTGTTGTTTAG
Found at i:16617 original size:50 final size:48
Alignment explanation
Indices: 16557--16890 Score: 393
Period size: 50 Copynumber: 6.8 Consensus size: 48
16547 TTCTTATTCA
*
16557 AAAATGCCCCTTCCCGGTCAGAAGGTCACTGTTTTCTTTATCTGTTTCCC
1 AAAATGCCCCTTCCCGGTCGGAAGGTC-CTGTTTTCTTTAT-TGTTTCCC
*
16607 AAAATGCCCCTTCCCGGTCGGAAGGTCCATGTTTTATTTATCTGTTT-CC
1 AAAATGCCCCTTCCCGGTCGGAAGGTCC-TGTTTTCTTTAT-TGTTTCCC
* *
16656 AAAATGCCCCTCTCCC-GTCGGAAGGTCCCTGTCTTCTATATTTGTTTCCC
1 AAAATGCCCCT-TCCCGGTCGGAAGGT-CCTGTTTTCTTTA-TTGTTTCCC
* *
16706 AAAAGGCCCCTTCCCGGTCGGAAGGTCCTTGTTTTCTTTATTCGTTTCCT
1 AAAATGCCCCTTCCCGGTCGGAAGGTCC-TGTTTTCTTTATT-GTTTCCC
* * *
16756 AAAATGCCCCTTCCCGGTCGGAAGGTCCCTATTCTCTTTATTTGTTTCCT
1 AAAATGCCCCTTCCCGGTCGGAAGGT-CCTGTTTTCTTTA-TTGTTTCCC
* * * * *
16806 AAAATGCCCCTTCCTGGTTGGAAGGTCCCAGTTTTCTTTCTTTTTTCCC
1 AAAATGCCCCTTCCCGGTCGGAAGGT-CCTGTTTTCTTTATTGTTTCCC
* * *
16855 AAAATGCCCCTTCTCGGTCGGAAAGTCCAGTTTTCT
1 AAAATGCCCCTTCCCGGTCGGAAGGTCCTGTTTTCT
16891 CTTCACATTT
Statistics
Matches: 250, Mismatches: 24, Indels: 22
0.84 0.08 0.07
Matches are distributed among these distances:
48 10 0.04
49 74 0.30
50 162 0.65
51 4 0.02
ACGTcount: A:0.17, C:0.29, G:0.17, T:0.37
Consensus pattern (48 bp):
AAAATGCCCCTTCCCGGTCGGAAGGTCCTGTTTTCTTTATTGTTTCCC
Found at i:16680 original size:99 final size:98
Alignment explanation
Indices: 16557--16890 Score: 431
Period size: 99 Copynumber: 3.4 Consensus size: 98
16547 TTCTTATTCA
* * *
16557 AAAATGCCCCTTCCCGGTCAGAAGGTCACTGTTTTCTTTATCTGTTTCCCAAAATGCCCCTTCCC
1 AAAATGCCCCTTCCCGGTCGGAAGGTCCCTGTTTTCTTTATTTGTTTCCCAAAATGCCCCTTCCC
*
16622 GGTCGGAAGGTCCATGTTTTATTTATCTGTTTCC
66 GGTCGGAAGGTCCATGTTTTCTTTAT-TGTTTCC
* * *
16656 AAAATGCCCCTCTCCC-GTCGGAAGGTCCCTGTCTTCTATATTTGTTTCCCAAAAGGCCCCTTCC
1 AAAATGCCCCT-TCCCGGTCGGAAGGTCCCTGTTTTCTTTATTTGTTTCCCAAAATGCCCCTTCC
*
16720 CGGTCGGAAGGTCCTTGTTTTCTTTATTCGTTTCC
65 CGGTCGGAAGGTCCATGTTTTCTTTATT-GTTTCC
* * *
16755 TAAAATGCCCCTTCCCGGTCGGAAGGTCCCTATTCTCTTTATTTGTTTCCTAAAATGCCCCTTCC
1 -AAAATGCCCCTTCCCGGTCGGAAGGTCCCTGTTTTCTTTATTTGTTTCCCAAAATGCCCCTTCC
* * * *
16820 TGGTTGGAAGGTCCCA-GTTTTCTTTCTTTTTTCCC
65 CGGTCGGAAGGT-CCATGTTTTCTTTATTGTTT-CC
* * *
16855 AAAATGCCCCTTCTCGGTCGGAAAGT-CCAGTTTTCT
1 AAAATGCCCCTTCCCGGTCGGAAGGTCCCTGTTTTCT
16891 CTTCACATTT
Statistics
Matches: 205, Mismatches: 24, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
98 8 0.04
99 115 0.56
100 80 0.39
