Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008033.1 Hibiscus syriacus cultivar Beakdansim tig00110515_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: 3048429
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 14
Found at i:347 original size:42 final size:42
Alignment explanation
Indices: 215--349 Score: 116
Period size: 42 Copynumber: 3.2 Consensus size: 42
205 GCTAAAAGAA
* * *
215 CACTTGGCTTTCCCGTGAAGGGGATTCATCCAAAGACCATCT
1 CACTTGGATTTCCCGTGAAGGGGAATCATCCAAAGATCATCT
* * * *
257 CAC-TCGATTTAGACCCGCGAAGGGGAACCA-CCTAAGGAAT-ATAC-
1 CACTTGGATTT---CCCGTGAAGGGGAATCATCC-AAAG-ATCAT-CT
*
301 CACTTGGATTTCCCGTGAAGGGGAGTCATCCAAAGATCATCT
1 CACTTGGATTTCCCGTGAAGGGGAATCATCCAAAGATCATCT
343 CACTTGG
1 CACTTGG
350 TTCAGACACA
Statistics
Matches: 71, Mismatches: 12, Indels: 20
0.69 0.12 0.19
Matches are distributed among these distances:
41 8 0.11
42 29 0.41
43 4 0.06
44 22 0.31
45 8 0.11
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (42 bp):
CACTTGGATTTCCCGTGAAGGGGAATCATCCAAAGATCATCT
Found at i:422 original size:86 final size:86
Alignment explanation
Indices: 215--415 Score: 285
Period size: 86 Copynumber: 2.3 Consensus size: 86
205 GCTAAAAGAA
* * * * * *
215 CACTTGGCTTTCCCGTGAAGGGGATTCATCCAAAGACCATCTCACTCGATTTAGACCCGCGAAGG
1 CACTTGGATTTCCCGTGAAGGGGAGTCATCCAAAGACCATCTCACTCGATTCAGACACACGAAAG
280 GGAACCACCTAAGGAATATAC
66 GGAACCACCTAAGGAATATAC
* * *
301 CACTTGGATTTCCCGTGAAGGGGAGTCATCCAAAGATCATCTCACTTGGTTCAGACACACGAAAG
1 CACTTGGATTTCCCGTGAAGGGGAGTCATCCAAAGACCATCTCACTCGATTCAGACACACGAAAG
*
366 GGAACCACCTGAGGAATATAC
66 GGAACCACCTAAGGAATATAC
* * *
387 TACTTGGTTTTCCCGTGAAAGGGAGTCAT
1 CACTTGGATTTCCCGTGAAGGGGAGTCAT
416 TTAAAGAATT
Statistics
Matches: 102, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
86 102 1.00
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (86 bp):
CACTTGGATTTCCCGTGAAGGGGAGTCATCCAAAGACCATCTCACTCGATTCAGACACACGAAAG
GGAACCACCTAAGGAATATAC
Found at i:1801 original size:18 final size:18
Alignment explanation
Indices: 1778--1820 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
1768 CTTTAGATTA
*
1778 TTTATTTAATTATTTTCT
1 TTTATTTAATTATTATCT
*
1796 TTTATTTAATTCTTATCT
1 TTTATTTAATTATTATCT
1814 TTTATTT
1 TTTATTT
1821 TAAAAACAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATTTAATTATTATCT
Found at i:1876 original size:28 final size:27
Alignment explanation
Indices: 1843--1902 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 27
1833 TTAAAAACCC
*
1843 ATTTTTTATCTTTACTACTATTATTTATT
1 ATTTTTTATATTT-CT-CTATTATTTATT
*
1872 ATTTTATTATATTTCTCTTTTATTTATT
1 ATTTT-TTATATTTCTCTATTATTTATT
1900 ATT
1 ATT
1903 ATTATTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 14 0.50
29 7 0.25
30 7 0.25
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.68
Consensus pattern (27 bp):
ATTTTTTATATTTCTCTATTATTTATT
Found at i:1929 original size:5 final size:5
Alignment explanation
Indices: 1870--1929 Score: 50
Period size: 5 Copynumber: 11.6 Consensus size: 5
1860 CTATTATTTA
* * *
1870 TTATT TTATT ATATT TCTCTT TTA-T TTATT ATTATT ATTATT TTGTT
1 TTATT TTATT TTATT T-TATT TTATT TTATT -TTATT -TTATT TTATT
*
1917 TTGTT TTATT TTA
1 TTATT TTATT TTA
1930 ATTTCCCACT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
4 4 0.09
5 27 0.59
6 15 0.33
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.73
Consensus pattern (5 bp):
TTATT
Found at i:8852 original size:18 final size:18
Alignment explanation
Indices: 8829--8870 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
8819 TTTATATTAT
*
8829 TTATTTAATTATTTTCTC
1 TTATTTAATTATTATCTC
* *
8847 TTATTTAATTCTTATCTT
1 TTATTTAATTATTATCTC
8865 TTATTT
1 TTATTT
8871 TAAAAACAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (18 bp):
TTATTTAATTATTATCTC
Found at i:8923 original size:10 final size:10
Alignment explanation
Indices: 8908--8971 Score: 57
Period size: 10 Copynumber: 6.7 Consensus size: 10
8898 TTATCATTAC
8908 TATTATTATT
1 TATTATTATT
8918 TATTA-T-TT
1 TATTATTATT
8926 TATTA-TATT
1 TATTATTATT
* *
8935 TCTCTTTTATT
1 TAT-TATTATT
8946 TATTATTATTT
1 TATTATTA-TT
8957 TATT-TTATT
1 TATTATTATT
8966 T-TTATT
1 TATTATT
8972 TTCCCACTTC
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
8 10 0.22
9 10 0.22
10 13 0.29
11 12 0.27
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (10 bp):
TATTATTATT
Found at i:8961 original size:5 final size:5
Alignment explanation
Indices: 8920--9013 Score: 57
Period size: 5 Copynumber: 17.4 Consensus size: 5
8910 TTATTATTTA
* *
8920 TTATT TTATT ATATT TCTCTT TTA-T TTATT ATTATT TTATT TTATTT
1 TTATT TTATT TTATT T-TATT TTATT TTATT -TTATT TTATT TTA-TT
* *
8967 TTATT TTCCCACTT CTT-TT TTATT TTATT TTGTT TTGTTT TTATT TT
1 TTATT TT---A-TT -TTATT TTATT TTATT TTATT TT-ATT TTATT TT
9014 CTCTTTTAAC
Statistics
Matches: 71, Mismatches: 7, Indels: 22
0.71 0.07 0.22
Matches are distributed among these distances:
4 6 0.08
5 42 0.59
6 18 0.25
8 1 0.01
9 2 0.03
10 2 0.03
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.74
Consensus pattern (5 bp):
TTATT
Found at i:8968 original size:11 final size:10
Alignment explanation
Indices: 8920--9013 Score: 57
Period size: 11 Copynumber: 8.7 Consensus size: 10
8910 TTATTATTTA
8920 TTATTTTATT
1 TTATTTTATT
* *
8930 ATATTTCTCTT
1 TTATTT-TATT
8941 TTA-TTTATT
1 TTATTTTATT
8950 ATTATTTTATT
1 -TTATTTTATT
8961 TTATTTTTATT
1 TTA-TTTTATT
8972 TTCCCACTTCTT-TT
1 TT---A-TT-TTATT
8986 TTATTTTATT
1 TTATTTTATT
* *
8996 TTGTTTTGTTT
1 TTATTTT-ATT
9007 TTATTTT
1 TTATTTT
9014 CTCTTTTAAC
Statistics
Matches: 66, Mismatches: 8, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
9 5 0.08
10 23 0.35
11 29 0.44
14 7 0.11
15 2 0.03
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.74
Consensus pattern (10 bp):
TTATTTTATT
Found at i:14022 original size:55 final size:55
Alignment explanation
Indices: 13934--14195 Score: 332
Period size: 55 Copynumber: 4.8 Consensus size: 55
13924 GTGAAGCAAA
* *
13934 TGAAGATTGCTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGT
1 TGAAGGTTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGT
** * *
13989 TGTTGATTGTTTGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGT
1 TGAAGGTTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGT
* *
14044 TGAAGGTTGTTCGAGTCTTATACTCTCTGAAGGAATAGGAAGCAGACACGATTGT
1 TGAAGGTTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGT
* * * *
14099 TGAAGGTTGTTCGAGTCTTATACTCTCTGAATAAATAGGGATCAAACA-TATTTGT
1 TGAAGGTTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGA-TTGT
* * * * *
14154 T-AAAGATGTTCGAGT-TCTATACTCCCTAAAGAAAGAGGGAGC
1 TGAAGGTTGTTCGAGTCT-TATACTCTCTGAAGAAATAGGGAGC
14196 GAACCCATTT
Statistics
Matches: 182, Mismatches: 23, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
53 1 0.01
54 33 0.18
55 148 0.81
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.31
Consensus pattern (55 bp):
TGAAGGTTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGT
Found at i:14154 original size:110 final size:110
Alignment explanation
Indices: 13934--14244 Score: 330
Period size: 110 Copynumber: 2.8 Consensus size: 110
13924 GTGAAGCAAA
* * * **
13934 TGAAGATTGCTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGTTGATTGT
1 TGAAGGTTGTTCGAGTCTTATACTCTCTGAAGAAATAGGAAGCAGACACGATTGTTGAAGATTGT
* *
13999 TTGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGT
66 TCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAAACACGATTGT
* *
14044 TGAAGGTTGTTCGAGTCTTATACTCTCTGAAGGAATAGGAAGCAGACACGATTGTTGAAGGTTGT
1 TGAAGGTTGTTCGAGTCTTATACTCTCTGAAGAAATAGGAAGCAGACACGATTGTTGAAGATTGT
* * *
14109 TCGAGTCTTATACTCTCTGAATAAATAGGGATCAAACA-TATTTGT
66 TCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAAACACGA-TTGT
* * * * * * *
14154 T-AAAGATGTTCGAGT-TCTATACTCCCTAAAGAAAGAGGGAGC-GA-ACCCATT-TTCAGAAGA
1 TGAAGGTTGTTCGAGTCT-TATACTCTCTGAAGAAATAGGAAGCAGACA-CGATTGTT--GAAGA
* *
14214 TTGTTCGAGT-TCCATACTCCCTGAAGAAATA
62 TTGTTCGAGTCT-TATACTCTCTGAAGAAATA
14245 AAGAGCGAAC
Statistics
Matches: 171, Mismatches: 24, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
107 3 0.02
108 8 0.05
109 63 0.37
110 97 0.57
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (110 bp):
TGAAGGTTGTTCGAGTCTTATACTCTCTGAAGAAATAGGAAGCAGACACGATTGTTGAAGATTGT
TCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAAACACGATTGT
Found at i:14193 original size:54 final size:55
Alignment explanation
Indices: 13935--14357 Score: 221
Period size: 55 Copynumber: 7.7 Consensus size: 55
13925 TGAAGCAAAT
* * * *
13935 GAAGATTGCTCGAG-TCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTT--
1 GAAGATTGTTCGAGTTC-TATACTCCCTGAAGAAAGAGGGAGCAAACAC-ATT-TTCA
** * * * *
13990 GTTGATTGTTTGAG-TCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTT--
1 GAAGATTGTTCGAGTTC-TATACTCCCTGAAGAAAGAGGGAGCAAACAC-ATT-TTCA
* * * * * *
14045 GAAGGTTGTTCGAG-TCTTATACTCTCTGAAGGAATAGGAAGCAGACACGATTGTT--
1 GAAGATTGTTCGAGTTC-TATACTCCCTGAAGAAAGAGGGAGCAAACAC-ATT-TTCA
* * * * * * *
14100 GAAGGTTGTTCGAG-TCTTATACTCTCTGAATAAATAGGGATCAAACATATTTGTTA
1 GAAGATTGTTCGAGTTC-TATACTCCCTGAAGAAAGAGGGAGCAAACACATTT-TCA
* * *
14156 -AAGA-TGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCATTTTCA
1 GAAGATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCAAACACATTTTCA
* * ** * * * *
14209 GAAGATTGTTCGAGTTCCATACTCCCTGAAGAAATAAAGAGCGAACTCGTTTGCA
1 GAAGATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCAAACACATTTTCA
* * * * * ***
14264 G-AGAATTGTTCGAGTT-TCATACTCTCTAAAGAAAGATGGAGCAAACCCGTAAGCA
1 GAAG-ATTGTTCGAGTTCT-ATACTCCCTGAAGAAAGAGGGAGCAAACACATTTTCA
* *
14319 GAAGATTGTTCAAGTTC--TACTCCCTGAAGTAAGAGGGAG
1 GAAGATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAG
14358 TGAACCCACT
Statistics
Matches: 309, Mismatches: 49, Indels: 22
0.81 0.13 0.06
Matches are distributed among these distances:
53 21 0.07
54 45 0.15
55 241 0.78
56 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (55 bp):
GAAGATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCAAACACATTTTCA
Found at i:14582 original size:12 final size:12
Alignment explanation
Indices: 14565--14594 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
14555 ATTATATATA
14565 ATTATTTTTATT
1 ATTATTTTTATT
14577 ATTATTTTTATT
1 ATTATTTTTATT
14589 ATTATT
1 ATTATT
14595 AATACAAAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
ATTATTTTTATT
Found at i:17313 original size:110 final size:110
Alignment explanation
Indices: 17192--17397 Score: 331
Period size: 110 Copynumber: 1.9 Consensus size: 110
17182 TTGGGTGCTC
**
17192 AATCACACCCTAATCAAGGATTGGTGACAACTCTTCGAACCTTATTTATTTAAGAAATCCCAAAA
1 AATCACACCCTAATCAAGGATTGGTGACAACTCTTCGAACAGTATTTATTTAAGAAATCCCAAAA
* *
17257 TTTTCGAAACGAGAGGCTTTTAAAAATCGCATTTTTTTAATTAAA
66 TTTTCGAAAAGAGAAGCTTTTAAAAATCGCATTTTTTTAATTAAA
* * * *
17302 AATCACACCCTAATCAAGGATTTGTGGCGACTCTTCGAACAGTATTTATTTAAGAAATCCCAAAT
