Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009643.1 Hibiscus syriacus cultivar Beakdansim tig00117056_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: 8859806
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 30 of 41
Found at i:6380262 original size:28 final size:28
Alignment explanation
Indices: 6380228--6380299 Score: 92
Period size: 28 Copynumber: 2.5 Consensus size: 28
6380218 TAATGATAAA
* *
6380228 TTATAAATTATTAAAAATTTAAA-AATAT
1 TTATAAAATATTAAAAAATTAAACAAT-T
6380256 TTATAAAATATTAAAAAATTAAACAATT
1 TTATAAAATATTAAAAAATTAAACAATT
6380284 TTATCAAAATAATTAA
1 TTAT-AAAAT-ATTAA
6380300 TTGTTTTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 26 0.67
29 8 0.21
30 5 0.13
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (28 bp):
TTATAAAATATTAAAAAATTAAACAATT
Found at i:6383572 original size:30 final size:30
Alignment explanation
Indices: 6383536--6383594 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
6383526 TCAAGAACAT
*
6383536 TCCGTCACAGCACCTCCGGTTCAGGGAAGC
1 TCCGTCACAGCACCTCCGGTACAGGGAAGC
* * *
6383566 TCCGTCACTGCCCCTGCGGTACAGGGAAG
1 TCCGTCACAGCACCTCCGGTACAGGGAAG
6383595 TTCAACCTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.19, C:0.36, G:0.29, T:0.17
Consensus pattern (30 bp):
TCCGTCACAGCACCTCCGGTACAGGGAAGC
Found at i:6383615 original size:30 final size:31
Alignment explanation
Indices: 6383552--6383669 Score: 116
Period size: 30 Copynumber: 3.9 Consensus size: 31
6383542 ACAGCACCTC
* *** *
6383552 CGGTTCAGGGAAGCTCCGTCACTGCCCCT-G
1 CGGTTCAGGGAAGTTCAACCACTGCACCTGG
* *
6383582 CGGTACAGGGAAGTTCAACCTCTGCACC-GG
1 CGGTTCAGGGAAGTTCAACCACTGCACCTGG
* *
6383612 CGGTTCAGGGAAGTTCTAGCACTGCACCTGG
1 CGGTTCAGGGAAGTTCAACCACTGCACCTGG
**
6383643 -GGTTCAGGGAAGTTCCTCCACTGCACC
1 CGGTTCAGGGAAGTTCAACCACTGCACC
6383670 CGGTTTAGAT
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
30 70 0.97
31 2 0.03
ACGTcount: A:0.19, C:0.31, G:0.30, T:0.20
Consensus pattern (31 bp):
CGGTTCAGGGAAGTTCAACCACTGCACCTGG
Found at i:6383667 original size:60 final size:60
Alignment explanation
Indices: 6383552--6383669 Score: 148
Period size: 60 Copynumber: 2.0 Consensus size: 60
6383542 ACAGCACCTC
* * *
6383552 CGGTTCAGGGAAGCTCCGTCACTGCCCCTGCGGTACAGGGAAGTTCAACCTCTGCACCGG
1 CGGTTCAGGGAAGCTCAGTCACTGCACCTGCGGTACAGGGAAGTTCAACCACTGCACCGG
* * * **
6383612 CGGTTCAGGGAAGTTCTAG-CACTGCACCTGGGGTTCAGGGAAGTTCCTCCACTGCACC
1 CGGTTCAGGGAAGCTC-AGTCACTGCACCTGCGGTACAGGGAAGTTCAACCACTGCACC
6383670 CGGTTTAGAT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
60 48 0.98
61 1 0.02
ACGTcount: A:0.19, C:0.31, G:0.30, T:0.20
Consensus pattern (60 bp):
CGGTTCAGGGAAGCTCAGTCACTGCACCTGCGGTACAGGGAAGTTCAACCACTGCACCGG
Found at i:6384755 original size:13 final size:12
Alignment explanation
Indices: 6384737--6384763 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
6384727 AATATTTTAT
6384737 TTAAAAAAATTA
1 TTAAAAAAATTA
6384749 TTAAAAAAATTA
1 TTAAAAAAATTA
6384761 TTA
1 TTA
6384764 TATTTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
TTAAAAAAATTA
Found at i:6389362 original size:34 final size:36
Alignment explanation
Indices: 6389318--6389420 Score: 165
Period size: 34 Copynumber: 2.9 Consensus size: 36
6389308 TTTCGTCCTA
6389318 CTAGGATTCAAACTCCTAAAAATAGGATAGAA-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
*
6389353 -TAGGATTCAAACTCCTAAAAATAGGATAAAATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
6389388 GCTAGGATTCAAACTCCTAAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCT-AAAAATAGGATAGA
6389421 GTTATACTAT
Statistics
Matches: 62, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
34 30 0.48
35 3 0.05
37 16 0.26
38 13 0.21
ACGTcount: A:0.45, C:0.14, G:0.15, T:0.27
Consensus pattern (36 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
Found at i:6389826 original size:15 final size:18
Alignment explanation
Indices: 6389808--6389849 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
6389798 ATTATATGGA
6389808 TATT-TTATTCAT-TT-T
1 TATTATTATTCATGTTAT
6389823 TATTATTATTCATGTTAT
1 TATTATTATTCATGTTAT
6389841 TATTATTAT
1 TATTATTAT
6389850 ATGTATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.17
16 8 0.33
17 2 0.08
18 10 0.42
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (18 bp):
TATTATTATTCATGTTAT
Found at i:6390370 original size:2 final size:2
Alignment explanation
Indices: 6390363--6390388 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6390353 ACTTTGATAA
6390363 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
6390389 TTCTTTTTTC
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:6394860 original size:22 final size:22
Alignment explanation
Indices: 6394835--6394883 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
6394825 CCATCAATCT
* *
6394835 TTTGAGCATCCAATGTCAAACC
1 TTTGAGCATCAAATGCCAAACC
6394857 TTTGAGCATCAAATGCCAAACC
1 TTTGAGCATCAAATGCCAAACC
6394879 TTTGA
1 TTTGA
6394884 CCAAACACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (22 bp):
TTTGAGCATCAAATGCCAAACC
Found at i:6395800 original size:36 final size:35
Alignment explanation
Indices: 6395760--6395943 Score: 172
Period size: 36 Copynumber: 5.1 Consensus size: 35
6395750 ACTCATGATT
* * *
6395760 GTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACC
1 GTTTCTCTTAAAACAA-ATTTGTCTCTCTTGAGACA
* * * **
6395796 GTTT-TCACTAGAAGAGTTTTGTCTCTCTTGAGACA
1 GTTTCTC-TTAAAACAAATTTGTCTCTCTTGAGACA
* * *
6395831 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGAAA
1 GTTTCTCTTAAAACAAA-TTTGTCTCTCTTGAGACA
* *
6395867 GTTTCTCTTGAAACAAATTTCGTCTATCTTGAGACA
1 GTTTCTCTTAAAACAAATTT-GTCTCTCTTGAGACA
* * *
6395903 GTTTCCCTTTAAATAAATTTTGTCTCTCTTGAGACA
1 GTTTCTCTTAAAACAAA-TTTGTCTCTCTTGAGACA
6395939 GTTTC
1 GTTTC
6395944 CCTTGAAATA
Statistics
Matches: 121, Mismatches: 22, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
35 29 0.24
36 89 0.74
37 3 0.02
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.41
Consensus pattern (35 bp):
GTTTCTCTTAAAACAAATTTGTCTCTCTTGAGACA
Found at i:6395855 original size:71 final size:73
Alignment explanation
Indices: 6395770--6395942 Score: 210
Period size: 72 Copynumber: 2.4 Consensus size: 73
6395760 GTTTTTCTTA
* * * * * *
6395770 AAACAAGA-TTTGTCTCGCTTGAGACCGTTTTCACTAG-AA-GAGTTTTGTCTCTCTTGAGACAG
1 AAACAA-ATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACAG
6395832 TTTCCCTTG
65 TTTCCCTTG
* * *
6395841 AAACAAATTTTGTCTCTCTTGAGAAAG-TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGT
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACAGT
*
6395905 TTCCCTTT
66 TTCCCTTG
*
6395913 AAATAAATTTTGTCTCTCTTGAGACAGTTT
1 AAACAAATTTTGTCTCTCTTGAGACAGTTT
6395943 CCCTTGAAAT
Statistics
Matches: 86, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
70 8 0.09
71 24 0.28
72 52 0.60
73 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (73 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACAGT
TTCCCTTG
Found at i:6395944 original size:36 final size:36
Alignment explanation
Indices: 6395812--6396057 Score: 229
Period size: 36 Copynumber: 7.0 Consensus size: 36
6395802 ACTAGAAGAG
6395812 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
* *
6395848 TTTTGTCTCTCTTGAGAAAGTTTCTCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
* * * *
6395884 TTTCGTCTATCTTGAGACAGTTTCCCTTTAAATAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
*
6395920 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAATAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
* * * * *
6395956 ------ATAT-TTGA-ATATGTTTTCTTTGAAACAAA
1 TTTTGTCTCTCTTGAGACA-GTTTCCCTTGAAACAAA
** * ** ** *
6395985 TTCCGTCTCCCTTGAGACAGTTTCTTTTGGAATTAAG
1 TTTTGTCTCTCTTGAGACAGTTTCCCTT-GAAACAAA
*
6396022 TTTTGTCTCTCTAGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
6396058 ACCTTTGAAT
Statistics
Matches: 165, Mismatches: 35, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
28 2 0.01
29 18 0.11
30 2 0.01
35 1 0.01
36 113 0.68
37 29 0.18
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.41
Consensus pattern (36 bp):
TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
Found at i:6396049 original size:102 final size:101
Alignment explanation
Indices: 6395868--6396108 Score: 295
Period size: 102 Copynumber: 2.4 Consensus size: 101
6395858 CTTGAGAAAG
** *
6395868 TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTTAAATAAATTTTGTCTCTCTT
1 TTTCT-TTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTTAAATAAATTTTGTCTCTCTA
* * *
6395933 GAGACAGTTTCCCTTGAAATAAAATATTTGAATATGT
65 GAGACAGTTTCCCTTGAAACAAAACATTTGAATATAT
* * * *
6395970 TTTCTTTGAAACAAATTCCGTCTCCCTTGAGACAGTTT-CTTTTGGAATTAAGTTTTGTCTCTCT
1 TTTCTTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTT--AAATAAATTTTGTCTCTCT
* *
6396034 AGAGACAGTTTCCCTTGAAACAAAACCTTTGAATTTAT
64 AGAGACAGTTTCCCTTGAAACAAAACATTTGAATATAT
* ** * *
6396072 TTCCCCTAAAACAAATTTTGTCTCCCTTGAGACAGTT
1 TTTCTTTGAAACAAATTTCGTCTCCCTTGAGACAGTT
6396109 ACTCTTGAAA
Statistics
Matches: 119, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
100 4 0.03
101 30 0.25
102 85 0.71
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (101 bp):
TTTCTTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTTAAATAAATTTTGTCTCTCTAG
AGACAGTTTCCCTTGAAACAAAACATTTGAATATAT
Found at i:6397017 original size:105 final size:105
Alignment explanation
Indices: 6396832--6397663 Score: 1280
Period size: 105 Copynumber: 8.0 Consensus size: 105
6396822 GCACTCGAGG
* * *
6396832 CAACACAAGTTCAACTTCACAACGAAGGGA-CGACTGGTTGTCAACAAACAACTTCTCAATTTCA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGCTTGTCAAC-AACAACTTCTCAATTTCA
6396896 GAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
64 GAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* *
6396938 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCCTGTCAACAACAACATCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
* *
6397003 GCCAATTTCAACTTCACAATGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
6397043 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
*
6397108 GCCAATTTTAACTTCACAACGAAGGATATTGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
*
6397148 CAACGCAAGATCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
*
6397213 GCCAATTTCAACTTCACAACGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* * * * * *
6397253 CAACCCAAGTTCAACTTCATGACGATGAGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
6397318 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* * *
