Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000189.1 Hibiscus syriacus cultivar Beakdansim tig00000338_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: 118500
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Found at i:4817 original size:2 final size:2
Alignment explanation
Indices: 4810--4850 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
4800 CTTCCGTAAC
4810 AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4851 TAATAATAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5753 original size:14 final size:14
Alignment explanation
Indices: 5734--5760 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
5724 TAGATTGCAA
5734 AAATAAAAATAAAT
1 AAATAAAAATAAAT
5748 AAATAAAAATAAA
1 AAATAAAAATAAA
5761 ATCAAGTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAATAAAAATAAAT
Found at i:10333 original size:23 final size:23
Alignment explanation
Indices: 10307--10381 Score: 78
Period size: 23 Copynumber: 3.2 Consensus size: 23
10297 TTCGAAAAAA
* *
10307 TCAATGTCGATCAACGGTCAAAG
1 TCAACGTCGATCAACGATCAAAG
* ** *
10330 TCAACGTCGGTCAATAATTAAAG
1 TCAACGTCGATCAACGATCAAAG
*
10353 TAAACGTCGATCAACGATCAACAG
1 TCAACGTCGATCAACGATCAA-AG
10377 TCAAC
1 TCAAC
10382 TCAGCTTTGA
Statistics
Matches: 39, Mismatches: 12, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
23 33 0.85
24 6 0.15
ACGTcount: A:0.39, C:0.23, G:0.17, T:0.21
Consensus pattern (23 bp):
TCAACGTCGATCAACGATCAAAG
Found at i:11446 original size:26 final size:26
Alignment explanation
Indices: 11417--11470 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
11407 TCCAATGCCT
*
11417 CCCACGATTTCTTTACAGTTTGATAA
1 CCCACGATTTCTTTACAATTTGATAA
11443 CCCACGATTTCTTTACAATTTGATAA
1 CCCACGATTTCTTTACAATTTGATAA
11469 CC
1 CC
11471 AGAGTACATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.28, C:0.26, G:0.09, T:0.37
Consensus pattern (26 bp):
CCCACGATTTCTTTACAATTTGATAA
Found at i:14560 original size:20 final size:20
Alignment explanation
Indices: 14535--14583 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
14525 CTATATCATT
14535 ACTTGAATGGCATAGGTACC
1 ACTTGAATGGCATAGGTACC
14555 ACTTGAATGGCATAGGTACC
1 ACTTGAATGGCATAGGTACC
14575 ACTTGAATG
1 ACTTGAATG
14584 CTAGTTCGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (20 bp):
ACTTGAATGGCATAGGTACC
Found at i:21901 original size:22 final size:23
Alignment explanation
Indices: 21876--21920 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
21866 GTGTAATTAG
*
21876 GTTAATAATAATAATAA-GTAAA
1 GTTAATAACAATAATAAGGTAAA
* *
21898 GTTATTAACAATTATAAGGTAAA
1 GTTAATAACAATAATAAGGTAAA
21921 TTGCGTAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.53, C:0.02, G:0.11, T:0.33
Consensus pattern (23 bp):
GTTAATAACAATAATAAGGTAAA
Found at i:23840 original size:2 final size:2
Alignment explanation
Indices: 23833--23857 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23823 ATTTTTCTTG
23833 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
23858 TTAACTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24770 original size:92 final size:92
Alignment explanation
Indices: 24631--24798 Score: 318
Period size: 92 Copynumber: 1.8 Consensus size: 92
24621 TTATAATTTA
* *
24631 TATTAGTTTGGTCACAATTTTCATTTAATTTAATAAATTTTATCTCCAATTAAATGATAGCATGT
1 TATTACTTTGGTCACAATTTTCATTTAATTTAATAAATTTAATCTCCAATTAAATGATAGCATGT
24696 GTTACTATCATATTAGAAAAAAAAATT
66 GTTACTATCATATTAGAAAAAAAAATT
24723 TATTACTTTGGTCACAATTTTCATTTAATTTAATAAATTTAATCTCCAATTAAATGATAGCATGT
1 TATTACTTTGGTCACAATTTTCATTTAATTTAATAAATTTAATCTCCAATTAAATGATAGCATGT
24788 GTTACTATCAT
66 GTTACTATCAT
24799 TTAACTTGTG
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 74 1.00
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.43
Consensus pattern (92 bp):
TATTACTTTGGTCACAATTTTCATTTAATTTAATAAATTTAATCTCCAATTAAATGATAGCATGT
GTTACTATCATATTAGAAAAAAAAATT
Found at i:25133 original size:12 final size:13
Alignment explanation
Indices: 25096--25141 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
25086 TATTTTTATT
* *
25096 ATATATTTTTTAC
1 ATATAATTTTTAA
*
25109 ATATAATTATTAA
1 ATATAATTTTTAA
25122 AT-TAATTTTTAA
1 ATATAATTTTTAA
25134 ATATAATT
1 ATATAATT
25142 AAAAAATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
12 11 0.39
13 17 0.61
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (13 bp):
ATATAATTTTTAA
Found at i:25148 original size:25 final size:25
Alignment explanation
Indices: 25102--25149 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
25092 TATTATATAT
* **
25102 TTTTTACATATAATTATTAAATTAA
1 TTTTTAAATATAATTAAAAAATTAA
25127 TTTTTAAATATAATTAAAAAATT
1 TTTTTAAATATAATTAAAAAATT
25150 TAAAATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (25 bp):
TTTTTAAATATAATTAAAAAATTAA
Found at i:28826 original size:2 final size:2
Alignment explanation
Indices: 28821--28877 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
28811 ACACACACAC
28821 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
28863 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
28878 ATTGATCAAC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:29658 original size:44 final size:44
Alignment explanation
Indices: 29592--29705 Score: 142
Period size: 44 Copynumber: 2.6 Consensus size: 44
29582 TGAGATAATG
* * * * * *
29592 CTGATCTAACTCCTTATATGATGGAATCGAGAGAGACTG-TGATA
