Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006936.1 Hibiscus syriacus cultivar Beakdansim tig00017808_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: 2176229
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 9
Found at i:1615041 original size:22 final size:22
Alignment explanation
Indices: 1615015--1615057 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
1615005 TACCCAGTAC
* *
1615015 CGATACTTCTCTTCTATGGTAT
1 CGATAATTCCCTTCTATGGTAT
*
1615037 CGATAATTCCCTTCTTTGGTA
1 CGATAATTCCCTTCTATGGTA
1615058 CTGATACCTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.23, G:0.14, T:0.44
Consensus pattern (22 bp):
CGATAATTCCCTTCTATGGTAT
Found at i:1615063 original size:22 final size:22
Alignment explanation
Indices: 1615011--1615063 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
1615001 TTTATACCCA
* * *
1615011 GTACCGATACTTCTCTTCTATG
1 GTACTGATAATTCCCTTCTATG
*
1615033 GTA-TCGATAATTCCCTTCTTTG
1 GTACT-GATAATTCCCTTCTATG
1615055 GTACTGATA
1 GTACTGATA
1615064 CCTACCTCAG
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 24 0.96
23 1 0.04
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.42
Consensus pattern (22 bp):
GTACTGATAATTCCCTTCTATG
Found at i:1615616 original size:167 final size:170
Alignment explanation
Indices: 1615415--1615757 Score: 658
Period size: 167 Copynumber: 2.0 Consensus size: 170
1615405 ATTACATCCA
1615415 TTCTTCAAACATGTTTCCAATCATTTCTAATACCTCTAAATCCTTATTTAGACCTTTGACAAGTC
1 TTCTTCAAACATGTTTCCAATCATTTCTAATACCTCTAAATCCTTATTTAGACCTTTGACAAGTC
1615480 AAATATATCTTTAAAATCCAAATACTAATCAATTTTCATC-ACTCTCTT-AAACCCCATTTAACT
66 AAATATATCTTTAAAATCCAAATACTAATCAATTTTCATCAACTCTCTTAAAACCCCATTTAACT
1615543 ATATCA-CATTAACTCATCAATCCCATAGCTTCTAATCAT
131 ATATCATCATTAACTCATCAATCCCATAGCTTCTAATCAT
1615582 TTCTTCAAACATGTTTCCAATCATTTCTAATACCTCTAAATCCTTATTTAGACCTTTGACAAGTC
1 TTCTTCAAACATGTTTCCAATCATTTCTAATACCTCTAAATCCTTATTTAGACCTTTGACAAGTC
1615647 AAATATATCTTTAAAATCCAAATACTAATCAATTTTCATCAACTCTCTTAAAACCCCATTTAACT
66 AAATATATCTTTAAAATCCAAATACTAATCAATTTTCATCAACTCTCTTAAAACCCCATTTAACT
1615712 ATATCATCATTAACTCATCAATCCCATAGCTTCTAATCAT
131 ATATCATCATTAACTCATCAATCCCATAGCTTCTAATCAT
1615752 TT-TTCA
1 TTCTTCA
1615758 TCTTTATTAA
Statistics
Matches: 173, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
167 105 0.61
168 8 0.05
169 25 0.14
170 35 0.20
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.38
Consensus pattern (170 bp):
TTCTTCAAACATGTTTCCAATCATTTCTAATACCTCTAAATCCTTATTTAGACCTTTGACAAGTC
AAATATATCTTTAAAATCCAAATACTAATCAATTTTCATCAACTCTCTTAAAACCCCATTTAACT
ATATCATCATTAACTCATCAATCCCATAGCTTCTAATCAT
Found at i:1620770 original size:25 final size:24
Alignment explanation
Indices: 1620708--1620789 Score: 76
Period size: 25 Copynumber: 3.4 Consensus size: 24
1620698 CACCAAAGTG
* * *
1620708 CCACATAG-ATTTGTCTCGAAGGA
1 CCACGTAGAATTTGTCCCGAATGA
* * * *
1620731 CCGCATAGAATTTGTCCTGAATTA
1 CCACGTAGAATTTGTCCCGAATGA
1620755 CCACGTAGATATTTGTCCCGAATGA
1 CCACGTAGA-ATTTGTCCCGAATGA
*
1620780 CCGCGTAGAA
1 CCACGTAGAA
1620790 CCCTCAACTC
Statistics
Matches: 47, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
23 7 0.15
24 19 0.40
25 21 0.45
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (24 bp):
CCACGTAGAATTTGTCCCGAATGA
Found at i:1620938 original size:15 final size:15
Alignment explanation
Indices: 1620920--1621010 Score: 87
Period size: 15 Copynumber: 6.1 Consensus size: 15
1620910 CACATAGGGT
*
1620920 ATTTTCACGTATAAC
1 ATTTTCACATATAAC
*
1620935 ATTTTCACTTA-AGCAC
1 ATTTTCACATATA--AC
*
1620951 ATTTTCACATAGAAC
1 ATTTTCACATATAAC
* *
1620966 A-TTTCATATAAAAC
1 ATTTTCACATATAAC
*
1620980 ATATTCACATATAAC
1 ATTTTCACATATAAC
*
1620995 ATTTTCGCATATAAC
1 ATTTTCACATATAAC
1621010 A
1 A
1621011 CATTCATATT
Statistics
Matches: 63, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
14 13 0.21
15 37 0.59
16 12 0.19
17 1 0.02
ACGTcount: A:0.40, C:0.20, G:0.04, T:0.36
Consensus pattern (15 bp):
ATTTTCACATATAAC
Found at i:1620955 original size:31 final size:30
Alignment explanation
Indices: 1620920--1621014 Score: 95
Period size: 29 Copynumber: 3.1 Consensus size: 30
1620910 CACATAGGGT
* *
1620920 ATTTTCACGTATAACATTTTCACT-TAAGCAC
1 ATTTTCACATATAACATTTTCA-TATAA-AAC
*
1620951 ATTTTCACATAGAACA-TTTCATATAAAAC
1 ATTTTCACATATAACATTTTCATATAAAAC
* *
1620980 ATATTCACATATAACATTTTCGCATATAACAC
1 ATTTTCACATATAACATTTT--CATATAAAAC
1621012 ATT
1 ATT
1621015 CATATTTTAA
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
29 17 0.32
30 11 0.21
31 14 0.26
32 11 0.21
ACGTcount: A:0.39, C:0.20, G:0.04, T:0.37
Consensus pattern (30 bp):
ATTTTCACATATAACATTTTCATATAAAAC
Found at i:1620980 original size:14 final size:14
Alignment explanation
Indices: 1620953--1620998 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
1620943 TTAAGCACAT
*
1620953 TTTCACATAGAACA
1 TTTCACATAAAACA
*
1620967 TTTCATATAAAACA
1 TTTCACATAAAACA
*
1620981 TATTCACATATAACA
1 T-TTCACATAAAACA
1620996 TTT
1 TTT
1620999 TCGCATATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 15 0.56
15 12 0.44
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.37
Consensus pattern (14 bp):
TTTCACATAAAACA
Found at i:1624655 original size:6 final size:6
Alignment explanation
Indices: 1624644--1624672 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
1624634 AAAATGACTC
1624644 ATTATA ATTATA ATTATA ATTATA ATTAT
1 ATTATA ATTATA ATTATA ATTATA ATTAT
1624673 TATGTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
ATTATA
Found at i:1624792 original size:12 final size:12
Alignment explanation
Indices: 1624775--1624814 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
1624765 GATAAACGCG
*
1624775 ACGCGACCGAAA
1 ACGCGACCGCAA
1624787 ACGCGACCGCAA
1 ACGCGACCGCAA
1624799 ACGCGACCGCAA
1 ACGCGACCGCAA
1624811 ACGC
1 ACGC
1624815 TATTTAAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.35, C:0.40, G:0.25, T:0.00
Consensus pattern (12 bp):
ACGCGACCGCAA
Found at i:1626870 original size:12 final size:10
Alignment explanation
Indices: 1626852--1626916 Score: 89
Period size: 10 Copynumber: 6.5 Consensus size: 10
1626842 TTATCATATA
1626852 ATTATTTATTT
1 ATTATTTA-TT
1626863 ACTTATTTATT
1 A-TTATTTATT
1626874 ATTA-TTATT
1 ATTATTTATT
1626883 ATTATTTATT
1 ATTATTTATT
1626893 ATTA-TTATT
1 ATTATTTATT
*
1626902 ATTGTTTATT
1 ATTATTTATT
1626912 ATTAT
1 ATTAT
1626917 GCAGGGCCCA
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
9 17 0.35
10 21 0.43
11 4 0.08
12 7 0.14
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTATTTATT
Found at i:1626872 original size:16 final size:14
Alignment explanation
Indices: 1626857--1626914 Score: 70
Period size: 13 Copynumber: 4.4 Consensus size: 14
1626847 ATATAATTAT
1626857 TTATTTACTTATTTA
1 TTATTTA-TTATTTA
1626872 TTA-TTATTA-TTA
1 TTATTTATTATTTA
1626884 TTATTTATTA-TTA
1 TTATTTATTATTTA
*
1626897 TTA-TTATTGTTTA
1 TTATTTATTATTTA
1626910 TTATT
1 TTATT
1626915 ATGCAGGGCC
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
12 11 0.28
13 21 0.54
14 4 0.10
15 3 0.08
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (14 bp):
TTATTTATTATTTA
Found at i:1626874 original size:19 final size:20
Alignment explanation
Indices: 1626852--1626916 Score: 89
Period size: 19 Copynumber: 3.2 Consensus size: 20
1626842 TTATCATATA
1626852 ATTATTTATTTACTTATTTATT
1 ATTA-TTATTTA-TTATTTATT
1626874 ATTATTA-TTATTATTTATT
1 ATTATTATTTATTATTTATT
*
1626893 ATTATTA-TTATTGTTTATT
1 ATTATTATTTATTATTTATT
1626912 ATTAT
1 ATTAT
1626917 GCAGGGCCCA
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
19 32 0.76
20 3 0.07
21 3 0.07
22 4 0.10
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (20 bp):
ATTATTATTTATTATTTATT
Found at i:1626877 original size:3 final size:3
Alignment explanation
Indices: 1626869--1626916 Score: 69
Period size: 3 Copynumber: 15.3 Consensus size: 3
1626859 ATTTACTTAT
*
1626869 TTA TTA TTA TTA TTA TTA TTTA TTA TTA TTA TTA TTGT TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TT-A TTA TTA TTA
1626916 T
1 T
1626917 GCAGGGCCCA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
3 36 0.88
4 5 0.12
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1626915 original size:16 final size:16
Alignment explanation
Indices: 1626852--1626916 Score: 75
Period size: 16 Copynumber: 4.1 Consensus size: 16
1626842 TTATCATATA
1626852 ATTATTTA-T-TTACTT
1 ATTATTTATTATTA-TT
1626867 ATT-TATTATTATTATT
1 ATTAT-TTATTATTATT
1626883 ATTATTTATTATTATT
1 ATTATTTATTATTATT
1626899 ATTATTGT-TTATTATT
1 ATTATT-TATTATTATT
1626915 AT
1 AT
1626917 GCAGGGCCCA
Statistics
Matches: 45, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
14 1 0.02
15 6 0.13
16 33 0.73
17 5 0.11
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (16 bp):
ATTATTTATTATTATT
Found at i:1629048 original size:10 final size:9
Alignment explanation
Indices: 1629013--1629193 Score: 62
Period size: 10 Copynumber: 18.3 Consensus size: 9
1629003 CACCAATTTA
*
1629013 TTTATTATT
1 TTTATTTTT
* *
1629022 ATTATTATT
1 TTTATTTTT
1629031 TTTATTTTT
1 TTTATTTTT
1629040 TTATATTTTT
1 TT-TATTTTT
1629050 ATTT-TTTCTCT
1 -TTTATTT-T-T
*
1629061 TTGATTTATT
1 TTTATTT-TT
*
1629071 TTTATATACTTA
1 TTTAT-T--TTT
1629083 TTTATTTTT
1 TTTATTTTT
1629092 AATTT-TTTTT
1 --TTTATTTTT
* *
1629102 GTGATTTCGTT
1 TTTATTT--TT
*
1629113 TTTCTTTATT
1 TTTATTT-TT
*
1629123 TCTT-TATTT
1 T-TTATTTTT
*
1629132 ATTATTTTT
1 TTTATTTTT
1629141 TTATATTTTT
1 TT-TATTTTT
1629151 ATTTATTATTT
1 -TTTATT-TTT
*
1629162 ATTATTTTT
1 TTTATTTTT
*
1629171 TATATTTTT
1 TTTATTTTT
1629180 ATTTATTATTT
1 -TTTATT-TTT
1629191 TTT
1 TTT
1629194 CTATTTAACA
Statistics
Matches: 130, Mismatches: 22, Indels: 39
0.68 0.12 0.20
Matches are distributed among these distances:
8 3 0.02
9 42 0.32
10 50 0.38
11 28 0.22
12 6 0.05
13 1 0.01
ACGTcount: A:0.19, C:0.03, G:0.02, T:0.75
Consensus pattern (9 bp):
TTTATTTTT
Found at i:1629085 original size:18 final size:17
Alignment explanation
Indices: 1629010--1629092 Score: 64
Period size: 18 Copynumber: 4.8 Consensus size: 17
1629000 GGTCACCAAT
*
1629010 TTATTTATTATTAT-TA
1 TTATTTATTTTTATATA
*
1629026 TTATTTTTATTTTTTTATA
1 TTA--TTTATTTTTATATA
* *
1629045 TT-TTTATTTTT-TCTCT
1 TTATTTATTTTTATAT-A
1629061 TTGATTTATTTTTATATA
1 TT-ATTTATTTTTATATA
1629079 CTTATTTATTTTTA
1 -TTATTTATTTTTA
1629093 ATTTTTTTTG
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
15 2 0.04
16 14 0.26
18 29 0.55
19 8 0.15
ACGTcount: A:0.22, C:0.04, G:0.01, T:0.73
Consensus pattern (17 bp):
TTATTTATTTTTATATA
Found at i:1629149 original size:52 final size:51
Alignment explanation
