Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000976.1 Hibiscus syriacus cultivar Beakdansim tig00001952_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: 60177
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Found at i:2076 original size:19 final size:20
Alignment explanation
Indices: 2052--2089 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
2042 TATAATTTTA
*
2052 TATTTTAATTAAA-AAAATT
1 TATTTTAAATAAATAAAATT
2071 TATTTTAAATAAATAAAAT
1 TATTTTAAATAAATAAAAT
2090 AACAAGTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TATTTTAAATAAATAAAATT
Found at i:2960 original size:12 final size:13
Alignment explanation
Indices: 2930--2959 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2920 TAAATATATC
*
2930 TTTTGAAAAATAA
1 TTTTTAAAAATAA
2943 TTTTTAAAAATAA
1 TTTTTAAAAATAA
2956 TTTT
1 TTTT
2960 ACGATATTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (13 bp):
TTTTTAAAAATAA
Found at i:5304 original size:17 final size:17
Alignment explanation
Indices: 5276--5335 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
5266 AAATAAATAA
5276 AAAATAAAAAAGATAAAG
1 AAAAT-AAAAAGATAAAG
5294 AAAATAAAAAGA-AAATG
1 AAAATAAAAAGATAAA-G
*
5311 AAAAT-GAAA-ATAAAG
1 AAAATAAAAAGATAAAG
5326 ATAAATAAAA
1 A-AAATAAAA
5336 TAGAGAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
15 3 0.08
16 13 0.36
17 15 0.42
18 5 0.14
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (17 bp):
AAAATAAAAAGATAAAG
Found at i:5314 original size:12 final size:11
Alignment explanation
Indices: 5290--5324 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
5280 TAAAAAAGAT
5290 AAAGAAAATAA
1 AAAGAAAATAA
5301 AAAGAAAATGAA
1 AAAGAAAAT-AA
*
5313 AATGAAAATAA
1 AAAGAAAATAA
5324 A
1 A
5325 GATAAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (11 bp):
AAAGAAAATAA
Found at i:13751 original size:23 final size:23
Alignment explanation
Indices: 13725--13772 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
13715 ATAAAGTATA
*
13725 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
13748 ATAATTTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
13771 AT
1 AT
13773 TGACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:14272 original size:23 final size:23
Alignment explanation
Indices: 14246--14318 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
14236 ATATTTTACA
* *
14246 ATATAAGCACTACTTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
14269 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
14292 ATATAAGTGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
14315 ATAT
1 ATAT
14319 TTTTACCTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.37
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:14710 original size:23 final size:23
Alignment explanation
Indices: 14680--14729 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
14670 ATACTTTACA
*
14680 ATATAAGCACTACCTATTACATT
1 ATATAAGCACTACCTATTACATC
*
14703 ATATAAGCGCTACCTATTACATC
1 ATATAAGCACTACCTATTACATC
14726 ATAT
1 ATAT
14730 TTTTACCTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.22, G:0.06, T:0.34
Consensus pattern (23 bp):
ATATAAGCACTACCTATTACATC
Found at i:17836 original size:183 final size:183
Alignment explanation
Indices: 17523--20292 Score: 5143
Period size: 183 Copynumber: 15.2 Consensus size: 183
17513 ACTCCTATTG
* *
17523 TAAATTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCACTCATAAAACCG
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
17588 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
* * *
17653 AATGTTGATATTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
131 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
* *
17706 TAAAATACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACTG
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
* *
17771 GTATATTTATACCGGTTATATTATAAAATTATCTAATACATTATAATTCTGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
*
17836 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGATA
131 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
* *
17889 TAAAATACTGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCAT-AAACCG
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
17953 GTATATTTATACCGGTTATATTACAAAATTATCTATTACA-TATAATTCTGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