101 2 0.01
ACGTcount: A:0.17, C:0.29, G:0.17, T:0.37
Consensus pattern (98 bp):
AAAATGCCCCTTCCCGGTCGGAAGGTCCCTGTTTTCTTTATTTGTTTCCCAAAATGCCCCTTCCC
GGTCGGAAGGTCCATGTTTTCTTTATTGTTTCC
Found at i:16853 original size:149 final size:148
Alignment explanation
Indices: 16557--16890 Score: 449
Period size: 149 Copynumber: 2.2 Consensus size: 148
16547 TTCTTATTCA
*
16557 AAAATGCCCCTTCCCGGTCAGAAGGTCACTGTTTTCTTTATCTGTTTCCCAAAATGCCCCTTCCC
1 AAAATGCCCCTTCCCGGTCGGAAGGTC-CTGTTTTCTTTATCTGTTTCCCAAAATGCCCCTTCCC
* * *
16622 GGTCGGAAGGTCCATGTTTTATTTATCTGTTTCCAAAATGCCCCTCTCCCGTCGGAAGGTCCCTG
65 GGTCGGAAGGTCCATATTCTATTTATCTGTTTCCAAAATGCCCCTCTCCCGTCGGAAGGTCCCAG
16687 TCTTCTATATTTGTTTCCC
130 TCTTCTATATTTGTTTCCC
* *
16706 AAAAGGCCCCTTCCCGGTCGGAAGGTCCTTGTTTTCTTTAT-TCGTTTCCTAAAATGCCCCTTCC
1 AAAATGCCCCTTCCCGGTCGGAAGGTCC-TGTTTTCTTTATCT-GTTTCCCAAAATGCCCCTTCC
* * * * *
16770 CGGTCGGAAGGTCCCTATTCTCTTTATTTGTTTCCTAAAATGCCCCT-TCCTGGTTGGAAGGTCC
64 CGGTCGGAAGGTCCATATTCTATTTATCTGTTTCC-AAAATGCCCCTCTCC-CGTCGGAAGGTCC
* * *
16834 CAGTTTTCTTTCTTT-TTTCCC
127 CAGTCTTCTATATTTGTTTCCC
* * *
16855 AAAATGCCCCTTCTCGGTCGGAAAGTCCAGTTTTCT
1 AAAATGCCCCTTCCCGGTCGGAAGGTCCTGTTTTCT
16891 CTTCACATTT
Statistics
Matches: 163, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
148 9 0.06
149 121 0.74
150 33 0.20
ACGTcount: A:0.17, C:0.29, G:0.17, T:0.37
Consensus pattern (148 bp):
AAAATGCCCCTTCCCGGTCGGAAGGTCCTGTTTTCTTTATCTGTTTCCCAAAATGCCCCTTCCCG
GTCGGAAGGTCCATATTCTATTTATCTGTTTCCAAAATGCCCCTCTCCCGTCGGAAGGTCCCAGT
CTTCTATATTTGTTTCCC
Found at i:18628 original size:1 final size:1
Alignment explanation
Indices: 18622--18646 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
18612 AAAACAAGAG
18622 CCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCC
18647 ATATAGTACG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:27838 original size:24 final size:24
Alignment explanation
Indices: 27811--27878 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
27801 GAAAGTCAAA
*
27811 GAGCAGCAGAAAAAGAAAAAGAGT
1 GAGCAGCAGAAAAAGAAAAAGAAT
* *
27835 GAGCAGCAGTAGAAGAAAAAGAAT
1 GAGCAGCAGAAAAAGAAAAAGAAT
* *
27859 GAACAACAGGAAAAAGAAAA
1 GAGCAGCA-GAAAAAGAAAA
27879 GACTGATGGA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
24 27 0.75
25 9 0.25
ACGTcount: A:0.60, C:0.09, G:0.26, T:0.04
Consensus pattern (24 bp):
GAGCAGCAGAAAAAGAAAAAGAAT
Found at i:30995 original size:36 final size:36