Indices: 1629067--1629193 Score: 134
Period size: 52 Copynumber: 2.4 Consensus size: 51
1629057 CTCTTTGATT
* * *
1629067 TATTTTTATATACTTATTTATTTTTAATTTTT-TTTGTGATTTCGTT-TTTCTTTA
1 TATTTTTATTTA-TTA-TT-TTTTTAATTTTTATTTATGATTT-ATTATTT-TTTA
*
1629121 T-TTCTTTATTTATTATTTTTTTATATTTTTATTTATTATTTATTATTTTTTA
1 TATT-TTTATTTATTATTTTTTTA-ATTTTTATTTATGATTTATTATTTTTTA
1629173 TATTTTTATTTATTATTTTTT
1 TATTTTTATTTATTATTTTTT
1629194 CTATTTAACA
Statistics
Matches: 64, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
51 6 0.09
52 32 0.50
53 18 0.28
54 8 0.12
ACGTcount: A:0.20, C:0.03, G:0.02, T:0.75
Consensus pattern (51 bp):
TATTTTTATTTATTATTTTTTTAATTTTTATTTATGATTTATTATTTTTTA
Found at i:1629190 original size:42 final size:41
Alignment explanation
Indices: 1629009--1629192 Score: 130
Period size: 42 Copynumber: 4.4 Consensus size: 41
1628999 GGGTCACCAA
*
1629009 TTTATTTATTATTATTA-TTATTTTTA-T-TTTTTTATATT
1 TTTATTTATTATTTTTATTTATTTTTATTATTTTTTATATT
* * * *
1629047 TTTATTTTTTCTCTTTGATTTATTTTTATATACTTATTTAT-TT
1 TTTATTTATTAT-TTTTATTTATTTTTAT-TA-TTTTTTATATT
* * * *
1629090 TTAATTT-TT-TTTGTGATTTCGTTTTTCTTTATTTCTTTATTTATT
1 TTTATTTATTATTT-TTATTT-ATTTTT-ATTATTT-TTTA--TATT
*
1629135 ATTTTTTTA-TATTTTTATTTATTATTTATTATTTTTTATATT
1 -TTTATTTATTATTTTTATTTATT-TTTATTATTTTTTATATT
1629177 TTTATTTATTATTTTT
1 TTTATTTATTATTTTT
1629193 TCTATTTAAC
Statistics
Matches: 113, Mismatches: 15, Indels: 32
0.71 0.09 0.20
Matches are distributed among these distances:
38 10 0.09
39 3 0.03
40 11 0.10
41 16 0.14
42 25 0.22
43 9 0.08
44 12 0.11
45 10 0.09
46 14 0.12
47 3 0.03
ACGTcount: A:0.20, C:0.03, G:0.02, T:0.75
Consensus pattern (41 bp):
TTTATTTATTATTTTTATTTATTTTTATTATTTTTTATATT
Found at i:1629193 original size:22 final size:21
Alignment explanation
Indices: 1629009--1629190 Score: 71
Period size: 22 Copynumber: 8.7 Consensus size: 21
1628999 GGGTCACCAA
1629009 TTTATTTATTA-TTATTATTATT
1 TTTATTTATTATTTATTA-T-TT
* *
1629031 TTTATTTTTTTATATTTTTATTT
1 TTTA-TTTATTAT-TTATTATTT
* *
1629054 TTTCTCT-TTGATTTATT-TTT
1 TTTATTTATT-ATTTATTATTT
* * *
1629074 ATATACTTATTTATTT-TTAATT
1 -TTTATTTA-TTATTTATTATTT
* * *
1629096 TTT-TTTGTGATTTCGTT-TTT
1 TTTATTTATTATTT-ATTATTT
*
1629116 CTTTATTTCTTTATTTATTA--T
1 -TTTATTT-ATTATTTATTATTT
1629137 TTT-TTTA-TATTT-TTATTT
1 TTTATTTATTATTTATTATTT
* *
1629155 ATTATTTATTATTTTTTATATT
1 TTTATTTATTATTTATTAT-TT
1629177 TTTATTTATTATTT
1 TTTATTTATTATTT
1629191 TTTCTATTTA
Statistics
Matches: 119, Mismatches: 21, Indels: 40
0.66 0.12 0.22
Matches are distributed among these distances:
16 3 0.03
17 5 0.04
18 3 0.03
19 12 0.10
20 15 0.13
21 23 0.19
22 34 0.29
23 18 0.15
24 1 0.01
25 5 0.04
ACGTcount: A:0.20, C:0.03, G:0.02, T:0.75
Consensus pattern (21 bp):
TTTATTTATTATTTATTATTT
Found at i:1629206 original size:29 final size:29
Alignment explanation
Indices: 1629117--1629217 Score: 89
Period size: 29 Copynumber: 3.5 Consensus size: 29
1629107 TTCGTTTTTC
* * * *
1629117 TTTATTTCTTTATTTATTATTTTTTTATATT
1 TTTATTT-ATTATTTATTA-TATTTAACATT
* * *
1629148 TTTATTTATTATTTATTATTTTTTATATT
1 TTTATTTATTATTTATTATATTTAACATT
* *
1629177 TTTATTTATTATTTTTTCTATTTAACA--
1 TTTATTTATTATTTATTATATTTAACATT
1629204 TTTATTTATTATTT
1 TTTATTTATTATTT
1629218 CTCGTCTAAC
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
27 14 0.22
29 33 0.52
30 10 0.16
31 7 0.11
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (29 bp):
TTTATTTATTATTTATTATATTTAACATT
Found at i:1629596 original size:13 final size:13
Alignment explanation
Indices: 1629580--1629621 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 13
1629570 TAAATAAAAA
1629580 TATTAAATTATAT
1 TATTAAATTATAT
*
1629593 TATTAAATT-TTT
1 TATTAAATTATAT
*
1629605 TAGTAAA-TATAT
1 TATTAAATTATAT
1629617 TATTA
1 TATTA
1629622 TAAATTACTA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
11 1 0.04
12 14 0.58
13 9 0.38
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (13 bp):
TATTAAATTATAT
Found at i:1634389 original size:16 final size:16
Alignment explanation
Indices: 1634368--1634398 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1634358 CCCATAGTGT
1634368 GCTGCTTCCTTAATGA
1 GCTGCTTCCTTAATGA
1634384 GCTGCTTCCTTAATG
1 GCTGCTTCCTTAATG
1634399 CGCCCTCAAA
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:0.16, C:0.26, G:0.19, T:0.39
Consensus pattern (16 bp):
GCTGCTTCCTTAATGA
Found at i:1635762 original size:108 final size:108
Alignment explanation
Indices: 1635633--1635848 Score: 432
Period size: 108 Copynumber: 2.0 Consensus size: 108
1635623 GATGATCTTC
1635633 ATGTTGATTTCTTTTAGAAAAAATGGCACATTGTCGGCACTGATGTGTGTCGCGTGATCAAGACA
1 ATGTTGATTTCTTTTAGAAAAAATGGCACATTGTCGGCACTGATGTGTGTCGCGTGATCAAGACA
1635698 GTATTTAATGGGGGTTCAATTAAGGAGCCTCTAAACCAAATTG
66 GTATTTAATGGGGGTTCAATTAAGGAGCCTCTAAACCAAATTG
1635741 ATGTTGATTTCTTTTAGAAAAAATGGCACATTGTCGGCACTGATGTGTGTCGCGTGATCAAGACA
1 ATGTTGATTTCTTTTAGAAAAAATGGCACATTGTCGGCACTGATGTGTGTCGCGTGATCAAGACA
1635806 GTATTTAATGGGGGTTCAATTAAGGAGCCTCTAAACCAAATTG
66 GTATTTAATGGGGGTTCAATTAAGGAGCCTCTAAACCAAATTG
1635849 CCCACAAACT
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
108 108 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (108 bp):
ATGTTGATTTCTTTTAGAAAAAATGGCACATTGTCGGCACTGATGTGTGTCGCGTGATCAAGACA
GTATTTAATGGGGGTTCAATTAAGGAGCCTCTAAACCAAATTG
Found at i:1638801 original size:16 final size:16
Alignment explanation
Indices: 1638780--1638812 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1638770 AATGGACAGC
1638780 AGCTTTACAGTTCAGT
1 AGCTTTACAGTTCAGT
1638796 AGCTTTACAGTTCAGT
1 AGCTTTACAGTTCAGT
1638812 A
1 A
1638813 AAATGTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (16 bp):
AGCTTTACAGTTCAGT
Found at i:1643439 original size:22 final size:23
Alignment explanation
Indices: 1643405--1643449 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
1643395 TTTATATATA
1643405 TTATATTTAATATT-TTAAGAATT
1 TTATATTTAATATTATTAA-AATT
*
1643428 TTAT-TTTTATATTATTAAAATT
1 TTATATTTAATATTATTAAAATT
1643450 AAAAAATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
TTATATTTAATATTATTAAAATT
Found at i:1643515 original size:43 final size:42
Alignment explanation
Indices: 1643452--1643532 Score: 117
Period size: 43 Copynumber: 1.9 Consensus size: 42
1643442 TTAAAATTAA
* *
1643452 AAAATTTAAAAATTATTATAAAATATATTAATTTAATTGTTT
1 AAAATATAAAAATAATTATAAAATATATTAATTTAATTGTTT
* *
1643494 AAAATATAATAAATAATTATAAATTATATTATTTTAATT
1 AAAATATAA-AAATAATTATAAAATATATTAATTTAATT
1643533 ATTTTTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
42 8 0.24
43 26 0.76
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (42 bp):
AAAATATAAAAATAATTATAAAATATATTAATTTAATTGTTT
Found at i:1644860 original size:194 final size:189
Alignment explanation
Indices: 1644595--1644968 Score: 448
Period size: 194 Copynumber: 2.0 Consensus size: 189
1644585 ACATTTATAT
* ** *
1644595 ATAACGTCACTATATAATTAATATTCAATGACAACTAATTATGTCACTAAATTATGTAAAATTTT
1 ATAACGTCACTATATAATTAATATTCAATGACAACTAATTATATCACTAAATTAAATAAAATTTC
* ** *
1644660 GTTATTGATGATTTATATTGTCACGGATAAT-ACATTAAAATCAACATATATGTGAC-AAAAGAG
66 GTTATTGATAATTTATATTGTCACAAATAATGA-ATTAAAATCAACATATACGTGACTAAAA-AG
* *
1644723 ATATTGTCAAAATTTTAGTGAGATAATATAAAT-GTTACCTAATAATATTATGAATGACGTTTAT
129 ATA-T-TCAAAATTTTAGT--GACAATAT--ATCGTTACCTAATAATATTATAAATGACGTTTAT
1644787 GC
188 GC
* * * * ** * *
1644789 ATAACGTCTCTTTATAATTTATATTCTATGACAGTTGATTATATCACTAAATTAAATAAGATTTC
1 ATAACGTCACTATATAATTAATATTCAATGACAACTAATTATATCACTAAATTAAATAAAATTTC
** *
1644854 GTTATTGATAATTTATATTGTCACAAATAATGAATTAAAATCAATTTATACGTGACTAAAATGAT
66 GTTATTGATAATTTATATTGTCACAAATAATGAATTAAAATCAACATATACGTGACTAAAAAGAT
* *
1644919 ATTCACATTTTTAGTGACAATATATCGTTACCTAATAATATTATAAATGA
131 ATTCAAAATTTTAGTGACAATATATCGTTACCTAATAATATTATAAATGA
1644969 TGCACCATAT
Statistics
Matches: 154, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
188 2 0.01
189 23 0.15
190 7 0.05
192 11 0.07
193 1 0.01
194 105 0.68
195 5 0.03
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (189 bp):
ATAACGTCACTATATAATTAATATTCAATGACAACTAATTATATCACTAAATTAAATAAAATTTC
GTTATTGATAATTTATATTGTCACAAATAATGAATTAAAATCAACATATACGTGACTAAAAAGAT
ATTCAAAATTTTAGTGACAATATATCGTTACCTAATAATATTATAAATGACGTTTATGC
Found at i:1647861 original size:17 final size:16
Alignment explanation
Indices: 1647811--1647861 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
1647801 AAACTGAATT
1647811 AACCATGTGGAGGAAA
1 AACCATGTGGAGGAAA
* * *
1647827 AATCATACT-AAGGTAAA
1 AACCAT-GTGGAGG-AAA
1647844 AACCATGTGGAGGAAA
1 AACCATGTGGAGGAAA
1647860 AA
1 AA
1647862 TCTTGGTGAA
Statistics
Matches: 26, Mismatches: 6, Indels: 6
0.68 0.16 0.16
Matches are distributed among these distances:
16 14 0.54
17 12 0.46
ACGTcount: A:0.49, C:0.12, G:0.24, T:0.16
Consensus pattern (16 bp):
AACCATGTGGAGGAAA
Found at i:1654667 original size:124 final size:124
Alignment explanation
Indices: 1654410--1654657 Score: 487
Period size: 124 Copynumber: 2.0 Consensus size: 124
1654400 ATATGGTCCC
1654410 TAACTTAAATCACTGTTAGAAAATTAGGGTAAATTATATAAACGGTCATTGAACTTTTCAGGCAC
1 TAACTTAAATCACTGTTAGAAAATTAGGGTAAATTATATAAACGGTCATTGAACTTTTCAGGCAC
1654475 TTGAATTTAGGTCACCAACTTTTAAAACTTGCAAAACAGTCCCCCAATAATTTTTTTTT
66 TTGAATTTAGGTCACCAACTTTTAAAACTTGCAAAACAGTCCCCCAATAATTTTTTTTT
1654534 TAACTTAAATCACTGTTAGAAAATTAGGGTAAATTATATAAACGGTCATTGAACTTTTCAGGCAC
1 TAACTTAAATCACTGTTAGAAAATTAGGGTAAATTATATAAACGGTCATTGAACTTTTCAGGCAC
*
1654599 TTGAATTTAGGTCACCAACTTTTAAAACTTGCAAAACAGTCCCCCAATAATTTTATTTT
66 TTGAATTTAGGTCACCAACTTTTAAAACTTGCAAAACAGTCCCCCAATAATTTTTTTTT
1654658 CTTATTAAAT
Statistics
Matches: 123, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
124 123 1.00
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (124 bp):
TAACTTAAATCACTGTTAGAAAATTAGGGTAAATTATATAAACGGTCATTGAACTTTTCAGGCAC
TTGAATTTAGGTCACCAACTTTTAAAACTTGCAAAACAGTCCCCCAATAATTTTTTTTT
Found at i:1654821 original size:16 final size:16
Alignment explanation
Indices: 1654802--1654835 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1654792 CAATATACGA
1654802 ATAAACATATATTTAT
1 ATAAACATATATTTAT
**
1654818 ATAAATGTATATTTAT
1 ATAAACATATATTTAT
1654834 AT
1 AT
1654836 TTAGATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (16 bp):
ATAAACATATATTTAT
Found at i:1654906 original size:16 final size:18
Alignment explanation
Indices: 1654874--1654907 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
1654864 TATTAATGTA
1654874 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
1654892 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