1 AATCACACCCTAATCAAGGATTGGTGACAACTCTTCGAACAGTATTTATTTAAGAAATCCCAAAA
*
17367 TTTTCGAAAAGAGAAGTTTTTAAAAATCGCA
66 TTTTCGAAAAGAGAAGCTTTTAAAAATCGCA
17398 AAGAAAATTA
Statistics
Matches: 87, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
110 87 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (110 bp):
AATCACACCCTAATCAAGGATTGGTGACAACTCTTCGAACAGTATTTATTTAAGAAATCCCAAAA
TTTTCGAAAAGAGAAGCTTTTAAAAATCGCATTTTTTTAATTAAA
Found at i:19370 original size:18 final size:17
Alignment explanation
Indices: 19349--19395 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
19339 AATATTCAAA
19349 ATAA-AAATAATAGAAAAT
1 ATAATAAAT-ATAG-AAAT
*
19367 ATAATTAATATAGAAAT
1 ATAATAAATATAGAAAT
*
19384 ATAATTAATATA
1 ATAATAAATATA
19396 ATTTTAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 16 0.59
18 8 0.30
19 3 0.11
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (17 bp):
ATAATAAATATAGAAAT
Found at i:19385 original size:17 final size:18
Alignment explanation
Indices: 19358--19395 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 18
19348 AATAAAAATA
19358 ATAGAAAATATAATTAAT
1 ATAGAAAATATAATTAAT
19376 ATAG-AAATATAATTAAT
1 ATAGAAAATATAATTAAT
19393 ATA
1 ATA
19396 ATTTTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (18 bp):
ATAGAAAATATAATTAAT
Found at i:19713 original size:24 final size:24
Alignment explanation
Indices: 19681--19727 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
19671 TTCGATAATC
*
19681 TGTTCGTTTATATTTGTTTATTTG
1 TGTTCGTTTATATTTGTTCATTTG
* *
19705 TGTTTGTTTATGTTTGTTCATTT
1 TGTTCGTTTATATTTGTTCATTT
19728 ATGTCCATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.11, C:0.04, G:0.17, T:0.68
Consensus pattern (24 bp):
TGTTCGTTTATATTTGTTCATTTG
Found at i:19736 original size:10 final size:10
Alignment explanation
Indices: 19723--19749 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
19713 TATGTTTGTT
19723 CATTTATGTC
1 CATTTATGTC
19733 CATTTATGTC
1 CATTTATGTC
19743 CATTTAT
1 CATTTAT
19750 ATTCAGCCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.22, C:0.19, G:0.07, T:0.52
Consensus pattern (10 bp):
CATTTATGTC
Found at i:19828 original size:16 final size:17
Alignment explanation
Indices: 19801--19838 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
19791 AATCATTAAT
19801 ATTTTAAAACCCAAACA
1 ATTTTAAAACCCAAACA
*
19818 ATTTT-AAACCCAAATA
1 ATTTTAAAACCCAAACA
19834 ATTTT
1 ATTTT
19839 GACTCTGAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.34
Consensus pattern (17 bp):
ATTTTAAAACCCAAACA
Found at i:20049 original size:10 final size:10
Alignment explanation
Indices: 19995--20056 Score: 52
Period size: 10 Copynumber: 5.8 Consensus size: 10
19985 CATTTACGTT
19995 TGTTCGTTTA
1 TGTTCGTTTA
* *
20005 TGGTCATTTA
1 TGTTCGTTTA
*
20015 CGTTCGTTTATA
1 TGTTCG-TT-TA
20027 TCTGTTCGTTTA
1 --TGTTCGTTTA
20039 TGTTCGTTTA
1 TGTTCGTTTA
*
20049 TATTCGTT
1 TGTTCGTT
20057 CATTTGTGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
10 28 0.68
11 2 0.05
12 4 0.10
13 2 0.05
14 5 0.12
ACGTcount: A:0.13, C:0.13, G:0.18, T:0.56
Consensus pattern (10 bp):
TGTTCGTTTA
Found at i:20057 original size:24 final size:24
Alignment explanation
Indices: 20008--20073 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 24
19998 TCGTTTATGG
*
20008 TCATTTACGTTCGTTTATATCTGT
1 TCATTTATGTTCGTTTATATCTGT
*
20032 TCGTTTATGTTCGTTTATAT-TCGT
1 TCATTTATGTTCGTTTATATCT-GT
* *
20056 TCATTTGTGTTTGTTTAT
1 TCATTTATGTTCGTTTAT
20074 CATTTAAATG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
23 1 0.03
24 35 0.97
ACGTcount: A:0.14, C:0.12, G:0.15, T:0.59
Consensus pattern (24 bp):
TCATTTATGTTCGTTTATATCTGT
Found at i:20416 original size:60 final size:60
Alignment explanation
Indices: 20343--20473 Score: 172
Period size: 60 Copynumber: 2.2 Consensus size: 60
20333 TTCGGATGAA
* * * * ** * *
20343 CATTTTGTAACTTTTCATAGTCGAGTGACTTAATAAAGTAATATGCTATAGTTAGAGGAT
1 CATTTTGTAACTTTTAATAATCGAGAGACTTAATAAAATAATACCCTATAGTCAGAAGAT
*
20403 CATTTTGTAACTTTTAATAATCGAGAGACTTAATAAAATAATACCCTATAGTCGGAAGAT
1 CATTTTGTAACTTTTAATAATCGAGAGACTTAATAAAATAATACCCTATAGTCAGAAGAT
20463 CATTTTTGTAA
1 CA-TTTTGTAA
20474 TTTACATTAA
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
60 53 0.87
61 8 0.13
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.37
Consensus pattern (60 bp):
CATTTTGTAACTTTTAATAATCGAGAGACTTAATAAAATAATACCCTATAGTCAGAAGAT
Found at i:22587 original size:15 final size:15
Alignment explanation
Indices: 22567--22598 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
22557 AATTATCTTA
*
22567 GTGGTTAAATGAATG
1 GTGGTTAAAGGAATG
22582 GTGGTTAAAGGAATG
1 GTGGTTAAAGGAATG
22597 GT
1 GT
22599 TGAGAGTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.38, T:0.31
Consensus pattern (15 bp):
GTGGTTAAAGGAATG
Found at i:24600 original size:20 final size:20
Alignment explanation
Indices: 24556--24614 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
24546 CCTGCACATG
* *
24556 AAGTTTCGAAACTTTGGGGA
1 AAGTTTTGAAACTTTGTGGA
*
24576 AAGTTTTGAAACTTTGTTGA
1 AAGTTTTGAAACTTTGTGGA
* *
24596 GAGTTTTAAAACTATTGTG
1 AAGTTTTGAAACT-TTGTG
24615 AATGTATCGA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 28 0.88
21 4 0.12
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGTTTTGAAACTTTGTGGA
Found at i:24859 original size:20 final size:20
Alignment explanation
Indices: 24836--24873 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
24826 ATATTTAGAA
*
24836 ACTTTAAACACATTTTAAGC
1 ACTTTAAAAACATTTTAAGC
*
24856 ACTTTAAAAATATTTTAA
1 ACTTTAAAAACATTTTAA
24874 TTAACTCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.13, G:0.03, T:0.39
Consensus pattern (20 bp):
ACTTTAAAAACATTTTAAGC
Found at i:28408 original size:17 final size:17
Alignment explanation
Indices: 28386--28418 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
28376 TAAGAGTTAA
28386 TTTAATAAATTAACTAG
1 TTTAATAAATTAACTAG
*
28403 TTTAATTAATTAACTA
1 TTTAATAAATTAACTA
28419 CTTCCCTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (17 bp):
TTTAATAAATTAACTAG
Found at i:29469 original size:20 final size:20
Alignment explanation
Indices: 29440--29496 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
29430 TTGCACATGA
*
29440 AGTTTTGAAACTTT-AGGGAG
1 AGTTTCGAAACTTTGA-GGAG
*
29460 AGTTTCGAAACTTTGATGAG
1 AGTTTCGAAACTTTGAGGAG
29480 AGTTTCGAAACTATTGA
1 AGTTTCGAAACT-TTGA
29497 AACTTCTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 28 0.85
21 5 0.15
ACGTcount: A:0.32, C:0.09, G:0.25, T:0.35
Consensus pattern (20 bp):
AGTTTCGAAACTTTGAGGAG
Found at i:30736 original size:29 final size:29
Alignment explanation
Indices: 30694--30832 Score: 208
Period size: 29 Copynumber: 4.8 Consensus size: 29
30684 ACCCAATGAT
*
30694 ATTCTAGGAATTTTTATGAAAAAGGTGAC
1 ATTCTAGGAATTTTTGTGAAAAAGGTGAC
* *
30723 ATTCTGGGAATTTTTGTAAAAAAGGTGAC
1 ATTCTAGGAATTTTTGTGAAAAAGGTGAC
*
30752 ATTCTAGGAATTTTTGTGAAAAAGTTGGA-
1 ATTCTAGGAATTTTTGTGAAAAAGGT-GAC
* *
30781 ATTCTGGGAATTTTTGTGGAAAAGGTGAC
1 ATTCTAGGAATTTTTGTGAAAAAGGTGAC
30810 ATTCTAGGAATTTTTGTGAAAAA
1 ATTCTAGGAATTTTTGTGAAAAA
30833 ATGACAATTT
Statistics
Matches: 97, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
28 2 0.02
29 93 0.96
30 2 0.02
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.36
Consensus pattern (29 bp):
ATTCTAGGAATTTTTGTGAAAAAGGTGAC
Found at i:37924 original size:18 final size:18
Alignment explanation
Indices: 37901--37941 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
37891 GTCCAAACCA
37901 GTCTG-ACCGGTTTGACCG
1 GTCTGAACC-GTTTGACCG
37919 GTCTGAACCGTTTGACCG
1 GTCTGAACCGTTTGACCG
37937 GTCTG
1 GTCTG
37942 GCCCGACCCG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 19 0.86
19 3 0.14
ACGTcount: A:0.12, C:0.27, G:0.32, T:0.29
Consensus pattern (18 bp):
GTCTGAACCGTTTGACCG
Found at i:38102 original size:28 final size:29
Alignment explanation
Indices: 37971--38083 Score: 174
Period size: 29 Copynumber: 3.9 Consensus size: 29
37961 GACCCGACCA
*
37971 TGACATTATGGGAA-TTTTGTGAAAAAGG
1 TGACATTCTGGGAATTTTTGTGAAAAAGG
*
37999 TGACATTCTGGGAATTATTGTGAAAAAGG
1 TGACATTCTGGGAATTTTTGTGAAAAAGG
* *
38028 TGACATTCTGGGAGTTTTTGTGGAAAAGG
1 TGACATTCTGGGAATTTTTGTGAAAAAGG
*
38057 TGACATTATGGGAATTTTTGTGAAAAA
1 TGACATTCTGGGAATTTTTGTGAAAAA
38084 ATGACAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
28 13 0.17
29 63 0.83
ACGTcount: A:0.33, C:0.05, G:0.28, T:0.34
Consensus pattern (29 bp):
TGACATTCTGGGAATTTTTGTGAAAAAGG
Found at i:40114 original size:16 final size:16
Alignment explanation
Indices: 40084--40113 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
40074 GTTAAAAGAG
40084 AAAATAAAAATAAAAC
1 AAAATAAAAATAAAAC
40100 AAAAT-AAAATAAAA
1 AAAATAAAAATAAAA
40114 AAGTGGGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.13
Consensus pattern (16 bp):
AAAATAAAAATAAAAC
Found at i:40124 original size:37 final size:37
Alignment explanation
Indices: 40083--40153 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
40073 TGTTAAAAGA
40083 GAAAATAAAAATAAAACAAAATAAAATAAAAAAGTGG
1 GAAAATAAAAATAAAACAAAATAAAATAAAAAAGTGG
* * *
40120 GAAAATAAAGATAAAACAAAATATAATTAAAAAG
1 GAAAATAAAAATAAAACAAAATAAAATAAAAAAG
40154 ATAAATATAA
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:0.72, C:0.03, G:0.10, T:0.15
Consensus pattern (37 bp):
GAAAATAAAAATAAAACAAAATAAAATAAAAAAGTGG
Found at i:40240 original size:18 final size:18
Alignment explanation
Indices: 40219--40259 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
40209 GTTATTTTTA
* *
40219 AAATAAAATATAAGAATT
1 AAATAAAAGAAAAGAATT
*
40237 AAATAAAAGAAAATAATT
1 AAATAAAAGAAAAGAATT
40255 AAATA
1 AAATA
40260 TCTAAAGAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (18 bp):
AAATAAAAGAAAAGAATT
Found at i:40914 original size:123 final size:123
Alignment explanation
Indices: 40678--40939 Score: 303
Period size: 123 Copynumber: 2.1 Consensus size: 123
40668 TATCCTTTGT
** * * * *
40678 TGTGAAGTCAAAATTGTAGATGGCTTCTTCGTTGTGAAGTTAAGCTTTGAATTGGATATCCTTCG
1 TGTGAAGTTGAAATTGTAGATGGCTTCTTCGTCGTGAAGTTAAGCTTTGAATTAGATATCATTCA
* * * *
40743 TTGTGAAGTGGAAATCCAATCTTGTAAATTGAATCGCTTTGAGATTAATATCTTTCAC
66 TTGTGAAGTGGAAATCCAATCTTGAAAATTGAATCGCTTCGAGATTAATACCCTTCAC
* * *
40801 TGTGAAGTTGAAATTGTGGATGGC-TCATTCGTCGTGAAGTTGAGCTTTGAATTAGATGTCATTC
1 TGTGAAGTTGAAATTGTAGATGGCTTC-TTCGTCGTGAAGTTAAGCTTTGAATTAGATATCATTC
** * * * *
40865 ATTGTGAAGTTTAAATCCAATCTTGAAAATTGTATTTGC-TCGAGTTTAATACCCTTCGC
65 ATTGTGAAGTGGAAATCCAATCTTGAAAATTG-AATCGCTTCGAGATTAATACCCTTCAC
* *
40924 TGTGAAATTGACATTG
1 TGTGAAGTTGAAATTG
40940 ACTCTAACAA
Statistics
Matches: 116, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
122 2 0.02
123 110 0.95
124 4 0.03
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.38
Consensus pattern (123 bp):
TGTGAAGTTGAAATTGTAGATGGCTTCTTCGTCGTGAAGTTAAGCTTTGAATTAGATATCATTCA
TTGTGAAGTGGAAATCCAATCTTGAAAATTGAATCGCTTCGAGATTAATACCCTTCAC
