Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005814.1 Hibiscus syriacus cultivar Beakdansim tig00013627_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: 148173
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.33
Found at i:6991 original size:2 final size:2
Alignment explanation
Indices: 6984--7017 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
6974 AAATATTATT
6984 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
7018 AATTAATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7532 original size:24 final size:24
Alignment explanation
Indices: 7503--7554 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
7493 TAATTCTTTC
*
7503 TTTTCAAAATTTTTATACT-TATTA
1 TTTTCAAAATATTTATA-TATATTA
*
7527 TTTTCATAATATTTATATATATTA
1 TTTTCAAAATATTTATATATATTA
7551 TTTT
1 TTTT
7555 TTATTAATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 24 0.96
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.62
Consensus pattern (24 bp):
TTTTCAAAATATTTATATATATTA
Found at i:11991 original size:9 final size:8
Alignment explanation
Indices: 11951--12008 Score: 62
Period size: 8 Copynumber: 6.9 Consensus size: 8
11941 AAAAAAAGAT
11951 GAAAAAAG
1 GAAAAAAG
11959 GAAAATAAAG
1 G-AAA-AAAG
* *
11969 TAAATAAAA
1 GAAA-AAAG
11978 GAAAAAAG
1 GAAAAAAG
11986 GAAAAAAG
1 GAAAAAAG
*
11994 GAAAAAAT
1 GAAAAAAG
12002 GAAAAAA
1 GAAAAAA
12009 ATTTGAATCA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
8 26 0.60
9 13 0.30
10 4 0.09
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (8 bp):
GAAAAAAG
Found at i:12010 original size:9 final size:8
Alignment explanation
Indices: 11941--12009 Score: 57
Period size: 8 Copynumber: 7.9 Consensus size: 8
11931 ACTCATCTAT
11941 AAAAAAAG
1 AAAAAAAG
11949 ATGAAAAAAGG
1 A--AAAAAA-G
11960 AAAATAAAG
1 AAAA-AAAG
11969 TAAATAAAAG
1 -AAA-AAAAG
*
11979 AAAAAAGG
1 AAAAAAAG
*
11987 AAAAAAGG
1 AAAAAAAG
*
11995 AAAAAATG
1 AAAAAAAG
12003 AAAAAAA
1 AAAAAAA
12010 TTTGAATCAA
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
8 26 0.50
9 7 0.13
10 16 0.31
11 3 0.06
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (8 bp):
AAAAAAAG
Found at i:16702 original size:22 final size:19
Alignment explanation
Indices: 16654--16705 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 19
16644 ATCCACATTC
16654 TTCAAAGATGATAGATTTT
1 TTCAAAGATGATAGATTTT
*
16673 CTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGA-T-T-TT
16695 TTCAAAGATGA
1 TTCAAAGATGA
16706 AAGTTTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 14 0.50
20 1 0.04
21 1 0.04
22 12 0.43
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (19 bp):
TTCAAAGATGATAGATTTT
Found at i:17438 original size:45 final size:45
Alignment explanation
Indices: 17369--17793 Score: 648
Period size: 45 Copynumber: 9.6 Consensus size: 45
17359 TATTTCCCAT
* *
17369 ATCTGTAAGCCCTTCAGTGTATGATGTTATCAAAACCTTCGGGTC
1 ATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTC
*
17414 ATTTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTC
1 ATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTC
* *
17459 ATATGTAAGTCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTC
1 ATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTC
*
17504 ATCTGTAAGCCCTTCAGTGCATGATGTTATCAAAA------GGTC
1 ATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTC
17543 ATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTC
1 ATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTC
* *
17588 ATCTGTAAGCCCTTCAGCGCATGATGTTTTCAAAACCTTCGGGCC
1 ATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTC
17633 ATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTC
1 ATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTC
*
17678 ATCTGTAATCCCTT-AGTGCATGATGTTTTCAAAACCTTCGGGTC
1 ATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTC
* * *
17722 ACCTATAAGCCCTTCAGTGCATGATGTTATCAAAATCCTTCGGGTC
1 ATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAA-CCTTCGGGTC
** * *
17768 ATCTGTAAAACCTACAGTGCAAGATG
1 ATCTGTAAGCCCTTCAGTGCATGATG
17794 ATAAGACCTC
Statistics
Matches: 348, Mismatches: 24, Indels: 15
0.90 0.06 0.04
Matches are distributed among these distances:
39 38 0.11
44 41 0.12
45 239 0.69
46 30 0.09
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (45 bp):
ATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTC
Found at i:17659 original size:174 final size:174
Alignment explanation
Indices: 17369--17775 Score: 645
Period size: 174 Copynumber: 2.3 Consensus size: 174
17359 TATTTCCCAT
* * *
17369 ATCTGTAAGCCCTTCAGTGTATGATGTTATCAAAACCTTCGGGTCATTTGTAAGCCCTTCAGTGC
1 ATCTGTAAGCCCTTCAGTGCATGATGTTATCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGCGC
* *
17434 ATGATGTTTTCAAAACCTTCGGGTCATATGTAAGTCCTTCAGTGCATGATGTTTTCAAAACCTTC
66 ATGATGTTTTCAAAACCTTCGGGCCATATGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTC
17499 GGGTCATCTGTAAGCCCTTCAGTGCATGATGTTATCAAAA-GGTC
131 GGGTCATCTGTAAGCCCTT-AGTGCATGATGTTATCAAAACGGTC
*
17543 ATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGCGC
1 ATCTGTAAGCCCTTCAGTGCATGATGTTATCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGCGC
*
17608 ATGATGTTTTCAAAACCTTCGGGCCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTC
66 ATGATGTTTTCAAAACCTTCGGGCCATATGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTC
* *
17673 GGGTCATCTGTAATCCCTTAGTGCATGATGTTTTCAAAACCTTCGGGTC
131 GGGTCATCTGTAAGCCCTTAGTGCATGATGTTATCAAAA----C-GGTC
* *
17722 ACCTATAAGCCCTTCAGTGCATGATGTTATCAAAATCCTTCGGGTCATCTGTAA
1 ATCTGTAAGCCCTTCAGTGCATGATGTTATCAAAA-CCTTCGGGTCATCTGTAA
17776 AACCTACAGT
Statistics
Matches: 214, Mismatches: 12, Indels: 8
0.91 0.05 0.03
Matches are distributed among these distances:
173 19 0.09
174 141 0.66
179 36 0.17
180 18 0.08
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.33
Consensus pattern (174 bp):
ATCTGTAAGCCCTTCAGTGCATGATGTTATCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGCGC
ATGATGTTTTCAAAACCTTCGGGCCATATGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTC
GGGTCATCTGTAAGCCCTTAGTGCATGATGTTATCAAAACGGTC
Found at i:17975 original size:3 final size:3
Alignment explanation
Indices: 17967--18025 Score: 100
Period size: 3 Copynumber: 19.0 Consensus size: 3
17957 CATTTTCATT
17967 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
18013 TATA TTA TTA TTA
1 T-TA TTA TTA TTA
18026 AATAAAAAAT
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 48 0.87
4 7 0.13
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:19318 original size:14 final size:15
Alignment explanation
Indices: 19289--19322 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
19279 TTTAAATTAG
19289 TATT-TTATTTTCAT
1 TATTATTATTTTCAT
19303 TATTATTATTTT-AT
