Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015230.1 Kokia drynarioides strain JFW-HI SEQ_130275, 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: 302659
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 863 characters in sequence are not A, C, G, or T
Found at i:1106 original size:17 final size:18
Alignment explanation
Indices: 1084--1117 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1074 GCTCTACTTG
*
1084 GGTTTTAGTTTT-TTCTT
1 GGTTTTACTTTTGTTCTT
1101 GGTTTTACTTTTGTTCT
1 GGTTTTACTTTTGTTCT
1118 GTTTACATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.06, C:0.09, G:0.18, T:0.68
Consensus pattern (18 bp):
GGTTTTACTTTTGTTCTT
Found at i:1824 original size:75 final size:76
Alignment explanation
Indices: 1745--2099 Score: 551
Period size: 76 Copynumber: 4.7 Consensus size: 76
1735 ACACATGCTA
*
1745 TCTGTATCTTCAGTTCATAAACATCCCAA-AAACCATAGAGATTCAAACACAAAACCA-CACACA
1 TCTGTATCTTCAGTTCATAAACATCCCAATAAACCATTGAGATTCAAACACAAAACCATCACACA
* *
1808 ACAGGTATACTG
66 A-AAGCATACTG
* *
1820 TCTGTATCTTCAGTTCATAAACATCCCAATAGACCATTGAGATGCAAACAC--AACCATCACACA
1 TCTGTATCTTCAGTTCATAAACATCCCAATAAACCATTGAGATTCAAACACAAAACCATCACACA
1883 AACA-CATACTG
66 AA-AGCATACTG
* *
1894 TCTGTATCTTCGGTTCATAAACATCCCAATAAACCATTGAGATTCAAGCACAAAACCATCACACA
1 TCTGTATCTTCAGTTCATAAACATCCCAATAAACCATTGAGATTCAAACACAAAACCATCACACA
*
1959 AAAACATACTG
66 AAAGCATACTG
* *
1970 TCTGTACCTTCAGTTCATAAACATCCCAATAAACCATTGAGATTCAAACATAAAACCATCACACA
1 TCTGTATCTTCAGTTCATAAACATCCCAATAAACCATTGAGATTCAAACACAAAACCATCACACA
2035 AAAG-ATACTG
66 AAAGCATACTG
*
2045 TCTGTATCTTCAGTTCATAAACATCCCAATAAACCATTGAGATTTAAACACAAAA
1 TCTGTATCTTCAGTTCATAAACATCCCAATAAACCATTGAGATTCAAACACAAAA
2100 ACATACTGTC
Statistics
Matches: 257, Mismatches: 17, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
74 59 0.23
75 95 0.37
76 103 0.40
ACGTcount: A:0.41, C:0.26, G:0.09, T:0.24
Consensus pattern (76 bp):
TCTGTATCTTCAGTTCATAAACATCCCAATAAACCATTGAGATTCAAACACAAAACCATCACACA
AAAGCATACTG
Found at i:1988 original size:76 final size:76
Alignment explanation
Indices: 1729--2099 Score: 554
Period size: 75 Copynumber: 4.9 Consensus size: 76
1719 TGATAATAAC
* * *
1729 CACAAAACACATGCTATCTGTATCTTCAGTTCATAAACATCCCAA-AAACCATAGAGATTCAAAC
1 CACAAAA-ACATACTGTCTGTATCTTCAGTTCATAAACATCCCAATAAACCATTGAGATTCAAAC
1793 ACAAAACCA-CA
65 ACAAAACCATCA
*** * *
1804 CACAACAGGTATACTGTCTGTATCTTCAGTTCATAAACATCCCAATAGACCATTGAGATGCAAAC
1 CACAA-AAACATACTGTCTGTATCTTCAGTTCATAAACATCCCAATAAACCATTGAGATTCAAAC
1869 AC--AACCATCA
65 ACAAAACCATCA
* * *
1879 CACAAACACATACTGTCTGTATCTTCGGTTCATAAACATCCCAATAAACCATTGAGATTCAAGCA
1 CACAAAAACATACTGTCTGTATCTTCAGTTCATAAACATCCCAATAAACCATTGAGATTCAAACA
1944 CAAAACCATCA
66 CAAAACCATCA
*
1955 CACAAAAACATACTGTCTGTACCTTCAGTTCATAAACATCCCAATAAACCATTGAGATTCAAACA
1 CACAAAAACATACTGTCTGTATCTTCAGTTCATAAACATCCCAATAAACCATTGAGATTCAAACA
*
2020 TAAAACCATCA
66 CAAAACCATCA
* *
2031 CAC-AAAAGATACTGTCTGTATCTTCAGTTCATAAACATCCCAATAAACCATTGAGATTTAAACA
1 CACAAAAACATACTGTCTGTATCTTCAGTTCATAAACATCCCAATAAACCATTGAGATTCAAACA
2095 CAAAA
66 CAAAA
2100 ACATACTGTC
Statistics
Matches: 267, Mismatches: 24, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
74 59 0.22
75 107 0.40
76 101 0.38
ACGTcount: A:0.42, C:0.26, G:0.09, T:0.23
Consensus pattern (76 bp):
CACAAAAACATACTGTCTGTATCTTCAGTTCATAAACATCCCAATAAACCATTGAGATTCAAACA
CAAAACCATCA
Found at i:2108 original size:63 final size:63
Alignment explanation
Indices: 2029--2162 Score: 207
Period size: 63 Copynumber: 2.1 Consensus size: 63
2019 ATAAAACCAT
* *
2029 CACACAAAAGATACTGTCTGTATCTTCAGTTCATAAACATCCCAATAAACCATTGAGATT-TAAA
1 CACA-AAAACATACTGTCTGTATCTTCAGCTCATAAACATCCCAATAAACCATTGAGATTCT-AA
* *
2093 CACAAAAACATACTGTCTGTATCTTTAGCTCGTAAACATCCCAATAAACCATTGAGATTCTAA
1 CACAAAAACATACTGTCTGTATCTTCAGCTCATAAACATCCCAATAAACCATTGAGATTCTAA
2156 CACAAAA
1 CACAAAA
2163 CCATCACATA
Statistics
Matches: 65, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
63 60 0.92
64 5 0.08
ACGTcount: A:0.41, C:0.23, G:0.09, T:0.27
Consensus pattern (63 bp):
CACAAAAACATACTGTCTGTATCTTCAGCTCATAAACATCCCAATAAACCATTGAGATTCTAA
Found at i:2206 original size:138 final size:139
Alignment explanation
Indices: 1954--2220 Score: 430
Period size: 138 Copynumber: 1.9 Consensus size: 139
1944 CAAAACCATC
*
1954 ACACAAAAACATACTGTCTGTACCTTCAGTTCATAAACATCCCAATAAACCATTGAGATTCAAAC
1 ACACAAAAACATACTGTCTGTACCTTCAGCTCATAAACATCCCAATAAACCATTGAGATTCAAAC
*
2019 ATAAAACCATCACACAAAAGATACTGTCTGTATCTTCAGTTCATAAACATCC-CAATAAACCATT
66 ACAAAACCATCACACAAAAGATACTGTCTGTATCTTCAGTTCATAAACATCCTCAATAAACCATT
2083 GAGATTTAA
131 GAGATTTAA
* * * *
2092 ACACAAAAACATACTGTCTGTATCTTTAGCTCGTAAACATCCCAATAAACCATTGAGATTCTAAC
1 ACACAAAAACATACTGTCTGTACCTTCAGCTCATAAACATCCCAATAAACCATTGAGATTCAAAC
* * *
2157 ACAAAACCATCACATAAACAG-TACTGTTTGTATCTTCAGTTCATCAACATCCTCAATAAACCAT
66 ACAAAACCATCACACAAA-AGATACTGTCTGTATCTTCAGTTCATAAACATCCTCAATAAACCAT
2221 GTACAATGTA
Statistics
Matches: 118, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
138 105 0.89
139 13 0.11
ACGTcount: A:0.40, C:0.25, G:0.08, T:0.27
Consensus pattern (139 bp):
ACACAAAAACATACTGTCTGTACCTTCAGCTCATAAACATCCCAATAAACCATTGAGATTCAAAC
ACAAAACCATCACACAAAAGATACTGTCTGTATCTTCAGTTCATAAACATCCTCAATAAACCATT
GAGATTTAA
Found at i:2349 original size:42 final size:42
Alignment explanation
Indices: 2290--2415 Score: 162