1 CTGATCCAACTCCTTATGTGATGAAATCGAG-GAAAATGACGATA
*
29636 CTGATCCAACTCCTTACGTGATGAAATCGAGGAAAATGACGATA
1 CTGATCCAACTCCTTATGTGATGAAATCGAGGAAAATGACGATA
29680 CTGATCCAACTCCTTATGTGAT-AAAT
1 CTGATCCAACTCCTTATGTGATGAAAT
29706 TAAATTTGCC
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
43 9 0.15
44 52 0.85
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.28
Consensus pattern (44 bp):
CTGATCCAACTCCTTATGTGATGAAATCGAGGAAAATGACGATA
Found at i:40921 original size:30 final size:30
Alignment explanation
Indices: 40885--41250 Score: 330
Period size: 30 Copynumber: 12.2 Consensus size: 30
40875 GTGGATGTTA
*
40885 TGAAAGTGGTAGTGTAGAAGTGGATAATGC
1 TGAAAGTGGTAGTGTAGAAATGGATAATGC
*
40915 TGAAAGTGGTGGTGTAGAAATGGATAATGC
1 TGAAAGTGGTAGTGTAGAAATGGATAATGC
* * * * *
40945 TGAAAGTGGTGGTGCAGAAATAGATACTAC
1 TGAAAGTGGTAGTGTAGAAATGGATAATGC
* *
40975 TGAAA-TGGGTAGTGTAGAAATGGACAATAC
1 TGAAAGT-GGTAGTGTAGAAATGGATAATGC
* * *
41005 TGAAA-TGGGTAGTGTTGAAAGGGATAATGT
1 TGAAAGT-GGTAGTGTAGAAATGGATAATGC
* * *
41035 TGAAAGTGGTGGTATAGAAATGGATAGTGC
1 TGAAAGTGGTAGTGTAGAAATGGATAATGC
* * *
41065 TGAAAGTGCTGGTATAGAAATGGATAATGC
1 TGAAAGTGGTAGTGTAGAAATGGATAATGC
* *
41095 TGAAA-TGGGTAGTGTAGAAAGGGACAATGC
1 TGAAAGT-GGTAGTGTAGAAATGGATAATGC
* * * *
41125 TGAAA-TGGGCAGTGTAGAAAGGGACATTGC
1 TGAAAGT-GGTAGTGTAGAAATGGATAATGC
* * *
41155 TGAAA-TGGACAGTGTAGAAAGGGACAATGC
1 TGAAAGTGG-TAGTGTAGAAATGGATAATGC
* * * *
41185 TGAAA-TGGGTAGTGTTGAAAGGGACAATGT
1 TGAAAGT-GGTAGTGTAGAAATGGATAATGC
* * *
41215 TGAAAGCGTTAGTGTAGAAATGGATAATGT
1 TGAAAGTGGTAGTGTAGAAATGGATAATGC
41245 TGAAAG
1 TGAAAG
41251 GGACAATGAG
Statistics
Matches: 290, Mismatches: 40, Indels: 12
0.85 0.12 0.04
Matches are distributed among these distances:
29 4 0.01
30 283 0.98
31 3 0.01
ACGTcount: A:0.36, C:0.05, G:0.34, T:0.25
Consensus pattern (30 bp):
TGAAAGTGGTAGTGTAGAAATGGATAATGC
Found at i:40923 original size:16 final size:16
Alignment explanation
Indices: 40902--40953 Score: 56
Period size: 15 Copynumber: 3.4 Consensus size: 16
40892 GGTAGTGTAG
40902 AAGTGGATAATGCTGA
1 AAGTGGATAATGCTGA
**
40918 AAGTGG-TGGTG-TAGA
1 AAGTGGATAATGCT-GA
40933 AA-TGGATAATGCTGA
1 AAGTGGATAATGCTGA
40948 AAGTGG
1 AAGTGG
40954 TGGTGCAGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
14 4 0.14
15 14 0.50
16 10 0.36
ACGTcount: A:0.35, C:0.04, G:0.37, T:0.25
Consensus pattern (16 bp):
AAGTGGATAATGCTGA
Found at i:40949 original size:15 final size:15
Alignment explanation
Indices: 40905--41039 Score: 53
Period size: 15 Copynumber: 9.0 Consensus size: 15
40895 AGTGTAGAAG
40905 TGGATAATGCTGAAA
1 TGGATAATGCTGAAA
**
40920 GTGG-TGGTG-TAGAAA
1 -TGGATAATGCT-GAAA
40935 TGGATAATGCTGAAA
1 TGGATAATGCTGAAA
** *
40950 GTGG-TGGTGCAGAAA
1 -TGGATAATGCTGAAA
* * *
40965 TAGATACTACTGAAA
1 TGGATAATGCTGAAA
* *
40980 TGGGTAGTG-TAGAAA
1 TGGATAATGCT-GAAA
* *
40995 TGGACAATACTGAAA
1 TGGATAATGCTGAAA
* * *
41010 TGGGTAGTGTTGAAA
1 TGGATAATGCTGAAA
* *
41025 GGGATAATGTTGAAA
1 TGGATAATGCTGAAA
41040 GTGGTGGTAT
Statistics
Matches: 84, Mismatches: 28, Indels: 15
0.66 0.22 0.12
Matches are distributed among these distances:
14 7 0.08
15 69 0.82
16 8 0.10
ACGTcount: A:0.36, C:0.05, G:0.33, T:0.26
Consensus pattern (15 bp):
TGGATAATGCTGAAA
Found at i:41039 original size:90 final size:90
Alignment explanation
Indices: 40892--41249 Score: 373
Period size: 90 Copynumber: 4.0 Consensus size: 90
40882 TTATGAAAGT
* * * * *
40892 GGTAGTGTAGAAGTGGATAATGCTGAAA-GTGGTGGTGTAGAAATGGATAATGCTGAAAGTGGTG
1 GGTAGTGTAGAAATGGACAATGCTGAAATG-GGTAGTGTAGAAAGGGACAATGCTGAAAGTGGTG
* * *
40956 GTGCAGAAATAGATACTACTGAAATG
65 GTGTAGAAATGGATACTGCTGAAATG
* * * *
40982 GGTAGTGTAGAAATGGACAATACTGAAATGGGTAGTGTTGAAAGGGATAATGTTGAAAGTGGTGG
1 GGTAGTGTAGAAATGGACAATGCTGAAATGGGTAGTGTAGAAAGGGACAATGCTGAAAGTGGTGG
* *
41047 TATAGAAATGGATAGTGCTGAAA-G
66 TGTAGAAATGGATACTGCTGAAATG
* * * *
41071 TGCTGGTATAGAAATGGATAATGCTGAAATGGGTAGTGTAGAAAGGGACAATGCTGAAA-TGG-G
1 -GGTAGTGTAGAAATGGACAATGCTGAAATGGGTAGTGTAGAAAGGGACAATGCTGAAAGTGGTG
* * *
41134 CAGTGTAGAAAGGGACATTGCTGAAATG
65 --GTGTAGAAATGGATACTGCTGAAATG
** * * * * * *
41162 GACAGTGTAGAAAGGGACAATGCTGAAATGGGTAGTGTTGAAAGGGACAATGTTGAAAGCGTTAG
1 GGTAGTGTAGAAATGGACAATGCTGAAATGGGTAGTGTAGAAAGGGACAATGCTGAAAGTGGTGG
* *
41227 TGTAGAAATGGATAATGTTGAAA
66 TGTAGAAATGGATACTGCTGAAA
41250 GGGACAATGA
Statistics
Matches: 222, Mismatches: 39, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
88 1 0.00
89 4 0.02
90 214 0.96
91 3 0.01
ACGTcount: A:0.36, C:0.06, G:0.34, T:0.25
Consensus pattern (90 bp):
GGTAGTGTAGAAATGGACAATGCTGAAATGGGTAGTGTAGAAAGGGACAATGCTGAAAGTGGTGG
TGTAGAAATGGATACTGCTGAAATG
Found at i:41084 original size:120 final size:120
Alignment explanation
Indices: 40892--41159 Score: 385
Period size: 120 Copynumber: 2.2 Consensus size: 120
40882 TTATGAAAGT
* *
40892 GGTAGTGTAG-AAGTGGATAATGCTGAAAGTGGTGGTGTAGAAATGGATAATGCTGAAAGTGGTG
1 GGTAGTGTAGAAAG-GGATAATGCTGAAAGTGGTGGTATAGAAATGGATAATGCTGAAAGTGCTG
* * *
40956 GTGCAGAAATAGATACTACTGAAATGGGTAGTGTAGAAATGGACAATACTGAAATG
65 GTACAGAAATAGATAATACTGAAATGGGTAGTGTAGAAAGGGACAATACTGAAATG
* * *
41012 GGTAGTGTTGAAAGGGATAATGTTGAAAGTGGTGGTATAGAAATGGATAGTGCTGAAAGTGCTGG
1 GGTAGTGTAGAAAGGGATAATGCTGAAAGTGGTGGTATAGAAATGGATAATGCTGAAAGTGCTGG
* * * *
41077 TATAGAAATGGATAATGCTGAAATGGGTAGTGTAGAAAGGGACAATGCTGAAATG
66 TACAGAAATAGATAATACTGAAATGGGTAGTGTAGAAAGGGACAATACTGAAATG