1 TATTATTATTTTCAT
19317 TATTAT
1 TATTAT
19323 CTTAAGTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (15 bp):
TATTATTATTTTCAT
Found at i:21093 original size:19 final size:18
Alignment explanation
Indices: 21069--21117 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
21059 AAAAAAACAT
*
21069 AATAAAACAATAATAATAA
1 AATAAAACAAAAAT-ATAA
* *
21088 ATTAAAAGAAAAATATAA
1 AATAAAACAAAAATATAA
21106 AATAAAA-AAAAA
1 AATAAAACAAAAA
21118 GGAAAAAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 5 0.19
18 10 0.38
19 11 0.42
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (18 bp):
AATAAAACAAAAATATAA
Found at i:22374 original size:22 final size:22
Alignment explanation
Indices: 22321--22363 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
22311 GCAAAAAAGG
22321 AAATGAGGTTTTGTTTTTTAGA
1 AAATGAGGTTTTGTTTTTTAGA
22343 AAATGAGGTTTTGTTTTTTAG
1 AAATGAGGTTTTGTTTTTTAG
22364 TTAGTGGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (22 bp):
AAATGAGGTTTTGTTTTTTAGA
Found at i:22922 original size:121 final size:121
Alignment explanation
Indices: 22687--23031 Score: 537
Period size: 121 Copynumber: 2.9 Consensus size: 121
22677 GTCGATCCAT
* * * *
22687 TGGGCACGATATACTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTCATGAAGTTGAGCC
1 TGGGCACAATATCCTCCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTCGTGAAGTTGAGCC
* * *
22752 TCGAATTGGATATCCTTCGTCGTTAAGTTGAAATCCAAGGGTTGCATTGCTGCTTG
66 TCGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGCATTGCTCCTTA
* * * *
22808 TGGGTACAATATCCTCCGTCATGAAGTTGAAATTGTGGATGGCCCCTTCGTCGTGAAGTTAAGCC
1 TGGGCACAATATCCTCCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTCGTGAAGTTGAGCC
* *
22873 TCGAATTGGATATCATTCATCGTGAAGTTGAAATCCAAGGGTTGCATTGCTCCTTA
66 TCGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGCATTGCTCCTTA
* * *
22929 TGGGCACGATATCCTCCGTCGGGGAGTTGAAATCGTGGATGGCCCCTTCGTCGTGAAGTTGAGCC
1 TGGGCACAATATCCTCCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTCGTGAAGTTGAGCC
*
22994 TCGAATTAGATATCCTTCGTCGTGAAGTTGAAATCCAA
66 TCGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAA
23032 TCTAAAGATG
Statistics
Matches: 201, Mismatches: 23, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
121 201 1.00
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (121 bp):
TGGGCACAATATCCTCCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTCGTGAAGTTGAGCC
TCGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGCATTGCTCCTTA
Found at i:23144 original size:34 final size:34
Alignment explanation
Indices: 23105--23214 Score: 100
Period size: 34 Copynumber: 3.3 Consensus size: 34
23095 CCCCTCCGTT
*
23105 GTGAAGTTGAGCCTTAAATTGGATATCCTTCGTC
1 GTGAAGTTGAGCCTTGAATTGGATATCCTTCGTC
* * * * ** * *
23139 GTGAAGTTAAAACCGTGGA-TGG--CCCCTCCGTT
1 GTGAAGTT-GAGCCTTGAATTGGATATCCTTCGTC
23171 GTGAAGTTGAGCCTTGAATTGGATATCCTTCGTC
1 GTGAAGTTGAGCCTTGAATTGGATATCCTTCGTC
*
23205 ATGAAGTTGA
1 GTGAAGTTGA
23215 AATTAAACCT
Statistics
Matches: 54, Mismatches: 18, Indels: 8
0.68 0.22 0.10
Matches are distributed among these distances:
31 6 0.11
32 17 0.31
34 26 0.48
35 5 0.09
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (34 bp):
GTGAAGTTGAGCCTTGAATTGGATATCCTTCGTC
Found at i:23177 original size:66 final size:66
Alignment explanation
Indices: 23071--23212 Score: 266
Period size: 66 Copynumber: 2.2 Consensus size: 66
23061 ATTCCCATCA
23071 TCGTGAAGTTAAAACCGTGGATGGCCCCTCCGTTGTGAAGTTGAGCCTTAAATTGGATATCCTTC
1 TCGTGAAGTTAAAACCGTGGATGGCCCCTCCGTTGTGAAGTTGAGCCTTAAATTGGATATCCTTC
23136 G
66 G
*
23137 TCGTGAAGTTAAAACCGTGGATGGCCCCTCCGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTC
1 TCGTGAAGTTAAAACCGTGGATGGCCCCTCCGTTGTGAAGTTGAGCCTTAAATTGGATATCCTTC
23202 G
66 G
*
23203 TCATGAAGTT
1 TCGTGAAGTT
23213 GAAATTAAAC
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 74 1.00
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (66 bp):
TCGTGAAGTTAAAACCGTGGATGGCCCCTCCGTTGTGAAGTTGAGCCTTAAATTGGATATCCTTC
G
Found at i:23178 original size:32 final size:32
Alignment explanation
Indices: 23073--23178 Score: 97
Period size: 32 Copynumber: 3.2 Consensus size: 32
23063 TCCCATCATC
23073 GTGAAGTTAAAACCGTGGATGGCCCCTCCGTT
1 GTGAAGTTAAAACCGTGGATGGCCCCTCCGTT
* * * ** ** * *
23105 GTGAAGTT-GAGCCTTAAATTGGATATCCTTCGTC
1 GTGAAGTTAAAACCGTGGA-TGG--CCCCTCCGTT
23139 GTGAAGTTAAAACCGTGGATGGCCCCTCCGTT
1 GTGAAGTTAAAACCGTGGATGGCCCCTCCGTT
23171 GTGAAGTT
1 GTGAAGTT
23179 GAGCCTTGAA
Statistics
Matches: 52, Mismatches: 18, Indels: 8
0.67 0.23 0.10
Matches are distributed among these distances:
31 5 0.10
32 25 0.48
34 17 0.33
35 5 0.10
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (32 bp):
GTGAAGTTAAAACCGTGGATGGCCCCTCCGTT
Found at i:23183 original size:190 final size:190
Alignment explanation
Indices: 22936--23336 Score: 586
Period size: 190 Copynumber: 2.1 Consensus size: 190
22926 TTATGGGCAC
* * * * * *
22936 GATATCCTCCGTCGGGGAGTTGAAATCGTGGATGGCCCCTTCGTCGTGAAGTTGAGCCTCGAATT
1 GATATCCTTCGTCGTGAAGTTAAAACCGTGGATGGCCCCTCCGTCGTGAAGTTGAGCCTCGAATT
* * * * * *
23001 AGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGTTGGTTAGCACAATTCC
66 AGATATCCTTCGTCATGAAGTTGAAATCAAACCTAAAGATAAATGTTGCTGGTGAGCACAATTCC
*
23066 CATCATCGTGAAGTTAAAACCGTGGATGGCCCCTCCGTTGTGAAGTTGAGCCTTAAATTG
131 CATCATCGTGAAGTTAAAACCGTGGATGGCCCATCCGTTGTGAAGTTGAGCCTTAAATTG
* *
23126 GATATCCTTCGTCGTGAAGTTAAAACCGTGGATGGCCCCTCCGTTGTGAAGTTGAGCCTTGAATT
1 GATATCCTTCGTCGTGAAGTTAAAACCGTGGATGGCCCCTCCGTCGTGAAGTTGAGCCTCGAATT
* * *
23191 GGATATCCTTCGTCATGAAGTTGAAATTAAACCTAAAGATAAATGTTGCTGGTGAGCACGATTCC
66 AGATATCCTTCGTCATGAAGTTGAAATCAAACCTAAAGATAAATGTTGCTGGTGAGCACAATTCC
* * * *
23256 CTTCGTCGTGAAGTTGAAACCGTGGATGGCCCATCCGTTGTGAAGTTGAGCCTTGAATTG
131 CATCATCGTGAAGTTAAAACCGTGGATGGCCCATCCGTTGTGAAGTTGAGCCTTAAATTG
* *
23316 GATATCATTCGTCATGAAGTT
1 GATATCCTTCGTCGTGAAGTT
23337 GAAATCCAAT
Statistics
Matches: 187, Mismatches: 24, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
190 187 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (190 bp):
GATATCCTTCGTCGTGAAGTTAAAACCGTGGATGGCCCCTCCGTCGTGAAGTTGAGCCTCGAATT
AGATATCCTTCGTCATGAAGTTGAAATCAAACCTAAAGATAAATGTTGCTGGTGAGCACAATTCC
CATCATCGTGAAGTTAAAACCGTGGATGGCCCATCCGTTGTGAAGTTGAGCCTTAAATTG
Found at i:23351 original size:124 final size:124
Alignment explanation
Indices: 23131--23590 Score: 742
Period size: 124 Copynumber: 3.7 Consensus size: 124
23121 AATTGGATAT
* *
23131 CCTTCGTCGTGAAGTTAAAACCGTGGATGGCCCCTCCGTTGTGAAGTTGAGCCTTGAATTGGATA
1 CCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCATCCGTTGTGAAGTTGAGCCTTGAATTGGATA
** * * *
23196 TCCTTCGTCATGAAGTTGAAATTAAACCTAAAGATAAATGTTGCTGGTGAGCACGATTC