Period size: 42 Copynumber: 3.0 Consensus size: 42
2280 AGCTTCTGTA
* * * *
2290 GGTTTTCTTCTAACTCAGCTTTGTCCTTCTCCAGCATCAGTT
1 GGTTTTCTTTTAACTCAGCTTCGCCCTTCTCCACCATCAGTT
*
2332 GGTTTTCTTTTAACTCAGCTTCGCCCTTCTCCACCTTCAGTT
1 GGTTTTCTTTTAACTCAGCTTCGCCCTTCTCCACCATCAGTT
* * * * *
2374 TGTTTTCTTTTAAATCAGCTTCTCCATTCTCCACCTTCAGTT
1 GGTTTTCTTTTAACTCAGCTTCGCCCTTCTCCACCATCAGTT
2416 CGCCTTTTCT
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 75 1.00
ACGTcount: A:0.14, C:0.30, G:0.11, T:0.44
Consensus pattern (42 bp):
GGTTTTCTTTTAACTCAGCTTCGCCCTTCTCCACCATCAGTT
Found at i:2436 original size:42 final size:42
Alignment explanation
Indices: 2294--2436 Score: 110
Period size: 42 Copynumber: 3.4 Consensus size: 42
2284 TCTGTAGGTT
* * * * * **
2294 TTCTTCTAACTCAGCTTTGTCC-TTCTCCAGCATCAGTTGGTT
1 TTCTTCTAAATCAGCTTCG-CCATTCTCCACCTTCAGTTCGCC
* * * * **
2336 TTCTTTTAACTCAGCTTCGCCCTTCTCCACCTTCAGTTTGTT
1 TTCTTCTAAATCAGCTTCGCCATTCTCCACCTTCAGTTCGCC
* *
2378 TTCTTTTAAATCAGCTTCTCCATTCTCCACCTTCAGTTCGCC
1 TTCTTCTAAATCAGCTTCGCCATTCTCCACCTTCAGTTCGCC
*
2420 TT-TTCTAATATTAGCTT
1 TTCTTCTAA-ATCAGCTT
2437 TGTTCTTCTT
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
41 7 0.08
42 79 0.92
ACGTcount: A:0.15, C:0.30, G:0.10, T:0.45
Consensus pattern (42 bp):
TTCTTCTAAATCAGCTTCGCCATTCTCCACCTTCAGTTCGCC
Found at i:3520 original size:17 final size:17
Alignment explanation
Indices: 3498--3531 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
3488 ATTAAATAAT
3498 TTTTTTATAA-ATGTTTA
1 TTTTTTA-AATATGTTTA
3515 TTTTTTAAATATGTTTA
1 TTTTTTAAATATGTTTA
3532 GGGTTTAGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (17 bp):
TTTTTTAAATATGTTTA
Found at i:10332 original size:4 final size:4
Alignment explanation
Indices: 10323--10353 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
10313 CTCTGCAATA
10323 TATC TATC TATC TATC TATC TATC TATC TAT
1 TATC TATC TATC TATC TATC TATC TATC TAT
10354 ATATATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.23, G:0.00, T:0.52
Consensus pattern (4 bp):
TATC
Found at i:12626 original size:2 final size:2
Alignment explanation
Indices: 12619--12643 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
12609 TTATTTCTTT
12619 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
12644 TAGTTAATAA
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:18410 original size:18 final size:17
Alignment explanation
Indices: 18376--18413 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
18366 GTAAAAATAC
18376 AATTTTATTATTTTAAT
1 AATTTTATTATTTTAAT
*
18393 AA-TTTA-TATTTTTAT
1 AATTTTATTATTTTAAT
18408 AATTTT
1 AATTTT
18414 TAAAAGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 10 0.53
16 7 0.37
17 2 0.11
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
AATTTTATTATTTTAAT
Found at i:22544 original size:2 final size:2
Alignment explanation
Indices: 22537--22566 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
22527 CAGCCTCATT
22537 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
22567 AGCATAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:25572 original size:15 final size:15
Alignment explanation
Indices: 25552--25588 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
25542 AACAAAAAAT
*
25552 AATATAAACGACTAA
1 AATATAAACAACTAA
*
25567 AATATAAATAACTAA
1 AATATAAACAACTAA
25582 AATATAA
1 AATATAA
25589 TATGAGACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.65, C:0.08, G:0.03, T:0.24
Consensus pattern (15 bp):
AATATAAACAACTAA
Found at i:26250 original size:6 final size:6
Alignment explanation
Indices: 26229--26265 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
26219 GTCATGAAGG
26229 AAAGC- AAAGC- AAAGCA AAAGCA AAAGCA AAAGCA AAA
1 AAAGCA AAAGCA AAAGCA AAAGCA AAAGCA AAAGCA AAA
26266 TGCCAAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 10 0.32
6 21 0.68
ACGTcount: A:0.68, C:0.16, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAGCA
Found at i:28053 original size:2 final size:2
Alignment explanation
Indices: 28046--28072 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
28036 TCCTCTCACT
28046 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
28073 GTAAGAATCT
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:29607 original size:1 final size:1
Alignment explanation
Indices: 29603--29628 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
29593 NNNNNNNNNN
29603 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
29629 GATAAAAGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:30119 original size:7 final size:7
Alignment explanation
Indices: 30107--30145 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
30097 AATGGCTCTC
30107 GTGAGTG
1 GTGAGTG
30114 GTGAGTG
1 GTGAGTG
30121 GTGAGTG
1 GTGAGTG
30128 GTGAGTG
1 GTGAGTG
30135 GTGAGTG
1 GTGAGTG
30142 GTGA
1 GTGA
30146 CCACCCTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.15, C:0.00, G:0.56, T:0.28
Consensus pattern (7 bp):
GTGAGTG
Found at i:30206 original size:8 final size:8
Alignment explanation
Indices: 30195--30229 Score: 70
Period size: 8 Copynumber: 4.4 Consensus size: 8
30185 AAGTAAAACG
30195 GAATGGAT
1 GAATGGAT
30203 GAATGGAT
1 GAATGGAT
30211 GAATGGAT
1 GAATGGAT
30219 GAATGGAT
1 GAATGGAT
30227 GAA
1 GAA
30230 AAGCATGAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.40, C:0.00, G:0.37, T:0.23
Consensus pattern (8 bp):
GAATGGAT