6397358 CAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
*
6397423 GCCAATTTCAACTTCACAAAGAAGGATATTGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
6397463 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAA-AA-TT-TC-A-TTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
** * *
6397523 TTCAATTTCAACTTCACAACGAATGATATTGGACTCGAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* * * * * * ** *
6397563 CAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCGGTTCCAG
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCTCAATTTCAG
* *
6397628 AGCCAATTTCAACTTCACGACGGAGGATATTGGACT
65 AGCCAATTTCAACTTCACAACGAAGGATATTGGACT
6397664 TGGAACAATG
Statistics
Matches: 670, Mismatches: 49, Indels: 14
0.91 0.07 0.02
Matches are distributed among these distances:
100 81 0.12
101 3 0.00
102 3 0.00
103 4 0.01
104 3 0.00
105 501 0.75
106 73 0.11
107 2 0.00
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (105 bp):
CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
Found at i:6398255 original size:34 final size:36
Alignment explanation
Indices: 6398211--6398312 Score: 172
Period size: 34 Copynumber: 2.9 Consensus size: 36
6398201 TTTCGTCCTA
6398211 CTAGGATTCAAACTCCTAAAAATAGGATAGAA-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
*
6398246 -TAGGATTCAAACTCCTAAAAATAGGATAAAATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
6398281 GCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGA
6398313 GTTATACTAT
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
34 30 0.48
35 3 0.05
37 29 0.47
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (36 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
Found at i:6398739 original size:18 final size:16
Alignment explanation
Indices: 6398701--6398742 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
6398691 ATTATATGGA
6398701 TATT-TTATTCATTTT
1 TATTATTATTCATTTT
*
6398716 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TT-T
6398734 TATTATTAT
1 TATTATTAT
6398743 ATGTATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 3 0.14
16 8 0.36
17 2 0.09
18 9 0.41
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.69
Consensus pattern (16 bp):
TATTATTATTCATTTT
Found at i:6398832 original size:26 final size:26
Alignment explanation
Indices: 6398790--6398841 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
6398780 ATTTTTTTAC
*
6398790 TATATTTTATTATTATTATTA-TTATA
1 TATATTTTATTAATATT-TTACTTATA
6398816 TATATTTCT-TTAATATTTTACTTATA
1 TATATTT-TATTAATATTTTACTTATA
6398842 AGTCTAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 3 0.13
26 19 0.83
27 1 0.04
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (26 bp):
TATATTTTATTAATATTTTACTTATA
Found at i:6399047 original size:31 final size:31
Alignment explanation
Indices: 6399012--6399070 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
6399002 ATATATTTAT
* *
6399012 ATTATT-TTTTATTATTTTTGTTTTTTTATTC
1 ATTATTATTATATTATTATT-TTTTTTTATTC
6399043 ATTATTATTATATTATTATTTTTTTTTA
1 ATTATTATTATATTATTATTTTTTTTTA
6399071 AAAAACCTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 14 0.56
32 11 0.44
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.75
Consensus pattern (31 bp):
ATTATTATTATATTATTATTTTTTTTTATTC
Found at i:6399061 original size:21 final size:21
Alignment explanation
Indices: 6399008--6399062 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
6398998 CTTTATATAT
* * *
6399008 TTATATTATTTTTTATTATTT
1 TTATATTATTATTCATTATTA
* * *
6399029 TTGTTTTTTTATTCATTATTA
1 TTATATTATTATTCATTATTA
6399050 TTATATTATTATT
1 TTATATTATTATT
6399063 TTTTTTTAAA
Statistics
Matches: 25, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (21 bp):
TTATATTATTATTCATTATTA
Found at i:6399261 original size:2 final size:2
Alignment explanation
Indices: 6399254--6399289 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
6399244 TAATACTTTG
*
6399254 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6399290 TTCTTTTTCC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:6400879 original size:158 final size:157
Alignment explanation
Indices: 6400674--6400990 Score: 442
Period size: 158 Copynumber: 2.0 Consensus size: 157
6400664 CAAAAGTTAC
6400674 TTTCTAAAAAACCATGAAATTATTAAAATTCTAAAAAAAACACCTTAAATTCCAGAAAATCTCAA
1 TTTCTAAAAAACCATGAAATTATTAAAATTCTAAAAAAAACACCTTAAATTCCAGAAAATCTCAA
* * * * *
6400739 AAAACTCCTAAGTTTCTAAAAATTTCAAAAAAAAAAACATAAACTCTAAATCGTAATCCCTAAAA
66 AAAACTCCTAAATTCCAAAAAAATTC--AAAAAAAAACATAAACTCTAAATCATAATCCCTAAAA
*
6400804 ATCATAAGATTCA-TTTTTAGGGAGTTTA
129 ATCATAAGATTAATTTTTTAGGGAGTTTA
* ** * *
6400832 TTTCTAAAAAAACCCATGACATTATTAAAATT-T-CCAAAAATACCTTAAATTCTAGAAAATCTC
1 TTTCT-AAAAAA-CCATGAAATTATTAAAATTCTAAAAAAAACACCTTAAATTCCAGAAAATCTC
* *
6400895 AAAAAACTCCTAAATTCCAAAAAAATTCAAAAAAAATCATAAACTCTAAATCATAATCCCTAAAG
64 AAAAAACTCCTAAATTCCAAAAAAATTCAAAAAAAAACATAAACTCTAAATCATAATCCCTAAAA
*
6400960 TTCATAAGATTAATTTTTTTAGGGAGTTTA
129 ATCATAAGATTAA-TTTTTTAGGGAGTTTA
6400990 T
1 T
6400991 AATTTTTTGA
Statistics
Matches: 141, Mismatches: 14, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
156 45 0.32
158 71 0.50
159 7 0.05
160 18 0.13
ACGTcount: A:0.48, C:0.16, G:0.05, T:0.30
Consensus pattern (157 bp):
TTTCTAAAAAACCATGAAATTATTAAAATTCTAAAAAAAACACCTTAAATTCCAGAAAATCTCAA
AAAACTCCTAAATTCCAAAAAAATTCAAAAAAAAACATAAACTCTAAATCATAATCCCTAAAAAT
CATAAGATTAATTTTTTAGGGAGTTTA
Found at i:6401476 original size:16 final size:16
Alignment explanation
Indices: 6401455--6401499 Score: 81
Period size: 16 Copynumber: 2.8 Consensus size: 16
6401445 TAATAAATTA
*
6401455 ACGAACATAAACGATC
1 ACGAACATAAACGAAC
6401471 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
6401487 ACGAACATAAACG
1 ACGAACATAAACG
6401500 TTGGAGACCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.53, C:0.24, G:0.13, T:0.09
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:6406964 original size:315 final size:309
Alignment explanation
Indices: 6406386--6407009 Score: 1005
Period size: 315 Copynumber: 2.0 Consensus size: 309
6406376 GTAGTTACTG
* * * * * *
6406386 GTCAAACCTGTTTGTGTCTGCCTACGATGACCCTGTTATCGTTGATGTCTTCACTGATGGTATTT
1 GTCAAACCCGTTTCTGTCTGCCTACAATGACCCTGCTATCGTTGAAGTCTTCACTGATGGCATTT
* *
6406451 GTCTAGCGTCCAAGCTTCCTTACCCTCATGCTATTGTTGAAAGCGACACATCTAATTTGGTCACT
66 GTCTAGCGTCCAAGCTTCCTTACCCGCACGCTATTGTTGAAAGCGACACATCTAATTTGGTCACT
*
6406516 CAACTGGTTCATTGTCGGCAAGATTTTTCAGCGATCAGCTACCATCTTGTTGCAACAAAATAGCT
131 CAACTGGTTCATTGTCGCCAAGATTTTTCAGCGATCAGCTACCATCTTGTTGCAACAAAATAGCT
6406581 TCTCGCGGCCAATCCATATCCGGGGGCTCTATGTCTGGCGCACAGCTAATACTACAACCCACGCT
196 TCTCGCGGCCAATCCATATCCGGGGGCTCTATGTCTGGCGCACAGCTAATACTACAACCCACGCT
6406646 CGCTAGGCGGCATCTGCCAATACTACGTCTTGTACTTCTATTGTCCGGA
261 CGCTAGGCGGCATCTGCCAATACTACGTCTTGTACTTCTATTGTCCGGA
6406695 GTCAAACCCGTTTCTGTCTGCCTACAATGACCCTGCTATCGTTGAAGCCCTCACTGTCACTGATG
1 GTCAAACCCGTTTCTGTCTGCCTACAATGACCCTGCTATCGTTGAAG---T--CT-TCACTGATG
* * * *
6406760 GCATTTTTCTAGCGTCCAAGCTTCCTTATCCGCACGCTATTGTTGAAAGCGACGCTTCTAATTTG
60 GCATTTGTCTAGCGTCCAAGCTTCCTTACCCGCACGCTATTGTTGAAAGCGACACATCTAATTTG
* * *
6406825 GTCACTCAACTGTTTCATTGTCGCCAAGATTTTTCAGTGATCAGCTACCATCTTGTTGTAACAAA
125 GTCACTCAACTGGTTCATTGTCGCCAAGATTTTTCAGCGATCAGCTACCATCTTGTTGCAACAAA
* * *
6406890 ATAGCTTCTCGCGGCCAATCCATATCCGGGTGCTCTATGTCTGGCGCGCAGCTAATACTACAGCC
190 ATAGCTTCTCGCGGCCAATCCATATCCGGGGGCTCTATGTCTGGCGCACAGCTAATACTACAACC
* *
6406955 CAGGCTCGCTGGGCGGCATCTGCCAATACTACGTCTTGTACTTCTATTGTCCGGA
255 CACGCTCGCTAGGCGGCATCTGCCAATACTACGTCTTGTACTTCTATTGTCCGGA
6407010 ATATATTTCG
Statistics
Matches: 288, Mismatches: 21, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
309 42 0.15
312 1 0.00
314 2 0.01
315 243 0.84
ACGTcount: A:0.21, C:0.28, G:0.20, T:0.31
Consensus pattern (309 bp):
GTCAAACCCGTTTCTGTCTGCCTACAATGACCCTGCTATCGTTGAAGTCTTCACTGATGGCATTT
GTCTAGCGTCCAAGCTTCCTTACCCGCACGCTATTGTTGAAAGCGACACATCTAATTTGGTCACT
CAACTGGTTCATTGTCGCCAAGATTTTTCAGCGATCAGCTACCATCTTGTTGCAACAAAATAGCT
TCTCGCGGCCAATCCATATCCGGGGGCTCTATGTCTGGCGCACAGCTAATACTACAACCCACGCT
CGCTAGGCGGCATCTGCCAATACTACGTCTTGTACTTCTATTGTCCGGA
Found at i:6409700 original size:20 final size:20
Alignment explanation
Indices: 6409675--6409717 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
6409665 CATGAGCAAT
*
6409675 TTGAAAGTAGAGTAATTAAA
1 TTGAAAGTAGAGCAATTAAA
* *
6409695 TTGAAATTTGAGCAATTAAA
1 TTGAAAGTAGAGCAATTAAA
6409715 TTG
1 TTG
6409718 GAAATTTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.44, C:0.02, G:0.19, T:0.35
Consensus pattern (20 bp):
TTGAAAGTAGAGCAATTAAA
Found at i:6414588 original size:15 final size:16
Alignment explanation
Indices: 6414551--6414588 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
6414541 GTCAAACAAT
6414551 TATTTTTAACGAAAAA
1 TATTTTTAACGAAAAA
6414567 T-TCTTTTAAC-AAAAA
1 TAT-TTTTAACGAAAAA
6414582 TATTTTT
1 TATTTTT
6414589 CGAAGCATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (16 bp):
TATTTTTAACGAAAAA
Found at i:6416696 original size:2 final size:2
Alignment explanation
Indices: 6416689--6416724 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
6416679 TGTTTATTTA
*
6416689 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6416725 GTATGTATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6416729 original size:4 final size:4
Alignment explanation
Indices: 6416722--6416901 Score: 333
Period size: 4 Copynumber: 45.0 Consensus size: 4
6416712 TATGTATATA
6416722 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
6416770 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * *
6416818 TATA TGTA TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
6416866 TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG
6416902 GTTATAATGA
Statistics
Matches: 172, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
4 172 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:6417916 original size:27 final size:26
Alignment explanation
Indices: 6417882--6417968 Score: 124
Period size: 26 Copynumber: 3.3 Consensus size: 26
6417872 TTTTTTTCAC
*
6417882 TTTTCTTTTAT-ATTCTTTTTTCATTT
1 TTTTCCTTTATAATT-TTTTTTCATTT
*
6417908 TTTTCCTTTATAAATTTTTTTCATTT
1 TTTTCCTTTATAATTTTTTTTCATTT
6417934 TTTTCCTTTATAATTTTTTTTTCA-TT
1 TTTTCCTTTATAA-TTTTTTTTCATTT
6417960 TTTTCCTTT
1 TTTTCCTTT
6417969 CTCCTTCTAA
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
26 45 0.80
27 11 0.20
ACGTcount: A:0.14, C:0.13, G:0.00, T:0.74
Consensus pattern (26 bp):
TTTTCCTTTATAATTTTTTTTCATTT
Found at i:6419874 original size:15 final size:15
