Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 77 of 167
Found at i:24646887 original size:44 final size:44
Alignment explanation
Indices: 24646821--24646934 Score: 126
Period size: 44 Copynumber: 2.6 Consensus size: 44
24646811 TCCGATATGT
* * *
24646821 GATTTCGTGTAAGACCACGTCTGAGATATTGGCA-TCAATTTGA
1 GATTTCGTGTAAGACCATGTCTGAGACATCGGCATTCAATTTGA
* *
24646864 GATTTACGTGTAAGACCATGTCTGGGACATCGGCATTCTATTTGA
1 GATTT-CGTGTAAGACCATGTCTGAGACATCGGCATTCAATTTGA
* * *
24646909 G--TTCATGTAAGACCCTGTCTGGGACA
1 GATTTCGTGTAAGACCATGTCTGAGACA
24646935 GTGGCATCGA
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
42 21 0.34
43 7 0.11
44 25 0.40
45 9 0.15
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (44 bp):
GATTTCGTGTAAGACCATGTCTGAGACATCGGCATTCAATTTGA
Found at i:24646963 original size:43 final size:43
Alignment explanation
Indices: 24646828--24646966 Score: 135
Period size: 42 Copynumber: 3.2 Consensus size: 43
24646818 TGTGATTTCG
* * * * * *
24646828 TGTAAGACCACGTCTGAGATATTGGCA-TCAATTTGAGATTTACG
1 TGTAAGACCATGTCTGGGACATCGGCATTCTATTTGAG--TTACA
24646872 TGTAAGACCATGTCTGGGACATCGGCATTCTATTTGAGTT-CA
1 TGTAAGACCATGTCTGGGACATCGGCATTCTATTTGAGTTACA
*
24646914 TGTAAGACCCTGTCTGGGACAGT-GGCA-TCGATATTTGA-TTACA
1 TGTAAGACCATGTCTGGGACA-TCGGCATTC--TATTTGAGTTACA
24646957 TGTAAGACCA
1 TGTAAGACCA
24646967 CATCTAGGAC
Statistics
Matches: 82, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
41 2 0.02
42 27 0.33
43 21 0.26
44 23 0.28
45 9 0.11
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATCGGCATTCTATTTGAGTTACA
Found at i:24646983 original size:43 final size:43
Alignment explanation
Indices: 24646902--24646984 Score: 100
Period size: 43 Copynumber: 1.9 Consensus size: 43
24646892 ATCGGCATTC
* *
24646902 TATTTGAGTTCATGTAAGACCCTGTCTGGGACAGTGGCATCGA
1 TATTTGAGTTCATGTAAGACCCTATCTAGGACAGTGGCATCGA
24646945 TATTTGA-TTACATGTAAGACCAC-ATCTAGGAC-GTTGGCAT
1 TATTTGAGTT-CATGTAAGACC-CTATCTAGGACAG-TGGCAT
24646985 TGTACGAGCT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
42 3 0.09
43 31 0.89
44 1 0.03
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (43 bp):
TATTTGAGTTCATGTAAGACCCTATCTAGGACAGTGGCATCGA
Found at i:24672440 original size:31 final size:32
Alignment explanation
Indices: 24672400--24672466 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
24672390 CTTAATGCAA
*
24672400 CAAAAAAAATTTACTTAAACACCTAACCAATT
1 CAAAAAAATTTTACTTAAACACCTAACCAATT
24672432 CAAAAAAATTTTACTTAAACACCTAACCAATT
1 CAAAAAAATTTTACTTAAACACCTAACCAATT
24672464 CAA
1 CAA
24672467 TCCACAACAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.25
Consensus pattern (32 bp):
CAAAAAAATTTTACTTAAACACCTAACCAATT
Found at i:24683254 original size:16 final size:15
Alignment explanation
Indices: 24683227--24683260 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
24683217 ATAACTAGTA
*
24683227 TATAATTATATTTAT
1 TATAATTATATTAAT
24683242 TATAATATATATTAAT
1 TATAAT-TATATTAAT
24683258 TAT
1 TAT
24683261 TATCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:24698592 original size:41 final size:40
Alignment explanation
Indices: 24698524--24698603 Score: 108
Period size: 41 Copynumber: 1.9 Consensus size: 40
24698514 TACAGGCTTT
*
24698524 TCACACGGCCTGACACACGCCCATGTCCATGGCCCGTGTCCC
1 TCACACGGCCTGA-ACACGCCCATGTCC-TAGCCCGTGTCCC
*
24698566 TCACACGGCCATG-ACACGCCCGTGTCCTAGCCCGTGTC
1 TCACACGGCC-TGAACACGCCCATGTCCTAGCCCGTGTC
24698604 TAAAAATCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 10 0.29
41 13 0.37
42 10 0.29
43 2 0.06
ACGTcount: A:0.16, C:0.44, G:0.23, T:0.17
Consensus pattern (40 bp):
TCACACGGCCTGAACACGCCCATGTCCTAGCCCGTGTCCC
Found at i:24699653 original size:47 final size:48
Alignment explanation
Indices: 24699580--24699711 Score: 135
Period size: 47 Copynumber: 2.7 Consensus size: 48
24699570 AGATATAGTG
** ** *
24699580 CCGATGCCATGTATTAGACACAGTCTTACACTGGCTCATC-CAT-CAAGT
1 CCGATGCCATGTCCTAGACATGGTCTTACACTGACTC-TCACATAC-AGT
*
24699628 -CGATGCCATGTCCTAGACATGGTCTTACACTGACTCTCACATATCCGT
1 CCGATGCCATGTCCTAGACATGGTCTTACACTGACTCTCACATA-CAGT
* *
24699676 GCCGATGCCATGTCCGAGACATGGTCTTACATTGAC
1 -CCGATGCCATGTCCTAGACATGGTCTTACACTGAC
24699712 ACATTTTCTA
Statistics
Matches: 71, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
46 2 0.03
47 34 0.48
48 2 0.03
49 1 0.01
50 32 0.45
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (48 bp):
CCGATGCCATGTCCTAGACATGGTCTTACACTGACTCTCACATACAGT
Found at i:24702663 original size:18 final size:18
Alignment explanation
Indices: 24702640--24702674 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24702630 CACCGGGCGG
*
24702640 TAGTCTATTATTAACTCA
1 TAGTCTATTATCAACTCA
*
24702658 TAGTCTTTTATCAACTC
1 TAGTCTATTATCAACTC
24702675 CAACCATATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.20, G:0.06, T:0.46
Consensus pattern (18 bp):
TAGTCTATTATCAACTCA
Found at i:24722439 original size:3 final size:3
Alignment explanation
Indices: 24722431--24722469 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
24722421 TTTTTGGTTA
24722431 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
24722470 GAGAAAGAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:24724825 original size:18 final size:19
Alignment explanation
Indices: 24724802--24724849 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 19
24724792 AATTTTTGTG
*
24724802 AAAATAAAATTATCTT-TA
1 AAAATAAAACTATCTTATA
*
24724820 AAAATAATATACTATTTTATA
1 AAAATAA-A-ACTATCTTATA
24724841 AAAATAAAA
1 AAAATAAAA
24724850 AACTTTTATC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
18 7 0.28
19 2 0.08
20 7 0.28
21 9 0.36
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAATAAAACTATCTTATA
Found at i:24732793 original size:6 final size:6
Alignment explanation
Indices: 24732775--24732805 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
24732765 AAATGTGATT
24732775 CCAAGA CCAAAGA CCAAGA CCAAGA CCAAGA
1 CCAAGA CC-AAGA CCAAGA CCAAGA CCAAGA
24732806 ATCCAGGGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.52, C:0.32, G:0.16, T:0.00
Consensus pattern (6 bp):
CCAAGA
Found at i:24740999 original size:25 final size:24
Alignment explanation
Indices: 24740970--24741016 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
24740960 AAGTATAAAT
24740970 CAAATAATACACAAAAAAAAATCCA
1 CAAATAATAC-CAAAAAAAAATCCA
* * *
24740995 CAAATTATTCCAAAACAAAATC
1 CAAATAATACCAAAAAAAAATC
24741017 ACTAAAAACT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.62, C:0.21, G:0.00, T:0.17
Consensus pattern (24 bp):
CAAATAATACCAAAAAAAAATCCA
Found at i:24741432 original size:18 final size:19
Alignment explanation
Indices: 24741411--24741448 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
24741401 TATGAAAAAT
*
24741411 AAAATAAAAAC-AAATAAA
1 AAAACAAAAACTAAATAAA
24741429 AAAACAAAAACTAAATAAA
1 AAAACAAAAACTAAATAAA
24741448 A
1 A
24741449 TCACTTTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.82, C:0.08, G:0.00, T:0.11
Consensus pattern (19 bp):
AAAACAAAAACTAAATAAA
Found at i:24742718 original size:45 final size:45
Alignment explanation
Indices: 24742550--24742720 Score: 175
Period size: 45 Copynumber: 3.8 Consensus size: 45
24742540 ATCATAAATC
* * * * * *
24742550 AAATGAGTAAGACCATAGTTGAAAGTCACTATGACATTATACCGA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCAATATACAGG
* * * *
24742595 AAATGAATAAGACCATAGTTGAAAGAGACTACGTCACTATACTA-G
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCAATATAC-AGG
* * * * *
24742640 AATTAAATAAGACCATAGTTGAAAAAAATTATGGCAATATGA-AGG
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCAATAT-ACAGG
24742685 AAATGAATAAGACCATAGTTGAAAGACACTATGGCA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCA
24742721 TCATTCTAGA
Statistics
Matches: 102, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
44 1 0.01
45 100 0.98
46 1 0.01
ACGTcount: A:0.46, C:0.13, G:0.18, T:0.23
Consensus pattern (45 bp):
AAATGAATAAGACCATAGTTGAAAGACACTATGGCAATATACAGG
Found at i:24747007 original size:6 final size:6
Alignment explanation
Indices: 24746998--24747039 Score: 66
Period size: 6 Copynumber: 6.7 Consensus size: 6
24746988 AAACAAAAGA
24746998 AAAATT AAAATAT AAAAATT AAAATT AAAATT AAAATT AAAA
1 AAAATT AAAAT-T -AAAATT AAAATT AAAATT AAAATT AAAA
24747040 CAAAAAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 27 0.79
7 2 0.06
8 5 0.15
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (6 bp):
AAAATT
Found at i:24747045 original size:6 final size:6
Alignment explanation
Indices: 24746992--24747064 Score: 58
Period size: 6 Copynumber: 11.7 Consensus size: 6
24746982 AGAATCAAAC
* * * * *
24746992 AAAAGA AAAATTA AAATATA AAAATTA AAATTA AAATTA AAATTA AAACAAA
1 AAAATA AAAA-TA AAA-ATA AAAA-TA AAAATA AAAATA AAAATA AAA-ATA
24747044 AAAAT- AAAATA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAA
24747065 GGCTAAATTA
Statistics
Matches: 57, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
5 5 0.09
6 33 0.58
7 18 0.32
8 1 0.02
ACGTcount: A:0.77, C:0.01, G:0.01, T:0.21
Consensus pattern (6 bp):
AAAATA
Found at i:24747045 original size:18 final size:18
Alignment explanation
Indices: 24746998--24747064 Score: 62
Period size: 19 Copynumber: 3.6 Consensus size: 18
24746988 AAACAAAAGA
*
24746998 AAAATTAAAATATAAAAATT
1 AAAA-TAAAAAAT-AAAATT
* *
24747018 AAAATTAAAATTAAAATT
1 AAAATAAAAAATAAAATT
* *
24747036 AAAACAAAAAAATAAAATA
1 AAAA-TAAAAAATAAAATT
24747055 AAAATAAAAA
1 AAAATAAAAA
24747065 GGCTAAATTA
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
18 15 0.39
19 19 0.50
20 4 0.11
ACGTcount: A:0.76, C:0.01, G:0.00, T:0.22
Consensus pattern (18 bp):
AAAATAAAAAATAAAATT
Found at i:24747046 original size:25 final size:25
Alignment explanation
Indices: 24746998--24747064 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
24746988 AAACAAAAGA
*
24746998 AAAATTAAAATATAAAAATTAAAATT
1 AAAATTAAAA-ATAAAAAATAAAATT
* *
24747024 AAAATTAAAATTAAAACAA-AAAAAT
1 AAAATTAAAAATAAAA-AATAAAATT
24747049 AAAA-TAAAAATAAAAA
1 AAAATTAAAAATAAAAA
24747065 GGCTAAATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 1 0.03
24 10 0.28
25 14 0.39
26 11 0.31
ACGTcount: A:0.76, C:0.01, G:0.00, T:0.22
Consensus pattern (25 bp):