Found at i:34141 original size:2 final size:2
Alignment explanation
Indices: 34134--34165 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
34124 GTTAAAACTC
34134 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
34166 TACAATTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:51973 original size:18 final size:17
Alignment explanation
Indices: 51952--52028 Score: 68
Period size: 17 Copynumber: 4.5 Consensus size: 17
51942 TAGCAAATCC
51952 GCGAGCTCACCCAAAGTT
1 GCGAGCTCA-CCAAAGTT
*
51970 GCGAGTTCACCAAA-TCT
1 GCGAGCTCACCAAAGT-T
* *
51987 TCAAGCTCACCAAAGTT
1 GCGAGCTCACCAAAGTT
* *
52004 GCGGAG-TTACCAAAGGT
1 GC-GAGCTCACCAAAGTT
52021 GCGAGCTC
1 GCGAGCTC
52029 TATTACGCAA
Statistics
Matches: 46, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
16 4 0.09
17 31 0.67
18 11 0.24
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.19
Consensus pattern (17 bp):
GCGAGCTCACCAAAGTT
Found at i:52028 original size:34 final size:35
Alignment explanation
Indices: 51952--52028 Score: 95
Period size: 34 Copynumber: 2.2 Consensus size: 35
51942 TAGCAAATCC
*
51952 GCGAGCTCACCCAAAGTTGCGAGTTCACCAAATCT
1 GCGAGCTCACCCAAAGTTGCGAGTTCACCAAAGCT
* * *
51987 TCAAGCTCA-CCAAAGTTGCGGAGTT-ACCAAAGGT
1 GCGAGCTCACCCAAAGTTGC-GAGTTCACCAAAGCT
52021 GCGAGCTC
1 GCGAGCTC
52029 TATTACGCAA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
34 23 0.66
35 12 0.34
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.19
Consensus pattern (35 bp):
GCGAGCTCACCCAAAGTTGCGAGTTCACCAAAGCT
Found at i:63571 original size:21 final size:21
Alignment explanation
Indices: 63529--63571 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
63519 CTATTCCTAG
*
63529 ACTGAAGGATATACGATGGCA
1 ACTGAAGGAAATACGATGGCA
*
63550 ACTGAAGAGAAATA-GATTGCA
1 ACTGAAG-GAAATACGATGGCA
63571 A
1 A
63572 TCAACTATGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.44, C:0.12, G:0.26, T:0.19
Consensus pattern (21 bp):
ACTGAAGGAAATACGATGGCA
Found at i:79428 original size:2 final size:2
Alignment explanation
Indices: 79421--79454 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
79411 GGCTCTACTT
79421 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
79455 AAAAAGCCAC
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:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:79781 original size:17 final size:17
Alignment explanation
Indices: 79761--79803 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
79751 AATACATAAT
79761 ATTATTATAATGTAAAC
1 ATTATTATAATGTAAAC
** * *
79778 ATTAAAATAATGTTAAG
1 ATTATTATAATGTAAAC
79795 ATTATTATA
1 ATTATTATA
79804 TAAAAAATTT
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (17 bp):
ATTATTATAATGTAAAC
Found at i:79861 original size:17 final size:17
Alignment explanation
Indices: 79839--79876 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
79829 TATAAATTAT
79839 TAAATA-TTAAAATAAAA
1 TAAATATTTAAAA-AAAA
*
79856 TAAATATTTTAAAAAAA
1 TAAATATTTAAAAAAAA
79873 TAAA
1 TAAA
79877 AAAATAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
TAAATATTTAAAAAAAA
Found at i:80135 original size:12 final size:12
Alignment explanation
Indices: 80118--80157 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
80108 TAAAGTTTAA
80118 ATATTTAAAATT
1 ATATTTAAAATT
*
80130 ATATTTCTAAAAAT
1 ATA-TT-TAAAATT
80144 ATATTTAAAATT
1 ATATTTAAAATT
80156 AT
1 AT
80158 GGAATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 11 0.46
13 4 0.17
14 9 0.38
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (12 bp):
ATATTTAAAATT
Found at i:81329 original size:17 final size:17
Alignment explanation
Indices: 81304--81353 Score: 82
Period size: 17 Copynumber: 2.9 Consensus size: 17
81294 AAAGTAGACG
*
81304 AAAACGTGCCATAAGGC
1 AAAAGGTGCCATAAGGC
81321 AAAAGGTGCCATAAGGC
1 AAAAGGTGCCATAAGGC
*
81338 AAAAGGTGCCACAAGG
1 AAAAGGTGCCATAAGG
81354 TAGAAGCGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.42, C:0.20, G:0.28, T:0.10
Consensus pattern (17 bp):
AAAAGGTGCCATAAGGC
Found at i:81366 original size:18 final size:17
Alignment explanation
Indices: 81304--81370 Score: 80
Period size: 17 Copynumber: 3.9 Consensus size: 17
81294 AAAGTAGACG
* *
81304 AAAACGTGCCATAAGGC
1 AAAAGGTGCCACAAGGC
*
81321 AAAAGGTGCCATAAGGC
1 AAAAGGTGCCACAAGGC
*
81338 AAAAGGTGCCACAAGGT
1 AAAAGGTGCCACAAGGC
*
81355 AGAAGCGTGCCACAAG
1 AAAAG-GTGCCACAAG
81371 ACAGAGAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
17 35 0.78
18 10 0.22
ACGTcount: A:0.40, C:0.21, G:0.28, T:0.10
Consensus pattern (17 bp):
AAAAGGTGCCACAAGGC
Found at i:82529 original size:21 final size:21
Alignment explanation
Indices: 82503--82542 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
82493 CATGAAATTG
82503 TTCTTGAGGTCTCGAGACATA
1 TTCTTGAGGTCTCGAGACATA
*
82524 TTCTTGATGTCTCGAGACA
1 TTCTTGAGGTCTCGAGACA
82543 CATGTCTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.35
Consensus pattern (21 bp):
TTCTTGAGGTCTCGAGACATA
Found at i:84694 original size:2 final size:2
Alignment explanation
Indices: 84687--84714 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
84677 CATGATTAAA
84687 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
84715 TTAATTAATA
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:96543 original size:16 final size:16
Alignment explanation
Indices: 96495--96544 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
96485 TAAACCTAGC
*