Found at i:48287 original size:32 final size:32
Alignment explanation
Indices: 48251--48320 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
48241 ATAATAAATT
*
48251 ATAAAAAATGTTA-AAAGAGAAA-ATAAAACAAA
1 ATAAAAAA-GTGAGAAA-AGAAAGATAAAACAAA
* *
48283 ATAAAAAAGTGAGAAAATAAAGATAAGACAAA
1 ATAAAAAAGTGAGAAAAGAAAGATAAAACAAA
48315 ATAAAA
1 ATAAAA
48321 TAAAAAAGGG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 7 0.21
32 26 0.79
ACGTcount: A:0.71, C:0.03, G:0.11, T:0.14
Consensus pattern (32 bp):
ATAAAAAAGTGAGAAAAGAAAGATAAAACAAA
Found at i:48316 original size:74 final size:74
Alignment explanation
Indices: 48176--48318 Score: 166
Period size: 73 Copynumber: 1.9 Consensus size: 74
48166 TAATGTCATA
* * * **
48176 TATAAAAAATGTTAAAAGAAAAAAATAAAATAAAAGAAGAAAATATTAAATTTTAGAAAAGAAAA
1 TATAAAAAATGTTAAAAGAAAAAAATAAAACAAAAGAAGAAAATATGAAAATAAAGAAAAGAAAA
48241 ATAATAAAT
66 ATAATAAAT
* * *
48250 TATAAAAAATGTTAAAAG-AGAAAATAAAACAAAATAA-AAAAGTGA-GAAAATAAAGATAAGAC
1 TATAAAAAATGTTAAAAGAAAAAAATAAAACAAAAGAAGAAAA-T-ATGAAAATAAAGAAAAGA-
48312 AAAATAA
63 AAAATAA
48319 AATAAAAAAG
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
72 4 0.07
73 28 0.48
74 26 0.45
ACGTcount: A:0.69, C:0.01, G:0.10, T:0.20
Consensus pattern (74 bp):
TATAAAAAATGTTAAAAGAAAAAAATAAAACAAAAGAAGAAAATATGAAAATAAAGAAAAGAAAA
ATAATAAAT
Found at i:48412 original size:18 final size:18
Alignment explanation
Indices: 48391--48433 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
48381 GTTGTTTTTA
*
48391 AAATAAAAGATAAGAATT
1 AAATAAAAGAAAAGAATT
*
48409 AAATAAAAGAAAATAATT
1 AAATAAAAGAAAAGAATT
48427 AAATAAA
1 AAATAAA
48434 TAATCTAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (18 bp):
AAATAAAAGAAAAGAATT
Found at i:52102 original size:14 final size:14
Alignment explanation
Indices: 52083--52109 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
52073 TAAATTAAAT
52083 TATTGATATATTAA
1 TATTGATATATTAA
52097 TATTGATATATTA
1 TATTGATATATTA
52110 TTTTGTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (14 bp):
TATTGATATATTAA
Found at i:58738 original size:18 final size:18
Alignment explanation
Indices: 58717--58751 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
58707 AAGTCATAAA
58717 TATTTTAT-TGTAAAAAAG
1 TATTTTATCT-TAAAAAAG
58735 TATTTTATCTTAAAAAA
1 TATTTTATCTTAAAAAA
58752 AATAAAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.94
19 1 0.06
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.46
Consensus pattern (18 bp):
TATTTTATCTTAAAAAAG
Found at i:62434 original size:24 final size:24
Alignment explanation
Indices: 62402--62466 Score: 87
Period size: 24 Copynumber: 2.7 Consensus size: 24
62392 AGTACAATTT
62402 ATGAGCGTTCCCGTGA-ACGGTCTC
1 ATGAGCGTTCCCGTGAGA-GGTCTC
*
62426 ATGAGCGTTCCCTTGAGAGGTCTC
1 ATGAGCGTTCCCGTGAGAGGTCTC
* *
62450 ATGAGCATTCTCGTGAG
1 ATGAGCGTTCCCGTGAG
62467 CGGCCCCGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
24 35 0.97
25 1 0.03
ACGTcount: A:0.18, C:0.25, G:0.29, T:0.28
Consensus pattern (24 bp):
ATGAGCGTTCCCGTGAGAGGTCTC
Found at i:63235 original size:54 final size:54
Alignment explanation
Indices: 63118--63236 Score: 132
Period size: 54 Copynumber: 2.2 Consensus size: 54
63108 ATTACACCGA
* * **
63118 AGTGTCAAAATGGAGATTCATAAACTTATTATGAATTCCATGGATTGCAGACAT
1 AGTGTCGAAATGGACATTCATAAACACATTATGAATTCCATGGATTGCAGACAT
* * * ***
63172 AGTGCCGAAATGGTCATTCATAAACACATTATG-ATTACCATGGGTTGCAGTTTT
1 AGTGTCGAAATGGACATTCATAAACACATTATGAATT-CCATGGATTGCAGACAT
63226 AGTGTCGAAAT
1 AGTGTCGAAAT
63237 TATGCATTAA
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
53 3 0.06
54 50 0.94
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (54 bp):
AGTGTCGAAATGGACATTCATAAACACATTATGAATTCCATGGATTGCAGACAT
Found at i:67368 original size:200 final size:201
Alignment explanation
Indices: 67018--67395 Score: 431
Period size: 200 Copynumber: 1.9 Consensus size: 201
67008 CGAGTATGCC
* * *
67018 TATCAAGCCATGTTAGCTTCTTCTTCATATAGAAAACCAAGCTTTAGAACCATTTTGAACGCAAT
1 TATCAAGCCATGTTAGCTTCTTCTTCATACACAAAACCAAGCTTTAGAACCATTTTCAACGCAAT
* * * * * * * *
67083 TTTTATCCCGCTTGCAATGTCTTGTATGTGCCAATATTACCATGAATTGAAAGCTAAGTTACAAT
66 ATTTAACCCACTTACAATGTCTCGTATGTGCCAATATTACCATCAATTGAAAGATAAATTACAAT
* * ** * *
67148 AGTACGCCTCTAATCTTATAAATTATGAAAGTTTTCAGATTAACTACCTGAAAAATCCCCTTGAA
131 ACTACGCCTCTAACCTTATAAATTACAAAAATTTTCAGATTAAATACCTGAAAAATCCCCTTGAA
67213 TATGTT
196 TATGTT
* * **
67219 TATCAAGCCATTTTAGCATT-TTCTTCATACACAAAA-CAAGCTTTGGAACCATTTTCAACGTGA
1 TATCAAGCCATGTTAGC-TTCTTCTTCATACACAAAACCAAGCTTTAGAACCATTTTCAACGCAA
* * ** * *
67282 TATTTAACCCACTTATAATTTCTCGTATGT-CTTGATATTGACC-TCAGTTGAAAGATAAATTTC
65 TATTTAACCCACTTACAATGTCTCGTATGTGC-CAATATT-ACCATCAATTGAAAGATAAATTAC
* * *
67345 AATACTACGCTTTTAACCTTATAAATTACAAAAATTTTGAGATTAAATACC
128 AATACTACGCCTCTAACCTTATAAATTACAAAAATTTTCAGATTAAATACC
67396 CAGAAATACC
Statistics
Matches: 144, Mismatches: 30, Indels: 7
0.80 0.17 0.04
Matches are distributed among these distances:
199 1 0.01
200 108 0.75
201 33 0.23
202 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (201 bp):
TATCAAGCCATGTTAGCTTCTTCTTCATACACAAAACCAAGCTTTAGAACCATTTTCAACGCAAT
ATTTAACCCACTTACAATGTCTCGTATGTGCCAATATTACCATCAATTGAAAGATAAATTACAAT
ACTACGCCTCTAACCTTATAAATTACAAAAATTTTCAGATTAAATACCTGAAAAATCCCCTTGAA
TATGTT
Found at i:73390 original size:8 final size:8
Alignment explanation
Indices: 73377--73408 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
73367 GAATTTCTTT
73377 TTCTTTTC
1 TTCTTTTC
73385 TTCTTTTC
1 TTCTTTTC
73393 -T-TTTTC
1 TTCTTTTC
73399 TTCTTTTC
1 TTCTTTTC
73407 TT
1 TT
73409 TTTCTTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
6 5 0.23
7 2 0.09
8 15 0.68
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (8 bp):
TTCTTTTC
Found at i:73390 original size:14 final size:15
Alignment explanation
Indices: 73371--73434 Score: 75
Period size: 14 Copynumber: 4.5 Consensus size: 15
73361 CTTTTTGAAT
73371 TTCTTTTTC-TTTTC
1 TTCTTTTTCTTTTTC
73385 TTC-TTTTCTTTTTC
1 TTCTTTTTCTTTTTC
73399 TTC-TTTTCTTTTTC
1 TTCTTTTTCTTTTTC
*
73413 TT-TTTATC-TTTTC
1 TTCTTTTTCTTTTTC
73426 TTTCTTTTT
1 -TTCTTTTT
73435 GTACTCCAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
13 10 0.23
14 30 0.68
15 4 0.09
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.80
Consensus pattern (15 bp):
TTCTTTTTCTTTTTC
Found at i:73394 original size:19 final size:19
Alignment explanation
Indices: 73370--73433 Score: 76
Period size: 19 Copynumber: 3.2 Consensus size: 19
73360 TCTTTTTGAA
73370 TTTCTTTTTCTTTTCTTCT
1 TTTCTTTTTCTTTTCTTCT
73389 TTTCTTTTTCTTCTT-TTCTT
1 TTTCTTTTTCTT-TTCTTC-T
73409 TTTCTTTTTATCTTTTCTTTCT
1 TTTC-TTTT-TCTTTTC-TTCT
73431 TTT
1 TTT
73434 TGTACTCCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
19 15 0.38
20 7 0.18
21 6 0.15
22 8 0.21
23 3 0.08
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTCTTTTTCTTTTCTTCT
Found at i:76889 original size:10 final size:11
Alignment explanation
Indices: 76874--76902 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
76864 TCTTTTTGAA
76874 TTTCTTTTCT-
1 TTTCTTTTCTC
76884 TTTCTTTTCTC
1 TTTCTTTTCTC
76895 TTTCTTTT
1 TTTCTTTT
76903 TCTGAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTCTTTTCTC
Found at i:80649 original size:14 final size:13
Alignment explanation
Indices: 80633--80692 Score: 57
Period size: 13 Copynumber: 4.4 Consensus size: 13
80623 TTTGAATTTC
80633 TTTTTCTTTTCTT
1 TTTTTCTTTTCTT
* *
80646 CTTTTCTTTTTCTGA
1 TTTTTC-TTTTCT-T
*
80661 ATTTTCTTCTTCTT
1 TTTTTCTT-TTCTT
*
80675 TTTATCTTTTCTT
1 TTTTTCTTTTCTT
80688 TTTTT
1 TTTTT
80693 TTGTACTCCA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
13 14 0.38
14 14 0.38
15 9 0.24
ACGTcount: A:0.05, C:0.17, G:0.02, T:0.77
Consensus pattern (13 bp):
TTTTTCTTTTCTT
Found at i:80674 original size:34 final size:32
Alignment explanation
Indices: 80617--80691 Score: 100
Period size: 34 Copynumber: 2.3 Consensus size: 32
80607 CTTGGCTTGC
*
80617 TTTC-TTTTTGAATTTCTTTTTCTTTTCT-TCT
1 TTTCTTTTTTGAATTTCTTCTTCTTTT-TATCT
80648 TTTCTTTTTCTGAATTTTCTTCTTCTTTTTATCT
1 TTTCTTTTT-TGAA-TTTCTTCTTCTTTTTATCT
80682 TTTCTTTTTT
1 TTTCTTTTTT
80692 TTTGTACTCC
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
31 4 0.10
32 4 0.10
33 6 0.15
34 25 0.64
ACGTcount: A:0.07, C:0.16, G:0.03, T:0.75
Consensus pattern (32 bp):
TTTCTTTTTTGAATTTCTTCTTCTTTTTATCT
Found at i:96913 original size:31 final size:31
Alignment explanation
Indices: 96842--96916 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 31
96832 TTGGGGCTTG
**
96842 AGAGCCTACCCAAGAAAGTTCTCAGGGCCAC
1 AGAGCCTACCCAAGAAAAATCTCAGGGCCAC
* * *
96873 -GGGCCTACCCAAGAAAAATCTCGGGGCCGC
1 AGAGCCTACCCAAGAAAAATCTCAGGGCCAC
96903 AGAGCCTACCCAAG
1 AGAGCCTACCCAAG
96917 GGTGGCCTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
30 25 0.68
31 12 0.32
ACGTcount: A:0.31, C:0.33, G:0.25, T:0.11
Consensus pattern (31 bp):
AGAGCCTACCCAAGAAAAATCTCAGGGCCAC
Found at i:98611 original size:19 final size:19
Alignment explanation
Indices: 98578--98651 Score: 64
Period size: 19 Copynumber: 4.1 Consensus size: 19
98568 ACCTAGAAAA
*
98578 AGTCAA-TGGTCGGTCAAC
1 AGTCAACTGCTCGGTCAAC
* * *
98596 GGTCAACTGCTCGGTCGAT
1 AGTCAACTGCTCGGTCAAC
* *
98615 AGTCAA-TG-GCGGTTAAC
1 AGTCAACTGCTCGGTCAAC
*
98632 AGTCCACTGCTCGGTCAAC
1 AGTCAACTGCTCGGTCAAC
98651 A
1 A
98652 ACGCATTTCA
Statistics
Matches: 41, Mismatches: 12, Indels: 5
0.71 0.21 0.09
Matches are distributed among these distances:
17 10 0.24
18 9 0.22
19 22 0.54
ACGTcount: A:0.24, C:0.26, G:0.27, T:0.23
Consensus pattern (19 bp):
AGTCAACTGCTCGGTCAAC
Found at i:98645 original size:36 final size:37
Alignment explanation
Indices: 98578--98647 Score: 106
Period size: 36 Copynumber: 1.9 Consensus size: 37
98568 ACCTAGAAAA
*
98578 AGTCAATGGTCGGTCAACGGTCAACTGCTCGGTCGAT
1 AGTCAATGGTCGGTCAACAGTCAACTGCTCGGTCGAT
* *
98615 AGTCAATGG-CGGTTAACAGTCCACTGCTCGGTC
1 AGTCAATGGTCGGTCAACAGTCAACTGCTCGGTC
98648 AACAACGCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
36 21 0.70
37 9 0.30
ACGTcount: A:0.21, C:0.26, G:0.29, T:0.24
Consensus pattern (37 bp):
AGTCAATGGTCGGTCAACAGTCAACTGCTCGGTCGAT
Found at i:100532 original size:66 final size:67
Alignment explanation
Indices: 100415--100544 Score: 174
Period size: 66 Copynumber: 2.0 Consensus size: 67
100405 CCTTAGGTCT
* * *
100415 ATAAGGAATTACCATTCGATGCTGAACCTATAAAACGAATTATCAAGAGCGAGTGAACCTGCCAA
1 ATAAGGAATTACCAGTCGATGCAGAACCTATAAAACGAATTATCAAGAGCGACTGAACCTGCCAA
100480 AG
66 AG
* * **
100482 ATAA-GAATTACCAGTCGGTGCAGAACCTATAAAAGGAATTA-CCCGCAGCGACTGAACCTGCCA
1 ATAAGGAATTACCAGTCGATGCAGAACCTATAAAACGAATTATCAAG-AGCGACTGAACCTGCCA
100545 GAGTCTTCAT
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
65 2 0.04
66 49 0.89
67 4 0.07
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.19
Consensus pattern (67 bp):
ATAAGGAATTACCAGTCGATGCAGAACCTATAAAACGAATTATCAAGAGCGACTGAACCTGCCAA
AG
