Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_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: 14308945
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 60 of 62
Found at i:13940734 original size:17 final size:16
Alignment explanation
Indices: 13940710--13940809 Score: 59
Period size: 16 Copynumber: 6.4 Consensus size: 16
13940700 ATCCATTTTT
13940710 TTATATTATATTATTA
1 TTATATTATATTATTA
*
13940726 TTAATATTATTTTATT-
1 TT-ATATTATATTATTA
*
13940742 TTAT-TTATACTATTA
1 TTATATTATATTATTA
* * *
13940757 TTTTTATT-TTTATATTT
1 -TTATATTATAT-TATTA
*
13940774 TTATAAT-TATTATTA
1 TTATATTATATTATTA
* *
13940789 TTAAATAATATT-TTA
1 TTATATTATATTATTA
13940804 -TATATT
1 TTATATT
13940810 TCCAGGCCAT
Statistics
Matches: 62, Mismatches: 16, Indels: 14
0.67 0.17 0.15
Matches are distributed among these distances:
14 12 0.19
15 13 0.21
16 19 0.31
17 18 0.29
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (16 bp):
TTATATTATATTATTA
Found at i:13940773 original size:31 final size:32
Alignment explanation
Indices: 13940711--13940804 Score: 88
Period size: 31 Copynumber: 2.9 Consensus size: 32
13940701 TCCATTTTTT
*
13940711 TATATTATATTATTATTAATATTATTTTATTT
1 TATATTATACTATTATTAATATTATTTTATTT
**
13940743 TAT-TTATACTATTATTTTTATT-TTTATATTTT
1 TATATTATACTATTATTAATATTATTT-TA-TTT
*
13940775 TATAATTAT--TATTATTAAATAATATTTTAT
1 TAT-ATTATACTATTATT-AATATTATTTTAT
13940805 ATATTTCCAG
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
30 3 0.06
31 18 0.36
32 17 0.34
33 5 0.10
34 7 0.14
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (32 bp):
TATATTATACTATTATTAATATTATTTTATTT
Found at i:13942135 original size:21 final size:22
Alignment explanation
Indices: 13942089--13942133 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
13942079 TCATTGTTTA
13942089 TTTATAT-TTTAATTTTATATG
1 TTTATATATTTAATTTTATATG
13942110 TTTATATATTTAATTATTAT-TG
1 TTTATATATTTAATT-TTATATG
13942132 TT
1 TT
13942134 ATTATTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 7 0.32
22 11 0.50
23 4 0.18
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (22 bp):
TTTATATATTTAATTTTATATG
Found at i:13943409 original size:21 final size:21
Alignment explanation
Indices: 13943359--13943422 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
13943349 TTTATGATGA
*
13943359 TATGCTGCTTCTCTCTGTG-T
1 TATGATGCTTCTCTCTGTGCT
***
13943379 TGCCACTGCTTCTCTCTGTGCT
1 TATGA-TGCTTCTCTCTGTGCT
*
13943401 TATGATGCTTCTCTCTCTGCT
1 TATGATGCTTCTCTCTGTGCT
13943422 T
1 T
13943423 CCCTCACTTC
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
20 1 0.03
21 30 0.88
22 3 0.09
ACGTcount: A:0.06, C:0.30, G:0.17, T:0.47
Consensus pattern (21 bp):
TATGATGCTTCTCTCTGTGCT
Found at i:13943644 original size:23 final size:23
Alignment explanation
Indices: 13943610--13943670 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
13943600 GAGTCGAGGG
13943610 TTCTACGCGGTCCTTCGGGACAA
1 TTCTACGCGGTCCTTCGGGACAA
* * *
13943633 TTCTACGTGGTCATTCGGGACAT
1 TTCTACGCGGTCCTTCGGGACAA
*
13943656 TTCTATGCGGTCCTT
1 TTCTACGCGGTCCTT
13943671 TAGGACATCT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.15, C:0.26, G:0.25, T:0.34
Consensus pattern (23 bp):
TTCTACGCGGTCCTTCGGGACAA
Found at i:13943704 original size:22 final size:22
Alignment explanation
Indices: 13943618--13943708 Score: 85
Period size: 23 Copynumber: 4.1 Consensus size: 22
13943608 GGTTCTACGC
* *
13943618 GGTCCTTCGGGACAATTCTACGT
1 GGTCCTTCAGGAC-ATTCTATGT
* * *
13943641 GGTCATTCGGGACATTTCTATGC
1 GGTCCTTCAGGACA-TTCTATGT
*
13943664 GGTCCTTTAGGACA-TCTATGT
1 GGTCCTTCAGGACATTCTATGT
* *
13943685 GGTTCTTCAGGATATTCTATGT
1 GGTCCTTCAGGACATTCTATGT
13943707 GG
1 GG
13943709 CAATTCAGTG
Statistics
Matches: 56, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
21 17 0.30
22 10 0.18
23 29 0.52
ACGTcount: A:0.18, C:0.20, G:0.26, T:0.36
Consensus pattern (22 bp):
GGTCCTTCAGGACATTCTATGT
Found at i:13944764 original size:3 final size:3
Alignment explanation
Indices: 13944756--13944801 Score: 74
Period size: 3 Copynumber: 15.0 Consensus size: 3
13944746 CAAAAATGTA
*
13944756 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT GAAT GAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
13944802 GATGATGATG
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
3 37 0.93
4 3 0.08
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:13944802 original size:6 final size:6
Alignment explanation
Indices: 13944757--13944835 Score: 72
Period size: 6 Copynumber: 13.5 Consensus size: 6
13944747 AAAAATGTAA
* * * * *
13944757 ATAATA ATAATA ATAATA ATAATA ATAATA ATAATG --AATG ATAATG
1 ATAATG ATAATG ATAATG ATAATG ATAATG ATAATG ATAATG ATAATG
* * *
13944803 ATGATG ATGATG ATGATG ATAATG ATAATG ATA
1 ATAATG ATAATG ATAATG ATAATG ATAATG ATA
13944836 GTAATAATAA
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
4 4 0.06
6 64 0.94
ACGTcount: A:0.53, C:0.00, G:0.14, T:0.33
Consensus pattern (6 bp):
ATAATG
Found at i:13944806 original size:3 final size:3
Alignment explanation
Indices: 13944794--13944834 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
13944784 ATAATAATGA
* * *
13944794 ATG ATA ATG ATG ATG ATG ATG ATG ATG ATA ATG ATA ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
13944835 AGTAATAATA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:13945275 original size:25 final size:23
Alignment explanation
Indices: 13945246--13945302 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 23
13945236 AATTTAGAAT
*
13945246 TTTTTTAAATA-TACAAAAATAGTT
1 TTTTTTAAATATTA-AAAAATA-TA
13945270 TATTTTTAAA-ATTAAAAAATATA
1 T-TTTTTAAATATTAAAAAATATA
13945293 TTTTTTAAAT
1 TTTTTTAAAT
13945303 TTATTCATTC
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
22 8 0.28
23 2 0.07
24 9 0.31
25 10 0.34
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (23 bp):
TTTTTTAAATATTAAAAAATATA
Found at i:13948155 original size:3 final size:3
Alignment explanation
Indices: 13948147--13948199 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
13948137 TGTTTGCCAC
13948147 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
13948195 CAT CA
1 CAT CA
13948200 CCCTTTATGC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:13949258 original size:13 final size:14
Alignment explanation
Indices: 13949229--13949262 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
13949219 AGTATCATAG
*
13949229 TAAAAAATAATTTT
1 TAAAAAATAATTAT
13949243 TAAAAAATAA-TAT
1 TAAAAAATAATTAT
13949256 TAAAAAA
1 TAAAAAA
13949263 AACTCAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
TAAAAAATAATTAT
Found at i:13949355 original size:4 final size:4
Alignment explanation
Indices: 13949346--13949370 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
13949336 AATTTAACTT
13949346 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
13949371 GTATCTAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:13950540 original size:2 final size:2
Alignment explanation
Indices: 13950533--13950576 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
13950523 CCATTTTAGT
13950533 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
13950575 TA
1 TA
13950577 AAAGGTAAGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13952805 original size:32 final size:32
Alignment explanation
Indices: 13952759--13952880 Score: 113
Period size: 32 Copynumber: 3.8 Consensus size: 32
13952749 ACTTGATCAC
* *
13952759 AGGTTAGGTTAAAATATAAAAAAGAAATTTAA
1 AGGTTGGGTCAAAATATAAAAAAGAAATTTAA
* * ** * *
13952791 AAGTTTGGTCAAAATATAAGTAAGAAGTTTGA
1 AGGTTGGGTCAAAATATAAAAAAGAAATTTAA
* * **
13952823 AGGTTGGGTC-AGATACAAGTAAGAAATTTAA
1 AGGTTGGGTCAAAATATAAAAAAGAAATTTAA
13952854 AGGTTGGGTCAAAAT-TAAAGAAAGAAA
1 AGGTTGGGTCAAAATATAAA-AAAGAAA
13952881 GAAAAAAGAT
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
31 29 0.41
32 42 0.59
ACGTcount: A:0.48, C:0.03, G:0.22, T:0.26
Consensus pattern (32 bp):
AGGTTGGGTCAAAATATAAAAAAGAAATTTAA
Found at i:13953066 original size:2 final size:2
Alignment explanation
Indices: 13953059--13953134 Score: 152
Period size: 2 Copynumber: 38.0 Consensus size: 2
13953049 GATAAGACTC
13953059 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13953101 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13953135 CGTCTCTTCA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 74 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13957071 original size:27 final size:28
Alignment explanation
Indices: 13957022--13957079 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
13957012 AGGGGTGCAC
13957022 AAAAAATCTGAATATCCGATTTTGCGAA
1 AAAAAATCTGAATATCCGATTTTGCGAA
* *
13957050 AAAAATATCTGAA-AT-CGGTTTTGGGAA
1 AAAAA-ATCTGAATATCCGATTTTGCGAA
13957077 AAA
1 AAA
13957080 CCGGTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 13 0.48
28 7 0.26
29 7 0.26
ACGTcount: A:0.45, C:0.10, G:0.17, T:0.28
Consensus pattern (28 bp):
AAAAAATCTGAATATCCGATTTTGCGAA
Found at i:13959536 original size:21 final size:21
Alignment explanation
Indices: 13959512--13959551 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
13959502 TTTATTTTAT
13959512 AACTTTATTTCAATTATCGTA
1 AACTTTATTTCAATTATCGTA
*
13959533 AACTTTGTTTCAATTATCG
1 AACTTTATTTCAATTATCG
13959552 AACTTGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (21 bp):
AACTTTATTTCAATTATCGTA
