Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008428.1 Hibiscus syriacus cultivar Beakdansim tig00111213_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: 6915314
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 29 of 30
Found at i:6674595 original size:8 final size:8
Alignment explanation
Indices: 6674580--6674655 Score: 66
Period size: 9 Copynumber: 9.2 Consensus size: 8
6674570 TGATGATGAT
6674580 GAAAAAAA
1 GAAAAAAA
6674588 CGAAAAAAA
1 -GAAAAAAA
6674597 GAAAAAAA
1 GAAAAAAA
*
6674605 -AAAGAAGA
1 GAAA-AAAA
*
6674613 GAAAAAATG
1 GAAAAAA-A
6674622 GAAAAAAA
1 GAAAAAAA
*
6674630 -ATAAAAA
1 GAAAAAAA
*
6674637 GAGAAAAAT
1 GA-AAAAAA
6674646 GAAAAAAA
1 GAAAAAAA
6674654 GA
1 GA
6674656 GAAATAAAAG
Statistics
Matches: 54, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
7 9 0.17
8 21 0.39
9 24 0.44
ACGTcount: A:0.79, C:0.01, G:0.16, T:0.04
Consensus pattern (8 bp):
GAAAAAAA
Found at i:6674616 original size:24 final size:25
Alignment explanation
Indices: 6674589--6674653 Score: 80
Period size: 24 Copynumber: 2.6 Consensus size: 25
6674579 TGAAAAAAAC
*
6674589 GAAAAAAAGAAAAAAAA-AAGAAGA
1 GAAAAAAAGAAAAAAAATAAAAAGA
*
6674613 GAAAAAATGGAAAAAAAATAAAAAGA
1 GAAAAAA-AGAAAAAAAATAAAAAGA
*
6674639 G-AAAAATGAAAAAAA
1 GAAAAAAAGAAAAAAA
6674654 GAGAAATAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
24 15 0.42
25 14 0.39
26 7 0.19
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (25 bp):
GAAAAAAAGAAAAAAAATAAAAAGA
Found at i:6674645 original size:25 final size:24
Alignment explanation
Indices: 6674581--6674653 Score: 89
Period size: 25 Copynumber: 3.1 Consensus size: 24
6674571 GATGATGATG
*
6674581 AAAAAAACGA-AAAAAA-GAAAAA
1 AAAAAAAAGAGAAAAAATGAAAAA
*
6674603 AAAAAGAAGAGAAAAAATGGAAAAA
1 AAAAAAAAGAGAAAAAAT-GAAAAA
6674628 AAATAAAAAGAG-AAAAATGAAAAA
1 AAA-AAAAAGAGAAAAAATGAAAAA
6674652 AA
1 AA
6674654 GAGAAATAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
22 8 0.18
23 6 0.14
24 8 0.18
25 15 0.34
26 7 0.16
ACGTcount: A:0.81, C:0.01, G:0.14, T:0.04
Consensus pattern (24 bp):
AAAAAAAAGAGAAAAAATGAAAAA
Found at i:6674650 original size:15 final size:14
Alignment explanation
Indices: 6674590--6674664 Score: 57
Period size: 15 Copynumber: 5.3 Consensus size: 14
6674580 GAAAAAAACG
6674590 AAAAAAAGAAAAA-
1 AAAAAAAGAAAAAT
6674603 AAAAAGAAGAGAAAA-
1 AAAAA-AAGA-AAAAT
**
6674618 AATGGAAA-AAAAAT
1 AA-AAAAAGAAAAAT
*
6674632 AAAAAGAGAAAAAT
1 AAAAAAAGAAAAAT
*
6674646 GAAAAAAAGAGAAAT
1 -AAAAAAAGAAAAAT
6674661 AAAA
1 AAAA
6674665 GGAGGGTTCA
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
13 11 0.22
14 17 0.35
15 20 0.41
16 1 0.02
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (14 bp):
AAAAAAAGAAAAAT
Found at i:6674652 original size:26 final size:25
Alignment explanation
Indices: 6674581--6674653 Score: 82
Period size: 26 Copynumber: 3.0 Consensus size: 25
6674571 GATGATGATG
*
6674581 AAAAAAACGA-AAAAAA-G-AAAAA
1 AAAAAAAAGAGAAAAAATGAAAAAA
*
6674603 AAAAAGAAGAGAAAAAATGGAAAAAA
1 AAAAAAAAGAGAAAAAAT-GAAAAAA
*
6674629 AATAAAAAGAG-AAAAATGAAAAAA
1 AAAAAAAAGAGAAAAAATGAAAAAA
6674653 A
1 A
6674654 GAGAAATAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
22 8 0.19
23 6 0.14
24 8 0.19
25 7 0.16
26 14 0.33
ACGTcount: A:0.81, C:0.01, G:0.14, T:0.04
Consensus pattern (25 bp):
AAAAAAAAGAGAAAAAATGAAAAAA
Found at i:6676044 original size:51 final size:51
Alignment explanation
Indices: 6675983--6676282 Score: 537
Period size: 51 Copynumber: 5.9 Consensus size: 51
6675973 AAATTCGTTT
*
6675983 GTTGAAGATTGAGTCCTATACTCTCTGAAAGAATAGGGAGCGGACAAGTTC
1 GTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTC
6676034 GTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTC
1 GTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTC
*
6676085 GTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAATTC
1 GTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTC
6676136 GTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTC
1 GTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTC
* * *
6676187 GTTGAAGATTGAGTCCTATACTCTCTGAAGGGATAGGGAGCGGACTAGTTC
1 GTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTC
* *
6676238 GTTGAAGATTGAGTCCTATACTCCCTGAAAGAATAGGGAGCGGAC
1 GTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
6676283 CTGTTTATGA
Statistics
Matches: 240, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 240 1.00
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (51 bp):
GTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTC
Found at i:6682252 original size:25 final size:25
Alignment explanation
Indices: 6682218--6682286 Score: 111
Period size: 25 Copynumber: 2.8 Consensus size: 25
6682208 GGGTAGAGGG
*
6682218 TCTACGCGGTCCTTCGGGACAATAT
1 TCTACACGGTCCTTCGGGACAATAT
*
6682243 TCTATACGGTCCTTCGGGACAATAT
1 TCTACACGGTCCTTCGGGACAATAT
*
6682268 TCTACGCGGTCCTTCGGGA
1 TCTACACGGTCCTTCGGGA
6682287 TATATATATA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.19, C:0.28, G:0.25, T:0.29
Consensus pattern (25 bp):
TCTACACGGTCCTTCGGGACAATAT
Found at i:6682445 original size:23 final size:23
Alignment explanation
Indices: 6682401--6682445 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
6682391 ATTATTATAT
*
6682401 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
6682424 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
6682446 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:6684112 original size:16 final size:16
Alignment explanation
Indices: 6684087--6684133 Score: 85
Period size: 16 Copynumber: 2.9 Consensus size: 16
6684077 AACAAAATAG
6684087 GGAGAAGTGTTAAAGA
1 GGAGAAGTGTTAAAGA
*
6684103 GGAGAGGTGTTAAAGA
1 GGAGAAGTGTTAAAGA
6684119 GGAGAAGTGTTAAAG
1 GGAGAAGTGTTAAAG
6684134 TAAGGGGGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.19
Consensus pattern (16 bp):
GGAGAAGTGTTAAAGA
Found at i:6686012 original size:60 final size:60
Alignment explanation
Indices: 6685911--6686026 Score: 171
Period size: 60 Copynumber: 1.9 Consensus size: 60
6685901 GATTATATGG
* * *
6685911 TATTGCTTTATTAAGTCCATTCACTATTAAAAGTTACAAAATGATCCTCCAACTATAAAA