AAAATTAAAAATAAAAAATAAAATT
Found at i:24754398 original size:25 final size:24
Alignment explanation
Indices: 24754340--24754398 Score: 57
Period size: 25 Copynumber: 2.3 Consensus size: 24
24754330 CTTACTTCCC
* *
24754340 GTAGAATACGGTCTTTTTTCTATT
1 GTAGAATACGATCTTTTTTATATT
24754364 GTAAGAAATAC-ATCTTTTCTTATAATT
1 GT-AG-AATACGATCTTTT-TTAT-ATT
24754391 GTAGAATA
1 GTAGAATA
24754399 AAATACATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
24 2 0.07
25 12 0.41
26 10 0.34
27 5 0.17
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.44
Consensus pattern (24 bp):
GTAGAATACGATCTTTTTTATATT
Found at i:24757484 original size:29 final size:31
Alignment explanation
Indices: 24757398--24757486 Score: 85
Period size: 31 Copynumber: 2.9 Consensus size: 31
24757388 TAATTGAATC
* * *
24757398 AAAAT-AAAATTTTCATATATTCATTTGAACT
1 AAAATCAAAA-TTTCATGTATTCAATTGCACT
* * * *
24757429 AAAATTAAAATTTCATGTGTGCGATTGCACT
1 AAAATCAAAATTTCATGTATTCAATTGCACT
24757460 -AAATCAAAA-TTCATGTATTCAATTGCA
1 AAAATCAAAATTTCATGTATTCAATTGCA
24757487 TATGAAATCT
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
29 15 0.32
30 8 0.17
31 20 0.43
32 4 0.09
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.37
Consensus pattern (31 bp):
AAAATCAAAATTTCATGTATTCAATTGCACT
Found at i:24757959 original size:3 final size:3
Alignment explanation
Indices: 24757951--24757984 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
24757941 TTACATAGTG
24757951 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
24757985 GTTTTAAGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:24766710 original size:40 final size:40
Alignment explanation
Indices: 24766640--24766862 Score: 387
Period size: 40 Copynumber: 5.6 Consensus size: 40
24766630 AAACCAAGTA
* ** *
24766640 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGTTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
24766679 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
24766719 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
24766759 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
24766799 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
24766839 CCTTCGGGACTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATA
24766863 ATCCGAATAT
Statistics
Matches: 178, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
39 14 0.08
40 164 0.92
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:24773722 original size:40 final size:40
Alignment explanation
Indices: 24773652--24773749 Score: 146
Period size: 40 Copynumber: 2.5 Consensus size: 40
24773642 AAACCAAGTA
* * *
24773652 CCTTCGGGATTTAG-CCGGATATAGCTACTCGCTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATG
24773691 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCT-ACTCGCACAAATG
24773731 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
24773750 TTATCATCCG
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
39 14 0.26
40 40 0.74
ACGTcount: A:0.21, C:0.30, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATG
Found at i:24777041 original size:27 final size:27
Alignment explanation
Indices: 24777011--24777062 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
24777001 GAATGATCTC
24777011 GGTCTCAATGA-TAATCCAAATGGTCCT
1 GGTCTCAAT-ATTAATCCAAATGGTCCT
24777038 GGTCTCAATATTAATCCAAATGGTC
1 GGTCTCAATATTAATCCAAATGGTC
24777063 AAAATGTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 1 0.04
27 23 0.96
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (27 bp):
GGTCTCAATATTAATCCAAATGGTCCT
Found at i:24778569 original size:14 final size:14
Alignment explanation
Indices: 24778550--24778580 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
24778540 TCTGGTTGAG
24778550 TATGACATGCCATA
1 TATGACATGCCATA
24778564 TATGACATGCCATA
1 TATGACATGCCATA
24778578 TAT
1 TAT
24778581 TAGTTATCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.32
Consensus pattern (14 bp):
TATGACATGCCATA
Found at i:24793383 original size:169 final size:169
Alignment explanation
Indices: 24793103--24793411 Score: 519
Period size: 169 Copynumber: 1.8 Consensus size: 169
24793093 TGATACTCAT
* *
24793103 ACAATTTTTATTGATACCTATTTCAAGATTGATACCAAACTTACTTACTGACTTGAAACAAAAAT
1 ACAATTTTTATTGATACCTATTTAAAGATTGATACCAAACTTACTTACTGACTTAAAACAAAAAT
** * * * *
24793168 TGAACAAAAGTAAAAAGTATCGATACTTTTCAAAAAATATCGATACCTATTGTATTTTTATCGAT
66 TGAACAAAAACAAAAAGTATCAATACTTTTCAAAAAATACCGATACCTACTATATTTTTATCGAT
*
24793233 ACCATTTTTGCATTATGACTTAATGATTTTTAAACAATC
131 ACCATCTTTGCATTATGACTTAATGATTTTTAAACAATC
* *
24793272 ACAATTTTTATTGATACCTATTTAAAGATTGATACCAAACTTGCTTATTGACTTAAAACAAAAAT
1 ACAATTTTTATTGATACCTATTTAAAGATTGATACCAAACTTACTTACTGACTTAAAACAAAAAT
24793337 TGAACAAAAACAAAAAGTATCAATACTTTTCAAAAAATACCGATACCTACTATATTTTTATCGAT
66 TGAACAAAAACAAAAAGTATCAATACTTTTCAAAAAATACCGATACCTACTATATTTTTATCGAT
24793402 ACCATCTTTG
131 ACCATCTTTG
24793412 ATATTGTTTT
Statistics
Matches: 129, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
169 129 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (169 bp):
ACAATTTTTATTGATACCTATTTAAAGATTGATACCAAACTTACTTACTGACTTAAAACAAAAAT
TGAACAAAAACAAAAAGTATCAATACTTTTCAAAAAATACCGATACCTACTATATTTTTATCGAT
ACCATCTTTGCATTATGACTTAATGATTTTTAAACAATC
Found at i:24797304 original size:27 final size:27
Alignment explanation
Indices: 24797274--24797332 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
24797264 CACACTTATG
*
24797274 TCTTTGTTTCAAAATTATAAAATCAAA
1 TCTTTGTTTCAAAATCATAAAATCAAA
*
24797301 TCTTTGTTTCAAAATCATAAAATCAAG
1 TCTTTGTTTCAAAATCATAAAATCAAA
24797328 TCTTT
1 TCTTT
24797333 AATTCAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.39, C:0.14, G:0.05, T:0.42
Consensus pattern (27 bp):
TCTTTGTTTCAAAATCATAAAATCAAA
Found at i:24797338 original size:27 final size:27
Alignment explanation
Indices: 24797281--24797340 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
24797271 ATGTCTTTGT
* **
24797281 TTCAAAATTATAAAATCAAATCTTTGT
1 TTCAAAATCATAAAATCAAATCTTTAA
*
24797308 TTCAAAATCATAAAATCAAGTCTTTAA
1 TTCAAAATCATAAAATCAAATCTTTAA
24797335 TTCAAA
1 TTCAAA
24797341 TTGAACTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.47, C:0.13, G:0.03, T:0.37
Consensus pattern (27 bp):
TTCAAAATCATAAAATCAAATCTTTAA
Found at i:24811521 original size:13 final size:13
Alignment explanation
Indices: 24811491--24811515 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24811481 AGCATAGAAG
24811491 GAAAAAAAAAAAA
1 GAAAAAAAAAAAA
24811504 GAAAAAAAAAAA
1 GAAAAAAAAAAA
24811516 CTAAAATGAA
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (13 bp):
GAAAAAAAAAAAA
Found at i:24824807 original size:14 final size:14
Alignment explanation
Indices: 24824788--24824819 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
24824778 AGGTCATTTA
24824788 GCCCAACCAAACTG
1 GCCCAACCAAACTG
24824802 GCCCAACCAAACTG
1 GCCCAACCAAACTG
24824816 GCCC
1 GCCC
24824820 GGTGATTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:24841564 original size:25 final size:25
Alignment explanation
Indices: 24841535--24841584 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
24841525 GAAATTTTGG
24841535 ATCTTGAATATTCATTAATTCTGTT
1 ATCTTGAATATTCATTAATTCTGTT
*
24841560 ATCTTTAATATTCATTAATTCTGTT
1 ATCTTGAATATTCATTAATTCTGTT
24841585 TTCAAGGATT
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:0.28, C:0.12, G:0.06, T:0.54
Consensus pattern (25 bp):
ATCTTGAATATTCATTAATTCTGTT
Found at i:24841787 original size:14 final size:14
Alignment explanation
Indices: 24841768--24841799 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
24841758 AGGTCATTTA
24841768 GCCCAACCAAACTG
1 GCCCAACCAAACTG
24841782 GCCCAACCAAACTG
1 GCCCAACCAAACTG
24841796 GCCC
1 GCCC
24841800 GGTGATTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:24842714 original size:13 final size:13
Alignment explanation
Indices: 24842696--24842734 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
24842686 GGATTAAAAC
24842696 TTAGAACTTAAGT
1 TTAGAACTTAAGT
*
24842709 TTAGAACTTAAGA
1 TTAGAACTTAAGT
24842722 TTA-AACTTAAGT
1 TTAGAACTTAAGT
24842734 T
1 T
24842735 AATAGGTTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 9 0.38
13 15 0.62
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.38
Consensus pattern (13 bp):
TTAGAACTTAAGT
Found at i:24843871 original size:61 final size:61
Alignment explanation
Indices: 24843771--24843899 Score: 206
Period size: 61 Copynumber: 2.1 Consensus size: 61
24843761 ACTTCTCCAA
* *
24843771 TGCTT-AATTGTCATAACTCTTGTTGAAATTTAACATGTTTATGTTTTGTATAAGTATTTG
1 TGCTTGAATTGTCATAACTCTTGTTGAAATTCAACATGTTTATGTCTTGTATAAGTATTTG
* * *
24843831 TGCTTGAATTGTCATATCTCTTGTTGAAATTCAATATGTTTATGTCTTGTTTAAGTATTTG
1 TGCTTGAATTGTCATAACTCTTGTTGAAATTCAACATGTTTATGTCTTGTATAAGTATTTG
24843892 TGCTTGAA
1 TGCTTGAA
24843900 AATTTTTATT
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
60 5 0.08
61 58 0.92
ACGTcount: A:0.25, C:0.09, G:0.16, T:0.50
Consensus pattern (61 bp):
TGCTTGAATTGTCATAACTCTTGTTGAAATTCAACATGTTTATGTCTTGTATAAGTATTTG
Found at i:24845004 original size:149 final size:149
Alignment explanation
Indices: 24844731--24845030 Score: 582
Period size: 149 Copynumber: 2.0 Consensus size: 149
24844721 AGCCTTGTAA
24844731 AAGCTAGAGGCTTCAAGTTTAGCTACAAAAGCTAAGGAAGATTCTATTTCGACCTTGGGAAAAAG
1 AAGCTAGAGGCTTCAAGTTTAGCTACAAAAGCTAAGGAAGATTCTATTTCGACCTTGGGAAAAAG
24844796 AGAGAGATTGTAAAAGTTATACTTTCTCATGAAAAGGTAAGAATTCAAGTATAGGGAATAGGTAA
66 AGAGAGATTGTAAAAGTTATACTTTCTCATGAAAAGGTAAGAATTCAAGTATAGGGAATAGGTAA
24844861 AACATGTGTTAAGGTATAC
131 AACATGTGTTAAGGTATAC
24844880 AAGCTAGAGGCTTCAAGTTTAGCTACAAAAGCTAAGGAAGATTCTATTTCGACCTTGGGAAAAAG
1 AAGCTAGAGGCTTCAAGTTTAGCTACAAAAGCTAAGGAAGATTCTATTTCGACCTTGGGAAAAAG
*
24844945 AGAGAGATTGTAAAAGTTATACTTTCTCATGAAAAGGTAAGAATTCAAGTATAGTGAATAGGTAA
66 AGAGAGATTGTAAAAGTTATACTTTCTCATGAAAAGGTAAGAATTCAAGTATAGGGAATAGGTAA
*
24845010 AACATTTGTTAAGGTATAC
131 AACATGTGTTAAGGTATAC
24845029 AA
1 AA
24845031 TTAGGTCGAA
Statistics
Matches: 149, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 149 1.00
ACGTcount: A:0.40, C:0.11, G:0.22, T:0.27
Consensus pattern (149 bp):
AAGCTAGAGGCTTCAAGTTTAGCTACAAAAGCTAAGGAAGATTCTATTTCGACCTTGGGAAAAAG