Alignment explanation
Indices: 30952--31132 Score: 255
Period size: 36 Copynumber: 5.1 Consensus size: 36
30942 CTCTTTTTAG
*
30952 ATTAAGTTCTTTATTGACTCCACTTAATTTCCCTGA
1 ATTAAGTTCTTTATTGACTCCACTTAATTACCCTGA
* *
30988 ATTAAGTTCTTTAATGACTCCACTTAATTGCCCTGA
1 ATTAAGTTCTTTATTGACTCCACTTAATTACCCTGA
*
31024 ATTAAGTTCTTTATTGACTCCACTTAATTACCCAGA
1 ATTAAGTTCTTTATTGACTCCACTTAATTACCCTGA
*
31060 ATTAAG-CCTTTTATTGACTCCACTTAATTACCCTGA
1 ATTAAGTTC-TTTATTGACTCCACTTAATTACCCTGA
* *
31096 ATTAAGTAC----TTGACTCTACTTAATTACCCTGA
1 ATTAAGTTCTTTATTGACTCCACTTAATTACCCTGA
31128 ATTAA
1 ATTAA
31133 ATCCTTTTCT
Statistics
Matches: 134, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
32 27 0.20
35 1 0.01
36 105 0.78
37 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (36 bp):
ATTAAGTTCTTTATTGACTCCACTTAATTACCCTGA
Found at i:31151 original size:32 final size:32
Alignment explanation
Indices: 31073--31134 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
31063 AAGCCTTTTA
* *
31073 TTGACTCCACTTAATTACCCTGAATTAAGTAC
1 TTGACTCTACTTAATTACCCTGAATTAAATAC
31105 TTGACTCTACTTAATTACCCTGAATTAAAT
1 TTGACTCTACTTAATTACCCTGAATTAAAT
31135 CCTTTTCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.37
Consensus pattern (32 bp):
TTGACTCTACTTAATTACCCTGAATTAAATAC
Found at i:31275 original size:71 final size:73
Alignment explanation
Indices: 31161--31295 Score: 195
Period size: 71 Copynumber: 1.9 Consensus size: 73
31151 TCCCCTTAGG
* * *
31161 TTAAGTCTTTGTCTGAGCTTGCTTAATCATCTTTGGATTAAGTCTTTGCTGATTTTACTTAATTT
1 TTAAGTCTTTGTCTGAGCTTACTTAATCATCTTTGAATTAAGTCTTTGCTAATTTTACTTAATTT
31226 CTTTGAAA
66 CTTTGAAA
* *
31234 TTAAGTCTTTG-CTGA-TTTACTTAATTA-CTTTGAATTGAAGTCTTTGCTAATTTTACTTAATT
1 TTAAGTCTTTGTCTGAGCTTACTTAATCATCTTTGAATT-AAGTCTTTGCTAATTTTACTTAATT
31296 ACCCTAAATT
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
70 8 0.14
71 33 0.59
72 4 0.07
73 11 0.20
ACGTcount: A:0.24, C:0.13, G:0.13, T:0.50
Consensus pattern (73 bp):
TTAAGTCTTTGTCTGAGCTTACTTAATCATCTTTGAATTAAGTCTTTGCTAATTTTACTTAATTT
CTTTGAAA
Found at i:31296 original size:36 final size:35
Alignment explanation
Indices: 31161--31297 Score: 168
Period size: 36 Copynumber: 3.8 Consensus size: 35
31151 TCCCCTTAGG
** * * *
31161 TTAAGTCTTTGTCTGAGCTTGCTTAATCATCTTTGGA
1 TTAAGTCTTTG-CTGATTTTACTTAATTA-CTTTGAA
*
31198 TTAAGTCTTTGCTGATTTTACTTAATTTCTTTGAAA
1 TTAAGTCTTTGCTGATTTTACTTAATTACTTTG-AA
