Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_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: 13158977
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 38 of 64
Found at i:7698993 original size:21 final size:20
Alignment explanation
Indices: 7698967--7699006 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
7698957 GTAAAAAAAC
*
7698967 TTATTTAATTGTAAATATATT
1 TTATTTAATAG-AAATATATT
*
7698988 TTATTTTATAGAAATATAT
1 TTATTTAATAGAAATATAT
7699007 ATATTATGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (20 bp):
TTATTTAATAGAAATATATT
Found at i:7701883 original size:15 final size:15
Alignment explanation
Indices: 7701863--7701898 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
7701853 AGGTGATATT
7701863 ACACATCAATATGTA
1 ACACATCAATATGTA
*
7701878 ACACATCAGTATGTA
1 ACACATCAATATGTA
7701893 ACACAT
1 ACACAT
7701899 TGAAAAGCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.25
Consensus pattern (15 bp):
ACACATCAATATGTA
Found at i:7713184 original size:23 final size:23
Alignment explanation
Indices: 7713158--7713206 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
7713148 ATAAAGAACC
7713158 AAAATAAACT-TAAATATACCATT
1 AAAATAAACTCTAAATAT-CCATT
* *
7713181 AAAATAAAGTCTAAATATCTATT
1 AAAATAAACTCTAAATATCCATT
7713204 AAA
1 AAA
7713207 TCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (23 bp):
AAAATAAACTCTAAATATCCATT
Found at i:7718523 original size:21 final size:21
Alignment explanation
Indices: 7718497--7718552 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
7718487 TTATGACAAG
7718497 ATGTATCGGTACACATTCAAT
1 ATGTATCGGTACACATTCAAT
*
7718518 ATGTATCGGTACCCATTCAAT
1 ATGTATCGGTACACATTCAAT
*
7718539 ATGTATCGATACAC
1 ATGTATCGGTACAC
7718553 TCTTAAATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.32
Consensus pattern (21 bp):
ATGTATCGGTACACATTCAAT
Found at i:7719895 original size:21 final size:21
Alignment explanation
Indices: 7719853--7719895 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
7719843 TTTCTGGGCT
* *
7719853 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
7719874 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
7719895 A
1 A
7719896 CGAATATGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:7719947 original size:20 final size:20
Alignment explanation
Indices: 7719922--7719959 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7719912 GAATGCTAGA
*
7719922 GGGGAATCGATACCCCCAGG
1 GGGGAACCGATACCCCCAGG
*
7719942 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
7719960 TAATGAAAAA
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:0.24, C:0.34, G:0.32, T:0.11
Consensus pattern (20 bp):
GGGGAACCGATACCCCCAGG
Found at i:7720661 original size:103 final size:99
Alignment explanation
Indices: 7720440--7720653 Score: 383
Period size: 103 Copynumber: 2.1 Consensus size: 99
7720430 GTAGAGGGTC
*
7720440 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAATATGTGTGAAGTCTGGTGACATACTTGA
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGACATACTTGA
7720505 TCCTTGGTATATGTATATGATTCTTAAGGAATGA
66 TCCTTGGTATATGTATATGATTCTTAAGGAATGA
7720539 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGT--G--ACATAC
7720604 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
62 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
7720642 TATGTGGTCCTT
1 TATGTGGTCCTT
7720654 ATGGACATTA
Statistics
Matches: 110, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
99 53 0.48
101 1 0.01
103 56 0.51
ACGTcount: A:0.25, C:0.12, G:0.24, T:0.39
Consensus pattern (99 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGACATACTTGA
TCCTTGGTATATGTATATGATTCTTAAGGAATGA
Found at i:7720703 original size:23 final size:23
Alignment explanation
Indices: 7720670--7720732 Score: 92
Period size: 23 Copynumber: 2.7 Consensus size: 23
7720660 ATTATTATAT
7720670 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
7720693 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
7720716 GGCACTTA-GGTGCAATT
1 GGCAC-TACGGTGCAATT
7720733 ATATGAGCTG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
23 35 0.97
24 1 0.03
ACGTcount: A:0.21, C:0.27, G:0.27, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:7726811 original size:21 final size:21
Alignment explanation
Indices: 7726769--7726811 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
7726759 TTTCTGGGCT
* *
7726769 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
7726790 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
7726811 A
1 A
7726812 CGAATAAGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:7727535 original size:103 final size:103
Alignment explanation
Indices: 7727356--7727573 Score: 427
Period size: 103 Copynumber: 2.1 Consensus size: 103
7727346 GTAGAGGGTC
*
7727356 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
7727421 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
7727459 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
7727524 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
7727562 TATGTGGTCCTT
1 TATGTGGTCCTT
7727574 ATGGATATTA
Statistics
Matches: 114, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 114 1.00
ACGTcount: A:0.25, C:0.12, G:0.24, T:0.38
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
Found at i:7727623 original size:23 final size:23
Alignment explanation
Indices: 7727590--7727652 Score: 92
Period size: 23 Copynumber: 2.7 Consensus size: 23
7727580 ATTATTATAT
7727590 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
7727613 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
7727636 GGCACTTA-GGTGCAATT
1 GGCAC-TACGGTGCAATT
7727653 ATATGAGCTG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
23 35 0.97
24 1 0.03
ACGTcount: A:0.21, C:0.27, G:0.27, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:7728469 original size:31 final size:31
Alignment explanation
Indices: 7728431--7728550 Score: 204
Period size: 31 Copynumber: 3.9 Consensus size: 31
7728421 TCGAGGGTTG
*
7728431 CCTATGTTTTTCGGGACATATGGACTGATTA
1 CCTATGTTCTTCGGGACATATGGACTGATTA
* *
7728462 CCTATGTTCTTCGGGACACATGTACTGATTA
1 CCTATGTTCTTCGGGACATATGGACTGATTA
7728493 CCTATGTTCTTCGGGACATATGGACTGATTA
1 CCTATGTTCTTCGGGACATATGGACTGATTA
*
7728524 CCTATGTTCTTCAGGACATATGGACTG
1 CCTATGTTCTTCGGGACATATGGACTG
7728551 GTCATTCAGG
Statistics
Matches: 83, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 83 1.00
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.36
Consensus pattern (31 bp):
CCTATGTTCTTCGGGACATATGGACTGATTA
Found at i:7731348 original size:20 final size:20
Alignment explanation
Indices: 7731323--7731362 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
7731313 TCTAAGAGCT
7731323 CATTTAGGACCATATAGTTG
1 CATTTAGGACCATATAGTTG
*
7731343 CATTTAGGAGCATATAGTTG
1 CATTTAGGACCATATAGTTG
7731363 TATGTGGTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.35
Consensus pattern (20 bp):
CATTTAGGACCATATAGTTG
Found at i:7732879 original size:23 final size:23
Alignment explanation
Indices: 7732843--7732886 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
7732833 AACACAATTG
*
7732843 AATTTGCCAAGACATTTCCATCC
1 AATTTGCCAAGACATCTCCATCC
* *
7732866 AATTTTCCACGACATCTCCAT
1 AATTTGCCAAGACATCTCCAT
7732887 TTGCCACTAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.30, C:0.32, G:0.07, T:0.32
Consensus pattern (23 bp):
AATTTGCCAAGACATCTCCATCC
Found at i:7761992 original size:2 final size:2
Alignment explanation
Indices: 7761985--7762027 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
7761975 TACCTAAAAT
7761985 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7762027 T
1 T
7762028 GAGTTTAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7772670 original size:19 final size:20
Alignment explanation
Indices: 7772646--7772689 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
7772636 CGCATCGGCA
*
7772646 CGCATCGGCCCGCATCA-AC
1 CGCATCGGACCGCATCAGAC
*
7772665 CGCATCGGATCGCATCAGAC
1 CGCATCGGACCGCATCAGAC
7772685 CGCAT
1 CGCAT
7772690 TATGTACCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.23, C:0.41, G:0.23, T:0.14
Consensus pattern (20 bp):
CGCATCGGACCGCATCAGAC
Found at i:7773915 original size:12 final size:13
Alignment explanation
Indices: 7773890--7773918 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
7773880 ATTGTGTAAT
7773890 ATATATGTTGATA
1 ATATATGTTGATA
7773903 ATATATG-TGATA
1 ATATATGTTGATA
7773915 ATAT
1 ATAT
7773919 GTTTATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (13 bp):
ATATATGTTGATA
Found at i:7774016 original size:19 final size:19
Alignment explanation
Indices: 7773958--7774027 Score: 62
Period size: 19 Copynumber: 4.0 Consensus size: 19
7773948 TGCTCTGATA
* *
7773958 ATATGTTTATTGATAGATT
1 ATATGTTTATTGATATAAT
* *
7773977 ATATGCTTATT-A-AT--G
1 ATATGTTTATTGATATAAT
7773992 ATATGTTTATTGATATAAT
1 ATATGTTTATTGATATAAT
7774011 ATATG-TTA-TGATATAAT
1 ATATGTTTATTGATATAAT
7774028 TATTTGTTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
15 10 0.24
16 1 0.02
17 12 0.29
18 4 0.10
19 15 0.36
ACGTcount: A:0.36, C:0.01, G:0.13, T:0.50
Consensus pattern (19 bp):
ATATGTTTATTGATATAAT
Found at i:7774022 original size:17 final size:17
Alignment explanation
Indices: 7773987--7774063 Score: 57
Period size: 17 Copynumber: 4.3 Consensus size: 17
7773977 ATATGCTTAT
7773987 TAATGATATGTTTATTGATA
1 TAAT-ATATG-TTA-TGATA
7774007 TAATATATGTTATGATA
1 TAATATATGTTATGATA
*
7774024 TAATTATTTGTT-TGCATA
1 TAA-TATATGTTATG-ATA
* * *
7774042 GAATATATATTCTGATA
1 TAATATATGTTATGATA
*
7774059 GAATA
1 TAATA
7774064 CATGCTCCGA