66 TCCTTCGTCATGAAGTTGAAATCCAATCTAAAGATGAATGTTGATGGTGAGCACGATTC
23255 CCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCATCCGTTGTGAAGTTGAGCCTTGAATTGGATA
1 CCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCATCCGTTGTGAAGTTGAGCCTTGAATTGGATA
*
23320 TCATTCGTCATGAAGTTGAAATCCAATCTAAAGATGAATGTTGATGGTGAGCACGATTC
66 TCCTTCGTCATGAAGTTGAAATCCAATCTAAAGATGAATGTTGATGGTGAGCACGATTC
*
23379 CCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCCTCCGTTGTGAAGTTGAGCCTTGAATTGGATA
1 CCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCATCCGTTGTGAAGTTGAGCCTTGAATTGGATA
* * *
23444 TCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTAATGGTGATCACGATTC
66 TCCTTCGTCATGAAGTTGAAATCCAATCTAAAGATGAATGTTGATGGTGAGCACGATTC
* ** * *
23503 CCTTCGTCGTGAATTTGAAACCGTGGATGGCCCATTTGTTGTGAAGTTGAGTCTT-AACTTGAAT
1 CCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCATCCGTTGTGAAGTTGAGCCTTGAA-TTGGAT
*
23567 ATCCTTCGTCGTGAAGTTGAAATC
65 ATCCTTCGTCATGAAGTTGAAATC
23591 AAAGCTTGTA
Statistics
Matches: 316, Mismatches: 19, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
123 2 0.01
124 314 0.99
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (124 bp):
CCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCATCCGTTGTGAAGTTGAGCCTTGAATTGGATA
TCCTTCGTCATGAAGTTGAAATCCAATCTAAAGATGAATGTTGATGGTGAGCACGATTC
Found at i:25290 original size:18 final size:19
Alignment explanation
Indices: 25269--25321 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
25259 TTTTTCTTTA
*
25269 TTTTTCCTTTGTTTTTGCT
1 TTTTTACTTTGTTTTTGCT
* *
25288 TTTTTATTTTCTTTTTGCT
1 TTTTTACTTTGTTTTTGCT
25307 TTTTT-CTTTGTTTTT
1 TTTTTACTTTGTTTTT
25322 CTCTTTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 8 0.28
19 21 0.72
ACGTcount: A:0.02, C:0.11, G:0.08, T:0.79
Consensus pattern (19 bp):
TTTTTACTTTGTTTTTGCT
Found at i:25320 original size:11 final size:11
Alignment explanation
Indices: 25258--25338 Score: 63
Period size: 11 Copynumber: 6.8 Consensus size: 11
25248 TCTTGTTTTC
*
25258 TTTTTTCTTTA
1 TTTTTTCTTTG
*
25269 TTTTTCCTTTG
1 TTTTTTCTTTG
* *
25280 TTTTTGCTTTT
1 TTTTTTCTTTG
25291 TTATTTTCTTTTTG
1 TT-TTTTC--TTTG
25305 CTTTTTTCTTTG
1 -TTTTTTCTTTG
*
25317 TTTTTCTCTTTT
1 TTTTT-TCTTTG
25329 TTTTCTTCTT
1 TTTT-TTCTT
25339 CTCTTTTTGT
Statistics
Matches: 57, Mismatches: 7, Indels: 11
0.76 0.09 0.15
Matches are distributed among these distances:
11 25 0.44
12 21 0.37
13 1 0.02
14 8 0.14
15 2 0.04
ACGTcount: A:0.02, C:0.14, G:0.05, T:0.79
Consensus pattern (11 bp):
TTTTTTCTTTG
Found at i:25321 original size:19 final size:19
Alignment explanation
Indices: 25269--25330 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
25259 TTTTTCTTTA
*
25269 TTTTTCCTTTG-TTTTTGC
1 TTTTTTCTTTGTTTTTTGC
*
25287 TTTTTTATTT-TCTTTTTGC
1 TTTTTTCTTTGT-TTTTTGC
25306 TTTTTTCTTTGTTTTTCT-C
1 TTTTTTCTTTGTTTTT-TGC
25325 TTTTTT
1 TTTTTT
25331 TTCTTCTTCT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
18 8 0.22
19 27 0.73
20 2 0.05
ACGTcount: A:0.02, C:0.13, G:0.06, T:0.79
Consensus pattern (19 bp):
TTTTTTCTTTGTTTTTTGC
Found at i:25345 original size:14 final size:12
Alignment explanation
Indices: 25248--25352 Score: 53
Period size: 12 Copynumber: 8.6 Consensus size: 12
25238 TGCATATGTG
*
25248 TCTTGTTTTCTTT
1 TCTTCTTTT-TTT
25261 T-TTCTTTATTTT
1 TCTTCTTT-TTTT
25273 TC--CTTTGTTTT
1 TCTTCTTT-TTTT
25284 TGCTT-TTTTATTT
1 T-CTTCTTTT-TTT
*
25297 TCTT-TTTGCTTT
1 TCTTCTTT-TTTT
25309 T-TTCTTTGTTTT
1 TCTTCTTT-TTTT
25321 TC-TCTTTTTTT
1 TCTTCTTTTTTT
25332 TCTTCTTCTCTTTT
1 TCTTCTT-T-TTTT
*
25346 TGTTCTT
1 TCTTCTT
25353 GATTGGATAT
Statistics
Matches: 75, Mismatches: 5, Indels: 23
0.73 0.05 0.22
Matches are distributed among these distances:
11 17 0.23
12 38 0.51
13 10 0.13
14 10 0.13
ACGTcount: A:0.02, C:0.15, G:0.06, T:0.77
Consensus pattern (12 bp):
TCTTCTTTTTTT
Found at i:25346 original size:17 final size:17
Alignment explanation
Indices: 25289--25352 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
25279 GTTTTTGCTT
25289 TTTTATTTTCTTTTTGCT-
1 TTTT-TTTTCTTTTT-CTC
*
25307 TTTTTCTTTGTTTTTCTC
1 TTTTT-TTTCTTTTTCTC
*
25325 TTTTTTTTCTTCTTCTC
1 TTTTTTTTCTTTTTCTC
*
25342 TTTTTGTTCTT
1 TTTTTTTTCTT
25353 GATTGGATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
17 23 0.57
18 17 0.43
ACGTcount: A:0.02, C:0.16, G:0.05, T:0.78
Consensus pattern (17 bp):
TTTTTTTTCTTTTTCTC
Found at i:32496 original size:124 final size:123
Alignment explanation
Indices: 32268--32605 Score: 477
Period size: 124 Copynumber: 2.7 Consensus size: 123
32258 CTAGAAAGCT
* * *
32268 CATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGT-TGTGAACTTGAAATCCGATCTAG
1 CATTCGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCT-TGAAGTTGAAATCCAATCTA-
* * * *
32332 AA-ATGAATGTTGCTTGTGGGCATGATATCCTTCGTTGTGAAGTTGAAATCGTGA-ATTGTCC
64 AAGATGAATGTTGCTGGT-GGCACGATATCCTTCGTCGTGAAGTTGAAATCGT-ATA-TGGCC
*
32393 C-TTCTTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCTTGAAGTTGAAATCCAATCTAAA
1 CATTCGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCTTGAAGTTGAAATCCAATCTAAA
32457 GATGAATGTTGCTGGTAGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTATATGGCC
66 GATGAATGTTGCTGGT-GGCACGATATCCTTCGTCGTGAAGTTGAAATCGTATATGGCC
* * * *
32516 CATTCGTTGTGAAGTTGAGCCTTGAATTGGATATCATTCGCCGTAAAGTTGAAATCCAATCTAAA
1 CATTCGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCTTGAAGTTGAAATCCAATCTAAA
32581 GATGAATGTTGCTGGTGGACACGAT
66 GATGAATGTTGCTGGTGG-CACGAT
32606 TAGAAGAAGC
Statistics
Matches: 194, Mismatches: 14, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
123 10 0.05
124 182 0.94
125 2 0.01
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (123 bp):
CATTCGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCTTGAAGTTGAAATCCAATCTAAA
GATGAATGTTGCTGGTGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTATATGGCC
Found at i:33250 original size:31 final size:31
Alignment explanation
Indices: 33212--33273 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
33202 AAGTGTTCTA
33212 TACGAGCTGTGGCGAGAGGATGAAGCTTTGC
1 TACGAGCTGTGGCGAGAGGATGAAGCTTTGC
*
33243 TACGAGCTGTGGTGAGAGGATGAAGCTTTGC
1 TACGAGCTGTGGCGAGAGGATGAAGCTTTGC
33274 ATGCGCCATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.15, G:0.39, T:0.24
Consensus pattern (31 bp):
TACGAGCTGTGGCGAGAGGATGAAGCTTTGC
Found at i:33305 original size:22 final size:22
Alignment explanation
Indices: 33277--33328 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
33267 GCTTTGCATG
33277 CGCCATGCACGTCGGAAGAGGT
1 CGCCATGCACGTCGGAAGAGGT
33299 CGCCATGCACGTCGGAAGAGGT
1 CGCCATGCACGTCGGAAGAGGT
33321 CGCC-TGCA
1 CGCCATGCA
33329 TGCAGTGGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 4 0.13
22 26 0.87
ACGTcount: A:0.21, C:0.31, G:0.35, T:0.13