Found at i:102159 original size:26 final size:25
Alignment explanation
Indices: 102127--102192 Score: 87
Period size: 26 Copynumber: 2.6 Consensus size: 25
102117 CAACGGCTGG
102127 TTAACAACGGTTAACGATCAACAGC
1 TTAACAACGGTTAACGATCAACAGC
* **
102152 TTCAACAACAGTTAACGATCAAGTGC
1 TT-AACAACGGTTAACGATCAACAGC
102178 TTAATCAACGGTTAA
1 TTAA-CAACGGTTAA
102193 GTACTTGGTC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 4 0.11
26 31 0.89
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.24
Consensus pattern (25 bp):
TTAACAACGGTTAACGATCAACAGC
Found at i:103206 original size:31 final size:31
Alignment explanation
Indices: 103164--103223 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
103154 TCAAAGATTA
*
103164 ATCTTTTGTAGAGGATGTTTATTCTTCATCG
1 ATCTTTGGTAGAGGATGTTTATTCTTCATCG
103195 ATCTTTGGTAGAGGATGTTTATTCTTCAT
1 ATCTTTGGTAGAGGATGTTTATTCTTCAT
103224 TACCACTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.20, C:0.12, G:0.20, T:0.48
Consensus pattern (31 bp):
ATCTTTGGTAGAGGATGTTTATTCTTCATCG
Found at i:114009 original size:20 final size:22
Alignment explanation
Indices: 113986--114066 Score: 87
Period size: 21 Copynumber: 3.7 Consensus size: 22
113976 TTGGTGCAGA
113986 GGGAATCGA-TCCCCCCTTGA-
1 GGGAATCGATTCCCCCCTTGAG
* *
114006 GGGAACCGATTCCCCCTTTGAAG
1 GGGAATCGATTCCCCCCTTG-AG
*
114029 GGGAATCGATTCCCCCCCAT-AG
1 GGGAATCGATT-CCCCCCTTGAG
*
114051 GGGAATCGATACCCCC
1 GGGAATCGATTCCCCC
114067 TTGGGGTTCT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
20 8 0.16
21 14 0.27
22 13 0.25
23 10 0.20
24 6 0.12
ACGTcount: A:0.22, C:0.35, G:0.25, T:0.19
Consensus pattern (22 bp):
GGGAATCGATTCCCCCCTTGAG
Found at i:114038 original size:23 final size:21
Alignment explanation
Indices: 113984--114045 Score: 81
Period size: 23 Copynumber: 2.9 Consensus size: 21
113974 TTTTGGTGCA
113984 GAGGGAATCGA-TCCCCCCTT
1 GAGGGAATCGATTCCCCCCTT
* *
114004 GAGGGAACCGATTCCCCCTTT
1 GAGGGAATCGATTCCCCCCTT
114025 GAAGGGGAATCGATTCCCCCC
1 G-A-GGGAATCGATTCCCCCC
114046 CATAGGGGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 10 0.29
21 9 0.26
22 1 0.03
23 15 0.43
ACGTcount: A:0.21, C:0.34, G:0.26, T:0.19
Consensus pattern (21 bp):
GAGGGAATCGATTCCCCCCTT
Found at i:123109 original size:205 final size:198
Alignment explanation
Indices: 122748--123155 Score: 737
Period size: 205 Copynumber: 2.0 Consensus size: 198
122738 CTCTGGAAAT
122748 GGACATGATCCATAATGTTTTCCATATGTCATGCTGAGATTATCAATTAATCCTTCGCATATATC
1 GGACATGATCCATAATGTTTTCCATATGTCATGCTGAGATTATCAATTAATCCTTCGCATATATC
122813 ACCCAAAGGAAATAAAGATTTGGCCAAATTTGACTTATGAAAAAAAGTACTTATTAAAGTTCTAC
66 ACCCAAAGGAAATAAAGATTTGGCCAAATTTGACTTATGAAAAAAAGTACTTATTAAAGTTCTAC
122878 AAAGAAATCAAAGCATGAAAAAGAAGCATCCTCTTCTATTTAGATCATGTACGTATTG-AAAATT
131 AAAGAAATCAAAGCATGAAAAAGAAGCATCCTCTTCTATTTAGATCATGTACGTATTGAAAAATT
122942 TGA
196 TGA
122945 GGACATGATCCATAATGTTTTCCATATGTCAATGCTGAGGATGTATCAATTAATCCTTCGCATAT
1 GGACATGATCCATAATGTTTTCCATATGTC-ATGCTGA-GAT-TATCAATTAATCCTTCGCATA-
123010 TATCACCCAAAGGAAATAAAGATTTGGCCAAATTTGACTTATGAAAAAGAATAAGTACTTATTAA
62 TATCACCCAAAGGAAATAAAGATTTGGCCAAATTTGACTTATG--AAA-AA-AAGTACTTATTAA
123075 AGTTCTACAAAGAAATCAAAGCATGAAAAAGAAGCATCCTCTTCTATTTAGATCATGTACGTATT
123 AGTTCTACAAAGAAATCAAAGCATGAAAAAGAAGCATCCTCTTCTATTTAGATCATGTACGTATT
123140 GAAAAATTTGA
188 GAAAAATTTGA
123151 GGACA
1 GGACA
123156 AATTTTCTTA
Statistics
Matches: 202, Mismatches: 0, Indels: 9
0.96 0.00 0.04
Matches are distributed among these distances:
197 30 0.15
198 7 0.03
199 3 0.01
200 21 0.10
201 43 0.21
203 3 0.01
204 2 0.01
205 79 0.39
206 14 0.07
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (198 bp):
GGACATGATCCATAATGTTTTCCATATGTCATGCTGAGATTATCAATTAATCCTTCGCATATATC
ACCCAAAGGAAATAAAGATTTGGCCAAATTTGACTTATGAAAAAAAGTACTTATTAAAGTTCTAC
AAAGAAATCAAAGCATGAAAAAGAAGCATCCTCTTCTATTTAGATCATGTACGTATTGAAAAATT
TGA
Found at i:130237 original size:23 final size:23
Alignment explanation
Indices: 130207--130256 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
130197 TTACCATTTG
130207 ACCACTATAAAATCATGATAATT
1 ACCACTATAAAATCATGATAATT
130230 ACCACTATAAAATCATGATAATT
1 ACCACTATAAAATCATGATAATT
130253 ACCA
1 ACCA
130257 TGTCGTATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.48, C:0.20, G:0.04, T:0.28
Consensus pattern (23 bp):
ACCACTATAAAATCATGATAATT
Found at i:133806 original size:20 final size:22
Alignment explanation
Indices: 133781--133820 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
133771 TGTTGTATAT
133781 AGTCG-TTGGGGATG-TTTTGG
1 AGTCGTTTGGGGATGATTTTGG
133801 AGTCGTTTGGGGATGATTTT
1 AGTCGTTTGGGGATGATTTT
133821 TCTACTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.05, G:0.40, T:0.42
Consensus pattern (22 bp):
AGTCGTTTGGGGATGATTTTGG
Found at i:133931 original size:20 final size:20
Alignment explanation
Indices: 133902--133954 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
133892 GCAGCCTTCG
133902 TGCATGGATGCACAGCAGGA
1 TGCATGGATGCACAGCAGGA
* *
133922 TGCATCGATGCACATCAGGA
1 TGCATGGATGCACAGCAGGA
133942 TGCATGGATGCAC
1 TGCATGGATGCAC
133955 TAAGTGCATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.28, C:0.23, G:0.30, T:0.19
Consensus pattern (20 bp):
TGCATGGATGCACAGCAGGA
Found at i:134022 original size:22 final size:22
Alignment explanation
Indices: 133994--134052 Score: 109
Period size: 22 Copynumber: 2.7 Consensus size: 22
133984 GCACTGCATA
133994 GTGCATCGATGCACTAGTGCAG
1 GTGCATCGATGCACTAGTGCAG
*
134016 GTGCATCGATGCACTAGTGTAG
1 GTGCATCGATGCACTAGTGCAG
134038 GTGCATCGATGCACT
1 GTGCATCGATGCACT
134053 GCAGGGGTGC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.25
Consensus pattern (22 bp):
GTGCATCGATGCACTAGTGCAG
Found at i:134272 original size:21 final size:21
Alignment explanation
Indices: 134248--134288 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
134238 ATATTTTTAA
134248 ATAATT-GAACATAATGGATTG
1 ATAATTAGAA-ATAATGGATTG
*
134269 ATAATTAGAAATAATTGATT
1 ATAATTAGAAATAATGGATT
134289 AATTTTATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.46, C:0.02, G:0.15, T:0.37
Consensus pattern (21 bp):
ATAATTAGAAATAATGGATTG
Found at i:136817 original size:2 final size:2
Alignment explanation
Indices: 136810--136849 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
136800 TTTATCATGA
136810 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
136850 ATGTTTATTG
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:137941 original size:21 final size:21
Alignment explanation
Indices: 137908--137947 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
137898 ATTTTTTAAA
137908 TAATTGAATATAATGGATTTG
1 TAATTGAATATAATGGATTTG
*
137929 TAATTAGAA-ATAATTGATT
1 TAATT-GAATATAATGGATT
137948 AATTTTATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (21 bp):
TAATTGAATATAATGGATTTG
Found at i:150492 original size:19 final size:18
Alignment explanation
Indices: 150470--150518 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
150460 AATATAGTTG
150470 GTATTAAAT-ATAATTAATA
1 GTATTAAATAAT-ATT-ATA
*
150489 GTATGAAATAATATTATA
1 GTATTAAATAATATTATA
*
150507 ATATTAAATAAT
1 GTATTAAATAAT
150519 GCTTAAATAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 13 0.50
19 11 0.42
20 2 0.08
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (18 bp):
GTATTAAATAATATTATA
Found at i:153718 original size:676 final size:676
Alignment explanation
Indices: 152286--154978 Score: 4448
Period size: 676 Copynumber: 4.0 Consensus size: 676
152276 AACTTTTCGA
*
152286 TGATTATATTCCCTCTGACCAAACTATTAGAA-AAAGACGTGTTATTCATTTGGACTGTTAAGTA
1 TGATTATATTCCCTCTGACCAAACTATTA-AAGAAAGACGTGTTATTCATTTGGACTGTTAAGTG
* * * * *
152350 CCAATAAAAATTTGAGATGTTAAAAAAAATACTGACATAAGCTCCAAGGTCAGTATAATTAGAAT
65 CCAAGAAAACTTTGAGATGTTAAAAAGAATACCGACATAAGCTCCAAGGTCAGTATAACTAGAAT
* * *
152415 CTAGAAAATATTATTTGAATTATAGTAATGCGTCTCCTAATGGTTTGAGATGATTGTTTGTACAA
130 CTAGAAAAGAGTATTTGAATTATAGTAATGCATCTCCTAATGGTTTGAGATGATTGTTTGTACAA
* * *
152480 TAGGAAAAGTTTTGGTTTATGCTTTAAAGCAACTACAGAATCATGAAATAAATTATATGGCTTAT
195 TTGGAAAAGTTTTGGTTTATGCTTTAAAGCAACTACAAAATCATGAAATAAATTATATGGCTCAT
*
152545 GATCT-TGATTTGACAACAATTTTGTTTACTTTGTTGATATATCACCACTATCTATATGGTGAGT
260 GATCTCT-AGTTGACAACAATTTTGTTTACTTTGTTGATATATCACCACTATCTATATGGTGAGT
* *
152609 GACTCTATATATATGCGGATCTCAAAATTCAAAAGTATGTGTTGACTCGAAAGAGTGAAAAGAAA
324 GACTCTATATTTATGCGGATCTCAAAATTCAAAAGTATGTGTTGACTCGAAGGAGTGAAAAGAAA
*
152674 TGAAATGGATTGAATTCCTTAAAGAATGATGATATGCTTATCAACTGCAAATAGGAAAGGCTAAT
389 TGAAATGGATTGAATTCCTTAAAGAATGATGATGTGCTTATCAACTGCAAATAGGAAAGGCTAAT
* *
152739 ATAGTGGTTGATACGATAAAGCTGAAAGACATTTCTATTATGATAGTTTTGAATGTGTGATTGTC
454 ATAGTGGCTGATACGATAAAGCTGAAAGACATTTCTATTATGAGAGTTTTGAATGTGTGATTGTC
* * *
152804 TTTAAAGAAATATGGTGTTTTGATTATAGAATTAAATTTAAATCCTATGTTGCTAGATCGAATAA
519 TTTAAAGAAAGATGGTGTTTTGATTATAGAATTAAATCTAAAGCCTATGTTGCTAGATCGAATAA
* *
152869 AGGATCATCAAAGAAAATATTAAAATTTTCATGCTTGTCAAAGATAGACACAAGCAGAAAAAAAA
584 AGGATCATCAAAGAAAATATGAAAATTGTCATGCTTGTCAAAGATAGA-ACAAGCAGAAAAAAAA
152934 AGTGAAACTAAAGACTTTAAACTTATTTT
648 AGTGAAACTAAAGACTTTAAACTTATTTT
* *
152963 TGATTATATTCCCTCTGACCAAACAATTAGAGAAAGACGTGTTATTCATTTGGACTGTTAAGTGC
1 TGATTATATTCCCTCTGACCAAACTATTAAAGAAAGACGTGTTATTCATTTGGACTGTTAAGTGC
* * *
153028 CAAGAAAA-TTTGAGATGTTAAAATGAATACCGACATAAACTCCAACGTCAGTATAACTAGAATC
66 CAAGAAAACTTTGAGATGTTAAAAAGAATACCGACATAAGCTCCAAGGTCAGTATAACTAGAATC
* *
153092 TACAAAAGAGTATTTGAATTATAGTAATGCATCTCCTAATGGTTTGAGATGATTGTTTTTACAAT
131 TAGAAAAGAGTATTTGAATTATAGTAATGCATCTCCTAATGGTTTGAGATGATTGTTTGTACAAT
* *
153157 TGGAAAAGTTTTGGTTTATGGTTTAAAGCAACTAAAAAATCATGAAATAAATTATATGGCTCATG
196 TGGAAAAGTTTTGGTTTATGCTTTAAAGCAACTACAAAATCATGAAATAAATTATATGGCTCATG
*
153222 ATCTCTAGTTGACAACAATTTTGTTTACTTTGTTGATATATCACCACTATCTGTATGGTGAGTGA
261 ATCTCTAGTTGACAACAATTTTGTTTACTTTGTTGATATATCACCACTATCTATATGGTGAGTGA
* *
153287 CTCTATATTTATGCAGATCTCAAAATTCAAAAGTATGTTTTGACTCG-AGAGAGTGAAAAGAAAT
326 CTCTATATTTATGCGGATCTCAAAATTCAAAAGTATGTGTTGACTCGAAG-GAGTGAAAAGAAAT
* * * * *
153351 GAAATGGATCGAATTCCTTAAAGAATGATGATGTTCTTATCAACTGTAAACATGAAAGGCTAATA
390 GAAATGGATTGAATTCCTTAAAGAATGATGATGTGCTTATCAACTGCAAATAGGAAAGGCTAATA
*
153416 TAGTGGCTGATACGATAAAGCTGAAAGACATTTCTATTATGATAGTTTTGAATGTGTGATTGTCT
455 TAGTGGCTGATACGATAAAGCTGAAAGACATTTCTATTATGAGAGTTTTGAATGTGTGATTGTCT
* *
153481 TTAAAGAAAGATGGTGTTTTGATTATAGAATTAAATTTAAAGCGTATGTTGCTAGATCGAATAAA
520 TTAAAGAAAGATGGTGTTTTGATTATAGAATTAAATCTAAAGCCTATGTTGCTAGATCGAATAAA
* * *
153546 GGATCATCAAAGAAAATATGAAAATTTTCATGCCTATCAAAGATAGAACAAGCAGAAAAAAAAAG
585 GGATCATCAAAGAAAATATGAAAATTGTCATGCTTGTCAAAGATAGAACAAGCAGAAAAAAAAAG
* *
153611 TGAAACTAAAGACTTTTAACTTAATTT
650 TGAAACTAAAGACTTTAAACTTATTTT
* *
153638 TGATTATATTCCCTTTGACCAAACTATTAAAGAAATACGTGTTATTCATTTGGACTGTTAAGTGC
1 TGATTATATTCCCTCTGACCAAACTATTAAAGAAAGACGTGTTATTCATTTGGACTGTTAAGTGC
* *
153703 CAAGAAAACTTTGAGATTTTAAAATGAATACCGACATAAGCTCCAAGGTCAGTATAACTAGAATC