1 TATTACTTTATTAAGTCCACTCACTATTAAAAGTTACAAAATGATCATCCAACTATAAAA
* *
6685971 TATTACTTTATTAAGTCC-CTCGACTATTAAAAGTTATAAAATGATCATCCGACTAT
1 TATTACTTTATTAAGTCCACTC-ACTATTAAAAGTTACAAAATGATCATCCAACTAT
6686027 TCATTACGTT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
59 2 0.04
60 48 0.96
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (60 bp):
TATTACTTTATTAAGTCCACTCACTATTAAAAGTTACAAAATGATCATCCAACTATAAAA
Found at i:6687144 original size:17 final size:17
Alignment explanation
Indices: 6687122--6687166 Score: 90
Period size: 17 Copynumber: 2.6 Consensus size: 17
6687112 TGCCGGTGAC
6687122 GTCGGATTCTACTCATT
1 GTCGGATTCTACTCATT
6687139 GTCGGATTCTACTCATT
1 GTCGGATTCTACTCATT
6687156 GTCGGATTCTA
1 GTCGGATTCTA
6687167 ACATGGCAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.18, C:0.22, G:0.20, T:0.40
Consensus pattern (17 bp):
GTCGGATTCTACTCATT
Found at i:6687557 original size:28 final size:28
Alignment explanation
Indices: 6687513--6687567 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
6687503 TCGTTATTGT
6687513 TTTCAAGCACTGACTCGACGACATAATA
1 TTTCAAGCACTGACTCGACGACATAATA
* *
6687541 TTTCAAGCATTGGCTCGACGACATAAT
1 TTTCAAGCACTGACTCGACGACATAAT
6687568 GTAGATAGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (28 bp):
TTTCAAGCACTGACTCGACGACATAATA
Found at i:6689438 original size:16 final size:17
Alignment explanation
Indices: 6689413--6689445 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
6689403 CAAAAATTAT
6689413 AAAATAATATTTTTTAA
1 AAAATAATATTTTTTAA
6689430 AAAAT-ATATTTTTTAA
1 AAAATAATATTTTTTAA
6689446 TTTATCTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
AAAATAATATTTTTTAA
Found at i:6691296 original size:29 final size:29
Alignment explanation
Indices: 6691261--6691342 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
6691251 AAACTAAATT
*
6691261 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
6691290 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
6691319 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
6691343 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:6696057 original size:29 final size:29
Alignment explanation
Indices: 6696022--6696103 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
6696012 AAACTAAATT
*
6696022 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
6696051 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
6696080 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
6696104 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:6699189 original size:24 final size:24
Alignment explanation
Indices: 6699142--6699189 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
6699132 TTTATCTTTT
* *
6699142 TTTTAGGTATTTTAATTTAAATAA
1 TTTTAAGTATTTTAATTCAAATAA
* *
6699166 TTTTAAGTGTTTTAATTCAGATAA
1 TTTTAAGTATTTTAATTCAAATAA
6699190 ACGATATTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.35, C:0.02, G:0.10, T:0.52
Consensus pattern (24 bp):
TTTTAAGTATTTTAATTCAAATAA
Found at i:6699855 original size:12 final size:12
Alignment explanation
Indices: 6699835--6699864 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
6699825 TATTTTATTT
*
6699835 TATTATACCTTC
1 TATTTTACCTTC
6699847 TATTTTACCTTC
1 TATTTTACCTTC
6699859 TATTTT
1 TATTTT
6699865 TTTCTTTCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.60
Consensus pattern (12 bp):
TATTTTACCTTC
Found at i:6699930 original size:16 final size:15
Alignment explanation
Indices: 6699900--6699934 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
6699890 AATTTAACAC
*
6699900 TTTTTTTTTATTTTA
1 TTTTGTTTTATTTTA
6699915 TTTTGTTTTATCTTTA
1 TTTTGTTTTAT-TTTA
6699931 TTTT
1 TTTT
6699935 ACCACTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.11, C:0.03, G:0.03, T:0.83
Consensus pattern (15 bp):
TTTTGTTTTATTTTA
Found at i:6701158 original size:23 final size:23
Alignment explanation
Indices: 6701112--6701159 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
6701102 TTATTAATGA
* * *
6701112 TATAATTTTATATTTTGAAGTTT
1 TATAATTTTATATCTTAAAATTT
6701135 TATAATTTTATATCTTAAAATTT
1 TATAATTTTATATCTTAAAATTT
6701158 TA
1 TA
6701160 ATTTAACTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.58
Consensus pattern (23 bp):
TATAATTTTATATCTTAAAATTT
Found at i:6705091 original size:12 final size:12
Alignment explanation
Indices: 6705074--6705099 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6705064 GTGTTACATT
6705074 TTTTTTTTGTTA
1 TTTTTTTTGTTA
6705086 TTTTTTTTGTTA
1 TTTTTTTTGTTA
6705098 TT
1 TT
6705100 ATTATGAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.85
Consensus pattern (12 bp):
TTTTTTTTGTTA
Found at i:6705785 original size:36 final size:37
Alignment explanation
Indices: 6705713--6705786 Score: 89
Period size: 37 Copynumber: 2.0 Consensus size: 37
6705703 GTTGAAAAAT
* * *
6705713 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTCTCTTTAAAAAATTGAAAATCATAAA
*
6705750 ATTTATATAATTCT-TTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTCTCTTTAAAAAATTGAAAATCATAAA
6705786 A
1 A
6705787 AGGTTTAATG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
36 6 0.19
37 22 0.69
38 4 0.12
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.45
Consensus pattern (37 bp):
ATTTATATATTCTCTTTAAAAAATTGAAAATCATAAA
Found at i:6711218 original size:19 final size:20
Alignment explanation
Indices: 6711168--6711222 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 20
6711158 AGATGAAATT
6711168 TATATTTAAAATAATAATAA
1 TATATTTAAAATAATAATAA
6711188 TAATTCATTTAAAA-AATAATAA
1 T-A-T-ATTTAAAATAATAATAA
*
6711210 TATAATTAAAATA
1 TATATTTAAAATA
6711223 TAGAATATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
19 7 0.23
20 3 0.10
21 2 0.07
22 10 0.33
23 8 0.27
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (20 bp):
TATATTTAAAATAATAATAA
Found at i:6712129 original size:2 final size:2
Alignment explanation
Indices: 6712122--6712158 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
6712112 GTGATCATAC
6712122 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
6712159 CCAGTTTCAG