Consensus pattern (22 bp):
CGCCATGCACGTCGGAAGAGGT
Found at i:33440 original size:29 final size:29
Alignment explanation
Indices: 33374--33441 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
33364 AGGGCACAGG
*
33374 ACAAGGTCGCCCGGCGTGCATGGCGACCT
1 ACAAGGTCGCCCGGCGTGCATGACGACCT
* * * *
33403 ACCATGTCGCCTGGCGTGCATGACGGCCT
1 ACAAGGTCGCCCGGCGTGCATGACGACCT
33432 ACAAGGTCGC
1 ACAAGGTCGC
33442 TCGGAGGGCA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.18, C:0.34, G:0.32, T:0.16
Consensus pattern (29 bp):
ACAAGGTCGCCCGGCGTGCATGACGACCT
Found at i:35577 original size:15 final size:18
Alignment explanation
Indices: 35539--35578 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 18
35529 GTTCCAGGTA
35539 TGTTCTTTCTCTCTCTTT
1 TGTTCTTTCTCTCTCTTT
*
35557 TTTTCTTT-TC-C-CTTT
1 TGTTCTTTCTCTCTCTTT
35572 TGTTCTT
1 TGTTCTT
35579 CATCTCTACT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
15 10 0.50
16 1 0.05
17 2 0.10
18 7 0.35
ACGTcount: A:0.00, C:0.25, G:0.05, T:0.70
Consensus pattern (18 bp):
TGTTCTTTCTCTCTCTTT
Found at i:37098 original size:25 final size:26
Alignment explanation
Indices: 37064--37135 Score: 94
Period size: 25 Copynumber: 2.8 Consensus size: 26
37054 AATATAGGTT
*
37064 GTTATTGTAATATGTAAAAATATG-A
1 GTTATTGTAATTTGTAAAAATATGCA
37089 GTTATTGTAATTTGTAAAATATATGTCA
1 GTTATTGTAATTTGTAAAA-ATATG-CA
*
37117 -TTATTGTAATTTATAAAAA
1 GTTATTGTAATTTGTAAAAA
37136 GATTTGTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
25 18 0.43
26 6 0.14
27 17 0.40
28 1 0.02
ACGTcount: A:0.42, C:0.01, G:0.12, T:0.44
Consensus pattern (26 bp):
GTTATTGTAATTTGTAAAAATATGCA
Found at i:37124 original size:27 final size:26
Alignment explanation
Indices: 37047--37134 Score: 90
Period size: 27 Copynumber: 3.3 Consensus size: 26
37037 AATGTAGTGA
* *
37047 TTGTAAAAATATAGGTTGTTATTGTAAT
1 TTGT-AAAATATATG-TATTATTGTAAT
*
37075 ATGTAAAA-ATATG-AGTTATTGTAAT
1 TTGTAAAATATATGTA-TTATTGTAAT
37100 TTGTAAAATATATGTCATTATTGTAAT
1 TTGTAAAATATATGT-ATTATTGTAAT
*
37127 TTATAAAA
1 TTGTAAAA
37135 AGATTTGTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
25 17 0.33
26 9 0.18
27 21 0.41
28 4 0.08
ACGTcount: A:0.41, C:0.01, G:0.14, T:0.44
Consensus pattern (26 bp):
TTGTAAAATATATGTATTATTGTAAT
Found at i:37159 original size:29 final size:29
Alignment explanation
Indices: 37091--37281 Score: 151
Period size: 29 Copynumber: 6.6 Consensus size: 29
37081 AAATATGAGT
* * * *
37091 TATTGTAATTTGT-AAAATATATGTCAT-
1 TATTGTAATTTATAAAAAGATTTGTCTTC
*
37118 TATTGTAATTTATAAAAAGATTTGTTTTC
1 TATTGTAATTTATAAAAAGATTTGTCTTC
* * *
37147 TATTTTAAATTATAAAATGATTTGTCCTT-
1 TATTGTAATTTATAAAAAGATTTGT-CTTC
* *
37176 TATTGTAATTTATAAGAAGATTTATCTTC
1 TATTGTAATTTATAAAAAGATTTGTCTTC
* *
37205 TATTATAATTTATAAAAAAGATTTATC--C
1 TATTGTAATTTAT-AAAAAGATTTGTCTTC
**
37233 ATGATTGTAATTTATAAAAATCTTTGTCCTT-
1 -T-ATTGTAATTTATAAAAAGATTTGT-CTTC
* *
37264 AAATGTAATTTATAAAAA
1 TATTGTAATTTATAAAAA
37282 ATATTTAATT
Statistics
Matches: 132, Mismatches: 22, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
27 12 0.09
28 14 0.11
29 80 0.61
30 26 0.20
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.47
Consensus pattern (29 bp):
TATTGTAATTTATAAAAAGATTTGTCTTC
Found at i:37196 original size:58 final size:59
Alignment explanation
Indices: 37115--37252 Score: 188
Period size: 58 Copynumber: 2.4 Consensus size: 59
37105 AAATATATGT
* * * * *
37115 CATTATTGTAATTTATAAAAAGATTTGTTTTCTATTTTAAATTAT-AAAATGATTTGTC
1 CATTATTGTAATTTATAAAAAGATTTATCTTCTATTATAAATTATAAAAAAGATTTATC
* * *
37173 CTTTATTGTAATTTATAAGAAGATTTATCTTCTATTATAATTTATAAAAAAGATTTATC
1 CATTATTGTAATTTATAAAAAGATTTATCTTCTATTATAAATTATAAAAAAGATTTATC
*
37232 CATGATTGTAATTTATAAAAA
1 CATTATTGTAATTTATAAAAA
37253 TCTTTGTCCT
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
58 39 0.57
59 29 0.43
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.47
Consensus pattern (59 bp):
CATTATTGTAATTTATAAAAAGATTTATCTTCTATTATAAATTATAAAAAAGATTTATC
Found at i:45198 original size:37 final size:36
Alignment explanation
Indices: 45148--45292 Score: 156
Period size: 35 Copynumber: 4.1 Consensus size: 36
45138 CCCATTATCA
* * *
45148 TTTTTCAACAAACATCTACCAAACTTTGAAAAACTAT
1 TTTTTAAACAAACATTTACCAAACTTTG-AAAACCAT
*
45185 TTTTTAAATAAACATTTACCAAACTTTGAAAACCA-
1 TTTTTAAACAAACATTTACCAAACTTTGAAAACCAT
* *
45220 TTTTCAAAGAAACATTTACCAAACTTTGAAAACCAT
1 TTTTTAAACAAACATTTACCAAACTTTGAAAACCAT
**
45256 TTTTT---CAAAGTTGGTTACCAAAC-TTGAAAACCAT
1 TTTTTAAACAAACAT--TTACCAAACTTTGAAAACCAT
45290 TTT
1 TTT
45293 AATACTTTCA
Statistics
Matches: 95, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
33 4 0.04
34 14 0.15
35 42 0.44
36 10 0.11
37 25 0.26
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.34
Consensus pattern (36 bp):
TTTTTAAACAAACATTTACCAAACTTTGAAAACCAT
Found at i:45221 original size:21 final size:21
Alignment explanation
Indices: 45197--45257 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
45187 TTTAAATAAA
45197 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
45218 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
45232 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
45253 CATTT
1 CATTT
45258 TTTCAAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:49254 original size:12 final size:12
Alignment explanation
Indices: 49219--49254 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
49209 CTATTCATGT
*
49219 GAATAGTAACCT
1 GAATAGTAACCC
49231 GAATAGTAACCC
1 GAATAGTAACCC
49243 GAATAGTAACCC
1 GAATAGTAACCC
49255 CGCAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.22, G:0.17, T:0.19
Consensus pattern (12 bp):
GAATAGTAACCC
Found at i:49689 original size:37 final size:36
Alignment explanation
Indices: 49647--49755 Score: 175
Period size: 35 Copynumber: 3.0 Consensus size: 36
49637 ATTTTTTAAC
* *
49647 AAACATCTACCAAACTTTGAAAAACTATTTTTCAAAG
1 AAACATTTACCAAACTTTG-AAAACCATTTTTCAAAG
49684 AAACATTTACCAAACTTTGAAAACCA-TTTTCAAAG
1 AAACATTTACCAAACTTTGAAAACCATTTTTCAAAG
49719 AAACATTTACCAAACTTTGAAAACCATTTTTTCAAAG
1 AAACATTTACCAAACTTTGAAAACCA-TTTTTCAAAG
49756 TTGGTTACCA
Statistics
Matches: 68, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
35 35 0.51
36 6 0.09
37 27 0.40
ACGTcount: A:0.45, C:0.19, G:0.06, T:0.30
Consensus pattern (36 bp):
AAACATTTACCAAACTTTGAAAACCATTTTTCAAAG
Found at i:49711 original size:21 final size:21
Alignment explanation
Indices: 49687--49747 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
49677 TTCAAAGAAA
49687 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
49708 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
49722 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
49743 CATTT
1 CATTT