* * *
41132 GGCAGTGTAGAAAGGGACATTGCTGAAA
1 GGTAGTGTAGAAAGGGATAATGCTGAAA
41160 TGGACAGTGT
Statistics
Matches: 130, Mismatches: 17, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
120 127 0.98
121 3 0.02
ACGTcount: A:0.35, C:0.06, G:0.34, T:0.25
Consensus pattern (120 bp):
GGTAGTGTAGAAAGGGATAATGCTGAAAGTGGTGGTATAGAAATGGATAATGCTGAAAGTGCTGG
TACAGAAATAGATAATACTGAAATGGGTAGTGTAGAAAGGGACAATACTGAAATG
Found at i:41099 original size:15 final size:15
Alignment explanation
Indices: 41081--41132 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
41071 TGCTGGTATA
41081 GAAATGGATAATGCT
1 GAAATGGATAATGCT
* *
41096 GAAATGGGTAGTG-T
1 GAAATGGATAATGCT
* *
41110 AGAAAGGGACAATGCT
1 -GAAATGGATAATGCT
41126 GAAATGG
1 GAAATGG
41133 GCAGTGTAGA
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
14 1 0.04
15 26 0.93
16 1 0.04
ACGTcount: A:0.38, C:0.06, G:0.35, T:0.21
Consensus pattern (15 bp):
GAAATGGATAATGCT
Found at i:41144 original size:15 final size:14
Alignment explanation
Indices: 41095--41204 Score: 55
Period size: 15 Copynumber: 7.4 Consensus size: 14
41085 TGGATAATGC
*
41095 TGAAATGGGTAGTG
1 TGAAATGGGCAGTG
*
41109 TAGAAA-GGGACAATG
1 T-GAAATGGG-CAGTG
41124 CTGAAATGGGCAGTG
1 -TGAAATGGGCAGTG
*
41139 TAGAAA-GGGACATTG
1 T-GAAATGGG-CAGTG
*
41154 CTGAAATGGACAGTG
1 -TGAAATGGGCAGTG
*
41169 TAGAAA-GGGACAATG
1 T-GAAATGGG-CAGTG
*
41184 CTGAAATGGGTAGTG
1 -TGAAATGGGCAGTG
41199 TTGAAA
1 -TGAAA
41205 GGGACAATGT
Statistics
Matches: 73, Mismatches: 11, Indels: 23
0.68 0.10 0.21
Matches are distributed among these distances:
14 11 0.15
15 51 0.70
16 11 0.15
ACGTcount: A:0.36, C:0.07, G:0.35, T:0.21
Consensus pattern (14 bp):
TGAAATGGGCAGTG
Found at i:41215 original size:15 final size:15
Alignment explanation
Indices: 41111--41258 Score: 102
Period size: 15 Copynumber: 9.9 Consensus size: 15
41101 GGGTAGTGTA
*
41111 GAAAGGGACAATGCT
1 GAAAGGGACAATGTT
* *
41126 GAAATGGG-CAGTGTA
1 GAAA-GGGACAATGTT
* *
41141 GAAAGGGACATTGCT
1 GAAAGGGACAATGTT
* * *
41156 GAAATGGACAGTGTA
1 GAAAGGGACAATGTT
*
41171 GAAAGGGACAATGCT
1 GAAAGGGACAATGTT
* *
41186 GAAATGGG-TAGTGTT
1 GAAA-GGGACAATGTT
41201 GAAAGGGACAATGTT
1 GAAAGGGACAATGTT
* ** * *
41216 GAAAGCGTTAGTGTA
1 GAAAGGGACAATGTT
* *
41231 GAAATGGATAATGTT
1 GAAAGGGACAATGTT
41246 GAAAGGGACAATG
1 GAAAGGGACAATG
41259 AGAAAGACAA
Statistics
Matches: 98, Mismatches: 31, Indels: 8
0.72 0.23 0.06
Matches are distributed among these distances:
14 6 0.06
15 86 0.88
16 6 0.06
ACGTcount: A:0.37, C:0.07, G:0.34, T:0.21
Consensus pattern (15 bp):
GAAAGGGACAATGTT
Found at i:44412 original size:15 final size:15
Alignment explanation
Indices: 44392--44422 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
44382 AAACACATAC
44392 AAACTTCCATTACAA
1 AAACTTCCATTACAA
44407 AAACTTCCATTACAA
1 AAACTTCCATTACAA
44422 A
1 A
44423 GCTTTTAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (15 bp):
AAACTTCCATTACAA
Found at i:46028 original size:18 final size:18
Alignment explanation
Indices: 46002--46042 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
45992 GTTATATAAA
46002 ATATACTTTA-TTATAATT
1 ATATACTTTATTTAT-ATT
*
46020 ATATTCTTTATTTATATT
1 ATATACTTTATTTATATT
46038 ATATA
1 ATATA
46043 TATTTTTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (18 bp):
ATATACTTTATTTATATT
Found at i:48716 original size:30 final size:30
Alignment explanation
Indices: 48682--48841 Score: 124
Period size: 30 Copynumber: 5.3 Consensus size: 30
48672 CCCTTAAATG
*
48682 TCTATTTTTACTATTTTAATCCTTTAAATT
1 TCTATTTTTACTATTTTAATCCTTTAACTT
* * * *
48712 TCTATATTTCCTATTGTAGTCCTTTAACTT
1 TCTATTTTTACTATTTTAATCCTTTAACTT
* ** * *
48742 TCTATATTTAC-AACTCAATCCTTTACCTT
1 TCTATTTTTACTATTTTAATCCTTTAACTT
* *
48771 TCTATTTTTTTTCTATTTTAGTCCTTTAACTT
1 TCTA--TTTTTACTATTTTAATCCTTTAACTT
* ** * * *
48803 TCTGTTTTTGTTATTTTATTCGTTTAAGTT
1 TCTATTTTTACTATTTTAATCCTTTAACTT
*
48833 TCTGTTTTT
1 TCTATTTTT
48842 GTTGTTTTAG
Statistics
Matches: 102, Mismatches: 25, Indels: 6
0.77 0.19 0.05
Matches are distributed among these distances:
29 16 0.16
30 65 0.64
31 5 0.05
32 16 0.16
ACGTcount: A:0.19, C:0.16, G:0.05, T:0.59
Consensus pattern (30 bp):
TCTATTTTTACTATTTTAATCCTTTAACTT
Found at i:48842 original size:30 final size:30
Alignment explanation
Indices: 48760--48883 Score: 115
Period size: 30 Copynumber: 4.1 Consensus size: 30
48750 TACAACTCAA
* * *
48760 TCCTTTACCTTTCTATTTTTTTTCTATTTTAG
1 TCCTTTAACTTTCT-GTTTTTGT-TATTTTAG
*
48792 TCCTTTAACTTTCTGTTTTTGTTATTTTAT
1 TCCTTTAACTTTCTGTTTTTGTTATTTTAG
* * *
48822 TCGTTTAAGTTTCTGTTTTTGTTGTTTTAG
1 TCCTTTAACTTTCTGTTTTTGTTATTTTAG
** * * *
48852 TCCTAAAAATTTCTGTTATTATTA-TTTAG
1 TCCTTTAACTTTCTGTTTTTGTTATTTTAG
48881 TCC
1 TCC
48884 CTTATTTTAT
Statistics
Matches: 77, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
29 8 0.10
30 50 0.65
31 6 0.08
32 13 0.17
ACGTcount: A:0.16, C:0.14, G:0.09, T:0.61
Consensus pattern (30 bp):
TCCTTTAACTTTCTGTTTTTGTTATTTTAG
Found at i:49183 original size:16 final size:16
Alignment explanation
Indices: 49159--49197 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
49149 TTTTCATCGC
* *
49159 TTTTAATTTTTATTTTG
1 TTTT-ATTTTTACTTTA
49176 TTTTATTTTTACTTTA
1 TTTTATTTTTACTTTA
49192 TTTTAT
1 TTTTAT
49198 CTCGGCGCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.77