*
18017 AATGTCGACACTTTTTGACAAGGTATCAACACATTTTTCTTCCAATCTGGACA
131 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
*
18070 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCA
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
18135 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
18200 AATGTCGACACTTTTTGACAAGGTATCGACACA-TTTTCTTCCAATCTGGACA
131 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
18252 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
18317 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
*
18382 AATGTCGACACTTTTTGACAAGGTATCAACACATTTTTCTTCCAATCTGGACA
131 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
*
18435 T-AAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCA
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
18499 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
18564 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
131 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
18617 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
18682 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
* * *
18747 AATGTTGATATTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
131 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
*
18800 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACTG
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
* *
18865 GTATATTTATACCGGTTATATTATAAAATTATCTAATACATTATAATTCTGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
18930 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
131 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
* *
18983 TAAAATACTGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
19048 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
*
19113 AATGTCGACACTTTTTGACAAGGTATCAACACATTTTTCTTCCAATCTGGACA
131 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
*
19166 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCA
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
19231 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
19296 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
131 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
* *
19349 TAAAGTATCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCA
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
19414 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
*
19479 AATGTCGATACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
131 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
19532 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
19597 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
19662 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
131 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
19715 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
* *
19780 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCAATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
*
19845 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATATGGACA
131 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
* *
19898 TAAAGTACCGACACAGTATTAAAAAGTGTCGATATAGGTTGTATACCTATTCGCTCATAAAACCG
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
19963 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
*
20028 AATGTCGACACTTTTTGACAATGTATCGACACATTTTTCTTCCAATCTGGACA
131 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
* *
20081 TAAAGTACCGACACAATATTAAAAAGTGTTGATATAGGTTTTAGACCTATTCGCTCATAAAACCG
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
20146 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
*
20211 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACA
131 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
** *
20264 TAAAGTACATACATAATATTAAAAAGTGT
1 TAAAGTACCGACACAATATTAAAAAGTGT
20293 AAAAACTTTG
Statistics
Matches: 2517, Mismatches: 66, Indels: 8
0.97 0.03 0.00
Matches are distributed among these distances:
181 131 0.05
182 448 0.18
183 1938 0.77
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (183 bp):
TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
Found at i:21517 original size:12 final size:12
Alignment explanation
Indices: 21504--21615 Score: 143
Period size: 12 Copynumber: 9.3 Consensus size: 12
21494 GTTTGGATCA
* *
21504 TCATCATCATCA