Found at i:13959599 original size:33 final size:32
Alignment explanation
Indices: 13959546--13959644 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 32
13959536 TTTGTTTCAA
*
13959546 TTATCGAACTTGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTGGAAGTTTTTAAGTATTTGAAT
13959578 TTATCGAACTCGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACT-GGAAGTTTTTAAGTATTTGAAT
* * *
13959611 TTATCAAACTTGGAAGTATTTAAGTATTTCAAT
1 TTATCGAAC-TGGAAGTTTTTAAGTATTTGAAT
13959644 T
1 T
13959645 ATGTTGAGTT
Statistics
Matches: 61, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
32 10 0.16
33 50 0.82
34 1 0.02
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.44
Consensus pattern (32 bp):
TTATCGAACTGGAAGTTTTTAAGTATTTGAAT
Found at i:13959673 original size:13 final size:13
Alignment explanation
Indices: 13959630--13959684 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
13959620 TTGGAAGTAT
13959630 TTAAGTATTTCAA
1 TTAAGTATTTCAA
* *
13959643 TTATGTTGAGTT-AA
1 TTAAG-T-ATTTCAA
13959657 TTAAGTATTTCAA
1 TTAAGTATTTCAA
*
13959670 TTAAGTATTTGAA
1 TTAAGTATTTCAA
13959683 TT
1 TT
13959685 TATCGAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.49
Consensus pattern (13 bp):
TTAAGTATTTCAA
Found at i:13959906 original size:21 final size:21
Alignment explanation
Indices: 13959880--13959936 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
13959870 TGGAGCGTGG
13959880 GGGAATCGGTACCCTCTCATA
1 GGGAATCGGTACCCTCTCATA
13959901 GGGAATCGGTACCCTCTCATA
1 GGGAATCGGTACCCTCTCATA
*
13959922 GGGAATCGGTTCCCT
1 GGGAATCGGTACCCT
13959937 AAGTGTAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.21, C:0.28, G:0.26, T:0.25
Consensus pattern (21 bp):
GGGAATCGGTACCCTCTCATA
Found at i:13960156 original size:15 final size:15
Alignment explanation
Indices: 13960103--13960159 Score: 60
Period size: 15 Copynumber: 3.6 Consensus size: 15
13960093 ATCTGGAATA
*
13960103 TTAAAATCGGTTTTT
1 TTAAAACCGGTTTTT
* *
13960118 TTATAACCGATTTTT
1 TTAAAACCGGTTTTT
13960133 TTAAAAAAACCGGTTTTT
1 TT---AAAACCGGTTTTT
13960151 TTAAAACCG
1 TTAAAACCG
13960160 AAACCGGTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
15 21 0.62
18 13 0.38
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.44
Consensus pattern (15 bp):
TTAAAACCGGTTTTT
Found at i:13960168 original size:21 final size:18
Alignment explanation
Indices: 13960122--13960156 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13960112 GTTTTTTTAT
*
13960122 AACCGATTTTTTTAAAAA
1 AACCGGTTTTTTTAAAAA
13960140 AACCGGTTTTTTTAAAA
1 AACCGGTTTTTTTAAAA
13960157 CCGAAACCGG
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:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (18 bp):
AACCGGTTTTTTTAAAAA
Found at i:13965644 original size:6 final size:6
Alignment explanation
Indices: 13965633--13965659 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
13965623 CGCTTCTAGG
13965633 TAGGAT TAGGAT TAGGAT TAGGAT TAG
1 TAGGAT TAGGAT TAGGAT TAGGAT TAG
13965660 ATAGGCATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (6 bp):
TAGGAT
Found at i:13966068 original size:10 final size:10
Alignment explanation
Indices: 13966046--13966100 Score: 53
Period size: 10 Copynumber: 5.8 Consensus size: 10
13966036 AAAAAATATT
*
13966046 TTCATTTATG
1 TTCATTTAAG
*
13966056 TTCGTTTAAG
1 TTCATTTAAG
*
13966066 TTCATTTATG
1 TTCATTTAAG
13966076 TTCATTT-A-
1 TTCATTTAAG
*
13966084 TT-GTTTAAG
1 TTCATTTAAG
13966093 TTCATTTA
1 TTCATTTA
13966101 TATTTATTTA
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
7 3 0.09
8 3 0.09
9 2 0.06
10 27 0.77
ACGTcount: A:0.22, C:0.09, G:0.11, T:0.58
Consensus pattern (10 bp):
TTCATTTAAG
Found at i:13966071 original size:20 final size:20
Alignment explanation
Indices: 13966046--13966083 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
13966036 AAAAAATATT
*
13966046 TTCATTTATGTTCGTTTAAG
1 TTCATTTATGTTCATTTAAG
13966066 TTCATTTATGTTCATTTA
1 TTCATTTATGTTCATTTA
13966084 TTGTTTAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.11, G:0.11, T:0.58
Consensus pattern (20 bp):
TTCATTTATGTTCATTTAAG
Found at i:13966094 original size:27 final size:27
Alignment explanation
Indices: 13966059--13966114 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
13966049 ATTTATGTTC
*
13966059 GTTTAAGTTCATTTATGTTCATTTATT
1 GTTTAAGTTCATTTATATTCATTTATT
*
13966086 GTTTAAGTTCATTTATATTTATTTATT
1 GTTTAAGTTCATTTATATTCATTTATT
13966113 GT
1 GT
13966115 GTTCATTTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.23, C:0.05, G:0.11, T:0.61
Consensus pattern (27 bp):
GTTTAAGTTCATTTATATTCATTTATT
Found at i:13966118 original size:23 final size:25
Alignment explanation
Indices: 13966064--13966123 Score: 70
Period size: 27 Copynumber: 2.4 Consensus size: 25
13966054 TGTTCGTTTA
*
13966064 AGTTCATTTATGTTCATTTATTGTTT
1 AGTTCATTTATATTCATTTATTG-TT
*
13966090 AAGTTCATTTATATTTATTTATTG-T
1 -AGTTCATTTATATTCATTTATTGTT
13966115 -GTTCATTTA
1 AGTTCATTTA
13966124 CGTTTGTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 9 0.29
25 1 0.03
27 21 0.68
ACGTcount: A:0.23, C:0.07, G:0.10, T:0.60
Consensus pattern (25 bp):
AGTTCATTTATATTCATTTATTGTT
Found at i:13966133 original size:23 final size:23
Alignment explanation
Indices: 13966092--13966158 Score: 64
Period size: 24 Copynumber: 2.9 Consensus size: 23
13966082 TATTGTTTAA
** *
13966092 GTTCATTTATATTTATTTATTGT
1 GTTCATTTACGTTTGTTTATTGT
13966115 GTTCATTTACGTTTGTTTATTTGT
1 GTTCATTTACGTTTGTTTA-TTGT
* *
13966139 GTAT-GTTTACGTTCGTTTAT
1 GT-TCATTTACGTTTGTTTAT
13966159 GTTCGTTCAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
23 17 0.46
24 19 0.51
25 1 0.03
ACGTcount: A:0.16, C:0.07, G:0.15, T:0.61
Consensus pattern (23 bp):
GTTCATTTACGTTTGTTTATTGT
Found at i:13968241 original size:3 final size:3
Alignment explanation
Indices: 13968233--13968275 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
13968223 GAATACTATG
* * * *
13968233 ATT ATT ATT GTT ATT AAT ATT ATT ATT ATT ATT TTT ACT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
13968276 CATGTCCAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:13970794 original size:131 final size:131
Alignment explanation
Indices: 13970428--13970786 Score: 592
Period size: 131 Copynumber: 2.7 Consensus size: 131
13970418 ATTAATATTG
* * * *
13970428 AAAATAATAATATCTTTTCATTTCGGTTGGAGTAATAAATGACTGCTTAAAGGCATGAGAGGTCA
1 AAAATAATGATATCTCTTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCA
* *
13970493 TTTATTCTCGATTGGAAATAATTACATATTATGGTTTTCTCTCGAATCAATATTGAATTTTAAGA
66 TTTATTCTCGATTGGAAATAATTAGATATTATCGTTTTCTCTCGAATCAATATTGAATTTTAAGA
13970558 C
131 C
* ** * *
13970559 GAAATAGCGATATCTCTGCATTTCGATTGGAGTAATAAATGACTACTTTAAGGCATGAGAGGTCA
1 AAAATAATGATATCTCTTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCA
13970624 TTTATTCTCGATTGGAAATAATTAGATATTATCGTTTTCTCTCGAATCAATATTGAATTTTAAGA
66 TTTATTCTCGATTGGAAATAATTAGATATTATCGTTTTCTCTCGAATCAATATTGAATTTTAAGA
13970689 C
131 C
* * *
13970690 AAAATAATGACATCTCTTCATTTCGATCGGAGTAATAAATGACTGCTTTAAGGCATGAAAGGTCA
1 AAAATAATGATATCTCTTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCA
13970755 TTTATTCTCGATTGGAAATAATTAGATATTAT
66 TTTATTCTCGATTGGAAATAATTAGATATTAT
13970787 TATTTTCTTT
Statistics
Matches: 209, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
131 209 1.00
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (131 bp):
AAAATAATGATATCTCTTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCA
TTTATTCTCGATTGGAAATAATTAGATATTATCGTTTTCTCTCGAATCAATATTGAATTTTAAGA
C
Found at i:13972448 original size:13 final size:13
Alignment explanation
Indices: 13972430--13972454 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13972420 AAAGATACAA
13972430 ATATTTTTAAAAT
1 ATATTTTTAAAAT
13972443 ATATTTTTAAAA
1 ATATTTTTAAAA
13972455 ACATAACACT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATATTTTTAAAAT
Found at i:13972671 original size:12 final size:12
Alignment explanation
Indices: 13972654--13972731 Score: 56
Period size: 12 Copynumber: 6.5 Consensus size: 12
13972644 CAGATAAGAT
13972654 ATCAGAACAG-A
1 ATCAGAACAGAA
*
13972665 ATCCAGATCAGAA
1 AT-CAGAACAGAA
13972678 ATCAGAACA-AA
1 ATCAGAACAGAA
* *
13972689 TTTCGGATA-AGAA
1 -ATCAGA-ACAGAA
13972702 ATCAGAACAGAA
1 ATCAGAACAGAA
*
13972714 TTCA-AATCAGAA
1 ATCAGAA-CAGAA
13972726 ATCAGA
1 ATCAGA
13972732 TAAAACATTC
Statistics
Matches: 51, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
11 7 0.14
12 37 0.73
13 7 0.14
ACGTcount: A:0.51, C:0.17, G:0.15, T:0.17
Consensus pattern (12 bp):
ATCAGAACAGAA
Found at i:13972671 original size:24 final size:24
Alignment explanation
Indices: 13972626--13972731 Score: 115
Period size: 24 Copynumber: 4.4 Consensus size: 24
13972616 CAGAGATATC
* * *
13972626 AGAAATTAAAACAAAATTCAGATA
1 AGAAATCAGAACAGAATTCAGATA
* * *
13972650 AGATATCAGAACAGAATCCAGATC
1 AGAAATCAGAACAGAATTCAGATA
*
13972674 AGAAATCAGAACA-AATTTCGGATA
1 AGAAATCAGAACAGAA-TTCAGATA
* *
13972698 AGAAATCAGAACAGAATTCAAATC
1 AGAAATCAGAACAGAATTCAGATA
13972722 AGAAATCAGA
1 AGAAATCAGA
13972732 TAAAACATTC
Statistics
Matches: 67, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
23 2 0.03
24 63 0.94
25 2 0.03
ACGTcount: A:0.54, C:0.14, G:0.14, T:0.18
Consensus pattern (24 bp):
AGAAATCAGAACAGAATTCAGATA
Found at i:13972730 original size:48 final size:48
Alignment explanation
Indices: 13972623--13972731 Score: 155