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:6718494 original size:54 final size:54
Alignment explanation
Indices: 6718407--6718578 Score: 229
Period size: 54 Copynumber: 3.2 Consensus size: 54
6718397 GTCAAGCACA
* * * * * * *
6718407 GGTTGGCAACATTGGGTCCCGTCGGAATCGGACCCGTGTTTGCTCCCAGACCAG
1 GGTTGGCAACATTGGCTCCTGTGGGAATCGGACCCGTGGTAGCACCCACACCAG
* *
6718461 GGTTCGCAACATTGGCTCCTGTGGGAATCGGACCTGTGGTAGCACCCACACCAG
1 GGTTGGCAACATTGGCTCCTGTGGGAATCGGACCCGTGGTAGCACCCACACCAG
* * *
6718515 GGTTGGCAACATTAGCTCCTGTGGGAATGGGACCTGTGGTAGCACCC-CACCAG
1 GGTTGGCAACATTGGCTCCTGTGGGAATCGGACCCGTGGTAGCACCCACACCAG
6718568 GGTTGGCAACA
1 GGTTGGCAACA
6718579 GCAGCCCCTG
Statistics
Matches: 106, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
53 17 0.16
54 89 0.84
ACGTcount: A:0.20, C:0.28, G:0.31, T:0.21
Consensus pattern (54 bp):
GGTTGGCAACATTGGCTCCTGTGGGAATCGGACCCGTGGTAGCACCCACACCAG
Found at i:6718607 original size:53 final size:54
Alignment explanation
Indices: 6718451--6718607 Score: 158
Period size: 54 Copynumber: 2.9 Consensus size: 54
6718441 CGTGTTTGCT
* * *** * *
6718451 CCCAGACCAGGGTTCGCAACATTGGCTCCTGTGGGAATCGG-ACCTGTGGTAGCA
1 CCCACACCAGGGTTGGCAACAGCAGCCCCTGTGGGAAT-GGAACCAGTGGTAGCA
** * * *
6718505 CCCACACCAGGGTTGGCAACATTAGCTCCTGTGGGAATGGGACCTGTGGTAGCA
1 CCCACACCAGGGTTGGCAACAGCAGCCCCTGTGGGAATGGAACCAGTGGTAGCA
*
6718559 CCC-CACCAGGGTTGGCAACAGCAGCCCCTGAT-GGATTGGAACCAGTGGT
1 CCCACACCAGGGTTGGCAACAGCAGCCCCTG-TGGGAATGGAACCAGTGGT
6718608 TTCAGCCACA
Statistics
Matches: 92, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
53 40 0.43
54 52 0.57
ACGTcount: A:0.22, C:0.28, G:0.31, T:0.19
Consensus pattern (54 bp):
CCCACACCAGGGTTGGCAACAGCAGCCCCTGTGGGAATGGAACCAGTGGTAGCA
Found at i:6722693 original size:15 final size:15
Alignment explanation
Indices: 6722675--6722717 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
6722665 GGAAGGAATA
6722675 AAAACCCAGAAAATG
1 AAAACCCAGAAAATG
*
6722690 AAAACCAAGAAAATG
1 AAAACCCAGAAAATG
*
6722705 AAATCCCAGAAAA
1 AAAACCCAGAAAA
6722718 AGAAGGGAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.63, C:0.19, G:0.12, T:0.07
Consensus pattern (15 bp):
AAAACCCAGAAAATG
Found at i:6723290 original size:3 final size:3
Alignment explanation
Indices: 6723282--6723315 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
6723272 TAAATGAGTT
6723282 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
6723316 GCTTGATCCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:6727042 original size:61 final size:63
Alignment explanation
Indices: 6726967--6727090 Score: 234
Period size: 61 Copynumber: 2.0 Consensus size: 63
6726957 CGGAGCCCTC
6726967 CAAATCGCCGTCGAACCGAAATACCGAAGGTA-TTTCCTTA-ATCTAGGAAATATTGGAGGGT
1 CAAATCGCCGTCGAACCGAAATACCGAAGGTATTTTCCTTAGATCTAGGAAATATTGGAGGGT
6727028 CAAATCGCCGTCGAACCGAAATACCGAAGGTATTTTCCTTAGATCTAGGAAATATTGGAGGGT
1 CAAATCGCCGTCGAACCGAAATACCGAAGGTATTTTCCTTAGATCTAGGAAATATTGGAGGGT
6727091 TTTAGGAGAA
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
61 32 0.52
62 8 0.13
63 21 0.34
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.25
Consensus pattern (63 bp):
CAAATCGCCGTCGAACCGAAATACCGAAGGTATTTTCCTTAGATCTAGGAAATATTGGAGGGT
Found at i:6728819 original size:16 final size:16
Alignment explanation
Indices: 6728798--6728829 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
6728788 CGTGGGTATT
6728798 CTCAAATGTGTTGAAC
1 CTCAAATGTGTTGAAC
6728814 CTCAAATGTGTTGAAC
1 CTCAAATGTGTTGAAC
6728830 ATTTGCAGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (16 bp):
CTCAAATGTGTTGAAC
Found at i:6730409 original size:82 final size:83
Alignment explanation
Indices: 6730276--6730439 Score: 287
Period size: 82 Copynumber: 2.0 Consensus size: 83
6730266 AGTTTTTAAG
6730276 TTTCAATGTTATTAGGTTTCAACAGTTCAAAACAGTAACGTCT-TTTTTTTTTTTTGATAGGAAT
1 TTTCAATGTTATTAGGTTTCAACAGTTCAAAACAGTAACGTCTCTTTTTTTTTTTTGATAGGAAT
6730340 AAGAGGCCTCATTAAAGT
66 AAGAGGCCTCATTAAAGT
6730358 TTTCAATGTTATTAGGTTTCAACAGTTCAAAACAGTAAC-TCGTCTTTTTTTTTTTTTGATAGGA
1 TTTCAATGTTATTAGGTTTCAACAGTTCAAAACAGTAACGTC-TC-TTTTTTTTTTTTGATAGGA
*
6730422 ATAAGATGCCTCATTAAA
64 ATAAGAGGCCTCATTAAA
6730440 AACCTCCCTC
Statistics
Matches: 78, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
81 2 0.03
82 40 0.51
84 36 0.46
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42
Consensus pattern (83 bp):
TTTCAATGTTATTAGGTTTCAACAGTTCAAAACAGTAACGTCTCTTTTTTTTTTTTGATAGGAAT
AAGAGGCCTCATTAAAGT
Found at i:6737152 original size:37 final size:36
Alignment explanation
Indices: 6737078--6737168 Score: 109
Period size: 36 Copynumber: 2.6 Consensus size: 36
6737068 GTTTGGGCCA
* * *
6737078 ACCCGACCGGACCCGAAAATTTTATATCCTTCACCG
1 ACCCGACCCGACCCGAAAAATATATATCCTTCACCG
*
6737114 ACCTGACCCGACCCGAAAAATATATA-CCTT--CC-
1 ACCCGACCCGACCCGAAAAATATATATCCTTCACCG
6737146 ACCCGACCCGACCCGAAATAATA
1 ACCCGACCCGACCCGAAA-AATA
6737169 ATAATAAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
32 17 0.35
33 6 0.12
35 4 0.08
36 22 0.45
ACGTcount: A:0.33, C:0.37, G:0.12, T:0.18
Consensus pattern (36 bp):
ACCCGACCCGACCCGAAAAATATATATCCTTCACCG
Found at i:6746493 original size:38 final size:38
Alignment explanation
Indices: 6746423--6746529 Score: 130
Period size: 38 Copynumber: 2.9 Consensus size: 38
6746413 GAAGTTAAAA
* * *
6746423 GAAATAATTTGAGAAA--AA-AATTTAGAAGGTTAGGT
1 GAAATAATTTAAGAAATTAAGAATTTAAAATGTTAGGT
*
6746458 GAAATAGTTTAAGAAATTAAGAATTTAAAATGTTAGGT
1 GAAATAATTTAAGAAATTAAGAATTTAAAATGTTAGGT
* * *
6746496 GAAATAATTTAAGAAATTAGGAAATTATAATGTT
1 GAAATAATTTAAGAAATTAAGAATTTAAAATGTT
6746530 TTGATAAAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
35 14 0.23
37 2 0.03
38 45 0.74
ACGTcount: A:0.49, C:0.00, G:0.19, T:0.33
Consensus pattern (38 bp):
GAAATAATTTAAGAAATTAAGAATTTAAAATGTTAGGT
Found at i:6749956 original size:60 final size:60
Alignment explanation
Indices: 6749870--6749996 Score: 175
Period size: 60 Copynumber: 2.1 Consensus size: 60
6749860 CATATGTCCT
* * * * ** *
6749870 CAAAGTATGACCTTCATTTTAGATTGATCCTTAAAC-TTTTGAACATTTCAATTTCATCTC
1 CAAACTATGACATTCATTCTAAATTGATCCCCAAACTTTTTGAACATTCCAATTTCAT-TC