1 TCATCTTCATCG
* * *
21516 TCATCGTCGTCA
1 TCATCTTCATCG
21528 TCATCTTCATCG
1 TCATCTTCATCG
21540 TCATCTTCATCG
1 TCATCTTCATCG
*
21552 TCAGCTTCATCG
1 TCATCTTCATCG
*
21564 TCATCATCATCG
1 TCATCTTCATCG
21576 TCATCTTCATCG
1 TCATCTTCATCG
21588 TCATCTTCATCG
1 TCATCTTCATCG
* *
21600 TCAGCTTCATCT
1 TCATCTTCATCG
21612 TCAT
1 TCAT
21616 TGACCGCTTG
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 88 1.00
ACGTcount: A:0.20, C:0.33, G:0.09, T:0.38
Consensus pattern (12 bp):
TCATCTTCATCG
Found at i:21615 original size:6 final size:6
Alignment explanation
Indices: 21504--21602 Score: 99
Period size: 6 Copynumber: 16.5 Consensus size: 6
21494 GTTTGGATCA
* * * * * *
21504 TCATCA TCATCA TCATCG TCGTCA TCATCT TCATCG TCATCT TCATCG
1 TCATCG TCATCG TCATCG TCATCG TCATCG TCATCG TCATCG TCATCG
* * * * *
21552 TCAGCT TCATCG TCATCA TCATCG TCATCT TCATCG TCATCT TCATCG
1 TCATCG TCATCG TCATCG TCATCG TCATCG TCATCG TCATCG TCATCG
21600 TCA
1 TCA
21603 GCTTCATCTT
Statistics
Matches: 75, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 75 1.00
ACGTcount: A:0.20, C:0.33, G:0.09, T:0.37
Consensus pattern (6 bp):
TCATCG
Found at i:23399 original size:200 final size:200
Alignment explanation
Indices: 23056--24036 Score: 1858
Period size: 200 Copynumber: 4.9 Consensus size: 200
23046 TTTAAATTAG
* *
23056 TATCGACACAAAATAAAAAAGTATCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
23121 CTTGTATCGGTTAGATTGAAAAATTACATATTACATTATACTTTTAGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
23186 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACC
23251 AAAAA
196 AAAAA
*
23256 TATCGACACAAACTAAAAAAGGGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
23321 CTTGTACCGGTTAGATTGAAAAATTATATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
23386 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACC
23451 -AAAA
196 AAAAA
23455 TATCGACAC-AACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
23519 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
23584 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACC
23649 AAAAA
196 AAAAA
*
23654 TATCGACACAAACTAAAAAAGGGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
23719 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
23784 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACC
23849 AAAAA
196 AAAAA
23854 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
23919 CTTGTAACGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
* *
23984 TCGACACTTTTTATATATGGATCGACACGTTATGGTTGCATCCTGTTTGCCAT
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCAT
24037 ATTGTAAATT
Statistics
Matches: 766, Mismatches: 13, Indels: 4
0.98 0.02 0.01
Matches are distributed among these distances:
198 183 0.24
199 26 0.03
200 557 0.73
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.36
Consensus pattern (200 bp):
TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACC
AAAAA
Found at i:23805 original size:398 final size:400
Alignment explanation
Indices: 23056--24036 Score: 1876
Period size: 398 Copynumber: 2.5 Consensus size: 400
23046 TTTAAATTAG
* *
23056 TATCGACACAAAATAAAAAAGTATCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
23121 CTTGTATCGGTTAGATTGAAAAATTACATATTACATTATACTTTTAGTTTTCGATGTTTTTGGGA
66 CTTGTAACGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
23186 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACC
23251 AAAAATATCGACACAAACTAAAAAAGGGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
196 AAAAATATCGACACAAACTAAAAAAGGGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
*
23316 GTATACTTGTACCGGTTAGATTGAAAAATTATATATTACATTATACTTTTGGTTTTCGATGTTTT
261 GTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTT
23381 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCT
326 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCT
23446 GGACC-AAAA
391 GGACCAAAAA
23455 TATCGACAC-AACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
23519 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTAACGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
23584 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACC
23649 AAAAATATCGACACAAACTAAAAAAGGGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
196 AAAAATATCGACACAAACTAAAAAAGGGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