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
17 24 0.48
18 17 0.34
19 5 0.10
20 4 0.08
ACGTcount: A:0.38, C:0.03, G:0.13, T:0.47
Consensus pattern (17 bp):
TAATATATGTTATGATA
Found at i:7776860 original size:26 final size:26
Alignment explanation
Indices: 7776822--7776927 Score: 133
Period size: 26 Copynumber: 4.1 Consensus size: 26
7776812 TTGGTTAACT
* * * *
7776822 TGTTAATAAATATTCTTCATGCATAG
1 TGTTATTACATATTGTTCATGCATAC
7776848 TGTTATTACATATTGTTCATGCATAC
1 TGTTATTACATATTGTTCATGCATAC
* *
7776874 TGTTATTGCATATTGTT-ACTGCATAT
1 TGTTATTACATATTGTTCA-TGCATAC
*
7776900 TGTTATTACATATTGTTCCTGCATAC
1 TGTTATTACATATTGTTCATGCATAC
7776926 TG
1 TG
7776928 CATACTATTA
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
25 1 0.01
26 68 0.99
ACGTcount: A:0.26, C:0.14, G:0.13, T:0.46
Consensus pattern (26 bp):
TGTTATTACATATTGTTCATGCATAC
Found at i:7776864 original size:13 final size:13
Alignment explanation
Indices: 7776841--7776916 Score: 91
Period size: 13 Copynumber: 5.8 Consensus size: 13
7776831 ATATTCTTCA
*
7776841 TGCATAGTGTTAT
1 TGCATATTGTTAT
*
7776854 TACATATTGTTCA-
1 TGCATATTGTT-AT
*
7776867 TGCATACTGTTAT
1 TGCATATTGTTAT
*
7776880 TGCATATTGTTAC
1 TGCATATTGTTAT
7776893 TGCATATTGTTAT
1 TGCATATTGTTAT
*
7776906 TACATATTGTT
1 TGCATATTGTT
7776917 CCTGCATACT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
12 1 0.02
13 51 0.96
14 1 0.02
ACGTcount: A:0.25, C:0.12, G:0.14, T:0.49
Consensus pattern (13 bp):
TGCATATTGTTAT
Found at i:7776927 original size:33 final size:33
Alignment explanation
Indices: 7776890--7776970 Score: 126
Period size: 33 Copynumber: 2.5 Consensus size: 33
7776880 TGCATATTGT
* *
7776890 TACTGCATATTGTTATTACATATTGTTCCTGCA
1 TACTGCATACTGTTATTACATATTGTTCATGCA
*
7776923 TACTGCATACTATTATTACATATTGTTCATGCA
1 TACTGCATACTGTTATTACATATTGTTCATGCA
*
7776956 TATTGCATACTGTTA
1 TACTGCATACTGTTA
7776971 GATACATACT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.27, C:0.17, G:0.11, T:0.44
Consensus pattern (33 bp):
TACTGCATACTGTTATTACATATTGTTCATGCA
Found at i:7777135 original size:13 final size:15
Alignment explanation
Indices: 7777101--7777137 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
7777091 TAGATTGAAT
7777101 TTGTTATTGCATAAC
1 TTGTTATTGCATAAC
7777116 TTGTTATTGCA-AAC
1 TTGTTATTGCATAAC
7777130 -TGTTATTG
1 TTGTTATTG
7777138 TGTTAATGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 8 0.36
14 3 0.14
15 11 0.50
ACGTcount: A:0.24, C:0.11, G:0.16, T:0.49
Consensus pattern (15 bp):
TTGTTATTGCATAAC
Found at i:7777654 original size:3 final size:3
Alignment explanation
Indices: 7777648--7777708 Score: 79
Period size: 3 Copynumber: 20.3 Consensus size: 3
7777638 TTTAAAAAAA
* *
7777648 TAT TATT TAT TAT TAT TAT TAT AAT AAT TAT TAT TAT TAT TAT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
7777694 TAT T-T TAT TAA TAT T
1 TAT TAT TAT TAT TAT T
7777709 TTTGTACCCC
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
2 2 0.04
3 47 0.90
4 3 0.06
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:7778721 original size:22 final size:22
Alignment explanation
Indices: 7778666--7778721 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
7778656 TGTTGACCTG
*
7778666 ATTTTTTTTCTAATAATTTTTTT
1 ATTTTTTTT-TAATAATTTATTT
* *
7778689 CTTTTTATTTAAT-ATTTATTT
1 ATTTTTTTTTAATAATTTATTT
7778710 ATTTGTTTTTTA
1 ATTT-TTTTTTA
7778722 TTTTACCATT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
21 10 0.37
22 10 0.37
23 7 0.26
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.73
Consensus pattern (22 bp):
ATTTTTTTTTAATAATTTATTT
Found at i:7779276 original size:16 final size:16
Alignment explanation
Indices: 7779246--7779314 Score: 56
Period size: 16 Copynumber: 4.6 Consensus size: 16
7779236 TTGCAGTTGA
*
7779246 ATTTGTTATTGATTGC
1 ATTTGTTTTTGATTGC
*
7779262 ATTTGTTTTTTATTG-
1 ATTTGTTTTTGATTGC
* *
7779277 A---GTTTTTTATTAC
1 ATTTGTTTTTGATTGC
* *
7779290 ATTTGTTTTAGATTGA
1 ATTTGTTTTTGATTGC
7779306 ATTTGTTTT
1 ATTTGTTTT
7779315 AAATGAATAT
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
12 10 0.24
13 1 0.02
15 1 0.02
16 30 0.71
ACGTcount: A:0.19, C:0.03, G:0.14, T:0.64
Consensus pattern (16 bp):
ATTTGTTTTTGATTGC
Found at i:7779315 original size:16 final size:15
Alignment explanation
Indices: 7779290--7779329 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
7779280 TTTTTATTAC
*
7779290 ATTTGTTTTAGATTGA
1 ATTTGTTTTA-AATGA
7779306 ATTTGTTTTAAATGA
1 ATTTGTTTTAAATGA
*
7779321 ATATGTTTT
1 ATTTGTTTT
7779330 TATTGTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (15 bp):
ATTTGTTTTAAATGA
Found at i:7781585 original size:60 final size:60
Alignment explanation
Indices: 7781476--7781588 Score: 158
Period size: 60 Copynumber: 1.9 Consensus size: 60
7781466 TTTAGGAACC
* **
7781476 AATTTAGAATGATGATCATAGTTTGGGGATGAAATTGAAATGATCAAAAGTTTGAGTACT
1 AATTTAGAATGATGATCATAGTTTAGGGATGAAATTGAAAACATCAAAAGTTTGAGTACT
*
7781536 AATTTAGAATGATAGAT-ATAGTTTAGGGATGAAATT-AAAACACTTAAAAGTTT
1 AATTTAGAATGAT-GATCATAGTTTAGGGATGAAATTGAAAACA-TCAAAAGTTT
7781589 AAGGATCATA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
59 4 0.09
60 40 0.85
61 3 0.06
ACGTcount: A:0.42, C:0.04, G:0.20, T:0.34
Consensus pattern (60 bp):
AATTTAGAATGATGATCATAGTTTAGGGATGAAATTGAAAACATCAAAAGTTTGAGTACT
Found at i:7783730 original size:21 final size:21
Alignment explanation
Indices: 7783704--7783764 Score: 122
Period size: 21 Copynumber: 2.9 Consensus size: 21
7783694 GTTTGGAGCA
7783704 TAGGTGTATCGGTACACTCTC
1 TAGGTGTATCGGTACACTCTC
7783725 TAGGTGTATCGGTACACTCTC
1 TAGGTGTATCGGTACACTCTC
7783746 TAGGTGTATCGGTACACTC
1 TAGGTGTATCGGTACACTC
7783765 AGTGTAAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.20, C:0.23, G:0.25, T:0.33
Consensus pattern (21 bp):
TAGGTGTATCGGTACACTCTC
Found at i:7784267 original size:13 final size:13
Alignment explanation
Indices: 7784249--7784282 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
7784239 TAAGATTTTC
*
7784249 TTTGAAAATCATT
1 TTTGAAAATCAAT
7784262 TTTG-AAATCAAT
1 TTTGAAAATCAAT
7784274 TTTGAAAAT
1 TTTGAAAAT
7784283 TACTTCCCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (13 bp):
TTTGAAAATCAAT
Found at i:7786007 original size:13 final size:13
Alignment explanation
Indices: 7785989--7786022 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
7785979 AATGGGCAAA
* *
7785989 TTTGAAAACTATT
1 TTTGAAAACGATG
7786002 TTTGAAAACGATG
1 TTTGAAAACGATG
7786015 TTTGAAAA
1 TTTGAAAA
7786023 TCATAATATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.38
Consensus pattern (13 bp):
TTTGAAAACGATG
Found at i:7786089 original size:20 final size:20
Alignment explanation
Indices: 7786046--7786091 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
7786036 AGTTTTCATG
*
7786046 AAAACAACATAATTAAATTA
1 AAAACAACATAATTAAAATA
** *
7786066 AAAACAACATTTTTAAAATC
1 AAAACAACATAATTAAAATA
7786086 AAAACA
1 AAAACA
7786092 TTTTTTTATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.63, C:0.13, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAACAACATAATTAAAATA
Found at i:7786553 original size:14 final size:14
Alignment explanation
Indices: 7786534--7786560 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7786524 CATAGCGAGG
7786534 ATGTATCGATACAT
1 ATGTATCGATACAT
7786548 ATGTATCGATACA
1 ATGTATCGATACA
7786561 CTGTGCAAAA
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:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (14 bp):
ATGTATCGATACAT
Found at i:7796512 original size:22 final size:23
Alignment explanation
Indices: 7796480--7796537 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
7796470 CTTAGGACTA
*
7796480 GGCTCCGGGTTTGAC-GTAATTG
1 GGCTCCGGGTTTGACAATAATTG
*
7796502 GGCTCCAGGTTT-ACTAATAATTG
1 GGCTCCGGGTTTGAC-AATAATTG
7796525 GGCTCCGGGTTTG
1 GGCTCCGGGTTTG
7796538 CTTGTAGTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 2 0.07
22 11 0.37
23 17 0.57
ACGTcount: A:0.16, C:0.19, G:0.33, T:0.33
Consensus pattern (23 bp):
GGCTCCGGGTTTGACAATAATTG
Found at i:7797052 original size:134 final size:134
Alignment explanation
Indices: 7796784--7797148 Score: 407
Period size: 134 Copynumber: 2.7 Consensus size: 134
7796774 TGTTACTTAA
* * * * *
7796784 GGAATATTAGATCTG-GGATAG-TGATCCATTCTGCTGTCACTCAGGGAATATTGAATC-AGGGC
1 GGAATATCAGATCTGAGGA-CGTTGATCTATTCTGTTGTCACTCAGGGAAGATTGAATCGA-GGC
* * * * * *
7796846 AGATTTGTTTTGTTGTTACTCGGGGAATATCAAATCTTGAAAGAGAGAGATCTGCTACGCTTCTT
64 AGACTTGTTCTGCTGTCACTCAGGGAATATCAAATATTGAAAGAGAGAGATCTGCTACGCTTCTT
7796911 TTAGAG
129 TTAGAG
* *
7796917 GGAATATCAGATCTGATGACGTTGATCTATTCTGTTATCACTCAGGGAAGATTGAATCGAGGCAG
1 GGAATATCAGATCTGAGGACGTTGATCTATTCTGTTGTCACTCAGGGAAGATTGAATCGAGGCAG
** * * * ***
7796982 ACTTGTTCCACTGTCACTTAGGGAATATCAAATATTGAAAGAGAGAGATTTGTTTTTCTT-TTTC
66 ACTTGTTCTGCTGTCACTCAGGGAATATCAAATATTGAAAGAGAGAGATCTGCTACGCTTCTTT-
*
7797046 TGGAG
130 TAGAG
* * * * *
7797051 GGAATATCAGATTTGGGGACGTTGATCTATT-TCGTTGTTACTCAGGGAAGATTGAATCGGGGTA
1 GGAATATCAGATCTGAGGACGTTGATCTATTCT-GTTGTCACTCAGGGAAGATTGAATCGAGGCA
*
7797115 GACTTGTTCTGCTGTCACTCAAGGAATATCAAAT
65 GACTTGTTCTGCTGTCACTCAGGGAATATCAAAT
7797149 CTATAAATTA
Statistics
Matches: 194, Mismatches: 33, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
133 19 0.10
134 174 0.90
135 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.33
Consensus pattern (134 bp):
GGAATATCAGATCTGAGGACGTTGATCTATTCTGTTGTCACTCAGGGAAGATTGAATCGAGGCAG
ACTTGTTCTGCTGTCACTCAGGGAATATCAAATATTGAAAGAGAGAGATCTGCTACGCTTCTTTT
AGAG
Found at i:7804750 original size:2 final size:2
Alignment explanation
Indices: 7804743--7804803 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