31234 TTAAGTCTTTGCTGA-TTTACTTAATTACTTTGAA
1 TTAAGTCTTTGCTGATTTTACTTAATTACTTTGAA
*
31268 TTGAAGTCTTTGCTAATTTTACTTAATTAC
1 TT-AAGTCTTTGCTGATTTTACTTAATTAC
31298 CCTAAATTAA
Statistics
Matches: 89, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
34 4 0.04
35 33 0.37
36 41 0.46
37 11 0.12
ACGTcount: A:0.24, C:0.13, G:0.13, T:0.50
Consensus pattern (35 bp):
TTAAGTCTTTGCTGATTTTACTTAATTACTTTGAA
Found at i:31426 original size:37 final size:39
Alignment explanation
Indices: 31301--31477 Score: 229
Period size: 41 Copynumber: 4.5 Consensus size: 39
31291 TAATTACCCT
31301 AAATTAAGT-ATGTGCTTGTCTTTACCTAATTTCCTTCCTTG
1 AAATTAAGTCA-GTGCTTGTCTTTACCTAA-TT-CTTCCTTG
31342 AAATTAAGTCAGTGCTTGTCTTTACCTAATTTCCTTCCTTG
1 AAATTAAGTCAGTGCTTGTCTTTACCTAA-TT-CTTCCTTG
31383 AAATTAAGTCAGTGCTTGTCTTTACCTAA-T-TTCCTTG
1 AAATTAAGTCAGTGCTTGTCTTTACCTAATTCTTCCTTG
* * *
31420 AAATTAAGTCTGTGCTTGTCTTTACATAA-T-TTACTTG
1 AAATTAAGTCAGTGCTTGTCTTTACCTAATTCTTCCTTG
**
31457 AAATTAAGTTTGTGCTTGTCT
1 AAATTAAGTCAGTGCTTGTCT
31478 AAGTCCTTTA
Statistics
Matches: 131, Mismatches: 4, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
37 61 0.47
39 1 0.01
41 68 0.52
42 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.14, T:0.45
Consensus pattern (39 bp):
AAATTAAGTCAGTGCTTGTCTTTACCTAATTCTTCCTTG
Found at i:31450 original size:78 final size:80
Alignment explanation
Indices: 31301--31477 Score: 242
Period size: 78 Copynumber: 2.3 Consensus size: 80
31291 TAATTACCCT
31301 AAATTAAGTATGTGCTTGTCTTTACCTAATTTCCTTCCTTGAAATTAAGTCAGTGCTTGTCTTTA
1 AAATTAAGTATGTGCTTGTCTTTACCTAA-TT-CTTCCTTGAAATTAAGTCAGTGCTTGTCTTTA
*
31366 CCTAATTTCCTTCCTTG
64 CATAATTTCCTTCCTTG
*
31383 AAATTAAGTCA-GTGCTTGTCTTTACCTAA-T-TTCCTTGAAATTAAGTCTGTGCTTGTCTTTAC
1 AAATTAAGT-ATGTGCTTGTCTTTACCTAATTCTTCCTTGAAATTAAGTCAGTGCTTGTCTTTAC
*
31445 ATAA--T--TTACTTG
65 ATAATTTCCTTCCTTG
*
31457 AAATTAAGTTTGTGCTTGTCT
1 AAATTAAGTATGTGCTTGTCT
31478 AAGTCCTTTA
Statistics
Matches: 89, Mismatches: 4, Indels: 12
0.85 0.04 0.11
Matches are distributed among these distances:
74 25 0.28
76 1 0.01
78 34 0.38
80 1 0.01
82 27 0.30
83 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.14, T:0.45
Consensus pattern (80 bp):
AAATTAAGTATGTGCTTGTCTTTACCTAATTCTTCCTTGAAATTAAGTCAGTGCTTGTCTTTACA
TAATTTCCTTCCTTG
Found at i:31577 original size:36 final size:36
Alignment explanation
Indices: 31477--32373 Score: 654
Period size: 36 Copynumber: 25.4 Consensus size: 36