AGAGAGATTGTAAAAGTTATACTTTCTCATGAAAAGGTAAGAATTCAAGTATAGGGAATAGGTAA
AACATGTGTTAAGGTATAC
Found at i:24847165 original size:35 final size:35
Alignment explanation
Indices: 24847119--24847188 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
24847109 ACATGCTCCA
*
24847119 CCTGTAATTGATATTGAAATCTCAAAAACAAAATT
1 CCTGTAATTGATATTGAAATCTAAAAAACAAAATT
24847154 CCTGTAATTGATATTGAAATCTAAAAAACAAAATT
1 CCTGTAATTGATATTGAAATCTAAAAAACAAAATT
24847189 GAACATGCAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.47, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
CCTGTAATTGATATTGAAATCTAAAAAACAAAATT
Found at i:24849695 original size:3 final size:3
Alignment explanation
Indices: 24849687--24849744 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
24849677 TTTTAAAGTT
24849687 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
24849735 TTA TTA TTA T
1 TTA TTA TTA T
24849745 AATAAAAAGT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:24851936 original size:31 final size:32
Alignment explanation
Indices: 24851901--24851968 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 32
24851891 TAAATTTTTA
*
24851901 AAATTCAAAAAGTATAAGGACTAAAATTGA-C
1 AAATTCAAAAAGTATAAGGACTAAAATTAACC
** * *
24851932 AAATTTGAAAATTTTAAGGACTAAAATTAACC
1 AAATTCAAAAAGTATAAGGACTAAAATTAACC
24851964 AAATT
1 AAATT
24851969 AAAGTATAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
31 25 0.81
32 6 0.19
ACGTcount: A:0.53, C:0.09, G:0.10, T:0.28
Consensus pattern (32 bp):
AAATTCAAAAAGTATAAGGACTAAAATTAACC
Found at i:24852257 original size:12 final size:12
Alignment explanation
Indices: 24852240--24852272 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
24852230 CGGCCCGCCC
24852240 ATATTAATTTTT
1 ATATTAATTTTT
24852252 ATATT-ATTTTT
1 ATATTAATTTTT
24852263 ATA-TAATTTT
1 ATATTAATTTT
24852273 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:24852432 original size:30 final size:30
Alignment explanation
Indices: 24852396--24852458 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
24852386 ACTTAATAAG
24852396 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
*
24852426 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
24852456 CAA
1 CAA
24852459 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:24857049 original size:43 final size:43
Alignment explanation
Indices: 24857001--24857098 Score: 137
Period size: 43 Copynumber: 2.3 Consensus size: 43
24856991 ATGCCATATT
**
24857001 CTATGGTCTTACATGGGATCTCATATCGATGCCAATAGCCCA-A
1 CTATGGTCTTACATGAAATCTCATATCGATGCC-ATAGCCCAGA
* *
24857044 CTATGGTCTTATATGAAATCTCATATCGATGCCATATCCCAGA
1 CTATGGTCTTACATGAAATCTCATATCGATGCCATAGCCCAGA
24857087 -TATGGTCTTACA
1 CTATGGTCTTACA
24857099 CATAATCCCA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
42 18 0.37
43 31 0.63
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (43 bp):
CTATGGTCTTACATGAAATCTCATATCGATGCCATAGCCCAGA
Found at i:24864664 original size:42 final size:43
Alignment explanation
Indices: 24864578--24864664 Score: 106
Period size: 42 Copynumber: 2.0 Consensus size: 43
24864568 CATAGGATCC
**
24864578 CATATCGATGCCAATAGCCCAGCTATGATCTTACACGAAGTCT
1 CATATCGATGCCAATAGCCCAAATATGATCTTACACGAAGTCT
* * *
24864621 CATATCGATGTC-ATATCCCAAATATGGTCTTACACGTAA-TCT
1 CATATCGATGCCAATAGCCCAAATATGATCTTACACG-AAGTCT
24864663 CA
1 CA
24864665 AATAACCCTA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
42 25 0.66
43 13 0.34
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (43 bp):
CATATCGATGCCAATAGCCCAAATATGATCTTACACGAAGTCT
Found at i:24866148 original size:17 final size:17
Alignment explanation
Indices: 24866126--24866158 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
24866116 CTTTTCAACA
24866126 TCAAATCAAT-ACATATT
1 TCAAAT-AATCACATATT
24866143 TCAAATAATCACATAT
1 TCAAATAATCACATAT
24866159 AATCATACTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.33
Consensus pattern (17 bp):
TCAAATAATCACATATT
Found at i:24879359 original size:20 final size:21
Alignment explanation
Indices: 24879314--24879359 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
24879304 TGTGATGAAA
*
24879314 ATATGATTTGAATGTTCAATT
1 ATATGATATGAATGTTCAATT
*
24879335 -CATGATATGAATGTTC-ATT
1 ATATGATATGAATGTTCAATT
24879354 ATATGA
1 ATATGA
24879360 AAATTTACGA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (21 bp):
ATATGATATGAATGTTCAATT
Found at i:24885651 original size:5 final size:5
Alignment explanation
Indices: 24885618--24885700 Score: 67
Period size: 5 Copynumber: 15.4 Consensus size: 5
24885608 TTCTTTGTTT
* *
24885618 TATATA TATAA CATAA TAATATA TAATAA TATAA TATAA TATAA TGTAA
1 TATA-A TATAA TATAA T-ATA-A T-ATAA TATAA TATAA TATAA TATAA
* * *
24885667 TATTAA TATAA TAATAA AACAA TATAT TATAA TA
1 TA-TAA TATAA T-ATAA TATAA TATAA TATAA TA
24885701 AAAATCTTAA
Statistics
Matches: 63, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
5 39 0.62
6 18 0.29
7 6 0.10
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.39
Consensus pattern (5 bp):
TATAA
Found at i:24885651 original size:18 final size:18
Alignment explanation
Indices: 24885618--24885700 Score: 73
Period size: 18 Copynumber: 4.7 Consensus size: 18
24885608 TTCTTTGTTT
*
24885618 TATATATATAACATAATAA
1 TATATA-ATAATATAATAA
24885637 TATATAATAATATAAT-A
1 TATATAATAATATAATAA
* *
24885654 TA-AT-ATAATGTAATAT
1 TATATAATAATATAATAA
* *
24885670 TAATATAATAATAAAACAA
1 T-ATATAATAATATAATAA
*
24885689 TATATTATAATA
1 TATATAATAATA
24885701 AAAATCTTAA
Statistics
Matches: 52, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
15 9 0.17
16 3 0.06
17 4 0.08
18 21 0.40
19 15 0.29
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.39
Consensus pattern (18 bp):
TATATAATAATATAATAA
Found at i:24897973 original size:92 final size:94
Alignment explanation
Indices: 24897813--24898037 Score: 260
Period size: 94 Copynumber: 2.4 Consensus size: 94
24897803 TCTTACGTTA
* * ** *
24897813 AGTCAATGCCATGTCCTAGACATGGTCTTACACT-GACTCTCACGTATCCGTGCTGATGCCATGT
1 AGTCGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTCT-ACGTATCAATGCCGATGCCATGT
* *
24897877 CCCAGATATGGTCTTATC-CTAG-CACATCATGT
62 CCCAGACATGGTCTTA-CACTAGCCACATAATGT
*
24897909 AGTCGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTCAATGCCGATGCCATGTCCCA
1 AGTCGATGCATGTCCCAGACATGTCTTACACTAGCTCTACGTATCAATGCCGATGCCATGTCCCA
* *
24897973 GACATGGTCTTACACTGGCTCCCATAATGT
66 GACATGGTCTTACACTAGC-CACATAATGT
* *
24898003 GGCCGATGCATGTCCCAGACATGTCTTACACTAGC
1 AGTCGATGCATGTCCCAGACATGTCTTACACTAGC
24898038 ACACAAATGA
Statistics
Matches: 113, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
91 1 0.01
92 36 0.32
94 55 0.49
95 14 0.12
96 7 0.06
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (94 bp):
AGTCGATGCATGTCCCAGACATGTCTTACACTAGCTCTACGTATCAATGCCGATGCCATGTCCCA
GACATGGTCTTACACTAGCCACATAATGT
Found at i:24898409 original size:30 final size:30
Alignment explanation
Indices: 24898373--24898455 Score: 139
Period size: 30 Copynumber: 2.8 Consensus size: 30
24898363 AAAAATTGGG
*
24898373 CAAAATGACCATTTTTCCCCTAGACTTTTA
1 CAAAATGACCATTTTACCCCTAGACTTTTA
* *
24898403 CAAAATGACCATTTTGCCCCTAGACTTTTG
1 CAAAATGACCATTTTACCCCTAGACTTTTA
24898433 CAAAATGACCATTTTACCCCTAG
1 CAAAATGACCATTTTACCCCTAG
24898456 GTCTGAAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.30, C:0.28, G:0.10, T:0.33
Consensus pattern (30 bp):
CAAAATGACCATTTTACCCCTAGACTTTTA
Found at i:24906481 original size:22 final size:22
Alignment explanation
Indices: 24906431--24906481 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
24906421 CTTAAAAATA
*
24906431 ATATTATAAAAATATTTTGTGT
1 ATATTATAAAAAAATTTTGTGT
*
24906453 ATTTTATAAAATTAAATTTT-T-T
1 ATATTATAAAA--AAATTTTGTGT
24906475 ATATTAT
1 ATATTAT
24906482 TTAAATCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
22 17 0.71
23 1 0.04
24 6 0.25
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (22 bp):
ATATTATAAAAAAATTTTGTGT
Found at i:24911844 original size:14 final size:16
Alignment explanation
Indices: 24911804--24911847 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 16
24911794 TTTTCAACAT
*
24911804 AAATTAAACTTAATTCA
1 AAATTAAA-TAAATTCA
24911821 AAATTAAATAAATT-A
1 AAATTAAATAAATTCA
24911836 AAA-TAAATAAAT
1 AAATTAAATAAAT
24911848 ATGGGTTGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 9 0.35
15 4 0.15
16 5 0.19
17 8 0.31
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATTAAATAAATTCA
Found at i:24914918 original size:21 final size:20
Alignment explanation
Indices: 24914880--24914918 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
24914870 AATGCAAACA
*
24914880 AGGGCACACGTCCATGTGGG
1 AGGGCACACGCCCATGTGGG
*
24914900 AGGGCGACACGCCCGTGTG
1 AGGGC-ACACGCCCATGTG
24914919 TCCTCTTAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.18, C:0.28, G:0.41, T:0.13
Consensus pattern (20 bp):
AGGGCACACGCCCATGTGGG
Found at i:24915281 original size:81 final size:81
Alignment explanation
Indices: 24915182--24915343 Score: 315
Period size: 81 Copynumber: 2.0 Consensus size: 81
24915172 AAGGCACACT
*
24915182 CCCGTGTGCTAGGTCGTGTCCTCTACATGGTTAAGACAGACAGCCATGTCTCCACCTGTATGGTT
1 CCCGTGTGCTAGGTCGTGTCCTCTACACGGTTAAGACAGACAGCCATGTCTCCACCTGTATGGTT
24915247 ACTACTGGGTATTCTG
66 ACTACTGGGTATTCTG
24915263 CCCGTGTGCTAGGTCGTGTCCTCTACACGGTTAAGACAGACAGCCATGTCTCCACCTGTATGGTT
1 CCCGTGTGCTAGGTCGTGTCCTCTACACGGTTAAGACAGACAGCCATGTCTCCACCTGTATGGTT
24915328 ACTACTGGGTATTCTG
66 ACTACTGGGTATTCTG
24915344 TTTGCCAAAT
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.19, C:0.27, G:0.25, T:0.30
Consensus pattern (81 bp):
CCCGTGTGCTAGGTCGTGTCCTCTACACGGTTAAGACAGACAGCCATGTCTCCACCTGTATGGTT
ACTACTGGGTATTCTG
Found at i:24916339 original size:48 final size:47
Alignment explanation
Indices: 24916219--24916395 Score: 194
Period size: 48 Copynumber: 3.7 Consensus size: 47
24916209 AGGGTAAGAT
* * *
24916219 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGTTCTCATAT-ATCAG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAG--CTCACATGA-CAG
* *
24916268 TGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATGACGAG
1 -GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATGAC-AG