96495 TAATTAATTAACAAAA
1 TAATTAATTATCAAAA
*
96511 T-A-TAA-TATAAAAGA
1 TAATTAATTATCAAA-A
96525 TAATTAATTATCAAAA
1 TAATTAATTATCAAAA
96541 TAAT
1 TAAT
96545 ATCCCCACTT
Statistics
Matches: 27, Mismatches: 3, Indels: 8
0.71 0.08 0.21
Matches are distributed among these distances:
13 5 0.19
14 5 0.19
15 2 0.07
16 9 0.33
17 6 0.22
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (16 bp):
TAATTAATTATCAAAA
Found at i:97679 original size:6 final size:6
Alignment explanation
Indices: 97668--97692 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
97658 AGCAGCAGAC
97668 GAGAGG GAGAGG GAGAGG GAGAGG G
1 GAGAGG GAGAGG GAGAGG GAGAGG G
97693 GACGGTGGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (6 bp):
GAGAGG
Found at i:105060 original size:48 final size:48
Alignment explanation
Indices: 104989--105087 Score: 198
Period size: 48 Copynumber: 2.1 Consensus size: 48
104979 GGTAAGCATA
104989 AGTGAACATTAAAAGATCCTTTCTGATATGCAGAAAACAGAAGACATT
1 AGTGAACATTAAAAGATCCTTTCTGATATGCAGAAAACAGAAGACATT
105037 AGTGAACATTAAAAGATCCTTTCTGATATGCAGAAAACAGAAGACATT
1 AGTGAACATTAAAAGATCCTTTCTGATATGCAGAAAACAGAAGACATT
105085 AGT
1 AGT
105088 TCAGAGAAGA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.25
Consensus pattern (48 bp):
AGTGAACATTAAAAGATCCTTTCTGATATGCAGAAAACAGAAGACATT
Found at i:107269 original size:29 final size:29
Alignment explanation
Indices: 107235--107293 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
107225 CTGCATAGCT
107235 GGAGATAGAAAAGTATTTATGCATAATAA
1 GGAGATAGAAAAGTATTTATGCATAATAA
107264 GGAGATAGAAAAGTATTTATGCATAATAA
1 GGAGATAGAAAAGTATTTATGCATAATAA
107293 G
1 G
107294 ACCAAGAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.22, T:0.27
Consensus pattern (29 bp):
GGAGATAGAAAAGTATTTATGCATAATAA
Found at i:112362 original size:11 final size:11
Alignment explanation
Indices: 112346--112384 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
112336 ACCCAAATCT
112346 TTGATCGACCG
1 TTGATCGACCG
**
112357 TTGATCGAGTG
1 TTGATCGACCG
*
112368 TTGATCAACCG
1 TTGATCGACCG
112379 TTGATC
1 TTGATC
112385 ATTGACTGTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.33
Consensus pattern (11 bp):
TTGATCGACCG
Found at i:112416 original size:14 final size:14
Alignment explanation
Indices: 112378--112417 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
112368 TTGATCAACC
*
112378 GTTGATCATTGACT
1 GTTGATCGTTGACT
112392 GTTGA-CTGTTGACT
1 GTTGATC-GTTGACT
112406 GTTGATCGTTGA
1 GTTGATCGTTGA
112418 TTTTTTTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 1 0.04
14 21 0.91
15 1 0.04
ACGTcount: A:0.17, C:0.12, G:0.28, T:0.42
Consensus pattern (14 bp):
GTTGATCGTTGACT
Found at i:112418 original size:7 final size:7
Alignment explanation
Indices: 112386--112410 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
112376 CCGTTGATCA
112386 TTGACTG
1 TTGACTG
112393 TTGACTG
1 TTGACTG
112400 TTGACTG
1 TTGACTG
112407 TTGA
1 TTGA
112411 TCGTTGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.12, G:0.28, T:0.44
Consensus pattern (7 bp):
TTGACTG
Found at i:118558 original size:7 final size:7
Alignment explanation
Indices: 118546--118581 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
118536 TATGGCACAC
118546 TGCTAAT
1 TGCTAAT
118553 TGCTAAT
1 TGCTAAT
118560 TGCTAAT
1 TGCTAAT
118567 TGCTAAT
1 TGCTAAT
118574 TGCTAAT
1 TGCTAAT
118581 T
1 T
118582 ACATAGAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (7 bp):
TGCTAAT
Found at i:127055 original size:23 final size:23
Alignment explanation
Indices: 127029--127075 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
127019 AAATCTAAAA
127029 CTTAAAGAAAATATGATAACATG
1 CTTAAAGAAAATATGATAACATG
*
127052 CTTAAAGAAAATATGATGACATG
1 CTTAAAGAAAATATGATAACATG
127075 C
1 C
127076 AACAACTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.49, C:0.11, G:0.15, T:0.26
Consensus pattern (23 bp):
CTTAAAGAAAATATGATAACATG
Found at i:135673 original size:11 final size:11
Alignment explanation
Indices: 135654--135689 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
135644 TGCAAACCAA
135654 AAATTAATTTT
1 AAATTAATTTT
*
135665 AAATAAATTTT
1 AAATTAATTTT
*
135676 AATTTAATTTT
1 AAATTAATTTT
135687 AAA
1 AAA
135690 ATTTCCATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
AAATTAATTTT
Found at i:136495 original size:2 final size:2
Alignment explanation
Indices: 136488--136513 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
136478 TACCTCCTTA
136488 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
136514 CAGTTGAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:153209 original size:54 final size:54
Alignment explanation
Indices: 153127--153236 Score: 202
Period size: 54 Copynumber: 2.0 Consensus size: 54
153117 TTATTTTTTC
*
153127 TTTTTTATTGCTTTGCAATCATTTCTATTGTCATTATCGACGTAATATAACAAG
1 TTTTTTATTGCTTTGAAATCATTTCTATTGTCATTATCGACGTAATATAACAAG
*
153181 TTTTTTATTGCTTTGAAATCATTTCTATTGTCGTTATCGACGTAATATAACAAG
1 TTTTTTATTGCTTTGAAATCATTTCTATTGTCATTATCGACGTAATATAACAAG
153235 TT
1 TT
153237 GGCTGGGCGC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.27, C:0.14, G:0.12, T:0.47
Consensus pattern (54 bp):
TTTTTTATTGCTTTGAAATCATTTCTATTGTCATTATCGACGTAATATAACAAG
Found at i:153639 original size:30 final size:30
Alignment explanation
Indices: 153605--153661 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
153595 TAATTACTTA