7804733 TCACGAATCT
7804743 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7804785 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
7804804 CACTATAAGC
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7805696 original size:54 final size:54
Alignment explanation
Indices: 7805612--7805920 Score: 406
Period size: 54 Copynumber: 5.7 Consensus size: 54
7805602 TGTCGATACC
* * *
7805612 CATATGTTGATGAATAA-TCATTTCGGCACTAAGTGTGTAATTCACGAAATTCAT
1 CATATGTTGATGAATAACT-GTTTCGGCACTAAGTGTGCAATTCACGGAATTCAT
* *
7805666 CATATGTTGATGAATAACTGTTTCGACACTAAGTGTGCAATTCATGGAATTCAT
1 CATATGTTGATGAATAACTGTTTCGGCACTAAGTGTGCAATTCACGGAATTCAT
* * *
7805720 CATATGTTGATAAATAACCGTTTTGGCACTAAGTGTGCAATTCACGGAATTCAT
1 CATATGTTGATGAATAACTGTTTCGGCACTAAGTGTGCAATTCACGGAATTCAT
** ** *
7805774 CATATGTTGATGAATAACCATTTTTGCACTAAGTGTGCAATTCATGGAATTCAT
1 CATATGTTGATGAATAACTGTTTCGGCACTAAGTGTGCAATTCACGGAATTCAT
* * * * *
7805828 CATATTTTGATGAATAACGGTTTTGGCACTAAGTGTTCAAAGT-ACGGAATTCAT
1 CATATGTTGATGAATAACTGTTTCGGCACTAAGTGTGC-AATTCACGGAATTCAT
* *
7805882 CATATGTTGATGAATAACCGTTTCGGCACTATGTGTGCA
1 CATATGTTGATGAATAACTGTTTCGGCACTAAGTGTGCA
7805921 TCGTAATGAA
Statistics
Matches: 227, Mismatches: 26, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
53 1 0.00
54 222 0.98
55 4 0.02
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (54 bp):
CATATGTTGATGAATAACTGTTTCGGCACTAAGTGTGCAATTCACGGAATTCAT
Found at i:7805879 original size:162 final size:162
Alignment explanation
Indices: 7805612--7805920 Score: 458
Period size: 162 Copynumber: 1.9 Consensus size: 162
7805602 TGTCGATACC
* *
7805612 CATATGTTGATGAATAATCATTTCGGCACTAAGTGTGTAATTCACGAAATTCATCATATGTTGAT
1 CATATGTTGATGAATAACCATTTCGGCACTAAGTGTGCAATTCACGAAATTCATCATATGTTGAT
* * *
7805677 GAATAACTGTTTCGACACTAAGTGTGCAATTCATGGAATTCATCATATGTTGATAAATAACCGTT
66 GAATAACGGTTTCGACACTAAGTGTGCAAGTCACGGAATTCATCATATGTTGATAAATAACCGTT
*
7805742 TTGGCACTAAGTGTGCAATTCACGGAATTCAT
131 TCGGCACTAAGTGTGCAATTCACGGAATTCAT
** * * *
7805774 CATATGTTGATGAATAACCATTTTTGCACTAAGTGTGCAATTCATGGAATTCATCATATTTTGAT
1 CATATGTTGATGAATAACCATTTCGGCACTAAGTGTGCAATTCACGAAATTCATCATATGTTGAT
* * * *
7805839 GAATAACGGTTTTGGCACTAAGTGTTCAAAGT-ACGGAATTCATCATATGTTGATGAATAACCGT
66 GAATAACGGTTTCGACACTAAGTGTGC-AAGTCACGGAATTCATCATATGTTGATAAATAACCGT
*
7805903 TTCGGCACTATGTGTGCA
130 TTCGGCACTAAGTGTGCA
7805921 TCGTAATGAA
Statistics
Matches: 130, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
162 127 0.98
163 3 0.02
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (162 bp):
CATATGTTGATGAATAACCATTTCGGCACTAAGTGTGCAATTCACGAAATTCATCATATGTTGAT
GAATAACGGTTTCGACACTAAGTGTGCAAGTCACGGAATTCATCATATGTTGATAAATAACCGTT
TCGGCACTAAGTGTGCAATTCACGGAATTCAT
Found at i:7807016 original size:23 final size:23
Alignment explanation
Indices: 7806959--7807033 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 23
7806949 TAGGGTTAAG
* * *
7806959 ACTGGGCTCCAGGTGTG-ATGTA
1 ACTGGGCTCCGGGTTTGCTTGTA
* * *
7806981 ATTGGACTTCGGGTTTGCTTGTA
1 ACTGGGCTCCGGGTTTGCTTGTA
*
7807004 ACTGGGCTCCGGGTTTGCTTCTA
1 ACTGGGCTCCGGGTTTGCTTGTA
*
7807027 ATTGGGC
1 ACTGGGC
7807034 CCGATTTTTG
Statistics
Matches: 41, Mismatches: 11, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
22 12 0.29
23 29 0.71
ACGTcount: A:0.13, C:0.19, G:0.33, T:0.35
Consensus pattern (23 bp):
ACTGGGCTCCGGGTTTGCTTGTA
Found at i:7808278 original size:2 final size:2
Alignment explanation
Indices: 7808273--7808311 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
7808263 TTTAGATAGA
7808273 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7808312 ACTCATTCGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7814683 original size:17 final size:17
Alignment explanation
Indices: 7814661--7814694 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
7814651 CAATATATAC
7814661 TATTATTTTTAATTTTT
1 TATTATTTTTAATTTTT
7814678 TATTATTTTTAATTTTT
1 TATTATTTTTAATTTTT
7814695 AATTTCTTTA
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TATTATTTTTAATTTTT
Found at i:7814704 original size:16 final size:17
Alignment explanation
Indices: 7814662--7814705 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
7814652 AATATATACT
* *
7814662 ATTATTTTTAATTTTTT
1 ATTATCTTTAATTTTTA
*
7814679 ATTATTTTTAATTTTTA
1 ATTATCTTTAATTTTTA
7814696 ATT-TCTTTAA
1 ATTATCTTTAA
7814706 AAAAACAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 6 0.24
17 19 0.76
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (17 bp):
ATTATCTTTAATTTTTA
Found at i:7815978 original size:2 final size:2
Alignment explanation
Indices: 7815965--7815994 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
7815955 TTCTCTAACC
*
7815965 AT AT AG 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
7815995 TCATATTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7816982 original size:13 final size:13
Alignment explanation
Indices: 7816964--7817010 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
7816954 AAGTATTGTA
*
7816964 ATATTATTATAAT
1 ATATTATTATATT
*
7816977 ATATTATTATTTT
1 ATATTATTATATT
*
7816990 GTATTATTATATT
1 ATATTATTATATT
7817003 A-ATTATTA
1 ATATTATTA
7817011 CAATTTTACA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
12 7 0.24
13 22 0.76
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (13 bp):
ATATTATTATATT
Found at i:7818036 original size:16 final size:16
Alignment explanation
Indices: 7818015--7818046 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7818005 ACACGTGAGC
*
7818015 CTTTGTAATTTTGTAA
1 CTTTGTAATTTGGTAA
7818031 CTTTGTAATTTGGTAA
1 CTTTGTAATTTGGTAA
7818047 TTAAAAGCAT
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:0.25, C:0.06, G:0.16, T:0.53
Consensus pattern (16 bp):
CTTTGTAATTTGGTAA
Found at i:7818126 original size:2 final size:2
Alignment explanation
Indices: 7818119--7818155 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
7818109 ATTATTACGC
7818119 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7818156 ATTAGGTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7829775 original size:36 final size:36
Alignment explanation
Indices: 7829735--7829830 Score: 131
Period size: 36 Copynumber: 2.7 Consensus size: 36
7829725 TCGAATCTGA
** *
7829735 CCTTCACGGAAGAGTAGTGAAGTC-ATTCAAATCAAG
1 CCTTCACAAAAGAGTAGTGAAG-CGATACAAATCAAG
* *
7829771 CCTTCACAAAAGAGTAGTGAAGCGATACACATCCAG
1 CCTTCACAAAAGAGTAGTGAAGCGATACAAATCAAG
7829807 CCTTCACAAAAGAGTAGTGAAGCG
1 CCTTCACAAAAGAGTAGTGAAGCG
7829831 GGAACAGATT
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
35 1 0.02
36 53 0.98
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.19
Consensus pattern (36 bp):
CCTTCACAAAAGAGTAGTGAAGCGATACAAATCAAG
Found at i:7830031 original size:13 final size:13
Alignment explanation
Indices: 7830013--7830055 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
7830003 TCGTTATAAG
*
7830013 TATTATAATATAT
1 TATTATATTATAT
* *
7830026 TATTATTTTGTAT
1 TATTATATTATAT
7830039 TATTATATTA-AT
1 TATTATATTATAT
7830051 TATTA
1 TATTA
7830056 CAATTTTACA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
12 7 0.28
13 18 0.72
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (13 bp):
TATTATATTATAT
Found at i:7833378 original size:60 final size:60
Alignment explanation
Indices: 7833279--7833391 Score: 147
Period size: 60 Copynumber: 1.9 Consensus size: 60
7833269 CATTGAAAGA
** * *
7833279 TTCAAAAGTTTGGGGACTAATTTAGAATGAAGTTCATAG-TTTGAGGATGAAATATAAATT
1 TTCAAAAGTTTAAGGACTAATTTAAAATGAAATTCATAGTTTTG-GGATGAAATATAAATT
** *
7833339 TTCAAAAGTTTAAGGACTGGTTTAAAATGAAATTGATAGTTTTGGGATGAAAT
1 TTCAAAAGTTTAAGGACTAATTTAAAATGAAATTCATAGTTTTGGGATGAAAT
7833392 TAGAATAAAG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
60 41 0.91
61 4 0.09
ACGTcount: A:0.38, C:0.04, G:0.22, T:0.35
Consensus pattern (60 bp):
TTCAAAAGTTTAAGGACTAATTTAAAATGAAATTCATAGTTTTGGGATGAAATATAAATT
Found at i:7838618 original size:138 final size:139
Alignment explanation
Indices: 7838322--7838697 Score: 470
Period size: 138 Copynumber: 2.7 Consensus size: 139
7838312 GTCCTTTGAC
* *
7838322 TTAGGAGAATTTTTAATTTGGTCCTCATTTTTGCTCGAGATTCTATTTTAATTATTCGAATCAAT
1 TTAGGAGAATTTTTAATTTGGTCCTCACTTTTGCTCGAGATTCCATTTTAATTATTCGAATCAAT
* * * * *
7838387 TATTGGTTAAAATTTACTAGG-TTAATAATTAGAGCCTTCACTTTAGGCCTAATTTCAAATTTAA
66 AATTGATTAAAATTAATTAGGATTAAT-ATTAGAGCCTTCACTTTAGGCCTAATTTCAAACTTAA
*
7838451 TCCTTTTAAT
130 TCCCTTTAAT
* * * *
7838461 TTAGGAGAATTTTTTATTTGGTCCTCGCTTTTGTTCGACATTCCATTTTAATTATTCGAATC-AT
1 TTAGGAGAATTTTTAATTTGGTCCTCACTTTTGCTCGAGATTCCATTTTAATTATTCGAATCAAT
* * * *
7838525 AATTGATTAAAATTAATTAGGATTAATATTAGATCCTTCATTTTAGGCTTAATTTCAAACTTAGT
66 AATTGATTAAAATTAATTAGGATTAATATTAGAGCCTTCACTTTAGGCCTAATTTCAAACTTAAT
7838590 CCCTTTAAT
131 CCCTTTAAT
* * * * * **
7838599 TTTGGCA-AATTTTAAATTTGGTCCTCACTTTTGCTCGAGGTTTCATTTTAATTATTTGTTTCAA
1 TTAGG-AGAATTTTTAATTTGGTCCTCACTTTTGCTCGAGATTCCATTTTAATTATTCGAATCAA
* * * *
7838663 TAATTTATTAAAAATGATTTGGATTAATATTAGAG
65 TAATTGATTAAAATTAATTAGGATTAATATTAGAG
7838698 TCTACATTTT
Statistics
Matches: 202, Mismatches: 32, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
138 109 0.54
139 93 0.46
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.46
Consensus pattern (139 bp):
TTAGGAGAATTTTTAATTTGGTCCTCACTTTTGCTCGAGATTCCATTTTAATTATTCGAATCAAT
AATTGATTAAAATTAATTAGGATTAATATTAGAGCCTTCACTTTAGGCCTAATTTCAAACTTAAT
CCCTTTAAT
Found at i:7839878 original size:36 final size:34
Alignment explanation
Indices: 7839837--7839903 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 34
7839827 TTAAACTATT
*