66 CAAGAAAACTTTGAGATGTTAAAAAGAATACCGACATAAGCTCCAAGGTCAGTATAACTAGAATC
* *
153768 TAGAAAAGAGTATTTGAATTATAGTAATGCATCTCCTAATGGTTTGAGATGATTATTTGTATAAT
131 TAGAAAAGAGTATTTGAATTATAGTAATGCATCTCCTAATGGTTTGAGATGATTGTTTGTACAAT
*
153833 TGGAAAAGTTTTGGTTTATGCTTTAAACCAACTACAAAATCATGAAATAAATTATATGGCTCATG
196 TGGAAAAGTTTTGGTTTATGCTTTAAAGCAACTACAAAATCATGAAATAAATTATATGGCTCATG
*
153898 ATCTCTAGTTGACAACAATTTTGTTTACTATGTTGATATATCACCACTATCTATATGGTGAGTGA
261 ATCTCTAGTTGACAACAATTTTGTTTACTTTGTTGATATATCACCACTATCTATATGGTGAGTGA
*
153963 --CTATATTTATGCGGATCTCAAAATTCAAAAGTATGTGTTGACTCGAATGAGTGAAAAGAAATG
326 CTCTATATTTATGCGGATCTCAAAATTCAAAAGTATGTGTTGACTCGAAGGAGTGAAAAGAAATG
* **
154026 AAATGGATTGAATTCCTTAAAGAATGATGATGTGCTTATCAACTTCAAATAGGAAAGGCTAATGC
391 AAATGGATTGAATTCCTTAAAGAATGATGATGTGCTTATCAACTGCAAATAGGAAAGGCTAATAT
* * * *
154091 GGTGGCTGATACGATAAAGCTGAAAGACATTTCTATTCTGAGAGTTTTGAATTTGTGATTTTCTT
456 AGTGGCTGATACGATAAAGCTGAAAGACATTTCTATTATGAGAGTTTTGAATGTGTGATTGTCTT
* * * * *
154156 TAAATAAAGATGGTGTTTTGATTATAGGATTAAATCTAAAGCCTATGTTTCTATATTGAATAAAG
521 TAAAGAAAGATGGTGTTTTGATTATAGAATTAAATCTAAAGCCTATGTTGCTAGATCGAATAAAG
* * *
154221 GATCATCAGAGAAAATATGAAAATTGTCATGCTTGTCAAAGATAGAACAAGAAGGAAAAAAAAGT
586 GATCATCAAAGAAAATATGAAAATTGTCATGCTTGTCAAAGATAGAACAAGCAGAAAAAAAAAGT
*
154286 GAAACTAAAGAGTTTAAACTTATTTT
651 GAAACTAAAGACTTTAAACTTATTTT
* * *
154312 TTATTATATTCCATCTGACCAAACTATTAGAGAAAGACGTGTTATTCATTTGGACTGTTAAGTGC
1 TGATTATATTCCCTCTGACCAAACTATTAAAGAAAGACGTGTTATTCATTTGGACTGTTAAGTGC
154377 CAAGAAAACTTTGAGATGTTAAAAAGAATACCGACATAAGCTCCAAGGTCAGTATAACTAGAATC
66 CAAGAAAACTTTGAGATGTTAAAAAGAATACCGACATAAGCTCCAAGGTCAGTATAACTAGAATC
*
154442 TAGAAAAGAGTATTTGAATTATAGTAATGCATCTCCTAATGATTTGAGATGATTGTTTGTACAAT
131 TAGAAAAGAGTATTTGAATTATAGTAATGCATCTCCTAATGGTTTGAGATGATTGTTTGTACAAT
* * *
154507 TGGAAAAATTTTTGTTTATGCTTTAAAGCAACTACAAATTCATGAAATAAATTATATGGCTCATG
196 TGGAAAAGTTTTGGTTTATGCTTTAAAGCAACTACAAAATCATGAAATAAATTATATGGCTCATG
154572 ATCTCTAGTTGACAACAATTTTGTTTACTTTGTTGATATATCACCACTATCTATATGGTGAGTGA
261 ATCTCTAGTTGACAACAATTTTGTTTACTTTGTTGATATATCACCACTATCTATATGGTGAGTGA
* *
154637 GTCTATATTTATGCGGATCTCAAAATTCAAAAGTATGTGTTGAATCGAAGGAGTGAAAAGAAATG
326 CTCTATATTTATGCGGATCTCAAAATTCAAAAGTATGTGTTGACTCGAAGGAGTGAAAAGAAATG
*
154702 AAATGGATTGAATTCCTTAAAGAATGATGATGTGCTTATCAACTGCAAATAGGAAAGGCTAATGT
391 AAATGGATTGAATTCCTTAAAGAATGATGATGTGCTTATCAACTGCAAATAGGAAAGGCTAATAT
* * * * *
154767 GGTGGCTGATACGATAAAGCTGAAAGACATTTCTATTCTGAGAGTTTTGAATTTGTGATTTTATT
456 AGTGGCTGATACGATAAAGCTGAAAGACATTTCTATTATGAGAGTTTTGAATGTGTGATTGTCTT
* *
154832 TAAAGAAATATGGTGTTTTGATTATATG-ATTAAATCTAAAGCCTATATTGCTAGATCGAATAAA
521 TAAAGAAAGATGGTGTTTTGATTATA-GAATTAAATCTAAAGCCTATGTTGCTAGATCGAATAAA
* * *
154896 GGATCATTAGAGAAAATATGAAAATTGTCATGCTTTTCAAAGATAGAACAAGCAG-AAAAAAAAG
585 GGATCATCAAAGAAAATATGAAAATTGTCATGCTTGTCAAAGATAGAACAAGCAGAAAAAAAAAG
154960 TGAAACTAAAGACTTTAAA
650 TGAAACTAAAGACTTTAAA
154979 GTTAAGTCTG
Statistics
Matches: 1889, Mismatches: 119, Indels: 18
0.93 0.06 0.01
Matches are distributed among these distances:
674 625 0.33
675 141 0.07
676 1054 0.56
677 69 0.04
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (676 bp):
TGATTATATTCCCTCTGACCAAACTATTAAAGAAAGACGTGTTATTCATTTGGACTGTTAAGTGC
CAAGAAAACTTTGAGATGTTAAAAAGAATACCGACATAAGCTCCAAGGTCAGTATAACTAGAATC
TAGAAAAGAGTATTTGAATTATAGTAATGCATCTCCTAATGGTTTGAGATGATTGTTTGTACAAT
TGGAAAAGTTTTGGTTTATGCTTTAAAGCAACTACAAAATCATGAAATAAATTATATGGCTCATG
ATCTCTAGTTGACAACAATTTTGTTTACTTTGTTGATATATCACCACTATCTATATGGTGAGTGA
CTCTATATTTATGCGGATCTCAAAATTCAAAAGTATGTGTTGACTCGAAGGAGTGAAAAGAAATG
AAATGGATTGAATTCCTTAAAGAATGATGATGTGCTTATCAACTGCAAATAGGAAAGGCTAATAT
AGTGGCTGATACGATAAAGCTGAAAGACATTTCTATTATGAGAGTTTTGAATGTGTGATTGTCTT
TAAAGAAAGATGGTGTTTTGATTATAGAATTAAATCTAAAGCCTATGTTGCTAGATCGAATAAAG
GATCATCAAAGAAAATATGAAAATTGTCATGCTTGTCAAAGATAGAACAAGCAGAAAAAAAAAGT
GAAACTAAAGACTTTAAACTTATTTT
Found at i:168629 original size:16 final size:16
Alignment explanation
Indices: 168610--168647 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
168600 TGAAACTAAA
168610 AAAAAATTTAAAAATT
1 AAAAAATTTAAAAATT
168626 AAAAAATTTAAAAATT
1 AAAAAATTTAAAAATT
168642 AAAAAA
1 AAAAAA
168648 AATAAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAAAATTTAAAAATT
Found at i:168653 original size:16 final size:16
Alignment explanation
Indices: 168608--168656 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
168598 AATGAAACTA
168608 AAAAAAAATTTAAAAATT
1 AAAAAAAA--TAAAAATT
**
168626 AAAAAATTTAAAAATT
1 AAAAAAAATAAAAATT
168642 AAAAAAAATAAAAAT
1 AAAAAAAATAAAAAT
168657 ATCTAAGGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 21 0.78
18 6 0.22
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAAAAAATAAAAATT
Found at i:168655 original size:8 final size:8
Alignment explanation
Indices: 168610--168647 Score: 58
Period size: 8 Copynumber: 4.8 Consensus size: 8
168600 TGAAACTAAA
168610 AAAAAATT
1 AAAAAATT
*
168618 TAAAAATT
1 AAAAAATT
168626 AAAAAATT
1 AAAAAATT
*
168634 TAAAAATT
1 AAAAAATT
168642 AAAAAA
1 AAAAAA
168648 AATAAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
AAAAAATT
Found at i:169935 original size:21 final size:22
Alignment explanation
Indices: 169885--169935 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 22
169875 ACCCTAACGT
*
169885 ATTAAGATTTTTATTTTGAATTA
1 ATTAA-ATATTTATTTTGAATTA
169908 ATTAAATATTTA-TTT-AATTA
1 ATTAAATATTTATTTTGAATTA
169928 ATTTAAAT
1 A-TTAAAT
169936 TAAATATTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 6 0.23
21 9 0.35
22 6 0.23
23 5 0.19
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (22 bp):
ATTAAATATTTATTTTGAATTA
Found at i:175345 original size:105 final size:104
Alignment explanation
Indices: 175162--175370 Score: 393
Period size: 105 Copynumber: 2.0 Consensus size: 104
175152 ATGATTGTGT
175162 CACTCTTTACTAACTTGAGTGTATCGTTAAGTATGTTTTATTAGATGTCGATTCTACGAATTCAT
1 CACTCTTTACTAACTTGAGTGTATCGTTAAGTATGTTTTATTAGATGTCGATTCTACGAATTCAT
175227 GGAGAGCGATTGGTCAATAAATTAGAGAATGGTCGGGAA
66 GGAGAGCGATTGGTCAATAAATTAGAGAATGGTCGGGAA
175266 CACTC-TTACTAACTTGAGTGTTATCGTTAAGTATGTTTTATTAGATGTCAGATTCTACGAATTC
1 CACTCTTTACTAACTTGAGTG-TATCGTTAAGTATGTTTTATTAGATGTC-GATTCTACGAATTC
175330 ATGGAGAGCGATTGGTCAATAAATTAGAGAATGGTCGGGAA
64 ATGGAGAGCGATTGGTCAATAAATTAGAGAATGGTCGGGAA
175371 ATGAGAGCTA
Statistics
Matches: 103, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
103 15 0.15
104 33 0.32
105 55 0.53
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.34
Consensus pattern (104 bp):
CACTCTTTACTAACTTGAGTGTATCGTTAAGTATGTTTTATTAGATGTCGATTCTACGAATTCAT
GGAGAGCGATTGGTCAATAAATTAGAGAATGGTCGGGAA
Found at i:178610 original size:27 final size:27
Alignment explanation
Indices: 178588--178639 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
178578 TTGGACCTTG
178588 TGAGATTTTAAAAAGGGTAGGACCATA
1 TGAGATTTTAAAAAGGGTAGGACCATA
178615 TGAGATTTTAAAAAGGGTAGGACCA
1 TGAGATTTTAAAAAGGGTAGGACCA
178640 ATAGCTTATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.40, C:0.08, G:0.27, T:0.25
Consensus pattern (27 bp):
TGAGATTTTAAAAAGGGTAGGACCATA
Found at i:180288 original size:55 final size:55
Alignment explanation
Indices: 180217--180490 Score: 370
Period size: 55 Copynumber: 5.0 Consensus size: 55
180207 TTACCAAAAG
* * *
180217 GGCACTGTGTGTGCAACCTTAAGAAATTCATAATGAGTTTATGAA-TTTCTGTATT
1 GGCACTATGTGTGCAACCTCACGAAATTCATAATGAGTTTATGAATTTTC-GTATT
* * *
180272 GGCACTATGTGCGCAACCTTAAGAAATTCATAATGAGTTTATGAATTTTCGTATT
1 GGCACTATGTGTGCAACCTCACGAAATTCATAATGAGTTTATGAATTTTCGTATT
* *
180327 GACACTATGTGTGCAACCTCGCGAAATTCATAATGAGTTTATGAATTTTCGTATT
1 GGCACTATGTGTGCAACCTCACGAAATTCATAATGAGTTTATGAATTTTCGTATT
* * * * * *
180382 GGCACTATGAGTACAACCTCACGAAACTCAAAATGAGTTTATGAATTTCCATATT
1 GGCACTATGTGTGCAACCTCACGAAATTCATAATGAGTTTATGAATTTTCGTATT
* * * *
180437 GGCACTATGTGTGCAACCCCACGTAATTCATAATGAGTTTATAAATTATCGTAT
1 GGCACTATGTGTGCAACCTCACGAAATTCATAATGAGTTTATGAATTTTCGTAT
180491 CAGTACTACA
Statistics
Matches: 193, Mismatches: 25, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
55 189 0.98
56 4 0.02
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (55 bp):
GGCACTATGTGTGCAACCTCACGAAATTCATAATGAGTTTATGAATTTTCGTATT
Found at i:181291 original size:16 final size:16
Alignment explanation
Indices: 181270--181300 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
181260 CCTGACTGTA
181270 AAATGGTATCAATACT
1 AAATGGTATCAATACT
181286 AAATGGTATCAATAC
1 AAATGGTATCAATAC
181301 AGAAGAATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (16 bp):
AAATGGTATCAATACT
Found at i:181793 original size:54 final size:55
Alignment explanation
Indices: 181651--181909 Score: 258
Period size: 55 Copynumber: 4.7 Consensus size: 55
181641 TTACAAAAAG
* * *
181651 GGCACTATGTGTGCAACCTCAA-AAAATTAATAATGAGTTTATGAATTTTTGTATT
1 GGCACTATGTGTGCAACC-CAACGAAATTTATAATGAGTTTATGAATTTTCGTATT
* **
181706 GGCACTATGTCTG-AACCCACAATAAATTTATAATGAGTTTATGAATTTTCGTATT
1 GGCACTATGTGTGCAACCCA-ACGAAATTTATAATGAGTTTATGAATTTTCGTATT
* * * *
181761 -GCACTATGTGTGCAACCGAACGAAATTCATAATGAGTTTCTGAATTTTCCTATT
1 GGCACTATGTGTGCAACCCAACGAAATTTATAATGAGTTTATGAATTTTCGTATT
* * * * ** *
181815 GGCACTATGTGTGCAACCCCACGTAATTTATAATTAGTTTGTGAATTACCGTATC
1 GGCACTATGTGTGCAACCCAACGAAATTTATAATGAGTTTATGAATTTTCGTATT
* * *
181870 GGCAATACGTGTGCGAAAACC-ACTG-AATTTATAATGAGTT
1 GGCACTATGTGTGC--AACCCAAC-GAAATTTATAATGAGTT
181910 GAAATATCAA
Statistics
Matches: 172, Mismatches: 25, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
53 2 0.01
54 46 0.27
55 103 0.60
56 16 0.09
57 5 0.03
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (55 bp):
GGCACTATGTGTGCAACCCAACGAAATTTATAATGAGTTTATGAATTTTCGTATT
Found at i:181843 original size:109 final size:109
Alignment explanation
Indices: 181652--181861 Score: 282
Period size: 109 Copynumber: 1.9 Consensus size: 109
181642 TACAAAAAGG
**
181652 GCACTATGTGTGCAACCTCAAAAAATTAATAATGAGTTTATGAATTTTTGTATTGGCACTATGTC
1 GCACTATGTGTGCAACCTCAAAAAATTAATAATGAGTTTATGAATTTTCCTATTGGCACTATGTC
181717 TGAACCCACAATAAATTTATAATGAGTTTATGAATTTTCGTATT
66 TGAACCCACAATAAATTTATAATGAGTTTATGAATTTTCGTATT
* * * *
181761 GCACTATGTGTGCAACC-GAACGAAATTCATAATGAGTTTCTGAATTTTCCTATTGGCACTATGT
1 GCACTATGTGTGCAACCTCAA-AAAATTAATAATGAGTTTATGAATTTTCCTATTGGCACTATGT
* * * *
181825 GTGCAACCC-CACGT-AATTTATAATTAGTTTGTGAATT
65 CTG-AACCCACA-ATAAATTTATAATGAGTTTATGAATT
181862 ACCGTATCGG
Statistics
Matches: 88, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
108 2 0.02
109 80 0.91
110 6 0.07
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.37
Consensus pattern (109 bp):
GCACTATGTGTGCAACCTCAAAAAATTAATAATGAGTTTATGAATTTTCCTATTGGCACTATGTC
TGAACCCACAATAAATTTATAATGAGTTTATGAATTTTCGTATT
Found at i:182979 original size:55 final size:55
Alignment explanation
Indices: 182913--183202 Score: 316
Period size: 55 Copynumber: 5.3 Consensus size: 55