Period size: 48 Copynumber: 2.3 Consensus size: 48
13972613 AAACAGAGAT
* * * *
13972623 ATCAGAAATTAAAACAAAATTCAGATAAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAAAATTCAGATAAGAAATCAGAACAGAATCCAA
* * *
13972671 ATCAGAAATCAGAACAAATTTCGGATAAGAAATCAGAACAGAATTCAA
1 ATCAGAAATCAGAACAAAATTCAGATAAGAAATCAGAACAGAATCCAA
13972719 ATCAGAAATCAGA
1 ATCAGAAATCAGA
13972732 TAAAACATTC
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.53, C:0.15, G:0.14, T:0.18
Consensus pattern (48 bp):
ATCAGAAATCAGAACAAAATTCAGATAAGAAATCAGAACAGAATCCAA
Found at i:13974998 original size:12 final size:12
Alignment explanation
Indices: 13974981--13975013 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
13974971 TACGGTGTCC
13974981 GAAAAAATTCCA
1 GAAAAAATTCCA
*
13974993 G-AAAAATTCTA
1 GAAAAAATTCCA
13975004 GAAAAAATTC
1 GAAAAAATTC
13975014 TAAAATTAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.58, C:0.12, G:0.09, T:0.21
Consensus pattern (12 bp):
GAAAAAATTCCA
Found at i:13975014 original size:12 final size:12
Alignment explanation
Indices: 13974981--13975015 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
13974971 TACGGTGTCC
*
13974981 GAAAAAATTCCA
1 GAAAAAATTCTA
13974993 G-AAAAATTCTA
1 GAAAAAATTCTA
13975004 GAAAAAATTCTA
1 GAAAAAATTCTA
13975016 AAATTAGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.57, C:0.11, G:0.09, T:0.23
Consensus pattern (12 bp):
GAAAAAATTCTA
Found at i:13977033 original size:24 final size:24
Alignment explanation
Indices: 13976970--13977037 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
13976960 AAACGGAGAT
* *
13976970 ATCAGAAATTAAAACAGAATTCAG
1 ATCAGAAATTAAAACATAATCCAG
* * *
13976994 ATAAGATATTATAACATAATCCAG
1 ATCAGAAATTAAAACATAATCCAG
* *
13977018 ATCAGAAATCAGAACATAAT
1 ATCAGAAATTAAAACATAAT
13977038 TCAAATTAGA
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.53, C:0.13, G:0.10, T:0.24
Consensus pattern (24 bp):
ATCAGAAATTAAAACATAATCCAG
Found at i:13977048 original size:17 final size:17
Alignment explanation
Indices: 13977023--13977065 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
13977013 TCCAGATCAG
*
13977023 AAATCAGAACATAATTC
1 AAATCAGAACAGAATTC
* *
13977040 AAATTAGAATAGAATTC
1 AAATCAGAACAGAATTC
13977057 AAATCAGAA
1 AAATCAGAA
13977066 ATCAGATAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.56, C:0.12, G:0.09, T:0.23
Consensus pattern (17 bp):
AAATCAGAACAGAATTC
Found at i:13979208 original size:14 final size:15
Alignment explanation
Indices: 13979189--13979228 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
13979179 TGACCCAGTA
13979189 AGTTGACTCAGC-CG
1 AGTTGACTCAGCGCG
* *
13979203 AGTTGACTAAGCGTG
1 AGTTGACTCAGCGCG
13979218 AGTTGACTCAG
1 AGTTGACTCAG
13979229 TAGGGTTAGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (15 bp):
AGTTGACTCAGCGCG
Found at i:13980191 original size:20 final size:20
Alignment explanation
Indices: 13980166--13980238 Score: 137
Period size: 20 Copynumber: 3.6 Consensus size: 20
13980156 TTTTCCTAAT
13980166 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
13980186 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
13980206 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
13980226 TCGCAACGCGAAT
1 TCGCAATGCGAAT
13980239 CTGACTATCG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:13980248 original size:20 final size:20
Alignment explanation
Indices: 13980225--13980331 Score: 151
Period size: 20 Copynumber: 5.3 Consensus size: 20
13980215 GAATACGTAA
*
13980225 ATCGCAACGCGAATCTGACT
1 ATCGCAACGCGATTCTGACT
*
13980245 ATCGCAACGCGATTATGACT
1 ATCGCAACGCGATTCTGACT
* **
13980265 ATCGCAACGAGATGATGACT
1 ATCGCAACGCGATTCTGACT
* *
13980285 ATCGTAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
13980305 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
13980325 ATCGCAA
1 ATCGCAA
13980332 TACTGAATTT
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 78 1.00
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:13980269 original size:60 final size:61
Alignment explanation
Indices: 13980127--13980332 Score: 156
Period size: 60 Copynumber: 3.4 Consensus size: 61
13980117 TTCCAGATTT
* ** * * * * *
13980127 GCAACGCGATTATGACTATCGCATTGCGATTTTCCTAATTCGCAATGCGAATAC-GTA-AATC
1 GCAACGCGATTATGACTATCGCAATGCGAGATACGTAAATCGCAACGCGAAT-CTG-ACTATC
* * * *
13980188 GCAATGCGAATACGTA-AATCGCAATGCGA-ATACGTAAATCGCAACGCGAATCTGACTATC
1 GCAACGCGATTATG-ACTATCGCAATGCGAGATACGTAAATCGCAACGCGAATCTGACTATC
* * * * *
13980248 GCAACGCGATTATGACTATCGCAA--CGAGATGATG-ACTATCGTAACGAGATTCTGACTATC
1 GCAACGCGATTATGACTATCGCAATGCGAGAT-ACGTA-AATCGCAACGCGAATCTGACTATC
*
13980308 GCAACGCGATTCTGACTATCGCAAT
1 GCAACGCGATTATGACTATCGCAAT
13980333 ACTGAATTTC
Statistics
Matches: 116, Mismatches: 21, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
58 3 0.03
59 6 0.05
60 84 0.72
61 22 0.19
62 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (61 bp):
GCAACGCGATTATGACTATCGCAATGCGAGATACGTAAATCGCAACGCGAATCTGACTATC
Found at i:13981203 original size:23 final size:24
Alignment explanation
Indices: 13981173--13981225 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
13981163 GTATTCAAAA
13981173 TTTGATCTTGGT-AATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
13981196 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
13981220 TTTGAT
1 TTTGAT
13981226 GATTTTTCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 12 0.44
24 15 0.56
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.42
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:13983638 original size:20 final size:20
Alignment explanation
Indices: 13983606--13983694 Score: 133
Period size: 20 Copynumber: 4.5 Consensus size: 20
13983596 CAACGCGGAA
* *
13983606 ATCGTAACGCGAATATGACT
1 ATCGCAACGCGAAAATGACT
*
13983626 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* *
13983646 ATCGCAACGCGGAAATCACT
1 ATCGCAACGCGAAAATGACT
13983666 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
13983686 ATCGCAACG
1 ATCGCAACG
13983695 AGAGAATCGC
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.38, C:0.26, G:0.19, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:13983705 original size:14 final size:14
Alignment explanation
Indices: 13983686--13983739 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
13983676 GAAAATGACT
13983686 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
13983700 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
13983719 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
13983733 ATCGCAA
1 ATCGCAA
13983740 TGCGAAAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 17 0.52
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.30
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:13983723 original size:33 final size:34
Alignment explanation
Indices: 13983666--13983761 Score: 158
Period size: 33 Copynumber: 2.9 Consensus size: 34
13983656 GGAAATCACT
* **
13983666 ATCGCAACGCGAAAATGACTATCGCAACGAGAGA
1 ATCGCAATGCGAAAATGAAAATCGCAACGAGAGA
13983700 ATCGCAATGCG-AAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAAATGAAAATCGCAACGAGAGA
13983733 ATCGCAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCGAAAATGAAAATCGCAACG
13983762 CGAATTTAGT
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
33 31 0.53
34 27 0.47
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (34 bp):
ATCGCAATGCGAAAATGAAAATCGCAACGAGAGA
Found at i:13983757 original size:20 final size:19
Alignment explanation
Indices: 13983699--13983765 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 19
13983689 GCAACGAGAG
13983699 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
13983718 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
13983732 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
*
13983752 AATCGCAACGCGAA
1 AATCGCAATGCGAA
13983766 TTTAGTTTCG
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
14 10 0.26
15 1 0.03
16 2 0.05
17 2 0.05
19 11 0.28
20 13 0.33
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.12
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:13983817 original size:14 final size:14
Alignment explanation
Indices: 13983798--13983851 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
13983788 CATTTTCGCA
13983798 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
13983812 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
13983829 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
13983845 TTGCGAT
1 TTGCGAT
13983852 AGTCATTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 13 0.39
16 7 0.21
17 7 0.21
19 6 0.18
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.44
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:13983821 original size:34 final size:34
Alignment explanation
Indices: 13983776--13983871 Score: 140
Period size: 33 Copynumber: 2.9 Consensus size: 34
13983766 TTTAGTTTCG
*
13983776 CGTTGCAATTTTCATTTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
13983810 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
** * *
13983843 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
13983872 AGTCTGTTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 31 0.55
34 25 0.45
ACGTcount: A:0.14, C:0.24, G:0.20, T:0.43
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
Found at i:13983996 original size:14 final size:15