23714 GTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTT
261 GTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTT
23779 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCT
326 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCT
23844 GGACCAAAAA
391 GGACCAAAAA
23854 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
23919 CTTGTAACGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTAACGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
* *
23984 TCGACACTTTTTATATATGGATCGACACGTTATGGTTGCATCCTGTTTGCCAT
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCAT
24037 ATTGTAAATT
Statistics
Matches: 572, Mismatches: 8, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
398 380 0.66
399 22 0.04
400 170 0.30
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.36
Consensus pattern (400 bp):
TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
CTTGTAACGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACC
AAAAATATCGACACAAACTAAAAAAGGGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
GTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTT
TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCT
GGACCAAAAA
Found at i:24160 original size:18 final size:18
Alignment explanation
Indices: 24137--24197 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
24127 TCTCATTCAT
*
24137 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
24155 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
**
24174 AATTATAAATCTTATACAA
1 AATTAT-AATCACATACAA
24193 AATTA
1 AATTA
24198 ACCCTACATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
18 6 0.16
19 32 0.84
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:24173 original size:19 final size:19
Alignment explanation
Indices: 24149--24197 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
24139 TTATATTCAC
24149 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
24168 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
24187 ATACAAAATTA
1 ATACAAAATTA
24198 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:26021 original size:33 final size:33
Alignment explanation
Indices: 25984--26049 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
25974 CATCTTAATA
* *
25984 TCACCTCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
26017 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
26050 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.23, C:0.47, G:0.00, T:0.30
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:26108 original size:21 final size:21
Alignment explanation
Indices: 26095--26147 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
26085 CTCAAATGTA
26095 TCTTCGACTCTCTCAAGTTTC
1 TCTTCGACTCTCTCAAGTTTC
* *
26116 TCTTCGACTTTATCAAGTTTC
1 TCTTCGACTCTCTCAAGTTTC
26137 TCTTCGACTCT
1 TCTTCGACTCT
26148 TGATTGTCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.15, C:0.30, G:0.09, T:0.45
Consensus pattern (21 bp):
TCTTCGACTCTCTCAAGTTTC
Found at i:28419 original size:20 final size:19
Alignment explanation
Indices: 28369--28424 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
28359 TCTGATATCA
*
28369 TTTTACCGGTTTTATCATT
1 TTTTACCTGTTTTATCATT
* *
28388 TTGATACATGTTTTATCATAT
1 TT-TTACCTGTTTTATCAT-T
*
28409 TTTTACCTGTTATATC
1 TTTTACCTGTTTTATC
28425 GTTGTGGATC
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 2 0.07
20 24 0.83
21 3 0.10
ACGTcount: A:0.21, C:0.14, G:0.09, T:0.55
Consensus pattern (19 bp):
TTTTACCTGTTTTATCATT
Found at i:28809 original size:181 final size:179
Alignment explanation
Indices: 28340--28809 Score: 577
Period size: 180 Copynumber: 2.6 Consensus size: 179
28330 CTTACGAAAG
* * * ** *
28340 TATCGACACTTTTAATATATCTGATATCATTTTACCGGTTTTATCATTTTGATACATGTTTTATC
1 TATCGACACTTTAAATATATCCGATAACGCTTTACCGGTTTTATCATTTTGATAC-CGTTTTATC
* * *
28405 ATATTTTTACCTGTTATATCGTTGTGGATCGATATATTTTTTAAAGTATCGACACATTATAGACG
65 ATATTTTTACCTGTTATATCGTTTTGGATCGACATATTTTTAAAAGTATCGACACATTATAGACG
*
28470 CTAAAACTGATTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATAAAG
130 CTAAAACTGATTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATAAAA
* * * * *
28520 TATCGACACTTTCAATATATCCGGTAACGTTTTACGGGTTTTATTATTTTGATACCGGTTTTATC
1 TATCGACACTTTAAATATATCCGATAACGCTTTACCGGTTTTATCATTTTGATACC-GTTTTATC