182903 TTACCGAAAG
* * * *
182913 GGCACTGTGTGTGTAACCTCAAAAAATTCATAATGAGTTTATGAATTTCCATATT
1 GGCACTATGTGTGCAACCTCAAGAAATTCATAATGAGTTTATGAATTTCCGTATT
* * * *
182968 GGCACTATGTGTACAACCTTAAGAAATTTATAATGAGTTTACGAATTT-CGTATT
1 GGCACTATGTGTGCAACCTCAAGAAATTCATAATGAGTTTATGAATTTCCGTATT
* * * *
183022 GGCACTATATGTGTAACCTCACGAAATTCATAATGAGTTTCTGAATTTCCGTATT
1 GGCACTATGTGTGCAACCTCAAGAAATTCATAATGAGTTTATGAATTTCCGTATT
* * * * *
183077 GGCACCATGTGTGAAACCTCATGAAATTCCTAATGAGTTTATGAACTTCCGTATT
1 GGCACTATGTGTGCAACCTCAAGAAATTCATAATGAGTTTATGAATTTCCGTATT
* * * * * *
183132 GGCATTATGTCTGCAACGCT-ACGAAATTCATAATGAGGTTGTGAATTACCGT-TT
1 GGCACTATGTGTGCAAC-CTCAAGAAATTCATAATGAGTTTATGAATTTCCGTATT
* *
183186 CGGAACTACGTGTGCAA
1 -GGCACTATGTGTGCAA
183203 AAAACCACTG
Statistics
Matches: 195, Mismatches: 37, Indels: 6
0.82 0.16 0.03
Matches are distributed among these distances:
54 47 0.24
55 146 0.75
56 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (55 bp):
GGCACTATGTGTGCAACCTCAAGAAATTCATAATGAGTTTATGAATTTCCGTATT
Found at i:183104 original size:109 final size:110
Alignment explanation
Indices: 182913--183183 Score: 332
Period size: 109 Copynumber: 2.5 Consensus size: 110
182903 TTACCGAAAG
* ** * *
182913 GGCACTGTGTGTGTAACCTCAAAAAATTCATAATGAGTTTATGAATTTCCATATTGGCACTATGT
1 GGCACTATGTGTGTAACCTCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCACCATGT
* * *
182978 GTACAACCTTAAGAAATTTATAATGAGTTTACGAA-TTTCGTATT
66 GTACAACCTCAAGAAATTCATAATGAGTTTACGAACTTCCGTATT
* *
183022 GGCACTATATGTGTAACCTCACGAAATTCATAATGAGTTTCTGAATTTCCGTATTGGCACCATGT
1 GGCACTATGTGTGTAACCTCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCACCATGT
* * *
183087 GTGA-AACCTCATGAAATTCCTAATGAGTTTATGAACTTCCGTATT
66 GT-ACAACCTCAAGAAATTCATAATGAGTTTACGAACTTCCGTATT
* * * * * *
183132 GGCATTATGTCTGCAACGCT-ACGAAATTCATAATGAGGTTGTGAATTACCGT
1 GGCACTATGTGTGTAAC-CTCACGAAATTCATAATGAGTTTATGAATTTCCGT
183184 TTCGGAACTA
Statistics
Matches: 139, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
109 86 0.62
110 51 0.37
111 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.35
Consensus pattern (110 bp):
GGCACTATGTGTGTAACCTCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCACCATGT
GTACAACCTCAAGAAATTCATAATGAGTTTACGAACTTCCGTATT
Found at i:184510 original size:53 final size:55
Alignment explanation
Indices: 184371--184593 Score: 315
Period size: 55 Copynumber: 4.1 Consensus size: 55
184361 AGGGCATTGA
* * *
184371 GTGTGCAACCTCAATAAATTCATAATGAGTTTATGAGTTTTCGTATTTGCACTAT
1 GTGTGCAACCTCAAGAAATTCATAATGAGTTTATGAATTTTCGTATTGGCACTAT
* * * *
184426 ATGTTCAACCTCAAGAAATTCATAATGAGTTTATAAATTTTTGTATTGGCACTAT
1 GTGTGCAACCTCAAGAAATTCATAATGAGTTTATGAATTTTCGTATTGGCACTAT
*
184481 GTGTGCAACCTC-A-AAATTCATAATTAGTTTATGAATTTTCGTATTGGCACTAT
1 GTGTGCAACCTCAAGAAATTCATAATGAGTTTATGAATTTTCGTATTGGCACTAT
** * * *
184534 GTGTAAAACCTCACGAAATTCATAATGAGCTTATGAATTTCCGTATTGGCACTAT
1 GTGTGCAACCTCAAGAAATTCATAATGAGTTTATGAATTTTCGTATTGGCACTAT
184589 GTGTG
1 GTGTG
184594 TAACGCCGCA
Statistics
Matches: 147, Mismatches: 19, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
53 47 0.32
54 1 0.01
55 99 0.67
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (55 bp):
GTGTGCAACCTCAAGAAATTCATAATGAGTTTATGAATTTTCGTATTGGCACTAT
Found at i:184513 original size:108 final size:110
Alignment explanation
Indices: 184371--184627 Score: 333
Period size: 108 Copynumber: 2.4 Consensus size: 110
184361 AGGGCATTGA
* * **
184371 GTGTGCAACCTCAATAAATTCATAATGAGTTTATGAGTTTTCGTATTTGCACTATATGTTCAACC
1 GTGTGCAACCTCAATAAATTCATAATGAGTTTATGAATTTTCGTATTGGCACTATATGTAAAACC
* **
184436 TCAAGAAATTCATAATGAGTTTATAAATTTTTGTATTGGCACTAT
66 TCAAGAAATTCATAATGAGCTTATAAATTTCCGTATTGGCACTAT
* *
184481 GTGTGCAACCTC-A-AAATTCATAATTAGTTTATGAATTTTCGTATTGGCACTATGTGTAAAACC
1 GTGTGCAACCTCAATAAATTCATAATGAGTTTATGAATTTTCGTATTGGCACTATATGTAAAACC
* *
184544 TCACGAAATTCATAATGAGCTTATGAATTTCCGTATTGGCACTAT
66 TCAAGAAATTCATAATGAGCTTATAAATTTCCGTATTGGCACTAT
* * * *
184589 GTGTGTAACGC-CGCAT-AATTCTTAATGAGTTTGTGAATT
1 GTGTGCAAC-CTC-AATAAATTCATAATGAGTTTATGAATT
184628 ACTGTTTCGA
Statistics
Matches: 128, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
108 93 0.73
109 2 0.02
110 33 0.26
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (110 bp):
GTGTGCAACCTCAATAAATTCATAATGAGTTTATGAATTTTCGTATTGGCACTATATGTAAAACC
TCAAGAAATTCATAATGAGCTTATAAATTTCCGTATTGGCACTAT
Found at i:184609 original size:55 final size:54
Alignment explanation
Indices: 184386--184627 Score: 267
Period size: 55 Copynumber: 4.4 Consensus size: 54
184376 CAACCTCAAT
* * *
184386 AAATTCATAATGAGTTTATGAGTTTTCGTATTTGCACTATATGT-TCAACCTCAAG-
1 AAATTCATAATGAGTTTATGAATTTTCGTATTGGCACTATGTGTGT-AACCTC--GC
* * * *
184441 AAATTCATAATGAGTTTATAAATTTTTGTATTGGCACTATGTGTGCAACCTC-A
1 AAATTCATAATGAGTTTATGAATTTTCGTATTGGCACTATGTGTGTAACCTCGC
* ** *
184494 AAATTCATAATTAGTTTATGAATTTTCGTATTGGCACTATGTGTAAAACCTCAC
1 AAATTCATAATGAGTTTATGAATTTTCGTATTGGCACTATGTGTGTAACCTCGC
* *
184548 GAAATTCATAATGAGCTTATGAATTTCCGTATTGGCACTATGTGTGTAACGC-CGC
1 -AAATTCATAATGAGTTTATGAATTTTCGTATTGGCACTATGTGTGTAAC-CTCGC
* *
184603 ATAATTCTTAATGAGTTTGTGAATT
1 A-AATTCATAATGAGTTTATGAATT
184628 ACTGTTTCGA
Statistics
Matches: 160, Mismatches: 21, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
53 47 0.29
54 1 0.01
55 111 0.69
56 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (54 bp):
AAATTCATAATGAGTTTATGAATTTTCGTATTGGCACTATGTGTGTAACCTCGC
Found at i:185882 original size:55 final size:55
Alignment explanation
Indices: 185823--186075 Score: 307
Period size: 55 Copynumber: 4.6 Consensus size: 55
185813 TTGTGTGTGT
*
185823 AACCTCAATAAATTCATAATGAGTTTATGAATTTCCGTATTTGCACTATGTGTTC
1 AACCTCAATAAATTCATAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTTC
* *
185878 AACCTC-ATGAAATTCATAATGAGTTTATAAATATT-TGTATTGGCACTATGTGTTC
1 AACCTCAAT-AAATTCATAATGAGTTTATGAAT-TTCCGTATTGGCACTATGTGTTC
** **
185933 AACCTCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTAA
1 AACCTCAATAAATTCATAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTTC
** * *
185988 AACCTCACGAAATTCATAATGAGTTTATGAATTTTCGTATTAGCACTATGTGTGT-
1 AACCTCAATAAATTCATAATGAGTTTATGAATTTCCGTATTGGCACTATGTGT-TC
* * * *
186043 AACGTCGCAT-AATTCTTAATGAGTTTGTGAATT
1 AACCTC-AATAAATTCATAATGAGTTTATGAATT
186076 ACCATTTTGA
Statistics
Matches: 174, Mismatches: 18, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
54 4 0.02
55 168 0.97
56 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (55 bp):
AACCTCAATAAATTCATAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTTC
Found at i:185958 original size:110 final size:109
Alignment explanation
Indices: 185816--186075 Score: 362
Period size: 110 Copynumber: 2.4 Consensus size: 109
185806 AAGGGCATTG
* * **
185816 TGTGTGTAACCTCAATAAATTCATAATGAGTTTATGAATTTCCGTATTTGCACTATGTGTTCAAC
1 TGTGTGTAACCTC-ACAAATTCATAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTAAAAC
* *
185881 CTCATGAAATTCATAATGAGTTTATAAATATTT-GTATTGGCACTA
65 CTCACGAAATTCATAATGAGTTTATAAAT-TTTCGTATTAGCACTA
185926 TGTGT-TCAACCTCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTAAAA
1 TGTGTGT-AACCTCAC-AAATTCATAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTAAAA
*
185990 CCTCACGAAATTCATAATGAGTTTATGAATTTTCGTATTAGCACTA
64 CCTCACGAAATTCATAATGAGTTTATAAATTTTCGTATTAGCACTA
* * * *
186036 TGTGTGTAACGTCGCATAATTCTTAATGAGTTTGTGAATT
1 TGTGTGTAACCTCACA-AATTCATAATGAGTTTATGAATT
186076 ACCATTTTGA
Statistics
Matches: 134, Mismatches: 11, Indels: 10
0.86 0.07 0.06
Matches are distributed among these distances:
109 6 0.04
110 127 0.95
111 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (109 bp):
TGTGTGTAACCTCACAAATTCATAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTAAAACC
TCACGAAATTCATAATGAGTTTATAAATTTTCGTATTAGCACTA
Found at i:192671 original size:29 final size:29
Alignment explanation
Indices: 192600--192732 Score: 124
Period size: 29 Copynumber: 4.6 Consensus size: 29
192590 ACATTCAAAA
* * *
192600 ATTTT-CAAAATGTCACCTTTTTCAAAAA
1 ATTTTCCAGAATGTCACCTTTTTCGAAAT
* ***
192628 AATTAAAAGAATGTCACCTTTTTCGAAAT
1 ATTTTCCAGAATGTCACCTTTTTCGAAAT
* **
192657 ATTTTCCAGATTGTCACCTTTATTTATAAAT
1 ATTTTCCAGAATGTCACC-TT-TTTCGAAAT
* * *
192688 AATTCCCAAAATGTCACCTTTTTCGAAAT
1 ATTTTCCAGAATGTCACCTTTTTCGAAAT
192717 ATTTTCCAGAATGTCA
1 ATTTTCCAGAATGTCA
192733 TCGGGTCAGG
Statistics
Matches: 80, Mismatches: 22, Indels: 5
0.75 0.21 0.05
Matches are distributed among these distances:
28 3 0.04
29 52 0.65
30 4 0.05
31 21 0.26
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.39
Consensus pattern (29 bp):
ATTTTCCAGAATGTCACCTTTTTCGAAAT
Found at i:200012 original size:30 final size:29
Alignment explanation
Indices: 199980--200174 Score: 149
Period size: 30 Copynumber: 6.6 Consensus size: 29
199970 CACATTTGAA
*
199980 AATTCCCAAAATGTCACCTTTTTCAAAAAA
1 AATTCCCAAAATGTCACCTTTTTC-AAAAT
* * * **
200010 AATACCCAGAATGTCACATTTTTTTGAAAT
1 AATTCCCAAAATGTCAC-CTTTTTCAAAAT
* * * * *
200040 ATTTCCCAGATTGTCACTTTTTTCAATAT
1 AATTCCCAAAATGTCACCTTTTTCAAAAT
**
200069 AATTCAAAAAAATGTCACC-TTTTCAAAAT
1 AATTC-CCAAAATGTCACCTTTTTCAAAAT
* * * *
200098 ATTTACCAGAATATCACCTTTTTCAAAAT
1 AATTCCCAAAATGTCACCTTTTTCAAAAT
* *
200127 AATTCCCAAAATGTTACCTTTTTTCGAAAT
1 AATTCCCAAAATGTCACC-TTTTTCAAAAT
* * *
200157 ATTTTCCAGAATGTCACC
1 AATTCCCAAAATGTCACC
200175 GGATCGGATC
Statistics
Matches: 126, Mismatches: 35, Indels: 8
0.75 0.21 0.05
Matches are distributed among these distances:
28 9 0.07
29 48 0.38
30 64 0.51
31 5 0.04
ACGTcount: A:0.36, C:0.21, G:0.06, T:0.37
Consensus pattern (29 bp):
AATTCCCAAAATGTCACCTTTTTCAAAAT
Found at i:200160 original size:59 final size:59
Alignment explanation
Indices: 199989--200174 Score: 205
Period size: 58 Copynumber: 3.2 Consensus size: 59
199979 AAATTCCCAA
* * * * * *
199989 AATGTCACCTTTTTCAAAAAAAATACCCAGAATGTCACATTTTTTTGAAATATTTCCCAG
1 AATGTCACCTTTTTC-AAAATAATTCCCAAAATGTCACCTTTTTTCGAAATATTTACCAG
* * * ** *
200049 ATTGTCACTTTTTTCAATATAATTCAAAAAAATGTCACC--TTTTCAAAATATTTACCAG
1 AATGTCACCTTTTTCAAAATAATTC-CCAAAATGTCACCTTTTTTCGAAATATTTACCAG
* * *
200107 AATATCACCTTTTTCAAAATAATTCCCAAAATGTTACCTTTTTTCGAAATATTTTCCAG
1 AATGTCACCTTTTTCAAAATAATTCCCAAAATGTCACCTTTTTTCGAAATATTTACCAG
200166 AATGTCACC
1 AATGTCACC
200175 GGATCGGATC
Statistics
Matches: 101, Mismatches: 22, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
57 10 0.10
58 37 0.37
59 32 0.32
60 22 0.22
ACGTcount: A:0.36, C:0.20, G:0.06, T:0.38
Consensus pattern (59 bp):
AATGTCACCTTTTTCAAAATAATTCCCAAAATGTCACCTTTTTTCGAAATATTTACCAG
Found at i:200201 original size:13 final size:13
Alignment explanation
Indices: 200179--200215 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
200169 GTCACCGGAT
200179 CGGATCGGGTCAA
1 CGGATCGGGTCAA
*
200192 CGGTTCGGGTCAA
1 CGGATCGGGTCAA
*
200205 TGGATCGGGTC
1 CGGATCGGGTC
200216 GGTCAATGGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.16, C:0.22, G:0.41, T:0.22