1654908 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:1655569 original size:128 final size:128
Alignment explanation
Indices: 1655369--1655612 Score: 375
Period size: 128 Copynumber: 1.9 Consensus size: 128
1655359 AATTTTCTTC
* *
1655369 TAATTAGGTGATGACATGTGTCACCAATAACATATCATGATCATGCGTTAACACATGTCAGATCC
1 TAATTAGGTGATGACATGTGTCACCAAGAACATATCATGATCATGCGCTAACACATGTCAGATCC
** *
1655434 TGGTTAAATGATTAATTTATT-AATT-TTTTTAATTTAGGACCAAATTGATAGCATATATAAA
66 TAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * * *
1655495 TAATTAGGTGGTGACATGTGTCACCAACGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGTGATGACATGTGTCACCAA-GA-ACATATCATGATCATGCGCTAACACATGTCAGAT
1655560 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
64 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
1655613 TATATAAATA
Statistics
Matches: 105, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
126 26 0.25
127 1 0.01
128 51 0.49
129 4 0.04
130 23 0.22
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (128 bp):
TAATTAGGTGATGACATGTGTCACCAAGAACATATCATGATCATGCGCTAACACATGTCAGATCC
TAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:1656070 original size:35 final size:35
Alignment explanation
Indices: 1656009--1656084 Score: 109
Period size: 35 Copynumber: 2.2 Consensus size: 35
1655999 AATTAAATTT
*
1656009 AATTGAATTATTTTGAAATTTAGGGTTTAGAATGA
1 AATTGAATTATTTGGAAATTTAGGGTTTAGAATGA
* *
1656044 AATTGAATTACTTTGGAAA-TTGGGGTTTAGATTGA
1 AATTGAATTA-TTTGGAAATTTAGGGTTTAGAATGA
1656079 AATTGA
1 AATTGA
1656085 GGACTATTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 30 0.81
36 7 0.19
ACGTcount: A:0.36, C:0.01, G:0.22, T:0.41
Consensus pattern (35 bp):
AATTGAATTATTTGGAAATTTAGGGTTTAGAATGA
Found at i:1658145 original size:3 final size:3
Alignment explanation
Indices: 1658137--1658162 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1658127 ACAATCTGGT
1658137 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
1658163 TCTGAAGCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:1661986 original size:2 final size:2
Alignment explanation
Indices: 1661979--1662038 Score: 99
Period size: 2 Copynumber: 31.5 Consensus size: 2
1661969 CACCGATGAT
1661979 TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1662019 TA TA T- TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
1662039 GTCCGTCCAT
Statistics
Matches: 55, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
1 3 0.05
2 52 0.95
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1662906 original size:31 final size:32
Alignment explanation
Indices: 1662868--1662943 Score: 91
Period size: 31 Copynumber: 2.4 Consensus size: 32
1662858 TAAGGCAACC
** * * *
1662868 CTTGGGTAGGCTTTGTGGCCCCTA-CATCTTT
1 CTTGGGTAGGCTCCGTGGCCCCAAGAATATTT
*
1662899 CTTGGGTAGGCCCCGTGGCCCCAAGAATATTT
1 CTTGGGTAGGCTCCGTGGCCCCAAGAATATTT
1662931 CTTGGGTAGGCTC
1 CTTGGGTAGGCTC
1662944 TCAGTCCCCA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
31 20 0.54
32 17 0.46
ACGTcount: A:0.13, C:0.26, G:0.29, T:0.32
Consensus pattern (32 bp):
CTTGGGTAGGCTCCGTGGCCCCAAGAATATTT
Found at i:1663609 original size:20 final size:20
Alignment explanation
Indices: 1663584--1663625 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
1663574 GTGGGTCGCT
1663584 CCGGTGGACCTAATATGACA
1 CCGGTGGACCTAATATGACA
1663604 CCGGTGGACCTAATATGACA
1 CCGGTGGACCTAATATGACA
1663624 CC
1 CC
1663626 TCGAATCAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.19
Consensus pattern (20 bp):
CCGGTGGACCTAATATGACA
Found at i:1669600 original size:54 final size:54
Alignment explanation
Indices: 1669518--1669627 Score: 195
Period size: 54 Copynumber: 2.0 Consensus size: 54
1669508 TTATCTCTAT
1669518 TTAATAGCTATTGTCGGGTATAGTTGTTGTTAATTA-TTTCCTATAAAAAATTAC
1 TTAATAGCTATTGTCGGGTATAGTTGTTGTTAATTATTTTCCTAT-AAAAATTAC
*
1669572 TTAATAGCTATTGTCGGGTATAGTTGTTGTTAATTATTTTCCTATTAAAATTAC
1 TTAATAGCTATTGTCGGGTATAGTTGTTGTTAATTATTTTCCTATAAAAATTAC
1669626 TT
1 TT
1669628 GTCTTGGTAT
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
54 46 0.85
55 8 0.15
ACGTcount: A:0.29, C:0.09, G:0.15, T:0.47
Consensus pattern (54 bp):
TTAATAGCTATTGTCGGGTATAGTTGTTGTTAATTATTTTCCTATAAAAATTAC
Found at i:1670785 original size:200 final size:199
Alignment explanation
Indices: 1670455--1670853 Score: 789
Period size: 200 Copynumber: 2.0 Consensus size: 199
1670445 CTGTATTGCC
1670455 ATCCAAGCTCACGTCAAGCTTTCTGCGCATCTTTATGTCCATGATAGCTTATTGGTTTCAGTTAA
1 ATCCAAGCTCACGTCAAGCTTTCTGCGCATCTTTATGTCCATGATAGCTTATTGGTTTCAGTTAA
1670520 ATGTTACTTCAAAATACTTTTTTTTCCAATTAAGATTTTTGCTTGATATCAAAGCTAGTTCCAGT
66 ATGTTACTTCAAAATACTTTTTTTTCCAATTAAGATTTTTGCTTGATATCAAAGCTAGTTCCAGT
1670585 TCCCATCCAGTTACCTGTTTTGACAGGTAATTTTCGAGATGGGTTCAAAAGTCTTTTTTCCCCTC
131 TCCCATCCAGTTACCTGTTTTGACAGGTAATTTTCGAGATGGGTTCAAAAGTCTTTTTTCCCCTC
1670650 CTTA
196 CTTA
1670654 ATCCAAGCTCACGTCAAGCTTTCTGCGCATCTTTATGTCCATGATAGCTTATTGGTTTCAGTTAA
1 ATCCAAGCTCACGTCAAGCTTTCTGCGCATCTTTATGTCCATGATAGCTTATTGGTTTCAGTTAA
1670719 ATGTTACTTCAAAATACTTTTTTTTTCCAATTAAGATTTTTGCTTGATATCAAAGCTAGTTCCAG
66 ATGTTACTTCAAAATAC-TTTTTTTTCCAATTAAGATTTTTGCTTGATATCAAAGCTAGTTCCAG
1670784 TTCCCATCCAGTTACCTGTTTTGACAGGTAATTTTCGAGATGGGTTCAAAAGTCTTTTTTCCCCT
130 TTCCCATCCAGTTACCTGTTTTGACAGGTAATTTTCGAGATGGGTTCAAAAGTCTTTTTTCCCCT
1670849 CCTTA
195 CCTTA
1670854 TAGGCCTCAC
Statistics
Matches: 199, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
199 82 0.41
200 117 0.59
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (199 bp):
ATCCAAGCTCACGTCAAGCTTTCTGCGCATCTTTATGTCCATGATAGCTTATTGGTTTCAGTTAA
ATGTTACTTCAAAATACTTTTTTTTCCAATTAAGATTTTTGCTTGATATCAAAGCTAGTTCCAGT
TCCCATCCAGTTACCTGTTTTGACAGGTAATTTTCGAGATGGGTTCAAAAGTCTTTTTTCCCCTC
CTTA
Found at i:1672675 original size:30 final size:30
Alignment explanation
Indices: 1672639--1672708 Score: 122
Period size: 30 Copynumber: 2.3 Consensus size: 30
1672629 GTTAGTGGGC
*
1672639 GGGCGGATGTAGGGTGGTTGGATACGAGAA
1 GGGCGGATGTAGGGTGGGTGGATACGAGAA
*
1672669 GGGCGGATGTAGGGTGGGTGGATACGAGAC
1 GGGCGGATGTAGGGTGGGTGGATACGAGAA
1672699 GGGCGGATGT
1 GGGCGGATGT
1672709 GGAGCGAGTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.20, C:0.09, G:0.53, T:0.19
Consensus pattern (30 bp):
GGGCGGATGTAGGGTGGGTGGATACGAGAA
Found at i:1675258 original size:32 final size:32
Alignment explanation
Indices: 1675217--1675329 Score: 120
Period size: 32 Copynumber: 3.6 Consensus size: 32
1675207 TGATTTTGTT
*
1675217 TTGCATTCAGATAATGCACAACATAGTCAGTG
1 TTGCATTCAGATAATGCACAACAGAGTCAGTG
* * * *
1675249 TTGCATTCAGATAGTGTACAATAGAGTCAATG
1 TTGCATTCAGATAATGCACAACAGAGTCAGTG
* * *
1675281 -TGCATTCAGATAGTGCTCAGCAGAGTCAGTG
1 TTGCATTCAGATAATGCACAACAGAGTCAGTG
* * *
1675312 ATACATTCAAATAATGCA
1 TTGCATTCAGATAATGCA
1675330 TAAGAGTATC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
31 26 0.39
32 40 0.61
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (32 bp):
TTGCATTCAGATAATGCACAACAGAGTCAGTG
Found at i:1676345 original size:15 final size:15
Alignment explanation
Indices: 1676325--1676400 Score: 70
Period size: 15 Copynumber: 5.3 Consensus size: 15
1676315 TAATGTAGAA
1676325 ATTATTATAAAATAT
1 ATTATTATAAAATAT
*
1676340 ATTATT-T-TAATAGT
1 ATTATTATAAAATA-T
** * *
1676354 A-TAAAATATAATAA
1 ATTATTATAAAATAT
1676368 ATTATTAT-AAATAT
1 ATTATTATAAAATAT
1676382 ATTATTATAAAATAT
1 ATTATTATAAAATAT
1676397 ATTA
1 ATTA
1676401 CTTAACTATT
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
13 6 0.12
14 17 0.35
15 25 0.52
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (15 bp):
ATTATTATAAAATAT
Found at i:1685823 original size:162 final size:163
Alignment explanation
Indices: 1685556--1685881 Score: 645
Period size: 162 Copynumber: 2.0 Consensus size: 163
1685546 TCGAATTCTT
1685556 GCAGTAATAATATCCATTTAATAAGCCTAGGCTTTGCATTGTTTTTATTAACTAAGTACTTAATG
1 GCAGTAATAATATCCATTTAATAAGCCTAGGCTTTGCATTGTTTTTATTAACTAAGTACTTAATG
1685621 GCTGAGTGATCAGTATGTACTATGACCTTAGTCCTATAAGATATGGCCTAAACTTATC-AAAGTG
66 GCTGAGTGATCAGTATGTACTATGACCTTAGTCCTATAAGATATGGCCTAAACTTATCAAAAGTG
1685685 AATACCATGGCAAGAAATTATTTTTTAGTAGCG
131 AATACCATGGCAAGAAATTATTTTTTAGTAGCG
1685718 GCAGTAATAATATCCATTTAATAAGCCTAGGCTTTGCATTGTTTTTATTAACTAAGTACTTAATG
1 GCAGTAATAATATCCATTTAATAAGCCTAGGCTTTGCATTGTTTTTATTAACTAAGTACTTAATG
1685783 GCTGAGTGATCAGTATGTACTATGACCTTAGTCCTATAAGATATGGCCTAAACTTATCAAAAGTG
66 GCTGAGTGATCAGTATGTACTATGACCTTAGTCCTATAAGATATGGCCTAAACTTATCAAAAGTG
1685848 AATACCATGGCAAGAAATTATTTTTTAGTAGCG
131 AATACCATGGCAAGAAATTATTTTTTAGTAGCG
1685881 G
1 G
1685882 TATAATTGAG
Statistics
Matches: 163, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
162 123 0.75
163 40 0.25
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (163 bp):
GCAGTAATAATATCCATTTAATAAGCCTAGGCTTTGCATTGTTTTTATTAACTAAGTACTTAATG
GCTGAGTGATCAGTATGTACTATGACCTTAGTCCTATAAGATATGGCCTAAACTTATCAAAAGTG
AATACCATGGCAAGAAATTATTTTTTAGTAGCG
Found at i:1688529 original size:21 final size:21
Alignment explanation
Indices: 1688486--1688529 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
1688476 TGATGAACTA
* * **
1688486 TGGCTTTGTAATAGAGCTGCT
1 TGGCTTTATAATAAAGCACCT
1688507 TGGCTTTATAATAAAGCACCT
1 TGGCTTTATAATAAAGCACCT
1688528 TG
1 TG
1688530 ATTCTTGATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (21 bp):
TGGCTTTATAATAAAGCACCT
Found at i:1692875 original size:20 final size:20
Alignment explanation
Indices: 1692832--1692878 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
1692822 AATAAGTCAA
* **
1692832 TAGTATCGATACGTAGAGTT
1 TAGTATCGATACCTAGAGAC
*
1692852 TAGTATTGATACCTAGAGAC
1 TAGTATCGATACCTAGAGAC
1692872 TAGTATC
1 TAGTATC
1692879 AATATAGAAG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (20 bp):
TAGTATCGATACCTAGAGAC
Found at i:1699177 original size:23 final size:23
Alignment explanation
Indices: 1699151--1699216 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 23
1699141 GGTTCTACGC
*
1699151 GGTCCTTCAGGACAATTCTATAT
1 GGTCCTTCGGGACAATTCTATAT
* * *
1699174 GGTCCTTTGGGATAATTCTATGT
1 GGTCCTTCGGGACAATTCTATAT
* *
1699197 GGTCATTCGGGACAAATCTA
1 GGTCCTTCGGGACAATTCTA
1699217 CGTGGCACTT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (23 bp):
GGTCCTTCGGGACAATTCTATAT
Found at i:1699221 original size:23 final size:23
Alignment explanation
Indices: 1699143--1699221 Score: 77
Period size: 23 Copynumber: 3.4 Consensus size: 23
1699133 GAGTCGAGGG
* *
1699143 TTCTACGCGGTCCTTCAGGACAA
1 TTCTACGTGGTCCTTCGGGACAA
** * *
1699166 TTCTATATGGTCCTTTGGGATAA
1 TTCTACGTGGTCCTTCGGGACAA
* *
1699189 TTCTATGTGGTCATTCGGGACAA
1 TTCTACGTGGTCCTTCGGGACAA
*