153605 AAAATATTTAA-AAT-TTATATTTTATATATT
1 AAAATA-TTAATAATATTAT-TTTTATATATT
153635 AAAATATTAATAATATTATTTTTATAT
1 AAAATATTAATAATATTATTTTTATAT
153662 TTTTATTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
29 4 0.16
30 17 0.68
31 4 0.16
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (30 bp):
AAAATATTAATAATATTATTTTTATATATT
Found at i:153752 original size:36 final size:36
Alignment explanation
Indices: 153685--153756 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
153675 TAATAATATT
*
153685 AATGAATTTTAATATCATTTAAATGTATTTTTTTTA
1 AATGAATTTTAATATCATTTAAATCTATTTTTTTTA
*
153721 AATGAATTTTAATATCATTTAAATACTTTTTTTTTT
1 AATGAATTTTAATATCATTTAAAT-CTATTTTTTTT
153757 TTTACTTTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
36 24 0.73
37 9 0.27
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (36 bp):
AATGAATTTTAATATCATTTAAATCTATTTTTTTTA
Found at i:154378 original size:58 final size:58
Alignment explanation
Indices: 154288--154400 Score: 190
Period size: 58 Copynumber: 1.9 Consensus size: 58
154278 TACATCAAAG
* * *
154288 TACACGAGTCATGCATACTTAATTCGTATGTAACACCTCTTACCTAGACAGTCAACGA
1 TACACGAGTCACGCATACATAATTCGTATGTAACACCCCTTACCTAGACAGTCAACGA
*
154346 TACACGAGTCACGCATACATAATTCGTATGTAACACCCCTTATCTAGACAGTCAA
1 TACACGAGTCACGCATACATAATTCGTATGTAACACCCCTTACCTAGACAGTCAA
154401 TGATTCCAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 51 1.00
ACGTcount: A:0.34, C:0.27, G:0.13, T:0.27
Consensus pattern (58 bp):
TACACGAGTCACGCATACATAATTCGTATGTAACACCCCTTACCTAGACAGTCAACGA
Found at i:156844 original size:15 final size:14
Alignment explanation
Indices: 156826--156855 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
156816 CTATTGCCTC
156826 TCTCTCTT-TCTTT
1 TCTCTCTTATCTTT
156839 TCTCTCTTATCTTT
1 TCTCTCTTATCTTT
156853 TCT
1 TCT
156856 TGTATACACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.03, C:0.30, G:0.00, T:0.67
Consensus pattern (14 bp):
TCTCTCTTATCTTT
Found at i:158929 original size:25 final size:25
Alignment explanation
Indices: 158901--158950 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
158891 TTAAATTTCT
* *
158901 GTTTTTGGGTGCCTTCTAGACACTA
1 GTTTTCGGGTGCCTTCTAGAAACTA
158926 GTTTTCGGGTGCCTTCTAGAAACTA
1 GTTTTCGGGTGCCTTCTAGAAACTA
158951 ACTTATTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.38
Consensus pattern (25 bp):
GTTTTCGGGTGCCTTCTAGAAACTA
Found at i:163624 original size:18 final size:21
Alignment explanation
Indices: 163585--163635 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 21
163575 TTACAAAAAG
* *
163585 AAAATTT-TAAATAATTT-TT
1 AAAATTTCAAAATAATTTATA
163604 AAAA-TTCAAAAT-ATTTATA
1 AAAATTTCAAAATAATTTATA
163623 AAAATTTCAAAAT
1 AAAATTTCAAAAT
163636 TTATATTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 6 0.22
19 13 0.48
20 8 0.30
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (21 bp):
AAAATTTCAAAATAATTTATA
Found at i:163658 original size:24 final size:24
Alignment explanation
Indices: 163614--163661 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
163604 AAAATTCAAA
*
163614 ATATTTATAAAAATTTCAAAATTT
1 ATATTTATAAAAATTTAAAAATTT
*
163638 ATATTTA-ATAAATTATAAAAATTT
1 ATATTTATAAAAATT-TAAAAATTT
163662 TAAAAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (24 bp):
ATATTTATAAAAATTTAAAAATTT
Found at i:163665 original size:9 final size:9
Alignment explanation
Indices: 163585--163667 Score: 51
Period size: 9 Copynumber: 8.4 Consensus size: 9
163575 TTACAAAAAG
163585 AAAATTTTA
1 AAAATTTTA
*
163594 AATAATTTTT
1 AA-AATTTTA
*
163604 AAAA-TTCA
1 AAAATTTTA
163612 AAATATTTATA
1 AAA-ATTT-TA
*
163623 AAAATTTCA
1 AAAATTTTA
163632 AAATTTATATTTA
1 AAA---AT-TTTA
*
163645 ATAAATTATA
1 A-AAATTTTA
163655 AAAATTTTA
1 AAAATTTTA
163664 AAAA
1 AAAA
163668 ATATATGAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 18
0.69 0.10 0.22
Matches are distributed among these distances:
8 5 0.09
9 20 0.35
10 18 0.32
11 6 0.11
12 2 0.04
13 4 0.07
14 2 0.04
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.42
Consensus pattern (9 bp):
AAAATTTTA
Found at i:169574 original size:2 final size:2
Alignment explanation
Indices: 169567--169602 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
169557 CACTTTGTGA
169567 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
169603 GTCTTTTCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:191964 original size:18 final size:17
Alignment explanation
Indices: 191935--191978 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
191925 TGATTTAAAT
*
191935 ATGAAATGAAATTG-AA
1 ATGAAATGAAAATGAAA
191951 ATGATAATGAAAATGAAA
1 ATGA-AATGAAAATGAAA
191969 ATGAGAATGA
1 ATGA-AATGA
191979 TATGAAATGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 4 0.17
17 9 0.38
18 11 0.46
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (17 bp):
ATGAAATGAAAATGAAA
Found at i:191966 original size:23 final size:23
Alignment explanation
Indices: 191933--191985 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
191923 TATGATTTAA
*
191933 ATATG-AAATGAAATTGA-AATG
1 ATATGAAAATGAAAATGAGAATG
191954 ATAATGAAAATGAAAATGAGAATG
1 AT-ATGAAAATGAAAATGAGAATG
191978 ATATGAAA
1 ATATGAAA
191986 TGGATGTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 2 0.07
22 3 0.11
23 17 0.61
24 6 0.21
ACGTcount: A:0.57, C:0.00, G:0.19, T:0.25
Consensus pattern (23 bp):
ATATGAAAATGAAAATGAGAATG