Consensus pattern (16 bp):
TTTTATTTTTACTTTA
Found at i:54761 original size:30 final size:28
Alignment explanation
Indices: 54677--54780 Score: 106
Period size: 28 Copynumber: 3.6 Consensus size: 28
54667 CTTGAGACAA
*
54677 TTTCTCTTGAAACAAATCTTTGAGTCTG
1 TTTCTCTTGAAAAAAATCTTTGAGTCTG
* *
54705 -TTCATTTTGAAAAAAATCTTTAAGTCTG
1 TTTC-TCTTGAAAAAAATCTTTGAGTCTG
54733 TTTCTCTT-AACAAAATCATCTTTGAGTCTG
1 TTTCTCTTGAA-AAAA--ATCTTTGAGTCTG
54763 TTTCT-TTGGAAACAAAAT
1 TTTCTCTT-GAAA-AAAAT
54781 TTGGTATCTC
Statistics
Matches: 63, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
27 5 0.08
28 28 0.44
29 7 0.11
30 18 0.29
31 5 0.08
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (28 bp):
TTTCTCTTGAAAAAAATCTTTGAGTCTG
Found at i:55120 original size:134 final size:132
Alignment explanation
Indices: 54880--55239 Score: 479
Period size: 134 Copynumber: 2.7 Consensus size: 132
54870 AACCATTATC
* * *
54880 CCTAAAGATGGCCAAAACTCTTCATCACGTATGAGATGTGTCATTTCCTGACCAGATCACCTCAT
1 CCTAAAGATGGCCAAAACTCTTCATCACGTATGAGCTATGTCA--TCCTGACCAGATCTCCTCAT
* ** * * *
54945 CACGTATGAGCCGTGTCACCCCTAGATAACCAGTTGTCCTCATCACGTAGGAAATGAGTTATCAC
64 CACGTAGGAGCCGTGTCACCCCTAGATAACCAACTGTCCTCAGCACGCAGGAAACGAGTTATCAC
55010 CCTT
129 CCTT
* * *
55014 CCTAAAGATGGCCAAAACTTTTTATCACGTATGAGCTATGTCATCCATTGACCAGATCTCTTCAT
1 CCTAAAGATGGCCAAAACTCTTCATCACGTATGAGCTATGTCATCC--TGACCAGATCTCCTCAT
* * *
55079 CACGTAGGAGTCATGTCACCCCTAGATAACCAACTGTCCTCAGCACGCAGGAACCGAGTTATCAC
64 CACGTAGGAGCCGTGTCACCCCTAGATAACCAACTGTCCTCAGCACGCAGGAAACGAGTTATCAC
55144 CCTT
129 CCTT
* *
55148 CCTAAAGATGGCCAAGAGCTCTTCATCACGTATGAGC-AGTGTCATCCCCCGACCAGATCTCCTC
1 CCTAAAGATGGCCAA-AACTCTTCATCACGTATGAGCTA-TGTCAT--CCTGACCAGATCTCCTC
*
55212 ATCACGTAGGAGCCGTGTCACCCTTAGA
62 ATCACGTAGGAGCCGTGTCACCCCTAGA
55240 CGACCAGAAC
Statistics
Matches: 197, Mismatches: 23, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
132 3 0.02
134 130 0.66
135 62 0.31
137 2 0.01
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (132 bp):
CCTAAAGATGGCCAAAACTCTTCATCACGTATGAGCTATGTCATCCTGACCAGATCTCCTCATCA
CGTAGGAGCCGTGTCACCCCTAGATAACCAACTGTCCTCAGCACGCAGGAAACGAGTTATCACCC
TT
Found at i:55445 original size:3 final size:3
Alignment explanation
Indices: 55428--55473 Score: 53
Period size: 3 Copynumber: 15.7 Consensus size: 3
55418 TCTATTAAAA
55428 TAT TAAT TA- TAT TAT TAT TAT TA- TATT TAT TAT TAT TAT T-T TAT
1 TAT T-AT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
55472 TA
1 TA
55474 AGTATTGTGA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
2 6 0.16
3 27 0.71
4 5 0.13
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:55458 original size:18 final size:19
Alignment explanation
Indices: 55428--55473 Score: 69
Period size: 18 Copynumber: 2.5 Consensus size: 19
55418 TCTATTAAAA
55428 TATTA-ATTATATTATTAT
1 TATTATATTATATTATTAT
55446 TATTATATT-TATTATTAT
1 TATTATATTATATTATTAT
*
55464 TATTTTATTA
1 TATTATATTA
55474 AGTATTGTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 22 0.88
19 3 0.12
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TATTATATTATATTATTAT
Found at i:55479 original size:15 final size:14
Alignment explanation
Indices: 55428--55473 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 14
55418 TCTATTAAAA
*
55428 TATTAATTATATTAT
1 TATT-ATTATTTTAT
55443 TATTATTATATTTAT
1 TATTATTAT-TTTAT
55458 TATTATTATTTTAT
1 TATTATTATTTTAT
55472 TA
1 TA
55474 AGTATTGTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 12 0.41
15 17 0.59
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TATTATTATTTTAT
Found at i:55479 original size:18 final size:18
Alignment explanation
Indices: 55440--55479 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
55430 TTAATTATAT
* *
55440 TATTATTATTATATTTAT
1 TATTATTATTATATTAAG
*
55458 TATTATTATTTTATTAAG
1 TATTATTATTATATTAAG
55476 TATT
1 TATT
55480 GTGATTACAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (18 bp):
TATTATTATTATATTAAG
Found at i:57138 original size:29 final size:30
Alignment explanation
Indices: 57104--57348 Score: 153
Period size: 30 Copynumber: 8.3 Consensus size: 30
57094 GTAATTACTG
* *
57104 TTTTAGTCCTGTAAGTTTCTATTTTTTCTA
1 TTTTAGTCCTTTAAATTTCTATTTTTTCTA
* * *
57134 -TTTAGACCCTTAAATGTT-TATTTTTACTA
1 TTTTAGTCCTTTAAAT-TTCTATTTTTTCTA
* * * * *
57163 TTTTAGTCATTTAAATTTTTGTATTTACTA
1 TTTTAGTCCTTTAAATTTCTATTTTTTCTA
* * * * * *
57193 TTGTGGTCCTTTAACTTTCTA-TATTTATG
1 TTTTAGTCCTTTAAATTTCTATTTTTTCTA
* * ** *
57222 GTTCAACCCTTTAACTTTCT-TTTTTTCTA
1 TTTTAGTCCTTTAAATTTCTATTTTTTCTA
*
57251 TTTTAGTCCTTTAATTTTCTATTTTTGT-TA
1 TTTTAGTCCTTTAAATTTCTATTTTT-TCTA
* *
57281 TTTTAGTCATTTAAGTTTCTATTTTTGT-TA
1 TTTTAGTCCTTTAAATTTCTATTTTT-TCTA
** * * *
57311 TTTTAGTCCTGAAAATTTCTGTTATTACTA
1 TTTTAGTCCTTTAAATTTCTATTTTTTCTA
57341 -TTTAGTCC
1 TTTTAGTCC
57349 CTTATTTTAT
Statistics
Matches: 164, Mismatches: 44, Indels: 15
0.74 0.20 0.07
Matches are distributed among these distances:
29 68 0.41
30 95 0.58
31 1 0.01
ACGTcount: A:0.21, C:0.13, G:0.09, T:0.58
Consensus pattern (30 bp):
TTTTAGTCCTTTAAATTTCTATTTTTTCTA
Found at i:57657 original size:16 final size:16
Alignment explanation
Indices: 57633--57671 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
57623 TTTTCATCAC
* *
57633 TTTTCATTTTTATTTTG
1 TTTT-ATTTTTACTTTA
57650 TTTTATTTTTACTTTA
1 TTTTATTTTTACTTTA
57666 TTTTAT
1 TTTTAT