1699212 ATCTACGTGG
1 TTCTACGTGG
1699222 CACTTCAGTG
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (23 bp):
TTCTACGTGGTCCTTCGGGACAA
Found at i:1704973 original size:16 final size:19
Alignment explanation
Indices: 1704952--1704988 Score: 53
Period size: 16 Copynumber: 2.1 Consensus size: 19
1704942 ATATGATTAG
1704952 AAGTT-ATGG-GATTT-AT
1 AAGTTAATGGTGATTTGAT
1704968 AAGTTAATGGTGATTTGAT
1 AAGTTAATGGTGATTTGAT
1704987 AA
1 AA
1704989 AATGGATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.28
17 4 0.22
18 5 0.28
19 4 0.22
ACGTcount: A:0.35, C:0.00, G:0.24, T:0.41
Consensus pattern (19 bp):
AAGTTAATGGTGATTTGAT
Found at i:1706011 original size:23 final size:23
Alignment explanation
Indices: 1705985--1706040 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
1705975 TACGCGGTTG
*
1705985 TTCGGGACAATTCTATGTGGTCA
1 TTCGGGACAATTCTATATGGTCA
* *
1706008 TTCGAGACAATTCTATATGGTCC
1 TTCGGGACAATTCTATATGGTCA
1706031 TTCGGGACAA
1 TTCGGGACAA
1706041 ATGTACGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (23 bp):
TTCGGGACAATTCTATATGGTCA
Found at i:1707455 original size:23 final size:21
Alignment explanation
Indices: 1707403--1707459 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 21
1707393 TCTGGGCACC
*
1707403 CTTTTCTTTTTCCTCATCTTT
1 CTTTTCTTCTTCCTCATCTTT
1707424 CTTTGTCTTCTTCCTCAT-TATAT
1 CTTT-TCTTCTTCCTCATCT-T-T
1707447 CTTTCTCTTCTTC
1 CTTT-TCTTCTTC
1707460 TTCTTGCTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 5 0.16
22 13 0.42
23 13 0.42
ACGTcount: A:0.07, C:0.30, G:0.02, T:0.61
Consensus pattern (21 bp):
CTTTTCTTCTTCCTCATCTTT
Found at i:1707825 original size:19 final size:19
Alignment explanation
Indices: 1707784--1707825 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
1707774 GAAAAACTAG
* * *
1707784 CACTTGGTTGAGGCTTTAG
1 CACTTGGTTGAGCCTTGAA
1707803 CACTTGGTTGAGCCTTGAA
1 CACTTGGTTGAGCCTTGAA
1707822 CACT
1 CACT
1707826 CCAACAACTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.33
Consensus pattern (19 bp):
CACTTGGTTGAGCCTTGAA
Found at i:1719571 original size:22 final size:21
Alignment explanation
Indices: 1719546--1719603 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 21
1719536 CACTTGTACT
*
1719546 AAAGTATCTTAGCATTGATACA
1 AAAGT-TCTTAGCAGTGATACA
* *
1719568 AAAGTGCATTAGCAGTGATACT
1 AAAGTTC-TTAGCAGTGATACA
1719590 AAAGTGTCTTAGCA
1 AAAGT-TCTTAGCA
1719604 CTAATGGGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
21 1 0.03
22 28 0.93
23 1 0.03
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (21 bp):
AAAGTTCTTAGCAGTGATACA
Found at i:1729223 original size:2 final size:2
Alignment explanation
Indices: 1729216--1729263 Score: 69
Period size: 2 Copynumber: 23.5 Consensus size: 2
1729206 AATTAAAATT
* *
1729216 TA TA TA TA TA TA TCA AA TA TA TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1729259 TA TA T
1 TA TA T
1729264 TATTAATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
2 40 0.98
3 1 0.02
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:1730870 original size:159 final size:160
Alignment explanation
Indices: 1730580--1730903 Score: 472
Period size: 159 Copynumber: 2.0 Consensus size: 160
1730570 ACAATATATT
* * * *
1730580 CAAATAAGAATAGAGGACCCAGGAAAGAAGCTACGAGATTGAATTTCACGCCTGTGCTAGTCCCG
1 CAAATAAGAACAGAGGACCCAGGAAAGAAGCTACAAGATTGAATTTCACACCTGTGCCAGTCCCG
* * *
1730645 TATGCAAAAATATATAATTCATTCCTAAAAATAGATAGGGTACGACCATATCACTTGAGTCCTCT
66 TATGCAAAAATATATAATTCATTCCTAAAAACAGATAGGGTACGACCATATCACTTGACTCATCT
* *
1730710 TCAGCCCCCA-TATCCTCATTGGTATAGTG
131 TCAACCCCCATTATCCTCATTGGTATAGTA
* *
1730739 CAAATAAGAACAGGGGACCCAGGATAA-AAGCTACAAGATTGACTTTCACACCTGTGCCAGTCCC
1 CAAATAAGAACAGAGGACCCAGGA-AAGAAGCTACAAGATTGAATTTCACACCTGTGCCAGTCCC
** * *
1730803 GTATGCAAAAATATATGCTTCATTCCTAAAAACAGATAGGGTGCGAGCATATCACTTGACTCATC
65 GTATGCAAAAATATATAATTCATTCCTAAAAACAGATAGGGTACGACCATATCACTTGACTCATC
* *
1730868 TTCAACCCCCATTATCCTCTTTGGTATGGTA
130 TTCAACCCCCATTATCCTCATTGGTATAGTA
1730899 CAAAT
1 CAAAT
1730904 GCACATTGCG
Statistics
Matches: 146, Mismatches: 17, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
159 123 0.84
160 23 0.16
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.26
Consensus pattern (160 bp):
CAAATAAGAACAGAGGACCCAGGAAAGAAGCTACAAGATTGAATTTCACACCTGTGCCAGTCCCG
TATGCAAAAATATATAATTCATTCCTAAAAACAGATAGGGTACGACCATATCACTTGACTCATCT
TCAACCCCCATTATCCTCATTGGTATAGTA
Found at i:1731875 original size:16 final size:16
Alignment explanation
Indices: 1731854--1731888 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
1731844 GTGCAATGTG
*
1731854 TGTGCCACCCTAGCCA
1 TGTGCCACCCTAGACA
1731870 TGTGCCACCCTAGACA
1 TGTGCCACCCTAGACA
1731886 TGT
1 TGT
1731889 TCCTTGCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.20, C:0.37, G:0.20, T:0.23
Consensus pattern (16 bp):
TGTGCCACCCTAGACA
Found at i:1735300 original size:3 final size:3
Alignment explanation
Indices: 1735292--1735329 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
1735282 TTCTCTACTT
1735292 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC -TC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1735330 CCCGTAACTC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:1747052 original size:7 final size:7
Alignment explanation
Indices: 1747035--1747126 Score: 112
Period size: 7 Copynumber: 13.0 Consensus size: 7
1747025 ATCATTCATT
1747035 AACCAATA
1 AACC-ATA
1747043 AACCATA
1 AACCATA
*
1747050 AACTATA
1 AACCATA
*
1747057 AATCATA
1 AACCATA
1747064 AACCATA
1 AACCATA
*
1747071 AATCATA
1 AACCATA
1747078 AACCATA
1 AACCATA
*
1747085 AATCATA
1 AACCATA
1747092 AACCATA
1 AACCATA
*
1747099 AATCATA
1 AACCATA
1747106 AACCATA
1 AACCATA
**
1747113 AATAATA
1 AACCATA
1747120 AACCATA
1 AACCATA
1747127 GCCCAATATA
Statistics
Matches: 70, Mismatches: 14, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
7 66 0.94
8 4 0.06
ACGTcount: A:0.59, C:0.21, G:0.00, T:0.21
Consensus pattern (7 bp):
AACCATA
Found at i:1747063 original size:14 final size:14
Alignment explanation
Indices: 1747030--1747126 Score: 149
Period size: 14 Copynumber: 6.9 Consensus size: 14
1747020 TGTTTATCAT
*
1747030 TCATTAACCAATAAA
1 TCATAAACC-ATAAA
* *
1747045 CCATAAACTATAAA
1 TCATAAACCATAAA
1747059 TCATAAACCATAAA
1 TCATAAACCATAAA
1747073 TCATAAACCATAAA
1 TCATAAACCATAAA
1747087 TCATAAACCATAAA
1 TCATAAACCATAAA
1747101 TCATAAACCATAAA
1 TCATAAACCATAAA
*
1747115 TAATAAACCATA
1 TCATAAACCATA
1747127 GCCCAATATA
Statistics
Matches: 76, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
14 70 0.92
15 6 0.08
ACGTcount: A:0.57, C:0.21, G:0.00, T:0.23
Consensus pattern (14 bp):
TCATAAACCATAAA
Found at i:1747334 original size:40 final size:40
Alignment explanation
Indices: 1747184--1747333 Score: 228
Period size: 40 Copynumber: 3.8 Consensus size: 40
1747174 ACCGTAGTGC
*
1747184 TACACATAAGGTCATGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCATGCCCACCATATACACCGAAGTGCAT
* ** *
1747224 TACCCATAAGGTTGTGTCCACCATATACACCGAAGTGCAT
1 TACACATAAGGTCATGCCCACCATATACACCGAAGTGCAT
* *
1747264 TACACATAAGGTCATGCCAACCATATACACTGAAGTGCAT
1 TACACATAAGGTCATGCCCACCATATACACCGAAGTGCAT
*
1747304 TACACATAAGGTCGTGCCCACCATATACAC
1 TACACATAAGGTCATGCCCACCATATACAC
1747334 TTAGTGTCCT
Statistics
Matches: 97, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 97 1.00
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.23
Consensus pattern (40 bp):
TACACATAAGGTCATGCCCACCATATACACCGAAGTGCAT
Found at i:1747684 original size:24 final size:24
Alignment explanation
Indices: 1747652--1747699 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
1747642 GTCTTCCTAG
*
1747652 TGATGTATAAAACATCTATGTACA
1 TGATGTATAAAACATATATGTACA
1747676 TGATGTATAAAACATATATGTACA
1 TGATGTATAAAACATATATGTACA
1747700 ATGTCATGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.33
Consensus pattern (24 bp):
TGATGTATAAAACATATATGTACA
Found at i:1754274 original size:7 final size:7
Alignment explanation
Indices: 1754257--1754306 Score: 64
Period size: 7 Copynumber: 7.0 Consensus size: 7
1754247 ATAATTCATT
1754257 AACCAATA
1 AACC-ATA
1754265 AACCATA
1 AACCATA
*
1754272 AACTATA
1 AACCATA
*
1754279 AATCATA
1 AACCATA
1754286 AACCATA
1 AACCATA
*
1754293 AATCATA
1 AACCATA
1754300 AACCATA
1 AACCATA
1754307 GCCCAATATA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
7 32 0.89
8 4 0.11
ACGTcount: A:0.58, C:0.22, G:0.00, T:0.20
Consensus pattern (7 bp):
AACCATA
Found at i:1754285 original size:14 final size:14
Alignment explanation
Indices: 1754247--1754306 Score: 75
Period size: 14 Copynumber: 4.2 Consensus size: 14
1754237 TTTTATGTTT
* *
1754247 ATAATTCATTAACC
1 ATAAATCATAAACC
* *
1754261 AATAAACCATAAACT
1 -ATAAATCATAAACC
1754276 ATAAATCATAAACC
1 ATAAATCATAAACC
1754290 ATAAATCATAAACC
1 ATAAATCATAAACC
1754304 ATA
1 ATA
1754307 GCCCAATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
14 29 0.74
15 10 0.26
ACGTcount: A:0.55, C:0.20, G:0.00, T:0.25
Consensus pattern (14 bp):
ATAAATCATAAACC
Found at i:1754489 original size:40 final size:40
Alignment explanation
Indices: 1754364--1754473 Score: 211
Period size: 40 Copynumber: 2.8 Consensus size: 40
1754354 ATCGTTGTGC
1754364 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGCAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGCAT
*
1754404 TATACATAAGGTCGTGCCCACCATATACACCGAAGTGCAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGCAT
1754444 TACACATAAGGTCGTGCCCACCATATACAC
1 TACACATAAGGTCGTGCCCACCATATACAC
1754474 TTAGTGTCCT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 68 1.00
ACGTcount: A:0.33, C:0.30, G:0.16, T:0.21
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGCAT
Found at i:1754632 original size:22 final size:22
Alignment explanation
Indices: 1754607--1754728 Score: 78
Period size: 22 Copynumber: 5.5 Consensus size: 22
1754597 ATGGAATAAC
1754607 ATATTATATATAGTTTAAAATT
1 ATATTATATATAGTTTAAAATT
* *
1754629 ATATTACATAT-TTTTAAAATAT
1 ATATTATATATAGTTTAAAAT-T
* *
1754651 ATATTAAATA-ATTTTAAAA--
1 ATATTATATATAGTTTAAAATT
*
1754670 ATA-TAT-TATAGTTTTAAAAAT
1 ATATTATATATAG-TTTAAAATT
*
1754691 AGTA-TATATATAGCTTTGAAAATAA
1 A-TATTATATATAG-TTT-AAAAT-T
1754716 ATATTAATATATA
1 ATATT-ATATATA
1754729 TAGTTCTTTA
Statistics
Matches: 80, Mismatches: 8, Indels: 20
0.74 0.07 0.19
Matches are distributed among these distances:
17 2 0.03
18 3 0.04
19 10 0.12
21 9 0.11
22 33 0.41
23 8 0.10
24 6 0.08
25 2 0.03
26 7 0.09
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (22 bp):
ATATTATATATAGTTTAAAATT
Found at i:1754646 original size:21 final size:21