Found at i:192591 original size:164 final size:163
Alignment explanation
Indices: 192307--192603 Score: 540
Period size: 164 Copynumber: 1.8 Consensus size: 163
192297 CATATTTAGA
192307 AATGACGCCATATCAAATACGTTTGCCTGAGCACCCACTTTCTGGTGACAAGCATCCCCGAAGAA
1 AATGACGCCATATCAAATACGTTTGCCTGAGCACCCACTTTCTGGTGACAAGCATCCCCGAAGAA
192372 TTCAGTCTTCTTAATTTTGTAAATTTCCTTGGTTGGAGTATTCCCATACTAAAGATGCAAGCATA
66 TTCAGTCTTCTTAATTTTGTAAATTTCCTTGGTTGGAGTATTCCCATACTAAAGATGC-AGCATA
192437 TTGTAAATTTCCTTGGTTGGAGTATTCCCATACT
130 TTGTAAATTTCCTTGGTTGGAGTATTCCCATACT
* * * *
192471 AATGATGCCATATCAAATACGTTTGTCTGAGCACCCACTTTTTGGTGACAAGCATCCTCGAAGAA
1 AATGACGCCATATCAAATACGTTTGCCTGAGCACCCACTTTCTGGTGACAAGCATCCCCGAAGAA
*
192536 TTCAGTCTTCTTAATTTTGTAAATTTCCTTGGTTGGAGTATTCCCATATTAAAGATGCAGCATAT
66 TTCAGTCTTCTTAATTTTGTAAATTTCCTTGGTTGGAGTATTCCCATACTAAAGATGCAGCATAT
192601 TGT
131 TGT
192604 TTCTCATGAT
Statistics
Matches: 128, Mismatches: 5, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
163 10 0.08
164 118 0.92
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.35
Consensus pattern (163 bp):
AATGACGCCATATCAAATACGTTTGCCTGAGCACCCACTTTCTGGTGACAAGCATCCCCGAAGAA
TTCAGTCTTCTTAATTTTGTAAATTTCCTTGGTTGGAGTATTCCCATACTAAAGATGCAGCATAT
TGTAAATTTCCTTGGTTGGAGTATTCCCATACT
Found at i:205706 original size:9 final size:9
Alignment explanation
Indices: 205692--205730 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
205682 AATCAAATGG
205692 AATCATAAA
1 AATCATAAA
205701 AATCATAAA
1 AATCATAAA
* *
205710 AATTAAAAA
1 AATCATAAA
*
205719 AATAATAAA
1 AATCATAAA
205728 AAT
1 AAT
205731 TTATAAAAGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (9 bp):
AATCATAAA
Found at i:212717 original size:13 final size:13
Alignment explanation
Indices: 212683--212728 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
212673 TGATTAAATA
212683 TAAATAAT-ATCC
1 TAAATAATAATCC
212695 T-AATAATAATCC
1 TAAATAATAATCC
*
212707 TAAATATTAATCC
1 TAAATAATAATCC
*
212720 TAAAAAATA
1 TAAATAATA
212729 GAGTTTAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
11 6 0.21
12 6 0.21
13 17 0.59
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (13 bp):
TAAATAATAATCC
Found at i:212744 original size:5 final size:5
Alignment explanation
Indices: 212734--212763 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
212724 AAATAGAGTT
212734 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
212764 CCTTCATGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:214982 original size:23 final size:23
Alignment explanation
Indices: 214951--215058 Score: 85
Period size: 23 Copynumber: 4.6 Consensus size: 23
214941 TCTCTGATTA
*
214951 CACTATGTGTGCTCTCGGTTTAG
1 CACTGTGTGTGCTCTCGGTTTAG
*
214974 CACTGTGTGTGCTCTCTGTTTAG
1 CACTGTGTGTGCTCTCGGTTTAG
* * * *
214997 CAC-GTCTCATGCTCTTTGTTATTAG
1 CACTGTGT-GTGCTC-TCGGT-TTAG
* *
215022 CACT-TCGTGTGCTCTCTGATTAG
1 CACTGT-GTGTGCTCTCGGTTTAG
*
215045 CACTTTGTGTGCTC
1 CACTGTGTGTGCTC
215059 AGTACTTTGT
Statistics
Matches: 66, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
22 3 0.05
23 45 0.68
24 4 0.06
25 13 0.20
26 1 0.02
ACGTcount: A:0.12, C:0.24, G:0.22, T:0.42
Consensus pattern (23 bp):
CACTGTGTGTGCTCTCGGTTTAG
Found at i:215058 original size:48 final size:46
Alignment explanation
Indices: 214939--215058 Score: 120
Period size: 48 Copynumber: 2.6 Consensus size: 46
214929 ACATTAGCGC
214939 GCTCTCTGATTA-CACTATGTGTGCTCTCGGTTTAGCACTGTGTGT
1 GCTCTCTGATTAGCACTATGTGTGCTCTCGGTTTAGCACTGTGTGT
* * ** * *
214984 GCTCTCTGTTTAGCACGTCT-CATGCTCTTTGTTATTAGCACT-TCGTGT
1 GCTCTCTGATTAGCAC-TATGTGTGCTC-TCGGT-TTAGCACTGT-GTGT
*
215032 GCTCTCTGATTAGCACTTTGTGTGCTC
1 GCTCTCTGATTAGCACTATGTGTGCTC
215059 AGTACTTTGT
Statistics
Matches: 59, Mismatches: 10, Indels: 9
0.76 0.13 0.12
Matches are distributed among these distances:
45 11 0.19
46 8 0.14
47 8 0.14
48 32 0.54
ACGTcount: A:0.12, C:0.24, G:0.22, T:0.42
Consensus pattern (46 bp):
GCTCTCTGATTAGCACTATGTGTGCTCTCGGTTTAGCACTGTGTGT
Found at i:215089 original size:23 final size:23
Alignment explanation
Indices: 215059--215103 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
215049 TTGTGTGCTC
*
215059 AGTACTTTGTGTACTCTTTGTTT
1 AGTACTTTGTGTACTCTCTGTTT
*
215082 AGTACTTTGTGTGCTCTCTGTT
1 AGTACTTTGTGTACTCTCTGTT
215104 GCCCAGCACT
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:0.11, C:0.16, G:0.20, T:0.53
Consensus pattern (23 bp):
AGTACTTTGTGTACTCTCTGTTT
Found at i:217078 original size:12 final size:12
Alignment explanation
Indices: 217061--217100 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
217051 ATGCAAGAAA
217061 AAAACTAAAAAT
1 AAAACTAAAAAT
*
217073 AAAACTAAAACT
1 AAAACTAAAAAT
217085 AAAACTAAAAAT
1 AAAACTAAAAAT
217097 AAAA
1 AAAA
217101 TTGGGTTGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.75, C:0.10, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAACTAAAAAT
Found at i:217084 original size:18 final size:18
Alignment explanation
Indices: 217061--217100 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
217051 ATGCAAGAAA
*
217061 AAAACTAAAAATAAAACT
1 AAAACTAAAAATAAAAAT
*
217079 AAAACTAAAACTAAAAAT
1 AAAACTAAAAATAAAAAT
217097 AAAA
1 AAAA
217101 TTGGGTTGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.75, C:0.10, G:0.00, T:0.15
Consensus pattern (18 bp):
AAAACTAAAAATAAAAAT
Found at i:229139 original size:14 final size:14
Alignment explanation