* * * * *
24916317 GCTGATGCCATGTCCCATACATGGTCTTACACTAGCTCTCATGTAAAT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATG-ACAG
*
24916365 GCCGATGCCATGTTCCAAACATGGTCTTACA
1 GCCGATGCCATGTCCCAAACATGGTCTTACA
24916396 TTGGCTCATG
Statistics
Matches: 109, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
48 73 0.67
49 4 0.04
50 32 0.29
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATGACAG
Found at i:24920719 original size:48 final size:48
Alignment explanation
Indices: 24920664--24920888 Score: 188
Period size: 48 Copynumber: 4.7 Consensus size: 48
24920654 GTGAATTGCT
* *
24920664 GATGCCATGTTCCAAACATGGTCTTACACTGGTTCACATGTCGAGGCC
1 GATGCCATGTTCCAGACATGGTCTTACACTGGCTCACATGTCGAGGCC
* * * * * * ***
24920712 GATGCCATG-TCTTAGACATGGTTTTACACTAGCTCTCGTCTC-ATTTTC
1 GATGCCATGTTC-CAGACATGGTCTTACACTGGCTCACATGTCGA-GGCC
* * * * * * *
24920760 GATGCTATGTCCCAGACATGGTCTTACACTAGCGCACATATCAACGCC
1 GATGCCATGTTCCAGACATGGTCTTACACTGGCTCACATGTCGAGGCC
* * * *
24920808 GATGCCATGTCCCAGACATGCTCTTACACTGGCTCTCATGAT-GTGGCC
1 GATGCCATGTTCCAGACATGGTCTTACACTGGCTCACATG-TCGAGGCC
24920856 GATGCCATGTTCC-GAACATGGTCTTACACTGGC
1 GATGCCATGTTCCAG-ACATGGTCTTACACTGGC
24920889 ACGCATATCA
Statistics
Matches: 138, Mismatches: 33, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
47 4 0.03
48 131 0.95
49 3 0.02
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (48 bp):
GATGCCATGTTCCAGACATGGTCTTACACTGGCTCACATGTCGAGGCC
Found at i:24920896 original size:96 final size:95
Alignment explanation
Indices: 24920658--24920898 Score: 250
Period size: 96 Copynumber: 2.5 Consensus size: 95
24920648 AAGAGGGTGA
* ** * * *
24920658 ATTGCTGATGCCATGTTCCAAACATGGTCTTACACTGGTTCACATGTCGAGGCCGATGCCATGTC
1 ATTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCACACATATCAACGCCGATGCCATGTC
** * * *
24920723 TTAGACATGGTTTTACACTAGCTCTCGTCTC
66 CCAGACATGCTCTTACACTAGCTCTCG-ATC
** * * * * *
24920754 ATTTTCGATGCTATGTCCCAGACATGGTCTTACACTAGCGCACATATCAACGCCGATGCCATGTC
1 ATTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCACACATATCAACGCCGATGCCATGTC
* *
24920819 CCAGACATGCTCTTACACTGGCTCTC-ATG
66 CCAGACATGCTCTTACACTAGCTCTCGATC
* *
24920848 ATGTGGCCGATGCCATGTTCCGAACATGGTCTTACACTGGCACGCATATCA
1 AT-T-GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCACACATATCA
24920899 CCCAAATGTC
Statistics
Matches: 115, Mismatches: 28, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
94 3 0.03
95 1 0.01
96 111 0.97
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (95 bp):
ATTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCACACATATCAACGCCGATGCCATGTC
CCAGACATGCTCTTACACTAGCTCTCGATC
Found at i:24923182 original size:41 final size:42
Alignment explanation
Indices: 24923125--24923344 Score: 272
Period size: 41 Copynumber: 5.3 Consensus size: 42
24923115 ACATAAAATT
*
24923125 TGCTAGGC-ATAAAGCCTAG-TATAAAACACCGGCACAAAGCC
1 TGCTAGGCAAT-AAGCCTAGATATAATACACCGGCACAAAGCC
* * *
24923166 TGCTAGACAATAAGCCT-GATATAATACACAGGCATATAAAGCC
1 TGCTAGGCAATAAGCCTAGATATAATACACCGGC--ACAAAGCC
* *
24923209 TGCTAGGCAATAAG-CTTGATATAATACACCGACACAAAGCC
1 TGCTAGGCAATAAGCCTAGATATAATACACCGGCACAAAGCC
* * *
24923250 TGCTAGGTAATAAGCCTA-ATTTAATACATCGGCACAAAGCC
1 TGCTAGGCAATAAGCCTAGATATAATACACCGGCACAAAGCC
* *
24923291 TGCTAGGCAATAAGCC-CGATTTAATACACCGGCACAAAGCC
1 TGCTAGGCAATAAGCCTAGATATAATACACCGGCACAAAGCC
24923332 TGCTAGGCAATAA
1 TGCTAGGCAATAA
24923345 AGCCCGAATA
Statistics
Matches: 156, Mismatches: 16, Indels: 14
0.84 0.09 0.08
Matches are distributed among these distances:
40 1 0.01
41 115 0.74
42 6 0.04
43 34 0.22
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (42 bp):
TGCTAGGCAATAAGCCTAGATATAATACACCGGCACAAAGCC
Found at i:24930784 original size:48 final size:48
Alignment explanation
Indices: 24930726--24931006 Score: 237
Period size: 48 Copynumber: 5.9 Consensus size: 48
24930716 GGGTGAATTA
* * * * *
24930726 CCGATACCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGAGG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATGTCAACG
* ** *
24930774 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTGTC--GTCTAATTG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATGTC-AA-CG
* * * **
24930822 CCAATGCCATGTTCCAAACATGGTCTTACACTAGCCCACACATCAACG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATGTCAACG
* * * *
24930870 TCGATGCTATGTCCCAGACATGGTCTTACACTAGCGT-ACATATCAACG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGC-TCACATGTCAACG
* * * * * ***
24930918 CCAATGCCATGTCCCAGACATGGTGTTACACTGGCTCTCATGAT-GTGG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATG-TCAACG
* * *
24930966 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCACACAT
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACAT
24931007 ATCACCCAAA
Statistics
Matches: 187, Mismatches: 39, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
46 3 0.02
47 2 0.01
48 177 0.95
49 3 0.02
50 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (48 bp):
CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATGTCAACG
Found at i:24930971 original size:96 final size:97
Alignment explanation
Indices: 24930732--24930997 Score: 326
Period size: 96 Copynumber: 2.8 Consensus size: 97
24930722 ATTACCGATA
24930732 CCATGTTCCAAACATGGTCTTACACTGGCTCACATG-TCGAGGCCGATGCCATGTCCCAGACATG
1 CCATGTTCCAAACATGGTCTTACACTGGCTCACATGATCGAGGCCGATGCCATGTCCCAGACATG
* * *
24930796 GTCTTACACTAGCTGTCGTCTAATTGCCAATG
66 GTCTTACACTAGCTGTCATATAATCGCCAATG
* * * * * * *
24930828 CCATGTTCCAAACATGGTCTTACACTAGCCCACA-CATCAACGTCGATGCTATGTCCCAGACATG
1 CCATGTTCCAAACATGGTCTTACACTGGCTCACATGATCGAGGCCGATGCCATGTCCCAGACATG
24930892 GTCTTACACTAGC-GTACATATCAA-CGCCAATG
66 GTCTTACACTAGCTGT-CATAT-AATCGCCAATG
* * * * * * *
24930924 CCATGTCCCAGACATGGTGTTACACTGGCTCTCATGAT-GTGGCCGATGCCATGTTCCAAACATG
1 CCATGTTCCAAACATGGTCTTACACTGGCTCACATGATCGAGGCCGATGCCATGTCCCAGACATG
24930988 GTCTTACACT
66 GTCTTACACT
24930998 GGCACACATA
Statistics
Matches: 142, Mismatches: 24, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
95 2 0.01
96 136 0.96
97 4 0.03
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (97 bp):
CCATGTTCCAAACATGGTCTTACACTGGCTCACATGATCGAGGCCGATGCCATGTCCCAGACATG
GTCTTACACTAGCTGTCATATAATCGCCAATG
Found at i:24932379 original size:21 final size:22
Alignment explanation
Indices: 24932353--24932393 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
24932343 TACTAGACAC
*
24932353 AGGGGC-ACACGCCTGTGTGGG
1 AGGGGCAACACGCCCGTGTGGG
24932374 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACGCCCGTGTG
24932394 ACTAATTCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.17, C:0.27, G:0.44, T:0.12
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGG
Found at i:24932568 original size:27 final size:28
Alignment explanation
Indices: 24932513--24932568 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
24932503 TACAGGGGTT
* * *
24932513 TTCACCGGCCTTGCACACGCCCATGTCC
1 TTCAACGGCCATGCACACGCCCATATCC
*
24932541 TTCAACGGCCATG-ACAGGCCCATATCC
1 TTCAACGGCCATGCACACGCCCATATCC
24932568 T
1 T
24932569 AGCCCATGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 13 0.54
28 11 0.46
ACGTcount: A:0.20, C:0.41, G:0.18, T:0.21
Consensus pattern (28 bp):
TTCAACGGCCATGCACACGCCCATATCC
Found at i:24953376 original size:46 final size:46
Alignment explanation
Indices: 24953326--24953501 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
24953316 TGGTTGAGCA
24953326 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
24953372 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
24953417 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
24953465 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
24953502 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:24953482 original size:93 final size:93
Alignment explanation
Indices: 24953323--24953494 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
24953313 GGATGGTTGA
* *
24953323 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
24953388 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
24953416 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
24953481 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
24953495 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:24962552 original size:50 final size:51
Alignment explanation
Indices: 24962492--24962701 Score: 196
Period size: 50 Copynumber: 4.2 Consensus size: 51
24962482 CATTTGGCCA
* * * *
24962492 AATATACAAGA-TTAAATATAATATCACATATGTGCTTACCTATATGACTG
1 AATATACAAGACTTAAATATAACATCACATATGTACATACCTATATGGCTG
* * * * * *
24962542 AATATGCAAGA-TCAAATTTAACATCACATATGTACTTACTTATATGGCCG
1 AATATACAAGACTTAAATATAACATCACATATGTACATACCTATATGGCTG
* * * * *
24962592 AATATACAA-ATTTAAATATAATATCGCATTTGTGCATACCT-TCATGGCTG
1 AATATACAAGACTTAAATATAACATCACATATGTACATACCTAT-ATGGCTG
* * * * *
24962642 AATATTCAAGACCT-AATACAACATCACATATGTACATACCTATGTGGTTG
1 AATATACAAGACTTAAATATAACATCACATATGTACATACCTATATGGCTG
24962692 AATATACAAG
1 AATATACAAG
24962702 GTCATTTAGC
Statistics
Matches: 127, Mismatches: 29, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
49 2 0.02
50 122 0.96
51 3 0.02
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (51 bp):
AATATACAAGACTTAAATATAACATCACATATGTACATACCTATATGGCTG
Found at i:24962665 original size:100 final size:100
Alignment explanation
Indices: 24962486--24962701 Score: 265
Period size: 100 Copynumber: 2.2 Consensus size: 100
24962476 ATCACTCATT
* *
24962486 TGGCCAAATATACAAGATTAAATATAATATCACATATGTGCTTACCTATATGACTGAATATGCAA
1 TGGCCGAATATACAAGATTAAATATAATATCACATATGTGCATACCTATATGACTGAATATGCAA
* ** * *
24962551 GATCAAATTTAACATCACATATGTACTTACTTATA
66 GACCAAATACAACATCACATATGTACATACCTATA
* * * *
24962586 TGGCCGAATATACAA-ATTTAAATATAATATCGCATTTGTGCATACCT-TCATGGCTGAATATTC
1 TGGCCGAATATACAAGA-TTAAATATAATATCACATATGTGCATACCTAT-ATGACTGAATATGC
* *
24962649 AAGACCTAATACAACATCACATATGTACATACCTATG
64 AAGACCAAATACAACATCACATATGTACATACCTATA
**
24962686 TGGTTGAATATACAAG
1 TGGCCGAATATACAAG
24962702 GTCATTTAGC
Statistics
Matches: 98, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
99 2 0.02
100 96 0.98
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (100 bp):