Alignment explanation
Indices: 1754620--1754677 Score: 80
Period size: 22 Copynumber: 2.7 Consensus size: 21
1754610 TTATATATAG
* *
1754620 TTTAAAATTATATTACATATT
1 TTTAAAATTATATTAAATAAT
1754641 TTTAAAATATATATTAAATAAT
1 TTTAAAAT-TATATTAAATAAT
*
1754663 TTTAAAAATATATTA
1 TTTAAAATTATATTA
1754678 TAGTTTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 15 0.45
22 18 0.55
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
TTTAAAATTATATTAAATAAT
Found at i:1754670 original size:23 final size:22
Alignment explanation
Indices: 1754623--1754675 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
1754613 TATATAGTTT
* *
1754623 AAAAT-TATATTACATATTTTT
1 AAAATATATATTAAATATTTTA
1754644 AAAATATATATTAAATAATTTTA
1 AAAATATATATTAAAT-ATTTTA
1754667 AAAATATAT
1 AAAATATAT
1754676 TATAGTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 5 0.18
22 9 0.32
23 14 0.50
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
AAAATATATATTAAATATTTTA
Found at i:1754712 original size:23 final size:24
Alignment explanation
Indices: 1754670--1754714 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
1754660 AATTTTAAAA
*
1754670 ATATATTATAGTTTTAAAAATAGT
1 ATATATTATAGCTTTAAAAATAGT
*
1754694 ATATA-TATAGCTTTGAAAATA
1 ATATATTATAGCTTTAAAAATA
1754715 AATATTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (24 bp):
ATATATTATAGCTTTAAAAATAGT
Found at i:1757472 original size:11 final size:11
Alignment explanation
Indices: 1757456--1757489 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
1757446 GGATTAAGGG
1757456 TTAGGTTTAGT
1 TTAGGTTTAGT
1757467 TTAGGTTTAGT
1 TTAGGTTTAGT
*
1757478 TTAGGTTAAGT
1 TTAGGTTTAGT
1757489 T
1 T
1757490 ATAATAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.21, C:0.00, G:0.26, T:0.53
Consensus pattern (11 bp):
TTAGGTTTAGT
Found at i:1759491 original size:15 final size:16
Alignment explanation
Indices: 1759471--1759508 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
1759461 AGGTAGATAT
*
1759471 TATTTTA-AATAATTA
1 TATTTTACAATAATAA
1759486 TATTTTTACAATAATAA
1 TA-TTTTACAATAATAA
1759503 TATTTT
1 TATTTT
1759509 TCACCTCATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 2 0.10
16 9 0.45
17 9 0.45
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
TATTTTACAATAATAA
Found at i:1759500 original size:17 final size:16
Alignment explanation
Indices: 1759473--1759509 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
1759463 GTAGATATTA
*
1759473 TTTTAAATAATTATAT
1 TTTTAAATAATAATAT
1759489 TTTTACAATAATAATAT
1 TTTTA-AATAATAATAT
1759506 TTTT
1 TTTT
1759510 CACCTCATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTTAAATAATAATAT
Found at i:1760552 original size:27 final size:27
Alignment explanation
Indices: 1760497--1760552 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 27
1760487 GCGACCTCCT
1760497 AGGTCGCCATGCCGCCCGGCGACCAAGG
1 AGGTCGCCATGCCG-CCGGCGACCAAGG
*
1760525 AGGTCGCCATGCACG-GGGCGACCAAGG
1 AGGTCGCCATGC-CGCCGGCGACCAAGG
1760552 A
1 A
1760553 TCATGCATGG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 12 0.46
28 12 0.46
29 2 0.08
ACGTcount: A:0.21, C:0.34, G:0.38, T:0.07
Consensus pattern (27 bp):
AGGTCGCCATGCCGCCGGCGACCAAGG
Found at i:1760775 original size:10 final size:10
Alignment explanation
Indices: 1760762--1760819 Score: 55
Period size: 10 Copynumber: 5.6 Consensus size: 10
1760752 CAGGGCATGG
1760762 ATGGGCGTGC
1 ATGGGCGTGC
1760772 ATGGGCGTGCTCC
1 ATGGGCGTG---C
* * *
1760785 TTTGGCGAG-
1 ATGGGCGTGC
1760794 ATGGGCGTGC
1 ATGGGCGTGC
1760804 ATGGGCGTGC
1 ATGGGCGTGC
1760814 ATGGGC
1 ATGGGC
1760820 ATGGAGGTCG
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 6 0.16
10 25 0.66
13 7 0.18
ACGTcount: A:0.10, C:0.21, G:0.47, T:0.22
Consensus pattern (10 bp):
ATGGGCGTGC
Found at i:1760889 original size:29 final size:29
Alignment explanation
Indices: 1760854--1760923 Score: 104
Period size: 29 Copynumber: 2.4 Consensus size: 29
1760844 GCAGGCATGC
*
1760854 TGGCGACCTACCAGGTCGCTGGGCGTGCA
1 TGGCGACCTACCAGGTCGCCGGGCGTGCA
***
1760883 TGGCGACCTGGTAGGTCGCCGGGCGTGCA
1 TGGCGACCTACCAGGTCGCCGGGCGTGCA
1760912 TGGCGACCTACC
1 TGGCGACCTACC
1760924 CCCGGTACTG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.13, C:0.31, G:0.39, T:0.17
Consensus pattern (29 bp):
TGGCGACCTACCAGGTCGCCGGGCGTGCA
Found at i:1763267 original size:33 final size:33
Alignment explanation
Indices: 1763182--1763272 Score: 101
Period size: 33 Copynumber: 2.8 Consensus size: 33
1763172 ATTTTCTAAG
* * * * * *
1763182 ACTCACGAACAATCAATTAACACAGTGGGTAAT
1 ACTCATGAACAACCAGTTGACACAGTGGGAAAC
**
1763215 ACTCATGAACAACTGGTTGACACAGTGGGAAAC
1 ACTCATGAACAACCAGTTGACACAGTGGGAAAC
*
1763248 ACTCATGAACAACCAGTTGATACAG
1 ACTCATGAACAACCAGTTGACACAG
1763273 CGGTTGATAC
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.20
Consensus pattern (33 bp):
ACTCATGAACAACCAGTTGACACAGTGGGAAAC
Found at i:1765727 original size:29 final size:29
Alignment explanation
Indices: 1765685--1765758 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
1765675 TTTGAACAGT
* * * *
1765685 ATGTTTTCTAAACTATGACTGTCTAAACA
1 ATGTTTCCTGAACTATGACAGACTAAACA
*
1765714 ATGTTTCCTGAACTATGACAGACTGAACA
1 ATGTTTCCTGAACTATGACAGACTAAACA
1765743 ATACGTTTCCTGAACT
1 AT--GTTTCCTGAACT
1765759 TTGATTGTTC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
29 26 0.68
31 12 0.32
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (29 bp):
ATGTTTCCTGAACTATGACAGACTAAACA
Found at i:1768515 original size:59 final size:58
Alignment explanation
Indices: 1768452--1768566 Score: 140
Period size: 58 Copynumber: 2.0 Consensus size: 58
1768442 ACAAATAGTC
*
1768452 CCTTGAATATAGTGCATTGCTTTATTGAGTCCTCCAACTATTAAAAGTTACAAAATGAT
1 CCTTGAATATAGGGCATTG-TTTATTGAGTCCTCCAACTATTAAAAGTTACAAAATGAT
* ** * * * **
1768511 CCTTGATTATAGGGTGTTGTTTTTTTAGTCTTCTGACTATTAAAAGTTACAAAATG
1 CCTTGAATATAGGGCATTGTTTATTGAGTCCTCCAACTATTAAAAGTTACAAAATG
1768567 GTCATAAGAC
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
58 32 0.68
59 15 0.32
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (58 bp):
CCTTGAATATAGGGCATTGTTTATTGAGTCCTCCAACTATTAAAAGTTACAAAATGAT
Found at i:1772831 original size:13 final size:13
Alignment explanation
Indices: 1772813--1772837 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1772803 ATAGAAGCGT
1772813 ATATGAAGACTGC
1 ATATGAAGACTGC
1772826 ATATGAAGACTG
1 ATATGAAGACTG
1772838 TTCAACTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (13 bp):
ATATGAAGACTGC
Found at i:1788807 original size:20 final size:19
Alignment explanation
Indices: 1788762--1788807 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
1788752 CATTTTAGTC
1788762 ATAATTTAATTCAATTAAA
1 ATAATTTAATTCAATTAAA
1788781 ATAAATTTAATATCCAATT-AA
1 AT-AATTTAAT-T-CAATTAAA
1788802 ATAATT
1 ATAATT
1788808 GAACGTGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 2 0.08
20 12 0.50
21 5 0.21
22 5 0.21
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (19 bp):
ATAATTTAATTCAATTAAA
Found at i:1792130 original size:19 final size:19
Alignment explanation
Indices: 1792085--1792131 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
1792075 CTTGTGGAGA
** *
1792085 GAGTATAAGTAAGGTTTTT
1 GAGTATAAACAAGGTTTTG
1792104 GA-TATAAACAAGGTTTTG
1 GAGTATAAACAAGGTTTTG
1792122 GAGTATAAAC
1 GAGTATAAAC
1792132 CTTGTGCGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.38, C:0.04, G:0.23, T:0.34
Consensus pattern (19 bp):
GAGTATAAACAAGGTTTTG
Found at i:1797871 original size:65 final size:64
Alignment explanation
Indices: 1797677--1797882 Score: 176
Period size: 65 Copynumber: 3.2 Consensus size: 64
1797667 ACTAAGAGTA
* * *
1797677 CATCGATGCATCAAGTGCATTCGATGTTTCAA---AATAGCA-GAGTGCATCGATGCATGACTGG
1 CATCGATGCATCAAATGCATTCGATG-TTCAATTTAAT-TCATG-GTGCATCGATGCATGATTGG
1797738 TG
63 TG
* * * * *
1797740 CATCGATGCATCAAATGCATTCGGTGTT---TTCATAACATCCTCGGTGCATCGTTGCATGGTAT
1 CATCGATGCATCAAATGCATTCGATGTTCAATT--TAA-TTCAT-GGTGCATCGATGCATGAT-T
1797802 -GTG
61 GGTG
* *
1797805 CATCGATGCATGAAATGCATTCGATGTTCAATTTAATTCATGGTGCATTGATGCATGAATTGGTG
1 CATCGATGCATCAAATGCATTCGATGTTCAATTTAATTCATGGTGCATCGATGCATG-ATTGGTG
*
1797870 CATCGGTGCATCA
1 CATCGATGCATCA
1797883 CTCTGAAAAA
Statistics
Matches: 112, Mismatches: 17, Indels: 26
0.72 0.11 0.17
Matches are distributed among these distances:
62 2 0.02
63 24 0.21
64 18 0.16
65 61 0.54
66 5 0.04
68 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.32
Consensus pattern (64 bp):
CATCGATGCATCAAATGCATTCGATGTTCAATTTAATTCATGGTGCATCGATGCATGATTGGTG
Found at i:1798363 original size:2 final size:2
Alignment explanation
Indices: 1798356--1798416 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
1798346 AATTGATTAA
1798356 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1798398 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
1798417 GCTTAAGCTG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1804666 original size:17 final size:17
Alignment explanation
Indices: 1804644--1804677 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1804634 AGTTTGCTAC
1804644 TTCTTGTTCCTCTTCAT
1 TTCTTGTTCCTCTTCAT
1804661 TTCTTGTTCCTCTTCAT
1 TTCTTGTTCCTCTTCAT
1804678 CGGAACCTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.06, C:0.29, G:0.06, T:0.59
Consensus pattern (17 bp):
TTCTTGTTCCTCTTCAT
Found at i:1806017 original size:20 final size:20
Alignment explanation
Indices: 1805990--1806036 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
1805980 AATTTGGAAA
*
1805990 TCGCAACACAGAAGTCAAAT
1 TCGCAACACAAAAGTCAAAT
* *
1806010 TTGCAACATAAAAGTCAAAT
1 TCGCAACACAAAAGTCAAAT
1806030 TCGCAAC
1 TCGCAAC
1806037 GTGATAATCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.45, C:0.23, G:0.13, T:0.19
Consensus pattern (20 bp):
TCGCAACACAAAAGTCAAAT
Found at i:1806134 original size:40 final size:40
Alignment explanation
Indices: 1806002--1806136 Score: 116
Period size: 40 Copynumber: 3.4 Consensus size: 40
1805992 GCAACACAGA
* * * *
1806002 AGTCAAATTTGCAACATAAAAGTCAAATTCGCAACGTGAT
1 AGTCAAATTCGCAACACATAAGTCAAATTCGCAACGCGAT
* * * **
1806042 AATCAAATTTGCAACGCGAATCTGT-AAA-TCGCAACGCGGAT
1 AGTCAAATTCGCAACAC--ATAAGTCAAATTCGCAACGC-GAT
*
1806083 CTGT-AAA-TCGCAACACATAAGTCAAATTCGCAACGCGAT
1 -AGTCAAATTCGCAACACATAAGTCAAATTCGCAACGCGAT
1806122 AGTCAAATTCGCAAC
1 AGTCAAATTCGCAAC
1806137 GCGAAATTTC
Statistics
Matches: 73, Mismatches: 14, Indels: 16
0.71 0.14 0.16
Matches are distributed among these distances:
38 6 0.08
39 9 0.12
40 45 0.62
41 9 0.12
42 4 0.05
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.22
Consensus pattern (40 bp):