7839837 ATAAAAATTATAAAATAA-TAATAAATATTGAAAGAA
1 ATAAAAA-TATAAAAAAATTAA-AAA-ATTGAAAGAA
7839873 ATAAAAATATAAAAAAATTAAAAAATTGAAA
1 ATAAAAATATAAAAAAATTAAAAAATTGAAA
7839904 CATTTTAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 7 0.24
35 12 0.41
36 10 0.34
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.25
Consensus pattern (34 bp):
ATAAAAATATAAAAAAATTAAAAAATTGAAAGAA
Found at i:7839880 original size:18 final size:18
Alignment explanation
Indices: 7839848--7839903 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 18
7839838 TAAAAATTAT
*
7839848 AAAATAATAATAAATATTG
1 AAAAAAATAA-AAATATTG
*
7839867 AAAGAAATAAAAATA-T-
1 AAAAAAATAAAAATATTG
7839883 AAAAAAATTAAAAA-ATTG
1 AAAAAAA-TAAAAATATTG
7839901 AAA
1 AAA
7839904 CATTTTAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
16 7 0.23
17 8 0.26
18 8 0.26
19 8 0.26
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.23
Consensus pattern (18 bp):
AAAAAAATAAAAATATTG
Found at i:7840949 original size:16 final size:16
Alignment explanation
Indices: 7840930--7840967 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
7840920 TATGAACCTG
*
7840930 ACATGTAATTGA-CTCA
1 ACATGTAAATGATC-CA
7840946 ACATGTAAATGATCCA
1 ACATGTAAATGATCCA
7840962 ACATGT
1 ACATGT
7840968 TGTTAAAGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 19 0.95
17 1 0.05
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.29
Consensus pattern (16 bp):
ACATGTAAATGATCCA
Found at i:7841068 original size:26 final size:26
Alignment explanation
Indices: 7841033--7841091 Score: 118
Period size: 26 Copynumber: 2.3 Consensus size: 26
7841023 TTATGTTATT
7841033 TTAAATTTATAATAAACTTATGATAA
1 TTAAATTTATAATAAACTTATGATAA
7841059 TTAAATTTATAATAAACTTATGATAA
1 TTAAATTTATAATAAACTTATGATAA
7841085 TTAAATT
1 TTAAATT
7841092 AATATGATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (26 bp):
TTAAATTTATAATAAACTTATGATAA
Found at i:7841089 original size:15 final size:14
Alignment explanation
Indices: 7841041--7841085 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
7841031 TTTTAAATTT
7841041 ATAATAAACTTATG
1 ATAATAAACTTATG
7841055 ATAATTAAA-TT-T-
1 ATAA-TAAACTTATG
7841067 ATAATAAACTTATG
1 ATAATAAACTTATG
7841081 ATAAT
1 ATAAT
7841086 TAAATTAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
11 4 0.15
12 6 0.22
13 2 0.07
14 11 0.41
15 4 0.15
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.40
Consensus pattern (14 bp):
ATAATAAACTTATG
Found at i:7842051 original size:29 final size:29
Alignment explanation
Indices: 7842014--7842193 Score: 204
Period size: 29 Copynumber: 6.2 Consensus size: 29
7842004 CCGTTGACCG
*
7842014 GGTGATATTTTAGTAATTATTTTGAAAAT
1 GGTGATATTTTGGTAATTATTTTGAAAAT
* * * *
7842043 GGTGGTATTCTGGCAACTATTTTGAAAAT
1 GGTGATATTTTGGTAATTATTTTGAAAAT
* *
7842072 GGTGATATTTTTGTAATT-TTTTTAAAGA-
1 GGTGATATTTTGGTAATTATTTTGAAA-AT
* *
7842100 AGTGATATTTTGGTAATTATTTTGTCAAA-
1 GGTGATATTTTGGTAATTATTTTG-AAAAT
*
7842129 GGTGATATTTTGGTAATTATTTTTAAAAT
1 GGTGATATTTTGGTAATTATTTTGAAAAT
* *
7842158 GGTGATATTTTGGAAAATATTTTGAAAAT
1 GGTGATATTTTGGTAATTATTTTGAAAAT
*
7842187 GCTGATA
1 GGTGATA
7842194 ATTGTGTAAA
Statistics
Matches: 125, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
28 26 0.21
29 97 0.78
30 2 0.02
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.46
Consensus pattern (29 bp):
GGTGATATTTTGGTAATTATTTTGAAAAT
Found at i:7847369 original size:29 final size:29
Alignment explanation
Indices: 7847321--7847524 Score: 188
Period size: 29 Copynumber: 7.2 Consensus size: 29
7847311 CGTTGACCGG
* * * *
7847321 GTGATATTTTAGTAAATATTGTGAAAATA
1 GTGATATTTTGGTAATTATTTTTAAAATA
*
7847350 GTGGTATTTTGGTAATTATTTTTAAAAT-
1 GTGATATTTTGGTAATTATTTTTAAAATA
* *
7847378 GATGTTATTTTCGTAATT-TTTTT-AAA-A
1 G-TGATATTTTGGTAATTATTTTTAAAATA
** *
7847405 GTGATATTTTTATAA-T-TTTTTAAAAAA
1 GTGATATTTTGGTAATTATTTTTAAAATA
*
7847432 GTGACATTTTGGTAATTATTTTGTAAAAT-
1 GTGATATTTTGGTAATTATTTT-TAAAATA
* *
7847461 GTTATATTTTGGTAATTATTTTTAAAATG
1 GTGATATTTTGGTAATTATTTTTAAAATA
* * * *
7847490 GTGATATTTTGGAAAATATTTTGAAAATG
1 GTGATATTTTGGTAATTATTTTTAAAATA
7847519 GTGATA
1 GTGATA
7847525 ATTGTGTAAA
Statistics
Matches: 147, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
25 6 0.04
26 14 0.10
27 17 0.12
28 13 0.09
29 92 0.63
30 5 0.03
ACGTcount: A:0.34, C:0.01, G:0.16, T:0.49
Consensus pattern (29 bp):
GTGATATTTTGGTAATTATTTTTAAAATA
Found at i:7847542 original size:29 final size:29
Alignment explanation
Indices: 7847484--7847542 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
7847474 AATTATTTTT
* **
7847484 AAAATGGTGATATTTTGGAAAATATTTTG
1 AAAATGGTGATATTGTGGAAAATAGGTTG
*
7847513 AAAATGGTGATAATTGTGTAAAAT-GGTTG
1 AAAATGGTGAT-ATTGTGGAAAATAGGTTG
7847542 A
1 A
7847543 GCATCTATTG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.37
Consensus pattern (29 bp):
AAAATGGTGATATTGTGGAAAATAGGTTG
Found at i:7849620 original size:20 final size:20
Alignment explanation
Indices: 7849597--7849645 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
7849587 TAACAAGTAG
*
7849597 AAGCAAGCAATATCAAACAA
1 AAGCAAGCAATATAAAACAA
* *
7849617 AAGCAAACAATATAAAACAG
1 AAGCAAGCAATATAAAACAA
*
7849637 AATCAAGCA
1 AAGCAAGCA
7849646 GAATCAAGCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.61, C:0.18, G:0.10, T:0.10
Consensus pattern (20 bp):
AAGCAAGCAATATAAAACAA
Found at i:7849860 original size:21 final size:21
Alignment explanation
Indices: 7849828--7849874 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
7849818 AACACCCTAA
7849828 AATTAA-AAACAAAATAAAAT
1 AATTAATAAACAAAATAAAAT
**
7849848 AATTAATAAACAATTTAAAAT
1 AATTAATAAACAAAATAAAAT
7849869 -ATTAAT
1 AATTAAT
7849875 GTCATTAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (21 bp):
AATTAATAAACAAAATAAAAT
Found at i:7852751 original size:65 final size:65
Alignment explanation
Indices: 7852617--7852777 Score: 231
Period size: 65 Copynumber: 2.5 Consensus size: 65
7852607 GTGCACTAAG
* *
7852617 AGTGAATCGATGCATGAAATGCATTCGATG-TTTCAAAATAGCCAGAGTGCATCGATGCATGGCT
1 AGTGCATCGATGCATGAAATGCATTCGATGTTTTCAAAATAGCCAGAGTGCATCGATGCATAGCT
* *
7852681 AGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-A-CTCTGAGTGCATCGATGCATAG
1 AGTGCATCGATGCATGAAATGCATTCGATGTTTTCA-AAATAGC-CAGAGTGCATCGATGCATAG
7852744 -T
64 CT
7852745 ATGTGCATCGATGCATGAAATGCATTCGATGTT
1 A-GTGCATCGATGCATGAAATGCATTCGATGTT
7852778 CAATTTATTC
Statistics
Matches: 88, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
64 31 0.35
65 54 0.61
66 3 0.03
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (65 bp):
AGTGCATCGATGCATGAAATGCATTCGATGTTTTCAAAATAGCCAGAGTGCATCGATGCATAGCT
Found at i:7853272 original size:2 final size:2
Alignment explanation
Indices: 7853265--7853289 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7853255 TAGCCAATTG
7853265 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
7853290 GCTTAAGCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7855473 original size:23 final size:22
Alignment explanation
Indices: 7855443--7855524 Score: 94
Period size: 23 Copynumber: 3.6 Consensus size: 22
7855433 GCATGGCCTT
7855443 GTGCATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
* * *
7855465 CGTGCATCGGTGCACCTTC-ATG
1 -GTGCATCGATGCACATTCAAGG
*
7855487 GTGTATCGATGCACATTCAAAGG
1 GTGCATCGATGCACATTC-AAGG
7855510 GATGCATCGATGCAC
1 G-TGCATCGATGCAC
7855525 TGTTAAGTGT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
21 15 0.31
22 2 0.04
23 19 0.40
24 12 0.25
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAGG
Found at i:7855535 original size:44 final size:44
Alignment explanation
Indices: 7855447--7855540 Score: 113
Period size: 44 Copynumber: 2.1 Consensus size: 44
7855437 GGCCTTGTGC
* *
7855447 ATCGATGCACATTCAAGGCGTGCATCGGTGCACCTTCATGGTGT
1 ATCGATGCACATTCAAGGCGTGCATCGATGCACCTTCATAGTGT
*
7855491 ATCGATGCACATTCAAAGG-GATGCATCGATGCA-CTGTTA-AGTGT
1 ATCGATGCACATTC-AAGGCG-TGCATCGATGCACCT-TCATAGTGT
7855535 ATCGAT
1 ATCGAT
7855541 TCAAGAAGCA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
44 27 0.61
45 17 0.39
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (44 bp):
ATCGATGCACATTCAAGGCGTGCATCGATGCACCTTCATAGTGT
Found at i:7859723 original size:24 final size:24
Alignment explanation
Indices: 7859689--7859760 Score: 99
Period size: 24 Copynumber: 3.0 Consensus size: 24
7859679 AAATGAAGAT
7859689 ATCAGAAATCAAAACAGAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * *
7859713 ATCAGATATCATAATAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAG
*
7859737 ATCAGAAATCAGAACAGAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
7859761 GCAATGTATC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.50, C:0.17, G:0.14, T:0.19
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:7864467 original size:24 final size:24
Alignment explanation
Indices: 7864440--7864511 Score: 99
Period size: 24 Copynumber: 3.0 Consensus size: 24
7864430 AAACGAAGAT
7864440 ATCAGAAATCAAAACAGAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * *
7864464 ATCAGATATCAGAATAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAG
*
7864488 ATCAGAAATCATAACAGAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
7864512 GCAATGTACC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.50, C:0.17, G:0.14, T:0.19
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:7865574 original size:26 final size:26
Alignment explanation
Indices: 7865545--7865597 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
7865535 TTAGTTTTAT
*
7865545 TCCATTCATTTCAGAGCTCGATGATA
1 TCCAATCATTTCAGAGCTCGATGATA
* * *
7865571 TCCAATCATTTCTGAGCTTGGTGATA