TGGCCGAATATACAAGATTAAATATAATATCACATATGTGCATACCTATATGACTGAATATGCAA
GACCAAATACAACATCACATATGTACATACCTATA
Found at i:24966818 original size:12 final size:12
Alignment explanation
Indices: 24966801--24966827 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
24966791 ATTCCGAAGT
24966801 ATATATATATAC
1 ATATATATATAC
24966813 ATATATATATAC
1 ATATATATATAC
24966825 ATA
1 ATA
24966828 AGTATGCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:24967346 original size:27 final size:27
Alignment explanation
Indices: 24967315--24967492 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
24967305 TAAATTGTAC
24967315 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
24967342 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
24967368 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
24967396 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
24967424 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
24967451 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
24967478 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
24967493 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:24967429 original size:82 final size:81
Alignment explanation
Indices: 24967316--24967471 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
24967306 AAATTGTACA
* *
24967316 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
24967380 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
24967397 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
24967462 TGCGAGTTGA
65 TGCGAATTGA
24967472 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:24967483 original size:82 final size:81
Alignment explanation
Indices: 24967312--24967492 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
24967302 GATTAAATTG
* *
24967312 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
24967377 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
24967393 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
24967457 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
24967475 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
24967493 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:24975536 original size:27 final size:27
Alignment explanation
Indices: 24975505--24975682 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
24975495 TAAATTGTAC
24975505 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
24975532 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
24975558 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
24975586 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
24975614 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
24975641 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
24975668 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
24975683 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:24975619 original size:82 final size:81
Alignment explanation
Indices: 24975506--24975661 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
24975496 AAATTGTACA
* *
24975506 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
24975570 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
24975587 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
24975652 TGCGAGTTGA
65 TGCGAATTGA
24975662 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:24975673 original size:82 final size:81
Alignment explanation
Indices: 24975502--24975682 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
24975492 GATTAAATTG
* *
24975502 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
24975567 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
24975583 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
24975647 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
24975665 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
24975683 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:24993786 original size:27 final size:27
Alignment explanation
Indices: 24993755--24993932 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
24993745 TAAATTGTAC
24993755 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
24993782 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
24993808 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
24993836 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
24993864 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
24993891 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
24993918 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
24993933 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:24993869 original size:82 final size:81
Alignment explanation
Indices: 24993756--24993911 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
24993746 AAATTGTACA
* *
24993756 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
24993820 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
24993837 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
24993902 TGCGAGTTGA
65 TGCGAATTGA
24993912 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:24993923 original size:82 final size:81
Alignment explanation
Indices: 24993752--24993932 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
24993742 GATTAAATTG
* *
24993752 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
24993817 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
24993833 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
24993897 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
24993915 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
24993933 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:25006880 original size:89 final size:89
Alignment explanation
Indices: 25006729--25006907 Score: 358
Period size: 89 Copynumber: 2.0 Consensus size: 89
25006719 TGTGCTGCTA
25006729 AGCGAATAATGTTAAAGACCACAAAGGATGTGGAGGTTTTGGTGATAGGTGAGCGTAGGGATTAT
1 AGCGAATAATGTTAAAGACCACAAAGGATGTGGAGGTTTTGGTGATAGGTGAGCGTAGGGATTAT
25006794 CTGCCTAATGTGGTGTCGGCATTG
66 CTGCCTAATGTGGTGTCGGCATTG
25006818 AGCGAATAATGTTAAAGACCACAAAGGATGTGGAGGTTTTGGTGATAGGTGAGCGTAGGGATTAT
1 AGCGAATAATGTTAAAGACCACAAAGGATGTGGAGGTTTTGGTGATAGGTGAGCGTAGGGATTAT
25006883 CTGCCTAATGTGGTGTCGGCATTG
66 CTGCCTAATGTGGTGTCGGCATTG
25006907 A
1 A
25006908 AAGTCGAGAA
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 90 1.00
ACGTcount: A:0.27, C:0.11, G:0.34, T:0.28
Consensus pattern (89 bp):
AGCGAATAATGTTAAAGACCACAAAGGATGTGGAGGTTTTGGTGATAGGTGAGCGTAGGGATTAT
CTGCCTAATGTGGTGTCGGCATTG
Found at i:25011015 original size:27 final size:30
Alignment explanation
Indices: 25010955--25011018 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 30
25010945 CCTCGCTGCA
*
25010955 ATCTGGTGGCTTCGCCACATATATATATGT
1 ATCTGGTGGCTTAGCCACATATATATATGT
*
25010985 -TCTGGTGGCTTAG-C-CATA-ATATCTGT
1 ATCTGGTGGCTTAGCCACATATATATATGT
25011011 ATCTGGTG
1 ATCTGGTG
25011019 ACTTCGTCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 7 0.23
27 11 0.35
28 1 0.03
29 12 0.39
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (30 bp):
ATCTGGTGGCTTAGCCACATATATATATGT
Found at i:25011362 original size:49 final size:49
Alignment explanation
Indices: 25011290--25011386 Score: 185
Period size: 49 Copynumber: 2.0 Consensus size: 49
25011280 TACACACTGA
25011290 GTTTACCGAACTCACCCTTTATTTTCATCTCTGCAGGAAATCCCCAACT
1 GTTTACCGAACTCACCCTTTATTTTCATCTCTGCAGGAAATCCCCAACT
*
25011339 GTTTACCGAACTCGCCCTTTATTTTCATCTCTGCAGGAAATCCCCAAC
1 GTTTACCGAACTCACCCTTTATTTTCATCTCTGCAGGAAATCCCCAAC
25011387 GATAGTGGGC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.24, C:0.33, G:0.11, T:0.32
Consensus pattern (49 bp):
GTTTACCGAACTCACCCTTTATTTTCATCTCTGCAGGAAATCCCCAACT
Found at i:25013598 original size:34 final size:33
Alignment explanation
Indices: 25013560--25013628 Score: 129
Period size: 34 Copynumber: 2.1 Consensus size: 33
25013550 ATATAAGAGT
25013560 AAAAATGGTTCGGCTAGGCTTAAGATATGAAGAA
1 AAAAATGGTTCGGCTAGGCTTAAGATATGAA-AA
25013594 AAAAATGGTTCGGCTAGGCTTAAGATATGAAAA
1 AAAAATGGTTCGGCTAGGCTTAAGATATGAAAA
25013627 AA
1 AA
25013629 TGTGATAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 4 0.11
34 31 0.89
ACGTcount: A:0.43, C:0.09, G:0.25, T:0.23
Consensus pattern (33 bp):
AAAAATGGTTCGGCTAGGCTTAAGATATGAAAA
Found at i:25014140 original size:48 final size:47
Alignment explanation
Indices: 25014036--25014158 Score: 142
Period size: 47 Copynumber: 2.6 Consensus size: 47
25014026 GTGTTATTGT
* * *
25014036 GAGCTAGTGTAAGACATGTCTAGGACAT-GCATCGGCCACATCATGA
1 GAGCTAGTGTAAGACATGTCTAGGACATGGCATCAGCCACAACACGA
* *
25014082 GAGCTAGTGTAAGACAATGTCTAGGACATGGCATCAG-CATTAAGACGA
1 GAGCTAGTGTAAGAC-ATGTCTAGGACATGGCATCAGCCA-CAACACGA
* * *
25014130 GTGCTAGTGTAAGACATGTTTGGGACATG
1 GAGCTAGTGTAAGACATGTCTAGGACATG
25014159 CATTGACCTC
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
46 15 0.23
47 27 0.41
48 24 0.36
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (47 bp):
GAGCTAGTGTAAGACATGTCTAGGACATGGCATCAGCCACAACACGA
Found at i:25030906 original size:48 final size:48
Alignment explanation
Indices: 25030835--25030930 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
25030825 TTAACAAAGT
25030835 GACGATCAAGAACAAATATCCTCTACTTCAAATTGATGATTTGTTTGA
1 GACGATCAAGAACAAATATCCTCTACTTCAAATTGATGATTTGTTTGA
*
25030883 GACGATCAAGAACAAATATCCTCTACTTCGAATTGATGATTTGTTTGA
1 GACGATCAAGAACAAATATCCTCTACTTCAAATTGATGATTTGTTTGA
25030931 CTAGTTAAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (48 bp):
GACGATCAAGAACAAATATCCTCTACTTCAAATTGATGATTTGTTTGA
Found at i:25033612 original size:17 final size:17
Alignment explanation
Indices: 25033590--25033622 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
25033580 GGTGAATTCG
25033590 ATGCTCCTAATCCTTTA
1 ATGCTCCTAATCCTTTA
25033607 ATGCTCCTAATCCTTT
1 ATGCTCCTAATCCTTT
25033623 TATTTCATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.30, G:0.06, T:0.42
Consensus pattern (17 bp):
ATGCTCCTAATCCTTTA
Found at i:25044341 original size:43 final size:43
Alignment explanation
Indices: 25044294--25044417 Score: 153
Period size: 43 Copynumber: 2.9 Consensus size: 43
25044284 ATCGAGATGT
25044294 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT-TGA
1 GATTACATGTAAGACCATGTCTGGGACA-TGGCATTGTATATGA