** *
28585 ATATTTTTACCTAATATATCGTTTTGGATCGATACAT-TTTTTAAAAGTATCGACACTTTATAGG
65 ATATTTTTACCTGTTATATCGTTTTGGATCG--ACATATTTTTAAAAGTATCGACACATTATA-G
** * * *
28649 A-TTTAAAACTGCTTCTCTTTTAAATTCACGAATTGTCGATCCTTATATTAAAA
127 ACGCTAAAACTGATTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-TAAAA
* * ** *
28702 TA-CTGACACTTTAAATGTATCCGATAGCGCTTTACCGGTTTTATCATTTCAATACCGATTTTGT
1 TATC-GACACTTTAAATATATCCGATAACGCTTTACCGGTTTTATCATTTTGATACCG-TTTTAT
* *
28766 CATAATTTTACCTGTTATATCGTTTTGAATCGACATATTTTTAA
64 CATATTTTTACCTGTTATATCGTTTTGGATCGACATATTTTTAA
28810 TTTGAATCGA
Statistics
Matches: 248, Mismatches: 34, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
180 88 0.35
181 73 0.29
182 87 0.35
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (179 bp):
TATCGACACTTTAAATATATCCGATAACGCTTTACCGGTTTTATCATTTTGATACCGTTTTATCA
TATTTTTACCTGTTATATCGTTTTGGATCGACATATTTTTAAAAGTATCGACACATTATAGACGC
TAAAACTGATTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATAAAA
Found at i:32653 original size:39 final size:39
Alignment explanation
Indices: 32599--32694 Score: 140
Period size: 39 Copynumber: 2.5 Consensus size: 39
32589 ATTTTTATTT
*
32599 CTAA-TTCTTAAATTATTTAACCATGAAATTCTAAATTC
1 CTAATTTCTTAAATTATTTAACCATGAAATTCTAAATTA
* * *
32637 CTAATTTCTCAAATTATTAAACCATGACATTCTAAATTA
1 CTAATTTCTTAAATTATTTAACCATGAAATTCTAAATTA
*
32676 TTAATTTCTTAAATTATTT
1 CTAATTTCTTAAATTATTT
32695 CATCCTAACA
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
38 4 0.08
39 46 0.92
ACGTcount: A:0.39, C:0.15, G:0.02, T:0.45
Consensus pattern (39 bp):
CTAATTTCTTAAATTATTTAACCATGAAATTCTAAATTA
Found at i:36841 original size:30 final size:30
Alignment explanation
Indices: 36807--36868 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
36797 TGAAATCAAG
* *
36807 TTTTGAAATTACTCCTCCTTAGTCTAACAC
1 TTTTGAAATTACTCCCCCTTACTCTAACAC
36837 TTTTGAAATTACTCCCCCTTACTCTAACAC
1 TTTTGAAATTACTCCCCCTTACTCTAACAC
36867 TT
1 TT
36869 CTCCCCTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.26, C:0.29, G:0.05, T:0.40
Consensus pattern (30 bp):
TTTTGAAATTACTCCCCCTTACTCTAACAC
Found at i:39134 original size:23 final size:22
Alignment explanation
Indices: 39104--39165 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 22
39094 TGTGGGGGGG
39104 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTTCCCCTTC-AA
* *
39127 GGGGGAATTGGATCCCCTTCAA
1 GGGGGAATCGGTTCCCCTTCAA
* *
39149 GGGAGGTATCGATTCCC
1 GGG-GGAATCGGTTCCC
39166 TCTGCACCAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
22 5 0.16
23 27 0.84
ACGTcount: A:0.21, C:0.24, G:0.32, T:0.23
Consensus pattern (22 bp):
GGGGGAATCGGTTCCCCTTCAA
Found at i:39151 original size:22 final size:23
Alignment explanation
Indices: 39104--39148 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
39094 TGTGGGGGGG
*
39104 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGATCCCCTTCAAA
*
39127 GGGGGAATTGGATCCCCTTCAA
1 GGGGGAATCGGATCCCCTTCAA
39149 GGGAGGTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.24, G:0.31, T:0.22
Consensus pattern (23 bp):
GGGGGAATCGGATCCCCTTCAAA
Found at i:48491 original size:18 final size:19
Alignment explanation
Indices: 48468--48510 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
48458 GAACAATATT
48468 GATACTGAATGT-A-GTATC
1 GATACT-AATGTGAGGTATC
48486 GATACTAATGTGGAGGTATC
1 GATACTAATGT-GAGGTATC
48506 GATAC
1 GATAC
48511 CAAGAGTAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.23
18 6 0.27
19 1 0.05
20 10 0.45
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.30
Consensus pattern (19 bp):
GATACTAATGTGAGGTATC
Found at i:49039 original size:15 final size:15
Alignment explanation
Indices: 48972--49041 Score: 70
Period size: 15 Copynumber: 4.7 Consensus size: 15
48962 ATTTTATTAG
*
48972 TATGTGAATATGTTA
1 TATGTGAATATGTTC
*
48987 TATGGGAATATGTTC
1 TATGTGAATATGTTC
*
49002 T-TCGTGAAAATGTTC
1 TAT-GTGAATATGTTC
* * *
49017 TTTATGAATGTGTTC
1 TATGTGAATATGTTC
49032 TATGTGAATA
1 TATGTGAATA
49042 AAAGATATTT
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
14 1 0.02
15 41 0.95
16 1 0.02
ACGTcount: A:0.29, C:0.06, G:0.21, T:0.44
Consensus pattern (15 bp):
TATGTGAATATGTTC
Found at i:49170 original size:23 final size:23
Alignment explanation
Indices: 49144--49195 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