Alignment explanation
Indices: 6419854--6419925 Score: 72
Period size: 15 Copynumber: 4.8 Consensus size: 15
6419844 AGTGGGCGGA
*
6419854 CGGATGTGGGGTAGG
1 CGGATGTGGGGTACG
* *
6419869 CGGATGCGGGGCACG
1 CGGATGTGGGGTACG
*
6419884 CGGATGTGGGGTAGG
1 CGGATGTGGGGTACG
* * *
6419899 CGAATGCGGGTTACG
1 CGGATGTGGGGTACG
*
6419914 CAGATGTGGGGT
1 CGGATGTGGGGT
6419926 GGATCCGAGG
Statistics
Matches: 43, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
15 43 1.00
ACGTcount: A:0.15, C:0.14, G:0.53, T:0.18
Consensus pattern (15 bp):
CGGATGTGGGGTACG
Found at i:6419890 original size:30 final size:30
Alignment explanation
Indices: 6419854--6419925 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
6419844 AGTGGGCGGA
*
6419854 CGGATGTGGGGTAGGCGGATGCGGGGCACG
1 CGGATGTGGGGTAGGCGAATGCGGGGCACG
**
6419884 CGGATGTGGGGTAGGCGAATGCGGGTTACG
1 CGGATGTGGGGTAGGCGAATGCGGGGCACG
*
6419914 CAGATGTGGGGT
1 CGGATGTGGGGT
6419926 GGATCCGAGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.15, C:0.14, G:0.53, T:0.18
Consensus pattern (30 bp):
CGGATGTGGGGTAGGCGAATGCGGGGCACG
Found at i:6420355 original size:21 final size:20
Alignment explanation
Indices: 6420331--6420376 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
6420321 AATATGTAAA
6420331 TCGCATTGCAATTTTCCAAAT
1 TCGCATTGCAA-TTTCCAAAT
* * *
6420352 TCGCGTTGCGATTTCCAATT
1 TCGCATTGCAATTTCCAAAT
6420372 TCGCA
1 TCGCA
6420377 ACTTAGTTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (20 bp):
TCGCATTGCAATTTCCAAAT
Found at i:6420386 original size:20 final size:20
Alignment explanation
Indices: 6420363--6420418 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
6420353 CGCGTTGCGA
*
6420363 TTTCCAATTTCGCAACTTAG
1 TTTCCAATTTCGCAACTCAG
6420383 TTTCCAATTTCGCAACTCAG
1 TTTCCAATTTCGCAACTCAG
*
6420403 TTTCCAAATTCGCAAC
1 TTTCCAATTTCGCAAC
6420419 ACTGAATTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.27, C:0.29, G:0.09, T:0.36
Consensus pattern (20 bp):
TTTCCAATTTCGCAACTCAG
Found at i:6420454 original size:41 final size:41
Alignment explanation
Indices: 6420388--6420519 Score: 155
Period size: 40 Copynumber: 3.3 Consensus size: 41
6420378 CTTAGTTTCC
** *
6420388 AATTTCGCAACTC-AGTTTCCAAATTCGCAACACTGAATTTC
1 AATTTCGCAACTCGA-TTTCTGAATTCGCAACACTGAATTTT
* *
6420429 AAATTCGCAACTCGATTTCTGAATTCGCAAC-GTGAATTTT
1 AATTTCGCAACTCGATTTCTGAATTCGCAACACTGAATTTT
**
6420469 GTTTTCGCAACTCGATTT-TCGAATTCGCAACAC-GAATTTT
1 AATTTCGCAACTCGATTTCT-GAATTCGCAACACTGAATTTT
6420509 AATTTCGCAAC
1 AATTTCGCAAC
6420520 ACAAATGTTT
Statistics
Matches: 77, Mismatches: 11, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.01
40 49 0.64
41 26 0.34
42 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (41 bp):
AATTTCGCAACTCGATTTCTGAATTCGCAACACTGAATTTT
Found at i:6420455 original size:20 final size:20
Alignment explanation
Indices: 6420391--6420499 Score: 75
Period size: 20 Copynumber: 5.4 Consensus size: 20
6420381 AGTTTCCAAT
**
6420391 TTCGCAACTC-AGTTTCCAAA
1 TTCGCAACTCGA-TTTCTGAA
* *
6420411 TTCGCAACACTGAATTTC-AAA
1 TTCGCAACTC-G-ATTTCTGAA
6420432 TTCGCAACTCGATTTCTGAA
1 TTCGCAACTCGATTTCTGAA
**
6420452 TTCGCAACGT-GAATTT-TGTT
1 TTCGCAAC-TCG-ATTTCTGAA
6420472 TTCGCAACTCGATTT-TCGAA
1 TTCGCAACTCGATTTCT-GAA
6420492 TTCGCAAC
1 TTCGCAAC
6420500 ACGAATTTTA
Statistics
Matches: 74, Mismatches: 7, Indels: 16
0.76 0.07 0.16
Matches are distributed among these distances:
19 11 0.15
20 41 0.55
21 17 0.23
22 4 0.05
23 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.34
Consensus pattern (20 bp):
TTCGCAACTCGATTTCTGAA
Found at i:6420515 original size:20 final size:19
Alignment explanation
Indices: 6420409--6420521 Score: 77
Period size: 20 Copynumber: 5.6 Consensus size: 19
6420399 TCAGTTTCCA
*
6420409 AATTCGCAACACTGAATTTCA
1 AATTCGCAACAC-GAATTT-T
*
6420430 AATTCGCAACTCG-ATTTCT
1 AATTCGCAACACGAATTT-T
**
6420449 GAATTCGCAACGTGAATTTT
1 -AATTCGCAACACGAATTTT
** *
6420469 GTTTTCGCAACTCG-ATTTT
1 -AATTCGCAACACGAATTTT
6420488 CGAATTCGCAACACGAATTTT
1 --AATTCGCAACACGAATTTT
6420509 AATTTCGCAACAC
1 AA-TTCGCAACAC
6420522 AAATGTTTTG
Statistics
Matches: 76, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
19 12 0.16
20 44 0.58
21 20 0.26
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (19 bp):
AATTCGCAACACGAATTTT
Found at i:6424237 original size:64 final size:64
Alignment explanation
Indices: 6424136--6424287 Score: 207
Period size: 64 Copynumber: 2.4 Consensus size: 64
6424126 AATTTAAAAC
* * * *
6424136 AACAAATCAACTTTTACAAATTAATTAAACAAGCAAAAACTAAGAATTATTTACAT-ATCAATTA
1 AACAAATCAACTTTTACAAATCAATGAAACAAACAAAAAATAAGAATTATTT-CATCATCAATTA
*** *
6424200 AACAAATCAACTTTTACAAATCAATGAAACAAACAAAAAATAATTCTTATTTCCTCATCAATTA
1 AACAAATCAACTTTTACAAATCAATGAAACAAACAAAAAATAAGAATTATTTCATCATCAATTA
*
6424264 AACATATCAACTTTTACAAATCAA
1 AACAAATCAACTTTTACAAATCAA
6424288 CTTTTACAAA
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
63 2 0.03
64 76 0.97
ACGTcount: A:0.51, C:0.17, G:0.02, T:0.30
Consensus pattern (64 bp):
AACAAATCAACTTTTACAAATCAATGAAACAAACAAAAAATAAGAATTATTTCATCATCAATTA
Found at i:6424288 original size:14 final size:14
Alignment explanation
Indices: 6424269--6424298 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
6424259 AATTAAACAT
6424269 ATCAACTTTTACAA
1 ATCAACTTTTACAA
6424283 ATCAACTTTTACAA
1 ATCAACTTTTACAA
6424297 AT
1 AT
6424299 ACATCAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (14 bp):
ATCAACTTTTACAA
Found at i:6425665 original size:21 final size:21
Alignment explanation
Indices: 6425639--6425753 Score: 106
Period size: 21 Copynumber: 5.5 Consensus size: 21
6425629 GTGAATCGGG
*
6425639 CTCTTGAACGGTGGGAGAGAC
1 CTCTTGAACGGTGGGAGAGGC
* **
6425660 CTCTTGAACGATGACAGAGGC
1 CTCTTGAACGGTGGGAGAGGC
*
6425681 CTCTTGAACGGCGGGAGAGGC
1 CTCTTGAACGGTGGGAGAGGC
** *
6425702 CTCTTGAA-GGATGATAGGGGC
1 CTCTTGAACGG-TGGGAGAGGC
* * * *
6425723 CTTTTGAACGATAGGAAAGGC
1 CTCTTGAACGGTGGGAGAGGC
6425744 CTCTTGAACG
1 CTCTTGAACG
6425754 ATGACAGGTG
Statistics
Matches: 72, Mismatches: 20, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
20 2 0.03
21 69 0.96
22 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGAGGC
Found at i:6425698 original size:42 final size:42
Alignment explanation
Indices: 6425639--6425760 Score: 163
Period size: 42 Copynumber: 2.9 Consensus size: 42
6425629 GTGAATCGGG
*
6425639 CTCTTGAACGGTGGGAGAGACCTCTTGAACGATGACAGAGGC
1 CTCTTGAACGGTGGGAGAGGCCTCTTGAACGATGACAGAGGC
* * * *
6425681 CTCTTGAACGGCGGGAGAGGCCTCTTGAAGGATGATAGGGGC
1 CTCTTGAACGGTGGGAGAGGCCTCTTGAACGATGACAGAGGC
* * * *
6425723 CTTTTGAACGATAGGAAAGGCCTCTTGAACGATGACAG
1 CTCTTGAACGGTGGGAGAGGCCTCTTGAACGATGACAG
6425761 GTGAATCGGG
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 68 1.00
ACGTcount: A:0.26, C:0.20, G:0.34, T:0.20
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGAGGCCTCTTGAACGATGACAGAGGC
Found at i:6427892 original size:19 final size:19
Alignment explanation
Indices: 6427870--6427972 Score: 136
Period size: 19 Copynumber: 5.4 Consensus size: 19
6427860 TCTGAAACTT
6427870 AAAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
* *
6427889 AAAATCGCAATGCGTAATG
1 AAAATCGCAACGCGAAATG
* *
6427908 CAAATCGCAACGCGTAATG
1 AAAATCGCAACGCGAAATG
*
6427927 AAAATCGCAACTCGAAATG
1 AAAATCGCAACGCGAAATG
*
6427946 AAAATCGCAATGCGAAACT-
1 AAAATCGCAACGCGAAA-TG
6427965 AAAATCGC
1 AAAATCGC
6427973 CTTGCGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
19 73 0.99
20 1 0.01
ACGTcount: A:0.45, C:0.21, G:0.18, T:0.16
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:6428368 original size:22 final size:22
Alignment explanation
Indices: 6428338--6428381 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
6428328 GATGGATATA
* *
6428338 GATGGATTTCGCCGGAGATGGG
1 GATGAATTTCGCCAGAGATGGG
*
6428360 GATGAATTTCGTCAGAGATGGG
1 GATGAATTTCGCCAGAGATGGG
6428382 TACAGATATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.11, G:0.41, T:0.25
Consensus pattern (22 bp):
GATGAATTTCGCCAGAGATGGG
Found at i:6428513 original size:19 final size:20
Alignment explanation
Indices: 6428491--6428528 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
6428481 AATATTGTGT
6428491 TTCGAATT-CGAAAATAAAA
1 TTCGAATTCCGAAAATAAAA
**
6428510 TTCGCGTTCCGAAAATAAA
1 TTCGAATTCCGAAAATAAA
6428529 CGCGCTTTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.26
Consensus pattern (20 bp):
TTCGAATTCCGAAAATAAAA
Found at i:6428577 original size:20 final size:20
Alignment explanation
Indices: 6428554--6428598 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
6428544 TGATTTCTGT
6428554 GTTGCAAATTACAGATTCAC
1 GTTGCAAATTACAGATTCAC
* * * *
6428574 GTTGCGATTTACATATTCGC
1 GTTGCAAATTACAGATTCAC
6428594 GTTGC
1 GTTGC
6428599 GTTTTACATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (20 bp):
GTTGCAAATTACAGATTCAC
Found at i:6428599 original size:20 final size:20
Alignment explanation
Indices: 6428562--6428617 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
6428552 GTGTTGCAAA
* *
6428562 TTACAGATTCACGTTGCGAT
1 TTACATATTCGCGTTGCGAT
*
6428582 TTACATATTCGCGTTGCGTT
1 TTACATATTCGCGTTGCGAT
6428602 TTACATATTCGCGTTG
1 TTACATATTCGCGTTG
6428618 TAAATTTGGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.41
Consensus pattern (20 bp):
TTACATATTCGCGTTGCGAT
Found at i:6440019 original size:63 final size:63
Alignment explanation
Indices: 6439916--6440048 Score: 155
Period size: 63 Copynumber: 2.1 Consensus size: 63
6439906 CCTAATGTGA
* * * * *
6439916 CTCTTAGGTAGGCTCTACGGCCCTGAGATTATTCTCGGGTAGGCCCTGC-GGCCCTAAGATGTGT
1 CTCTTAGATAGGCCCCACGGCCCCGAAATTATTCTCGGGTAGGCCCT-CAGGCCCTAAGATGT-T
* *
6439980 -TCTTAGATAGGCCCCACGGCCCCGAAATCTA-TCTTGGGTAGGCTCTCAGGCCCTAAGATGTT
1 CTCTTAGATAGGCCCCACGGCCCCGAAAT-TATTCTCGGGTAGGCCCTCAGGCCCTAAGATGTT
6440042 CTCTTAG
1 CTCTTAG
6440049 GTTAACTCTT
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
62 2 0.03
63 55 0.93
64 2 0.03
ACGTcount: A:0.18, C:0.28, G:0.26, T:0.28
Consensus pattern (63 bp):
CTCTTAGATAGGCCCCACGGCCCCGAAATTATTCTCGGGTAGGCCCTCAGGCCCTAAGATGTT
Found at i:6444178 original size:23 final size:23
Alignment explanation
Indices: 6444143--6444187 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
6444133 GTGTGATAGT
6444143 ATTTTAATCTTAATTCATATTAA
1 ATTTTAATCTTAATTCATATTAA
*
6444166 ATTTTAAGT-TTAATTGATATTA
1 ATTTTAA-TCTTAATTCATATTA
6444188 GTTTATATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.53
Consensus pattern (23 bp):
ATTTTAATCTTAATTCATATTAA
Found at i:6449665 original size:31 final size:30