1 TCCAATCATTTCAGAGCTCGATGATA
7865597 T
1 T
7865598 TCTTGGGTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.38
Consensus pattern (26 bp):
TCCAATCATTTCAGAGCTCGATGATA
Found at i:7869217 original size:24 final size:24
Alignment explanation
Indices: 7869190--7869261 Score: 99
Period size: 24 Copynumber: 3.0 Consensus size: 24
7869180 AAACGAAGAT
7869190 ATCAGAAATCAAAACAGAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * *
7869214 ATCAGATATCAGAATAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAG
*
7869238 ATCAGAAATCATAACAGAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
7869262 GCAATGTACC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.50, C:0.17, G:0.14, T:0.19
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:7875106 original size:64 final size:63
Alignment explanation
Indices: 7875038--7875245 Score: 226
Period size: 65 Copynumber: 3.2 Consensus size: 63
7875028 TGCACTAAGA
* *
7875038 GTGCATCGATGCATGAAATGCGTTCGATGTTTCAAAATAGCCAGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTCAAAATA-CCAGAGTGCATCGATGCATGGATG
* * *
7875102 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ACTCTGAGTGCATCGATGCAT-AAT
1 GTGCATCGATGCATGAAATGCATTCGATG-TTTCA-AAATAC-CAGAGTGCATCGATGCATGGAT
*
7875165 AT
63 -G
* *
7875167 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTATTCCATG-GTGCATCGATGCATGGAT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTCAA--AATACCA-GAGTGCATCGATGCATGGA-
7875230 TG
62 TG
*
7875232 GTGCATCGGTGCAT
1 GTGCATCGATGCAT
7875246 CACTTTGAAA
Statistics
Matches: 121, Mismatches: 13, Indels: 19
0.79 0.08 0.12
Matches are distributed among these distances:
62 1 0.01
63 4 0.03
64 45 0.37
65 67 0.55
66 4 0.03
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (63 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTCAAAATACCAGAGTGCATCGATGCATGGATG
Found at i:7875171 original size:65 final size:64
Alignment explanation
Indices: 7875018--7875197 Score: 222
Period size: 65 Copynumber: 2.8 Consensus size: 64
7875008 TTGGACCCTT
* * *
7875018 AGTGCATCGGTGCACTAAGAGTGCATCGATGCATGAAATGCGTTCGATG-TTTCAAAATAGCCAG
1 AGTGCATCGATGCA-TAATAGTGCATCGATGCATGAAATGCATTCGATGTTTTCAAAATAGCCAG
** * *
7875082 AGTGCATCGATGCATGGCTGGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-A-CTC
1 AGTGCATCGATGCAT-AATAGTGCATCGATGCATGAAATGCATTCGATGTTTTCA-AAATAGC-C
*
7875145 TG
63 AG
7875147 AGTGCATCGATGCATAATATGTGCATCGATGCATGAAATGCATTCGATGTT
1 AGTGCATCGATGCATAATA-GTGCATCGATGCATGAAATGCATTCGATGTT
7875198 CAATTTATTC
Statistics
Matches: 99, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
63 1 0.01
64 42 0.42
65 53 0.54
66 3 0.03
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.29
Consensus pattern (64 bp):
AGTGCATCGATGCATAATAGTGCATCGATGCATGAAATGCATTCGATGTTTTCAAAATAGCCAG
Found at i:7875774 original size:6 final size:6
Alignment explanation
Indices: 7875759--7875839 Score: 96
Period size: 6 Copynumber: 13.8 Consensus size: 6
7875749 ACCTGGATTC
*
7875759 GGGTTT GGGTTC GGGTTT GGGTTT -GGTTT GGGTTT GGGTTT GGGTTT
1 GGGTTT GGGTTT GGGTTT GGGTTT GGGTTT GGGTTT GGGTTT GGGTTT
* * *
7875806 -GGTTC GGGCTTT -AGTTT GGGTTT GGGTTA GGGTT
1 GGGTTT GGG-TTT GGGTTT GGGTTT GGGTTT GGGTT
7875840 AGAGAAGATA
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
5 12 0.19
6 50 0.78
7 2 0.03
ACGTcount: A:0.02, C:0.04, G:0.47, T:0.47
Consensus pattern (6 bp):
GGGTTT
Found at i:7875790 original size:23 final size:23
Alignment explanation
Indices: 7875760--7875809 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
7875750 CCTGGATTCG
7875760 GGTTTGGGTTCGGGTTTGGGTTT
1 GGTTTGGGTTCGGGTTTGGGTTT
*
7875783 GGTTTGGGTTTGGGTTTGGGTTT
1 GGTTTGGGTTCGGGTTTGGGTTT
7875806 GGTT
1 GGTT
7875810 CGGGCTTTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.00, C:0.02, G:0.48, T:0.50
Consensus pattern (23 bp):
GGTTTGGGTTCGGGTTTGGGTTT
Found at i:7875822 original size:23 final size:23
Alignment explanation
Indices: 7875773--7875839 Score: 82
Period size: 23 Copynumber: 2.9 Consensus size: 23
7875763 TTGGGTTCGG
* *
7875773 GTTTGGGTTTGGTTTGGGTTTGG
1 GTTTGGGTTTGGTTCGGGTTTGA
7875796 GTTTGGGTTTGGTTCGGGCTTT-A
1 GTTTGGGTTTGGTTCGGG-TTTGA
*
7875819 GTTTGGGTTTGGGTTAGGGTT
1 GTTTGGGTTT-GGTTCGGGTT
7875840 AGAGAAGATA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
23 29 0.74
24 10 0.26
ACGTcount: A:0.03, C:0.03, G:0.45, T:0.49
Consensus pattern (23 bp):
GTTTGGGTTTGGTTCGGGTTTGA
Found at i:7876103 original size:103 final size:102
Alignment explanation
Indices: 7875984--7876328 Score: 462
Period size: 102 Copynumber: 3.4 Consensus size: 102
7875974 GGTGTTTGTA
*** *
7875984 AGGG-TTTGGGGAAGAACACTGATGAACAATGGATGAATTTGTGGGTGTTTGACTAAAAAAACAC
1 AGGGTTTTGGGGAAGAACTGGGATGAACAA-GGATGAATTTTTGGGTGTTTGACTAAAAAAACAC
* * *
7876048 TAAATGGTTTGGGTTTTGGTATTTTTGAAGATCAAAGG
65 GAAATGGTTTGGGTTTTGGTGTTTTTGAAGATCAAAAG
7876086 AGGGTTTTGGGGAAGAACTGGGATGAACACA-GATGAATTTTTGGGTGTTTGA-TAAAAAAAACA
1 AGGGTTTTGGGGAAGAACTGGGATGAACA-AGGATGAATTTTTGGGTGTTTGACT-AAAAAAACA
* * *
7876149 AGAAATGGTTTGGGATTTGGTGTTTTTGAAGATCAAATG
64 CGAAATGGTTTGGGTTTTGGTGTTTTTGAAGATCAAAAG
* * * * *
7876188 AGGGTTTTGGGGAAGAACTGGGATGGACACGGATGAATTTTTGGGTGTTTGATCGAAAACAATAC
1 AGGGTTTTGGGGAAGAACTGGGATGAACAAGGATGAATTTTTGGGTGTTTGA-CTAAAAAAACAC
*
7876253 GAAATGGTTTGGGTTTTGGTGTTTTTTAAGATCAAAAG
65 GAAATGGTTTGGGTTTTGGTGTTTTTGAAGATCAAAAG
* *
7876291 AGGATTTTGGGGAACAACTGGGATGAACAAGTGATGAA
1 AGGGTTTTGGGGAAGAACTGGGATGAACAAG-GATGAA
7876329 CATAGATGAA
Statistics
Matches: 214, Mismatches: 22, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
101 1 0.00
102 116 0.54
103 90 0.42
104 7 0.03
ACGTcount: A:0.32, C:0.06, G:0.31, T:0.31
Consensus pattern (102 bp):
AGGGTTTTGGGGAAGAACTGGGATGAACAAGGATGAATTTTTGGGTGTTTGACTAAAAAAACACG
AAATGGTTTGGGTTTTGGTGTTTTTGAAGATCAAAAG
Found at i:7876617 original size:61 final size:61
Alignment explanation
Indices: 7876541--7876677 Score: 193
Period size: 61 Copynumber: 2.2 Consensus size: 61
7876531 TCCTAGTTTT
* * * *
7876541 AAATTTGTTCAATTTAGTCCAAATTTAATGATGCAATATATTAATTTAAGCTTTATATTTC
1 AAATTTGTTCAATTTAGTCCAAAATTAATGATACAATATATTAATTTAAGCTTCATATTTA
* * ** *
7876602 AACTTTTTTCAATTTAGTCCAAAATTAATTTTACAATTTATTAATTTAAGCTTCATATTTA
1 AAATTTGTTCAATTTAGTCCAAAATTAATGATACAATATATTAATTTAAGCTTCATATTTA
7876663 AAATTTGTTCAATTT
1 AAATTTGTTCAATTT
7876678 GATCCTTATA
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 65 1.00
ACGTcount: A:0.36, C:0.10, G:0.06, T:0.48
Consensus pattern (61 bp):
AAATTTGTTCAATTTAGTCCAAAATTAATGATACAATATATTAATTTAAGCTTCATATTTA
Found at i:7876801 original size:86 final size:85
Alignment explanation
Indices: 7876729--7876890 Score: 222
Period size: 86 Copynumber: 1.9 Consensus size: 85
7876719 TTTATATTAA
*
7876729 TAAATTAATATATAGGTTATATATACTAATGAACT-T-T-TCAATATATAGTTTATATATACTAT
1 TAAA-TAATATATAGGTTATATATACTAATGAA-TATATAT-AATATATAGTTTATATATACCAT
7876791 ATAGTTTATATATACTAATGAAC
63 ATAGTTTATATATACTAATGAAC
* * * *
7876814 TATATAATATATAGTTTATATATATTAATGAATAATATATAATGTATAGTTTATATATACCATAT
1 TAAATAATATATAGGTTATATATACTAATGAAT-ATATATAATATATAGTTTATATATACCATAT
7876879 AGTTTATATATA
65 AGTTTATATATA
7876891 TATATAGTTT
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
83 1 0.01
84 26 0.38
85 4 0.06
86 36 0.53
87 1 0.01
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (85 bp):
TAAATAATATATAGGTTATATATACTAATGAATATATATAATATATAGTTTATATATACCATATA
GTTTATATATACTAATGAAC
Found at i:7876818 original size:35 final size:34
Alignment explanation
Indices: 7876779--7876941 Score: 190
Period size: 33 Copynumber: 4.8 Consensus size: 34
7876769 ATATATAGTT
7876779 TATATATACTATATAGTTTATATATACTAATGAAC
1 TATATATA-TATATAGTTTATATATACTAATGAAC
*
7876814 TATATA-ATATATAGTTTATATATATTAATGAA-
1 TATATATATATATAGTTTATATATACTAATGAAC
* * **
7876846 TAATATATAATGTATAGTTTATATATACCATAT-AGTT
1 T-ATATAT-ATATATAGTTTATATATACTA-ATGA-AC
*
7876883 TATATATATATATAGTTTATATATACTAATAAAC
1 TATATATATATATAGTTTATATATACTAATGAAC
*
7876917 TATATA-ATGTATAGTTTATATATAC
1 TATATATATATATAGTTTATATATAC
7876942 CATATAGTTT
Statistics
Matches: 111, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
32 1 0.01
33 47 0.42
34 9 0.08
35 45 0.41
36 8 0.07
37 1 0.01
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.45
Consensus pattern (34 bp):
TATATATATATATAGTTTATATATACTAATGAAC
Found at i:7876852 original size:68 final size:68
Alignment explanation
Indices: 7876780--7876958 Score: 229
Period size: 68 Copynumber: 2.6 Consensus size: 68
7876770 TATATAGTTT
* * * *
7876780 ATATATACTATATAGTTTATATATACTA-AT-GAACTATATA-ATATATAGTTTATATATATTAA
1 ATATATAATGTATAGTTTATATATACCATATAG-ACTATATATATATATAGTTTATATATACTAA
7876842 TGAATA
65 T-AA-A
**
7876848 ATATATAATGTATAGTTTATATATACCATATAGTTTATATATATATATAGTTTATATATACTAAT
1 ATATATAATGTATAGTTTATATATACCATATAGACTATATATATATATAGTTTATATATACTAAT
7876913 AAA
66 AAA
* **
7876916 CTATATAATGTATAGTTTATATATACCATATAGTTTATATATA
1 ATATATAATGTATAGTTTATATATACCATATAGACTATATATA
7876959 CTAATGAACT
Statistics
Matches: 101, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
68 68 0.67
69 10 0.10
70 23 0.23
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.45
Consensus pattern (68 bp):
ATATATAATGTATAGTTTATATATACCATATAGACTATATATATATATAGTTTATATATACTAAT
AAA
Found at i:7876998 original size:51 final size:51
Alignment explanation
Indices: 7876737--7876989 Score: 311
Period size: 51 Copynumber: 4.9 Consensus size: 51
7876727 AATAAATTAA
* *
7876737 TATATAGGTTATATATACTAATGAACT-TTTCAATATATAGTTTATATATAC
1 TATATAGTTTATATATACTAATGAACTATAT-AATATATAGTTTATATATAC
*
7876788 TATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATATATAT
1 TATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATATATAC
** * *
7876839 TA-AT-GAATA-ATATA-TAATGTATAGTTTATATATACCATATAGTTTATATATA-
1 TATATAGTTTATATATACTAATG-A-A--CTATATA-A-TATATAGTTTATATATAC
* *
7876891 TATATAGTTTATATATACTAATAAACTATATAATGTATAGTTTATATATAC
1 TATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATATATAC
*
7876942 CATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATATA
1 TATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATATA
7876990 GTTTATATAT
Statistics
Matches: 174, Mismatches: 16, Indels: 24
0.81 0.07 0.11
Matches are distributed among these distances:
47 5 0.03
48 6 0.03
49 4 0.02
50 17 0.10
51 99 0.57
52 11 0.06
53 18 0.10
54 4 0.02
55 6 0.03
56 4 0.02
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.45
Consensus pattern (51 bp):
TATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATATATAC
Found at i:7877018 original size:21 final size:21
Alignment explanation
Indices: 7876992--7877034 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
7876982 TTTATATAGT
7876992 TTATATATACTATAG-A-ATAAA
1 TTATAT-TA-TATAGTATATAAA
7877013 TTATATTATATAGTATATAAA
1 TTATATTATATAGTATATAAA
7877034 T
1 T
7877035 ATCAACTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 5 0.25
20 3 0.15
21 12 0.60
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (21 bp):
TTATATTATATAGTATATAAA
Found at i:7877024 original size:154 final size:153
Alignment explanation
Indices: 7876736--7877013 Score: 418
Period size: 154 Copynumber: 1.8 Consensus size: 153
7876726 TAATAAATTA
* * *
7876736 ATATATAGGTTATATATACTAATGAACTTTTCAATATATAGTTTATATATACTATATAGTTTATA
1 ATATATAGGTTATATATACTAATAAACTTATCAATATATAGTTTATATATACCATATAGTTTATA
* **
7876801 TATACTAATGAACTATATAATATATAGTTTATATATATTAATGAATAATATATAATGTATAGTTT
66 TATACTAATGAACTATATAATATATAGTTTATATATATTAAT-AATAATATAGAATAAATAGTTT
7876866 ATATATACCATATAGTTTATATAT
130 ATATATACCATATAGTTTATATAT
* *
7876890 ATATATAGTTTATATATACTAATAAACTATAT-AATGTATAGTTTATATATACCATATAGTTTAT
1 ATATATAGGTTATATATACTAATAAACT-TATCAATATATAGTTTATATATACCATATAGTTTAT
*
7876954 ATATACTAATGAACTATATAATATATAGTTTATATAGT-TT-ATATATACTATAGAATAAAT
65 ATATACTAATGAACTATATAATATATAGTTTATATA-TATTAATA-ATAATATAGAATAAAT
7877014 TATATTATAT
Statistics
Matches: 112, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
152 1 0.01
153 14 0.12
154 94 0.84
155 3 0.03
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (153 bp):
ATATATAGGTTATATATACTAATAAACTTATCAATATATAGTTTATATATACCATATAGTTTATA
TATACTAATGAACTATATAATATATAGTTTATATATATTAATAATAATATAGAATAAATAGTTTA
TATATACCATATAGTTTATATAT
Found at i:7877103 original size:7 final size:7
Alignment explanation
Indices: 7877088--7877201 Score: 60
Period size: 7 Copynumber: 16.6 Consensus size: 7
7877078 ATATGTAAAT
*
7877088 TATACTA
1 TATAGTA
7877095 TATAGTATA
1 TATAG--TA
*
7877104 TATAGTT
1 TATAGTA
7877111 TATA-TA
1 TATAGTA
*
7877117 TATAATA
1 TATAGTA
7877124 TATAGTA
1 TATAGTA
*
7877131 TATA-AA
1 TATAGTA
*
7877137 TATA-AA
1 TATAGTA
7877143 CTATAGTA
1 -TATAGTA
*
7877151 TGTAGTA
1 TATAGTA
*
7877158 TATA-AA
1 TATAGTA
*
7877164 TATA-AA
1 TATAGTA
*
7877170 CTATAGTT
1 -TATAGTA
7877178 TATA-TA
1 TATAGTA
7877184 TATAGTA
1 TATAGTA
*
7877191 TATACTA
1 TATAGTA
7877198 TATA
1 TATA
7877202 AATAGTGTAT
Statistics
Matches: 86, Mismatches: 13, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
6 24 0.28
7 54 0.63
8 1 0.01
9 7 0.08
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (7 bp):
TATAGTA
Found at i:7877104 original size:34 final size:36
Alignment explanation
Indices: 7877066--7877134 Score: 97
Period size: 34 Copynumber: 2.0 Consensus size: 36
7877056 ATATGGTTTT
*
7877066 TATATATAGTTCATATGTA-AAT-TATACTATATAG
1 TATATATAGTTCATATATATAATATATACTATATAG
* *
7877100 TATATATAGTTTATATATATAATATATAGTATATA
1 TATATATAGTTCATATATATAATATATACTATATA
7877135 AATATAAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 17 0.57
35 3 0.10
36 10 0.33
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.46
Consensus pattern (36 bp):
TATATATAGTTCATATATATAATATATACTATATAG
Found at i:7877118 original size:20 final size:19
Alignment explanation
Indices: 7877093--7877217 Score: 70
Period size: 20 Copynumber: 5.9 Consensus size: 19
7877083 TAAATTATAC
7877093 TATATAGTATATATAGTTTA
1 TATATA-TATATATAGTTTA
*
7877113 TATATATAATATATAGTATA
1 TATATAT-ATATATAGTTTA
* *
7877133 TAAATATAAACTATAGTATGTA
1 TATATATATA-TATAGT-T-TA
7877155 GTATATAAATATAAACTATAGTTTA
1 -TATAT--ATAT--A-TATAGTTTA
* *
7877180 TATATATAGTATATACTATA
1 TATATATA-TATATAGTTTA
* *
7877200 TAAATAGTGTATATAGTT
1 TATATA-TATATATAGTT
7877218 CACTAATACA
Statistics
Matches: 82, Mismatches: 12, Indels: 22
0.71 0.10 0.19
Matches are distributed among these distances:
19 3 0.04
20 48 0.59
21 2 0.02
22 5 0.06
23 5 0.06
24 5 0.06
25 5 0.06
26 1 0.01
27 8 0.10
ACGTcount: A:0.46, C:0.02, G:0.09, T:0.43
Consensus pattern (19 bp):
TATATATATATATAGTTTA
Found at i:7877147 original size:27 final size:27
Alignment explanation
Indices: 7877117--7877212 Score: 99
Period size: 27 Copynumber: 3.7 Consensus size: 27
7877107 AGTTTATATA
7877117 TATAATATATAGTATATAAATATAAAC
1 TATAATATATAGTATATAAATATAAAC
* *
7877144 TATAGTATGTAGTATATAAATATAAAC
1 TATAATATATAGTATATAAATATAAAC
* * * *
7877171 TATAGTTTATA-TATAT-AGTATATAC
1 TATAATATATAGTATATAAATATAAAC
* *
7877196 TAT-ATAAATAGTGTATA
1 TATAATATATAGTATATA
7877213 TAGTTCACTA
Statistics
Matches: 57, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
24 4 0.07
25 14 0.25
26 5 0.09
27 34 0.60
ACGTcount: A:0.48, C:0.03, G:0.08, T:0.41
Consensus pattern (27 bp):
TATAATATATAGTATATAAATATAAAC
Found at i:7877214 original size:2 final size:2
Alignment explanation
Indices: 7876769--7877201 Score: 69
Period size: 2 Copynumber: 205.5 Consensus size: 2
7876759 GAACTTTTCA
* *
7876769 AT AT AT AGT TT AT AT AT ACT AT AT AGT TT AT AT AT ACT A- AT GA-
1 AT AT AT A-T AT AT AT AT A-T AT AT A-T AT AT AT AT A-T AT AT -AT
*
7876812 ACT AT AT A- AT AT AT AGT TT AT AT AT AT -T A- AT GA- AT A- AT
1 A-T AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT -AT AT AT AT
* * * *
7876850 AT AT A- AT GT AT AGT TT AT AT AT ACC AT AT AGT TT AT AT AT AT
1 AT AT AT AT AT AT A-T AT AT AT AT A-T AT AT A-T AT AT AT AT AT
* * * *
7876892 AT AT AGT TT AT AT AT ACT A- AT AA ACT AT AT A- AT GT AT AGT TT
1 AT AT A-T AT AT AT AT A-T AT AT AT A-T AT AT AT AT AT AT A-T AT
* *
7876934 AT AT AT ACC AT AT AGT TT AT AT AT ACT A- AT GA- ACT AT AT A- AT
1 AT AT AT A-T AT AT A-T AT AT AT AT A-T AT AT -AT A-T AT AT AT AT
* * * *
7876976 AT AT AGT TT AT AT AGT TT AT AT AT ACT AT AG A- AT AA AT -T AT
1 AT AT A-T AT AT AT A-T AT AT AT AT A-T AT AT AT AT AT AT AT AT
* *
7877017 AT -T AT AT AGT AT AT AA AT AT CA- ACT AT AGT AT AT AGT TT AT AT
1 AT AT AT AT A-T AT AT AT AT AT -AT A-T AT A-T AT AT A-T AT AT AT
* * * * *
7877060 GGT TT TT AT AT AT AGT -T CAT AT GT AA AT -T AT ACT AT AT AGT AT
1 -AT AT AT AT AT AT A-T AT -AT AT AT AT AT AT AT A-T AT AT A-T AT
* * *
7877103 AT AT AGT TT AT AT AT AT A- AT AT AT AGT AT AT AA AT AT AA ACT
1 AT AT A-T AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT A-T
* * * *
7877145 AT AGT AT GT AGT AT AT AA AT AT AA ACT AT AGT TT AT AT AT AT AGT
1 AT A-T AT AT A-T AT AT AT AT AT AT A-T AT A-T AT AT AT AT AT A-T
7877190 AT AT ACT AT AT A
1 AT AT A-T AT AT A
7877202 AATAGTGTAT
Statistics
Matches: 311, Mismatches: 58, Indels: 124
0.63 0.12 0.25
Matches are distributed among these distances:
1 20 0.06
2 235 0.76
3 56 0.18
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (2 bp):
AT
Found at i:7877254 original size:24 final size:24
Alignment explanation
Indices: 7877177--7877256 Score: 65
Period size: 24 Copynumber: 3.2 Consensus size: 24
7877167 AAACTATAGT
*
7877177 TTATATATATAGTATATACTATATAAA
1 TTATATATATAGT-T-CACTA-ATAAA
* *
7877204 -TAGTGTATATAGTTCACTAATACA
1 TTA-TATATATAGTTCACTAATAAA
*
7877228 TTATATATATAGTTCA-TATGTAAA
1 TTATATATATAGTTCACTA-ATAAA
7877252 TTATA
1 TTATA
7877257 GTTCATATGT
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
23 2 0.05
24 24 0.55
25 6 0.14
26 3 0.07
27 9 0.20
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.44
Consensus pattern (24 bp):
TTATATATATAGTTCACTAATAAA
Found at i:7877258 original size:18 final size:18
Alignment explanation
Indices: 7877235--7877270 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
7877225 ACATTATATA
7877235 TATAGTTCATATGTAAAT
1 TATAGTTCATATGTAAAT
7877253 TATAGTTCATATGTAAAT
1 TATAGTTCATATGTAAAT
7877271 ATCAACTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.44
Consensus pattern (18 bp):
TATAGTTCATATGTAAAT
Found at i:7877306 original size:18 final size:18
Alignment explanation
Indices: 7877235--7877306 Score: 63
Period size: 18 Copynumber: 3.7 Consensus size: 18
7877225 ACATTATATA
*
7877235 TATAGTTCATATGTAAAT
1 TATAGTTCATATGTAAAC
7877253 TATAGTTCATATGTAAATATCAAC
1 TATAGTTCATATG----TA--AAC
* *
7877277 TATAATTTATATGTAAAC
1 TATAGTTCATATGTAAAC
7877295 TATAGTTCATAT
1 TATAGTTCATAT
7877307 ATATAGTATA
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
18 26 0.60
20 2 0.05
22 2 0.05
24 13 0.30
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.43
Consensus pattern (18 bp):
TATAGTTCATATGTAAAC
Found at i:7877331 original size:20 final size:20
Alignment explanation
Indices: 7877307--7877431 Score: 88
Period size: 20 Copynumber: 5.8 Consensus size: 20
7877297 TAGTTCATAT
7877307 ATATAGTATATAAATATAAA
1 ATATAGTATATAAATATAAA
*
7877327 CTATAGTTTATATTAATAGTATAAA
1 ATATAG--TATA-TAA-A-TATAAA
7877352 ATATAGTATATAAATATATATA