Consensus pattern (13 bp):
CGGATCGGGTCAA
Found at i:200232 original size:17 final size:17
Alignment explanation
Indices: 200199--200232 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
200189 CAACGGTTCG
*
200199 GGTCAATGGATCGGGTC
1 GGTCAATGGATCAGGTC
*
200216 GGTCAATGGGTCAGGTC
1 GGTCAATGGATCAGGTC
200233 AGACCGTCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.18, G:0.41, T:0.24
Consensus pattern (17 bp):
GGTCAATGGATCAGGTC
Found at i:200254 original size:18 final size:18
Alignment explanation
Indices: 200231--200303 Score: 119
Period size: 18 Copynumber: 4.0 Consensus size: 18
200221 ATGGGTCAGG
200231 TCAGACCGTCAACCCGGT
1 TCAGACCGTCAACCCGGT
200249 TCAGACCGTCAACCCGGT
1 TCAGACCGTCAACCCGGT
*
200267 TTAGACCGTCAACCCGGT
1 TCAGACCGTCAACCCGGT
*
200285 TCAGACCGGTCAAACCGGT
1 TCAGACC-GTCAACCCGGT
200304 CACAACATCA
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
18 41 0.80
19 10 0.20
ACGTcount: A:0.23, C:0.36, G:0.23, T:0.18
Consensus pattern (18 bp):
TCAGACCGTCAACCCGGT
Found at i:202523 original size:6 final size:6
Alignment explanation
Indices: 202512--202546 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
202502 GTAAGGGTTC
*
202512 TTTTCT TTTTCT TTTTCT TCTTTTT TTTTCT TTTT
1 TTTTCT TTTTCT TTTTCT T-TTTCT TTTTCT TTTT
202547 GTTGCAGCAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTCT
Found at i:202534 original size:20 final size:19
Alignment explanation
Indices: 202509--202546 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 19
202499 GATGTAAGGG
202509 TTCTTTTCTTTTTCTTTTTC
1 TTCTTTT-TTTTTCTTTTTC
202529 TTCTTTTTTTTTCTTTTT
1 TTCTTTTTTTTTCTTTTT
202547 GTTGCAGCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (19 bp):
TTCTTTTTTTTTCTTTTTC
Found at i:202750 original size:20 final size:21
Alignment explanation
Indices: 202716--202755 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
202706 AAAATAATGA
* *
202716 AAGAAATGGATTAAT-GAAAT
1 AAGAAATGAAATAATAGAAAT
202736 AAGAAATGAAATAATAGAAA
1 AAGAAATGAAATAATAGAAA
202756 AGAAAGGGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.62, C:0.00, G:0.17, T:0.20
Consensus pattern (21 bp):
AAGAAATGAAATAATAGAAAT
Found at i:204589 original size:55 final size:55
Alignment explanation
Indices: 204517--204679 Score: 215
Period size: 55 Copynumber: 3.0 Consensus size: 55
204507 GGGCTCTGTG
* *
204517 TGTGCATCCTCAAGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCACTATA
1 TGTGCAACCTCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCACTATA
* * *
204572 TGTGCAACCTCACGAAATTCATAATGAGTTTATGAATTTCTGTATTGGCACCATG
1 TGTGCAACCTCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCACTATA
* *
204627 TGTGCAACCCCAC-ATAATTCATAATGAG-TTAGTGAATTAT-CGTATCGGCACTA
1 TGTGCAACCTCACGA-AATTCATAATGAGTTTA-TGAATT-TCCGTATTGGCACTA
204680 CGTGTGCGAA
Statistics
Matches: 96, Mismatches: 9, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
54 4 0.04
55 91 0.95
56 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (55 bp):
TGTGCAACCTCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCACTATA
Found at i:205849 original size:55 final size:55
Alignment explanation
Indices: 205757--205890 Score: 205
Period size: 55 Copynumber: 2.4 Consensus size: 55
205747 CAACCTCAAT
205757 AAATTCATAATGAGTTTATGAATTTCTATATTGGCACTATCTGTGAAACCACACG
1 AAATTCATAATGAGTTTATGAATTTCTATATTGGCACTATCTGTGAAACCACACG
* * * * *
205812 AAATTCATAATGAGTTTATGAATTTCTGTATTTGCACTATGTGTGCAACCCCACG
1 AAATTCATAATGAGTTTATGAATTTCTATATTGGCACTATCTGTGAAACCACACG
* *
205867 TAATTCATCATGAGTTTATGAATT
1 AAATTCATAATGAGTTTATGAATT
205891 ATCGTATCGA
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 72 1.00
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (55 bp):
AAATTCATAATGAGTTTATGAATTTCTATATTGGCACTATCTGTGAAACCACACG
Found at i:205905 original size:55 final size:54
Alignment explanation
Indices: 205741--205912 Score: 195
Period size: 55 Copynumber: 3.1 Consensus size: 54
205731 AAGGGCATTG
* * *
205741 TGTGTGCAACCTCA-ATAAATTCATAATGAGTTTATGAATTTCTATATTGGCACTA
1 TGTGTGCAACCACACGT-AATTCATAATGAGTTTATGAATTTCTGTATT-GCACTA
* * *
205796 TCTGTGAAACCACACGAAATTCATAATGAGTTTATGAATTTCTGTATTTGCACTA
1 TGTGTGCAACCACACGTAATTCATAATGAGTTTATGAATTTCTGTA-TTGCACTA
* * *
205851 TGTGTGCAACCCCACGTAATTCATCATGAGTTTATGAATTATC-GTATCGACACTA
1 TGTGTGCAACCACACGTAATTCATAATGAGTTTATGAATT-TCTGTATTG-CACTA
*
205906 CGTGTGC
1 TGTGTGC
205913 TAAAACCACT
Statistics
Matches: 100, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
54 2 0.02
55 94 0.94
56 4 0.04
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.35
Consensus pattern (54 bp):
TGTGTGCAACCACACGTAATTCATAATGAGTTTATGAATTTCTGTATTGCACTA
Found at i:206704 original size:22 final size:22
Alignment explanation
Indices: 206676--206753 Score: 97
Period size: 22 Copynumber: 3.6 Consensus size: 22
206666 CCGAATGGAG
206676 TATCGATACCATAGTATAGAAA
1 TATCGATACCATAGTATAGAAA
* * **
206698 TATCGATACCATAGGAGAGGTA
1 TATCGATACCATAGTATAGAAA
*
206720 -AT-GATACTATAGTATAGAAA
1 TATCGATACCATAGTATAGAAA
206740 TATCGATACCATAG
1 TATCGATACCATAG
206754 GAGAGGTACC
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
20 13 0.30
21 4 0.09
22 27 0.61
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.27
Consensus pattern (22 bp):
TATCGATACCATAGTATAGAAA
Found at i:206732 original size:42 final size:42
Alignment explanation
Indices: 206680--206770 Score: 155
Period size: 42 Copynumber: 2.2 Consensus size: 42
206670 ATGGAGTATC
206680 GATACCATAGTATAGAAATATCGATACCATAGGAGAGGTAAT
1 GATACCATAGTATAGAAATATCGATACCATAGGAGAGGTAAT
* **
206722 GATACTATAGTATAGAAATATCGATACCATAGGAGAGGTACC
1 GATACCATAGTATAGAAATATCGATACCATAGGAGAGGTAAT
206764 GATACCA
1 GATACCA
206771 GTTAGTCTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.23
Consensus pattern (42 bp):
GATACCATAGTATAGAAATATCGATACCATAGGAGAGGTAAT
Found at i:206768 original size:20 final size:20
Alignment explanation
Indices: 206701--206770 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
206691 ATAGAAATAT
206701 CGATACCATAGGAGAGGTAA
1 CGATACCATAGGAGAGGTAA
* * * ** *
206721 TGATACTATAGTATAGAAATAT
1 CGATACCATAG--GAGAGGTAA
*
206743 CGATACCATAGGAGAGGTAC
1 CGATACCATAGGAGAGGTAA
206763 CGATACCA
1 CGATACCA
206771 GTTAGTCTGA
Statistics
Matches: 36, Mismatches: 12, Indels: 4
0.69 0.23 0.08
Matches are distributed among these distances:
20 22 0.61
22 14 0.39
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (20 bp):
CGATACCATAGGAGAGGTAA
Found at i:207035 original size:55 final size:55
Alignment explanation
Indices: 206969--207116 Score: 226
Period size: 55 Copynumber: 2.7 Consensus size: 55
206959 ATTAGTCATA
* **
206969 CACTATATGTGCAACCTCAAGAAATTCATAATGAGTTTAT-AAATTTTTGTATTGG
1 CACTATGTGTGCAACCTCAAGAAATTCATAATGAGTTTATGAAATTCCT-TATTGG
*
207024 CACTATGTGTGCAACCTCAAGAAATTCATAATGAGTTTATGAACTTCCTTATTGG
1 CACTATGTGTGCAACCTCAAGAAATTCATAATGAGTTTATGAAATTCCTTATTGG
* *
207079 CACTATGTGTTCAACCTCACGAAATTCATAATGAGTTT
1 CACTATGTGTGCAACCTCAAGAAATTCATAATGAGTTT
207117 GTGCATTATA
Statistics
Matches: 86, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
55 81 0.94
56 5 0.06
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (55 bp):
CACTATGTGTGCAACCTCAAGAAATTCATAATGAGTTTATGAAATTCCTTATTGG
Found at i:207138 original size:55 final size:54
Alignment explanation
Indices: 206968--207143 Score: 201
Period size: 55 Copynumber: 3.2 Consensus size: 54
206958 GATTAGTCAT
* * *
206968 ACACTATATGTGCAACCTCAAGAAATTCATAATGAGTTTATAAATTTTTGTATTG
1 ACACTATGTGTGCAACCTCAAGAAATTCATAATGAGTTTATGAA-TTATGTATTG
* *
207023 GCACTATGTGTGCAACCTCAAGAAATTCATAATGAGTTTATGAACTTCCT-TATTG
1 ACACTATGTGTGCAACCTCAAGAAATTCATAATGAGTTTATGAA-TT-ATGTATTG
* * * * * **
207078 GCACTATGTGTTCAACCTCACGAAATTCATAATGAGTTTGTGCATTATAGTATCA
1 ACACTATGTGTGCAACCTCAAGAAATTCATAATGAGTTTATGAATTAT-GTATTG
207133 ACACTATGTGT
1 ACACTATGTGT
207144 ACGAAAACCA
Statistics
Matches: 105, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
53 1 0.01
54 2 0.02
55 101 0.96
56 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.36
Consensus pattern (54 bp):
ACACTATGTGTGCAACCTCAAGAAATTCATAATGAGTTTATGAATTATGTATTG
Found at i:207965 original size:22 final size:22
Alignment explanation
Indices: 207937--208016 Score: 151
Period size: 22 Copynumber: 3.6 Consensus size: 22
207927 TTGAATGGAG
*
207937 TATCGATACCGTAGTATAGAAA
1 TATCGATACCATAGTATAGAAA
207959 TATCGATACCATAGTATAGAAA
1 TATCGATACCATAGTATAGAAA
207981 TATCGATACCATAGTATAGAAA
1 TATCGATACCATAGTATAGAAA
208003 TATCGATACCATAG
1 TATCGATACCATAG
208017 GAGAGGTATC
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 57 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (22 bp):
TATCGATACCATAGTATAGAAA
Found at i:208431 original size:55 final size:54
Alignment explanation
Indices: 208358--208525 Score: 221
Period size: 55 Copynumber: 3.1 Consensus size: 54
208348 ACTACATGTA
*
208358 CAACCTCAAGAAATTCATAATGAGTTTATAAATTTTTGCATTGGCACTATGTGTG
1 CAACCTCAAGAAATTCATAATGAGTTTATGAATTTTTG-ATTGGCACTATGTGTG
* *
208413 CAACCCCAAGAAATTCATAATGAGTTTATGAATTTCCTT-ATTGGCACTATGTGTT
1 CAACCTCAAGAAATTCATAATGAGTTTATGAATTT--TTGATTGGCACTATGTGTG
* * * * *
208468 CAACCTCACGAAATTCATAATGAGTTTGTGAATTATCGTATCGGCACTATGTGTG
1 CAACCTCAAGAAATTCATAATGAGTTTATGAATTTTTG-ATTGGCACTATGTGTG
208523 CAA
1 CAA
208526 AAACCACTGA
Statistics
Matches: 99, Mismatches: 10, Indels: 8
0.85 0.09 0.07
Matches are distributed among these distances:
53 1 0.01
55 96 0.97
57 2 0.02
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.35
Consensus pattern (54 bp):
CAACCTCAAGAAATTCATAATGAGTTTATGAATTTTTGATTGGCACTATGTGTG
Found at i:212620 original size:11 final size:11
Alignment explanation
Indices: 212604--212634 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
212594 GGTTTTATTT
212604 TTTTATTTTTA
1 TTTTATTTTTA
212615 TTTTATTTTTA
1 TTTTATTTTTA
212626 -TTTATTTTT
1 TTTTATTTTT
212635 GAAAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:213089 original size:29 final size:28
Alignment explanation
Indices: 213057--213125 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 28
213047 ATTTATACCA
213057 TTTACTTTTTATTTATTTAATT-TCATTAC
1 TTTACTTTTTA-TT-TTTAATTATCATTAC
* **
213086 TTTAATTTTCTATTTTTAATTATTTTTAC
1 TTTACTTTT-TATTTTTAATTATCATTAC
*
213115 TTTACATTTTA
1 TTTACTTTTTA
213126 ATACTTTAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
28 9 0.27
29 22 0.67
30 2 0.06
ACGTcount: A:0.25, C:0.09, G:0.00, T:0.67
Consensus pattern (28 bp):
TTTACTTTTTATTTTTAATTATCATTAC
Found at i:213139 original size:14 final size:14
Alignment explanation
Indices: 213063--213139 Score: 61
Period size: 14 Copynumber: 5.4 Consensus size: 14
213053 ACCATTTACT
213063 TTTTATTTA-TTTAA
1 TTTTA-TTACTTTAA
*
213077 TTTCATTACTTTAA
1 TTTTATTACTTTAA
213091 TTTTCTATT--TTTAA
1 -TTT-TATTACTTTAA
*
213105 TTATTTTTACTTTACA
1 TT-TTATTACTTTA-A
*
213121 TTTTAATACTTTAA