Alignment explanation
Indices: 6449579--6449665 Score: 86
Period size: 30 Copynumber: 2.9 Consensus size: 30
6449569 GTGATACATC
* **
6449579 AACTTTGATTTGGAACAATTATACACTCGA
1 AACTTTGATTTTGTTCAATTATACACTCGA
*
6449609 AACTTTGATTTTGTTCAATTTTACACAT-GA
1 AACTTTGATTTTGTTCAATTATACAC-TCGA
* * *
6449639 AATTTTGGTTTTGATTCAATTCTACAC
1 AACTTTGATTTTG-TTCAATTATACAC
6449666 GTTTTATAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
30 35 0.73
31 13 0.27
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.43
Consensus pattern (30 bp):
AACTTTGATTTTGTTCAATTATACACTCGA
Found at i:6462055 original size:6 final size:6
Alignment explanation
Indices: 6462044--6462071 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
6462034 TTTATCTTCT
6462044 TCTACC TCTACC TCTACC TCTACC TCTA
1 TCTACC TCTACC TCTACC TCTACC TCTA
6462072 GGGTTCAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.46, G:0.00, T:0.36
Consensus pattern (6 bp):
TCTACC
Found at i:6476586 original size:68 final size:68
Alignment explanation
Indices: 6476503--6476638 Score: 238
Period size: 68 Copynumber: 2.0 Consensus size: 68
6476493 GCGTAAGCAA
* *
6476503 GTAAATTTAAGAGCCATCATAACTTAGAACATTACAGAAGCAA-CTTGCAATCATCCACGCTAAA
1 GTAAATTTAAGAGCCAGCACAACTTAGAACATTACAGAAG-AACCTTGCAATCATCCACGCTAAA
6476567 CTCT
65 CTCT
6476571 GTAAATTTAAGAGCCAGCACAACTTAGAACATTACAGAAGAACCTTGCAATCATCCACGCTAAAC
1 GTAAATTTAAGAGCCAGCACAACTTAGAACATTACAGAAGAACCTTGCAATCATCCACGCTAAAC
6476636 TCT
66 TCT
6476639 ATTAGGAAGC
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
67 2 0.03
68 63 0.97
ACGTcount: A:0.40, C:0.24, G:0.12, T:0.24
Consensus pattern (68 bp):
GTAAATTTAAGAGCCAGCACAACTTAGAACATTACAGAAGAACCTTGCAATCATCCACGCTAAAC
TCT
Found at i:6481527 original size:20 final size:20
Alignment explanation
Indices: 6481502--6481672 Score: 189
Period size: 20 Copynumber: 8.4 Consensus size: 20
6481492 TTTAGAAGAA
**
6481502 AATCGCAATGCGATTGATTG
1 AATCGCAATGCGATTGAGAG
* *
6481522 AATCGCAATGCGATTTATAG
1 AATCGCAATGCGATTGAGAG
6481542 AATCGCAATGCGATTGAGAG
1 AATCGCAATGCGATTGAGAG
* * *
6481562 AGTCGCAACGCGATTTAGAAGAA
1 AATCGCAATGCGA-TT-G-AGAG
*
6481585 AATCGCAATGCGACTGAGAG
1 AATCGCAATGCGATTGAGAG
* *
6481605 AATCGCAATGCGACTGATAG
1 AATCGCAATGCGATTGAGAG
*
6481625 AATCGCAATGCAATTGAGAG
1 AATCGCAATGCGATTGAGAG
* * *
6481645 AATCGCAACGCGATTTAGAA
1 AATCGCAATGCGATTGAGAG
6481665 AATCGCAA
1 AATCGCAA
6481673 CGTTAAAAAG
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
20 110 0.85
21 3 0.02
22 2 0.02
23 14 0.11
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.21
Consensus pattern (20 bp):
AATCGCAATGCGATTGAGAG
Found at i:6481555 original size:40 final size:40
Alignment explanation
Indices: 6481481--6481672 Score: 213
Period size: 40 Copynumber: 4.7 Consensus size: 40
6481471 GCTTCCAAGT
* **
6481481 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGATTGAA
1 TCGCAACGCGATTTA-TAG--AATCGCAATGCGATTGAGAGAA
* *
6481524 TCGCAATGCGATTTATAGAATCGCAATGCGATTGAGAGAG
1 TCGCAACGCGATTTATAGAATCGCAATGCGATTGAGAGAA
* *
6481564 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAA
1 TCGCAACGCGATTTA-TAG--AATCGCAATGCGATTGAGAGAA
* * * *
6481607 TCGCAATGCGACTGATAGAATCGCAATGCAATTGAGAGAA
1 TCGCAACGCGATTTATAGAATCGCAATGCGATTGAGAGAA
* *
6481647 TCGCAACGCGATTTAGAAAATCGCAA
1 TCGCAACGCGATTTATAGAATCGCAA
6481673 CGTTAAAAAG
Statistics
Matches: 126, Mismatches: 20, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
40 74 0.59
41 2 0.02
42 4 0.03
43 46 0.37
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (40 bp):
TCGCAACGCGATTTATAGAATCGCAATGCGATTGAGAGAA
Found at i:6481589 original size:83 final size:83
Alignment explanation
Indices: 6481481--6481664 Score: 305
Period size: 83 Copynumber: 2.2 Consensus size: 83
6481471 GCTTCCAAGT
* ** * *
6481481 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGATTGAATCGCAATGCGATTTATAGAATC
1 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGATAGAATC
* *
6481546 GCAATGCGATTGAGAGAG
66 GCAATGCAATTGAGAGAA
6481564 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGATAGAATC
1 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGATAGAATC
6481629 GCAATGCAATTGAGAGAA
66 GCAATGCAATTGAGAGAA
6481647 TCGCAACGCGATTTAGAA
1 TCGCAACGCGATTTAGAA
6481665 AATCGCAACG
Statistics
Matches: 94, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
83 94 1.00
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.21
Consensus pattern (83 bp):
TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGATAGAATC
GCAATGCAATTGAGAGAA
Found at i:6481673 original size:20 final size:20
Alignment explanation
Indices: 6481397--6481674 Score: 112
Period size: 20 Copynumber: 13.6 Consensus size: 20
6481387 AATGACCAAT
* *
6481397 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATTTAG
** ***
6481416 AAAATCGCAACGTTAAAAAG
1 AAAATCGCAACGCGATTTAG
*
6481436 AAAATCGCAACG-G-TCATAAG
1 AAAATCGCAACGCGAT--TTAG
* **
6481456 AAAATCGCAACGCGAGCTTCC
1 AAAATCGCAACGCGA-TTTAG
**
6481477 AAGTTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGATTT---AG
* * *
6481500 AAAATCGCAATGCGATTGAT
1 AAAATCGCAACGCGATTTAG
** * *
6481520 TGAATCGCAATGCGATTTAT
1 AAAATCGCAACGCGATTTAG
* * *
6481540 AGAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTTAG
* *
6481560 AGAGTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGATTT---AG
* * *
6481583 AAAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTTAG
* * * * *
6481603 AGAATCGCAATGCGACTGAT
1 AAAATCGCAACGCGATTTAG
* * * *
6481623 AGAATCGCAATGCAATTGAG
1 AAAATCGCAACGCGATTTAG
*
6481643 AGAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
6481663 AAAATCGCAACG
1 AAAATCGCAACG
6481675 TTAAAAAGAA
Statistics
Matches: 202, Mismatches: 45, Indels: 23
0.75 0.17 0.09
Matches are distributed among these distances:
19 14 0.07
20 144 0.71
21 15 0.07
23 29 0.14
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.19
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTAG
Found at i:6482526 original size:6 final size:6
Alignment explanation
Indices: 6482507--6482539 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
6482497 TCTCGGGTCA
*
6482507 GGTCGT GGTTGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
6482540 AATACGTGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.12, G:0.52, T:0.36
Consensus pattern (6 bp):
GGTCGT
Found at i:6482642 original size:20 final size:20
Alignment explanation
Indices: 6482617--6482656 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
6482607 TTTTTAACTA
6482617 TTCTTTTGACCGTTGCGATT
1 TTCTTTTGACCGTTGCGATT
* *
6482637 TTCTTTTTAGCGTTGCGATT
1 TTCTTTTGACCGTTGCGATT
6482657 CTCTCAATCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.10, C:0.17, G:0.20, T:0.53
Consensus pattern (20 bp):
TTCTTTTGACCGTTGCGATT
Found at i:6482672 original size:20 final size:20
Alignment explanation
Indices: 6482649--6482799 Score: 203
Period size: 20 Copynumber: 7.4 Consensus size: 20
6482639 CTTTTTAGCG
6482649 TTGCGATTCTCTCAATCGCA
1 TTGCGATTCTCTCAATCGCA
*
6482669 TTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTCTCAATCGCA
*
6482689 TTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTCTCAATCGCA
* *
6482709 TTGCGAATCTCTCAGTCGCA
1 TTGCGATTCTCTCAATCGCA
*
6482729 TTGCGATTCTCTTCTAAATCGCG
1 TTGCGATTCTC-TC--AATCGCA
*
6482752 TTGCGACTCTCTCAATCGCA
1 TTGCGATTCTCTCAATCGCA
**
6482772 TTGCGATTCAATCAATCGCA
1 TTGCGATTCTCTCAATCGCA
6482792 TTGCGATT
1 TTGCGATT
6482800 TTCTTCTAAA
Statistics
Matches: 118, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
20 99 0.84
21 2 0.02
22 2 0.02
23 15 0.13
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.34
Consensus pattern (20 bp):
TTGCGATTCTCTCAATCGCA
Found at i:6482777 original size:63 final size:63
Alignment explanation
Indices: 6482649--6482820 Score: 242
Period size: 63 Copynumber: 2.8 Consensus size: 63
6482639 CTTTTTAGCG
* * * *
6482649 TTGCGATTCTCTCAATCGCATTGCGATTCTC-TC--AGTCGCATTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTCTCAATCGCATTGCGATTCTCTTCTAAATCGCGTTGCGACTCTCTCAATCGCA
* *
6482709 TTGCGAATCTCTCAGTCGCATTGCGATTCTCTTCTAAATCGCGTTGCGACTCTCTCAATCGCA
1 TTGCGATTCTCTCAATCGCATTGCGATTCTCTTCTAAATCGCGTTGCGACTCTCTCAATCGCA
** *
6482772 TTGCGATTCAATCAATCGCATTGCGATTTTCTTCTAAATCGCGTTGCGA
1 TTGCGATTCTCTCAATCGCATTGCGATTCTCTTCTAAATCGCGTTGCGA
6482821 ACTTGGAAGC
Statistics
Matches: 98, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
60 29 0.30
61 2 0.02
63 67 0.68
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (63 bp):
TTGCGATTCTCTCAATCGCATTGCGATTCTCTTCTAAATCGCGTTGCGACTCTCTCAATCGCA
Found at i:6482897 original size:20 final size:20
Alignment explanation
Indices: 6482627--6482943 Score: 120
Period size: 20 Copynumber: 15.6 Consensus size: 20
6482617 TTCTTTTGAC
*** *
6482627 CGTTGCGATTTTCTTTTTAG
1 CGTTGCGATTTTCTAAATCG
* *
6482647 CGTTGCGATTCTCTCAATCG
1 CGTTGCGATTTTCTAAATCG
* * * *
6482667 CATTGCGATTCTCTCAGTCG
1 CGTTGCGATTTTCTAAATCG
* * * *
6482687 CATTGCGATTCTCTCAGTCG
1 CGTTGCGATTTTCTAAATCG
* * * * *
6482707 CATTGCGAATCTCTCAGTCG
1 CGTTGCGATTTTCTAAATCG
*
6482727 CATTGCGATTCTCTTCTAAATCG
1 CGTTGCGA-T-T-TTCTAAATCG
* * *
6482750 CGTTGCGACTCTCTCAATCG
1 CGTTGCGATTTTCTAAATCG
* *** *
6482770 CATTGCGATTCAATCAATCG
1 CGTTGCGATTTTCTAAATCG
*
6482790 CATTGCGATTTTCTTCTAAATCG
1 CGTTGCGA--TT-TTCTAAATCG
** ** *
6482813 CGTTGCGAACTTGGAAGCTCG
1 CGTTGCGATTTTCTAA-ATCG
* *
6482834 CGTTGCGATTTTCT--TTTG
1 CGTTGCGATTTTCTAAATCG
*** **
6482852 ACCGTTGCGATTTTCTTTTTAA
1 --CGTTGCGATTTTCTAAATCG
6482874 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCTAAATCG
* *
6482894 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCTAAATCG
* *
6482913 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCTAAATCG
6482932 CGTTGCGATTTT
1 CGTTGCGATTTT
6482944 ATTGGTCATT
Statistics
Matches: 241, Mismatches: 45, Indels: 23
0.78 0.15 0.07
Matches are distributed among these distances:
18 2 0.01
19 36 0.15
20 157 0.65
21 14 0.06
22 5 0.02
23 27 0.11
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.39
Consensus pattern (20 bp):
CGTTGCGATTTTCTAAATCG
Found at i:6482914 original size:19 final size:19
Alignment explanation
Indices: 6482874--6482943 Score: 113
Period size: 19 Copynumber: 3.6 Consensus size: 19
6482864 TTCTTTTTAA
* *
6482874 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTT-GATATCG
6482894 CGTTGCGATTTTGATATCG
1 CGTTGCGATTTTGATATCG
6482913 CGTTGCGATTTTGATATCG
1 CGTTGCGATTTTGATATCG
6482932 CGTTGCGATTTT
1 CGTTGCGATTTT
6482944 ATTGGTCATT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