Alignment explanation
Indices: 13983977--13984014 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
13983967 CATCAATTAA
13983977 ACAAATCAAT-ATTT
1 ACAAATCAATCATTT
*
13983991 ACAAATC-ATCTTTT
1 ACAAATCAATCATTT
13984005 ACAAATCAAT
1 ACAAATCAAT
13984015 TAAAAAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 2 0.10
14 17 0.81
15 2 0.10
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.34
Consensus pattern (15 bp):
ACAAATCAATCATTT
Found at i:13985378 original size:42 final size:42
Alignment explanation
Indices: 13985316--13985433 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
13985306 TCGGGATCTA
* *
13985316 GAATGTTGGGAGGGACCTCTTCAACGATGACAGTGGCCTCTT
1 GAATGGTGGGAGGGACCTCTTCAACGATGACAGGGGCCTCTT
* ** *
13985358 GAATGGTGGGAGGGGA-CTCTTGAGGGATGATAGGGGCCTCTT
1 GAATGGTGGGA-GGGACCTCTTCAACGATGACAGGGGCCTCTT
* * *
13985400 GAACGATAGGG-GAGG-CCTCTTGAACGATGACAGG
1 GAATGGT-GGGAG-GGACCTCTTCAACGATGACAGG
13985434 TGAGTCGGGT
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
41 1 0.02
42 53 0.87
43 7 0.11
ACGTcount: A:0.23, C:0.17, G:0.38, T:0.22
Consensus pattern (42 bp):
GAATGGTGGGAGGGACCTCTTCAACGATGACAGGGGCCTCTT
Found at i:13985922 original size:20 final size:20
Alignment explanation
Indices: 13985899--13985954 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
13985889 GAAACTTAAA
*
13985899 ATCGTAACGCGAAAATAACG
1 ATCGCAACGCGAAAATAACG
* * *
13985919 ATCGCAACGCAAAAATGACT
1 ATCGCAACGCGAAAATAACG
*
13985939 ATCGCAATGCGAAAAT
1 ATCGCAACGCGAAAAT
13985955 GACTATTGCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.45, C:0.21, G:0.18, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATAACG
Found at i:13985955 original size:20 final size:20
Alignment explanation
Indices: 13985907--13985990 Score: 105
Period size: 20 Copynumber: 4.2 Consensus size: 20
13985897 AAATCGTAAC
* * *
13985907 GCGAAAATAACGATCGCAAC
1 GCGAAAATGACTATCGCAAT
*
13985927 GCAAAAATGACTATCGCAAT
1 GCGAAAATGACTATCGCAAT
*
13985947 GCGAAAATGACTATTGCAAT
1 GCGAAAATGACTATCGCAAT
**
13985967 GCGAATTTGACTATCGCAAT
1 GCGAAAATGACTATCGCAAT
13985987 GCGA
1 GCGA
13985991 TAGTCATTTT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (20 bp):
GCGAAAATGACTATCGCAAT
Found at i:13986009 original size:20 final size:20
Alignment explanation
Indices: 13985986--13986127 Score: 163
Period size: 20 Copynumber: 7.5 Consensus size: 20
13985976 ACTATCGCAA
13985986 TGCGATAGTCATTTTCGCGT
1 TGCGATAGTCATTTTCGCGT
** * *
13986006 TGCGATTTTCA-TTTCTCAT
1 TGCGATAGTCATTTTCGCGT
*
13986025 TGCGAT--TC----TCTCGT
1 TGCGATAGTCATTTTCGCGT
13986039 TGCGATAGTCATTTTCGCGT
1 TGCGATAGTCATTTTCGCGT
*
13986059 TGCGATAGTCATTTTTGCGT
1 TGCGATAGTCATTTTCGCGT
*
13986079 TGGGATAGTCATTTTCGCGT
1 TGCGATAGTCATTTTCGCGT
*
13986099 TGCGATAGTCATTTTCGCAT
1 TGCGATAGTCATTTTCGCGT
13986119 TGCGATAGT
1 TGCGATAGT
13986128 AAACTATTCT
Statistics
Matches: 105, Mismatches: 11, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
14 11 0.10
16 2 0.02
17 2 0.02
19 12 0.11
20 78 0.74
ACGTcount: A:0.15, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
TGCGATAGTCATTTTCGCGT
Found at i:13988121 original size:73 final size:74
Alignment explanation
Indices: 13988001--13988158 Score: 282
Period size: 73 Copynumber: 2.1 Consensus size: 74
13987991 TGAAACTTAA
*
13988001 AATCGCAACACGAAAATGAAAATCGCAACATGAAAATGACTATCGCAACGCGAATTTGACTATCG
1 AATCGCAACACGAAAATGAAAATCGCAACACGAAAATGACTATCGCAACGCGAATTTGACTATCG
13988066 CAACGCAAG
66 CAACGCAAG
*
13988075 AATCGCAACGC-AAAATGAAAATCGCAACACGAAAATGACTATCGCAACGCGAATTTGACTATCG
1 AATCGCAACACGAAAATGAAAATCGCAACACGAAAATGACTATCGCAACGCGAATTTGACTATCG
13988139 CAACGCAAG
66 CAACGCAAG
*
13988148 AATCACAACAC
1 AATCGCAACAC
13988159 AAGAATCGCA
Statistics
Matches: 80, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
73 70 0.88
74 10 0.12
ACGTcount: A:0.44, C:0.25, G:0.16, T:0.15
Consensus pattern (74 bp):
AATCGCAACACGAAAATGAAAATCGCAACACGAAAATGACTATCGCAACGCGAATTTGACTATCG
CAACGCAAG
Found at i:13988133 original size:20 final size:20
Alignment explanation
Indices: 13988002--13988144 Score: 129
Period size: 20 Copynumber: 7.5 Consensus size: 20
13987992 GAAACTTAAA
* **
13988002 ATCGCAACACGAAAATGAAA
1 ATCGCAACGCGAAAATGACT
**
13988022 ATCGCAACATGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
13988042 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
13988062 ATCGCAACGC---AA-GA--
1 ATCGCAACGCGAAAATGACT
**
13988076 ATCGCAACGC-AAAATGAAA
1 ATCGCAACGCGAAAATGACT
*
13988095 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
13988115 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
13988135 ATCGCAACGC
1 ATCGCAACGC
13988145 AAGAATCACA
Statistics
Matches: 102, Mismatches: 15, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
14 10 0.10
16 4 0.04
17 2 0.02
19 9 0.09
20 77 0.75
ACGTcount: A:0.42, C:0.24, G:0.17, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:13988161 original size:14 final size:14
Alignment explanation
Indices: 13988135--13988184 Score: 82
Period size: 14 Copynumber: 3.6 Consensus size: 14
13988125 GAATTTGACT
*
13988135 ATCGCAACGCAAGA
1 ATCGCAACACAAGA
*
13988149 ATCACAACACAAGA
1 ATCGCAACACAAGA
13988163 ATCGCAACACAAGA
1 ATCGCAACACAAGA
13988177 ATCGCAAC
1 ATCGCAAC
13988185 CCGAAATGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.48, C:0.30, G:0.14, T:0.08
Consensus pattern (14 bp):
ATCGCAACACAAGA
Found at i:13988214 original size:14 final size:15
Alignment explanation
Indices: 13988135--13988215 Score: 73
Period size: 14 Copynumber: 5.4 Consensus size: 15
13988125 GAATTTGACT
13988135 ATCGCAACG-CAAGA
1 ATCGCAACGACAAGA
*
13988149 ATCACAAC-ACAAGA
1 ATCGCAACGACAAGA
13988163 ATCGCAAC-ACAAGA
1 ATCGCAACGACAAGA
13988177 ATCGCAACCCGA-AATGAAA
1 ATCGCAA--CGACAA-G--A
13988196 ATCGCAACGAC-AGA
1 ATCGCAACGACAAGA
13988210 ATCGCA
1 ATCGCA
13988216 TTGCGATAGT
Statistics
Matches: 57, Mismatches: 2, Indels: 16
0.76 0.03 0.21
Matches are distributed among these distances:
14 39 0.68
16 4 0.07
17 6 0.11
19 8 0.14
ACGTcount: A:0.47, C:0.28, G:0.16, T:0.09
Consensus pattern (15 bp):
ATCGCAACGACAAGA
Found at i:13988602 original size:22 final size:22
Alignment explanation
Indices: 13988549--13988605 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
13988539 ATGATTTATC
**
13988549 CGGAGATGGAAACTGATATCGT
1 CGGAGATGGGGACTGATATCGT
*
13988571 CGGAGATGGGGACTGATTTCGT
1 CGGAGATGGGGACTGATATCGT
13988593 CGGAGATGGGGAC
1 CGGAGATGGGGAC
13988606 GGGTGTCGCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.25, C:0.14, G:0.40, T:0.21
Consensus pattern (22 bp):
CGGAGATGGGGACTGATATCGT
Found at i:13988825 original size:20 final size:20
Alignment explanation
Indices: 13988809--13988914 Score: 185
Period size: 20 Copynumber: 5.3 Consensus size: 20
13988799 CAGATTCGTG
*
13988809 TTGCGATTTACATATTCGCA
1 TTGCGATTTACGTATTCGCA
13988829 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
*
13988849 TTGCGATTTTCGTATTCGCA
1 TTGCGATTTACGTATTCGCA
*
13988869 TTGCGATTTTCGTATTCGCA
1 TTGCGATTTACGTATTCGCA
13988889 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
13988909 TTGCGA
1 TTGCGA
13988915 ATTAGGAAAA
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 83 1.00
ACGTcount: A:0.19, C:0.20, G:0.20, T:0.42
Consensus pattern (20 bp):
TTGCGATTTACGTATTCGCA
Found at i:13988935 original size:21 final size:21
Alignment explanation
Indices: 13988911--13988956 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
13988901 TATTCGCATT
13988911 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * *
13988932 GCGAATTTGGAAAATTGCAAT
1 GCGAATTAGGAAAATCGCAAC
13988953 GCGA
1 GCGA
13988957 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.39, C:0.15, G:0.26, T:0.20
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:13991734 original size:29 final size:29
Alignment explanation
Indices: 13991692--13991757 Score: 107
Period size: 29 Copynumber: 2.3 Consensus size: 29
13991682 CTATGGGTTA
*
13991692 GTGACTAAATCGTAATGCTTT-AGAATTTG
1 GTGACTAAATCGTAAAG-TTTCAGAATTTG
13991721 GTGACTAAATCGTAAAGTTTCAGAATTTG
1 GTGACTAAATCGTAAAGTTTCAGAATTTG
13991750 GTGACTAA
1 GTGACTAA
13991758 CGTAGAAGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
28 3 0.09
29 32 0.91
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.35
Consensus pattern (29 bp):
GTGACTAAATCGTAAAGTTTCAGAATTTG
Found at i:13992498 original size:19 final size:19
Alignment explanation
Indices: 13992474--13992544 Score: 133
Period size: 19 Copynumber: 3.7 Consensus size: 19
13992464 GAATACAATT
13992474 AGTGCATCGATGCATAAGA
1 AGTGCATCGATGCATAAGA
13992493 AGTGCATCGATGCATAAGA
1 AGTGCATCGATGCATAAGA
13992512 AGTGCATCGATGCATAAGA
1 AGTGCATCGATGCATAAGA
*
13992531 ACTGCATCGATGCA
1 AGTGCATCGATGCA
13992545 CCCCATTAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 51 1.00
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.21
Consensus pattern (19 bp):
AGTGCATCGATGCATAAGA
Found at i:13993314 original size:15 final size:14
Alignment explanation
Indices: 13993296--13993342 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 14
13993286 ATCATATGAA
*
13993296 ATGTGATAGAGAGCT
1 ATGTGATA-AGAACT
13993311 ATGTGA-AAGAACT
1 ATGTGATAAGAACT
*
13993324 ATGTGATATGAA-T
1 ATGTGATAAGAACT
13993337 ATGTGA
1 ATGTGA
13993343 ATGTGTAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 18 0.62
14 5 0.17