6749930 CAAACTATGACATTCATTCTAAATTGATCCCCAAACTTTTTGAACATTCCAATTTCATTC
1 CAAACTATGACATTCATTCTAAATTGATCCCCAAACTTTTTGAACATTCCAATTTCATTC
6749990 CAAACTA
1 CAAACTA
6749997 ATTATTATAT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
60 39 0.66
61 20 0.34
ACGTcount: A:0.33, C:0.23, G:0.06, T:0.38
Consensus pattern (60 bp):
CAAACTATGACATTCATTCTAAATTGATCCCCAAACTTTTTGAACATTCCAATTTCATTC
Found at i:6762865 original size:29 final size:29
Alignment explanation
Indices: 6762823--6762880 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
6762813 GACATGAGTT
6762823 GGTGTTTTGATGTACGAAATAAGTCGATC
1 GGTGTTTTGATGTACGAAATAAGTCGATC
* * *
6762852 GGTGTTTTGATGTATGAAGTGAGTCGATC
1 GGTGTTTTGATGTACGAAATAAGTCGATC
6762881 TGAATTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.24, C:0.09, G:0.31, T:0.36
Consensus pattern (29 bp):
GGTGTTTTGATGTACGAAATAAGTCGATC
Found at i:6763087 original size:22 final size:21
Alignment explanation
Indices: 6763052--6763102 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 21
6763042 CATAATTATT
6763052 TAAAAA-ATTAAATAAAAATAC
1 TAAAAACATTAAATAAAAA-AC
*
6763073 TAAAAACATTTAATAAAAAAC
1 TAAAAACATTAAATAAAAAAC
6763094 TAAAAACAT
1 TAAAAACAT
6763103 CCCCACAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 17 0.61
22 11 0.39
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.24
Consensus pattern (21 bp):
TAAAAACATTAAATAAAAAAC
Found at i:6766617 original size:19 final size:19
Alignment explanation
Indices: 6766585--6766632 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
6766575 GACATGTACT
*
6766585 AAAA-TAAATTAAAAATTA
1 AAAATTAAATGAAAAATTA
6766603 AAAATTAAATGAAAAATTA
1 AAAATTAAATGAAAAATTA
6766622 AAAATTTAAAT
1 AAAA-TTAAAT
6766633 ACTAAAATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 4 0.15
19 17 0.63
20 6 0.22
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (19 bp):
AAAATTAAATGAAAAATTA
Found at i:6766631 original size:8 final size:7
Alignment explanation
Indices: 6766590--6766627 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
6766580 GTACTAAAAT
6766590 AAATTAA
1 AAATTAA
6766597 AAATTAA
1 AAATTAA
6766604 AAATT--
1 AAATTAA
*
6766609 AAATGAA
1 AAATTAA
6766616 AAATTAA
1 AAATTAA
6766623 AAATT
1 AAATT
6766628 TAAATACTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
5 4 0.15
7 23 0.85
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (7 bp):
AAATTAA
Found at i:6769747 original size:2 final size:2
Alignment explanation
Indices: 6769742--6769775 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
6769732 TATGTGTGTG
6769742 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
6769776 AATCACCTGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6771970 original size:15 final size:15
Alignment explanation
Indices: 6771950--6771979 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6771940 TTCCGAAGAA
*
6771950 GGAAAGAGGCTAAAC
1 GGAAAGAAGCTAAAC
6771965 GGAAAGAAGCTAAAC
1 GGAAAGAAGCTAAAC
6771980 ATTTCCAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.13, G:0.30, T:0.07
Consensus pattern (15 bp):
GGAAAGAAGCTAAAC
Found at i:6773789 original size:21 final size:21
Alignment explanation
Indices: 6773765--6773840 Score: 62
Period size: 21 Copynumber: 3.4 Consensus size: 21
6773755 TTAAAATTAA
6773765 ATTTTATTATTGATCAGTCAT
1 ATTTTATTATTGATCAGTCAT
* * * * *
6773786 ATTTTATTGTGATTTGTTAAAATTAA
1 ATTTTA-T-T-A-TTGAT-CAGTCAT
6773812 ATTTTATTATTGATCAGTCAT
1 ATTTTATTATTGATCAGTCAT
6773833 ATTTTATT
1 ATTTTATT
6773841 GTTCTTATTA
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
21 17 0.43
22 5 0.12
23 2 0.05
24 2 0.05
25 5 0.12
26 9 0.22
ACGTcount: A:0.30, C:0.05, G:0.09, T:0.55
Consensus pattern (21 bp):
ATTTTATTATTGATCAGTCAT
Found at i:6774890 original size:113 final size:113
Alignment explanation
Indices: 6774692--6774918 Score: 364
Period size: 113 Copynumber: 2.0 Consensus size: 113
6774682 ACATACGAAA
** *
6774692 TCTTAGGATTTTGTCGCTAAAAACGACGTCGTGGGTAGTAATATCACGCCCCAACTTTTAAACTT
1 TCTTAGGATTTTGTCGCTAAAAACGACGTCGTGCCTAGTAATATCACACCCCAACTTTTAAACTT
6774757 AATTTTAAATGTTTAATTAGTATATTTTGGGGACCAAATTAAAAGATC
66 AATTTTAAATGTTTAATTAGTATATTTTGGGGACCAAATTAAAAGATC
* * * *
6774805 TCTTAGGATTTTGTCGCTAAAAACGACGTTGTGCCTAGTAATGTCACACGCTAACTTTTAAACTT
1 TCTTAGGATTTTGTCGCTAAAAACGACGTCGTGCCTAGTAATATCACACCCCAACTTTTAAACTT
** *
6774870 AATTTTAAATGTTTAATTAGTATATTTTGGGGACTGAATTGAAAGATC
66 AATTTTAAATGTTTAATTAGTATATTTTGGGGACCAAATTAAAAGATC
6774918 T
1 T
6774919 TAAAGATGTA
Statistics
Matches: 104, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
113 104 1.00
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (113 bp):
TCTTAGGATTTTGTCGCTAAAAACGACGTCGTGCCTAGTAATATCACACCCCAACTTTTAAACTT
AATTTTAAATGTTTAATTAGTATATTTTGGGGACCAAATTAAAAGATC
Found at i:6779294 original size:15 final size:15
Alignment explanation
Indices: 6779274--6779304 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
6779264 CAAGAAAACC
6779274 TCTAAAAGGTAGGTG
1 TCTAAAAGGTAGGTG
6779289 TCTAAAAGGTAGGTG
1 TCTAAAAGGTAGGTG
6779304 T
1 T
6779305 TTACAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.32, T:0.29
Consensus pattern (15 bp):
TCTAAAAGGTAGGTG
Found at i:6779560 original size:21 final size:22
Alignment explanation
Indices: 6779534--6779574 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
6779524 TCAGGACAGG
*
6779534 GAGTATCGGTAC-TCCTTTAAT
1 GAGTATCGATACTTCCTTTAAT
*
6779555 GAGTATTGATACTTCCTTTA
1 GAGTATCGATACTTCCTTTA
6779575 TAATTTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.41
Consensus pattern (22 bp):
GAGTATCGATACTTCCTTTAAT
Found at i:6782166 original size:60 final size:60
Alignment explanation
Indices: 6782099--6782217 Score: 150
Period size: 60 Copynumber: 2.0 Consensus size: 60
6782089 AAATAGTCCC
* * * *
6782099 TCGACTATAGGGTATTGCTTTATT-ACGTCCCTCGATTATTAAAAGTTATAAAATGGTCAT
1 TCGACTATAGAGTATTGCTTTATTGA-GCCCCTCGACTATTAAAAGTTACAAAATGGTCAT
* * * *
6782159 TCGACTATAGAGTGTTGCTTTGTTGAGCCCCTTGACTATTTAAAGTTACAAAATGGTCA
1 TCGACTATAGAGTATTGCTTTATTGAGCCCCTCGACTATTAAAAGTTACAAAATGGTCA
6782218 CATGACTATT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
60 49 0.98