19 36 0.75
20 12 0.25
ACGTcount: A:0.16, C:0.17, G:0.24, T:0.43
Consensus pattern (19 bp):
CGTTGCGATTTTGATATCG
Found at i:6483645 original size:27 final size:27
Alignment explanation
Indices: 6483590--6483654 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
6483580 AAATAATGAA
*
6483590 AAAATAAATTAA-ATAAAAGATAAGAT
1 AAAATAAATAAAGATAAAAGATAAGAT
*
6483616 AAAGA-AAATAAAGATAAAATAGTAAG-T
1 AAA-ATAAATAAAGATAAAAGA-TAAGAT
6483643 AAAATAAATAAA
1 AAAATAAATAAA
6483655 AATATATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
26 10 0.30
27 19 0.58
28 4 0.12
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (27 bp):
AAAATAAATAAAGATAAAAGATAAGAT
Found at i:6483713 original size:13 final size:13
Alignment explanation
Indices: 6483695--6483724 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
6483685 AAAAGAAGAA
*
6483695 AAAACATATAAAT
1 AAAACAAATAAAT
6483708 AAAACAAATAAAT
1 AAAACAAATAAAT
6483721 AAAA
1 AAAA
6483725 TAATAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAACAAATAAAT
Found at i:6483745 original size:25 final size:26
Alignment explanation
Indices: 6483695--6483770 Score: 68
Period size: 26 Copynumber: 3.0 Consensus size: 26
6483685 AAAAGAAGAA
* * *
6483695 AAAACATATAAATAAAACAA-ATAAAT
1 AAAATATATATATAAAA-AATAAAAAT
6483721 AAAATA-ATA-ATAAAAAAGTAAAAAT
1 AAAATATATATATAAAAAA-TAAAAAT
* *
6483746 AATATATATATATAATAAATAAAAA
1 AAAATATATATATAAAAAATAAAAA
6483771 CATAAAAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
23 2 0.05
24 6 0.14
25 13 0.31
26 14 0.33
27 7 0.17
ACGTcount: A:0.72, C:0.03, G:0.01, T:0.24
Consensus pattern (26 bp):
AAAATATATATATAAAAAATAAAAAT
Found at i:6483796 original size:45 final size:46
Alignment explanation
Indices: 6483713--6483862 Score: 166
Period size: 45 Copynumber: 3.3 Consensus size: 46
6483703 TAAATAAAAC
*
6483713 AAATAAATAAAATAATAATAAAAAAGTAAAAATA-ATATATATATAT
1 AAATAAATAAAATAATAAT-AAAAAGTAAATATATATATATATATAT
6483759 -AATAAATAAAA-ACATAA-AAAATAGTAAATATATATATATATATAT
1 AAATAAATAAAATA-ATAATAAAA-AGTAAATATATATATATATATAT
* * * *
6483804 AAATTAATAAAATATATAATAAAAAATAACATATATATATGTA-ATCT
1 AAATAAATAAAATA-ATAATAAAAAGTAA-ATATATATATATATATAT
*
6483851 AAAAAAATAAAA
1 AAATAAATAAAA
6483863 ATATATATTA
Statistics
Matches: 89, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
43 4 0.04
44 10 0.11
45 27 0.30
46 10 0.11
47 22 0.25
48 16 0.18
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (46 bp):
AAATAAATAAAATAATAATAAAAAGTAAATATATATATATATATAT
Found at i:6483820 original size:19 final size:18
Alignment explanation
Indices: 6483717--6483842 Score: 59
Period size: 19 Copynumber: 6.9 Consensus size: 18
6483707 TAAAACAAAT
6483717 AAATAAAATA-ATAATAAA
1 AAATAAAATATAT-ATAAA
*
6483735 AAAGTAAAA-ATA-ATATAT
1 AAA-TAAAATATATATA-AA
* *
6483753 ATATATAATA-A-ATAAA
1 AAATAAAATATATATAAA
6483769 AACATAAAA-A-ATAGTAAA
1 AA-ATAAAATATATA-TAAA
* *
6483787 TATATATATATATATATAAA
1 -AAATA-AAATATATATAAA
*
6483807 TTAATAAAATATATAATAAA
1 -AAATAAAATATAT-ATAAA
*
6483827 AAATAACATATATATA
1 AAATAAAATATATATA
6483843 TGTAATCTAA
Statistics
Matches: 83, Mismatches: 13, Indels: 24
0.69 0.11 0.20
Matches are distributed among these distances:
16 4 0.05
17 17 0.20
18 18 0.22
19 27 0.33
20 14 0.17
21 3 0.04
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (18 bp):
AAATAAAATATATATAAA
Found at i:6483867 original size:46 final size:46
Alignment explanation
Indices: 6483717--6483867 Score: 134
Period size: 47 Copynumber: 3.3 Consensus size: 46
6483707 TAAAACAAAT
* *
6483717 AAAT-AAAATAATAATAAAA-AAGTAAAAATA-ATATATATATAT-AAT
1 AAATAAAAAT-ATAA-AAAATAA-TAAATATATATATATATATATAAAA
* * *
6483762 AAATAAAAACATAAAAAATAGTAAATATATATATATATATATAAAT
1 AAATAAAAATATAAAAAATAATAAATATATATATATATATATAAAA
* * *
6483808 TAATAAAATATATAATAAAA-AATAACATATATATATGTA-ATCTAAAA
1 AAATAAAA-ATATAA-AAAATAATAA-ATATATATATATATATATAAAA
6483855 AAATAAAAATATA
1 AAATAAAAATATA
6483868 TATTAAAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
44 11 0.12
45 21 0.24
46 19 0.21
47 22 0.25
48 16 0.18
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (46 bp):
AAATAAAAATATAAAAAATAATAAATATATATATATATATATAAAA
Found at i:6483881 original size:27 final size:28
Alignment explanation
Indices: 6483824--6483884 Score: 81
Period size: 26 Copynumber: 2.2 Consensus size: 28
6483814 AATATATAAT
* *
6483824 AAAAAATAACATATATATATGTAATCTA
1 AAAAAATAACAAATATATATGTAAACTA
*
6483852 AAAAAATAA-AAATATATAT-TAAAGTA
1 AAAAAATAACAAATATATATGTAAACTA
6483878 AAAAAAT
1 AAAAAAT
6483885 GAATAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 12 0.40
27 9 0.30
28 9 0.30
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (28 bp):
AAAAAATAACAAATATATATGTAAACTA
Found at i:6484439 original size:37 final size:37
Alignment explanation
Indices: 6484389--6484496 Score: 162
Period size: 37 Copynumber: 2.9 Consensus size: 37
6484379 TTGTGGATCA
*
6484389 TATTTTTAGGAGTTTGAATCATAGTAGAACTCTATCC
1 TATTTTTAGGAGTTTGAATCATAGTAAAACTCTATCC
* * *
6484426 TATTTTTAGGAGTTTGAGTCCTAGTAAAACTCTATCT
1 TATTTTTAGGAGTTTGAATCATAGTAAAACTCTATCC
* *
6484463 TATTTTTAGGAGTTCGAATCTTAGTAAAACTCTA
1 TATTTTTAGGAGTTTGAATCATAGTAAAACTCTA
6484497 ATGTTATGTT
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.42
Consensus pattern (37 bp):
TATTTTTAGGAGTTTGAATCATAGTAAAACTCTATCC
Found at i:6485169 original size:83 final size:84
Alignment explanation
Indices: 6485004--6485257 Score: 307
Period size: 83 Copynumber: 3.0 Consensus size: 84
6484994 ACTCGACAAT
* * * * * * * * *
6485004 TTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATGTTGTAAATTTGATTTG-CCTCGTAGTTGA
1 TTTGATGACAGATAACCCTTCTAGCATTGAGTTATGCTGCAAA--TGATGTGTCCTCGAAGCTGA
**
6485068 ATGTAATCGAACTCGAAGGTC
64 GCGTAATCGAACTCGAAGGTC
*
6485089 TTTGATGACAGATAACCCTTCTAGCATTGAGTTATGCTGCAAATGATGTG-CCTTTG-AGCTGAG
1 TTTGATGACAGATAACCCTTCTAGCATTGAGTTATGCTGCAAATGATGTGTCC-TCGAAGCTGAG
6485152 CGTAATCGAACTCGAAGGTC
65 CGTAATCGAACTCGAAGGTC
* * * *
6485172 TTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCGAATGATGTGTCCTCGAAGCTGAGT
1 TTTGATGACAGATAACCCTTCTAGCATTGAGTTATGCTGCAAATGATGTGTCCTCGAAGCTGAGC
*
6485237 TTAATCGAACTCGAAGGTC
66 GTAATCGAACTCGAAGGTC
6485256 TT
1 TT
6485258 AGGTTTCAAG
Statistics
Matches: 149, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
83 81 0.54
84 31 0.21
85 37 0.25
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (84 bp):
TTTGATGACAGATAACCCTTCTAGCATTGAGTTATGCTGCAAATGATGTGTCCTCGAAGCTGAGC
GTAATCGAACTCGAAGGTC
Found at i:6485457 original size:66 final size:64
Alignment explanation
Indices: 6485295--6485559 Score: 249
Period size: 67 Copynumber: 4.1 Consensus size: 64
6485285 TTTTTTTTTG
** * * * *
6485295 TGTTTCAAGAGAAACAATTTCAAAGGTGGCAAAATTTTGTTTCAAAAGAAACATATTCGAAGATT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTTGTTTCAAAAGAAACATATTC-AAGATT
6485360 T
64 T
* *
6485361 GTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTTGTTTC-AAGGAAAACATATTCACATA
1 -TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTTGTTTCAAAAG-AAACATATTCA-AGA
6485425 TTT
62 TTT
* * * *
6485428 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAAC--A---AA-ACTT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAAAGAAACATATTCAAGATTT
* * * * *
6485486 AGTTCCAAAAGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAAGAA-AAACAGATTCAAAGATT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAA-AAGAAACATATTC-AAGATT
6485550 T
64 T
6485551 TGTTTCAAG
1 TGTTTCAAG
6485560 GGAGACGAAA
Statistics
Matches: 162, Mismatches: 25, Indels: 24
0.77 0.12 0.11
Matches are distributed among these distances:
58 45 0.28
59 2 0.01
60 2 0.01
63 1 0.01
64 2 0.01
65 21 0.13
66 38 0.23
67 51 0.31
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (64 bp):
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAAAGAAACATATTCAAGATTT
Found at i:6485500 original size:22 final size:21
Alignment explanation
Indices: 6485456--6485500 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
6485446 CTCAAGAGAG
* * *
6485456 ACAAAATTTGTTTCAAGAGAA
1 ACAAAATTAGTTCCAAAAGAA
6485477 ACAAAACTTAGTTCCAAAAGAA
1 ACAAAA-TTAGTTCCAAAAGAA
6485499 AC
1 AC
6485501 TGTCTCAAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.51, C:0.16, G:0.11, T:0.22
Consensus pattern (21 bp):
ACAAAATTAGTTCCAAAAGAA
Found at i:6485559 original size:50 final size:50
Alignment explanation
Indices: 6485505--6485612 Score: 198
Period size: 50 Copynumber: 2.2 Consensus size: 50
6485495 AGAAACTGTC
*
6485505 TCAAGGGAGACGAAATTTGTTTCAAGAAAAACAGATTCAAAGATTTTGTT
1 TCAAGGGAGACGAAATTTGTTTCAAGAAAAACAGATTCAAAGATTTTATT
*
6485555 TCAAGGGAGACGAAATTTGTTTCAAGGAAAACAGATTCAAAGATTTTATT
1 TCAAGGGAGACGAAATTTGTTTCAAGAAAAACAGATTCAAAGATTTTATT
6485605 TCAAGGGA
1 TCAAGGGA
6485613 AACTGTCTCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
50 56 1.00
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (50 bp):
TCAAGGGAGACGAAATTTGTTTCAAGAAAAACAGATTCAAAGATTTTATT
Found at i:6485677 original size:36 final size:36
Alignment explanation
Indices: 6485603--6485820 Score: 307
Period size: 36 Copynumber: 6.1 Consensus size: 36
6485593 AAAGATTTTA
*
6485603 TTTCAAGGGAAACTGTCTCAAGAGAGAC--AATTTG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTG
* * * *
6485637 TTTCAAGAAAAACTGTCTTAAGGGAAACAAAATTTG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTG
* *
6485673 TTTCAA-AGGAAATTATCTCAAGAGAGACAAAATTTG
1 TTTCAAGA-GAAACTGTCTCAAGAGAGACAAAATTTG
*
6485709 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTG
*
6485745 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTG
*
6485781 TTTCAAGAGAAATTGTCTCAAGAGAGACAAAACTTTG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTTG
6485818 TTT
1 TTT
6485821 TGAGTAAATT
Statistics
Matches: 163, Mismatches: 16, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
34 23 0.14
35 1 0.01
36 132 0.81
37 7 0.04
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.28
Consensus pattern (36 bp):
TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTG
Found at i:6485793 original size:108 final size:107
Alignment explanation
Indices: 6485603--6485820 Score: 341
Period size: 108 Copynumber: 2.0 Consensus size: 107
6485593 AAAGATTTTA
* *
6485603 TTTCAAGGGAAACTGTCTCAAGAGAGACAATTTGTTTCAAGAAAAACTGTCTTAAGGGAAACAAA
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAATTTGTTTCAAGAAAAACTGTCTCAAGAGAAACAAA
6485668 ATTTGTTTCAAAGGAAATTATCTCAAGAGAGACAAAA-TTTG
66 ATTTGTTTCAAAGGAAATTATCTCAAGAGAGACAAAACTTTG
** *
6485709 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACA
1 TTTCAAGGGAAACTGTCTCAAGAGAGAC--AATTTGTTTCAAGAAAAACTGTCTCAAGAGAAACA
*
6485774 AAATTTGTTTC-AAGAGAAATTGTCTCAAGAGAGACAAAACTTTG
64 AAATTTGTTTCAAAG-GAAATTATCTCAAGAGAGACAAAACTTTG
6485818 TTT
1 TTT
6485821 TGAGTAAATT
Statistics
Matches: 102, Mismatches: 6, Indels: 5
0.90 0.05 0.04
Matches are distributed among these distances:
106 28 0.27
107 3 0.03
108 64 0.63
109 7 0.07
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.28
Consensus pattern (107 bp):
TTTCAAGGGAAACTGTCTCAAGAGAGACAATTTGTTTCAAGAAAAACTGTCTCAAGAGAAACAAA
ATTTGTTTCAAAGGAAATTATCTCAAGAGAGACAAAACTTTG
Found at i:6486240 original size:32 final size:32
Alignment explanation
Indices: 6486199--6486280 Score: 146
Period size: 32 Copynumber: 2.6 Consensus size: 32
6486189 GGCACGATAT
6486199 CCTTCGTCGTGAAGTTGAAATCGTGGATGACC
1 CCTTCGTCGTGAAGTTGAAATCGTGGATGACC
*
6486231 CCTTCGTCGTGAAGTTAAAATCGTGGATGACC
1 CCTTCGTCGTGAAGTTGAAATCGTGGATGACC
*
6486263 CCTTCGTTGTGAAGTTGA
1 CCTTCGTCGTGAAGTTGA
6486281 GTCTTGACTT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (32 bp):
CCTTCGTCGTGAAGTTGAAATCGTGGATGACC
Found at i:6487822 original size:17 final size:15
Alignment explanation
Indices: 6487800--6487879 Score: 58
Period size: 17 Copynumber: 5.1 Consensus size: 15
6487790 ATGTTTCTTG
6487800 TCTTTTTTCTTCGTTTT
1 TCTTTTTTC-TC-TTTT
*
6487817 TCTTTTGTT-TTTGTTT
1 TCTTTT-TTCTCT-TTT
6487833 CTCTTTTTTC-CTTTT
1 -TCTTTTTTCTCTTTT
*
6487848 TCCTTTTTC-CTTTT
1 TCTTTTTTCTCTTTT
6487862 TCATTTTTTCTGCTTTT
1 TC-TTTTTTCT-CTTTT
6487879 T
1 T
6487880 TGTTTTTTTA
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
14 15 0.29
15 10 0.19
16 7 0.13
17 18 0.35
18 2 0.04
ACGTcount: A:0.01, C:0.19, G:0.05, T:0.75
Consensus pattern (15 bp):
TCTTTTTTCTCTTTT
Found at i:6487849 original size:7 final size:7
Alignment explanation
Indices: 6487837--6487869 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
6487827 TTGTTTCTCT
6487837 TTTTTCC
1 TTTTTCC
6487844 TTTTTCC
1 TTTTTCC
6487851 TTTTTCC
1 TTTTTCC
*
6487858 TTTTTCA
1 TTTTTCC
6487865 TTTTT
1 TTTTT
6487870 TCTGCTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTCC
Found at i:6490968 original size:33 final size:34
Alignment explanation
Indices: 6490927--6491010 Score: 102
Period size: 34 Copynumber: 2.5 Consensus size: 34
6490917 TAAAATAAAT
*
6490927 AAAA-ATATATATA-AAAATAAAGAAAAAGAAG-A
1 AAAATATATATATATAAAACAAAGAAAAA-AAGTA
* *
6490959 AAAATATATATAAATAAAACAAATAAAAAAAGTA
1 AAAATATATATATATAAAACAAAGAAAAAAAGTA
6490993 AAAATAATATATATATAA
1 AAAAT-ATATATATATAA
6491011 TAAAAAACAT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
32 4 0.09
33 11 0.25
34 18 0.41
35 11 0.25
ACGTcount: A:0.73, C:0.01, G:0.05, T:0.21
Consensus pattern (34 bp):
AAAATATATATATATAAAACAAAGAAAAAAAGTA
Found at i:6490977 original size:35 final size:36
Alignment explanation
Indices: 6490923--6491049 Score: 118
Period size: 35 Copynumber: 3.4 Consensus size: 36
6490913 TAAGTAAAAT
* * *
6490923 AAATAA-AAATATATATAAAAATAA-AGAAAAAG-AA
1 AAATAATATATATAAATAAAAA-AATAAAAAAAGTAA
6490957 GAAA-AATATATATAAATAAAACAAATAAAAAAAGTAA
1 -AAATAATATATATAAATAAAA-AAATAAAAAAAGTAA
6490994 AAATAATATATATATAATAAAAAACATAAAAAATAGTAAA
1 AAATAATATATATA-AATAAAAAA-ATAAAAAA-AGT-AA
6491034 TAAATAAATATATATA
1 -AAAT-AATATATATA
6491050 TATATATATA
Statistics
Matches: 78, Mismatches: 3, Indels: 15
0.81 0.03 0.16
Matches are distributed among these distances:
34 2 0.03
35 17 0.22
36 11 0.14
37 14 0.18
38 15 0.19
39 3 0.04
40 2 0.03
41 4 0.05
42 10 0.13
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.23
Consensus pattern (36 bp):
AAATAATATATATAAATAAAAAAATAAAAAAAGTAA
Found at i:6490984 original size:9 final size:8
Alignment explanation
Indices: 6490917--6491041 Score: 52
Period size: 9 Copynumber: 13.5 Consensus size: 8
6490907 AAATAGTAAG
6490917 TAAAATAAA
1 TAAAA-AAA
6490926 TAAAAATATA
1 TAAAAA-A-A
*
6490936 TATAAAAA
1 TAAAAAAA
6490944 TAAAGAAAAA
1 T-AA-AAAAA
*
6490954 GAAGAAAAA
1 TAA-AAAAA
*
6490963 TATATATAAA
1 TA-A-AAAAA
6490973 TAAAACAAA
1 TAAAA-AAA
6490982 TAAAAAAA
1 TAAAAAAA
6490990 GTAAAAATAA
1 -TAAAAA-AA
*
6491000 TATATATATAA
1 TA-A-A-AAAA
6491011 TAAAAAACA
1 TAAAAAA-A
6491020 TAAAAAATA
1 TAAAAAA-A
*
6491029 GTAAATAAA
1 -TAAAAAAA
6491038 TAAA
1 TAAA
6491042 TATATATATA
Statistics
Matches: 92, Mismatches: 11, Indels: 27
0.71 0.08 0.21
Matches are distributed among these distances:
8 13 0.14
9 45 0.49
10 28 0.30
11 5 0.05
12 1 0.01
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.22
Consensus pattern (8 bp):
TAAAAAAA
Found at i:6491025 original size:37 final size:39
Alignment explanation
Indices: 6490949--6491051 Score: 126
Period size: 38 Copynumber: 2.7 Consensus size: 39
6490939 AAAAATAAAG
6490949 AAAAAG-AAGAAA-AATATATATA-AATAAAACAAATAA
1 AAAAAGTAAGAAATAATATATATATAATAAAACAAATAA
6490985 AAAAAGTAA-AAATAATATATATATAATAAAA-AACATAA
1 AAAAAGTAAGAAATAATATATATATAATAAAACAA-ATAA
*
6491023 AAAATAGTAAATAAATAAATATATATATA
1 AAAA-AGT-AAGAAAT-AATATATATATA
6491052 TATATATATA
Statistics
Matches: 59, Mismatches: 0, Indels: 10
0.86 0.00 0.14
Matches are distributed among these distances:
36 9 0.15
37 14 0.24
38 15 0.25
39 3 0.05
40 2 0.03
41 4 0.07
42 12 0.20
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.23
Consensus pattern (39 bp):
AAAAAGTAAGAAATAATATATATATAATAAAACAAATAA
Found at i:6491123 original size:52 final size:49
Alignment explanation
Indices: 6490971--6491126 Score: 153
Period size: 52 Copynumber: 3.1 Consensus size: 49
6490961 AATATATATA
* *
6490971 AATAAAACAAATAA-AAAAAGTAAAAATA-ATATATATATAA-TAAAAA-
1 AATAAAAC-AATAATAAAAAATAAATATATATATATATATAATTAAAAAT
* *
6491017 ACATAAAA-AATAGTAAATAAATAAATATATATATATATAT-ATATATAAATT
1 A-ATAAAACAATAATAAA-AAATAAATATATATATATATATAAT-TA-AAAAT
*
6491068 AATAAAACAGATAATAAAAAATAACATATATATATATATGTAATCTAAAAAT
1 AATAAAACA-ATAATAAAAAATAA-ATATATATATATATATAAT-TAAAAAT
6491120 AATAAAA
1 AATAAAA
6491127 ATATATACTA
Statistics
Matches: 90, Mismatches: 8, Indels: 18
0.78 0.07 0.16
Matches are distributed among these distances:
45 4 0.04
46 4 0.04
47 16 0.18
48 10 0.11
49 2 0.02
50 9 0.10
51 8 0.09
52 33 0.37
53 4 0.04
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (49 bp):
AATAAAACAATAATAAAAAATAAATATATATATATATATAATTAAAAAT
Found at i:6491708 original size:37 final size:37
Alignment explanation
Indices: 6491658--6491728 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
6491648 TTGTGGATCC
* *
6491658 TATTTTTAGGAGTTTGAGTCATAGTATAACTCTATCT
1 TATTTTTAGGAGTTTGAATCATAGTAAAACTCTATCT
*
6491695 TATTTTTAGGAGTTTGAATCCTAGTAAAACTCTA
1 TATTTTTAGGAGTTTGAATCATAGTAAAACTCTA
6491729 ACGTTATGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (37 bp):
TATTTTTAGGAGTTTGAATCATAGTAAAACTCTATCT
Found at i:6493617 original size:2 final size:2
Alignment explanation
Indices: 6493610--6493647 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
6493600 CAAACCGACC
6493610 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
6493648 CTATTAAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6496465 original size:2 final size:2
Alignment explanation
Indices: 6496458--6496482 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6496448 AAGAAGCAGG
6496458 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
6496483 TCCATCTCAT
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:6501424 original size:16 final size:16
Alignment explanation
Indices: 6501405--6501439 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
6501395 TGAGGAACAA
*
6501405 AAAGGGAAAGGAAAGG
1 AAAGGGAAAAGAAAGG
*
6501421 AAAGGGAAAATAAAGG
1 AAAGGGAAAAGAAAGG
6501437 AAA
1 AAA
6501440 ATCTAACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.34, T:0.03
Consensus pattern (16 bp):
AAAGGGAAAAGAAAGG
Found at i:6523217 original size:16 final size:18
Alignment explanation
Indices: 6523196--6523236 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
6523186 GCATGTTAAC
6523196 ACATATAA-TCATG-CAT
1 ACATATAATTCATGTCAT
6523212 ACATATAATTCATGTCAT
1 ACATATAATTCATGTCAT
*
6523230 TCATATA
1 ACATATA
6523237 CGTATAATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.36
17 5 0.23
18 9 0.41
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (18 bp):
ACATATAATTCATGTCAT
Found at i:6524752 original size:2 final size:2
Alignment explanation
Indices: 6524745--6524776 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6524735 ATTCTTATTA
6524745 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
6524777 GATTGTTAGA
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:6534868 original size:26 final size:26
Alignment explanation
Indices: 6534838--6534890 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
6534828 CCAAGCTGAA
6534838 ACTGAAAATCCTGTGAGCTAAAGCAG
1 ACTGAAAATCCTGTGAGCTAAAGCAG
6534864 ACTGAAAATCCTGTGAGCTAAAGCAG
1 ACTGAAAATCCTGTGAGCTAAAGCAG
6534890 A
1 A
6534891 TCCAAGCTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.19
Consensus pattern (26 bp):
ACTGAAAATCCTGTGAGCTAAAGCAG
Found at i:6546432 original size:16 final size:17
Alignment explanation
Indices: 6546396--6546433 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
6546386 TAAAAATTTA
6546396 AATTTGAAAGTTAGGAGT
1 AATTTGAAAGTTA-GAGT
6546414 AATTTGAAAGTTA-AGT
1 AATTTGAAAGTTAGAGT
6546430 AATT
1 AATT
6546434 AAATTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 7 0.35
18 13 0.65
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.37
Consensus pattern (17 bp):
AATTTGAAAGTTAGAGT
Found at i:6549815 original size:2 final size:2
Alignment explanation
Indices: 6549798--6549839 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
6549788 CTCTATCGGA
* *
6549798 AT AT AC AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6549840 GTACGCCAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:6553243 original size:62 final size:63
Alignment explanation
Indices: 6553136--6553273 Score: 197
Period size: 62 Copynumber: 2.2 Consensus size: 63
6553126 TTTATTGAAG
* * *
6553136 GTGCATCGATGCATTAATTTAAATACAAACATCGAATGTCGTCAGTGCATCGATGCATAAGGA
1 GTGCATCGATGCATTAATATAAATACAAACATCGAATGCCCTCAGTGCATCGATGCATAAGGA
** ** *
6553199 GTGCATCGATGCATTTCTATAAA-ATGAACATCGAATGCCCTCAGTGCATCGATGCATCAGGA
1 GTGCATCGATGCATTAATATAAATACAAACATCGAATGCCCTCAGTGCATCGATGCATAAGGA
6553261 GTGCATCGATGCA
1 GTGCATCGATGCA
6553274 GGCCTCCATT
Statistics
Matches: 67, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
62 47 0.70
63 20 0.30
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (63 bp):