AGTCAAATTCGCAACACATAAGTCAAATTCGCAACGCGAT
Found at i:1806137 original size:20 final size:21
Alignment explanation
Indices: 1806022--1806140 Score: 108
Period size: 20 Copynumber: 5.9 Consensus size: 21
1806012 GCAACATAAA
*
1806022 AGTCAAATTCGCAACGTGAT-
1 AGTCAAATTCGCAACGCGATC
* *
1806042 AATCAAATTTGCAACGCGAATC
1 AGTCAAATTCGCAACGCG-ATC
*
1806064 TGT-AAA-TCGCAACGCGGATC
1 AGTCAAATTCGCAACGC-GATC
* * *
1806084 TGT-AAA-TCGCAACAC-ATA
1 AGTCAAATTCGCAACGCGATC
1806102 AGTCAAATTCGCAACGCGAT-
1 AGTCAAATTCGCAACGCGATC
1806122 AGTCAAATTCGCAACGCGA
1 AGTCAAATTCGCAACGCGA
1806141 AATTTCAAAT
Statistics
Matches: 83, Mismatches: 10, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
18 4 0.05
19 3 0.04
20 67 0.81
21 8 0.10
22 1 0.01
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.21
Consensus pattern (21 bp):
AGTCAAATTCGCAACGCGATC
Found at i:1806216 original size:19 final size:19
Alignment explanation
Indices: 1806187--1806235 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
1806177 TAGATTTTTG
1806187 AATTT-GCAACACGAATTT
1 AATTTCGCAACACGAATTT
**
1806205 AATTTCGCAACA-GGTTTT
1 AATTTCGCAACACGAATTT
*
1806223 AGTTTCGCAACAC
1 AATTTCGCAACAC
1806236 AAATGTTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 20 0.77
19 6 0.23
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.33
Consensus pattern (19 bp):
AATTTCGCAACACGAATTT
Found at i:1807392 original size:12 final size:12
Alignment explanation
Indices: 1807375--1807399 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1807365 ATATAACCCT
1807375 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1807387 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1807399 G
1 G
1807400 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:1809472 original size:6 final size:6
Alignment explanation
Indices: 1809461--1809501 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
1809451 AAGCAAAAGG
* *
1809461 AAATCA AAATCA AAATCG CAATCA AAATCA AAATCA AAATC
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATC
1809502 CCAATCACAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.61, C:0.20, G:0.02, T:0.17
Consensus pattern (6 bp):
AAATCA
Found at i:1809483 original size:12 final size:12
Alignment explanation
Indices: 1809461--1809508 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
1809451 AAGCAAAAGG
*
1809461 AAATCAAAATCA
1 AAATCACAATCA
*
1809473 AAATCGCAATCA
1 AAATCACAATCA
*
1809485 AAATCAAAATCA
1 AAATCACAATCA
*
1809497 AAATCCCAATCA
1 AAATCACAATCA
1809509 CAACCGGCTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.58, C:0.23, G:0.02, T:0.17
Consensus pattern (12 bp):
AAATCACAATCA
Found at i:1809488 original size:24 final size:24
Alignment explanation
Indices: 1809461--1809508 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
1809451 AAGCAAAAGG
*
1809461 AAATCAAAATCAAAATCGCAATCA
1 AAATCAAAATCAAAATCCCAATCA
1809485 AAATCAAAATCAAAATCCCAATCA
1 AAATCAAAATCAAAATCCCAATCA
1809509 CAACCGGCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.58, C:0.23, G:0.02, T:0.17
Consensus pattern (24 bp):
AAATCAAAATCAAAATCCCAATCA
Found at i:1810077 original size:28 final size:28
Alignment explanation
Indices: 1810045--1810098 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
1810035 ATAATTCTTA
*
1810045 TTTACACATCAAATTAAACAAATCAACT
1 TTTACAAATCAAATTAAACAAATCAACT
* **
1810073 TTTACAAATCAACTTTTACAAATCAA
1 TTTACAAATCAAATTAAACAAATCAA
1810099 TTAAACAAGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.31
Consensus pattern (28 bp):
TTTACAAATCAAATTAAACAAATCAACT
Found at i:1810079 original size:14 final size:14
Alignment explanation
Indices: 1810062--1810098 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
1810052 ATCAAATTAA
1810062 ACAAATCAACTTTT
1 ACAAATCAACTTTT
1810076 ACAAATCAACTTTT
1 ACAAATCAACTTTT
1810090 ACAAATCAA
1 ACAAATCAA
1810099 TTAAACAAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:1812420 original size:961 final size:961
Alignment explanation
Indices: 1810559--1813449 Score: 5674
Period size: 961 Copynumber: 3.0 Consensus size: 961
1810549 AAGCACATGC
1810559 ATACAAGAGGACCACAATCCCCTCTGGCTCCCTCCGTTTGTTGTGGCGCGGTATCGTCTCTGATC
1 ATACAAGAGGACCACAATCCCCTCTGGCTCCCTCCGTTTGTTGTGGCGCGGTATCGTCTCTGATC
*
1810624 ATTGTAACTTTGAACTTTTTTAGCTTCTTGTTTCTAGAATTAGTCCAATAATCAATCACGTCCAA
66 ATTGTAACTTTGAACTTTTTTAGCTTCTTGTTTCTAGAATTAGTCCAATAATCAATCGCGTCCAA
1810689 GTATTTCGCCAAATGAGCGCTCCATCCCTTACAAATAATATCTCTCAAATCAGCCATGGCCCAAA
131 GTATTTCGCCAAATGAGCGCTCCATCCCTTACAAATAATATCTCTCAAATCAGCCATGGCCCAAA
1810754 GCAAGTATCCTCAAACAATTTTCTTTGTAGAGGTGTAAGCCTCGATGCAATTTTAGTGGCTAGGC
196 GCAAGTATCCTCAAACAATTTTCTTTGTAGAGGTGTAAGCCTCGATGCAATTTTAGTGGCTAGGC
*
1810819 TTAATTTATTCCTTAAGGTCAATGCAGCCGAATTTTTTTTCTACAAAAACAATAAACATACCAAG
261 TTAATTTATTCCTTAAGGTCAATGCAGCCGAAATTTTTTTCTACAAAAACAATAAACATACCAAG
1810884 TTAGATATACCAAAAACTACAAATTATACACTATAAACATACATGATATTAAACAGTGAAAACAA
326 TTAGATATACCAAAAACTACAAATTATACACTATAAACATACATGATATTAAACAGTGAAAACAA
1810949 AGCCAAATATGTTTCAAACTAGCACGATATTCACATGCTGTCATTATTCCATCATAGTTCACAAA
391 AGCCAAATATGTTTCAAACTAGCACGATATTCACATGCTGTCATTATTCCATCATAGTTCACAAA
*
1811014 ATGCATCAAATAACATTCCAGAAGTAAGAACTTATATAAACATTTAAAAGGACAACATATAGGTT
456 ATGCATCAAATAACATTCCAGAAGTAAGCACTTATATAAACATTTAAAAGGACAACATATAGGTT
1811079 TAGTGCAGGTTCAAGGACAACATAAAGAGTAGTAGTTTATTCTTGAAACTTAAATTAGCAACACT
521 TAGTGCAGGTTCAAGGACAACATAAAGAGTAGTAGTTTATTCTTGAAACTTAAATTAGCAACACT
1811144 GTGAAGTTAGTATTTTTCTTTGTTTTGTCTTTTTGTTGAAGTAATGCAATTCATTCAAGTTTCAA
586 GTGAAGTTAGTATTTTTCTTTGTTTTGTCTTTTTGTTGAAGTAATGCAATTCATTCAAGTTTCAA
1811209 TTTGCAGAATAAGAGTAGTTTCTGCAACTTAAATTCGCAACGCGAAAATAAAAACCGTAACGCGA
651 TTTGCAGAATAAGAGTAGTTTCTGCAACTTAAATTCGCAACGCGAAAATAAAAACCGTAACGCGA
1811274 AACTAAAATCGCGTTGCGATTTTGGTGTTGCGAATTTAAGTTTCAAAAACTATTCTTCTGCAAAT
716 AACTAAAATCGCGTTGCGATTTTGGTGTTGCGAATTTAAGTTTCAAAAACTATTCTTCTGCAAAT
1811339 TGAAACTTGATTGAATTGCATTTATTCAACAAAAAGACAAAACAAAGACAAATACTAACTTCACA
781 TGAAACTTGATTGAATTGCATTTATTCAACAAAAAGACAAAACAAAGACAAATACTAACTTCACA
1811404 AGGTTAAAGACTAAACAGTTTAGCAGCATTGGCAGCAACCGAATGAATTTACTAAGCAATCTCAG
846 AGGTTAAAGACTAAACAGTTTAGCAGCATTGGCAGCAACCGAATGAATTTACTAAGCAATCTCAG
1811469 TGAAATGGTTAATCTTTATATATATTGAAATTACCAGTAAATTTATCATCA
911 TGAAATGGTTAATCTTTATATATATTGAAATTACCAGTAAATTTATCATCA
1811520 ATACAAGAGGACCACAATCCCCTCTGGCTCCCTCCGTTTGTTGTGGCGCGGTATCGTCTCTGATC
1 ATACAAGAGGACCACAATCCCCTCTGGCTCCCTCCGTTTGTTGTGGCGCGGTATCGTCTCTGATC
1811585 ATTGTAACTTTGAACTTTTTTAGCTTCTTGTTTCTAGAATTAGTCCAATAATCAATCGCGTCCAA
66 ATTGTAACTTTGAACTTTTTTAGCTTCTTGTTTCTAGAATTAGTCCAATAATCAATCGCGTCCAA
1811650 GTATTTCGCCAAATGAGCGCTCCATCCCTTACAAATAATATCTCTCAAATCAGCCATGGCCCAAA
131 GTATTTCGCCAAATGAGCGCTCCATCCCTTACAAATAATATCTCTCAAATCAGCCATGGCCCAAA
1811715 GCAAGTATCCTCAAACAATTTTCTTTGTAGAGGTGTAAGCCTCGATGCAATTTTAGTGGCTAGGC
196 GCAAGTATCCTCAAACAATTTTCTTTGTAGAGGTGTAAGCCTCGATGCAATTTTAGTGGCTAGGC
1811780 TTAATTTATTCCTTAAGGTCAATGCAGCCGAAATTTTTTTCTACAAAAACAATAAACATACCAAG
261 TTAATTTATTCCTTAAGGTCAATGCAGCCGAAATTTTTTTCTACAAAAACAATAAACATACCAAG
1811845 TTAGATATACCAAAAACTACAAATTATACACTATAAACATACATGATATTAAACAGTGAAAACAA
326 TTAGATATACCAAAAACTACAAATTATACACTATAAACATACATGATATTAAACAGTGAAAACAA
*
1811910 AGCCAAATATGTTTCAAACTAGCACGATATTCACATGCTGTCATTATTCCATCATAATTCACAAA
391 AGCCAAATATGTTTCAAACTAGCACGATATTCACATGCTGTCATTATTCCATCATAGTTCACAAA
1811975 ATGCATCAAATAACATTCCAGAAGTAAGCACTTATATAAACATTTAAAAGGACAACATATAGGTT
456 ATGCATCAAATAACATTCCAGAAGTAAGCACTTATATAAACATTTAAAAGGACAACATATAGGTT
*
1812040 TAGTACAGGTTCAAGGACAACATAAAGAGTAGTAGTTTATTCTTGAAACTTAAATTAGCAACACT
521 TAGTGCAGGTTCAAGGACAACATAAAGAGTAGTAGTTTATTCTTGAAACTTAAATTAGCAACACT
*
1812105 GTGAAGTTAGTATTTTTCTTTGTTTTGTCTTTTTGTTGAAGTAATACAATTCATTCAAGTTTCAA
586 GTGAAGTTAGTATTTTTCTTTGTTTTGTCTTTTTGTTGAAGTAATGCAATTCATTCAAGTTTCAA
1812170 TTTGCAGAATAAGAGTAGTTTCTGCAACTTAAATTCGCAACGCGAAAATAAAAACCGTAACGCGA
651 TTTGCAGAATAAGAGTAGTTTCTGCAACTTAAATTCGCAACGCGAAAATAAAAACCGTAACGCGA
1812235 AACTAAAATCGCGTTGCGATTTTGGTGTTGCGAATTTAAGTTTCAAAAACTATTCTTCTGCAAAT
716 AACTAAAATCGCGTTGCGATTTTGGTGTTGCGAATTTAAGTTTCAAAAACTATTCTTCTGCAAAT
1812300 TGAAACTTGATTGAATTGCATTTATTCAACAAAAAGACAAAACAAAGACAAATACTAACTTCACA
781 TGAAACTTGATTGAATTGCATTTATTCAACAAAAAGACAAAACAAAGACAAATACTAACTTCACA
1812365 AGGTTAAAGACTAAACAGTTTAGCAGCATTGGCAGCAACCGAATGAATTTACTAAGCAATCTCAG
846 AGGTTAAAGACTAAACAGTTTAGCAGCATTGGCAGCAACCGAATGAATTTACTAAGCAATCTCAG
*
1812430 TGAAATTGTTAATCTTTATATATATTGAAATTACCAGTAAATTTATCATCA
911 TGAAATGGTTAATCTTTATATATATTGAAATTACCAGTAAATTTATCATCA
*
1812481 ATACAAGAGGACCACAATCCCCTCTGGCTCCCTCAGTTTGTTGTGGCGCGGTATCGTCTCTGATC
1 ATACAAGAGGACCACAATCCCCTCTGGCTCCCTCCGTTTGTTGTGGCGCGGTATCGTCTCTGATC
1812546 ATTGTAACTTTGAACTTTTTTAGCTTCTTGTTTCTAGAATTAGTCCAATAATCAATCGCGTCCAA
66 ATTGTAACTTTGAACTTTTTTAGCTTCTTGTTTCTAGAATTAGTCCAATAATCAATCGCGTCCAA
1812611 GTATTTCGCCAAATGAGCGCTCCATCCCTTACAAATAATATCTCTCAAATCAGCCATGGCCCAAA
131 GTATTTCGCCAAATGAGCGCTCCATCCCTTACAAATAATATCTCTCAAATCAGCCATGGCCCAAA
1812676 GCAAGTATCCTCAAACAATTTTCTTTGTAGAGGTGTAAGCCTCGATGCAATTTTAGTGGCTAGGC
196 GCAAGTATCCTCAAACAATTTTCTTTGTAGAGGTGTAAGCCTCGATGCAATTTTAGTGGCTAGGC
1812741 TTAATTTATTCCTTAAGGTCAATGCAGCCGAAATTTTTTTCTACAAAAACAATAAACATACCAAG
261 TTAATTTATTCCTTAAGGTCAATGCAGCCGAAATTTTTTTCTACAAAAACAATAAACATACCAAG
1812806 TTAGATATACCAAAAACTACAAATTATACACTATAAACATACATGATATTAAACAGTGAAAACAA
326 TTAGATATACCAAAAACTACAAATTATACACTATAAACATACATGATATTAAACAGTGAAAACAA
1812871 AGCCAAATATGTTTCAAACTAGCACGATATTCACATGCTGTCATTATTCCATCATAGTTCACAAA
391 AGCCAAATATGTTTCAAACTAGCACGATATTCACATGCTGTCATTATTCCATCATAGTTCACAAA
*
1812936 ATGTATCAAATAACATTCCAGAAGTAAGCACTTATATAAACATTTAAAAGGACAACATATAGGTT
456 ATGCATCAAATAACATTCCAGAAGTAAGCACTTATATAAACATTTAAAAGGACAACATATAGGTT
1813001 TAGTGCAGGTTCAAGGACAACATAAAGAGTAGTAGTTTATTCTTGAAACTTAAATTAGCAACACT
521 TAGTGCAGGTTCAAGGACAACATAAAGAGTAGTAGTTTATTCTTGAAACTTAAATTAGCAACACT
1813066 GTGAAGTTAGTATTTTTCTTTGTTTTGTCTTTTTGTTGAAGTAATGCAATTCATTCAAGTTTCAA
586 GTGAAGTTAGTATTTTTCTTTGTTTTGTCTTTTTGTTGAAGTAATGCAATTCATTCAAGTTTCAA
*
1813131 TTTGCAGAATAAGAGTAGTTTCTGCAACTTAAATTCGCAACGCGAAAATAAAAACCGCAACGCGA
651 TTTGCAGAATAAGAGTAGTTTCTGCAACTTAAATTCGCAACGCGAAAATAAAAACCGTAACGCGA
1813196 AACTAAAATCGCGTTGCGATTTTGGTGTTGCGAATTTAAGTTTCAAAAACTATTCTTCTGCAAAT
716 AACTAAAATCGCGTTGCGATTTTGGTGTTGCGAATTTAAGTTTCAAAAACTATTCTTCTGCAAAT
1813261 TGAAACTTGATTGAATTGCATTTATTCAACAAAAAGACAAAACAAAGACAAATACTAACTTCACA
781 TGAAACTTGATTGAATTGCATTTATTCAACAAAAAGACAAAACAAAGACAAATACTAACTTCACA
*
1813326 AGGTTAAAGACTAAACAATTTAGCAGCATTGGCAGCAACCGAATGAATTTACTAAGCAATCTCAG
846 AGGTTAAAGACTAAACAGTTTAGCAGCATTGGCAGCAACCGAATGAATTTACTAAGCAATCTCAG