57672 CTTGGCGCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.77
Consensus pattern (16 bp):
TTTTATTTTTACTTTA
Found at i:58198 original size:25 final size:25
Alignment explanation
Indices: 58170--58220 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
58160 GAAAATTGAA
58170 AGTTTAAGTATTAAAACAGACCAGG
1 AGTTTAAGTATTAAAACAGACCAGG
*
58195 AGTTTAGGTATTAAAACAGACCAGG
1 AGTTTAAGTATTAAAACAGACCAGG
58220 A
1 A
58221 CTGATAGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.24
Consensus pattern (25 bp):
AGTTTAAGTATTAAAACAGACCAGG
Found at i:63933 original size:34 final size:34
Alignment explanation
Indices: 63890--63973 Score: 168
Period size: 34 Copynumber: 2.5 Consensus size: 34
63880 ATACTAACAC
63890 GAAATACTCCAAACACAAAAAATAGCCTTAACTT
1 GAAATACTCCAAACACAAAAAATAGCCTTAACTT
63924 GAAATACTCCAAACACAAAAAATAGCCTTAACTT
1 GAAATACTCCAAACACAAAAAATAGCCTTAACTT
63958 GAAATACTCCAAACAC
1 GAAATACTCCAAACAC
63974 TTCCATTTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 50 1.00
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (34 bp):
GAAATACTCCAAACACAAAAAATAGCCTTAACTT
Found at i:75142 original size:2 final size:2
Alignment explanation
Indices: 75135--75162 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
75125 CAATATGGTC
75135 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
75163 CTAAAACCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:75791 original size:18 final size:18
Alignment explanation
Indices: 75764--75798 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
75754 CCTTGAATTC
*
75764 TTAAACTTATTATTATAA
1 TTAAAATTATTATTATAA
75782 TTAAAATTATTATTATA
1 TTAAAATTATTATTATA
75799 TAGGAATCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (18 bp):
TTAAAATTATTATTATAA
Found at i:75883 original size:28 final size:26
Alignment explanation
Indices: 75806--75883 Score: 86
Period size: 27 Copynumber: 2.8 Consensus size: 26
75796 ATATAGGAAT
* *
75806 CCCAAATTCTCTATTCTTACAAAACGA
1 CCCAAATTTTCTATT-TTATAAAACGA
75833 CCCAAATTTTCTATTTTAGTAAAACTGA
1 CCCAAATTTTCTATTTTA-TAAAAC-GA
75861 CCCAAAATTTTCTAGTTTT-TAAA
1 CCC-AAATTTTCTA-TTTTATAAA
75884 TCATTCGGAA
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
26 3 0.07
27 19 0.42
28 9 0.20
29 10 0.22
30 4 0.09
ACGTcount: A:0.36, C:0.22, G:0.05, T:0.37
Consensus pattern (26 bp):
CCCAAATTTTCTATTTTATAAAACGA
Found at i:78450 original size:3 final size:3
Alignment explanation
Indices: 78444--78493 Score: 77
Period size: 3 Copynumber: 17.0 Consensus size: 3
78434 ATTTGGTTTT
78444 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTAA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
78489 -TA TTA
1 TTA TTA
78494 CAGGCCCAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.09
3 37 0.84
4 3 0.07
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:79849 original size:3 final size:3
Alignment explanation
Indices: 79841--79879 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
79831 TTTACTCTTA
* *
79841 ATT ATT ATT ACT ATT AGT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
79880 TAGTCATAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:80089 original size:102 final size:101
Alignment explanation
Indices: 79975--80181 Score: 231
Period size: 103 Copynumber: 2.0 Consensus size: 101
79965 TCCTGTTTTA
* * * *
79975 ATAT-TTATTTATTTTTCAATAT-TAAG-AAAGGGCAGTCTTAAAATAACTAGATGTTCATTTTC
1 ATATATTATTTATTTTTCAATATCGAAGAAAAGAGCAGTCTTAAAACAACTAGAAG-TCATTTTC
*
80037 TAATATTTTTAAATAAATAAATATCATATTTTATAAATT
65 TAATATTTCTAAATAAATAAATATCATA-TTTATAAA-T
* * * ** * *
80076 ATATATTATTTATTTTTTAATATCGAGGAAAAGAGCTGTCTTAAGGCACCTAGAAGTCCTTTTCT
1 ATATATTATTTATTTTTCAATATCGAAGAAAAGAGCAGTCTTAAAACAACTAGAAGTCATTTTCT
* **
80141 GATATTTCTAAATAAATAAATATTTTATTTATAAAT
66 AATATTTCTAAATAAATAAATATCATATTTATAAAT
80177 ATATA
1 ATATA
80182 AAATTTAATA
Statistics
Matches: 88, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
101 10 0.11
102 25 0.28
103 33 0.38
104 20 0.23
ACGTcount: A:0.39, C:0.08, G:0.09, T:0.44
Consensus pattern (101 bp):
ATATATTATTTATTTTTCAATATCGAAGAAAAGAGCAGTCTTAAAACAACTAGAAGTCATTTTCT
AATATTTCTAAATAAATAAATATCATATTTATAAAT
Found at i:80175 original size:23 final size:22
Alignment explanation
Indices: 80143--80187 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
80133 CCTTTTCTGA
*
80143 TATTTCTAAATAAATAAATATTT
1 TATTTATAAATAAATAAA-ATTT
*
80166 TATTTATAAATATATAAAATTT
1 TATTTATAAATAAATAAAATTT
80188 AATATATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
TATTTATAAATAAATAAAATTT
Found at i:80195 original size:22 final size:23
Alignment explanation
Indices: 80149--80195 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
80139 CTGATATTTC
* *
80149 TAAATAAATAAATATTTTATTTA
1 TAAATAAATAAATATTTAATATA
*
80172 TAAATATATAAA-ATTTAATATA
1 TAAATAAATAAATATTTAATATA
80194 TA
1 TA
80196 TTTTTCATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TAAATAAATAAATATTTAATATA
Found at i:82372 original size:14 final size:14
Alignment explanation
Indices: 82308--82373 Score: 57
Period size: 14 Copynumber: 4.9 Consensus size: 14
82298 GTACTATACA
82308 ATTTGCAT-TGTTAC
1 ATTTGCATAT-TTAC
*
82322 ATTTACATATTTAC
1 ATTTGCATATTTAC
* *
82336 ATTTGCATTTTTAT
1 ATTTGCATATTTAC
*
82350 GTTTG--TATTTAC
1 ATTTGCATATTTAC
*
82362 ATTTGTATATTT
1 ATTTGCATATTT
82374 CCATAATTAC
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