GTGCATCGATGCATTAATATAAATACAAACATCGAATGCCCTCAGTGCATCGATGCATAAGGA
Found at i:6554615 original size:18 final size:18
Alignment explanation
Indices: 6554592--6554645 Score: 99
Period size: 18 Copynumber: 3.0 Consensus size: 18
6554582 AAGAATGATA
6554592 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
6554610 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
*
6554628 TGTGGTCCTTTGGGACAT
1 TGTGGTCCTTCGGGACAT
6554646 ATATGTATTC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.11, C:0.20, G:0.33, T:0.35
Consensus pattern (18 bp):
TGTGGTCCTTCGGGACAT
Found at i:6554739 original size:139 final size:139
Alignment explanation
Indices: 6554489--6554740 Score: 432
Period size: 139 Copynumber: 1.8 Consensus size: 139
6554479 CGAGAGTCTA
*
6554489 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGAAACATGTGTGAAGTCTGGTGAGACACATACTT
6554554 GATCCATAGCATATGTATATGATCCTTAAAGAATGATATGTGGTCCTTCGGGACATTGTGGTCCT
66 GATCCATAGCATATGTATATGATCCTTAAAGAATGATATGTGGTCCTTCGGGACATTGTGGTCCT
6554619 TCGGGACAT
131 TCGGGACAT
* *
6554628 TGTGGTCCTTTGGGACATATATGTATTCTTTGAAACATGTGTGAAGTCTGGTGAGACGCATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGAAACATGTGTGAAGTCTGGTGAGACACATACTT
* * * * *
6554693 TATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTT
66 GATCCATAGCATATGTATATGATCCTTAAAGAATGATATGTGGTCCTT
6554741 ATAGACATTA
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
139 105 1.00
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (139 bp):
TGTGGTCCTTCGGGACATATATGTATTCTTTGAAACATGTGTGAAGTCTGGTGAGACACATACTT
GATCCATAGCATATGTATATGATCCTTAAAGAATGATATGTGGTCCTTCGGGACATTGTGGTCCT
TCGGGACAT
Found at i:6554787 original size:23 final size:23
Alignment explanation
Indices: 6554757--6554813 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
6554747 ATTATTATAT
6554757 GGCACTACGGTACAATTCTACGC
1 GGCACTACGGTACAATTCTACGC
* * *
6554780 GGCACTACGATACAATTCTATGT
1 GGCACTACGGTACAATTCTACGC
*
6554803 GGCACTTCGGT
1 GGCACTACGGT
6554814 GCATTTATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (23 bp):
GGCACTACGGTACAATTCTACGC
Found at i:6558445 original size:19 final size:20
Alignment explanation
Indices: 6558416--6558453 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
6558406 ATAAATTTGT
6558416 TGAAGGTGCATCGATGCATA
1 TGAAGGTGCATCGATGCATA
6558436 TGAA-GTGCATCGATGCAT
1 TGAAGGTGCATCGATGCAT
6558454 TAATTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (20 bp):
TGAAGGTGCATCGATGCATA
Found at i:6558496 original size:63 final size:62
Alignment explanation
Indices: 6558421--6558558 Score: 186
Period size: 63 Copynumber: 2.2 Consensus size: 62
6558411 TTTGTTGAAG
* * * *
6558421 GTGCATCGATGCATATGAAGTGCATCGATGCATTAATTTAAATACAAACATCGAATGTCGTCA
1 GTGCATCGATGCATAAGAAGTGCATCGATGCATTAATATAAA-ACAAACATCGAATGCCCTCA
* ** **
6558484 GTGCATCGATGCATAAGGAGTGCATCGATGCATTTCTATAAAATGAACATCGAATGCCCTCA
1 GTGCATCGATGCATAAGAAGTGCATCGATGCATTAATATAAAACAAACATCGAATGCCCTCA
6558546 GTGCATCGATGCA
1 GTGCATCGATGCA
6558559 GGCCTCCATT
Statistics
Matches: 66, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
62 29 0.44
63 37 0.56
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.27
Consensus pattern (62 bp):
GTGCATCGATGCATAAGAAGTGCATCGATGCATTAATATAAAACAAACATCGAATGCCCTCA
Found at i:6559900 original size:18 final size:18
Alignment explanation
Indices: 6559877--6559930 Score: 99
Period size: 18 Copynumber: 3.0 Consensus size: 18
6559867 AGGAATGATA
*
6559877 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTTGGGACAT
6559895 TGTGGTCCTTTGGGACAT
1 TGTGGTCCTTTGGGACAT
6559913 TGTGGTCCTTTGGGACAT
1 TGTGGTCCTTTGGGACAT
6559931 ATATGTATTC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.11, C:0.19, G:0.33, T:0.37
Consensus pattern (18 bp):
TGTGGTCCTTTGGGACAT
Found at i:6560024 original size:139 final size:139
Alignment explanation
Indices: 6559774--6560034 Score: 468
Period size: 139 Copynumber: 1.9 Consensus size: 139
6559764 CGAGGGTCTA
*
6559774 TGTGGTCCTTCGGGACATATATGTATTTTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
*
6559839 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACATTGTGGTCCT
66 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTAGGGACATTGTGGTCCT
6559904 TTGGGACAT
131 TTGGGACAT
* *
6559913 TGTGGTCCTTTGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACGCATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
* *
6559978 GATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATT
66 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTAGGGACATT
6560035 ATTATATGGC
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
139 116 1.00
ACGTcount: A:0.24, C:0.14, G:0.25, T:0.37
Consensus pattern (139 bp):
TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTAGGGACATTGTGGTCCT
TTGGGACAT
Found at i:6560109 original size:23 final size:23
Alignment explanation
Indices: 6560041--6560101 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
6560031 CATTATTATA
*
6560041 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTATG
*
6560064 CGGCACTACGGTGCAATTCTATG
1 TGGCACTACGGTGCAATTCTATG
*
6560087 TGGCACTTCGGTGCA
1 TGGCACTACGGTGCA
6560102 TTTATATGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.20, C:0.26, G:0.28, T:0.26
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTATG
Found at i:6565550 original size:23 final size:20
Alignment explanation
Indices: 6565504--6565547 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
6565494 ATATTGCAGA
*
6565504 TTCTGCTAGAAGAATCATGG
1 TTCTGCTAGAAGAATCACGG
6565524 TTCTGCTAGAAGAATCACGG
1 TTCTGCTAGAAGAATCACGG
6565544 TTCT
1 TTCT
6565548 TCTTCTTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (20 bp):
TTCTGCTAGAAGAATCACGG
Found at i:6568973 original size:228 final size:228
Alignment explanation
Indices: 6568522--6569007 Score: 875
Period size: 229 Copynumber: 2.1 Consensus size: 228
6568512 GTAAATTATC
* * *
6568522 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
*
6568587 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATTT
6568652 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
131 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
*
6568717 AAACATAAATAACATAACTTTCAAAAAAGTATA
196 AAACATAAATAACATAACTTTAAAAAAAGTATA
*
6568750 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
*
6568815 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATT
65 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATT
*
6568880 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAATT
130 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATT
*
6568944 GAAACATAAATTACATAACTTTAAAAAAAGTATA
195 GAAACATAAATAACATAACTTTAAAAAAAGTATA
6568978 TATCATTTTTATAAAAGTGTCCATACTTAT
1 TATCATTTTTATAAAAGTGTCCATACTTAT
6569008 AAAAGTAGGT
Statistics
Matches: 248, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
228 106 0.43
229 142 0.57
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (228 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATTT
TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
AAACATAAATAACATAACTTTAAAAAAAGTATA
Found at i:6569309 original size:20 final size:19
Alignment explanation
Indices: 6569286--6569332 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
6569276 CGATATACCA
6569286 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
6569306 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
6569326 GGTAAAA
1 GGTAAAA
6569333 CGTTACCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:6569489 original size:20 final size:19
Alignment explanation
Indices: 6569466--6569512 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
6569456 CGATATAACA
6569466 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
6569486 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
6569506 GGTAAAA
1 GGTAAAA
6569513 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:6569498 original size:180 final size:182
Alignment explanation
Indices: 6569074--6569545 Score: 689
Period size: 180 Copynumber: 2.6 Consensus size: 182
6569064 GATCCAAATT
* * * *
6569074 AAAAATGTGTCGATCCAAAACGATATAACAGATAAAACTATGACAAAACCGGTAT-AGAAATGAT
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCA-AAATGAT
* * * * * * *
6569138 AAAACCGGTCAAGCGCTACCGAATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTT
65 AAAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTT
* *
6569203 CGTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
130 CGTGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTTTTA
* * *
6569256 AAAATTGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* *
6569321 AAACCGGTAAAACGTTACCGGATATATTAAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
** *
6569385 GTGAATTTAAAAGAGAAGCAGTTATAGCGCCTATAATGTGTCGATAC-TTTA
131 GTGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTTTTA
* *
6569436 AAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* *
6569501 AAACCGGTAAAATGATACCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTT
6569546 CTTAAGTACG
Statistics
Matches: 261, Mismatches: 28, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
180 106 0.41
181 60 0.23
182 94 0.36
183 1 0.00
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.26
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTTTTA
Found at i:6569514 original size:17 final size:19
Alignment explanation
Indices: 6569475--6569517 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
6569465 AGGTAAAAAT
6569475 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
6569495 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
6569512 ATGATA
1 ATGATA
6569518 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:6571769 original size:21 final size:21
Alignment explanation
Indices: 6571742--6571806 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
6571732 AAGACAATCA
*
6571742 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
* * *
6571763 CGAGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
6571784 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
6571805 AG
1 AG
6571807 GCATAAGGGG
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.38, C:0.14, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:6571882 original size:33 final size:33
Alignment explanation
Indices: 6571840--6571905 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
6571830 AAATAGATGG
*
6571840 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
6571873 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
6571906 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:6573721 original size:19 final size:19