* * * *
25044337 GATTACGTGTAAGACCCTGTCTGGGACAGTGGCATCG-ATATGT
1 GATTACATGTAAGACCATGTCTGGGACA-TGGCATTGTATATGA
* * *
25044380 GATAACATGTAAGACCATATCTGGGATATGGCATTGTA
1 GATTACATGTAAGACCATGTCTGGGACATGGCATTGTA
25044418 CAAGTTTTAT
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
42 9 0.13
43 59 0.87
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATGGCATTGTATATGA
Found at i:25045328 original size:34 final size:33
Alignment explanation
Indices: 25045280--25045419 Score: 93
Period size: 34 Copynumber: 4.3 Consensus size: 33
25045270 TTAAAGCTTT
*
25045280 ACTGGG-CTTAAGCCCTATTCGGAAATCAGAGTTA
1 ACTGGGCCTT-AGCCCTATTCAG-AATCAGAGTTA
25045314 ACTGGGCCTTAGCCC-ATATC--AAT---A-TTA
1 ACTGGGCCTTAGCCCTAT-TCAGAATCAGAGTTA
* **
25045341 ATCTGGGCCATAGCCCT-TTACAGTTTCAGAG-TA
1 A-CTGGGCCTTAGCCCTATT-CAGAATCAGAGTTA
* *
25045374 TACTGGGCCTAAGCCCTATTCAGAAATCAGAGCTA
1 -ACTGGGCCTTAGCCCTATTCAG-AATCAGAGTTA
25045409 ACTGGGCCTTA
1 ACTGGGCCTTA
25045420 ACCCATATCA
Statistics
Matches: 83, Mismatches: 8, Indels: 30
0.69 0.07 0.25
Matches are distributed among these distances:
27 5 0.06
28 16 0.19
30 1 0.01
31 3 0.04
33 21 0.25
34 32 0.39
35 5 0.06
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (33 bp):
ACTGGGCCTTAGCCCTATTCAGAATCAGAGTTA
Found at i:25045450 original size:20 final size:20
Alignment explanation
Indices: 25045421--25045458 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
25045411 TGGGCCTTAA
25045421 CCCATATCAACACAGTTGGG
1 CCCATATCAACACAGTTGGG
* *
25045441 CCCATTTCAATACAGTTG
1 CCCATATCAACACAGTTG
25045459 CCCCATAACA
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:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (20 bp):
CCCATATCAACACAGTTGGG
Found at i:25045534 original size:22 final size:22
Alignment explanation
Indices: 25045499--25045540 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
25045489 TGCATGATAA
*
25045499 CTCCATCCAACCCTGCACTTGC
1 CTCCATCCAACCCTACACTTGC
* *
25045521 CTCCATCTATCCCTACACTT
1 CTCCATCCAACCCTACACTT
25045541 CCTATGGGGA
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:0.19, C:0.48, G:0.05, T:0.29
Consensus pattern (22 bp):
CTCCATCCAACCCTACACTTGC
Found at i:25050558 original size:3 final size:3
Alignment explanation
Indices: 25050550--25050582 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
25050540 GTGCGATTTG
25050550 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
25050583 TACTTTACCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:25050658 original size:20 final size:22
Alignment explanation
Indices: 25050633--25050675 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
25050623 CTTTAAAATC
*
25050633 TATAAAAC-CAAATAA-TATAA
1 TATAAAACTAAAATAATTATAA
25050653 TATAAAACTAAAATAATTATAA
1 TATAAAACTAAAATAATTATAA
25050675 T
1 T
25050676 GATTTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 6 0.30
22 6 0.30
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (22 bp):
TATAAAACTAAAATAATTATAA
Found at i:25053323 original size:21 final size:20
Alignment explanation
Indices: 25053299--25053337 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
25053289 GAGAGAGTTC
*
25053299 CATTAGGATTAGAATTAATCA
1 CATTAAGATTA-AATTAATCA
*
25053320 CATTAATATTAAATTAAT
1 CATTAAGATTAAATTAAT
25053338 AAAATATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (20 bp):
CATTAAGATTAAATTAATCA
Found at i:25068688 original size:48 final size:48
Alignment explanation
Indices: 25068632--25068963 Score: 233
Period size: 48 Copynumber: 6.9 Consensus size: 48
25068622 GGGTGAATTT
* * *
25068632 CTGATGCCATGTTCCAAACATGGTCTTACATTGGCTCACATGTCGACG
1 CTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATCGACG
* * ** * * * * *
25068680 CTGATGCCATATCCCAAACATGGTTTTACACAAGCTCTCGTCTCAATG
1 CTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATCGACG
* * * **
25068728 -TCGATACCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGG
1 CT-GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACAT-ATCGACG
* * * * * *
25068776 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAATG
1 CTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATCGACG
** * * * *
25068824 CTGATATCATGTCCCAAACGTGGTCTTACACTACCGCTCACAAAATTG-C-
1 CTGATGCCATGTCCCAAACATGGTCTTACACT--GGCTCAC-ATATCGACG
* * **
25068873 C-GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTGG
1 CTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATCGACG
* * * * * *
25068920 CCGATGCCCTGTCCTAGACATGGTCTTACACTAGCGCACATATC
1 CTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATC
25068964 ACCCAAATGT
Statistics
Matches: 217, Mismatches: 57, Indels: 20
0.74 0.19 0.07
Matches are distributed among these distances:
45 4 0.02
46 5 0.02
47 4 0.02
48 194 0.89
49 2 0.01
50 5 0.02
51 3 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (48 bp):
CTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATCGACG
Found at i:25068805 original size:96 final size:94
Alignment explanation
Indices: 25068638--25068961 Score: 294
Period size: 96 Copynumber: 3.4 Consensus size: 94
25068628 ATTTCTGATG
* * * * * *
25068638 CCATGTTCCAAACATGGTCTTACATTGGCTCACAT-GTCGACGCTGATGCCATATCCCAAACATG
1 CCATGTCCCAAACATGGTCTTACACTGGCTCACATAAT-G-TGCCGATGCCATGTCCCAAACATG
* * * *
25068702 GTTTTACACAAGCTCTCGTCTCAATGTCGATA
64 GTCTTACACTAGCTCTCATATCAATG-CGATA
* * *
25068734 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCCAGACATGG
1 CCATGTCCCAAACATGGTCTTACACTGGCTCACATAATGT-GCCGATGCCATGTCCCAAACATGG
* *
25068799 TCTTACACTAGCGCACATATCAATGCTGATA
65 TCTTACACTAGCTCTCATATCAATGC-GATA
* * * * *
25068830 TCATGTCCCAAACGTGGTCTTACACTACCGCTCACAAAAT-TGCCGATGCCATGTTCCAAACATG
1 CCATGTCCCAAACATGGTCTTACACT--GGCTCACATAATGTGCCGATGCCATGTCCCAAACATG
* * *
25068894 GTCTTACACTGGCTCTCATATC-GTGGCCGATG
64 GTCTTACACTAGCTCTCATATCAAT-G-CGATA
* * * * *
25068926 CCCTGTCCTAGACATGGTCTTACACTAGCGCACATA
1 CCATGTCCCAAACATGGTCTTACACTGGCTCACATA
25068962 TCACCCAAAT
Statistics
Matches: 185, Mismatches: 36, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
94 7 0.04
95 2 0.01
96 164 0.89
97 3 0.02
98 9 0.05
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (94 bp):
CCATGTCCCAAACATGGTCTTACACTGGCTCACATAATGTGCCGATGCCATGTCCCAAACATGGT
CTTACACTAGCTCTCATATCAATGCGATA
Found at i:25076472 original size:96 final size:96
Alignment explanation
Indices: 25076308--25076626 Score: 326
Period size: 96 Copynumber: 3.3 Consensus size: 96
25076298 GGTGAATTTT
* * * *
25076308 CGATGCCATGTTCCAAACATGGTCTTACATTGG--CTCAT-ATGTCGAGGCTGATGCCATGTCCC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGT---GGCCGATGCCATGTCCC
* * * *
25076370 AAACATGGTCTTACACTAGCTCTCTTCTGAATTC
63 AAACATGGTCTTACACTAGCTCTCATATCAATGC
* *
25076404 CGATGCCATGTCCCAGACATGGTCTTAAACTGGCTCTCATAATGTGGCCGATGCCATGTCCCAGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCCAAA
* *
25076469 CATGGTCTTACACTAGCGCACATATCAATGC
66 CATGGTCTTACACTAGCTCTCATATCAATGC
* ** * * * *
25076500 TGATTTCATGTCCCAGACGTGGTCTTACACTAGCGCTCACAAAAT-T-GCCGATGCCATGTTCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACT-G-GCTCTCATAATGTGGCCGATGCCATGTCCCA
* *
25076563 AACATGGTCTTACACTGGCTCTCATATC-GTGGC
64 AACATGGTCTTACACTAGCTCTCATATCAAT-GC
* * *
25076596 CGATGCCATGTCCTAGACAAGGTCTTTCACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
25076627 AGCGCACATA
Statistics
Matches: 185, Mismatches: 32, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
95 1 0.01
96 164 0.89
97 2 0.01
98 14 0.08
99 4 0.02
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.29
Consensus pattern (96 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCCAAA
CATGGTCTTACACTAGCTCTCATATCAATGC
Found at i:25076568 original size:144 final size:144
Alignment explanation
Indices: 25076308--25076639 Score: 425
Period size: 144 Copynumber: 2.3 Consensus size: 144
25076298 GGTGAATTTT
* * * * * * * *
25076308 CGATGCCATGTTCCAAACATGGTCTTACATTGGCTCATATGTCGAGGCTGATGCCATGTCCCAAA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAAGGCTGATGCCATGTCCCAAA
* * ** *
25076373 CATGGTCTTACACTAGCTCTCTTCTGAATTCCGATGCCATGTCCCAGACATGGTCTTAAACTGGC
66 CATGGTCTTACACTAGCGCTCTACAAAATTCCGATGCCATGTCCCAAACATGGTCTTAAACTGGC
25076438 TCTCATAAT-GTGGC
131 TCTCAT-ATCGTGGC
* ** *
25076452 CGATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAATGCTGATTTCATGTCCCAGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAAGGCTGATGCCATGTCCCAAA
* * *
25076517 CGTGGTCTTACACTAGCGCTC-ACAAAATTGCCGATGCCATGTTCCAAACATGGTCTTACACTGG
66 CATGGTCTTACACTAGCGCTCTACAAAATT-CCGATGCCATGTCCCAAACATGGTCTTAAACTGG
25076581 CTCTCATATCGTGGC
130 CTCTCATATCGTGGC
* * *
25076596 CGATGCCATGTCCTAGACAAGGTCTTTCACTAGCGCACATATCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCA
25076640 CCCAAATGTC
Statistics
Matches: 163, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
143 7 0.04
144 156 0.96
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (144 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAAGGCTGATGCCATGTCCCAAA
CATGGTCTTACACTAGCGCTCTACAAAATTCCGATGCCATGTCCCAAACATGGTCTTAAACTGGC
TCTCATATCGTGGC
Found at i:25076598 original size:48 final size:48
Alignment explanation
Indices: 25076308--25076638 Score: 269
Period size: 48 Copynumber: 6.9 Consensus size: 48
25076298 GGTGAATTTT
* * * * *
25076308 CGATGCCATGTTCCAAACATGGTCTTACATTGGCTCAT-ATGTCGAGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTC-TCATATCGTGGC
* *
25076356 TGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTC-T-TC-TGAATTC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCGTG---GC
* * *
25076404 CGATGCCATGTCCCAGACATGGTCTTAAACTGGCTCTCATAAT-GTGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCAT-ATCGTGGC
* * * *
25076452 CGATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAAT-GC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATC-GTGGC
* ** * * * * *** *
25076500 TGATTTCATGTCCCAGACGTGGTCTTACACTAGCGCTCACAAAATTGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCGTGGC
* *
25076548 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCGTGGC
* * * * * *
25076596 CGATGCCATGTCCTAGACAAGGTCTTTCACTAGCGCACATATC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATC
25076639 ACCCAAATGT
Statistics