12 9 0.22
14 31 0.76
15 1 0.02
ACGTcount: A:0.24, C:0.09, G:0.09, T:0.58
Consensus pattern (14 bp):
ATTTGCATATTTAC
Found at i:86640 original size:114 final size:114
Alignment explanation
Indices: 86440--86884 Score: 685
Period size: 114 Copynumber: 3.9 Consensus size: 114
86430 GTTCTCGTAA
*
86440 TAGAATTAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGT
1 TAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGT
86505 ATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATTTGCTCATAG
66 ATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATTTGCTCATAG
* *
86554 TAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAATTATTTGATCTGGTTTGGT
1 TAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGT
86619 ATGAACCCCAAAACCAATCATTAGATTTGAAAGA-GAAATTTGCTCATAG
66 ATGAACCCCAAAACCAATCATTAGATTTGAAAGATG-AATTTGCTCATAG
* * * *
86668 TAGAAATAAGGAGGCCCAATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGT
1 TAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGT
* * * * * *
86733 ATAAACCCTAAAACCAATCATTGGATTTAAAAGATGAATTTGCTTATGG
66 ATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATTTGCTCATAG
* * * *
86782 TAGAAATAAGAAGACCCAATATCATCTTTTGGAAGTATTCTTTGAGTTATCTGATCTGGTTCGGT
1 TAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGT
* * * *
86847 AGGAACCCCAGAACCAATCATTGGAATTGAAAGATGAA
66 ATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAA
86885 CTGCATGATC
Statistics
Matches: 300, Mismatches: 29, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
113 1 0.00
114 298 0.99
115 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (114 bp):
TAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGT
ATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATTTGCTCATAG
Found at i:90351 original size:77 final size:76
Alignment explanation
Indices: 90198--90380 Score: 285
Period size: 77 Copynumber: 2.4 Consensus size: 76
90188 CTATTTCTCA
* * *
90198 CATCTATAAGTCCTACAGTACATGATGTTTCCAAGAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
90263 AGCCTTAGGGT
66 AACCTTAGGGT
90274 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
90339 AAACCTTCGGGT
65 AAACCTTAGGGT
* * *
90351 CAGCTGTAAGCCCTACAGTGCATAATGTTT
1 CATCTGTAAGTCCTACAGTGCATGATGTTT
90381 TTTTCTTAAA
Statistics
Matches: 98, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
76 30 0.31
77 68 0.69
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AACCTTAGGGT
Found at i:90573 original size:24 final size:23
Alignment explanation
Indices: 90530--90574 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
90520 GTTCATAATG
*
90530 AGAAGAATTCATCTGAAGAAGGA
1 AGAAGAATTCATATGAAGAAGGA
90553 AGAAGAAGTTCATAATG-AGAAG
1 AGAAGAA-TTCAT-ATGAAGAAG
90575 AACTTGTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 7 0.37
24 10 0.53
25 2 0.11
ACGTcount: A:0.49, C:0.07, G:0.27, T:0.18
Consensus pattern (23 bp):
AGAAGAATTCATATGAAGAAGGA
Found at i:90687 original size:24 final size:23
Alignment explanation
Indices: 90644--90688 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
90634 GTTCATAATG
90644 AGAAGAATTCATATGAAGAAGGA
1 AGAAGAATTCATATGAAGAAGGA
90667 AGAAGAAGTTCATAATG-AGAAG
1 AGAAGAA-TTCAT-ATGAAGAAG
90689 AACTTGTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 7 0.35
24 10 0.50
25 3 0.15
ACGTcount: A:0.51, C:0.04, G:0.27, T:0.18
Consensus pattern (23 bp):
AGAAGAATTCATATGAAGAAGGA
Found at i:90779 original size:113 final size:113
Alignment explanation
Indices: 90390--91011 Score: 987
Period size: 113 Copynumber: 5.5 Consensus size: 113
90380 TTTTTCTTAA
* * *
90390 AACATTTCCAGGTCGAGTTCATAATGAGAATAACTCATCTGAAGAATGAAGAAGAAGTTCATAAT
1 AACATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
90455 GAGAAGAACTTGTTCAAACTTTTCGCTTGAATTCATCATTCGATGGATC
66 GAGAAGAACTTGTTC-AACTTTTCGCTTGAATTCATCATTCGATGGATC
* *
90504 AACATTGCCAGGTCGAGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
1 AACATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
*
90569 GAGAAGAACTTGTTCAAACTTTTCACTTGAATTCATCATTCGATGGATC
66 GAGAAGAACTTGTTC-AACTTTTCGCTTGAATTCATCATTCGATGGATC
* * *
90618 AACATTGCCAGGTCGAGTTCATAATGAGAAGAATTCATATGAAGAAGGAAGAAGAAGTTCATAAT
1 AACATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
*
90683 GAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTTGATGGATC
66 GAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATC
*
90731 AACATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAAGAAGTTCATAAT
1 AACATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
*
90796 GAGAAGAACTTGTTCAACTTTTCACTTGAATTCATCATTCGATGGATC
66 GAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATC
*
90844 AACATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAAT
1 AACATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
* * * * *
90909 GAGAAGAATTTGTTCAACTTTTTGTTTGAATTCACCACTCGATGGATC
66 GAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATC
* * ** * *
90957 AACTTTTCCAGAG-AAAGTTCATAATAAGAAGAACTCATCTGAAAAAGG-AGAAGAA
1 AACATTACCAG-GTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
91012 CTTGTTCAAC
Statistics
Matches: 479, Mismatches: 28, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
112 7 0.01
113 283 0.59
114 189 0.39
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (113 bp):
AACATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
GAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATC
Found at i:91145 original size:84 final size:83
Alignment explanation
Indices: 91004--91180 Score: 239
Period size: 84 Copynumber: 2.1 Consensus size: 83
90994 TCTGAAAAAG
* * * * *
91004 GAGAAGAACTTGTTCAACCTTTTGTATGACTCTATCACAGAAGGAGATAGATTAGCAT-ACACTT
1 GAGAAGAACTTGTTCAACCTTTTGCAAGACTCTATCACAGAAGAAGATAGATCAGCATCA-ACAT
*
91068 TTCCAGAAAAAGTTCATAAT
65 TGCCAG-AAAAGTTCATAAT
*
91088 GAGAAGAACTTGTTCAACCTTTTGCAAGATTCTATCACAGAAGAAGATAGATCAGCATCAACATT
1 GAGAAGAACTTGTTCAACCTTTTGCAAGACTCTATCACAGAAGAAGATAGATCAGCATCAACATT
**
91153 GCCAGAAGTGTTCATAAT
66 GCCAGAAAAGTTCATAAT
*
91171 AAGAAGAACT
1 GAGAAGAACT
91181 CATCTGAAAG
Statistics
Matches: 82, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
83 20 0.24
84 61 0.74
85 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.27
Consensus pattern (83 bp):
GAGAAGAACTTGTTCAACCTTTTGCAAGACTCTATCACAGAAGAAGATAGATCAGCATCAACATT
GCCAGAAAAGTTCATAAT
Found at i:91435 original size:3 final size:3
Alignment explanation
Indices: 91429--91487 Score: 77
Period size: 3 Copynumber: 19.3 Consensus size: 3
91419 ATTTGGTTTT
91429 TTA TTA TTTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTAA TT-
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TT-A TTA
91476 TTA TTA -TA TTA T
1 TTA TTA TTA TTA T
91488 AGGCCCAATT
Statistics
Matches: 51, Mismatches: 0, Indels: 10
0.84 0.00 0.16
Matches are distributed among these distances:
2 4 0.08
3 38 0.75
4 9 0.18
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:91466 original size:28 final size:27
Alignment explanation
Indices: 91429--91487 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 27
91419 ATTTGGTTTT
91429 TTATTATTTATTATT-ATTATTATTATTA
1 TTATTATTTATTATTAATT-TTATTA-TA
91457 TTATTATTTATTATTAATTTTATTATA
1 TTATTATTTATTATTAATTTTATTATA
91484 TTAT
1 TTAT
91488 AGGCCCAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
27 6 0.20
28 21 0.70
29 3 0.10
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (27 bp):
TTATTATTTATTATTAATTTTATTATA
Found at i:92918 original size:19 final size:19
Alignment explanation
Indices: 92896--92950 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 19
92886 TTATTAAAAT
92896 CTTATTTAATTATTTTTAA
1 CTTATTTAATTATTTTTAA
92915 CTTATTTTAATCT-TGTTTTAA
1 CTTA-TTTAAT-TAT-TTTTAA
*
92936 --TATTTATTTATTTTT
1 CTTATTTAATTATTTTT
92951 CAATATTAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 10
0.74 0.02 0.24
Matches are distributed among these distances:
17 5 0.16
18 6 0.19
19 6 0.19
20 7 0.23
21 7 0.23
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.67
Consensus pattern (19 bp):
CTTATTTAATTATTTTTAA
Found at i:95177 original size:2 final size:2
Alignment explanation
Indices: 95166--95196 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
95156 TTAAGGAAAA
95166 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
95197 TTAGGGTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:95764 original size:14 final size:13
Alignment explanation
Indices: 95725--95770 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
95715 GGTATAGAAA
*
95725 AAAATAAAATACT
1 AAAATAAAATATT
*
95738 AAATTAAAATATT
1 AAAATAAAATATT
*
95751 GAAATAAAATTATT
1 AAAATAAAA-TATT
95765 AAAATA
1 AAAATA
95771 CTAAATTGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
13 18 0.67
14 9 0.33
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (13 bp):
AAAATAAAATATT
Found at i:95857 original size:17 final size:19
Alignment explanation
Indices: 95801--95859 Score: 59
Period size: 21 Copynumber: 3.1 Consensus size: 19
95791 TTAAAGGGAT
* *
95801 AATAATAAAAGTAGTAATAAA
1 AATAATAAAAATA-TAAT-TA
*
95822 AATAATAAAAATATGATTA
1 AATAATAAAAATATAATTA
95841 AATAA-AAAAAT-TAATTA
1 AATAATAAAAATATAATTA
95858 AA
1 AA
95860 ATATTGAAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
17 7 0.21
18 6 0.18
19 6 0.18
20 3 0.09
21 12 0.35
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (19 bp):
AATAATAAAAATATAATTA
Found at i:96379 original size:23 final size:23
Alignment explanation
Indices: 96353--96398 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
96343 ACTTAAAGAA
96353 TAATAATATAAATAAAATAAAAG
1 TAATAATATAAATAAAATAAAAG
*
96376 TAATAATGTAAATAAAATAAAAG
1 TAATAATATAAATAAAATAAAAG
96399 GGCAATTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (23 bp):
TAATAATATAAATAAAATAAAAG
Found at i:96498 original size:15 final size:15
Alignment explanation
Indices: 96475--96513 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
96465 AAATGAAAAT
*
96475 TATTTAAATATTATAA
1 TATTAAAATATTA-AA
96491 -ATTAAAATATTAAA
1 TATTAAAATATTAAA
96505 TATTAAAAT
1 TATTAAAAT
96514 TAAAGGTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 2 0.10
15 19 0.90
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TATTAAAATATTAAA
Found at i:97765 original size:3 final size:3
Alignment explanation
Indices: 97757--97807 Score: 59
Period size: 3 Copynumber: 17.0 Consensus size: 3
97747 ATTTGGCATG
* * *
97757 TAA TAA TAA TAA TAA TAA TAA TATT TAA -AA AAA TAA TTA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
97802 TAA TAA
1 TAA TAA
97808 AATGAAAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.90
4 2 0.05
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:97817 original size:30 final size:30
Alignment explanation