31467 TGTGCTTGTC
* * *
31477 TAAGTCCTTTACTTGCTTTCAGTTAATTACCCTGAAT
1 TAAGTCCTTGAC-TGCTTTTACTTAATTACCCTGAAT
* * * * **
31514 TAAGTCTTTTAATTGTTTTTACTTAATTATTCTGAAT
1 TAAGTC-CTTGACTGCTTTTACTTAATTACCCTGAAT
* *
31551 TAAGTGCTTGACTGCTTTTACTTAATTTCCCTGAAT
1 TAAGTCCTTGACTGCTTTTACTTAATTACCCTGAAT
* *
31587 TAAGTCCTTTAACTGTTTTTACTTAATTACCCTGAAT
1 TAAGTCC-TTGACTGCTTTTACTTAATTACCCTGAAT
* *
31624 TAAGTCCTTGACTGCTTTTACTTAATTTCCCTGAGT
1 TAAGTCCTTGACTGCTTTTACTTAATTACCCTGAAT
* *
31660 TAAGTCCTTTACTGCTTTTACTTAATTACTCTGAAT
1 TAAGTCCTTGACTGCTTTTACTTAATTACCCTGAAT
* * * * *
31696 TAAATCATTG-TTGATTTTACTTAATTACCATGAAT
1 TAAGTCCTTGACTGCTTTTACTTAATTACCCTGAAT
* * *
31731 TAAGT-CTATG-CTGATTTCACTTAATTACCCCGAAT
1 TAAGTCCT-TGACTGCTTTTACTTAATTACCCTGAAT
* * * * *
31766 TAAGTCCTTTTACCGATTTTACTTAATTATCTTGAAT
1 TAAGTCC-TTGACTGCTTTTACTTAATTACCCTGAAT
* * *
31803 TAAGT-CTTCACTGCTTTTACTTAATTTCCTTGAAT
1 TAAGTCCTTGACTGCTTTTACTTAATTACCCTGAAT
* * *
31838 TAAGTCCTTTACTGCTTTTACTTAATTACGCTGAAC
1 TAAGTCCTTGACTGCTTTTACTTAATTACCCTGAAT
* *
31874 TAAGTCTTTG-CTGATTTTACTTAATTACCCTGAAT
1 TAAGTCCTTGACTGCTTTTACTTAATTACCCTGAAT
* ** *
31909 TAAGTCCTTTACTAATTTTACTTAGTTACCCTGAAT
1 TAAGTCCTTGACTGCTTTTACTTAATTACCCTGAAT
* * *
31945 TAAG-CCTGTGACAGCTTTTACTTAA-AAGTCCTGAAT
1 TAAGTCCT-TGACTGCTTTTACTTAATTA-CCCTGAAT
* * * * *
31981 TAAGACTTTG-CTGACTATTACTTAATT-TCCTG-AC
1 TAAGTCCTTGACTG-CTTTTACTTAATTACCCTGAAT
* * * *
32015 T-A--CTTTTACT--TAATTACCCTGAA-T----T-AA-
1 TAAGTCCTTGACTGCT-TTTA--CTTAATTACCCTGAAT
* *
32042 ---G-CCTTTGACTGTTTTTACTTAATTACCTTGAAT
1 TAAGTCC-TTGACTGCTTTTACTTAATTACCCTGAAT
* * * *
32075 TAAGTCTTTGACT-ATCCTTACTTAATTACCTTGAAT
1 TAAGTCCTTGACTGCT-TTTACTTAATTACCCTGAAT
* * *
32111 TAAGTTCTTAACTGCTTTTACTTAATTTCCCTGAAT
1 TAAGTCCTTGACTGCTTTTACTTAATTACCCTGAAT
* * *
32147 TAAGTCATTTACTACTTTTACTTAATTACCCTGAAT
1 TAAGTCCTTGACTGCTTTTACTTAATTACCCTGAAT
** * **
32183 TAAGTTTTTGACTGTTTTTACTTAGCTACCCTGAAT
1 TAAGTCCTTGACTGCTTTTACTTAATTACCCTGAAT
* *
32219 TAAGTCTTTGACTG-TGTTTACTTAATTACTCTGAAT
1 TAAGTCCTTGACTGCT-TTTACTTAATTACCCTGAAT
*
32255 TAAGT-CTTGACTG-TGTTTACTAAATTACCCTGAAT
1 TAAGTCCTTGACTGCT-TTTACTTAATTACCCTGAAT
* * * *
32290 TAAGTCTTTGACTG-TGTTTAGTAAATTACCCCGAAT
1 TAAGTCCTTGACTGCT-TTTACTTAATTACCCTGAAT
* * * * *
32326 TAAG-ACTTTACT-ATATTTTCTTAATTACCCCGAAT
1 TAAGTCCTTGACTGCT-TTTACTTAATTACCCTGAAT
*
32361 TAAGACCTTGACT
1 TAAGTCCTTGACT
32374 ATGTTTTCTT
Statistics