1 ATATAGTATATAAATATA-A-A
*
7877374 ATATGTAGTATATAAATCTAAA
1 ATA--TAGTATATAAATATAAA
* * * * **
7877396 CTATAATTTATATATATAGT
1 ATATAGTATATAAATATAAA
*
7877416 ATATACTATATAAATA
1 ATATAGTATATAAATA
7877432 GTTTATATAG
Statistics
Matches: 82, Mismatches: 14, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
20 32 0.39
21 2 0.02
22 14 0.17
23 8 0.10
24 15 0.18
25 11 0.13
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.41
Consensus pattern (20 bp):
ATATAGTATATAAATATAAA
Found at i:7877331 original size:22 final size:22
Alignment explanation
Indices: 7877306--7877400 Score: 79
Period size: 22 Copynumber: 4.2 Consensus size: 22
7877296 ATAGTTCATA
7877306 TATATAGTATATAAATATAAAC
1 TATATAGTATATAAATATAAAC
*
7877328 TATAGT-TTATATTAATAGTATAAA-
1 TATA-TAGTATA-TAA-A-TATAAAC
*
7877352 -ATATAGTATATAAATATATATAA
1 TATATAGTATATAAATATA-A-AC
* *
7877375 TATGTAGTATATAAATCTAAAC
1 TATATAGTATATAAATATAAAC
7877397 TATA
1 TATA
7877401 ATTTATATAT
Statistics
Matches: 58, Mismatches: 6, Indels: 18
0.71 0.07 0.22
Matches are distributed among these distances:
20 4 0.07
21 2 0.03
22 17 0.29
23 12 0.21
24 17 0.29
25 6 0.10
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (22 bp):
TATATAGTATATAAATATAAAC
Found at i:7877331 original size:33 final size:33
Alignment explanation
Indices: 7877290--7877429 Score: 133
Period size: 33 Copynumber: 4.1 Consensus size: 33
7877280 AATTTATATG
* *
7877290 TAAACTATAGTTCATATATATAGTATATAAATA
1 TAAACTATAATTTATATATATAGTATATAAATA
*
7877323 TAAACTATAGTTTATAT-TAATAGTATA-AAATA
1 TAAACTATAATTTATATAT-ATAGTATATAAATA
* * *
7877355 TAGTA-TATAAATATATATAATATGTAGTATATAAATC
1 TA-AACTAT-AAT-T-TAT-ATATATAGTATATAAATA
*
7877392 TAAACTATAATTTATATATATAGTATATACTATA
1 TAAACTATAATTTATATATATAGTATATA-AATA
7877426 TAAA
1 TAAA
7877430 TAGTTTATAT
Statistics
Matches: 88, Mismatches: 9, Indels: 19
0.76 0.08 0.16
Matches are distributed among these distances:
32 11 0.12
33 40 0.45
34 10 0.11
35 4 0.05
36 13 0.15
37 10 0.11
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.41
Consensus pattern (33 bp):
TAAACTATAATTTATATATATAGTATATAAATA
Found at i:7877359 original size:12 final size:13
Alignment explanation
Indices: 7877320--7877390 Score: 60
Period size: 13 Copynumber: 5.6 Consensus size: 13
7877310 TAGTATATAA
7877320 ATATAAACTATAGT
1 ATATAAA-TATAGT
* *
7877334 TTAT-ATTAATAGT
1 ATATAAAT-ATAGT
7877347 ATA-AAATATAGT
1 ATATAAATATAGT
7877359 ATATAAATATA-T
1 ATATAAATATAGT
* *
7877371 ATA-ATATGTAGT
1 ATATAAATATAGT
7877383 ATATAAAT
1 ATATAAAT
7877391 CTAAACTATA
Statistics
Matches: 45, Mismatches: 7, Indels: 11
0.71 0.11 0.17
Matches are distributed among these distances:
11 5 0.11
12 17 0.38
13 20 0.44
14 3 0.07
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.41
Consensus pattern (13 bp):
ATATAAATATAGT
Found at i:7877425 original size:18 final size:18
Alignment explanation
Indices: 7877404--7877438 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7877394 AACTATAATT
*
7877404 TATATATATAGTATATAC
1 TATATAAATAGTATATAC
*
7877422 TATATAAATAGTTTATA
1 TATATAAATAGTATATA
7877439 TAGTTCACTA
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:0.46, C:0.03, G:0.06, T:0.46
Consensus pattern (18 bp):
TATATAAATAGTATATAC
Found at i:7877507 original size:13 final size:13
Alignment explanation
Indices: 7877489--7877525 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
7877479 TATAGTTTAC
7877489 ATAGTTTATATAT
1 ATAGTTTATATAT
*
7877502 ATAGTTTATACAT
1 ATAGTTTATATAT
*
7877515 ATAGTTCATAT
1 ATAGTTTATAT
7877526 GTAAACTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.49
Consensus pattern (13 bp):
ATAGTTTATATAT
Found at i:7877527 original size:53 final size:54
Alignment explanation
Indices: 7877455--7877557 Score: 145
Period size: 55 Copynumber: 1.9 Consensus size: 54
7877445 ACTAATAAAC
* * * *
7877455 TATATATATAGGTCATATGT-ACTATATAGTTTACATAGTTTATATATATAGTT
1 TATACATATAGGTCATATGTAACTATATAGTATAAATAGTTTACATATATAGTT
*
7877508 TATACATATAGTTCATATGTAAACTATATAGTATAAATAGTTTACATATA
1 TATACATATAGGTCATATGT-AACTATATAGTATAAATAGTTTACATATA
7877558 GGTTAGTTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
53 18 0.42
55 25 0.58
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.44
Consensus pattern (54 bp):
TATACATATAGGTCATATGTAACTATATAGTATAAATAGTTTACATATATAGTT
Found at i:7877721 original size:22 final size:20
Alignment explanation
Indices: 7877681--7877736 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 20
7877671 TATACTATAT
* *
7877681 CTATATATATATATTATAAG
1 CTATATATTTATATTATAAA
*
7877701 TTATATAGTTTATATTAATAAA
1 CTATATA-TTTATATT-ATAAA
7877723 CTATATAATTTATA
1 CTATAT-ATTTATA
7877737 CAATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 6 0.21
21 7 0.24
22 15 0.52
23 1 0.03
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.48
Consensus pattern (20 bp):
CTATATATTTATATTATAAA
Found at i:7877808 original size:42 final size:42
Alignment explanation
Indices: 7877746--7877842 Score: 110
Period size: 42 Copynumber: 2.3 Consensus size: 42
7877736 ACAATATATA
*
7877746 TTATTTATAATT-ATACATAATATATAAATATAAA-T-TGTAGT
1 TTATATATAATTCATACATAAT-T-TAAATATAAACTATGTAGT
* *
7877787 TTATATATAATTCATATATAATTTATATATAAACTATGTAGT
1 TTATATATAATTCATACATAATTTAAATATAAACTATGTAGT
* *
7877829 TTCTATATAGTTCA
1 TTATATATAATTCA
7877843 ATAGTTCATA
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
40 9 0.19
41 13 0.27
42 26 0.54
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (42 bp):
TTATATATAATTCATACATAATTTAAATATAAACTATGTAGT
Found at i:7877816 original size:13 final size:11
Alignment explanation
Indices: 7877786--7877818 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
7877776 TAAATTGTAG
7877786 TTTATATATAA
1 TTTATATATAA
*
7877797 TTCATATATAA
1 TTTATATATAA
7877808 TTTATATATAA
1 TTTATATATAA
7877819 ACTATGTAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTATATATAA
Found at i:7877837 original size:20 final size:20
Alignment explanation
Indices: 7877773--7877837 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
7877763 TAATATATAA
7877773 ATATAAA-T-TGTAGTTTAT
1 ATATAAACTATGTAGTTTAT
* * *
7877791 ATATAATTCATATATAATTTAT
1 ATATAA-AC-TATGTAGTTTAT
*
7877813 ATATAAACTATGTAGTTTCT
1 ATATAAACTATGTAGTTTAT
7877833 ATATA
1 ATATA
7877838 GTTCAATAGT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
18 6 0.17
20 14 0.39
21 2 0.06
22 14 0.39
ACGTcount: A:0.42, C:0.05, G:0.06, T:0.48
Consensus pattern (20 bp):
ATATAAACTATGTAGTTTAT
Found at i:7877893 original size:2 final size:2
Alignment explanation
Indices: 7877886--7877991 Score: 73
Period size: 2 Copynumber: 54.5 Consensus size: 2
7877876 TTATACATGG
* *
7877886 TA TA TA TA GTT TA TA CA TA -A TA TA TA TA TA -A TA TA TA GTA TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * * *
7877928 TA -A TA -A TA TA AA AA TA AA CTA TA TA GTT TA TA T- TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA
7877968 TA T- TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
7877992 TAGTTGTTTC
Statistics
Matches: 83, Mismatches: 10, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
1 7 0.08
2 71 0.86
3 5 0.06
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (2 bp):
TA
Found at i:7877898 original size:20 final size:20
Alignment explanation
Indices: 7877863--7877913 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
7877853 TATAAACTAT
7877863 ATAATAT-TATAATTTATAC
1 ATAATATATATAATTTATAC
** *
7877882 ATGGTATATATAGTTTATAC
1 ATAATATATATAATTTATAC
7877902 ATAATATATATA
1 ATAATATATATA
7877914 TAATATATAG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (20 bp):
ATAATATATATAATTTATAC
Found at i:7877900 original size:11 final size:11
Alignment explanation
Indices: 7877886--7877990 Score: 60
Period size: 11 Copynumber: 9.7 Consensus size: 11
7877876 TTATACATGG
* *
7877886 TATATATAGTT
1 TATATATAATA
*
7877897 TATACATAATA
1 TATATATAATA
7877908 TATATATAATA
1 TATATATAATA
7877919 TATAGTAT-ATA
1 TATA-TATAATA
7877930 -ATAATATAA-A
1 TAT-ATATAATA
* *
7877940 AATAAACT-ATA
1 TATATA-TAATA
* *
7877951 TAGTTTATATTA
1 TA-TATATAATA
*
7877963 TAT-TATATTA
1 TATATATAATA
7877973 TATATAT-ATA
1 TATATATAATA
7877983 TATATATA
1 TATATATA
7877991 TTAGTTGTTT
Statistics
Matches: 74, Mismatches: 10, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
10 28 0.38
11 37 0.50
12 9 0.12
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.46
Consensus pattern (11 bp):
TATATATAATA
Found at i:7877919 original size:7 final size:7
Alignment explanation
Indices: 7877887--7877990 Score: 50
Period size: 7 Copynumber: 14.0 Consensus size: 7
7877877 TATACATGGT
7877887 ATATATA
1 ATATATA
* *
7877894 GTTTATA
1 ATATATA
7877901 CATA-ATA
1 -ATATATA
7877908 TATATATA
1 -ATATATA
7877916 ATATATA
1 ATATATA
*
7877923 GTATATA
1 ATATATA
7877930 ATAATATA
1 AT-ATATA
*
7877938 A-AAATAA
1 ATATAT-A
7877945 ACTATATA
1 A-TATATA
* *
7877953 GTTTATA
1 ATATATA
* *
7877960 TTATATT
1 ATATATA
7877967 ATATTATA
1 ATA-TATA
7877975 TATATATA
1 -ATATATA
7877983 TATATATA
1 -ATATATA
7877991 TTAGTTGTTT
Statistics
Matches: 73, Mismatches: 16, Indels: 15
0.70 0.15 0.14
Matches are distributed among these distances:
6 3 0.04
7 38 0.52
8 26 0.36
9 6 0.08
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (7 bp):
ATATATA
Found at i:7879421 original size:19 final size:19
Alignment explanation
Indices: 7879397--7879433 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
7879387 ATGACCAACA
*
7879397 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
7879416 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