15 6 0.21
ACGTcount: A:0.38, C:0.04, G:0.28, T:0.30
Consensus pattern (14 bp):
ATGTGATAAGAACT
Found at i:13993462 original size:18 final size:18
Alignment explanation
Indices: 13993431--13993475 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
13993421 GGGTCTACGC
* *
13993431 GGTCATTCGGGACATAAT
1 GGTCCTTCGAGACATAAT
* *
13993449 GGTTCTTCGAGACATAGT
1 GGTCCTTCGAGACATAAT
13993467 GGTCCTTCG
1 GGTCCTTCG
13993476 GGATATATGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.31
Consensus pattern (18 bp):
GGTCCTTCGAGACATAAT
Found at i:13995560 original size:59 final size:59
Alignment explanation
Indices: 13995494--13995617 Score: 146
Period size: 60 Copynumber: 2.1 Consensus size: 59
13995484 TAGTCAAGTG
** * * *
13995494 ATCATTTTAT-ATATTTAATAGTTGAGGGATTCAACAAAACAA-ATCTCTATAGTCGAAAA
1 ATCATTTTATAATATTTAATAGTCAAAGAACTCAACAAAACAATATCT-TATAGTC-AAAA
* *
13995553 ATCATTTTATAATTTTTAATAGTCAAAGAACTCAACAAATCAATATCTTATAGTCAAAA
1 ATCATTTTATAATATTTAATAGTCAAAGAACTCAACAAAACAATATCTTATAGTCAAAA
13995612 A-CATTT
1 ATCATTT
13995618 GTAAACTTTA
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
58 5 0.09
59 15 0.27
60 32 0.57
61 4 0.07
ACGTcount: A:0.44, C:0.13, G:0.08, T:0.35
Consensus pattern (59 bp):
ATCATTTTATAATATTTAATAGTCAAAGAACTCAACAAAACAATATCTTATAGTCAAAA
Found at i:13996407 original size:2 final size:2
Alignment explanation
Indices: 13996400--13996454 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
13996390 ACAAAAGATA
13996400 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13996442 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
13996455 GAGAGAGAGA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13996459 original size:2 final size:2
Alignment explanation
Indices: 13996454--13996554 Score: 184
Period size: 2 Copynumber: 50.5 Consensus size: 2
13996444 ATATATATAT
13996454 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* *
13996496 AG AG AG AG AG AG AG AG AG AG AG GG GG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
13996538 AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG A
13996555 CGTTAGAACA
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
2 97 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13998731 original size:21 final size:21
Alignment explanation
Indices: 13998705--13998749 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
13998695 GATTTCTGGG
* *
13998705 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
13998726 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
13998747 CAA
1 CAA
13998750 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:13999123 original size:18 final size:16
Alignment explanation
Indices: 13999102--13999141 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
13999092 TGATTATACG
13999102 TATATGAATGACATGAAT
1 TATATGAATG-CATG-AT
*
13999120 TATATGTATGCATGAT
1 TATATGAATGCATGAT
13999136 TATATG
1 TATATG
13999142 TGTTAACATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.38
17 4 0.19
18 9 0.43
ACGTcount: A:0.38, C:0.05, G:0.17, T:0.40
Consensus pattern (16 bp):
TATATGAATGCATGAT
Found at i:13999139 original size:16 final size:18
Alignment explanation
Indices: 13999102--13999142 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
13999092 TGATTATACG
*
13999102 TATATGAATGACATGAAT
1 TATATGTATGACATGAAT
13999120 TATATGTATG-CATG-AT
1 TATATGTATGACATGAAT
13999136 TATATGT
1 TATATGT
13999143 GTTAACATGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.41
17 4 0.18
18 9 0.41
ACGTcount: A:0.37, C:0.05, G:0.17, T:0.41
Consensus pattern (18 bp):
TATATGTATGACATGAAT
Found at i:13999479 original size:31 final size:31
Alignment explanation
Indices: 13999441--13999596 Score: 242
Period size: 31 Copynumber: 5.0 Consensus size: 31
13999431 AGGGTCGAGG
13999441 GTTTACCTATGTTCTTCGGAACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
* *
13999472 GTTTACCTATGTTCTTTGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
13999503 GTTTACCTATGTTCTTCGGAACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
* *
13999534 GTTTACCTATGTCCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
* *
13999565 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGAA-CATATGGACT
13999596 G
1 G
13999597 GTCCTTCGGG
Statistics
Matches: 114, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
31 113 0.99
32 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGAACATATGGACT
Found at i:14002684 original size:21 final size:21
Alignment explanation
Indices: 14002658--14002702 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
14002648 GATTTCTGGG
* *
14002658 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
14002679 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
14002700 CAA
1 CAA
14002703 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:14003075 original size:18 final size:16
Alignment explanation
Indices: 14003054--14003093 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
14003044 TGATTATACG
14003054 TATATGAATGACATGAAT
1 TATATGAATG-CATG-AT
*
14003072 TATATGTATGCATGAT
1 TATATGAATGCATGAT
14003088 TATATG
1 TATATG
14003094 TGTTAACATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.38
17 4 0.19
18 9 0.43
ACGTcount: A:0.38, C:0.05, G:0.17, T:0.40
Consensus pattern (16 bp):
TATATGAATGCATGAT
Found at i:14003091 original size:16 final size:18
Alignment explanation
Indices: 14003054--14003094 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
14003044 TGATTATACG
*
14003054 TATATGAATGACATGAAT
1 TATATGTATGACATGAAT
14003072 TATATGTATG-CATG-AT
1 TATATGTATGACATGAAT
14003088 TATATGT
1 TATATGT
14003095 GTTAACATGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.41
17 4 0.18
18 9 0.41
ACGTcount: A:0.37, C:0.05, G:0.17, T:0.41
Consensus pattern (18 bp):
TATATGTATGACATGAAT
Found at i:14003429 original size:31 final size:31
Alignment explanation
Indices: 14003391--14003546 Score: 251
Period size: 31 Copynumber: 5.0 Consensus size: 31
14003381 AGGGTCGAGG
14003391 GTTTACCTATGTTCTTCGGAACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
*
14003422 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
14003453 GTTTACCTATGTTCTTCGGAACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
* *
14003484 GTTTACCTATGTCCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
* *
14003515 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGAA-CATATGGACT
14003546 G
1 G
14003547 GTCCTTCGGG
Statistics
Matches: 116, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
31 115 0.99
32 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGAACATATGGACT
Found at i:14004665 original size:21 final size:22
Alignment explanation
Indices: 14004592--14004666 Score: 107
Period size: 23 Copynumber: 3.4 Consensus size: 22
14004582 TCGATGGGTT
*
14004592 CTATGTGGTCCTTCGGGACAAA
1 CTATGTGGTCATTCGGGACAAA
*
14004614 GCTATGTGGTCATTCAGGACAAAA
1 -CTATGTGGTCATTCGGGAC-AAA
14004638 CTATGTGGTCATTCGGGACAAA
1 CTATGTGGTCATTCGGGACAAA
14004660 -TATGTGG
1 CTATGTGG
14004667 CACTTGGTGT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
21 7 0.15
22 3 0.06
23 35 0.73
24 3 0.06
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (22 bp):
CTATGTGGTCATTCGGGACAAA
Found at i:14005603 original size:2 final size:2
Alignment explanation
Indices: 14005596--14005622 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14005586 AGAAAAATAA
14005596 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
14005623 AGCAAGCAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:14009209 original size:129 final size:130
Alignment explanation
Indices: 14008909--14009266 Score: 430
Period size: 129 Copynumber: 2.7 Consensus size: 130
14008899 TAATTTTAAG
* * * * **
14008909 AGAGAAAACAATAATATCTAATTATTTCCAATCGAGAATAAATGACATTTCGTGCCTTAAAATAG
1 AGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCAG
* * * * * *
14008974 TCATTTATTACCCCCAATTGAAATGAAGAGATATCACTATTTCGTCTTAAAATTAAATATTTATT
66 TCATTTATTA-CTCCAA-CGAAATGAAGAGATAACACTATTCCGTCTTAAAATTAAATATTGACT
*
14009039 CG
129 CA
* * * **
14009041 AGCGAAAATGATAATATCTAATGATTTCCAATATAGAATAAATGACCTCTCATGCCTTAAAGCAG
1 AGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCAG
* * *
14009106 TCATTTATTACTCCAACGAAATGAAGAGATAACATTATTCCGTCTTAAAA-TCAATATTGGCTCA
66 TCATTTATTACTCCAACGAAATGAAGAGATAACACTATTCCGTCTTAAAATTAAATATTGACTCA
* * *
14009170 AGAGAAAACGATAATATATGATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCAA
1 AGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCAG
* * * *
14009235 TCATTTAGTACTTCGATCGAAATGATGAGATA
66 TCATTTATTAC-TCCAACGAAATGAAGAGATA
14009267 TTACTGTTGA
Statistics
Matches: 192, Mismatches: 33, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
129 76 0.40
130 47 0.24
131 5 0.03
132 64 0.33
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.31
Consensus pattern (130 bp):
AGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCAG
TCATTTATTACTCCAACGAAATGAAGAGATAACACTATTCCGTCTTAAAATTAAATATTGACTCA
Found at i:14010066 original size:21 final size:21
Alignment explanation
Indices: 14010040--14010080 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
14010030 ATCTTACATA
*
14010040 GGGTATCGGTACCCTCTGGGG
1 GGGTATCAGTACCCTCTGGGG
14010061 GGGTATCAGTACCCTCTGGG
1 GGGTATCAGTACCCTCTGGG
14010081 CAATCTGCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.12, C:0.24, G:0.39, T:0.24