Alignment explanation
Indices: 6573697--6573745 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
6573687 AATGTAGGGT
6573697 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
6573716 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
6573735 TATTTTTGTAT
1 TAATTTTGTAT
6573746 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:6574208 original size:199 final size:199
Alignment explanation
Indices: 6573864--6575634 Score: 3287
Period size: 199 Copynumber: 8.9 Consensus size: 199
6573854 CAATATGGCC
* * * * *
6573864 AACAGGGTGCACTCATAAAGTGTCGCTCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
* *
6573929 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTCTACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
6573994 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
6574058 TGGAA
195 TGGAA
* * *
6574063 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
* *
6574128 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTCTACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
*
6574193 GAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
6574258 TGGAA
195 TGGAA
6574263 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
6574328 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
6574393 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
6574458 GGAA
196 GGAA
*
6574462 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
6574527 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
6574592 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
6574657 GGAA
196 GGAA
6574661 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
6574726 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
6574791 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
6574856 GGAA
196 GGAA
6574860 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
* *
6574925 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACTGGTACAATTATACCGGTTTTATGACAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
6574990 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
6575055 GGAA
196 GGAA
6575059 AACAGGGTGCACCCATAAAGTGTCGAGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAA
1 AACAGGGTGCACCCATAAAGTGTC--GATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAA
*
6575124 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCTGTTTTATGAG
64 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
6575189 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTTCCAGAATG
129 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTTCCAGAATG
6575254 AATGGAA
193 AATGGAA
6575261 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
6575326 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
6575391 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
6575456 GGAA
196 GGAA
6575460 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
6575525 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
6575590 AATATGTCTAAATAATGTGTCGACACGT--TATAGTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACAC-TAATATAGTTTGTGTCGATA
6575635 CTAATTTAAA
Statistics
Matches: 1547, Mismatches: 20, Indels: 11
0.98 0.01 0.01
Matches are distributed among these distances:
198 17 0.01
199 1101 0.71
200 233 0.15
201 149 0.10
202 47 0.03
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (199 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
GGAA
Found at i:6577119 original size:6 final size:6
Alignment explanation
Indices: 6577095--6577186 Score: 60
Period size: 6 Copynumber: 15.3 Consensus size: 6
6577085 AGCGGTCGCA
* * * * *
6577095 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT -AACGAT GAAGCT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAA-GAT GAAGAT
** * * * * *
6577143 GGCGAT GAAGAT GATGAC GATGAT GATGAT GATGAT GAAGAT GA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA
6577187 TGATCCAAAC
Statistics
Matches: 67, Mismatches: 17, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
5 1 0.01
6 64 0.96
7 2 0.03
ACGTcount: A:0.38, C:0.08, G:0.34, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:6577167 original size:3 final size:3
Alignment explanation
Indices: 6577146--6577190 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
6577136 TGAAGCTGGC
* * *
6577146 GAT GAA GAT GAT GAC GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
6577191 CCAAACAAGT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.38, C:0.02, G:0.33, T:0.27
Consensus pattern (3 bp):
GAT
Found at i:6577174 original size:36 final size:36
Alignment explanation
Indices: 6577098--6577166 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
6577088 GGTCGCAGAA
*
6577098 GATGAAGCTGACGATGAAGATGACGATGATGATAAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATAAC
* *
6577134 GATGAAGCTGGCGATGAAGATGATGACGATGAT
1 GATGAAGCTGACGATGAAGATGACGACGATGAT
6577167 GATGATGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.36, C:0.10, G:0.33, T:0.20
Consensus pattern (36 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATAAC
Found at i:6577190 original size:12 final size:12
Alignment explanation
Indices: 6577098--6577186 Score: 79
Period size: 12 Copynumber: 7.4 Consensus size: 12
6577088 GGTCGCAGAA
*
6577098 GATGAAGCTGAC
1 GATGAAGATGAC
6577110 GATGAAGATGAC
1 GATGAAGATGAC
* *
6577122 GATGATGATAAC
1 GATGAAGATGAC
* *
6577134 GATGAAGCTGGC
1 GATGAAGATGAC
*
6577146 GATGAAGATGAT
1 GATGAAGATGAC
* * *
6577158 GACGATGATGAT
1 GATGAAGATGAC
* *
6577170 GATGATGATGAA
1 GATGAAGATGAC
6577182 GATGA
1 GATGA
6577187 TGATCCAAAC
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 63 1.00
ACGTcount: A:0.37, C:0.08, G:0.34, T:0.21
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:6577190 original size:18 final size:18
Alignment explanation
Indices: 6577095--6577186 Score: 69
Period size: 18 Copynumber: 5.1 Consensus size: 18
6577085 AGCGGTCGCA
*
6577095 GAAGATGAAGCTGACGAT
1 GAAGATGAAGATGACGAT
* *
6577113 GAAGATGACGATGATGAT
1 GAAGATGAAGATGACGAT
* *
6577131 -AACGATGAAGCTGGCGAT
1 GAA-GATGAAGATGACGAT
* * *
6577149 GAAGATGATGACGATGAT
1 GAAGATGAAGATGACGAT
* * *
6577167 GATGATGATGATGAAGAT
1 GAAGATGAAGATGACGAT
6577185 GA
1 GA
6577187 TGATCCAAAC
Statistics
Matches: 57, Mismatches: 15, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
17 2 0.04
18 53 0.93
19 2 0.04
ACGTcount: A:0.38, C:0.08, G:0.34, T:0.21
Consensus pattern (18 bp):
GAAGATGAAGATGACGAT
Found at i:6578968 original size:183 final size:182
Alignment explanation
Indices: 6578693--6579184 Score: 869
Period size: 183 Copynumber: 2.7 Consensus size: 182
6578683 GCAATGCTAT
*
6578693 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATCTT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
*
6578758 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTTAAAAAGTGTCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATT-TAAAAAAGTGTCGACA
*
6578823 TTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
130 TTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
*
6578876 CGGTATAAATATACCAGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
* *
6578941 GTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTATCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATAC-ATTTAAAAAAGTGTCGACA
*
6579006 TTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAAC
130 TTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
* *
6579059 CGGTATAAATA-ACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTATAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
6579123 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCG
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTTAAAAAAGTGTCG
6579185 GTAATTTTAA
Statistics
Matches: 295, Mismatches: 12, Indels: 5
0.95 0.04 0.02
Matches are distributed among these distances:
182 108 0.37
183 184 0.62
184 3 0.01
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.33
Consensus pattern (182 bp):
CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTTAAAAAAGTGTCGACAT
TTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
Found at i:6580726 original size:25 final size:25
Alignment explanation
Indices: 6580698--6580762 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
6580688 TTATCATTAA
6580698 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
6580723 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
6580748 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
6580763 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:6581140 original size:23 final size:23
Alignment explanation
Indices: 6581109--6581158 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
6581099 ATAGGTAAAC
*
6581109 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
6581132 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
6581155 ATAT
1 ATAT
6581159 TGTAAAGTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.04, G:0.24, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:6581363 original size:30 final size:29
Alignment explanation
Indices: 6581304--6581370 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
6581294 GTTACGATAT
* *
6581304 ATATTATTATTAAATTAAAAATTCTAAATA
1 ATATT-TTATAAAATTAAAAAATCTAAATA
6581334 ATATTTTATAAAATATCAAAAAATC-AAATA
1 ATATTTTATAAAAT-T-AAAAAATCTAAATA
*
6581364 ATTTTTT
1 ATATTTT
6581371 TGTGCAAATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 8 0.25
30 17 0.53
31 7 0.22
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (29 bp):
ATATTTTATAAAATTAAAAAATCTAAATA
Found at i:6582955 original size:20 final size:20
Alignment explanation
Indices: 6582930--6582979 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
6582920 ATTGCGATTG
6582930 CAATGCGAATACATAAATCA
1 CAATGCGAATACATAAATCA
* *
6582950 CAATGCGAATACGTAAATCG
1 CAATGCGAATACATAAATCA
6582970 CAATGCGAAT
1 CAATGCGAAT
6582980 CTGACTATCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.44, C:0.20, G:0.16, T:0.20
Consensus pattern (20 bp):
CAATGCGAATACATAAATCA
Found at i:6583201 original size:22 final size:22
Alignment explanation
Indices: 6583176--6583241 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
6583166 GGCGACATCC
6583176 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
*
6583198 GTCCCCATCTCCGACGATATCA
1 GTCCCCATCTCCGACGAAATCA
* ** *
6583220 GACTTCATCTCCGGCGAAATCA
1 GTCCCCATCTCCGACGAAATCA
6583242 TTCACGGTCA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.26, C:0.38, G:0.15, T:0.21
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Done.