49748 TTTCAAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:49764 original size:35 final size:36
Alignment explanation
Indices: 49654--49782 Score: 142
Period size: 35 Copynumber: 3.6 Consensus size: 36
49644 AACAAACATC
* *
49654 TACCAAACTTTGAAAAAC-TATTTTTCAAAGAAACATT
1 TACCAAACTTTGAAAACCAT-TTTTTCAAAG-AACAGT
*
49691 TACCAAACTTTGAAAACCA--TTTTCAAAGAAACATT
1 TACCAAACTTTGAAAACCATTTTTTCAAAG-AACAGT
***
49726 TACCAAACTTTGAAAACCATTTTTTCAAAG-TTGGT
1 TACCAAACTTTGAAAACCATTTTTTCAAAGAACAGT
49761 TACCAAAC-TTGAAAACCATTTT
1 TACCAAACTTTGAAAACCATTTT
49783 AATACTTTCA
Statistics
Matches: 84, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
34 14 0.17
35 44 0.52
37 26 0.31
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.33
Consensus pattern (36 bp):
TACCAAACTTTGAAAACCATTTTTTCAAAGAACAGT
Found at i:51924 original size:25 final size:25
Alignment explanation
Indices: 51874--51925 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
51864 TATCACCCGA
*
51874 CTATTCATTATATTTTGAACTTGTT
1 CTATTCATTATATTTTGAACTCGTT
*
51899 CTATTCATTATGTTTT-AGACTCGTT
1 CTATTCATTATATTTTGA-ACTCGTT
51924 CT
1 CT
51926 TTTATGTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 1 0.04
25 23 0.96
ACGTcount: A:0.21, C:0.15, G:0.10, T:0.54
Consensus pattern (25 bp):
CTATTCATTATATTTTGAACTCGTT
Found at i:56416 original size:12 final size:12
Alignment explanation
Indices: 56399--56451 Score: 76
Period size: 12 Copynumber: 4.7 Consensus size: 12
56389 CTAAAAAAAG
56399 AAATAATAACAA
1 AAATAATAACAA
56411 AAATAATAACAA
1 AAATAATAACAA
*
56423 AAATAA-AA-TA
1 AAATAATAACAA
56433 AAATAA-AACAA
1 AAATAATAACAA
56444 AAATAATA
1 AAATAATA
56452 TTAATATTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
10 9 0.24
11 9 0.24
12 19 0.51
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (12 bp):
AAATAATAACAA
Found at i:56480 original size:15 final size:13
Alignment explanation
Indices: 56447--56487 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
56437 AAAACAAAAA
56447 TAATAT-TAATAT
1 TAATATATAATAT
56459 TAATATATAATAT
1 TAATATATAATAT
56472 GTAAGTATATAA-AT
1 -TAA-TATATAATAT
56486 TA
1 TA
56488 TGCCTCTAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.23
13 8 0.31
14 5 0.19
15 7 0.27
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (13 bp):
TAATATATAATAT
Found at i:56689 original size:23 final size:24
Alignment explanation
Indices: 56645--56702 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 24
56635 TCAAAAGCGT
56645 TTTTAAAAACTATATATTATATATG
1 TTTTAAAAACTATATA-TATATATG
*
56670 TTTTCAAAACTATATA-ATATATG
1 TTTTAAAAACTATATATATATATG
56693 TTTTTAAAAA
1 -TTTTAAAAA
56703 TGTTTTCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
23 7 0.23
24 8 0.27
25 15 0.50
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (24 bp):
TTTTAAAAACTATATATATATATG
Found at i:56707 original size:12 final size:12
Alignment explanation
Indices: 56690--56750 Score: 52
Period size: 12 Copynumber: 5.0 Consensus size: 12
56680 TATATAATAT
*
56690 ATGTTTTTAAAA
1 ATGTTTTCAAAA
56702 ATGTTTTCAAAA
1 ATGTTTTCAAAA
* * * *
56714 TTATATATT-ATAT
1 --ATGTTTTCAAAA
56727 ATGTTTTCAAAA
1 ATGTTTTCAAAA
56739 ATGTTTTCAAAA
1 ATGTTTTCAAAA
56751 CTATCTATTA
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
11 5 0.14
12 25 0.68
13 2 0.05
14 5 0.14
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.48
Consensus pattern (12 bp):
ATGTTTTCAAAA
Found at i:56730 original size:37 final size:37
Alignment explanation
Indices: 56667--56924 Score: 335
Period size: 37 Copynumber: 7.0 Consensus size: 37
56657 TATATTATAT
*
56667 ATGTTTTCAAAACTATATA--ATATATGTTTTTAAAA
1 ATGTTTTCAAAACTATATATTATATATGTTTTCAAAA
*
56702 ATGTTTTCAAAATTATATATTATATATGTTTTCAAAA
1 ATGTTTTCAAAACTATATATTATATATGTTTTCAAAA
*
56739 ATGTTTTCAAAACTATCTATTATATATGTTTTCAAAA
1 ATGTTTTCAAAACTATATATTATATATGTTTTCAAAA
* * * * *
56776 ATATTTCCAAAACTATATATTATATACGTTCTAAAAA
1 ATGTTTTCAAAACTATATATTATATATGTTTTCAAAA
* *
56813 ATGTTTACAAAAACTATATATTATATACGTTTTCAAAA
1 ATGTTTTC-AAAACTATATATTATATATGTTTTCAAAA
* *
56851 ATG-TTTCAAAAACTATATATTATATACGCTTTCAAAA
1 ATGTTTTC-AAAACTATATATTATATATGTTTTCAAAA
* * *
56888 ATGTTTTTAAAATTATATATTATATAT-ATTTCAAAA
1 ATGTTTTCAAAACTATATATTATATATGTTTTCAAAA
56924 A
1 A
56925 AATATTTTTA
Statistics
Matches: 199, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
35 18 0.09
36 9 0.05
37 139 0.70
38 33 0.17
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43
Consensus pattern (37 bp):
ATGTTTTCAAAACTATATATTATATATGTTTTCAAAA
Found at i:56738 original size:60 final size:61
Alignment explanation
Indices: 56606--56738 Score: 178
Period size: 60 Copynumber: 2.2 Consensus size: 61
56596 ATTTTAAAAA
** ** *
56606 ATGTTTTCAAAGTTATATGTTATATGTTTTCAAAAGCGTTTTTAAAAACTATATATTATAT
1 ATGTTTTCAAAACTATATAATATATGTTTTCAAAAACGTTTTTAAAAACTATATATTATAT
* * * *
56667 ATGTTTTCAAAACTATATAATATATGTTTTTAAAAATG-TTTTCAAAATTATATATTATAT
1 ATGTTTTCAAAACTATATAATATATGTTTTCAAAAACGTTTTTAAAAACTATATATTATAT
56727 ATGTTTTCAAAA
1 ATGTTTTCAAAA
56739 ATGTTTTCAA
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
60 32 0.51
61 31 0.49
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.47
Consensus pattern (61 bp):
ATGTTTTCAAAACTATATAATATATGTTTTCAAAAACGTTTTTAAAAACTATATATTATAT
Found at i:56765 original size:97 final size:96
Alignment explanation
Indices: 56597--56775 Score: 270
Period size: 97 Copynumber: 1.9 Consensus size: 96
56587 TTCAAAACTA
* *
56597 TTTTAAAAAATGTTTTCAAAGTTATATGTTATATGTTTTCAAAAGCGTTTTTAAAAACTATATAT
1 TTTTAAAAAATGTTTTCAAAATTATATGTTATATGTTTTCAAAAACGTTTTTAAAAACTATATAT
56662 TATATATGTTTTCAAAACTATATAATATATG
66 TATATATGTTTTCAAAACTATATAATATATG
* * * * *
56693 TTTTTAAAAATGTTTTCAAAATTATATATTATATATGTTTTCAAAAATG-TTTTCAAAACTATCT
1 TTTTAAAAAATGTTTTCAAAATTATAT-GT-TATATGTTTTCAAAAACGTTTTTAAAAACTATAT
56757 ATTATATATGTTTTCAAAA
64 ATTATATATGTTTTCAAAA
56776 ATATTTCCAA
Statistics
Matches: 74, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
96 25 0.34
97 33 0.45
98 16 0.22
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (96 bp):
TTTTAAAAAATGTTTTCAAAATTATATGTTATATGTTTTCAAAAACGTTTTTAAAAACTATATAT
TATATATGTTTTCAAAACTATATAATATATG
Found at i:56924 original size:112 final size:111
Alignment explanation
Indices: 56667--56925 Score: 328
Period size: 112 Copynumber: 2.3 Consensus size: 111
56657 TATATTATAT
* ** * * *
56667 ATGTTTTCAAAACTATATA--ATATATGTTTTTAAAAATGTTTTCAAAATTATATATTATATATG
1 ATGTTTTCAAAACTATATATTATATATATTTCAAAAAATGTTTACAAAACTATATATTATATACG
* * *
56730 TTTTCAAAAATGTTTTCAAAACTATCTATTATATATGTTTTCAAAA
66 TTTTCAAAAATGTTTTCAAAACTATATATTATATACGCTTTCAAAA
* * **
56776 ATATTTCCAAAACTATATATTATATA-CGTTCTAAAAAATGTTTACAAAAACTATATATTATATA