Consensus pattern (21 bp):
GGGTATCAGTACCCTCTGGGG
Found at i:14011191 original size:19 final size:19
Alignment explanation
Indices: 14011167--14011205 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
14011157 ATCTTACATA
*
14011167 GGGTATCGGAACCCTCTGG
1 GGGTATCGGAACCCTATGG
*
14011186 GGGTATCGGTACCCTATGG
1 GGGTATCGGAACCCTATGG
14011205 G
1 G
14011206 CAATCTGCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.15, C:0.23, G:0.38, T:0.23
Consensus pattern (19 bp):
GGGTATCGGAACCCTATGG
Found at i:14014446 original size:31 final size:31
Alignment explanation
Indices: 14014408--14014532 Score: 189
Period size: 31 Copynumber: 4.0 Consensus size: 31
14014398 CCCGAAGGAC
* *
14014408 CAGTCCATA-GATCTCGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
14014439 CAGTCCATATATCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
14014470 CAATCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
14014501 CACTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
14014532 C
1 C
14014533 CCTCGACCCT
Statistics
Matches: 87, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
31 87 1.00
ACGTcount: A:0.40, C:0.24, G:0.17, T:0.19
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:14015322 original size:64 final size:64
Alignment explanation
Indices: 14015189--14015345 Score: 156
Period size: 64 Copynumber: 2.5 Consensus size: 64
14015179 TAATGAAGGT
* * * * ** *
14015189 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAATGCATTTGATGTTGTATTATTACTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACAAAATGCATTCGATGTTGTATTATTAAAGAG
* * *
14015253 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGTATTTATT-TTAAA-AG
1 ATGCATCGATGCACTACTTATGCATCGATGCACAAAATGCATTCGATGT-TGTATTATTAAAGAG
* * * *
14015316 AGTGCATCCATGCACTTCCTGTGCATCGAT
1 A-TGCATCGATGCACTACTTATGCATCGAT
14015346 ACACCTTCTA
Statistics
Matches: 77, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
63 2 0.03
64 70 0.91
65 5 0.06
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACAAAATGCATTCGATGTTGTATTATTAAAGAG
Found at i:14016165 original size:23 final size:23
Alignment explanation
Indices: 14016133--14016189 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
14016123 GGATGTTACA
*
14016133 GTATCGATACCCATTCAAAGAGG
1 GTATCGATACCCATGCAAAGAGG
* *
14016156 GTATCAATACCCATGCAAAGGGG
1 GTATCGATACCCATGCAAAGAGG
14016179 GTATCGATACC
1 GTATCGATACC
14016190 TAGCACTTAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (23 bp):
GTATCGATACCCATGCAAAGAGG
Found at i:14021896 original size:19 final size:19
Alignment explanation
Indices: 14021872--14021910 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
14021862 ATCTTACATA
14021872 GGGTATCGAAACCCTCTGG
1 GGGTATCGAAACCCTCTGG
**
14021891 GGGTATCGGTACCCTCTGG
1 GGGTATCGAAACCCTCTGG
14021910 G
1 G
14021911 TAATCAGCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.15, C:0.26, G:0.36, T:0.23
Consensus pattern (19 bp):
GGGTATCGAAACCCTCTGG
Found at i:14029384 original size:19 final size:19
Alignment explanation
Indices: 14029360--14029400 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
14029350 TCTGGACTGT
14029360 TGAACGGGTCCAGATAGGA
1 TGAACGGGTCCAGATAGGA
14029379 TGAACGGGTCCAGATAGGA
1 TGAACGGGTCCAGATAGGA
14029398 TGA
1 TGA
14029401 CCCATGATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.32, C:0.15, G:0.37, T:0.17
Consensus pattern (19 bp):
TGAACGGGTCCAGATAGGA
Found at i:14029714 original size:3 final size:3
Alignment explanation
Indices: 14029706--14029781 Score: 152
Period size: 3 Copynumber: 25.3 Consensus size: 3
14029696 ATATGTTAGT
14029706 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14029754 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
14029782 AGTCGGAATG
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 73 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:14031033 original size:35 final size:34
Alignment explanation
Indices: 14030994--14031106 Score: 163
Period size: 35 Copynumber: 3.2 Consensus size: 34
14030984 AAAACAATCC
*
14030994 TCAATTTCATTCTAAACCACAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACC-CAAATTTCAAAATAAT
14031029 TCAATTTCATTCTAAACCCTAAATTTCAAAATAAT
1 TCAATTTCATTCTAAACCC-AAATTTCAAAATAAT
* * *
14031064 TCAATTACATTCTAAAACCCAAATTTTAAAATACT
1 TCAATTTCATTCT-AAACCCAAATTTCAAAATAAT
14031099 TCAATTTC
1 TCAATTTC
14031107 TGTCTTTTTT
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
34 1 0.01
35 64 0.90
36 6 0.08
ACGTcount: A:0.43, C:0.21, G:0.00, T:0.35
Consensus pattern (34 bp):
TCAATTTCATTCTAAACCCAAATTTCAAAATAAT
Found at i:14031610 original size:20 final size:20
Alignment explanation
Indices: 14031587--14031917 Score: 443
Period size: 20 Copynumber: 16.6 Consensus size: 20
14031577 CGCAAACACA
14031587 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
*
14031607 TAAATCGCAACGTGTATCCG
1 TAAATCGCAACGCGTATCCG
**
14031627 TAAATCGCAACGCGTATGGG
1 TAAATCGCAACGCGTATCCG
*
14031647 TAAATCGCAATGCGTATCCG
1 TAAATCGCAACGCGTATCCG
*
14031667 TATATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
14031687 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
* *
14031707 TAAACCGCAACGTGTATCCG
1 TAAATCGCAACGCGTATCCG
14031727 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
*
14031747 TAAATCGCAATGCGTATCCG
1 TAAATCGCAACGCGTATCCG
14031767 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
*
14031787 TAAATCGCAACG-ATAATCCG
1 TAAATCGCAACGCGT-ATCCG
*
14031807 TAAATCGCAACGCGTATCCA
1 TAAATCGCAACGCGTATCCG
*
14031827 TAAATCGCAACG-ATAATCCG
1 TAAATCGCAACGCGT-ATCCG
* * *
14031847 TAAATCGCAACGAGAATCTG
1 TAAATCGCAACGCGTATCCG
*
14031867 TAAATCGCAACG-ATAATCCG
1 TAAATCGCAACGCGT-ATCCG
* * *
14031887 TAAATCGCAACGAGAATCTG
1 TAAATCGCAACGCGTATCCG
*
14031907 TAAATCACAAC
1 TAAATCGCAAC
14031918 ACTGAAATTT
Statistics
Matches: 274, Mismatches: 31, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
19 2 0.01
20 271 0.99
21 1 0.00
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (20 bp):
TAAATCGCAACGCGTATCCG
Found at i:14031632 original size:60 final size:60
Alignment explanation
Indices: 14031549--14031917 Score: 413
Period size: 60 Copynumber: 6.2 Consensus size: 60
14031539 GATTTTCCAT
* ** * * *
14031549 AATCGCAACGCGAATATGAAAATCGCAACGC-AAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGTAAC-CGTAAATCGCAACGCGTATCCGTA
* *** *
14031609 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGTAACCGTAAATCGCAACGCGTATCCGTA
* * * *
14031669 TATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTAAACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGTAACCGTAAATCGCAACGCGTATCCGTA
* *
14031729 AATCGCAACGCGTATCCGTAAATCGCAATGCGTATCCGTAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGTAACCGTAAATCGCAACGCGTATCCGTA
* * * *
14031789 AATCGCAACG-ATAATCCGTAAATCGCAACGCGTATCCATAAATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTAAATCGCAACGCGTAACCGTAAATCGCAACGCGT-ATCCGTA
* * * * * * *
14031849 AATCGCAACGAGAATCTGTAAATCGCAACG-ATAATCCGTAAATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGTAA-CCGTAAATCGCAACGCGTATCCGTA
*
14031909 AATCACAAC
1 AATCGCAAC
14031918 ACTGAAATTT
Statistics
Matches: 267, Mismatches: 36, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
59 4 0.01
60 262 0.98
61 1 0.00
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.20
Consensus pattern (60 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGTAACCGTAAATCGCAACGCGTATCCGTA
Found at i:14032629 original size:24 final size:24
Alignment explanation
Indices: 14032590--14032636 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
14032580 GAATTTGGTC
14032590 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
14032614 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
14032637 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:14032828 original size:12 final size:12
Alignment explanation
Indices: 14032811--14032835 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14032801 ATATAATCCT
14032811 GAAGAAGAAAAA
1 GAAGAAGAAAAA
14032823 GAAGAAGAAAAA
1 GAAGAAGAAAAA
14032835 G
1 G
14032836 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:14035162 original size:19 final size:19
Alignment explanation
Indices: 14035140--14035469 Score: 448
Period size: 19 Copynumber: 18.4 Consensus size: 19
14035130 CGGAAAATAC
*
14035140 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
14035159 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
14035178 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
14035197 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
14035216 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
14035230 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
14035249 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
14035268 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
14035282 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
14035301 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
* *
14035320 AATCG-AA-CCGACAT---
1 AATCGCAATGCGAAATGAA
*
14035334 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
14035353 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
14035372 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
14035391 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
14035410 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