Indices: 229114--229148 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
229104 ACCTTTAGTT
229114 TTTATT-TTTTTAA
1 TTTATTATTTTTAA
229127 TTTATTATTTTTAA
1 TTTATTATTTTTAA
*
229141 TATATTAT
1 TTTATTAT
229149 CGACTTTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 6 0.30
14 14 0.70
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTATTATTTTTAA
Found at i:231247 original size:63 final size:63
Alignment explanation
Indices: 231149--231275 Score: 236
Period size: 63 Copynumber: 2.0 Consensus size: 63
231139 ATAGAAGTTA
**
231149 TATAATTAATTTAATTTATAATATTTTTTCGTTGTTTCATTTCTCTATTTTATTAGTGGACTT
1 TATAATTAATTTAATTTATAATAAATTTTCGTTGTTTCATTTCTCTATTTTATTAGTGGACTT
231212 TATAATTAATTTAATTTATAATAAATTTTCGTTGTTTCATTTCTCTATTTTATTAGTGGACTT
1 TATAATTAATTTAATTTATAATAAATTTTCGTTGTTTCATTTCTCTATTTTATTAGTGGACTT
231275 T
1 T
231276 CTATTAAAAT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.57
Consensus pattern (63 bp):
TATAATTAATTTAATTTATAATAAATTTTCGTTGTTTCATTTCTCTATTTTATTAGTGGACTT
Found at i:232254 original size:24 final size:25
Alignment explanation
Indices: 232208--232254 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
232198 GATTCAAACA
*
232208 ATTTTAAATTTTATAAGTTATAAAT
1 ATTTTAAATTTTATAAGTAATAAAT
232233 ATTTT-AATTTTA-AATGTAATAA
1 ATTTTAAATTTTATAA-GTAATAA
232255 TTCTTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 13 0.65
25 5 0.25
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (25 bp):
ATTTTAAATTTTATAAGTAATAAAT
Found at i:232531 original size:31 final size:29
Alignment explanation
Indices: 232491--232556 Score: 78
Period size: 31 Copynumber: 2.2 Consensus size: 29
232481 ATATCAAAAT
*
232491 TATACATGAACTATAATTTAATGTGCAATTG
1 TATATATGAACTATAATTT--TGTGCAATTG
* * *
232522 TATATATGAACTTTGATTTTGTGCAATTT
1 TATATATGAACTATAATTTTGTGCAATTG
232551 TATATA
1 TATATA
232557 AGAAATTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 15 0.48
31 16 0.52
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.45
Consensus pattern (29 bp):
TATATATGAACTATAATTTTGTGCAATTG
Found at i:232544 original size:29 final size:30
Alignment explanation
Indices: 232512--232570 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
232502 TATAATTTAA
*
232512 TGTGCAATTGTATATATG-AACTTTGATTT
1 TGTGCAATTGTATATAAGAAACTTTGATTT
* *
232541 TGTGCAATTTTATATAAGAAATTTTGATTT
1 TGTGCAATTGTATATAAGAAACTTTGATTT
232571 GATCCAATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.31, C:0.05, G:0.15, T:0.49
Consensus pattern (30 bp):
TGTGCAATTGTATATAAGAAACTTTGATTT
Found at i:249695 original size:46 final size:46
Alignment explanation
Indices: 249638--249732 Score: 136
Period size: 46 Copynumber: 2.1 Consensus size: 46
249628 TTTGCTATAT
*
249638 TAGGATCTGATAGGACTTAAATCACTTCTTGTATTGAGTTTAAAAA
1 TAGGATCTGATAGGACTTAAATCACTTCTTGCATTGAGTTTAAAAA
* * * * *
249684 TAGGATGTGATATGACTTAAATTACTTGTTGCATTGAGTTTAAAGA
1 TAGGATCTGATAGGACTTAAATCACTTCTTGCATTGAGTTTAAAAA
249730 TAG
1 TAG
249733 TAGACTATCT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.38
Consensus pattern (46 bp):
TAGGATCTGATAGGACTTAAATCACTTCTTGCATTGAGTTTAAAAA
Found at i:253605 original size:28 final size:28
Alignment explanation
Indices: 253565--253639 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
253555 TAATTTATAA
253565 AATTTTAAATTAATAATATTAAAATTATAATTT
1 AATTTTAAA--AATAATA--AAAATT-TAATTT
253598 AATTTTAAAAATAATAAAAATTTAATTT
1 AATTTTAAAAATAATAAAAATTTAATTT
253626 AATCTATTAAAAAT
1 AAT-T-TTAAAAAT
253640 TATATATATA
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
28 9 0.22
29 7 0.17
30 8 0.20
31 7 0.17
33 9 0.22
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (28 bp):
AATTTTAAAAATAATAAAAATTTAATTT
Found at i:263564 original size:30 final size:31
Alignment explanation
Indices: 263530--263601 Score: 103
Period size: 30 Copynumber: 2.4 Consensus size: 31
263520 GTTACATTTA
*
263530 ACAAAACAGTCACTCAACTT-T-GAAAATGTG
1 ACAAAACAGTCACTAAACTTATCGAAAA-GTG
*
263560 ACAAAACAGTCACTAAAGTTATCGAAAAGTG
1 ACAAAACAGTCACTAAACTTATCGAAAAGTG
263591 ACAAAACAGTC
1 ACAAAACAGTC
263602 CTCTTGGCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
30 18 0.47
31 15 0.39
32 5 0.13
ACGTcount: A:0.47, C:0.19, G:0.14, T:0.19
Consensus pattern (31 bp):
ACAAAACAGTCACTAAACTTATCGAAAAGTG
Found at i:271717 original size:19 final size:19
Alignment explanation
Indices: 271693--271734 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
271683 CATACATTAT
*
271693 TATTA-TTATTTTATAATAA
1 TATTATTTAGTTT-TAATAA
271712 TATTATTTAGTTTTAATAA
1 TATTATTTAGTTTTAATAA
271731 TATT
1 TATT
271735 TCCATTTACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
TATTATTTAGTTTTAATAA
Found at i:275601 original size:4 final size:4
Alignment explanation
Indices: 275592--275624 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
275582 AAATCATCTA
*
275592 AAAT AAAT AAAT AAAT AAAT AAAT AAGT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
275625 CTTGTTAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:276956 original size:14 final size:17
Alignment explanation
Indices: 276937--276972 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
276927 AGTTAAAGAT
276937 TAATAAT-TGT-A-AAA
1 TAATAATGTGTGATAAA
276951 TAATAATGTGTGATAAA
1 TAATAATGTGTGATAAA
276968 TAATA
1 TAATA
276973 GTATTAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 7 0.37
15 3 0.16
16 1 0.05
17 8 0.42