49134 GAGTCGAGGG
49144 TTCTACATAGTCATTCGAAACAA
1 TTCTACATAGTCATTCGAAACAA
** * **
49167 TTCTATGTGGTCATTCGGGACAA
1 TTCTACATAGTCATTCGAAACAA
49190 TTCTAC
1 TTCTAC
49196 GCGGTCCATC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (23 bp):
TTCTACATAGTCATTCGAAACAA
Found at i:49201 original size:23 final size:23
Alignment explanation
Indices: 49153--49201 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
49143 GTTCTACATA
* *
49153 GTCATTCGAAACAATTCTATGTG
1 GTCATTCGAAACAATTCTACGCG
**
49176 GTCATTCGGGACAATTCTACGCG
1 GTCATTCGAAACAATTCTACGCG
49199 GTC
1 GTC
49202 CATCTGGACA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.31
Consensus pattern (23 bp):
GTCATTCGAAACAATTCTACGCG
Found at i:53778 original size:19 final size:19
Alignment explanation
Indices: 53731--53770 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
53721 AAAGTGGAAG
53731 AGGTGACATGGGAGCGTGA
1 AGGTGACATGGGAGCGTGA
53750 AGGTGACATGGGAGCGTGA
1 AGGTGACATGGGAGCGTGA
53769 AG
1 AG
53771 AGGACATGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.28, C:0.10, G:0.47, T:0.15
Consensus pattern (19 bp):
AGGTGACATGGGAGCGTGA
Found at i:55196 original size:15 final size:15
Alignment explanation
Indices: 55173--55242 Score: 68
Period size: 15 Copynumber: 4.7 Consensus size: 15
55163 ATTTTATTAG
55173 TATGTGAATATGTTA
1 TATGTGAATATGTTA
* * *
55188 TATGGGAATGTGTTC
1 TATGTGAATATGTTA
* * *
55203 TACGTGAAAATGTTC
1 TATGTGAATATGTTA
* *
55218 TATGTAAATGTGTTA
1 TATGTGAATATGTTA
55233 TATGTGAATA
1 TATGTGAATA
55243 AATGATACTT
Statistics
Matches: 41, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
15 41 1.00
ACGTcount: A:0.31, C:0.04, G:0.23, T:0.41
Consensus pattern (15 bp):
TATGTGAATATGTTA
Found at i:55216 original size:30 final size:30
Alignment explanation
Indices: 55176--55240 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
55166 TTATTAGTAT
* * *
55176 GTGAATATGTTATATGGGAATGTGTTCTAC
1 GTGAAAATGTTATATGGAAATGTGTTATAC
* * *
55206 GTGAAAATGTTCTATGTAAATGTGTTATAT
1 GTGAAAATGTTATATGGAAATGTGTTATAC
55236 GTGAA
1 GTGAA
55241 TAAATGATAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.31, C:0.05, G:0.25, T:0.40
Consensus pattern (30 bp):
GTGAAAATGTTATATGGAAATGTGTTATAC
Found at i:55411 original size:23 final size:22
Alignment explanation
Indices: 55345--55418 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 22
55335 GAGTCGAGGC
55345 TTCTACGCTGTCCTTCGGGACAA
1 TTCTACGCT-TCCTTCGGGACAA
* *
55368 TTCTATG-TGGTCCTTCAGGACAA
1 TTCTACGCT--TCCTTCGGGACAA
*
55391 TTCTACGCATTCCTTTGGGACAA
1 TTCTACGC-TTCCTTCGGGACAA
*
55414 ATCTA
1 TTCTA
55419 AGTGGCAATT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
22 1 0.02
23 40 0.95
25 1 0.02
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.34
Consensus pattern (22 bp):
TTCTACGCTTCCTTCGGGACAA
Found at i:55431 original size:46 final size:47
Alignment explanation
Indices: 55345--55444 Score: 109
Period size: 46 Copynumber: 2.1 Consensus size: 47
55335 GAGTCGAGGC
* * *
55345 TTCTACGCTGTCCTTCGGGACAATTCTATGTGGTCCTTCAG-GACA-A
1 TTCTACGCTGTCCTTCGGGACAAATCTAAGTGGTCATTCAGTG-CATA
*
55391 TTCTACGCAT-TCCTTTGGGACAAATCTAAGTGG-CAATTCAGTGCATA
1 TTCTACGC-TGTCCTTCGGGACAAATCTAAGTGGTC-ATTCAGTGCATA
55438 TTCTACG
1 TTCTACG
55445 TGAGACTTCA
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
45 1 0.02
46 35 0.76
47 10 0.22
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (47 bp):
TTCTACGCTGTCCTTCGGGACAAATCTAAGTGGTCATTCAGTGCATA
Found at i:55442 original size:24 final size:24
Alignment explanation
Indices: 55411--55466 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
55401 TCCTTTGGGA
55411 CAAA-TCTAAGTG-GCAATTCAGTG
1 CAAATTCTAAGTGAG-AATTCAGTG
* * *
55434 CATATTCTACGTGAGACTTCAGTG
1 CAAATTCTAAGTGAGAATTCAGTG
55458 CAAATTCTA
1 CAAATTCTA
55467 CGCAACAGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 3 0.11
24 23 0.85
25 1 0.04
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (24 bp):
CAAATTCTAAGTGAGAATTCAGTG
Found at i:58863 original size:2 final size:2
Alignment explanation
Indices: 58856--58893 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
58846 TTTCCCAAAC
58856 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
58894 CAAGTAGATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.