61 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (60 bp):
TCGACTATAGAGTATTGCTTTATTGAGCCCCTCGACTATTAAAAGTTACAAAATGGTCAT
Found at i:6782828 original size:11 final size:11
Alignment explanation
Indices: 6782812--6782836 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6782802 AGGAAAGACG
6782812 GGTTAATATAC
1 GGTTAATATAC
6782823 GGTTAATATAC
1 GGTTAATATAC
6782834 GGT
1 GGT
6782837 AGTATCGGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (11 bp):
GGTTAATATAC
Found at i:6783486 original size:229 final size:228
Alignment explanation
Indices: 6783083--6783573 Score: 849
Period size: 229 Copynumber: 2.1 Consensus size: 228
6783073 GTTATATTGT
* * * * * * *
6783083 AAAGTATCTATCCTTTTTATAAAAGTGTTCACATTTATTTCACTGTGAAAATATATTTATTATTA
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTAGTTCACTGTGAAAACATATTTATTATTA
*
6783148 TCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAA
66 TATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAA
6783213 TAATTTTGTGTGTAAATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAACACTATTAA
131 TAATTTTGTGTGTAAATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAACACTATT-A
6783278 AAAAAATTGAAACATAAATTACATAACTTTAAAA
195 AAAAAATTGAAACATAAATTACATAACTTTAAAA
*
6783312 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTAGTTCACTGTGGAAAACATATTTATTTTT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTAGTTCACTGT-GAAAACATATTTATTATT
*
6783377 ATATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATC-AAATAATCAA
65 ATATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAA
* *
6783441 ATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTA
130 ATAATTTTGTGTGTAAATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAACACTATTA
6783506 AAAAAATTGAAACATAAATTACATAACTTTAAAA
195 AAAAAATTGAAACATAAATTACATAACTTTAAAA
6783540 AAAGTATATATCATTTTTATAAAAGTGTCCATAC
1 AAAGTATATATCATTTTTATAAAAGTGTCCATAC
6783574 GTATAAAAGT
Statistics
Matches: 249, Mismatches: 12, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
228 69 0.28
229 111 0.45
230 69 0.28
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (228 bp):
AAAGTATATATCATTTTTATAAAAGTGTCCATACTTAGTTCACTGTGAAAACATATTTATTATTA
TATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAA
TAATTTTGTGTGTAAATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAACACTATTAA
AAAAATTGAAACATAAATTACATAACTTTAAAA
Found at i:6784031 original size:181 final size:182
Alignment explanation
Indices: 6783643--6784116 Score: 702
Period size: 181 Copynumber: 2.6 Consensus size: 182
6783633 CGATCCAAAT
* * * *
6783643 AAAAAATGTATCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCAGTATA-GAAATGA
1 AAAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGT-TACAAAATGA
* * * * *
6783707 TAAAACCGGTAAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACT
65 TAAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACT
* *
6783772 TCGTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTT
130 TCGTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTA
**
6783825 AAAAAATGTATCGATCCAAAACGATATTCCAGGTAAAAATATGATAAAACCGGTTACAAAATGAT
1 AAAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTTACAAAATGAT
*
6783890 AAAACCGGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTT
66 AAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTT
* * ** *
6783954 TGTGAATTTAAAAGAGAAGTAGTTTTAGCGCCTATAATGTGTCGATACTTTA
131 CGTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTA
* *
6784006 AAAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGG-TATCAAAATGA
1 AAAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTTA-CAAAATGA
* *
6784070 TAAAACCGGTAAAATGATACCGGATATATTGAAAGTGTTGATACTTT
65 TAAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
6784117 CGTAAGTACG
Statistics
Matches: 265, Mismatches: 25, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
180 2 0.01
181 166 0.63
182 97 0.37
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (182 bp):
AAAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTTACAAAATGAT
AAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTT
CGTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTA
Found at i:6784060 original size:20 final size:19
Alignment explanation
Indices: 6784037--6784083 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
6784027 CGATATAACA
6784037 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
6784057 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
6784077 GGTAAAA
1 GGTAAAA
6784084 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:6784085 original size:17 final size:19
Alignment explanation
Indices: 6784046--6784088 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
6784036 AGGTAAAAAT
6784046 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
6784066 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
6784083 ATGATA
1 ATGATA
6784089 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:6786326 original size:21 final size:21
Alignment explanation
Indices: 6786302--6786345 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
6786292 AAGACAATCA
6786302 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
6786323 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
6786344 AG
1 AG
6786346 GCATAAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.32, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:6786423 original size:33 final size:33
Alignment explanation
Indices: 6786379--6786444 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
6786369 AAATAGATGG
* *
6786379 AGTGGTTAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
6786412 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
6786445 TATTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.47, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:6788251 original size:19 final size:19
Alignment explanation
Indices: 6788227--6788275 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
6788217 AATGTAGGGT
6788227 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
6788246 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
6788265 TATTTTTGTAT