1813391 TGAAATGGTTAATCTTTATATATATTGAAATTACCAGTAAATTTATCATCA
911 TGAAATGGTTAATCTTTATATATATTGAAATTACCAGTAAATTTATCATCA
*
1813442 ATATAAGA
1 ATACAAGA
1813450 AAAATCTAAT
Statistics
Matches: 1914, Mismatches: 16, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
961 1914 1.00
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.31
Consensus pattern (961 bp):
ATACAAGAGGACCACAATCCCCTCTGGCTCCCTCCGTTTGTTGTGGCGCGGTATCGTCTCTGATC
ATTGTAACTTTGAACTTTTTTAGCTTCTTGTTTCTAGAATTAGTCCAATAATCAATCGCGTCCAA
GTATTTCGCCAAATGAGCGCTCCATCCCTTACAAATAATATCTCTCAAATCAGCCATGGCCCAAA
GCAAGTATCCTCAAACAATTTTCTTTGTAGAGGTGTAAGCCTCGATGCAATTTTAGTGGCTAGGC
TTAATTTATTCCTTAAGGTCAATGCAGCCGAAATTTTTTTCTACAAAAACAATAAACATACCAAG
TTAGATATACCAAAAACTACAAATTATACACTATAAACATACATGATATTAAACAGTGAAAACAA
AGCCAAATATGTTTCAAACTAGCACGATATTCACATGCTGTCATTATTCCATCATAGTTCACAAA
ATGCATCAAATAACATTCCAGAAGTAAGCACTTATATAAACATTTAAAAGGACAACATATAGGTT
TAGTGCAGGTTCAAGGACAACATAAAGAGTAGTAGTTTATTCTTGAAACTTAAATTAGCAACACT
GTGAAGTTAGTATTTTTCTTTGTTTTGTCTTTTTGTTGAAGTAATGCAATTCATTCAAGTTTCAA
TTTGCAGAATAAGAGTAGTTTCTGCAACTTAAATTCGCAACGCGAAAATAAAAACCGTAACGCGA
AACTAAAATCGCGTTGCGATTTTGGTGTTGCGAATTTAAGTTTCAAAAACTATTCTTCTGCAAAT
TGAAACTTGATTGAATTGCATTTATTCAACAAAAAGACAAAACAAAGACAAATACTAACTTCACA
AGGTTAAAGACTAAACAGTTTAGCAGCATTGGCAGCAACCGAATGAATTTACTAAGCAATCTCAG
TGAAATGGTTAATCTTTATATATATTGAAATTACCAGTAAATTTATCATCA
Found at i:1813191 original size:20 final size:20
Alignment explanation
Indices: 1813166--1813203 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1813156 AACTTAAATT
1813166 CGCAACGCGAAAATAAAAAC
1 CGCAACGCGAAAATAAAAAC
*
1813186 CGCAACGCGAAACTAAAA
1 CGCAACGCGAAAATAAAA
1813204 TCGCGTTGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.26, G:0.16, T:0.05
Consensus pattern (20 bp):
CGCAACGCGAAAATAAAAAC
Found at i:1813601 original size:22 final size:22
Alignment explanation
Indices: 1813567--1813624 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
1813557 TCTGAGAGAT
*
1813567 GGAGAT-A-GACGGATTTCACC
1 GGAGATGAGGACGGATTTAACC
* *
1813587 GGAGATGTGGACGGATTTAATC
1 GGAGATGAGGACGGATTTAACC
1813609 GGAGATGAGGACGGAT
1 GGAGATGAGGACGGAT
1813625 GTCGCTGTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.19
22 26 0.81
ACGTcount: A:0.29, C:0.12, G:0.38, T:0.21
Consensus pattern (22 bp):
GGAGATGAGGACGGATTTAACC
Found at i:1813759 original size:20 final size:20
Alignment explanation
Indices: 1813731--1813913 Score: 195
Period size: 20 Copynumber: 9.1 Consensus size: 20
1813721 TTAAATTGTG
1813731 TTTCGCGTTGCGAATTTGAC
1 TTTCGCGTTGCGAATTTGAC
* **
1813751 TTTCACGTTGTAAATTTGAC
1 TTTCGCGTTGCGAATTTGAC
* *
1813771 TATCGCGTTACGAATTTGAC
1 TTTCGCGTTGCGAATTTGAC
* * *
1813791 TTTTGTGTTGCGAATTTGAA
1 TTTCGCGTTGCGAATTTGAC
* *
1813811 ATTCAGTGTTGCGAATTTGAC
1 TTTC-GCGTTGCGAATTTGAC
*
1813832 TATCGCGTTGCGAATTTGAC
1 TTTCGCGTTGCGAATTTGAC
* * *
1813852 TTTTGTGTTACGAATTTGAC
1 TTTCGCGTTGCGAATTTGAC
* * *
1813872 TTTTGTGTTGCGGATTTGAC
1 TTTCGCGTTGCGAATTTGAC
*
1813892 TATCGCGTTGCGAATTTGAC
1 TTTCGCGTTGCGAATTTGAC
1813912 TT
1 TT
1813914 ATGTGTTGCG
Statistics
Matches: 132, Mismatches: 30, Indels: 2
0.80 0.18 0.01
Matches are distributed among these distances:
20 115 0.87
21 17 0.13
ACGTcount: A:0.20, C:0.15, G:0.23, T:0.43
Consensus pattern (20 bp):
TTTCGCGTTGCGAATTTGAC
Found at i:1813848 original size:81 final size:80
Alignment explanation
Indices: 1813733--1813912 Score: 245
Period size: 81 Copynumber: 2.2 Consensus size: 80
1813723 AAATTGTGTT
* *
1813733 TCGCGTTGCGAATTTGACTTTCACGTTGTAAATTTGACTATCGCGTTACGAATTTGACTTTTGTG
1 TCGCGTTGCGAATTTGACTATCACGTTGCAAATTTGACTATCGCGTTACGAATTTGACTTTTGTG
1813798 TTGCGAATTTGAA-A
66 TTGCGAATTTGAATA
* * * * * *
1813812 TTCAGTGTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTTTGTGTTACGAATTTGACTTTTG
1 -TC-GCGTTGCGAATTTGACTATCACGTTGCAAATTTGACTATCGCGTTACGAATTTGACTTTTG
* *
1813877 TGTTGCGGATTTGACTA
64 TGTTGCGAATTTGAATA
1813894 TCGCGTTGCGAATTTGACT
1 TCGCGTTGCGAATTTGACT
1813913 TATGTGTTGC
Statistics
Matches: 87, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
80 18 0.21
81 68 0.78
82 1 0.01
ACGTcount: A:0.20, C:0.15, G:0.23, T:0.42
Consensus pattern (80 bp):
TCGCGTTGCGAATTTGACTATCACGTTGCAAATTTGACTATCGCGTTACGAATTTGACTTTTGTG
TTGCGAATTTGAATA
Found at i:1813904 original size:60 final size:61
Alignment explanation
Indices: 1813763--1813920 Score: 246
Period size: 60 Copynumber: 2.6 Consensus size: 61
1813753 TCACGTTGTA
* *
1813763 AATTTGACTATCGCGTTACGAATTTGACTTTTGTGTTGCGAATTTGAAATTCAGTGTTGCG
1 AATTTGACTATCGCGTTGCGAATTTGACTTTTGTGTTACGAATTTGAAATTCAGTGTTGCG
* **
1813824 AATTTGACTATCGCGTTGCGAATTTGACTTTTGTGTTACGAATTTG-ACTTTTGTGTTGCG
1 AATTTGACTATCGCGTTGCGAATTTGACTTTTGTGTTACGAATTTGAAATTCAGTGTTGCG
* *
1813884 GATTTGACTATCGCGTTGCGAATTTGACTTATGTGTT
1 AATTTGACTATCGCGTTGCGAATTTGACTTTTGTGTT
1813921 GCGATTTATA
Statistics
Matches: 90, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
60 46 0.51
61 44 0.49
ACGTcount: A:0.20, C:0.13, G:0.23, T:0.43
Consensus pattern (61 bp):
AATTTGACTATCGCGTTGCGAATTTGACTTTTGTGTTACGAATTTGAAATTCAGTGTTGCG
Found at i:1813948 original size:20 final size:20
Alignment explanation
Indices: 1813920--1813977 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
1813910 ACTTATGTGT
* *
1813920 TGCGATTTATAAATTCGCAT
1 TGCGATTTACAAATTCGCAA
* *
1813940 TGTGATTTACAGATTCGCAA
1 TGCGATTTACAAATTCGCAA
*
1813960 TGCGATTTACATATTCGC
1 TGCGATTTACAAATTCGC
1813978 GTTGCAAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (20 bp):
TGCGATTTACAAATTCGCAA
Found at i:1814021 original size:20 final size:21
Alignment explanation
Indices: 1813972--1814025 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
1813962 CGATTTACAT
*
1813972 ATTCGCGTTGCAAAATTGGAA
1 ATTCGCGTTGCGAAATTGGAA
*
1813993 ACTCG-GTTGCGAAATTGG-A
1 ATTCGCGTTGCGAAATTGGAA
*
1814012 GTTCGCGTTGCGAA
1 ATTCGCGTTGCGAA
1814026 TTTGTTGGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 4 0.14
20 20 0.71
21 4 0.14
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.28
Consensus pattern (21 bp):
ATTCGCGTTGCGAAATTGGAA
Found at i:1819739 original size:54 final size:54
Alignment explanation
Indices: 1819401--1819718 Score: 510
Period size: 54 Copynumber: 5.9 Consensus size: 54
1819391 TTACCAATTA
* *
1819401 GGCAATAAGTGTGCATTTCACGGAATTCATCCTATGTGAATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* *
1819455 GGCATTAAGTGTACATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* *
1819509 GTCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACTGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* * *
1819563 GGCACCAAGTGTGAATTTCACGGAATTCATCCTATGTGGATGAATAACCATTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
*
1819617 GGCACTAAGTGTGTATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* * * *
1819671 GACACTAAGTGTGCATTTAACGAAATTCATCCTTTGTGGATGAATAAC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAAC
1819719 TATTTCGACA
Statistics
Matches: 244, Mismatches: 20, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 244 1.00
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (54 bp):
GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
Found at i:1819785 original size:162 final size:162
Alignment explanation
Indices: 1819419--1819785 Score: 434
Period size: 162 Copynumber: 2.3 Consensus size: 162
1819409 GTGTGCATTT
** * * * * *
1819419 CACGGAATTCATCCTATGTGAATGAATAACCGTTTCGGCATTAAGTGTACATTTCACGGAATTCA
1 CACGGAATTCATAATATGTGGATGAATAACCATATAGGCACTAAGTGTACATTTCACGGAATTCA
* * *
1819484 TCCTATGTGGATGAATAACCGTTTCGTCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGA
66 TCCTATGTGGATGAATAACCGTTTCGACACTAAGTGTGCATTTAACGAAATTCATCCTATGTGGA
* * **
1819549 TGAATAACTGTTTCGGCACCAAGTGTGAATTT
131 TGAATAACTATTTCGACACCAAGTGTGAATAC
** * * **
1819581 CACGGAATTCATCCTATGTGGATGAATAACCATTTCGGCACTAAGTGTGTATTTCACGGAATTCA
1 CACGGAATTCATAATATGTGGATGAATAACCATATAGGCACTAAGTGTACATTTCACGGAATTCA
*
1819646 TCCTATGTGGATGAATAACCGTTTCGACACTAAGTGTGCATTTAACGAAATTCATCCTTTGTGGA
66 TCCTATGTGGATGAATAACCGTTTCGACACTAAGTGTGCATTTAACGAAATTCATCCTATGTGGA
*
1819711 TGAATAACTATTTCGACACTC-TGTGTGCAA-AC
131 TGAATAACTATTTCGACAC-CAAGTGTG-AATAC
* * * ** *
1819743 CATGGGATTCATAATTTGTTTATGAATAATCGA-ATAGGCACTA
1 CACGGAATTCATAATATGTGGATGAATAA-CCATATAGGCACTA
1819786 CAAGTGCATT
Statistics
Matches: 178, Mismatches: 24, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
162 173 0.97
163 5 0.03
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.33
Consensus pattern (162 bp):
CACGGAATTCATAATATGTGGATGAATAACCATATAGGCACTAAGTGTACATTTCACGGAATTCA
TCCTATGTGGATGAATAACCGTTTCGACACTAAGTGTGCATTTAACGAAATTCATCCTATGTGGA
TGAATAACTATTTCGACACCAAGTGTGAATAC
Found at i:1820154 original size:22 final size:22
Alignment explanation
Indices: 1820125--1820171 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
1820115 TTTGTTCGTA
**
1820125 TATTTAAGTT-ATTGTATGTTT
1 TATTTAAGTTAATTAAATGTTT
1820146 TATTATAAGTTAATTAAATGTTT
1 TATT-TAAGTTAATTAAATGTTT
1820169 TAT
1 TAT
1820172 AAAATGAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 4 0.18
22 6 0.27
23 12 0.55
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (22 bp):
TATTTAAGTTAATTAAATGTTT
Found at i:1826703 original size:17 final size:17
Alignment explanation
Indices: 1826681--1826714 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1826671 ATGTGAACAT
1826681 ATAAGACCTTAATTGAG
1 ATAAGACCTTAATTGAG
1826698 ATAAGACCTTAATTGAG
1 ATAAGACCTTAATTGAG
1826715 TGCATGTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (17 bp):
ATAAGACCTTAATTGAG
Found at i:1829755 original size:25 final size:25
Alignment explanation
Indices: 1829727--1829774 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
1829717 GGTTTAACAC
1829727 TTCTTTGCACTTTGCTTT-CTTTGTT
1 TTCTTT-CACTTTGCTTTACTTTGTT
* *
1829752 TTCTTTCATTTTTCTTTACTTTG
1 TTCTTTCACTTTGCTTTACTTTG
1829775 AATCTTTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.06, C:0.19, G:0.08, T:0.67
Consensus pattern (25 bp):
TTCTTTCACTTTGCTTTACTTTGTT
Found at i:1831268 original size:2 final size:2
Alignment explanation
Indices: 1831261--1831321 Score: 115
Period size: 2 Copynumber: 31.0 Consensus size: 2
1831251 CCTTGAAAGA
1831261 AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1831302 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
1831322 GTGAGTGGCT
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 57 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:1835297 original size:22 final size:22
Alignment explanation
Indices: 1835272--1835313 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