14035424 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
14035443 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
14035462 AATCGCAA
1 AATCGCAA
14035470 CGAGATAATC
Statistics
Matches: 278, Mismatches: 13, Indels: 40
0.84 0.04 0.12
Matches are distributed among these distances:
14 33 0.12
15 4 0.01
16 15 0.05
17 15 0.05
18 4 0.01
19 207 0.74
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:14035243 original size:71 final size:72
Alignment explanation
Indices: 14035153--14035491 Score: 376
Period size: 71 Copynumber: 4.8 Consensus size: 72
14035143 CGCAACGCGA
14035153 AATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAA
1 AATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATG-AAA
14035218 TCGCAACG
65 TCGCAACG
* * *
14035226 -A-GAGAATCGCAACGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGAGA-G-AAT
1 AATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAT
14035285 CGCAATGCG
66 CGCAA--CG
* * *
14035294 AAATGAAAATCGCAATGCGAAATGAAAATCG-AA-CCGACAT---AATCGCAATGCGAAATTAAA
1 -AATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAA-TGAA
14035354 ATCGCAATACG
64 ATCGC-A-ACG
14035365 AAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGAAA-G-AA
1 -AATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
14035426 TCGCAATGCG
65 TCGCAA--CG
*
14035436 AAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GATAATCGCAATGCGAAAT
1 -AATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAAT
14035492 TATAAACGCA
Statistics
Matches: 231, Mismatches: 13, Indels: 48
0.79 0.04 0.16
Matches are distributed among these distances:
66 26 0.11
67 1 0.00
68 12 0.05
69 12 0.05
70 4 0.02
71 153 0.66
72 4 0.02
73 6 0.03
74 5 0.02
76 8 0.03
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (72 bp):
AATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAT
CGCAACG
Found at i:14035256 original size:52 final size:55
Alignment explanation
Indices: 14035140--14035469 Score: 429
Period size: 52 Copynumber: 6.1 Consensus size: 55
14035130 CGGAAAATAC
*
14035140 AATCGCAACGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAAATGAA
* *
14035197 AATCGCAATGCGAAATGAAAATCGCAA-CG-A-GAGAATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAAGCGAATGAAAATCGCAATGCGAAATGAA
*
14035249 AATCGCAATGCGAAATGAAAATCGCAA-CG-A-GAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAAGCGAATGAAAATCGCAATGCGAAATGAA
* *
14035301 AATCGCAATGCGAAATGAAAATCG-AACCGACAT---AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAAAATCGCAAGCGA-ATGAAAATCGCAATGCGAAATGAA
*
14035353 AATCGCAATACGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAAATGAA
14035410 AATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAAATGAA
14035462 AATCGCAA
1 AATCGCAA
14035470 CGAGATAATC
Statistics
Matches: 255, Mismatches: 8, Indels: 25
0.89 0.03 0.09
Matches are distributed among these distances:
51 2 0.01
52 184 0.72
53 3 0.01
54 6 0.02
55 8 0.03
57 52 0.20
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (55 bp):
AATCGCAATGCGAAATGAAAATCGCAAGCGAATGAAAATCGCAATGCGAAATGAA
Found at i:14035396 original size:142 final size:138
Alignment explanation
Indices: 14035140--14035501 Score: 541
Period size: 142 Copynumber: 2.6 Consensus size: 138
14035130 CGGAAAATAC
*
14035140 AATCGCAACGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGAAAT---AATCGCAA
* *
14035205 TGCGAAATGAAAATCGC-AACGAGAGAATCGCAACGCGAAATGAAAATCGCAATGCGAAATGAAA
61 TGCGAAATTAAAATCGCAAACGAGAAAATCGCAACGCGAAATGAAAATCGCAATGCGAAATGAAA
*
14035269 ATCGCAACGAGAG
126 ATCGCAACGAAAG
*
14035282 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCG-AACCGACATAATCGCAATGCG
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGAAATAATCGCAATGCG
*
14035346 AAATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
65 AAATTAAAATCGCAA-ACG--A-GAAAATCGCAACGCGAAATGAAAATCGCAATGCGAAATGAAA
14035411 ATCGCAACGAAAG
126 ATCGCAACGAAAG
*
14035424 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAATAATCGCAATGCGA
14035489 AATTATAAA-CGCA
66 AATTA-AAATCGCA
14035502 TTGCGATTTT
Statistics
Matches: 205, Mismatches: 8, Indels: 14
0.90 0.04 0.06
Matches are distributed among these distances:
137 24 0.12
138 1 0.00
139 3 0.01
140 5 0.02
141 3 0.01
142 164 0.80
143 5 0.02
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (138 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAATAATCGCAATGCGA
AATTAAAATCGCAAACGAGAAAATCGCAACGCGAAATGAAAATCGCAATGCGAAATGAAAATCGC
AACGAAAG
Found at i:14035607 original size:19 final size:19
Alignment explanation
Indices: 14035498--14035599 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
14035488 AAATTATAAA
14035498 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
14035517 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
14035537 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
14035553 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
14035570 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
14035589 CGCATTGCGAT
1 CGCATTGCGAT
14035600 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:14035725 original size:14 final size:14
Alignment explanation
Indices: 14035706--14035742 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
14035696 CATCAATTAC
14035706 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
14035720 ACAAATCATCTTTT
1 ACAAATCAACTTTT
14035734 ACAAATCAA
1 ACAAATCAA
14035743 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:14035754 original size:12 final size:12
Alignment explanation
Indices: 14035737--14035809 Score: 53
Period size: 12 Copynumber: 6.0 Consensus size: 12
14035727 ATCTTTTACA
14035737 AATCAATTAAAC
1 AATCAATTAAAC
*
14035749 AATCAA--AAATTG
1 AATCAATTAAA--C
**
14035761 AATCAACTTTTAC
1 AATCAA-TTAAAC
14035774 AAATCAATTAAAC
1 A-ATCAATTAAAC
*
14035787 AATCAA-AAAAC
1 AATCAATTAAAC
14035798 AATCAATTAAAC
1 AATCAATTAAAC
14035810 TATTGAATCA
Statistics
Matches: 46, Mismatches: 8, Indels: 14
0.68 0.12 0.21
Matches are distributed among these distances:
10 3 0.07
11 10 0.22
12 21 0.46
13 6 0.13
14 5 0.11
15 1 0.02
ACGTcount: A:0.58, C:0.16, G:0.01, T:0.25
Consensus pattern (12 bp):
AATCAATTAAAC
Found at i:14035771 original size:38 final size:38
Alignment explanation
Indices: 14035723--14035795 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
14035713 AACTTTTACA
*
14035723 AATCATCTTTTACAAATCAATTAAACAATCAAAAATTG
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
14035761 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
14035796 ACAATCAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.53, C:0.16, G:0.01, T:0.29
Consensus pattern (38 bp):
AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
Found at i:14037695 original size:33 final size:33
Alignment explanation
Indices: 14037649--14037741 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
14037639 GCGAAACCAA
*
14037649 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
14037682 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
14037715 AGTCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
14037742 TGCGATTTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.46, C:0.22, G:0.22, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:14037706 original size:19 final size:19
Alignment explanation
Indices: 14037612--14037746 Score: 110
Period size: 19 Copynumber: 7.6 Consensus size: 19
14037602 TAGTTTACTT
* *
14037612 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
* **
14037632 TCGCAGCGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
14037651 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
14037670 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
14037684 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
14037703 TCGCAA--CGAAA-G--AG
1 TCGCAACGCGAAATGAAAA
14037717 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
14037736 TCGCAATGCGA
1 TCGCAACGCGA
14037747 TTTTGGTTTC
Statistics
Matches: 93, Mismatches: 12, Indels: 21
0.74 0.10 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 45 0.48
20 11 0.12
ACGTcount: A:0.44, C:0.24, G:0.21, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:14037764 original size:19 final size:19
Alignment explanation
Indices: 14037742--14037870 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
14037732 AAAATCGCAA
14037742 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
14037761 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
14037775 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
14037794 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
14037808 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
14037827 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
14037846 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
14037866 TGCGA
1 TGCGA
14037871 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:14037784 original size:33 final size:33
Alignment explanation
Indices: 14037742--14037833 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
14037732 AAAATCGCAA
14037742 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
14037775 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
14037808 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
14037834 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:14038073 original size:93 final size:93
Alignment explanation