Indices: 97758--97817 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
97748 TTTGGCATGT
* **
97758 AATAATAATAATAATAATAATATTTAAAAA
1 AATAATAATAATAATAATAAAATGAAAAAA
*
97788 AATAATTATAATAATAATAAAATGAAAAAA
1 AATAATAATAATAATAATAAAATGAAAAAA
97818 TTAGTGTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (30 bp):
AATAATAATAATAATAATAAAATGAAAAAA
Found at i:98017 original size:45 final size:45
Alignment explanation
Indices: 97956--98254 Score: 553
Period size: 45 Copynumber: 6.6 Consensus size: 45
97946 AGGTCTCGAA
*
97956 AACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAA
1 AACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAT
*
98001 AACATCATGCACTGAAGGGCTTACAGATGACCTGAAGGTTTTGAT
1 AACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAT
*
98046 AACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAA
1 AACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAT
98091 AACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAT
1 AACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAT
*
98136 AACATCATGCACTGAAGGGGTTACAGATGACCCGAAGGTTTTGAT
1 AACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAT
98181 AACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAT
1 AACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAT
*
98226 AACATCATGCACTGAAGGGCTTATAGATG
1 AACATCATGCACTGAAGGGCTTACAGATG
98255 TGGGAAATAG
Statistics
Matches: 246, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
45 246 1.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (45 bp):
AACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAT
Found at i:98939 original size:22 final size:22
Alignment explanation
Indices: 98914--99017 Score: 181
Period size: 22 Copynumber: 4.7 Consensus size: 22
98904 AATAAAGCTT
*
98914 TCATCTTTGAAAAGAGAATTTA
1 TCATCTTTGAAAAGAGAATCTA
*
98936 TCATCTTTGAAGAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
98958 TCATCTTTGAAGAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
98980 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
99002 TCATCTTTGAAAAGAG
1 TCATCTTTGAAAAGAG
99018 CAGATGTAGA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 79 1.00
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.33
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:108117 original size:2 final size:2
Alignment explanation
Indices: 108110--108136 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
108100 AAAAACGAAG
108110 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
108137 GTATTTAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:108553 original size:14 final size:13
Alignment explanation
Indices: 108514--108559 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
108504 GTATAGAAAA
*
108514 AAAATAAAATACT
1 AAAATAAAATATT
*
108527 AAATTAAAATATT
1 AAAATAAAATATT
*
108540 GAAATAAAATTATT
1 AAAATAAAA-TATT
108554 AAAATA
1 AAAATA
108560 CTAAATTGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
13 18 0.67
14 9 0.33
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (13 bp):
AAAATAAAATATT
Found at i:114079 original size:23 final size:23
Alignment explanation
Indices: 114053--114098 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
114043 ACTTAAAGAA
114053 TAATAATATAAATAAAATAAAAG
1 TAATAATATAAATAAAATAAAAG
*
114076 TAATAATGTAAATAAAATAAAAG
1 TAATAATATAAATAAAATAAAAG
114099 GGAAATTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (23 bp):
TAATAATATAAATAAAATAAAAG
Found at i:115131 original size:23 final size:23
Alignment explanation
Indices: 115087--115131 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
115077 ATGGTAAACG
* *
115087 AATATATTTATAAACTTTAAATA
1 AATATATTTATAAACATGAAATA
115110 AATATATTTATAAACATGAAAT
1 AATATATTTATAAACATGAAAT
115132 GAATTGAATA
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:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (23 bp):
AATATATTTATAAACATGAAATA
Found at i:116604 original size:18 final size:19
Alignment explanation
Indices: 116570--116606 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
116560 TATTCCCCGG
116570 TAATCTTACATTTCCATGA
1 TAATCTTACATTTCCATGA
116589 TAATCTTACA-TTCCATGA
1 TAATCTTACATTTCCATGA
116607 ATCAAACGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (19 bp):
TAATCTTACATTTCCATGA
Found at i:117132 original size:115 final size:112
Alignment explanation
Indices: 116933--117151 Score: 273
Period size: 115 Copynumber: 1.9 Consensus size: 112
116923 GGGCTTATAA
* *
116933 TTTTTTATATTTAATTGGGACCTAATTTTTATAATTTCATAAAATGTTTAGATTTTGACCTCTTT
1 TTTTTTATATTTAATTGGGACCTAATTTTTATAACTTCATAAAATGGTTAGATTTTGACCTCTTT
**
116998 TCTATTTCTTATTAATTCATTCAATTTTGAATTAAATTTAACCAATT
66 TCTATTTCTTATTAATTCATTCAATTTAAAATTAAATTTAACCAATT
* * * *
117045 TTTTTTAT-TTATAATTAGGGCCTCTACTTTTTATAACTTCATAAAA-GGTTAGTTTTTTA-CTC
1 TTTTTTATATT-TAATT-GGGAC-CTAATTTTTATAACTTCATAAAATGGTTAGATTTTGACCTC
* *
117107 TTTTTTTCATTTTCTTATTTATTCATTCAATTTAAAATTAAATTT
63 -TTTTCT-A-TTTCTTATTAATTCATTCAATTTAAAATTAAATTT
117152 CATCATGTTT
Statistics
Matches: 91, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
111 2 0.02
112 16 0.18
113 19 0.21
114 22 0.24
115 32 0.35
ACGTcount: A:0.29, C:0.11, G:0.06, T:0.54
Consensus pattern (112 bp):
TTTTTTATATTTAATTGGGACCTAATTTTTATAACTTCATAAAATGGTTAGATTTTGACCTCTTT
TCTATTTCTTATTAATTCATTCAATTTAAAATTAAATTTAACCAATT
Done.