1 TAATTTTGTAT
6788276 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:6788737 original size:200 final size:198
Alignment explanation
Indices: 6788394--6789363 Score: 1782
Period size: 198 Copynumber: 4.9 Consensus size: 198
6788384 CAATATGGCC
*
6788394 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG-AAC
*
6788459 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
6788524 GAATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACT-TTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
6788589 TGGAA
194 TGGAA
* *
6788594 AACAGGGTGCAACTATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG-AAC
6788659 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
6788724 GAATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACT-TTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
6788789 TGGAA
194 TGGAA
6788794 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
* *
6788859 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTATAAGAATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
*
6788924 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAATG
6788989 GAA
196 GAA
*
6788992 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAATGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
* *
6789057 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGAATACTGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
6789122 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATATTTTTGGTT-CAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATATTTTT-GTTCCAGAATGAAT
6789186 GGAA
195 GGAA
*
6789190 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCC-AAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
6789254 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
6789319 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATA
6789364 CTAATTTAAA
Statistics
Matches: 754, Mismatches: 15, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
197 121 0.16
198 280 0.37
199 95 0.13
200 258 0.34
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.31
Consensus pattern (198 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAATG
GAA
Found at i:6790836 original size:12 final size:12
Alignment explanation
Indices: 6790819--6790895 Score: 100
Period size: 12 Copynumber: 6.4 Consensus size: 12
6790809 GGTCGCAGAA
*
6790819 GATGAAGCTGAC
1 GATGAAGATGAC
6790831 GATGAAGATGAC
1 GATGAAGATGAC
*
6790843 GATGATGATGAC
1 GATGAAGATGAC
*
6790855 GATGAAGCTGAC
1 GATGAAGATGAC
*
6790867 GATGAAGATGAT
1 GATGAAGATGAC
* *
6790879 GATGACGATGAT
1 GATGAAGATGAC
6790891 GATGA
1 GATGA
6790896 TGAAGAAGAT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 58 1.00
ACGTcount: A:0.36, C:0.09, G:0.34, T:0.21
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:6790837 original size:18 final size:18
Alignment explanation
Indices: 6790816--6790895 Score: 97
Period size: 18 Copynumber: 4.4 Consensus size: 18
6790806 AGCGGTCGCA
*
6790816 GAAGATGAAGCTGACGAT
1 GAAGATGAAGATGACGAT
* *
6790834 GAAGATGACGATGATGAT
1 GAAGATGAAGATGACGAT
* *
6790852 GACGATGAAGCTGACGAT
1 GAAGATGAAGATGACGAT
*
6790870 GAAGATGATGATGACGAT
1 GAAGATGAAGATGACGAT
*
6790888 GATGATGA
1 GAAGATGA
6790896 TGAAGAAGAT
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 51 1.00
ACGTcount: A:0.38, C:0.09, G:0.34, T:0.20
Consensus pattern (18 bp):
GAAGATGAAGATGACGAT
Found at i:6790840 original size:6 final size:6
Alignment explanation
Indices: 6790816--6790907 Score: 76
Period size: 6 Copynumber: 15.3 Consensus size: 6
6790806 AGCGGTCGCA
* * * * * *
6790816 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GACGAT GAAGCT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* * * * * *
6790864 GACGAT GAAGAT GATGAT GACGAT GATGAT GATGAA GAAGAT GA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA
6790908 TGATCCAAAC
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 68 1.00
ACGTcount: A:0.39, C:0.08, G:0.34, T:0.20
Consensus pattern (6 bp):
GAAGAT
Found at i:6790906 original size:12 final size:12
Alignment explanation
Indices: 6790819--6790910 Score: 85
Period size: 12 Copynumber: 7.4 Consensus size: 12
6790809 GGTCGCAGAA
* *
6790819 GATGAAGCTGAC
1 GATGAAGATGAT
*
6790831 GATGAAGATGAC
1 GATGAAGATGAT
* *
6790843 GATGATGATGAC
1 GATGAAGATGAT
* *
6790855 GATGAAGCTGAC
1 GATGAAGATGAT
6790867 GATGAAGATGAT
1 GATGAAGATGAT
6790879 GATGACGATGATGAT
1 GATGA--A-GATGAT
*
6790894 GATGAAGAAGAT
1 GATGAAGATGAT
6790906 GATGA
1 GATGA
6790911 TCCAAACAAG
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
12 57 0.81
13 1 0.01
14 1 0.01
15 11 0.16
ACGTcount: A:0.38, C:0.08, G:0.34, T:0.21
Consensus pattern (12 bp):
GATGAAGATGAT
Found at i:6792137 original size:16 final size:16
Alignment explanation
Indices: 6792105--6792138 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6792095 TATCCACAAC
* *
6792105 AAAGTGTCGATTTAAA
1 AAAGTGTCGACTGAAA
6792121 AAAGTGTCGACTGAAA
1 AAAGTGTCGACTGAAA
6792137 AA
1 AA
6792139 TGTAATAGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.21, T:0.24
Consensus pattern (16 bp):
AAAGTGTCGACTGAAA
Found at i:6792531 original size:23 final size:23
Alignment explanation
Indices: 6792500--6792572 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
6792490 ATAGGTAAAA
*
6792500 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
6792523 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
6792546 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
6792569 ATAT
1 ATAT
6792573 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:6793299 original size:122 final size:119
Alignment explanation
Indices: 6793140--6793379 Score: 390
Period size: 122 Copynumber: 2.0 Consensus size: 119
6793130 TATAACCGGT
* * *
6793140 ATAAATATACCAGTTTTATGCGCGAATAGGTCTACAACCTATATCGATACTTTTTAATATTGTGT
1 ATAAATATACCAGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATTGTGT
**
6793205 CGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATATGATTTAAAAAAGTGTA
66 CGGTACTTTATGTCCAGATTGGAAGAAAAA--TGTCGATACCATTT-AAAAAGTGTA
*
6793262 ATAATTATACCAGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATTGTGT
1 ATAAATATACCAGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATTGTGT
*
6793327 CGGTACTTTATGTTCAGATTGGAAGAAAAATGTCGATACCATTTAAAAAGTGT
66 CGGTACTTTATGTCCAGATTGGAAGAAAAATGTCGATACCATTTAAAAAGTGT
6793380 CGGTAATTTT
Statistics
Matches: 111, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
119 9 0.08
120 12 0.11
122 90 0.81
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.35
Consensus pattern (119 bp):
ATAAATATACCAGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATTGTGT
CGGTACTTTATGTCCAGATTGGAAGAAAAATGTCGATACCATTTAAAAAGTGTA
Found at i:6795879 original size:25 final size:25
Alignment explanation
Indices: 6795851--6795915 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
6795841 TTATCATTAA
6795851 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
6795876 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
6795901 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
6795916 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:6796294 original size:23 final size:23
Alignment explanation
Indices: 6796263--6796335 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
6796253 ATAGGTAAAA
*
6796263 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* **
6796286 ATATAATGTAATAGGTATCTTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
6796309 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
6796332 ATAT
1 ATAT
6796336 TGTAAAGTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.34, C:0.04, G:0.21, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:6796645 original size:25 final size:25
Alignment explanation
Indices: 6796607--6796656 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
6796597 AAATCAATTA
*
6796607 AACATTGTTGTGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
6796632 AACATTGTTATGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
6796657 GAAAAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (25 bp):
AACATTGTTATGGGTACATTATTTG
Found at i:6797061 original size:18 final size:18
Alignment explanation
Indices: 6797040--6797076 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
6797030 GTAATTGGAG
6797040 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
6797058 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
6797076 T
1 T
6797077 ATATTTCGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:6797388 original size:39 final size:39
Alignment explanation
Indices: 6797345--6797431 Score: 149
Period size: 39 Copynumber: 2.2 Consensus size: 39
6797335 TCCGATGCTC
6797345 ATCAAAATCCAAAGCTCATAT-AGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGA-TGCCAAGCAAAAGGAA
*
6797384 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
6797423 ATCAAAATC
1 ATCAAAATC
6797432 TACAACTTGA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
39 45 0.98
40 1 0.02
ACGTcount: A:0.49, C:0.21, G:0.13, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:6797899 original size:23 final size:21
Alignment explanation
Indices: 6797852--6797922 Score: 79
Period size: 21 Copynumber: 3.3 Consensus size: 21
6797842 AGGTAAAAAT
6797852 ATGTAATAGGTAGCGCTTATA
1 ATGTAATAGGTAGCGCTTATA
* *
6797873 ATGTAATAGGTATCGTTTATATA
1 ATGTAATAGGTAGCG-CT-TATA
* *
6797896 ATGTAATAGGTAGTGGTTATA
1 ATGTAATAGGTAGCGCTTATA
*
6797917 TTGTAA
1 ATGTAA
6797923 AGTATCTATC
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
21 23 0.55
22 2 0.05
23 17 0.40
ACGTcount: A:0.34, C:0.04, G:0.23, T:0.39
Consensus pattern (21 bp):
ATGTAATAGGTAGCGCTTATA
Found at i:6798306 original size:23 final size:23
Alignment explanation
Indices: 6798275--6798347 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
6798265 ATATGTAAAA
*
6798275 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
6798298 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
6798321 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
6798344 ATAT
1 ATAT
6798348 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:6798476 original size:430 final size:430
Alignment explanation
Indices: 6797650--6799558 Score: 3478
Period size: 430 Copynumber: 4.5 Consensus size: 430
6797640 GTTAATGTTG
* * *
6797650 TTAAATT-TAAATTCTAAAT-ATTTTTTATAAAATATCAAAACAATCAAGTAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
*
6797713 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACATA
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
*
6797778 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTAT-AAAAGTATGTACACTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
6797842 AGGT-AAAA-AT-ATGTAATAGGTAGCGC-T-TATAATGTAATAGGTATCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
*
6797902 TAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
261 TAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTATCCATACTTTTTTCACTGT
*
6797967 GGAAAACATTAATTTAAGGTTATCATTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
326 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
* *
6798032 CTCTAATAATTTATTTTTTACGTTACGATATATATTATTA
391 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
6798072 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
6798137 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
6798202 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
*
6798267 ATGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
*
6798332 TAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTATTCATACTTTTTTCACTGT
261 TAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTATCCATACTTTTTTCACTGT
6798397 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
326 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
6798462 GTCTAATGATTTA-TTTTTACGTTACGATATATATTATTA
391 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
6798501 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
6798566 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACAT
6798631 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
130 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
6798696 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
195 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
*