Indices: 14037914--14038293 Score: 753
Period size: 93 Copynumber: 4.1 Consensus size: 93
14037904 TTGAATGGAT
14037914 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
14037979 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
14038007 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
14038072 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
14038100 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
14038164 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
14038192 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
14038257 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
14038285 AAATTTACT
1 AAATTTACT
14038294 AAGCAATCTA
Statistics
Matches: 286, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
92 92 0.32
93 194 0.68
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:14038227 original size:185 final size:186
Alignment explanation
Indices: 14037914--14038293 Score: 753
Period size: 185 Copynumber: 2.0 Consensus size: 186
14037904 TTGAATGGAT
14037914 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
14037979 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
14038044 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
14038100 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
14038164 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
14038229 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
14038285 AAATTTACT
1 AAATTTACT
14038294 AAGCAATCTA
Statistics
Matches: 194, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
185 155 0.80
186 39 0.20
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (186 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:14040021 original size:14 final size:14
Alignment explanation
Indices: 14039998--14040087 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
14039988 TTGAAATGAA
14039998 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
14040012 AATTGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
14040029 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
14040045 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
14040064 AATCGCAACGAGAG
1 AATCGCAACGAGAG
14040078 AATCGCAACG
1 AATCGCAACG
14040088 CGAAATGAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 27 0.44
15 1 0.02
16 8 0.13
17 8 0.13
18 1 0.02
19 17 0.27
ACGTcount: A:0.42, C:0.22, G:0.26, T:0.10
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:14040035 original size:33 final size:33
Alignment explanation
Indices: 14039990--14040104 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
14039980 TCTTTTGGTT
*
14039990 GAAATGAAAATCGCAACGAGAGAATTGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
14040023 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
14040056 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
14040089 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
14040105 TGCGATTTTG
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 77 1.00
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:14040040 original size:19 final size:18
Alignment explanation
Indices: 14039997--14040109 Score: 79
Period size: 19 Copynumber: 6.8 Consensus size: 18
14039987 GTTGAAATGA
14039997 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
*
14040012 -AATTGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
14040029 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
14040045 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
14040062 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
14040078 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
14040095 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
14040110 TTTTGGTTTC
Statistics
Matches: 77, Mismatches: 6, Indels: 26
0.71 0.06 0.24
Matches are distributed among these distances:
14 23 0.30
16 15 0.19
17 12 0.16
19 27 0.35
ACGTcount: A:0.43, C:0.21, G:0.25, T:0.11
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:14040140 original size:14 final size:14
Alignment explanation
Indices: 14040121--14040175 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
14040111 TTTGGTTTCG
14040121 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
14040135 CGTTGCGATTTCCATTTCG
1 CGTTGCGA-TT-C---TCT
14040154 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
14040168 CGTTGCGA
1 CGTTGCGA
14040176 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 2 0.06
16 1 0.03
17 1 0.03
18 2 0.06
19 10 0.29
ACGTcount: A:0.09, C:0.27, G:0.24, T:0.40
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:14040338 original size:33 final size:33
Alignment explanation
Indices: 14040296--14040366 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
14040286 AATACTAACT
*
14040296 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
14040329 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
14040362 TGAAA
1 TGAAA
14040367 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:14040600 original size:22 final size:22
Alignment explanation
Indices: 14040548--14040602 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
14040538 TGGTTGTGAG
**
14040548 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
14040570 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
14040592 GGATTTCTTCG
1 GGATTTCTTCG
14040603 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:14040773 original size:20 final size:20
Alignment explanation
Indices: 14040748--14040941 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
14040738 CTTTAAATAT
14040748 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
14040768 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
14040790 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
14040809 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
14040829 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
14040849 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
14040869 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
14040889 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
14040909 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
14040929 CGCGTTGCGATTT
1 CGCGTTGCGATTT
14040942 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:14040935 original size:60 final size:60
Alignment explanation
Indices: 14040748--14040941 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
14040738 CTTTAAATAT
**
14040748 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
14040809 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
14040869 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
14040929 CGCGTTGCGATTT
1 CGCGTTGCGATTT
14040942 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:14040958 original size:21 final size:20
Alignment explanation
Indices: 14040934--14041010 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 20
14040924 ATATTCGCGT
14040934 TGCGATTTTGGAAAATCGCAA
1 TGCGATTTTGGAAAATCGC-A
* * **
14040955 TGCGAATTTGTACTATCGCA
1 TGCGATTTTGGAAAATCGCA
* *
14040975 TCGCGATTTT-CAAGAATCGCGT
1 T-GCGATTTTGGAA-AATCGC-A
14040997 TGCGATTTTGGAAA
1 TGCGATTTTGGAAA
14041011 CTGATTTGCG
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
20 3 0.07
21 36 0.86
22 3 0.07
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (20 bp):
TGCGATTTTGGAAAATCGCA
Found at i:14041021 original size:20 final size:20
Alignment explanation
Indices: 14040996--14041047 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
14040986 AAGAATCGCG
*
14040996 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
14041016 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
14041036 TTGCGATTCTGG
1 TTGCGATTCTGG
14041048 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:14042041 original size:35 final size:34
Alignment explanation
Indices: 14041993--14042102 Score: 148
Period size: 35 Copynumber: 3.1 Consensus size: 34
14041983 ATTCCTCCTT
* *
14041993 AAATTGAAATATTTTAGAATTTGGGTTTTATAATG
1 AAATTGAATTATTTTAGAATTTGGG-TTTAGAATG
* *
14042028 TAATTGAATTATTTTGGAATTTAGGGTTTAGAATG
1 AAATTGAATTATTTTAGAATTT-GGGTTTAGAATG
*
14042063 AAATTGAATTACTTTAGAATTTGGGGTTTAGAATG
1 AAATTGAATTATTTTAGAATTT-GGGTTTAGAATG
14042098 AAATT
1 AAATT
14042103 ATGGAATGTT
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
35 63 0.95
36 3 0.05
ACGTcount: A:0.35, C:0.01, G:0.20, T:0.44
Consensus pattern (34 bp):
AAATTGAATTATTTTAGAATTTGGGTTTAGAATG
Found at i:14044476 original size:4 final size:4
Alignment explanation
Indices: 14044467--14044504 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
14044457 TTATATGTCC
*
14044467 TATT TATT TATT TATT TATT TATT T-TT TTTAT TATT TA
1 TATT TATT TATT TATT TATT TATT TATT TAT-T TATT TA
14044505 AGAATAGTCG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
3 3 0.10
4 25 0.81
5 3 0.10
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:14047881 original size:30 final size:31
Alignment explanation
Indices: 14047831--14047890 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
14047821 AAATCCATCT
14047831 ATAGTAACGTTTTTTAATAAAAGCCACAATA
1 ATAGTAACGTTTTTTAATAAAAGCCACAATA
* * *
14047862 ATAGTGACGTTTTTT-ATAAACGCCGCAAT
1 ATAGTAACGTTTTTTAATAAAAGCCACAAT
14047891 GGGTCCATCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 12 0.46
31 14 0.54
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.33
Consensus pattern (31 bp):
ATAGTAACGTTTTTTAATAAAAGCCACAATA
Done.