1 ATGTTTTCAAAACTATATATTATATATATTTC-AAAAAATGTTTAC-AAAACTATATATTATATA
56840 CGTTTTCAAAAATG-TTTCAAAAACTATATATTATATACGCTTTCAAAA
64 CGTTTTCAAAAATGTTTTC-AAAACTATATATTATATACGCTTTCAAAA
* *
56888 ATGTTTTTAAAATTATATATTATATATATTTCAAAAAA
1 ATGTTTTCAAAACTATATATTATATATATTTCAAAAAA
56926 ATATTTTTAA
Statistics
Matches: 126, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
109 17 0.13
110 2 0.02
111 20 0.16
112 84 0.67
113 3 0.02
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43
Consensus pattern (111 bp):
ATGTTTTCAAAACTATATATTATATATATTTCAAAAAATGTTTACAAAACTATATATTATATACG
TTTTCAAAAATGTTTTCAAAACTATATATTATATACGCTTTCAAAA
Found at i:56943 original size:75 final size:71
Alignment explanation
Indices: 56667--56924 Score: 291
Period size: 75 Copynumber: 3.5 Consensus size: 71
56657 TATATTATAT
* * * * * * * *
56667 ATGTTTTCAAAACTATATAATATATGTTTTTAAAAATGTTTTCAAAATTATATATTATATATGTT
1 ATGTTTTAAAAACTATATATTATATATTTTCAAAAATATTTCCAAAACTATATATTATATACG-T
56732 TTCAAAA
65 TTCAAAA
* *
56739 ATGTTTTCAAAACTATCTATTATATATGTTTTCAAAAATATTTCCAAAACTATATATTATATACG
1 ATGTTTTAAAAACTATATATTATATA--TTTTCAAAAATATTTCCAAAACTATATATTATATACG
*
56804 TTCTAAAAA
64 TT-TCAAAA
* * *
56813 ATGTTTACAAAAACTATATATTATATACGTTTTCAAAAATGTTTCAAAAACTATATATTATATAC
1 ATGTTT-TAAAAACTATATATTATATA--TTTTCAAAAATATTTCCAAAACTATATATTATATAC
56878 GCTTTCAAAA
63 G-TTTCAAAA
* *
56888 ATGTTTTTAAAATTATATATTATATATATTTCAAAAA
1 ATGTTTTAAAAACTATATATTATATAT-TTTCAAAAA
56925 AATATTTTTA
Statistics
Matches: 161, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
72 24 0.15
73 11 0.07
74 60 0.37
75 64 0.40
76 2 0.01
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43
Consensus pattern (71 bp):
ATGTTTTAAAAACTATATATTATATATTTTCAAAAATATTTCCAAAACTATATATTATATACGTT
TCAAAA
Found at i:65390 original size:2 final size:2
Alignment explanation
Indices: 65383--65419 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
65373 TGAGATACTA
65383 AT AT AT 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 AT AT AT A
65420 ACTAAATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:69889 original size:2 final size:2
Alignment explanation
Indices: 69882--69926 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
69872 TAATTAAGTT
69882 TA TA 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 TA TA
69924 TA T
1 TA T
69927 TCCCTTTTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:77064 original size:8 final size:8
Alignment explanation
Indices: 77051--77091 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
77041 CTCATTTTCA
77051 GAGAATTT
1 GAGAATTT
77059 GAGAATTT
1 GAGAATTT
*
77067 -AGAGTTT
1 GAGAATTT
*
77074 GGGAATTT
1 GAGAATTT
77082 GAGAATTT
1 GAGAATTT
77090 GA
1 GA
77092 AAGCTTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:77492 original size:128 final size:128
Alignment explanation
Indices: 77162--77793 Score: 1061
Period size: 128 Copynumber: 4.9 Consensus size: 128
77152 TAATCAGAGT
*
77162 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTTAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
* *
77227 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATAATCGGAG
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT----T
77292 T-
127 TC
* *
77293 ACTATTCACATGAAGGCGCGTTCCCGGGGGCACGCCTTCTATTATTTTGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
*
77358 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAATACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
77421 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
77486 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
* * *
77549 ACTATTCAGATGAAGACACGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
77614 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
* *** * * *
77677 TC-AGGGGACTTGAAGACGCGTTCCCGGGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTA
1 ACTA-TTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTA
77741 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
65 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
77794 AATCAGGTAA
Statistics
Matches: 479, Mismatches: 20, Indels: 7
0.95 0.04 0.01
Matches are distributed among these distances:
127 2 0.00
128 357 0.75
131 120 0.25
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.32
Consensus pattern (128 bp):
ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
Found at i:78433 original size:167 final size:165
Alignment explanation
Indices: 78156--78489 Score: 625
Period size: 167 Copynumber: 2.0 Consensus size: 165
78146 GTTCGACTTT
78156 CTCAATCAAAGTCTACGTCCACTACCTTAGCTATCCACACTAAGGATTTCCAACAAATTCACTAA
1 CTCAATCAAAG-CTACGTCCACTACCTTAGCTATCCACACTAAGGATTTCCAACAAATTCACTAA
78221 TTTGTTCTTCTTTGAGGCCAAAGAGATAACCTTACAACACCCTCAAAAATATACCCCAATTCTTG
65 TTTGTTCTTCTTTGAGGCCAAAGAGATAACCTTACAACACCCTCAAAAATATACCCCAATTCTTG
78286 AGAACACTCTTTCCCAAAGAGAAGATTACAAATTTG
130 AGAACACTCTTTCCCAAAGAGAAGATTACAAATTTG
78322 CTCAATCAAAG-TACGTCCACTACCTTAGCTATCCACACTAAGGATTTTCCAACAAATTCACTAA
1 CTCAATCAAAGCTACGTCCACTACCTTAGCTATCCACACTAAGGA-TTTCCAACAAATTCACTAA
78386 TTTGTTCTTTCTTTTGAGGCCAAAGAGATAACCTTACAACACCCTCAAAAATATACCCCAATTCT
65 TTTGTTC-TTC-TTTGAGGCCAAAGAGATAACCTTACAACACCCTCAAAAATATACCCCAATTCT
78451 TGAGAACACTCTTTCCCAAAGAGAAGATTACAAATTTG
128 TGAGAACACTCTTTCCCAAAGAGAAGATTACAAATTTG
78489 C
1 C
78490 AAACTTACAA
Statistics
Matches: 165, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
164 33 0.20
165 26 0.16
166 14 0.08
167 92 0.56
ACGTcount: A:0.35, C:0.26, G:0.10, T:0.28
Consensus pattern (165 bp):
CTCAATCAAAGCTACGTCCACTACCTTAGCTATCCACACTAAGGATTTCCAACAAATTCACTAAT
TTGTTCTTCTTTGAGGCCAAAGAGATAACCTTACAACACCCTCAAAAATATACCCCAATTCTTGA
GAACACTCTTTCCCAAAGAGAAGATTACAAATTTG
Found at i:79257 original size:15 final size:15
Alignment explanation
Indices: 79220--79249 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
79210 TCGAAATATC
*
79220 AAAATGCTTTCAACA
1 AAAATGTTTTCAACA
79235 AAAATGTTTTCAACA
1 AAAATGTTTTCAACA
79250 TATATGTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.17, G:0.07, T:0.30
Consensus pattern (15 bp):
AAAATGTTTTCAACA
Found at i:79420 original size:34 final size:34
Alignment explanation
Indices: 79376--79473 Score: 126
Period size: 34 Copynumber: 2.9 Consensus size: 34
79366 TTTAATGTTA
*
79376 AATTTT-GAATACTATAATTTATATTTTAAATTT
1 AATTTTCGAATAATATAATTTATATTTTAAATTT
* * * *
79409 AATTTTCGAATAATATTATTTTTATTTTTATTTT
1 AATTTTCGAATAATATAATTTATATTTTAAATTT
* *
79443 AAATTTCGAATAATATAATTTGTATTTTAAA
1 AATTTTCGAATAATATAATTTATATTTTAAA
79474 AACATTTATC
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
33 6 0.11
34 48 0.89
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.55
Consensus pattern (34 bp):
AATTTTCGAATAATATAATTTATATTTTAAATTT
Found at i:80022 original size:21 final size:20