1 TTTTATTACTTTAA
213135 TTTTA
1 TTTTA
213140 GTCTTTTAAC
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
13 8 0.16
14 21 0.41
15 16 0.31
16 6 0.12
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTTATTACTTTAA
Found at i:213198 original size:2 final size:2
Alignment explanation
Indices: 213191--213218 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
213181 AGTCCTATGA
213191 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
213219 GAAATATTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:221251 original size:52 final size:53
Alignment explanation
Indices: 221173--221275 Score: 163
Period size: 52 Copynumber: 2.0 Consensus size: 53
221163 CGTGTCATCC
* *
221173 TAGGTAACCAGGCGTCCTCATCACGAAGAAACTATGTTATCTCAAA-ATGTCT
1 TAGGTAACCAGACGTCCTCATCACGAAGAAACAATGTTATCTCAAATATGTCT
* *
221225 TAGGTAACCAGATGTCCTCATCACGAAGGAACAATGTTATCTCAAATATGT
1 TAGGTAACCAGACGTCCTCATCACGAAGAAACAATGTTATCTCAAATATGT
221276 TTAAAGATGG
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
52 42 0.91
53 4 0.09
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.27
Consensus pattern (53 bp):
TAGGTAACCAGACGTCCTCATCACGAAGAAACAATGTTATCTCAAATATGTCT
Found at i:221304 original size:54 final size:52
Alignment explanation
Indices: 221190--221320 Score: 156
Period size: 54 Copynumber: 2.5 Consensus size: 52
221180 CCAGGCGTCC
* * * *
221190 TCATCACGAAGAAACTATGTTATCTCAAAATGTCTTAGGTAACCAGATGTCC
1 TCATCACGAAGGAACAATGTTATCTCAAAATGTCTTAGATAACCAGATGTCA
**
221242 TCATCACGAAGGAACAATGTTATCTCAAATATGT-TTAAAGATGGCCAGATGTCA
1 TCATCACGAAGGAACAATGTTATCTCAAA-ATGTCTT--AGATAACCAGATGTCA
* *
221296 TCATCACGAACGAACAATGTCATCT
1 TCATCACGAAGGAACAATGTTATCT
221321 AATAATCAGA
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
52 29 0.43
53 4 0.06
54 35 0.51
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (52 bp):
TCATCACGAAGGAACAATGTTATCTCAAAATGTCTTAGATAACCAGATGTCA
Found at i:221383 original size:188 final size:188
Alignment explanation
Indices: 221050--221455 Score: 519
Period size: 188 Copynumber: 2.2 Consensus size: 188
221040 GAAACAAGAC
** * *
221050 GTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTCAAAGATGGCCAGATGTCCTTATCAC
1 GTCCTCATCACGAAGGAACAATGTTATCTCAAATATCTTCAAAGATGGCCAGATGTCATCATCAC
* * * * * *
221115 GAAGGAACAATGTCATCTACCAATCAGAACTCTTCATCACGAAGGAGTCGTGTCATCCTAGGTAA
66 GAACGAACAATGTCATCTAACAATCAGAACTCCTCATCACGAAGGAGTCATGTCAGCCTAGATAA
* * * *
221180 CCAGGCGTCCTCATCACGAAGAAACTATGTTATCTCAAAATGTCTT-AGGTAACCAGAT
131 CCAGACGTCCTCATCACGAAGAAACCATGTTATCTC-AAATATCTTAAGATAACCAGAT
* *
221238 GTCCTCATCACGAAGGAACAATGTTATCTCAAATATGTTTAAAGATGGCCAGATGTCATCATCAC
1 GTCCTCATCACGAAGGAACAATGTTATCTCAAATATCTTCAAAGATGGCCAGATGTCATCATCAC
* *
221303 GAACGAACAATGTCATCTAATAATCAGAACTCCTCATCACGAAGGAGTCATGTCAGCCTTATATA
66 GAACGAACAATGTCATCTAACAATCAGAACTCCTCATCACGAAGGAGTCATGTCAGCC-TAGATA
* * * * * ***
221368 ACTAGATGT-CTCATCACGAAGGAACCGTGTTATCTCAGATATCTTAAAGATGGTCAGAT
130 ACCAGACGTCCTCATCACGAAGAAACCATGTTATCTCAAATATCTT-AAGATAACCAGAT
* *
221427 GTCCTCATCACAAAGGAACAATGTCATCT
1 GTCCTCATCACGAAGGAACAATGTTATCT
221456 ACCAATCAAA
Statistics
Matches: 187, Mismatches: 28, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
187 7 0.04
188 135 0.72
189 45 0.24
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.26
Consensus pattern (188 bp):
GTCCTCATCACGAAGGAACAATGTTATCTCAAATATCTTCAAAGATGGCCAGATGTCATCATCAC
GAACGAACAATGTCATCTAACAATCAGAACTCCTCATCACGAAGGAGTCATGTCAGCCTAGATAA
CCAGACGTCCTCATCACGAAGAAACCATGTTATCTCAAATATCTTAAGATAACCAGAT
Found at i:221484 original size:135 final size:137
Alignment explanation
Indices: 221229--221541 Score: 398
Period size: 135 Copynumber: 2.3 Consensus size: 137
221219 ATGTCTTAGG
*
221229 TAACCAGATGTCCTCATCACGAAGGAACAATGTTATCTCAAATATGTTTAAAGATGGCCAGATGT
1 TAACCAGATGTCCTCATCACGAAGGAACAATGTTATCTCAAATATGCTTAAAGATGGCCAGATGT
* * *
221294 CATCATCACGAACGAACAATGTCATCTAATAATCAGAACTCCTCATCACGAAGGAGTCATGTCAG
66 CATCATCACAAACGAACAATGTCATCTAACAATCAAAACTCCTCATCACGAAGGAGTCATGTCAG
221359 CCTTATA
131 CCTTATA
* ** * *
221366 TAACTAGATGT-CTCATCACGAAGGAACCGTGTTATCTCAGATAT-CTTAAAGATGGTCAGATGT
1 TAACCAGATGTCCTCATCACGAAGGAACAATGTTATCTCAAATATGCTTAAAGATGGCCAGATGT
* * * * *
221429 CCTCATCACAAAGGAACAATGTCATCTACCAATCAAAACTCCTCATCACGAAGGAGTCGTGTCAT
66 CATCATCACAAACGAACAATGTCATCTAACAATCAAAACTCCTCATCACGAAGGAGTCATGTCAG
*
221494 TCTT-TGA
131 CCTTAT-A
* * * * * * *
221501 TAGCCAAAAGTCCTTATCACAAAGGAACCATTTTATCTCAA
1 TAACCAGATGTCCTCATCACGAAGGAACAATGTTATCTCAA
221542 TTTATCTAAC
Statistics
Matches: 150, Mismatches: 24, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
134 1 0.01
135 85 0.57
136 54 0.36
137 10 0.07
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.27
Consensus pattern (137 bp):
TAACCAGATGTCCTCATCACGAAGGAACAATGTTATCTCAAATATGCTTAAAGATGGCCAGATGT
CATCATCACAAACGAACAATGTCATCTAACAATCAAAACTCCTCATCACGAAGGAGTCATGTCAG
CCTTATA
Found at i:221578 original size:135 final size:135
Alignment explanation
Indices: 221241--221588 Score: 344
Period size: 135 Copynumber: 2.6 Consensus size: 135
221231 ACCAGATGTC
* * * * * * * *
221241 CTCATCACGAAGGAACAATGTTATCTCAAATATGTTTAAAGATGGCCAGATGTCATCATCACGAA
1 CTCATCACAAAGGAACCATGTTATCTCAGATAT-CTTAAACATGACCAAATGTCCTCATCACGAA
* * * *
221306 CGAACAATGTCATCTAATAATCAGAACTCCTCATCACGAAGGAGTCATGTCAGCCTTATATAACT
65 GGAACAATGTCATCTAACAATCAAAACTCCTCATCACGAAGGAGTCATGTCAGCCTTATATAACC
* *
221371 AGATGT
130 AAAAGT
* * * ** * *
221377 CTCATCACGAAGGAACCGTGTTATCTCAGATATCTTAAAGATGGTCAGATGTCCTCATCACAAAG
1 CTCATCACAAAGGAACCATGTTATCTCAGATATCTTAAACATGACCAAATGTCCTCATCACGAAG
* * ** *
221442 GAACAATGTCATCTACCAATCAAAACTCCTCATCACGAAGGAGTCGTGTCATTCTT-TGATAGCC
66 GAACAATGTCATCTAACAATCAAAACTCCTCATCACGAAGGAGTCATGTCAGCCTTAT-ATAACC
221506 AAAAGT
130 AAAAGT
* * *
221512 CCTTATCACAAAGGAACCATTTTATCTCA-ATTTATC-T-AACATGACCAAATGTCCTCATCATG
1 -CTCATCACAAAGGAACCATGTTATCTCAGA--TATCTTAAACATGACCAAATGTCCTCATCACG
* *
221574 AAGGAGCAGTGTCAT
63 AAGGAACAATGTCAT
221589 ACACTAGTTG
Statistics
Matches: 178, Mismatches: 30, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
134 1 0.01
135 118 0.66
136 55 0.31
137 4 0.02
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (135 bp):
CTCATCACAAAGGAACCATGTTATCTCAGATATCTTAAACATGACCAAATGTCCTCATCACGAAG
GAACAATGTCATCTAACAATCAAAACTCCTCATCACGAAGGAGTCATGTCAGCCTTATATAACCA
AAAGT
Found at i:225644 original size:9 final size:10
Alignment explanation
Indices: 225619--225651 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
225609 GAGAAACTTA
225619 GCATAATTTT
1 GCATAATTTT
*
225629 GCTTAA-TTT
1 GCATAATTTT
225638 GCATAATTTT
1 GCATAATTTT
225648 GCAT
1 GCAT
225652 TTGCTCAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
9 8 0.40
10 12 0.60
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.48
Consensus pattern (10 bp):
GCATAATTTT
Found at i:226944 original size:25 final size:25
Alignment explanation
Indices: 226909--226958 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
226899 ATTGTTGAAC
*
226909 TAAATCTAGCATGGAAAACATGACA
1 TAAATCCAGCATGGAAAACATGACA
226934 TAAATCCAGCATGGAAAACATGACA
1 TAAATCCAGCATGGAAAACATGACA
226959 AATCCATCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.48, C:0.18, G:0.16, T:0.18
Consensus pattern (25 bp):
TAAATCCAGCATGGAAAACATGACA
Found at i:230170 original size:53 final size:53
Alignment explanation
Indices: 230046--230201 Score: 255
Period size: 53 Copynumber: 3.0 Consensus size: 53
230036 CCTAATTGCT
*
230046 GAAATGGTAATTCACAAACTAATTATGAATTCCATGGATG--CACATAGTG-C
1 GAAATGGTAATTCACAAACTCATTATGAATTCCATGGATGCACACATAGTGTC
* * *
230096 GAAATGATAATTCACAAACTCATTATGAATTCCAGGGATGCACACATATTGTC
1 GAAATGGTAATTCACAAACTCATTATGAATTCCATGGATGCACACATAGTGTC
230149 GAAATGGTAATTCACAAACTCATTATGAATTCCATGGATGCACACATAGTGTC
1 GAAATGGTAATTCACAAACTCATTATGAATTCCATGGATGCACACATAGTGTC
230202 TATAATACAC
Statistics
Matches: 96, Mismatches: 7, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
50 37 0.39
52 8 0.08
53 51 0.53
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (53 bp):
GAAATGGTAATTCACAAACTCATTATGAATTCCATGGATGCACACATAGTGTC
Found at i:233213 original size:19 final size:19
Alignment explanation
Indices: 233189--233225 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
233179 TCAACCCAAC
*
233189 TGACCCGTTGACTTTGACA
1 TGACCCATTGACTTTGACA
*
233208 TGACCCATTGGCTTTGAC
1 TGACCCATTGACTTTGAC
233226 CAGAGTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.19, C:0.27, G:0.22, T:0.32
Consensus pattern (19 bp):
TGACCCATTGACTTTGACA
Found at i:233356 original size:16 final size:16
Alignment explanation
Indices: 233335--233374 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
233325 AAGTCCGTAG
233335 AGTCATAGAACCTTTA
1 AGTCATAGAACCTTTA
233351 AGTCATAGAACCTTTA
1 AGTCATAGAACCTTTA
233367 AGTCATAG
1 AGTCATAG
233375 TGCATTTGCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (16 bp):
AGTCATAGAACCTTTA
Found at i:236848 original size:3 final size:3
Alignment explanation
Indices: 236773--236832 Score: 61
Period size: 3 Copynumber: 20.0 Consensus size: 3
236763 TACTCTTTTT
* *
236773 TTA TTA TTAA TT- TTA TTA TTA TTTA ATA TTA TTA TTA ATA TTA TT-
1 TTA TTA TT-A TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
*
236818 TTA TTA TTT TTA TTA
1 TTA TTA TTA TTA TTA
236833 ATAATAATAA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
2 4 0.09
3 37 0.79
4 6 0.13
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:238151 original size:22 final size:22
Alignment explanation
Indices: 238123--238180 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
238113 TTTTATTTAA
* *
238123 TATATTTTAATTATTGTTTATT
1 TATATTTTAATTATTATATATT
*
238145 TATATTTTAAATT-TTATATGTT
1 TATATTTT-AATTATTATATATT
238167 TATA-TTTAATTATT
1 TATATTTTAATTATT
238181 TATTTAGTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 4 0.13
21 5 0.16
22 18 0.58
23 4 0.13
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (22 bp):
TATATTTTAATTATTATATATT
Found at i:239041 original size:20 final size:19
Alignment explanation
Indices: 239005--239055 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
238995 AAAAATTATA
239005 TTTATTATTTTCATAATAT
1 TTTATTATTTTCATAATAT
*
239024 TTATATTATTTT-ATTAATGT
1 TT-TATTATTTTCA-TAATAT
239044 TTTATTTATTTT
1 TTTA-TTATTTT
239056 TCAAGTATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 5 0.18
20 23 0.82
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (19 bp):
TTTATTATTTTCATAATAT
Found at i:242332 original size:15 final size:15
Alignment explanation
Indices: 242314--242347 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
242304 GATCAATACC
242314 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
242329 TTTTGCATACATTCA
1 TTTTGCATACATGCA
242344 TTTT
1 TTTT
242348 TCATTGCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.24, C:0.18, G:0.09, T:0.50
Consensus pattern (15 bp):
TTTTGCATACATGCA
Done.