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.36
Consensus pattern (17 bp):
TAATAATGTGTGATAAA
Found at i:281608 original size:19 final size:20
Alignment explanation
Indices: 281582--281624 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
281572 TATATGCTTC
*
281582 ATAAAAAATTTAAAA-TT-A
1 ATAAAAAAATTAAAAGTTCA
281600 ATAAAAAAATTAAAAGTTCA
1 ATAAAAAAATTAAAAGTTCA
281620 ATAAA
1 ATAAA
281625 TTTCAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.64
19 2 0.09
20 6 0.27
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (20 bp):
ATAAAAAAATTAAAAGTTCA
Found at i:289129 original size:29 final size:31
Alignment explanation
Indices: 289087--289145 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
289077 CTGCTCCTGT
*
289087 TTTAACCA-CGAAAAT-ACAATTATATAATA
1 TTTAACCACCAAAAATAACAATTATATAATA
*
289116 TTTAACCCCCAAAAAATAACAATTATATAA
1 TTTAACCACC-AAAAATAACAATTATATAA
289146 AATGTGTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 7 0.28
30 1 0.04
31 5 0.20
32 12 0.48
ACGTcount: A:0.53, C:0.17, G:0.02, T:0.29
Consensus pattern (31 bp):
TTTAACCACCAAAAATAACAATTATATAATA
Found at i:289470 original size:26 final size:26
Alignment explanation
Indices: 289432--289494 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
289422 AAAATCACAT
* * *
289432 TAATATTTTTTAAAGTATAAGTATCA
1 TAATATATATTAAAGTATAAGTACCA
289458 TAATATATATTAAAGTATAAGTACCA
1 TAATATATATTAAAGTATAAGTACCA
289484 TAATAATATAT
1 TAAT-ATATAT
289495 ATATTTAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 27 0.82
27 6 0.18
ACGTcount: A:0.48, C:0.05, G:0.06, T:0.41
Consensus pattern (26 bp):
TAATATATATTAAAGTATAAGTACCA
Found at i:291499 original size:19 final size:19
Alignment explanation
Indices: 291477--291535 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 19
291467 TTGTATAACT
291477 ATAAATCATTAACCAAGTA
1 ATAAATCATTAACCAAGTA
291496 ATAAATCATTAACTCAAG-A
1 ATAAATCATTAAC-CAAGTA
* *
291515 CTAAGTCTGATTAACCAAGTA
1 ATAAATC--ATTAACCAAGTA
291536 GCTCAATGTG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 19 0.56
20 8 0.24
21 7 0.21
ACGTcount: A:0.47, C:0.17, G:0.08, T:0.27
Consensus pattern (19 bp):
ATAAATCATTAACCAAGTA
Found at i:298296 original size:19 final size:19
Alignment explanation
Indices: 298241--298297 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
298231 AAAATATAAA
298241 TAATAATAAATAATAAATTTT
1 TAATAAT-AATAATAAA-TTT
* * *
298262 TAAAAAAAATATTAAATTT
1 TAATAATAATAATAAATTT
*
298281 TAATAATATTAATAAAT
1 TAATAATAATAATAAAT
298298 AAAAAATTAA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
19 16 0.55
20 8 0.28
21 5 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TAATAATAATAATAAATTT
Found at i:298400 original size:21 final size:21
Alignment explanation
Indices: 298366--298405 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
298356 ATTATAAATT
298366 TTATAGAAATCATAAAAAAAA
1 TTATAGAAATCATAAAAAAAA
298387 TTATA-AAATGCATAAAAAA
1 TTATAGAAAT-CATAAAAAA
298406 TTCCCTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.25
Consensus pattern (21 bp):
TTATAGAAATCATAAAAAAAA
Found at i:298531 original size:17 final size:17
Alignment explanation
Indices: 298509--298542 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
298499 ACATGTAGTG
298509 AAAAATGATAAAAAAAT
1 AAAAATGATAAAAAAAT
* *
298526 AAAAATTATAGAAAAAT
1 AAAAATGATAAAAAAAT
298543 TATAGAATGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (17 bp):
AAAAATGATAAAAAAAT
Found at i:298996 original size:20 final size:20
Alignment explanation
Indices: 298944--298996 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
298934 TTTTGATGCA
298944 TTTTA-TAATTTTT-ATATT
1 TTTTATTAATTTTTAATATT
**
298962 TTTTATTAAAATTTAATATT
1 TTTTATTAATTTTTAATATT
*
298982 TTTTATTGATTTTTA
1 TTTTATTAATTTTTA
298997 TTTTTATAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 5 0.18
19 6 0.21
20 17 0.61
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (20 bp):
TTTTATTAATTTTTAATATT
Found at i:299193 original size:32 final size:30
Alignment explanation
Indices: 299157--299217 Score: 77
Period size: 32 Copynumber: 2.0 Consensus size: 30
299147 ATTGAGTGCA
*
299157 AAAAAATTTAGGGGCTTATTTGCTTTTTTTTG
1 AAAAAATTGAGGGGCTT-TTT-CTTTTTTTTG
* *
299189 AAAAAATTGAGGGTCTTTTTTTTTTTTTT
1 AAAAAATTGAGGGGCTTTTTCTTTTTTTT
299218 ATGTATTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 8 0.31
31 3 0.12
32 15 0.58
ACGTcount: A:0.25, C:0.05, G:0.16, T:0.54
Consensus pattern (30 bp):
AAAAAATTGAGGGGCTTTTTCTTTTTTTTG
Found at i:299574 original size:91 final size:91
Alignment explanation
Indices: 299470--299636 Score: 228
Period size: 91 Copynumber: 1.8 Consensus size: 91
299460 TTTGAACAAG
** * * *
299470 TTTGAGGGTCTTTTTGATGCATTTTAAAAATTCAAGTACCCAATTGAGTGTAAAAAAAATAAG-G
1 TTTGAGGACCTTTTTGATGCATTTTAAAAATTCAAGTACCCAAATAAGTG-AAAAAAAAGAAGAG
*
299534 GCTTAATTGCTTCTTTTTTTTTTAAGT
65 ACTTAATTGCTTCTTTTTTTTTTAAGT
* * * *
299561 TTTGAGGACCTTTTTGATGCATTTTGAAATTTCAAGTACCTAAATAAGTGCAAAAAAAGAAGAGA
1 TTTGAGGACCTTTTTGATGCATTTTAAAAATTCAAGTACCCAAATAAGTGAAAAAAAAGAAGAGA
299626 CTTAATTGCTT
66 CTTAATTGCTT
299637 TTTCTGAAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
90 10 0.15
91 55 0.85
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.39
Consensus pattern (91 bp):
TTTGAGGACCTTTTTGATGCATTTTAAAAATTCAAGTACCCAAATAAGTGAAAAAAAAGAAGAGA
CTTAATTGCTTCTTTTTTTTTTAAGT
Done.