Matches: 227, Mismatches: 45, Indels: 22
0.77 0.15 0.07
Matches are distributed among these distances:
45 1 0.00
46 2 0.01
47 6 0.03
48 213 0.94
49 2 0.01
51 3 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCGTGGC
Found at i:25085880 original size:44 final size:47
Alignment explanation
Indices: 25085768--25085891 Score: 150
Period size: 44 Copynumber: 2.7 Consensus size: 47
25085758 GTAGAGGTGA
* *
25085768 GTGCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGATGATGTT
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTC-AAGATGTT
* * *
25085816 -AGCCAGTGTAAGACGTGTCTGGGACATGCATCGG-CT-AAG-T-TT
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTT
25085858 CGTGCTAGTGTAAGACATGTCTGGGACATGCATC
1 -GTGCTAGTGTAAGACATGTCTGGGACATGCATC
25085892 AGCACGTGTA
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
42 2 0.03
43 1 0.02
44 31 0.47
46 2 0.03
47 30 0.45
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.28
Consensus pattern (47 bp):
GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTT
Found at i:25093008 original size:47 final size:45
Alignment explanation
Indices: 25092844--25093010 Score: 153
Period size: 47 Copynumber: 3.6 Consensus size: 45
25092834 GACGAGGGAT
* *
25092844 AGTGTAAGACATGTCTGGGACATGCATCAGCC-GCATCATGATAGCC
1 AGTGTAAGACATGTCTGGAACATGCATCAGCCTG-ATGATG-TAGCC
* * * * *
25092890 TGTGTCAGACCAT-TCTGGGACATGGCATCGGCGTAGAGGTGA-GT-GCC
1 AGTGTAAGA-CATGTCTGGAACAT-GCATCAGCCT-GA--TGATGTAGCC
25092937 AGTGTAAGACATGTCTGGAACATGCATCAGCCTTGATGATGTTAGCC
1 AGTGTAAGACATGTCTGGAACATGCATCAGCC-TGATGATG-TAGCC
*
25092984 AGTGTAAGACCTGTCTGGAACATGCAT
1 AGTGTAAGACATGTCTGGAACATGCAT
25093011 TGGCTAAGTT
Statistics
Matches: 99, Mismatches: 11, Indels: 21
0.76 0.08 0.16
Matches are distributed among these distances:
44 3 0.03
45 1 0.01
46 30 0.30
47 59 0.60
48 2 0.02
49 2 0.02
50 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGAACATGCATCAGCCTGATGATGTAGCC
Found at i:25095811 original size:31 final size:32
Alignment explanation
Indices: 25095749--25095811 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
25095739 GTTTATGAGC
* *
25095749 CTAGGGGCAAAATCATAATTTTTTGTGAAAGT
1 CTAGGGGCAAAATCATAATTTTTTATCAAAGT
** *
25095781 CTAGGGGCAAAATGGTCA-TTTTTATCAAAGT
1 CTAGGGGCAAAATCATAATTTTTTATCAAAGT
25095812 ATGAATTGTG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
31 11 0.42
32 15 0.58
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.33
Consensus pattern (32 bp):
CTAGGGGCAAAATCATAATTTTTTATCAAAGT
Found at i:25096390 original size:50 final size:50
Alignment explanation
Indices: 25096315--25096753 Score: 511
Period size: 50 Copynumber: 8.9 Consensus size: 50
25096305 TGATGCTAGG
* * *
25096315 GAGATATGAAAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCTT
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
* **
25096365 GAGATATGAGAGCTAGTGTAAGACCATGACTGGGACATGGCATCATCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
*
25096415 GAGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
*
25096465 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
*
25096515 GAGATATGAGAGATAGTGTAAGACCATGTCTGGGACATGGCATCGG-CT-
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
* * * * *
25096563 -TGATATGTG-TC-AATGTAAGACCATGTTTGGGACATGGCATCGGCAC-C
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTC
* * * * * *
25096610 GATAGATGAGAGCCAGTGTAAGATCATGTATGGGACATGGCAT-TGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
* * * *
25096659 GATATACGAGAG-TCAGTGTAAGACCATGTCTGGGACATGGCATC-GACTT
1 GAGATATGAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
* * * * * * *
25096708 TA-ATGTGTGAGCCAGTGTAAGACCATGTCCGGGACATAGCGTCGGC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
25096754 ACCTTACCCT
Statistics
Matches: 333, Mismatches: 45, Indels: 23
0.83 0.11 0.06
Matches are distributed among these distances:
45 30 0.09
47 8 0.02
48 39 0.12
49 48 0.14
50 208 0.62
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (50 bp):
GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
Found at i:25098995 original size:21 final size:21
Alignment explanation
Indices: 25098971--25099014 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
25098961 TTTAGTTATC
*
25098971 TTTAGCATA-TATTTTAGCATT
1 TTTAGCATAGTAATTTA-CATT
*
25098992 TTTAGCTTAGTAATTTACATT
1 TTTAGCATAGTAATTTACATT
25099013 TT
1 TT
25099015 ATAACTCAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.27, C:0.09, G:0.09, T:0.55
Consensus pattern (21 bp):
TTTAGCATAGTAATTTACATT
Found at i:25102587 original size:48 final size:51
Alignment explanation
Indices: 25102461--25102598 Score: 176
Period size: 52 Copynumber: 2.7 Consensus size: 51
25102451 TCATTGGGAC
* *
25102461 ATATATTAAGTTGGCTTCGGGCCATGATATTGGCACTTCGAGTGCGAGTTAT
1 ATATATTGAGTTGGCTTC-GGCCATGATATTGGCACTTCGAGTGCGAGTGAT
* * *
25102513 ATATATTGAGTTGGCTACAGGCCATGATATTTGCACTTCGGGTGC-A-TGAT
1 ATATATTGAGTTGGCTTC-GGCCATGATATTGGCACTTCGAGTGCGAGTGAT
25102563 -T-TATTGAGTTGGCTTCGGACCATGATATTGGCACTT
1 ATATATTGAGTTGGCTTCGG-CCATGATATTGGCACTT
25102599 AAGGTGTGAA
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
47 2 0.03
48 30 0.39
49 1 0.01
50 3 0.04
51 1 0.01
52 40 0.52
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.36
Consensus pattern (51 bp):
ATATATTGAGTTGGCTTCGGCCATGATATTGGCACTTCGAGTGCGAGTGAT
Found at i:25115973 original size:41 final size:41
Alignment explanation
Indices: 25115926--25116112 Score: 277
Period size: 41 Copynumber: 4.6 Consensus size: 41
25115916 AACTGAACAA
25115926 TAGCGGCGCTTTTGGAAAAACGCCACTATAGATCGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCACTATAGATCGAGGTTT
** *
25115967 TAGCGGCGCTTTTGGAAAAACGCTTCTATAGATTGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCACTATAGATCGAGGTTT
* * *
25116008 TAGTGGCGCTTTTCGAAAAACGCCGCTATAGATC-AGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCACTATAGATCGAGGTTT
* *
25116048 TAGCGGCGCTTTTGGAAAAACGTCACTATAAATCGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCACTATAGATCGAGGTTT
* *
25116089 TAGCTGCGCTTTTTGAAAAACGCC
1 TAGCGGCGCTTTTGGAAAAACGCC
25116113 GCAAAAAAGT
Statistics
Matches: 129, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
40 35 0.27
41 94 0.73
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (41 bp):
TAGCGGCGCTTTTGGAAAAACGCCACTATAGATCGAGGTTT
Found at i:25116063 original size:81 final size:83
Alignment explanation
Indices: 25115926--25116114 Score: 280
Period size: 81 Copynumber: 2.3 Consensus size: 83
25115916 AACTGAACAA
* *
25115926 TAGC-GGCGCTTTTGGAAAAACGCCACTATAGATCGAGGTTTTAGCGGCGCTTTTGGAAAAACG-
1 TAGCTGGCGCTTTTCGAAAAACGCCGCTATAGATCGAGGTTTTAGCGGCGCTTTTGGAAAAACGT
* * *
25115989 CTTCTATAGATTGAGGTTT
66 C-ACTATAAATCGAGGTTT
25116008 TAG-TGGCGCTTTTCGAAAAACGCCGCTATAGATC-AGGTTTTAGCGGCGCTTTTGGAAAAACGT
1 TAGCTGGCGCTTTTCGAAAAACGCCGCTATAGATCGAGGTTTTAGCGGCGCTTTTGGAAAAACGT
25116071 CACTATAAATCGAGGTTT
66 CACTATAAATCGAGGTTT
*
25116089 TAGCT-GCGCTTTTTGAAAAACGCCGC
1 TAGCTGGCGCTTTTCGAAAAACGCCGC
25116115 AAAAAAGTAA
Statistics
Matches: 98, Mismatches: 6, Indels: 7
0.88 0.05 0.06
Matches are distributed among these distances:
81 65 0.66
82 33 0.34
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (83 bp):
TAGCTGGCGCTTTTCGAAAAACGCCGCTATAGATCGAGGTTTTAGCGGCGCTTTTGGAAAAACGT
CACTATAAATCGAGGTTT
Found at i:25116174 original size:7 final size:7
Alignment explanation
Indices: 25116129--25116197 Score: 50
Period size: 7 Copynumber: 9.9 Consensus size: 7
25116119 AAGTAATTTA
25116129 GTTTATGG
1 GTTTA-GG
*
25116137 G-TTATG
1 GTTTAGG
*
25116143 GTTTAGT
1 GTTTAGG
25116150 GTTTAGG
1 GTTTAGG
** *
25116157 GCCTAGA
1 GTTTAGG
25116164 GTTTAGG
1 GTTTAGG
*
25116171 GTTTGGG
1 GTTTAGG
*
25116178 GTTTGGG
1 GTTTAGG
*
25116185 GTTTGGG
1 GTTTAGG
25116192 GTTTAG
1 GTTTAG
25116198 AGATAAATAT
Statistics
Matches: 48, Mismatches: 12, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
6 2 0.04
7 45 0.94
8 1 0.02
ACGTcount: A:0.12, C:0.03, G:0.42, T:0.43
Consensus pattern (7 bp):
GTTTAGG
Found at i:25116181 original size:14 final size:14
Alignment explanation
Indices: 25116164--25116197 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
25116154 AGGGCCTAGA
25116164 GTTTAGGGTTTGGG
1 GTTTAGGGTTTGGG
*
25116178 GTTTGGGGTTTGGG
1 GTTTAGGGTTTGGG
25116192 GTTTAG
1 GTTTAG
25116198 AGATAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.00, G:0.50, T:0.44
Consensus pattern (14 bp):
GTTTAGGGTTTGGG
Found at i:25120467 original size:27 final size:27
Alignment explanation
Indices: 25120423--25120475 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
25120413 CTCAACATCG
25120423 AATGCATTTCAAACGGTCTAAACCCTA
1 AATGCATTTCAAACGGTCTAAACCCTA
* *
25120450 AATGCATTTGAAATGGTCTAAACCCT
1 AATGCATTTCAAACGGTCTAAACCCT
25120476 TTGTGCTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (27 bp):
AATGCATTTCAAACGGTCTAAACCCTA
Found at i:25121437 original size:36 final size:36
Alignment explanation
Indices: 25121390--25121460 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
25121380 AGAGACCAAC
*
25121390 AGTTTGGTGTTGCAACGATCAGGCGTTTTCTGTTCT
1 AGTTTGGTGTTGCAACGATCAGACGTTTTCTGTTCT
25121426 AGTTTGGTGTTGCAACGATCAGACGTTTTCTGTTC
1 AGTTTGGTGTTGCAACGATCAGACGTTTTCTGTTC
25121461 CATGGAAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.15, C:0.17, G:0.27, T:0.41
Consensus pattern (36 bp):
AGTTTGGTGTTGCAACGATCAGACGTTTTCTGTTCT
Found at i:25121879 original size:31 final size:30
Alignment explanation
Indices: 25121839--25121897 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 30
25121829 TATTTTTATA
25121839 TTTAATCT-AATTTTTATTATTTATTTTAGT
1 TTTAATCTAAATTTTTATT-TTTATTTTAGT
25121869 TTTAATTCTAAATTTTTATTTTTATTTTA
1 TTTAA-TCTAAATTTTTATTTTTATTTTA
25121898 ATATTTAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 5 0.19
31 12 0.44
32 10 0.37
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (30 bp):
TTTAATCTAAATTTTTATTTTTATTTTAGT
Found at i:25125750 original size:43 final size:43
Alignment explanation
Indices: 25125694--25125856 Score: 227
Period size: 43 Copynumber: 3.8 Consensus size: 43
25125684 AATATTTTTT
*
25125694 TAAAGGCTATGATTTTTAGCGGCGTTTGTGGGAAAAACGCCGC