Matches: 696, Mismatches: 125, Indels: 79
0.77 0.14 0.09
Matches are distributed among these distances:
26 5 0.01
27 6 0.01
28 5 0.01
29 2 0.00
30 4 0.01
31 6 0.01
32 8 0.01
33 1 0.00
34 3 0.00
35 184 0.26
36 376 0.54
37 93 0.13
38 3 0.00
ACGTcount: A:0.27, C:0.18, G:0.11, T:0.44
Consensus pattern (36 bp):
TAAGTCCTTGACTGCTTTTACTTAATTACCCTGAAT
Found at i:31778 original size:107 final size:106
Alignment explanation
Indices: 31499--32370 Score: 647
Period size: 107 Copynumber: 8.2 Consensus size: 106
31489 TTGCTTTCAG
* ** * ** * *
31499 TTAATTACCCTGAATTAAGTCTTTTAATTGTTTTTACTTAATTATTCTGAATTAAGTGCTTGACT
1 TTAATTACCCTGAATTAAGTC-CTT-GCTGCTTTTACTTAATTACCCTGAATTAAGTCCTTTACT
* * *
31564 GCTTTTACTTAATTTCCCTGAATTAAGTCCTTTAACTGTTTTTAC
64 GATTTTACTTAATTACCCTGAATTAAGTCCTTT-A-TGATTTTAC
* *
31609 TTAATTACCCTGAATTAAGTCCTTGACTGCTTTTACTTAATTTCCCTGAGTTAAGTCCTTTACTG
1 TTAATTACCCTGAATTAAGTCCTTG-CTGCTTTTACTTAATTACCCTGAATTAAGTCCTTTACTG
* * * *
31674 CTTTTACTTAATTACTCTGAATTAAATCATTGT-TGATTTTAC
65 ATTTTACTTAATTACCCTGAATTAAGTCCTT-TATGATTTTAC
* * * * *
31716 TTAATTACCATGAATTAAGT-CTATGCTGATTTCACTTAATTACCCCGAATTAAGTCCTTTTACC
1 TTAATTACCCTGAATTAAGTCCT-TGCTGCTTTTACTTAATTACCCTGAATTAAGTCC-TTTACT
* * * *
31780 GATTTTACTTAATTATCTTGAATTAAGT-CTTCACTGCTTTTAC
64 GATTTTACTTAATTACCCTGAATTAAGTCCTTTA-TGATTTTAC
* * * * * *
31823 TTAATTTCCTTGAATTAAGTCCTTTACTGCTTTTACTTAATTACGCTGAACTAAGT-CTTTGCTG
1 TTAATTACCCTGAATTAAGTCC-TTGCTGCTTTTACTTAATTACCCTGAATTAAGTCCTTTACTG
*
31887 ATTTTACTTAATTACCCTGAATTAAGTCCTTTACTAATTTTAC
65 ATTTTACTTAATTACCCTGAATTAAGTCCTTTA-TGATTTTAC
* * * * * *
31930 TTAGTTACCCTGAATTAAG-CCTGTGACAGCTTTTACTTAA-AAGTCCTGAATTAAG-ACTTTGC
1 TTAATTACCCTGAATTAAGTCCT-TG-CTGCTTTTACTTAATTA-CCCTGAATTAAGTCCTTTAC
* * *
31992 TGACTATTACTTAATT-TCCTG-----A---C--TA--CTTTTAC
63 TGA-TTTTACTTAATTACCCTGAATTAAGTCCTTTATGATTTTAC
* *
32024 TTAATTACCCTGAATTAAG-CCTTTGACTGTTTTTACTTAATTACCTTGAATTAAGT-CTTTGAC
1 TTAATTACCCTGAATTAAGTCC-TTG-CTGCTTTTACTTAATTACCCTGAATTAAGTCCTTT-AC
* * * * *
32087 T-ATCCTTACTTAATTACCTTGAATTAAGTTCTTAACTGCTTTTAC
63 TGAT-TTTACTTAATTACCCTGAATTAAGTCCTTTA-TGATTTTAC
* * * * *
32132 TTAATTTCCCTGAATTAAGTCATTTACTACTTTTACTTAATTACCCTGAATTAAGT-TTTTGACT
1 TTAATTACCCTGAATTAAGTC-CTTGCTGCTTTTACTTAATTACCCTGAATTAAGTCCTTT-ACT
* **
32196 GTTTTTACTTAGCTACCCTGAATTAAGT-CTTTGACTG-TGTTTAC
64 GATTTTACTTAATTACCCTGAATTAAGTCCTTT-A-TGAT-TTTAC
* *