1835262 ATATGAAATT
1835272 TGTCCCGAAGGACCTATGTATA
1 TGTCCCGAAGGACCTATGTATA
1835294 TGTCCCGAAGGACCTATGTA
1 TGTCCCGAAGGACCTATGTA
1835314 ACCCTCGACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (22 bp):
TGTCCCGAAGGACCTATGTATA
Found at i:1835537 original size:19 final size:19
Alignment explanation
Indices: 1835513--1835561 Score: 98
Period size: 19 Copynumber: 2.6 Consensus size: 19
1835503 TATGTTCACA
1835513 TAAATCATATATCATGTAT
1 TAAATCATATATCATGTAT
1835532 TAAATCATATATCATGTAT
1 TAAATCATATATCATGTAT
1835551 TAAATCATATA
1 TAAATCATATA
1835562 AACATATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.45, C:0.10, G:0.04, T:0.41
Consensus pattern (19 bp):
TAAATCATATATCATGTAT
Found at i:1844595 original size:22 final size:22
Alignment explanation
Indices: 1844559--1844600 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
1844549 TGACAAACAT
*
1844559 TAAAGAATTCAATGGTAAAAAG
1 TAAAGAATTCAATGGCAAAAAG
**
1844581 TAAAGAATTTTATGGCAAAA
1 TAAAGAATTCAATGGCAAAA
1844601 CTAAAATGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.52, C:0.05, G:0.17, T:0.26
Consensus pattern (22 bp):
TAAAGAATTCAATGGCAAAAAG
Found at i:1848000 original size:228 final size:227
Alignment explanation
Indices: 1847616--1848042 Score: 656
Period size: 228 Copynumber: 1.9 Consensus size: 227
1847606 ATTAGATTAT
** * *
1847616 AGGAGAACATATCTGAAGCCATTATCCCATGCAAGTCTCATACCAAGAAGCATACCCCAAATATC
1 AGGAGAACATATCTGAAGCCATTATCCCAAACAAGTCTCACACCAAGAAGCATACCCCAAAGATC
* * *
1847681 AACTTGGAGGGTGGAACAATAACCAGTCGTACGGTTGTAGCCAAGGATTCATGTCCCATCTCAAT
66 AACTTGGAAGGTGGAACAATAACCAGTCGTACGGATGTAGCCAAGGATCCATGTCCCATCTCAAT
** * *
1847746 CTCTTATAATTCCTCATGCAGAGCTCCCACTTTGGTTAGCAGAGATGGCTCCATTTGAGTTTAAA
131 CTCTTATAATTCCTCATGCAGAGCTCCCACTTTGAATAACAGAGAT-GCTCCATCTGAGTTTAAA
1847811 CAAACTCAAATCGCTTTGAGATAATCAAATAAG
195 CAAACTCAAATCGCTTTGAGATAATCAAATAAG
* *
1847844 AGGAGAACATATCTGAAGCCATTATCCCAAACAAGTCTCACCCCGAGAAGCATACCCCAAAGATC
1 AGGAGAACATATCTGAAGCCATTATCCCAAACAAGTCTCACACCAAGAAGCATACCCCAAAGATC
* * * * *
1847909 TATTTGGAAGGTGGAACAATAACCAGTCGTACTGATGTAGCCAATGATCCATGTCCCATTTCAAT
66 AACTTGGAAGGTGGAACAATAACCAGTCGTACGGATGTAGCCAAGGATCCATGTCCCATCTCAAT
* * *
1847974 CTCTTATAATTCCTCTTGCTGAGCTCCCACTTTGAATAACAGAGATGCTCCATCTGAGTTTAAAT
131 CTCTTATAATTCCTCATGCAGAGCTCCCACTTTGAATAACAGAGATGCTCCATCTGAGTTTAAAC
1848039 AAAC
196 AAAC
1848043 CCAACCGAAC
Statistics
Matches: 178, Mismatches: 21, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
227 21 0.12
228 157 0.88
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (227 bp):
AGGAGAACATATCTGAAGCCATTATCCCAAACAAGTCTCACACCAAGAAGCATACCCCAAAGATC
AACTTGGAAGGTGGAACAATAACCAGTCGTACGGATGTAGCCAAGGATCCATGTCCCATCTCAAT
CTCTTATAATTCCTCATGCAGAGCTCCCACTTTGAATAACAGAGATGCTCCATCTGAGTTTAAAC
AAACTCAAATCGCTTTGAGATAATCAAATAAG
Found at i:1853008 original size:8 final size:8
Alignment explanation
Indices: 1852995--1853395 Score: 449
Period size: 8 Copynumber: 49.8 Consensus size: 8
1852985 CAATCAGTAT
*
1852995 ATACATAC
1 ATACATGC
*
1853003 ATACATAC
1 ATACATGC
*
1853011 ATACATAC
1 ATACATGC
*
1853019 ATACATAC
1 ATACATGC
*
1853027 ATACATAC
1 ATACATGC
*
1853035 ATACATAC
1 ATACATGC
*
1853043 ATACATAC
1 ATACATGC
*
1853051 ATACATAC
1 ATACATGC
1853059 ATACATTGC
1 ATACA-TGC
1853068 ATACATTGC
1 ATACA-TGC
1853077 ATACATTGC
1 ATACA-TGC
1853086 ATACATTGC
1 ATACA-TGC
1853095 ATACATTGC
1 ATACA-TGC
1853104 ATACATTGC
1 ATACA-TGC
1853113 ATACATTGC
1 ATACA-TGC
1853122 ATACATTGC
1 ATACA-TGC
1853131 ATACATTGC
1 ATACA-TGC
1853140 ATACATTGC
1 ATACA-TGC
1853149 ATACATTGC
1 ATACA-TGC
*
1853158 ATGCATGC
1 ATACATGC
*
1853166 ATACATTC
1 ATACATGC
*
1853174 ATGCATGC
1 ATACATGC
*
1853182 ATTCATGC
1 ATACATGC
1853190 ATACATGC
1 ATACATGC
1853198 ATACATGC
1 ATACATGC
1853206 ATACATG-
1 ATACATGC
1853213 ---CATGC
1 ATACATGC
1853218 ATACATGC
1 ATACATGC
1853226 ATACATGC
1 ATACATGC
1853234 ATACATGC
1 ATACATGC
1853242 ATACATGC
1 ATACATGC
1853250 ATACATGC
1 ATACATGC
1853258 ATACATG-
1 ATACATGC
1853265 ---CATGC
1 ATACATGC
1853270 ATACATGC
1 ATACATGC
1853278 ATACATGC
1 ATACATGC
1853286 ATACATGC
1 ATACATGC
1853294 ATACATGC
1 ATACATGC
1853302 ATACATGC
1 ATACATGC
1853310 ATACATGC
1 ATACATGC
**
1853318 ATGTATGC
1 ATACATGC
*
1853326 ATGCATGC
1 ATACATGC
1853334 ATACATGC
1 ATACATGC
**
1853342 ATGTATGC
1 ATACATGC
*
1853350 ATGCATGC
1 ATACATGC
1853358 ATACATGC
1 ATACATGC
*
1853366 ATACATAC
1 ATACATGC
**
1853374 ATACACAC
1 ATACATGC
*
1853382 ATACATAC
1 ATACATGC
1853390 ATACAT
1 ATACAT
1853396 TAATTTTTAA
Statistics
Matches: 365, Mismatches: 19, Indels: 18
0.91 0.05 0.04
Matches are distributed among these distances:
4 8 0.02
8 261 0.72
9 96 0.26
ACGTcount: A:0.37, C:0.24, G:0.11, T:0.28
Consensus pattern (8 bp):
ATACATGC
Found at i:1853042 original size:36 final size:36
Alignment explanation
Indices: 1852995--1853395 Score: 336
Period size: 36 Copynumber: 11.2 Consensus size: 36
1852985 CAATCAGTAT
* * *
1852995 ATACATACATACATACATACATACATACATACATAC
1 ATACATACATGCATACATACATACATGCATACATGC
* *
1853031 ATACATACATACATACATACATACATACATACATTGC
1 ATACATACATGCATACATACATACATGCATACA-TGC
*
1853068 ATACAT---TGCATACATTGCATACATTGCATACATTGC
1 ATACATACATGCATACA-TACATACA-TGCATACA-TGC
*
1853104 ATACAT---TGCATACATTGCATACATTGCATACATTGC
1 ATACATACATGCATACA-TACATACA-TGCATACA-TGC
* * * * * * *
1853140 ATACATTGCATACATTGCATGCATGCATACATTCATGC
1 ATACA-TACATGCA-TACATACATACATGCATACATGC
* * *
1853178 ATGCATTCATGCATACATGCATACATGCATACATGC
1 ATACATACATGCATACATACATACATGCATACATGC
* *
1853214 ATGCATACATGCATACATGCATACATGCATACATGC
1 ATACATACATGCATACATACATACATGCATACATGC
* * * *
1853250 ATACATGCATACATGCATGCATACATGCATACATG-
1 ATACATACATGCATACATACATACATGCATACATGC
*
1853285 ---CATACATGCATACATGCATACATGCATACATGC
1 ATACATACATGCATACATACATACATGCATACATGC
** * * * * *
1853318 ATGTATGCATGCATGCATACATGCATGTATGCATGC
1 ATACATACATGCATACATACATACATGCATACATGC
* ** *
1853354 ATGCATACATGCATACATACATACACACATACATAC
1 ATACATACATGCATACATACATACATGCATACATGC
1853390 ATACAT
1 ATACAT
1853396 TAATTTTTAA
Statistics
Matches: 312, Mismatches: 41, Indels: 24
0.83 0.11 0.06
Matches are distributed among these distances:
32 29 0.09
34 7 0.02
35 7 0.02
36 228 0.73
37 15 0.05
38 7 0.02
39 6 0.02
40 10 0.03
41 3 0.01
ACGTcount: A:0.37, C:0.24, G:0.11, T:0.28
Consensus pattern (36 bp):
ATACATACATGCATACATACATACATGCATACATGC
Found at i:1853424 original size:21 final size:21
Alignment explanation
Indices: 1853398--1853443 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
1853388 ACATACATTA
*
1853398 ATTTTTAATAATTTGATTTTT
1 ATTTTTAATAATTTGATATTT
* *
1853419 ATTTTTAGTATTTTGATATTT
1 ATTTTTAATAATTTGATATTT
1853440 ATTT
1 ATTT
1853444 ACTTTTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (21 bp):
ATTTTTAATAATTTGATATTT
Found at i:1853466 original size:17 final size:16
Alignment explanation
Indices: 1853418--1853466 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 16
1853408 ATTTGATTTT
1853418 TATTTTTAGTATTTTGA
1 TATTTTTA-TATTTTGA
1853435 TATTTATT-TACTTTTGTA
1 TATTT-TTATA-TTTTG-A
1853453 TATTTTTATATTTT
1 TATTTTTATATTTT
1853467 TAATTTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
16 2 0.07
17 16 0.57
18 10 0.36
ACGTcount: A:0.22, C:0.02, G:0.06, T:0.69
Consensus pattern (16 bp):
TATTTTTATATTTTGA
Found at i:1853467 original size:8 final size:8
Alignment explanation
Indices: 1853414--1853472 Score: 52
Period size: 8 Copynumber: 7.2 Consensus size: 8
1853404 AATAATTTGA
1853414 TTTT-TAT
1 TTTTATAT
1853421 TTTTAGTAT
1 TTTTA-TAT
*
1853430 TTTGATAT
1 TTTTATAT
1853438 TTATT-TACT
1 TT-TTATA-T
1853447 TTTGTATAT
1 TTT-TATAT
1853456 TTTTATAT
1 TTTTATAT
1853464 TTTTA-AT
1 TTTTATAT
1853471 TT
1 TT
1853473 AAATTTTAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
7 8 0.18
8 18 0.41
9 16 0.36
10 2 0.05
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (8 bp):
TTTTATAT
Found at i:1855677 original size:18 final size:18
Alignment explanation
Indices: 1855650--1855720 Score: 106
Period size: 18 Copynumber: 3.9 Consensus size: 18
1855640 ACTGAAAATT
1855650 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
1855668 TGTCCAGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
1855686 TGTCCCGAATGACCACTA
1 TGTCCCGAAGGACCACTA
* *
1855704 TGTCCCAAATGACCACT
1 TGTCCCGAAGGACCACT
1855721 TATAATCCCT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 49 1.00
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.20
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:1856314 original size:19 final size:22
Alignment explanation
Indices: 1856265--1856316 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 22
1856255 TACAAGCAAA
*
1856265 GTATCGATACCTCTATTCTAGG
1 GTATCGATACCTCTATCCTAGG
1856287 GTA-CTGATACC-CT-TCCTA-G
1 GTATC-GATACCTCTATCCTAGG
1856306 GTATCGATACC
1 GTATCGATACC
1856317 AAAATTAGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
19 10 0.37
20 5 0.19
21 3 0.11
22 9 0.33
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.33
Consensus pattern (22 bp):
GTATCGATACCTCTATCCTAGG
Found at i:1856948 original size:3 final size:3
Alignment explanation
Indices: 1856934--1856968 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
1856924 GCTCTCACGA
1856934 AAG AAGG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AA-G AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1856969 GAACTCTGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:1862344 original size:22 final size:22
Alignment explanation
Indices: 1862316--1862373 Score: 86
Period size: 19 Copynumber: 2.8 Consensus size: 22
1862306 GAAACCCCTT
1862316 TGAAAATACATGATTTTTTTAA
1 TGAAAATACATGATTTTTTTAA
1862338 TGAAAATACATGA---TTTTAA
1 TGAAAATACATGATTTTTTTAA
*
1862357 TGAAAATACATGCTTTT
1 TGAAAATACATGATTTT
1862374 GGCCGAATGG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 18 0.56
22 14 0.44
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.41
Consensus pattern (22 bp):
TGAAAATACATGATTTTTTTAA
Found at i:1869390 original size:32 final size:32
Alignment explanation
Indices: 1869354--1869443 Score: 135
Period size: 33 Copynumber: 2.8 Consensus size: 32
1869344 TGGAGGTTAA
1869354 CAAATGTAATTGTATGAAATGGAAAGTATTAC
1 CAAATGTAATTGTATGAAATGGAAAGTATTAC
* *
1869386 CAAATGTAATTGTACGAAATGGATAAGTATTAG
1 CAAATGTAATTGTATGAAATGGA-AAGTATTAC
* *
1869419 AAAATGTAATTGTATGAAATCGAAA
1 CAAATGTAATTGTATGAAATGGAAA
1869444 CCACGTGGGG
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
32 24 0.46
33 28 0.54
ACGTcount: A:0.46, C:0.06, G:0.19, T:0.30
Consensus pattern (32 bp):
CAAATGTAATTGTATGAAATGGAAAGTATTAC
Done.