1 TAAAGGCCATGATTTTTAGCGGCGTTTGTGGGAAAAACGCCGC
* * * *
25125737 TAAATGTCATGATTTTTAGCGGCGTTTATGGGAAAAATGCCGC
1 TAAAGGCCATGATTTTTAGCGGCGTTTGTGGGAAAAACGCCGC
* * *
25125780 TAAAGGCCATGATTTTTGGCGACGTTTGTGGGAAAAGCGCCGC
1 TAAAGGCCATGATTTTTAGCGGCGTTTGTGGGAAAAACGCCGC
** *
25125823 TAAAGGCCATGACCTTTAGCTGCGTTTGTGGGAA
1 TAAAGGCCATGATTTTTAGCGGCGTTTGTGGGAA
25125857 TGGCCTTTAG
Statistics
Matches: 103, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 103 1.00
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (43 bp):
TAAAGGCCATGATTTTTAGCGGCGTTTGTGGGAAAAACGCCGC
Found at i:25127866 original size:5 final size:5
Alignment explanation
Indices: 25127856--25127891 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
25127846 GAGCCAAAAC
25127856 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
25127892 GGTTGGTATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:25131306 original size:16 final size:16
Alignment explanation
Indices: 25131287--25131318 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25131277 ATAAACATCA
*
25131287 TAAATTAATTAATTTT
1 TAAATTAAATAATTTT
25131303 TAAATTAAATAATTTT
1 TAAATTAAATAATTTT
25131319 CTCAACTCGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TAAATTAAATAATTTT
Found at i:25133883 original size:21 final size:20
Alignment explanation
Indices: 25133858--25133903 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
25133848 CACGACCTGG
25133858 CCACACGACCATGTAACCCTT
1 CCACACG-CCATGTAACCCTT
* *
25133879 CCACACGGCATGTAGCCCTT
1 CCACACGCCATGTAACCCTT
25133899 CCACA
1 CCACA
25133904 TGGCCTCTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.26, C:0.43, G:0.13, T:0.17
Consensus pattern (20 bp):
CCACACGCCATGTAACCCTT
Found at i:25133985 original size:14 final size:14
Alignment explanation
Indices: 25133966--25133992 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25133956 ATAGTTTTGC
25133966 CCATAATTTTGAGT
1 CCATAATTTTGAGT
25133980 CCATAATTTTGAG
1 CCATAATTTTGAG
25133993 AATTGTTCTA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (14 bp):
CCATAATTTTGAGT
Found at i:25134293 original size:34 final size:34
Alignment explanation
Indices: 25134250--25134337 Score: 104
Period size: 34 Copynumber: 2.6 Consensus size: 34
25134240 CGTACTAACT
* * * *
25134250 TGTTGTAAGCATGTTTATTGCTACTGTATTGATA
1 TGTTATAAGCATGTCTATTACTACCGTATTGATA
*
25134284 TGTTATAAGCATGTCTATTACTACCGTATTGATC
1 TGTTATAAGCATGTCTATTACTACCGTATTGATA
**
25134318 TACTATAAGCATGTCATATT
1 TGTTATAAGCATGTC-TATT
25134338 GTATTGTATG
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
34 42 0.91
35 4 0.09
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.43
Consensus pattern (34 bp):
TGTTATAAGCATGTCTATTACTACCGTATTGATA
Found at i:25134530 original size:45 final size:45
Alignment explanation
Indices: 25134439--25134650 Score: 239
Period size: 45 Copynumber: 4.7 Consensus size: 45
25134429 ATCTATATGG
* * *
25134439 ATGAGTGGTTTATCCATACTGTATT-GTAGCTTTTAT-TAACACCA
1 ATGAGTGGTTTATCCACACCGTATTAGCAGCTTTTATCT-ACACCA
* ** *
25134483 ATGAGTGGTTTATCCACACCGTATTAGCAGCTTTTATATGTATCA
1 ATGAGTGGTTTATCCACACCGTATTAGCAGCTTTTATCTACACCA
* ** * *
25134528 ATGAGTGGTTTATCCACACCATATTAAAAGCATTTATCTACATCA
1 ATGAGTGGTTTATCCACACCGTATTAGCAGCTTTTATCTACACCA
** * **
25134573 ATGAGTGGTTTATCCACATTGTACTAGCAATTTTTATCTACACCA
1 ATGAGTGGTTTATCCACACCGTATTAGCAGCTTTTATCTACACCA
*
25134618 ATGAGTGGTTTATCCACACCGTACTAGCAGCTT
1 ATGAGTGGTTTATCCACACCGTATTAGCAGCTT
25134651 ATCTGCAAAA
Statistics
Matches: 139, Mismatches: 27, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
44 23 0.17
45 115 0.83
46 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (45 bp):
ATGAGTGGTTTATCCACACCGTATTAGCAGCTTTTATCTACACCA
Found at i:25137141 original size:21 final size:22
Alignment explanation
Indices: 25137116--25137160 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
25137106 TTTAGATTAC
25137116 ACAAAAAGCATCGATA-CTTTT
1 ACAAAAAGCATCGATACCTTTT
* *
25137137 ACAAAAAGTATTGATACCTTTT
1 ACAAAAAGCATCGATACCTTTT
25137159 AC
1 AC
25137161 CAGGTCTCGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (22 bp):
ACAAAAAGCATCGATACCTTTT
Found at i:25159750 original size:77 final size:77
Alignment explanation
Indices: 25159623--25159774 Score: 304
Period size: 77 Copynumber: 2.0 Consensus size: 77
25159613 TTCAACATAT
25159623 TTGATTGATGAATATTACTTACCAAAAAAGAAAACAAAAAATAAGGTTAATTCCCACAAACATCC
1 TTGATTGATGAATATTACTTACCAAAAAAGAAAACAAAAAATAAGGTTAATTCCCACAAACATCC
25159688 TCAACTTATTAC
66 TCAACTTATTAC
25159700 TTGATTGATGAATATTACTTACCAAAAAAGAAAACAAAAAATAAGGTTAATTCCCACAAACATCC
1 TTGATTGATGAATATTACTTACCAAAAAAGAAAACAAAAAATAAGGTTAATTCCCACAAACATCC
25159765 TCAACTTATT
66 TCAACTTATT
25159775 TTCTAAGTTT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 75 1.00
ACGTcount: A:0.47, C:0.18, G:0.08, T:0.28
Consensus pattern (77 bp):
TTGATTGATGAATATTACTTACCAAAAAAGAAAACAAAAAATAAGGTTAATTCCCACAAACATCC
TCAACTTATTAC
Found at i:25160631 original size:17 final size:17
Alignment explanation
Indices: 25160606--25160644 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
25160596 GATTAAAAAA
*
25160606 TATTTAATATATTATT-T
1 TATTAAATAT-TTATTAT
25160623 TATTAAATATTTATTAT
1 TATTAAATATTTATTAT
25160640 TATTA
1 TATTA
25160645 TTTTGATGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TATTAAATATTTATTAT
Found at i:25167696 original size:99 final size:98
Alignment explanation
Indices: 25167501--25167962 Score: 297
Period size: 99 Copynumber: 4.4 Consensus size: 98
25167491 TCCTTCAAAC
* *
25167501 TTTAGATAGACATTTTATCATTCAAGAAGCAACTAACATTTTTTGAACATTTGAAACTTTTTATA
1 TTTAGATAGACATTTTACCATTCAAGAAGCAAATAACATTTTTTGAACATTTGAAACTTTTTATA
25167566 ATTTTATTGAACTTTTAAATGAATTTCTTAAAAT
66 ATTTTATT-AACTTTTAAATGAATTTCTTAAAAT
***
25167600 TTTAGATAGACATTTTACCATTCAAGAAGCAAATAACACATTTTTTTTTTGAGTTTTTGAAACTT
1 TTTAGATAGACATTTTACCATTCAAGAAGCAAAT-A-ACA----TTTTTTGAACATTTGAAACTT
25167665 TTTATATATTTATAGTTTTGTTGAA-TTTTAAAT-AAGTTTCTTAAAAT
60 TTTATA-ATTT-TA------TT-AACTTTTAAATGAA-TTTCTTAAAAT
* *
25167712 TTTATATAGACATTTTACCATTCAAGAAACAAATAACACGTTTTTTGTTTTAAACATTTGGAGTT
1 TTTAGATAGACATTTTACCATTCAAGAAGCAAATAACA--TTTTTTG-----AACATTT-GA---
* * * * * *
25167777 TTTATATTTTTTATGACTTTATTGAATTTTTAAATGAATTTTTTAAAAA
55 ---A-ACTTTTTATAATTTTATT-AACTTTTAAATGAATTTCTTAAAAT
* * * * * * *
25167826 TTTAGATAGATATTCTT-CCATTCAAGAA-AAAATGACAATTTTTTTAAAATTTTTGGAGC--TT
1 TTTAGATAGACATT-TTACCATTCAAGAAGCAAATAAC-ATTTTTTGAACA--TTTGAAACTTTT
* * *
25167887 TATATTTTTATTGAATTTTTAAATGAATTTTTTAAAAT
62 TATAATTTTATT-AACTTTTAAATGAATTTCTTAAAAT
* * * *
25167925 TTAAGATAGACATTTTACCATTGAAAAAGTAAATAACA
1 TTTAGATAGACATTTTACCATTCAAGAAGCAAATAACA
25167963 CACTTTTTTT
Statistics
Matches: 291, Mismatches: 36, Indels: 72
0.73 0.09 0.18
Matches are distributed among these distances:
98 2 0.01
99 90 0.31
100 7 0.02
101 3 0.01
102 1 0.00
105 24 0.08
106 4 0.01
107 5 0.02
108 8 0.03
109 3 0.01
110 3 0.01
111 3 0.01
112 57 0.20
113 20 0.07
114 43 0.15
115 4 0.01
119 2 0.01
120 4 0.01
121 8 0.03
ACGTcount: A:0.37, C:0.08, G:0.09, T:0.46
Consensus pattern (98 bp):
TTTAGATAGACATTTTACCATTCAAGAAGCAAATAACATTTTTTGAACATTTGAAACTTTTTATA
ATTTTATTAACTTTTAAATGAATTTCTTAAAAT
Found at i:25167729 original size:112 final size:110
Alignment explanation
Indices: 25167559--25168038 Score: 461
Period size: 112 Copynumber: 4.4 Consensus size: 110
25167549 ATTTGAAACT
*
25167559 TTTTATAATTTTATTGAACTTTTAAATGAATTTCTTAAAATTTTAGATAGACATTTTACCATTCA
1 TTTTATAATTTTATTGAATTTTTAAATGAATTTCTTAAAATTTTAGATAGACATTTTACCATTCA
* *
25167624 AGAAGCAAATAACACATTTTTTTTTTGAGTTTTTGAAACTTTTTATA
66 AGAAGCAAATAACACA-TTTTTTTTTAAATTTTTG-AACTTTTTATA
* * *
25167671 TATTTATAGTTTTGTTGAA-TTTTAAAT-AAGTTTCTTAAAATTTTATATAGACATTTTACCATT
1 T-TTTATAATTTTATTGAATTTTTAAATGAA-TTTCTTAAAATTTTAGATAGACATTTTACCATT
* * ** * *
25167734 CAAGAAACAAATAACACGTTTTTTGTTTTAAACATTTGGAGTTTTTATA
64 CAAGAAGCAAATAACAC-ATTTTT-TTTTAAATTTTTGAACTTTTTATA
* * * * *
25167783 TTTTTTATGACTTTATTGAATTTTTAAATGAATTTTTTAAAAATTTAGATAGATATTCTT-CCAT
1 --TTTTATAATTTTATTGAATTTTTAAATGAATTTCTTAAAATTTTAGATAGACATT-TTACCAT
* * * *
25167847 TCAAGAA-AAAATGACA-A-TTTTTTTAAAATTTTTGGAGC---TT-TA
63 TCAAGAAGCAAATAACACATTTTTTTTTAAATTTTT-GAACTTTTTATA
* * *
25167889 ---TAT--TTTTATTGAATTTTTAAATGAATTTTTTAAAATTTAAGATAGACATTTTACCATTGA
1 TTTTATAATTTTATTGAATTTTTAAATGAATTTCTTAAAATTTTAGATAGACATTTTACCATTCA
* * * * *
25167949 AAAAGTAAATAACACACTTTTTTTTGAATTTTTTGAATTTTTTATA
66 AGAAGCAAATAACACA-TTTTTTTTTAAATTTTTGAACTTTTTATA
**
25167995 TTTT-TAAATTTTATTGAAAATTTAAATGAATTTCTTAAAATTTT
1 TTTTAT-AATTTTATTGAATTTTTAAATGAATTTCTTAAAATTTT
25168039 TATTTGTACT
Statistics
Matches: 299, Mismatches: 44, Indels: 51
0.76 0.11 0.13
Matches are distributed among these distances:
98 2 0.01
99 52 0.17
100 7 0.02
101 4 0.01
102 2 0.01
103 14 0.05
105 2 0.01
106 4 0.01
107 2 0.01
108 1 0.00
109 10 0.03
110 5 0.02
111 34 0.11
112 71 0.24
113 44 0.15
114 41 0.14
115 4 0.01
ACGTcount: A:0.36, C:0.07, G:0.08, T:0.49
Consensus pattern (110 bp):
TTTTATAATTTTATTGAATTTTTAAATGAATTTCTTAAAATTTTAGATAGACATTTTACCATTCA
AGAAGCAAATAACACATTTTTTTTTAAATTTTTGAACTTTTTATA
Found at i:25167991 original size:18 final size:19
Alignment explanation
Indices: 25167968--25168017 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 19
25167958 TAACACACTT
*
25167968 TTTTTTGAAT-TTTTTGAA
1 TTTTTTGAATATTTTTAAA
25167986 TTTTTT--ATATTTTTAAA
1 TTTTTTGAATATTTTTAAA
*
25168003 TTTTATTGAAAATTT
1 TTTT-TTGAATATTT
25168018 AAATGAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 2 0.08
17 11 0.42
18 8 0.31
20 5 0.19
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (19 bp):
TTTTTTGAATATTTTTAAA
Found at i:25169661 original size:30 final size:29
Alignment explanation
Indices: 25169604--25169663 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 29
25169594 ATTTTCCCCC
* *
25169604 AAACTTTTACTCCCTCTCACTTTCCCCAA
1 AAACTTTTACTCCCTCCCACTTACCCCAA
25169633 AAACTTTTACGTCCCTCCCA-TCTACCCCAA
1 AAACTTTTAC-TCCCTCCCACT-TACCCCAA
25169663 A
1 A
25169664 CCCATCCCCC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 11 0.41
30 16 0.59
ACGTcount: A:0.27, C:0.42, G:0.02, T:0.30
Consensus pattern (29 bp):
AAACTTTTACTCCCTCCCACTTACCCCAA
Done.