32240 TTAATTACTCTGAATTAAGT-CTTGACTG-TGTTTACTAAATTACCCTGAATTAAGT-CTTTGAC
1 TTAATTACCCTGAATTAAGTCCTTG-CTGCT-TTTACTTAATTACCCTGAATTAAGTCCTTT-AC
* * * * *
32302 TG-TGTTTAGTAAATTACCCCGAATTAAG-ACTTTACT-ATATTTTC
63 TGAT-TTTACTTAATTACCCTGAATTAAGTCCTTTA-TGAT-TTTAC
* *
32346 TTAATTACCCCGAATTAAGACCTTG
1 TTAATTACCCTGAATTAAGTCCTTG
32371 ACTATGTTTT
Statistics
Matches: 620, Mismatches: 98, Indels: 91
0.77 0.12 0.11
Matches are distributed among these distances:
93 1 0.00
94 66 0.11
95 7 0.01
97 2 0.00
99 1 0.00
100 1 0.00
102 1 0.00
103 1 0.00
105 2 0.00
106 94 0.15
107 212 0.34
108 145 0.23
109 65 0.10
110 22 0.04
ACGTcount: A:0.27, C:0.18, G:0.11, T:0.44
Consensus pattern (106 bp):
TTAATTACCCTGAATTAAGTCCTTGCTGCTTTTACTTAATTACCCTGAATTAAGTCCTTTACTGA
TTTTACTTAATTACCCTGAATTAAGTCCTTTATGATTTTAC
Found at i:32146 original size:166 final size:165
Alignment explanation
Indices: 31852--32173 Score: 411
Period size: 166 Copynumber: 1.9 Consensus size: 165
31842 TCCTTTACTG
* *
31852 CTTTTACTTAATTACGCTGAACTAAGTCTTTGCTGATTTTACTTAATTACCCTGAATTAAGTCCT
1 CTTTTACTTAATTACCCTGAACTAAGCCTTTGCTGATTTTACTTAATTACCCTGAATTAAGTCCT
* * *
31917 TTACTAATTTTACTTAGTTACCCTGAATTAAGCCTGTGACAGCTTTTACTTAAAAGTCCTGAATT
66 TTACTAATCTTACTTAATTACCCTGAATTAAGCCTGTAACAGCTTTTACTTAAAAGTCCTGAATT
*
31982 AAGAC-TTTGCTGACTATTACTTAATTTCCTGACTA
131 AAGACATTTACT-ACTATTACTTAATTTCCTGACTA
* * *
32017 CTTTTACTTAATTACCCTGAATTAAGCCTTTGACTGTTTTTACTTAATTACCTTGAATTAAGT-C
1 CTTTTACTTAATTACCCTGAACTAAGCCTTTG-CTGATTTTACTTAATTACCCTGAATTAAGTCC
* * * **
32081 TTTGACT-ATCCTTACTTAATTACCTTGAATTAAGTTCT-TAACTGCTTTTACTT-AATTTCCCT
65 TTT-ACTAAT-CTTACTTAATTACCCTGAATTAAG-CCTGTAACAGCTTTTACTTAAAAGT-CCT
* *
32143 GAATTAAGTCATTTACTACTTTTACTTAATT
126 GAATTAAGACATTTACTACTATTACTTAATT
32174 ACCCTGAATT
Statistics
Matches: 135, Mismatches: 16, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
165 38 0.28
166 90 0.67
167 7 0.05
ACGTcount: A:0.27, C:0.19, G:0.10, T:0.44
Consensus pattern (165 bp):
CTTTTACTTAATTACCCTGAACTAAGCCTTTGCTGATTTTACTTAATTACCCTGAATTAAGTCCT
TTACTAATCTTACTTAATTACCCTGAATTAAGCCTGTAACAGCTTTTACTTAAAAGTCCTGAATT
AAGACATTTACTACTATTACTTAATTTCCTGACTA
Found at i:36200 original size:2 final size:2
Alignment explanation
Indices: 36193--36223 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
36183 GAATGTTCTA
36193 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
36224 CACGCAACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.