Alignment explanation
Indices: 79995--80064 Score: 95
Period size: 21 Copynumber: 3.4 Consensus size: 20
79985 GGTATAAAAC
*
79995 CCTGCGGGCTAGGCATGTAA
1 CCTGCGGGCTAGGAATGTAA
80015 CCTGGCGGGCTAGGAATGTAA
1 CCT-GCGGGCTAGGAATGTAA
*
80036 CCCTGCGGGCTCGGAATGTAA
1 -CCTGCGGGCTAGGAATGTAA
80057 CCCTGCGG
1 -CCTGCGG
80065 AGATGGCATA
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
20 3 0.07
21 40 0.87
22 3 0.07
ACGTcount: A:0.19, C:0.27, G:0.36, T:0.19
Consensus pattern (20 bp):
CCTGCGGGCTAGGAATGTAA
Found at i:80094 original size:21 final size:21
Alignment explanation
Indices: 80068--80115 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
80058 CCTGCGGAGA
*
80068 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
80089 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
80110 GGGCAT
1 TGGCAT
80116 GTACCCGCGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:81885 original size:35 final size:32
Alignment explanation
Indices: 81844--81928 Score: 89
Period size: 32 Copynumber: 2.6 Consensus size: 32
81834 AATTCTAAAT
81844 AAATAATAATTATATAAATATTATTTTAATAAAAA
1 AAATAATAATTATATAAATA-TA--TTAATAAAAA
* * *
81879 AAATAATATTTACATAAATATATTAATATAAA
1 AAATAATAATTATATAAATATATTAATAAAAA
* * *
81911 ATATAATAACTATTTAAA
1 AAATAATAATTATATAAA
81929 AAAATACTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
32 22 0.52
34 2 0.05
35 18 0.43
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (32 bp):
AAATAATAATTATATAAATATATTAATAAAAA
Found at i:81905 original size:32 final size:34
Alignment explanation
Indices: 81844--81919 Score: 93
Period size: 35 Copynumber: 2.3 Consensus size: 34
81834 AATTCTAAAT
*
81844 AAATAATAATTATATAAATATTATTTTAATAAAAA
1 AAATAATAATTACATAAATATTA-TTTAATAAAAA
* *
81879 AAATAATATTTACATAAATA-TA-TTAATATAAA
1 AAATAATAATTACATAAATATTATTTAATAAAAA
*
81911 ATATAATAA
1 AAATAATAA
81920 CTATTTAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
32 16 0.44
34 2 0.06
35 18 0.50
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (34 bp):
AAATAATAATTACATAAATATTATTTAATAAAAA
Found at i:81944 original size:34 final size:34
Alignment explanation
Indices: 81872--81949 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 34
81862 TATTATTTTA
* * * *
81872 ATAAAAAAAATAATATTTACATAAATATATTAAT
1 ATAAAAATAATAATATTTACATAAAAATACTAAC
81906 ATAAAATATAATAACTATTTA-A-AAAAATACTAAC
1 ATAAAA-ATAATAA-TATTTACATAAAAATACTAAC
81940 ATAAAAATAA
1 ATAAAAATAA
81950 ATTTCTTACC
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
33 4 0.11
34 21 0.55
35 7 0.18
36 6 0.16
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (34 bp):
ATAAAAATAATAATATTTACATAAAAATACTAAC
Found at i:82175 original size:50 final size:50
Alignment explanation
Indices: 82121--82223 Score: 152
Period size: 50 Copynumber: 2.1 Consensus size: 50
82111 GCATTTAATG
* * *
82121 GAAGGCGCGTCCCCAGGGATGCGCTTTCCACAAGTGGCAGCCGAGTCAGT
1 GAAGGCGCGTCCCCAGGGATGCGCCTTCCACAAGTGGCAGCCAACTCAGT
* * *
82171 GAAGGCGCGTCTCCGGGGATGCGCCTTCCACATGTGGCAGCCAACTCAGT
1 GAAGGCGCGTCCCCAGGGATGCGCCTTCCACAAGTGGCAGCCAACTCAGT
82221 GAA
1 GAA
82224 AACACAGGTA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.20, C:0.30, G:0.33, T:0.17
Consensus pattern (50 bp):
GAAGGCGCGTCCCCAGGGATGCGCCTTCCACAAGTGGCAGCCAACTCAGT
Found at i:84692 original size:5 final size:5
Alignment explanation
Indices: 84682--84708 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
84672 ATGGTCTCCT
84682 TTTTC TTTTC TTTTC TTTTC TTTTC TT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TT
84709 CCATTGTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:89501 original size:27 final size:27
Alignment explanation
Indices: 89463--89515 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
89453 CACATTTTAA
*
89463 TTAAATAAAAATAAAAGTTATCAAATC
1 TTAAATAAAAATAAAAGTTACCAAATC
*
89490 TTAAATAAAAATGAAAGTTACCAAAT
1 TTAAATAAAAATAAAAGTTACCAAAT
89516 ATTATGTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.58, C:0.08, G:0.06, T:0.28
Consensus pattern (27 bp):
TTAAATAAAAATAAAAGTTACCAAATC
Found at i:89696 original size:22 final size:23
Alignment explanation
Indices: 89671--89728 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
89661 TTAATGTGGA
*
89671 GTCAATTTTTTTATTAAAGG-GT
1 GTCAATTTTTTTATGAAAGGAGT
**
89693 GTCAAAACTTTTTA-GAAAGGAGT
1 GTC-AATTTTTTTATGAAAGGAGT
89716 GTC-ATTTTTTTAT
1 GTCAATTTTTTTAT
89729 ATTATATTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
21 7 0.25
22 8 0.29
23 13 0.46
ACGTcount: A:0.29, C:0.07, G:0.17, T:0.47
Consensus pattern (23 bp):
GTCAATTTTTTTATGAAAGGAGT
Found at i:95706 original size:9 final size:9
Alignment explanation
Indices: 95692--95716 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
95682 CTAAAGCTAA
95692 ATAATATAT
1 ATAATATAT
95701 ATAATATAT
1 ATAATATAT
95710 ATAATAT
1 ATAATAT
95717 TTAATAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
ATAATATAT
Found at i:109602 original size:24 final size:24
Alignment explanation
Indices: 109575--109631 Score: 114
Period size: 24 Copynumber: 2.4 Consensus size: 24
109565 GCTTCTTTTG
109575 CAGCTTCAGCCGCTGCCATGTACT
1 CAGCTTCAGCCGCTGCCATGTACT
109599 CAGCTTCAGCCGCTGCCATGTACT
1 CAGCTTCAGCCGCTGCCATGTACT
109623 CAGCTTCAG
1 CAGCTTCAG
109632 TTGTAGATAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.18, C:0.37, G:0.21, T:0.25
Consensus pattern (24 bp):
CAGCTTCAGCCGCTGCCATGTACT
Found at i:119007 original size:31 final size:31
Alignment explanation
Indices: 118969--119031 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
118959 ATTTACGAGT
*
118969 TCTCTTGTTAACATTAACTTGGGAATTGGGA
1 TCTCTTGTTAACAGTAACTTGGGAATTGGGA
119000 TCTCTTGTTAACAGTAACTTGGGAATTGGGA
1 TCTCTTGTTAACAGTAACTTGGGAATTGGGA
119031 T
1 T
119032 AGAGGTCAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.38
Consensus pattern (31 bp):
TCTCTTGTTAACAGTAACTTGGGAATTGGGA
Found at i:119959 original size:13 final size:11
Alignment explanation
Indices: 119909--119962 Score: 51
Period size: 11 Copynumber: 4.8 Consensus size: 11
119899 ATTGTCTTTA
119909 TAATTTATATTT
1 TAATTTA-ATTT
119921 T-A-TTAA-TT
1 TAATTTAATTT
119929 TAATATTAATTT
1 TAAT-TTAATTT
119941 TAATTTAATTT
1 TAATTTAATTT
119952 CATAATTTAAT
1 --TAATTTAAT
119963 GTTGCAATCA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
8 3 0.08
9 2 0.06
10 3 0.08
11 12 0.33
12 7 0.19
13 9 0.25
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (11 bp):
TAATTTAATTT
Found at i:134610 original size:14 final size:14
Alignment explanation
Indices: 134593--134629 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
134583 TGACACTCTA
134593 TCTCTCTCTAACTC
1 TCTCTCTCTAACTC
134607 TCTCTCTCTAACTC
1 TCTCTCTCTAACTC
134621 TCTCTCTCT