7879434 CATTATCGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:7879506 original size:21 final size:21
Alignment explanation
Indices: 7879478--7879531 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
7879468 GATTTTGACC
*
7879478 ATCGCATTGCGATTTTCGA-A
1 ATCGCATTGCGATTTTAGATA
7879498 ATCCGCATTGCGATTTTAGATA
1 AT-CGCATTGCGATTTTAGATA
*
7879520 ATCGCAATGCGA
1 ATCGCATTGCGA
7879532 ATATGTAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 2 0.07
21 25 0.83
22 3 0.10
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (21 bp):
ATCGCATTGCGATTTTAGATA
Found at i:7879605 original size:41 final size:41
Alignment explanation
Indices: 7879560--7879654 Score: 145
Period size: 41 Copynumber: 2.3 Consensus size: 41
7879550 GAATATGTAA
* * * *
7879560 ATCGCAACACGATAACACGTGATCGTAATGCGATTCTGACT
1 ATCGCAACGCGATAACACGTGATCGCAACGCGATTCAGACT
*
7879601 ATCGCAACGCGATAATACGTGATCGCAACGCGATTCAGACT
1 ATCGCAACGCGATAACACGTGATCGCAACGCGATTCAGACT
7879642 ATCGCAACGCGAT
1 ATCGCAACGCGAT
7879655 TCTGACTAAC
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (41 bp):
ATCGCAACGCGATAACACGTGATCGCAACGCGATTCAGACT
Found at i:7879612 original size:20 final size:20
Alignment explanation
Indices: 7879589--7879667 Score: 97
Period size: 20 Copynumber: 3.9 Consensus size: 20
7879579 TGATCGTAAT
7879589 GCGATTCTGACTATCGCAAC
1 GCGATTCTGACTATCGCAAC
**
7879609 GCGATAAT-ACGTGATCGCAAC
1 GCGATTCTGAC-T-ATCGCAAC
*
7879630 GCGATTCAGACTATCGCAAC
1 GCGATTCTGACTATCGCAAC
*
7879650 GCGATTCTGACTAACGCA
1 GCGATTCTGACTATCGCA
7879668 TCACTGAATT
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
19 2 0.04
20 31 0.63
21 14 0.29
22 2 0.04
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (20 bp):
GCGATTCTGACTATCGCAAC
Found at i:7879626 original size:21 final size:21
Alignment explanation
Indices: 7879560--7879634 Score: 73
Period size: 21 Copynumber: 3.6 Consensus size: 21
7879550 GAATATGTAA
* *
7879560 ATCGCAACACGATAACACGTG
1 ATCGCAACGCGATAATACGTG
* * **
7879581 ATCGTAATGCGATTCTGAC-T-
1 ATCGCAACGCGATAAT-ACGTG
7879601 ATCGCAACGCGATAATACGTG
1 ATCGCAACGCGATAATACGTG
7879622 ATCGCAACGCGAT
1 ATCGCAACGCGAT
7879635 TCAGACTATC
Statistics
Matches: 41, Mismatches: 10, Indels: 6
0.72 0.18 0.11
Matches are distributed among these distances:
19 2 0.05
20 13 0.32
21 24 0.59
22 2 0.05
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.21
Consensus pattern (21 bp):
ATCGCAACGCGATAATACGTG
Found at i:7880539 original size:24 final size:24
Alignment explanation
Indices: 7880486--7880541 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
7880476 TGGTATTCAA
*
7880486 ATTTTGATCTTGGTCAATACCCAG
1 ATTTTGATCTTGATCAATACCCAG
* * *
7880510 ACTTTGATCTTGATCAATACTCGG
1 ATTTTGATCTTGATCAATACCCAG
7880534 ATTTTGAT
1 ATTTTGAT
7880542 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (24 bp):
ATTTTGATCTTGATCAATACCCAG
Found at i:7880757 original size:14 final size:14
Alignment explanation
Indices: 7880728--7880764 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
7880718 AGAAGAAGAA
7880728 GAAGAAGAAATCCCC
1 GAAGAA-AAATCCCC
*
7880743 GAAGAAAAGTCCCC
1 GAAGAAAAATCCCC
7880757 GAAGAAAA
1 GAAGAAAA
7880765 TGCCACGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.51, C:0.22, G:0.22, T:0.05
Consensus pattern (14 bp):
GAAGAAAAATCCCC
Found at i:7882824 original size:18 final size:18
Alignment explanation
Indices: 7882801--7882835 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7882791 AGCAAAAGGC
*
7882801 AATCAAAATCGCAATCAA
1 AATCAAAATCCCAATCAA
7882819 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
7882836 CAACCGGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:7883038 original size:20 final size:20
Alignment explanation
Indices: 7883013--7883173 Score: 123
Period size: 20 Copynumber: 8.7 Consensus size: 20
7883003 CACATTCATT
*
7883013 TGACTATCGCAACGCAAATA
1 TGACTATCGCAACGCGAATA
*
7883033 TGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
*
7883053 TGACTATCGCAACG-G--GA
1 TGACTATCGCAACGCGAATA
* *
7883070 T-A--ATCGCAATGCGAATT
1 TGACTATCGCAACGCGAATA
* *
7883087 TGACTATCGCAA--TG-AGA
1 TGACTATCGCAACGCGAATA
*
7883104 T-A--ATCGCAACGC-AAAA
1 TGACTATCGCAACGCGAATA
*
7883120 TGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
* * *
7883140 TGATTATCGCAACGGGAATT
1 TGACTATCGCAACGCGAATA
7883160 TGACTATCGCAACG
1 TGACTATCGCAACG
7883174 AGAAAATCGC
Statistics
Matches: 111, Mismatches: 17, Indels: 26
0.72 0.11 0.17
Matches are distributed among these distances:
14 15 0.14
15 1 0.01
16 5 0.05
17 5 0.05
18 2 0.02
19 11 0.10
20 72 0.65
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.23
Consensus pattern (20 bp):
TGACTATCGCAACGCGAATA
Found at i:7883076 original size:34 final size:34
Alignment explanation
Indices: 7883038--7883207 Score: 171
Period size: 34 Copynumber: 4.9 Consensus size: 34
7883028 AAATATGACT
*
7883038 ATCGCAACGCGAATTTGACTATCGCAACGGGATA
1 ATCGCAACGCGAATTTGACTATCGCAACGAGATA
* *
7883072 ATCGCAATGCGAATTTGACTATCGCAATGAGATA
1 ATCGCAACGCGAATTTGACTATCGCAACGAGATA
** *
7883106 ATCGCAACGC-AAAATGACTATCGCAACGCGAATTTGATT
1 ATCGCAACGCGAATTTGACTATCGCAA--CG-A---GATA
* *
7883145 ATCGCAACGGGAATTTGACTATCGCAACGAGAAA
1 ATCGCAACGCGAATTTGACTATCGCAACGAGATA
* * * *
7883179 ATCGCAAAGTGTATTAGACTATCGCAACG
1 ATCGCAACGCGAATTTGACTATCGCAACG
7883208 CGAATATGAT
Statistics
Matches: 112, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
33 14 0.12
34 67 0.60
35 1 0.01
36 1 0.01
37 1 0.01
38 2 0.02
39 12 0.11
40 14 0.12
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.22
Consensus pattern (34 bp):
ATCGCAACGCGAATTTGACTATCGCAACGAGATA
Found at i:7883159 original size:73 final size:74
Alignment explanation
Indices: 7883072--7883217 Score: 195
Period size: 73 Copynumber: 2.0 Consensus size: 74
7883062 CAACGGGATA
* * * *
7883072 ATCGCAATGCGAATTTGACTATCGCAATGAGATAATCGCAACGCAAAAT-GACTATCGCAACGCG
1 ATCGCAACGCGAATTTGACTATCGCAACGAGAAAATCGCAAAGCAAAATAGACTATCGCAACGCG
*
7883136 AATTTGATT
66 AATATGATT
* *** *
7883145 ATCGCAACGGGAATTTGACTATCGCAACGAGAAAATCGCAAAGTGTATTAGACTATCGCAACGCG
1 ATCGCAACGCGAATTTGACTATCGCAACGAGAAAATCGCAAAGCAAAATAGACTATCGCAACGCG
7883210 AATATGAT
66 AATATGAT
7883218 GCAGATTGAA
Statistics
Matches: 62, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
73 40 0.65
74 22 0.35
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (74 bp):
ATCGCAACGCGAATTTGACTATCGCAACGAGAAAATCGCAAAGCAAAATAGACTATCGCAACGCG
AATATGATT
Found at i:7883163 original size:107 final size:107
Alignment explanation
Indices: 7883013--7883205 Score: 296
Period size: 107 Copynumber: 1.8 Consensus size: 107
7883003 CACATTCATT
* *
7883013 TGACTATCGCAACGCAAATATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCA
1 TGACTATCGCAACGCAAATATGACTATCGCAACGCGAATTTGACTATCGCAACGAGAAAATCGCA
* *
7883078 ATGCGAATTTGACTATCGCAATGAGATAATCGCAACGCAAAA
66 AAGCGAATTAGACTATCGCAATGAGATAATCGCAACGCAAAA
* * * *
7883120 TGACTATCGCAACGCGAATTTGATTATCGCAACGGGAATTTGACTATCGCAACGAGAAAATCGCA
1 TGACTATCGCAACGCAAATATGACTATCGCAACGCGAATTTGACTATCGCAACGAGAAAATCGCA
* *
7883185 AAGTGTATTAGACTATCGCAA
66 AAGCGAATTAGACTATCGCAA
7883206 CGCGAATATG
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
107 76 1.00
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (107 bp):
TGACTATCGCAACGCAAATATGACTATCGCAACGCGAATTTGACTATCGCAACGAGAAAATCGCA
AAGCGAATTAGACTATCGCAATGAGATAATCGCAACGCAAAA
Found at i:7883348 original size:36 final size:34
Alignment explanation
Indices: 7883308--7883387 Score: 105
Period size: 30 Copynumber: 2.4 Consensus size: 34
7883298 TCAACTTTTA
*
7883308 ATCAATTAAACAAGCACAAATAATAATTATTTACAC
1 ATCAATTAAACAA--ACAAATAAGAATTATTTACAC
7883344 ATCAATT----AAACAAATAAGAATTATTTACAC
1 ATCAATTAAACAAACAAATAAGAATTATTTACAC
7883374 ATCAATTAAACAAA
1 ATCAATTAAACAAA
7883388 TCAACTCTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
30 27 0.69
32 2 0.05
34 3 0.08
36 7 0.18
ACGTcount: A:0.55, C:0.15, G:0.03, T:0.28
Consensus pattern (34 bp):
ATCAATTAAACAAACAAATAAGAATTATTTACAC
Found at i:7883358 original size:30 final size:30
Alignment explanation
Indices: 7883323--7883388 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
7883313 TTAAACAAGC
*
7883323 ACAAATAATAATTATTTACACATCAATTAA
1 ACAAATAAGAATTATTTACACATCAATTAA
7883353 ACAAATAAGAATTATTTACACATCAATTAA
1 ACAAATAAGAATTATTTACACATCAATTAA
7883383 ACAAAT
1 ACAAAT
7883389 CAACTCTTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.55, C:0.14, G:0.02, T:0.30
Consensus pattern (30 bp):
ACAAATAAGAATTATTTACACATCAATTAA
Found at i:7883453 original size:20 final size:20
Alignment explanation
Indices: 7883428--7883469 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
7883418 ATTAAACAAG
7883428 TAAGACTTTTAAGAATCAAT
1 TAAGACTTTTAAGAATCAAT
7883448 TAAGACTTTTAAGAATCAAT
1 TAAGACTTTTAAGAATCAAT
7883468 TA
1 TA
7883470 CAATAAAAAA
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:0.45, C:0.10, G:0.10, T:0.36
Consensus pattern (20 bp):
TAAGACTTTTAAGAATCAAT
Found at i:7884812 original size:21 final size:21
Alignment explanation
Indices: 7884788--7884874 Score: 70
Period size: 21 Copynumber: 4.1 Consensus size: 21
7884778 GAATGTTGGG
*
7884788 AGGGACCTCTTCAACGATGAC
1 AGGGACCTCTTGAACGATGAC
* * **
7884809 AGGGGCCTCTTGAACGGTGGG
1 AGGGACCTCTTGAACGATGAC
* *
7884830 AGGGGA-CTCTT-AAGGGATGAT
1 A-GGGACCTCTTGAA-CGATGAC
*
7884851 AGGGGCCTCTTGAACGATGAC
1 AGGGACCTCTTGAACGATGAC
7884872 AGG
1 AGG
7884875 TGAGTCGGGC
Statistics
Matches: 49, Mismatches: 13, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
20 5 0.10
21 39 0.80
22 5 0.10
ACGTcount: A:0.24, C:0.20, G:0.37, T:0.20
Consensus pattern (21 bp):
AGGGACCTCTTGAACGATGAC
Done.