1 TCTCTCTCT
134630 CCATGAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.11, C:0.43, G:0.00, T:0.46
Consensus pattern (14 bp):
TCTCTCTCTAACTC
Found at i:134630 original size:16 final size:16
Alignment explanation
Indices: 134587--134630 Score: 65
Period size: 14 Copynumber: 2.9 Consensus size: 16
134577 CCTCTCTGAC
*
134587 ACTCTATCTCTCTCTA
1 ACTCTCTCTCTCTCTA
134603 A--CTCTCTCTCTCTA
1 ACTCTCTCTCTCTCTA
134617 ACTCTCTCTCTCTC
1 ACTCTCTCTCTCTC
134631 CATGAATTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 13 0.52
16 12 0.48
ACGTcount: A:0.14, C:0.43, G:0.00, T:0.43
Consensus pattern (16 bp):
ACTCTCTCTCTCTCTA
Found at i:139926 original size:30 final size:30
Alignment explanation
Indices: 139883--139964 Score: 101
Period size: 30 Copynumber: 2.7 Consensus size: 30
139873 GGGACCTCGT
* * *
139883 TCCCCTTTTTGACATCTGTATGGGATAAAC
1 TCCCCGTTCTGACATCTGCATGGGATAAAC
*
139913 TCCCCGTTCTGACATCTGCATGGGATAAAT
1 TCCCCGTTCTGACATCTGCATGGGATAAAC
* * *
139943 TTCCCGTACTAACATCTGCATG
1 TCCCCGTTCTGACATCTGCATG
139965 AGATTATATC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.33
Consensus pattern (30 bp):
TCCCCGTTCTGACATCTGCATGGGATAAAC
Found at i:140705 original size:21 final size:21
Alignment explanation
Indices: 140679--140753 Score: 123
Period size: 21 Copynumber: 3.6 Consensus size: 21
140669 GTTTCCAGAT
*
140679 TCGCAACGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
140700 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
*
140721 TCGCAATGCGAACTTGGATTA
1 TCGCAATGCGAACTTGGACTA
*
140742 TTGCAATGCGAA
1 TCGCAATGCGAA
140754 TATGTAAATC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (21 bp):
TCGCAATGCGAACTTGGACTA
Found at i:140792 original size:21 final size:21
Alignment explanation
Indices: 140762--140896 Score: 127
Period size: 21 Copynumber: 6.6 Consensus size: 21
140752 AATATGTAAA
*
140762 TCGCAATGCGATAGTCAAAGT
1 TCGCATTGCGATAGTCAAAGT
*
140783 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCAAAGT
* *
140804 TCGCATTGCGAT-TTACATA-T
1 TCGCATTGCGATAGT-CAAAGT
*
140824 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCAAAGT
* **
140845 TCGCGTTGCGATTTTCCAAA-T
1 TCGCATTGCGATAGT-CAAAGT
*
140866 TCG--TTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCAAAGT
*
140885 TCGCGTTGCGAT
1 TCGCATTGCGAT
140897 TTATTCTAAA
Statistics
Matches: 92, Mismatches: 15, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
18 3 0.03
19 12 0.13
20 16 0.17
21 58 0.63
22 3 0.03
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (21 bp):
TCGCATTGCGATAGTCAAAGT
Found at i:140827 original size:41 final size:41
Alignment explanation
Indices: 140777--140924 Score: 178
Period size: 41 Copynumber: 3.6 Consensus size: 41
140767 ATGCGATAGT
*
140777 CAAAGTTCGCATTGCGATAGTCCAAGTTCGCATTGCGATTTA
1 CAAA-TTCGCATTGCGATAGTCCAAGTTCGCGTTGCGATTTA
* *
140819 CATATTCGCATTGCGATAGTCCAAGTTCGCGTTGCGATTTTC
1 CAAATTCGCATTGCGATAGTCCAAGTTCGCGTTGCGA-TTTA
*
140861 CAAATTCG--TTGCGATAGTCGAAGTTCGCGTTGCGATTTA
1 CAAATTCGCATTGCGATAGTCCAAGTTCGCGTTGCGATTTA
*
140900 TTCTAAATT--CATTGCAATAGTCCAA
1 --C-AAATTCGCATTGCGATAGTCCAA
140925 AATCGCAACG
Statistics
Matches: 92, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
39 3 0.03
40 26 0.28
41 33 0.36
42 30 0.33
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (41 bp):
CAAATTCGCATTGCGATAGTCCAAGTTCGCGTTGCGATTTA
Found at i:141025 original size:6 final size:6
Alignment explanation
Indices: 141014--141051 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
141004 GACACGTATT
141014 ACCACG ACCACG ACCACG ACCACG ACCACG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
141052 TGAGACGAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.16
6 27 0.84
ACGTcount: A:0.32, C:0.53, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:141701 original size:42 final size:42
Alignment explanation
Indices: 141645--141865 Score: 352
Period size: 42 Copynumber: 5.3 Consensus size: 42
141635 TGCGATTTTG
* *
141645 GACTATTGCAACGAACTTGGAATAAATCGCAACGCGAACTTG
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTA
* *
141687 GACTATCTCAACGAACTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTA
*
141729 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAGCTTA
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTA
* * * *
141771 GACTATCGCAATGAATTTGAAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTA
*
141813 GACTATCGCAACGAACTTGGAATAAATCGCAACGTGAACTTA
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTA
141855 GACTATCGCAA
1 GACTATCGCAA
141866 TGCGAATATG
Statistics
Matches: 163, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 163 1.00
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (42 bp):
GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTA
Found at i:146215 original size:20 final size:20
Alignment explanation
Indices: 146190--146283 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
146180 AATTGGGAAA
*
146190 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTTACT
* * *
146210 ATCGCAATGCGATA-ATACAAA
1 ATCGCAACGCGATACTTAC--T
*
146231 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTTACT
* *
146251 TTCGCAACGCGATACTAACT
1 ATCGCAACGCGATACTTACT
*
146271 TTCGCAACGCGAT
1 ATCGCAACGCGAT
146284 TTACATAATC
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
19 3 0.05
20 44 0.71
21 12 0.19
22 3 0.05
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTTACT
Found at i:146232 original size:41 final size:41
Alignment explanation
Indices: 146187--146264 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
146177 GCGAATTGGG
* * *
146187 AAAATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTTACTATCGCAACGCGATAATAC
*
146228 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATA
1 AAAATCGCAACGAGATACTTACTATCGCAACGCGATA
146265 CTAACTTTCG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTTACTATCGCAACGCGATAATAC
Found at i:146493 original size:22 final size:22
Alignment explanation
Indices: 146465--146508 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
146455 CTCACTCTCA
146465 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
146487 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
146509 TATCTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:148049 original size:17 final size:18
Alignment explanation
Indices: 148013--148056 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
148003 TCCACTTCGG
*
148013 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
148031 GAGCTATCACC-CACCCA
1 GAGCCATCACCTCACCCA
148048 GAGCCATCA
1 GAGCCATCA
148057 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.27, C:0.45, G:0.16, T:0.11
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Done.