6798761 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTATTCATACTTTTTTCACTG
260 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTATCCATACTTTTTTCACTG
*
6798826 TGGAAAATATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
325 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
6798891 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
390 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
*
6798932 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATTAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
* *
6798997 ATAAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTTTTAAAAAAATTGAAACATA
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
6799062 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
*
6799127 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
* * * * *
6799192 TAGGAATTGCTTATATTGTAAAGTATATAT-CTATTTTATAAAAGTGTCCATACTTTTTTCACTG
261 TAGGTAGTGGTTATATTGTAAAGTATCTATCCT-TTTTATAAAAGTATCCATACTTTTTTCACTG
6799256 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
325 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
*
6799321 CGTCTAATGATTTATTTTTTACGTTAGGATATATATTATTA
390 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
6799362 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
** *
6799427 ATGAAATTATTAAATTAATATTGTAGGTAAAAAACATAAAACACTATTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACAT
*
6799492 AAATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAA
130 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
6799557 TA
195 TA
6799559 TAATGTAATA
Statistics
Matches: 1443, Mismatches: 32, Indels: 15
0.97 0.02 0.01
Matches are distributed among these distances:
422 7 0.00
423 11 0.01
424 144 0.10
425 28 0.02
426 4 0.00
427 2 0.00
428 16 0.01
429 142 0.10
430 871 0.60
431 218 0.15
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (430 bp):
TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
TAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTATCCATACTTTTTTCACTGT
GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
Found at i:6798736 original size:23 final size:23
Alignment explanation
Indices: 6798705--6798777 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
6798695 ATAGGTAAAA
*
6798705 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
6798728 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
6798751 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
6798774 ATAT
1 ATAT
6798778 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:6799207 original size:23 final size:23
Alignment explanation
Indices: 6799135--6799195 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
6799125 ATAGGTAAAA
*
6799135 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
6799158 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
6799181 ATATAATGTAATAGG
1 ATATAATGTAATAGG
6799196 AATTGCTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.05, G:0.23, T:0.36
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:6802863 original size:60 final size:60
Alignment explanation
Indices: 6802738--6802863 Score: 164
Period size: 60 Copynumber: 2.1 Consensus size: 60
6802728 AGTCGAGTCG
* * * *
6802738 AACTATAGAGAGTTACTTTGTTGAGTCATTTGACTATTAAAAGTTACAAAATGGTTACTC
1 AACTATAGAGAGTTACTTTGTTGAGCCATTCGACTATTAAAAGTTACAAAATGATCACTC
** *
6802798 AACTATAGAGAGTTACTTTGTTGAGCCCA-TCGACTATTAAAAGTTTTAATATGATCACTC
1 AACTATAGAGAGTTACTTTGTTGAG-CCATTCGACTATTAAAAGTTACAAAATGATCACTC
*
6802858 GACTAT
1 AACTAT
6802864 TCATTATATT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
60 55 0.96
61 2 0.04
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (60 bp):
AACTATAGAGAGTTACTTTGTTGAGCCATTCGACTATTAAAAGTTACAAAATGATCACTC
Found at i:6809281 original size:31 final size:31
Alignment explanation
Indices: 6809221--6809284 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
6809211 ACAGATGAAC
* *
6809221 TAAATTTATAACTCAAACATTATAAATAAAT
1 TAAATTTATAACTCAAACATGACAAATAAAT
* *
6809252 TAAATTTGTAACTCAAACATGACATATAAAT
1 TAAATTTATAACTCAAACATGACAAATAAAT
6809283 TA
1 TA
6809285 TCATATCAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.52, C:0.11, G:0.03, T:0.34
Consensus pattern (31 bp):
TAAATTTATAACTCAAACATGACAAATAAAT
Found at i:6812322 original size:2 final size:2
Alignment explanation
Indices: 6812315--6812350 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
6812305 GATTATTTTC
6812315 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
6812351 TTAGAATATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6814480 original size:29 final size:29
Alignment explanation
Indices: 6814447--6814537 Score: 164
Period size: 29 Copynumber: 3.1 Consensus size: 29
6814437 TTCTACAGTA
6814447 ACCTTGGAGGTCGCCATGGCATCCGGGCG
1 ACCTTGGAGGTCGCCATGGCATCCGGGCG
*
6814476 ACCTTTGAGGTCGCCATGGCATCCGGGCG
1 ACCTTGGAGGTCGCCATGGCATCCGGGCG
*
6814505 ACCTTGGAGGTCGCCATGGCATCCGAGCG
1 ACCTTGGAGGTCGCCATGGCATCCGGGCG
6814534 ACCT
1 ACCT
6814538 GTGTGTATTT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 59 1.00
ACGTcount: A:0.15, C:0.32, G:0.34, T:0.19
Consensus pattern (29 bp):
ACCTTGGAGGTCGCCATGGCATCCGGGCG
Found at i:6815178 original size:21 final size:21
Alignment explanation
Indices: 6815153--6815196 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
6815143 AAATCTAGTA
6815153 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
6815174 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
6815195 AT
1 AT
6815197 ATTATATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:6815231 original size:27 final size:28
Alignment explanation
Indices: 6815166--6815232 Score: 93
Period size: 28 Copynumber: 2.4 Consensus size: 28
6815156 AGTTTGTTAG
* *
6815166 TATAAATTATTAGTTTGTTAGTTTAAGT
1 TATATATTATTAGTTTATTAGTTTAAGT
6815194 TATAT-TATATTAGTTTATTAG-TTAAGT
1 TATATAT-TATTAGTTTATTAGTTTAAGT
6815221 TATATATTATTA
1 TATATATTATTA
6815233 TATAAAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
27 17 0.49
28 18 0.51
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (28 bp):
TATATATTATTAGTTTATTAGTTTAAGT
Found at i:6815761 original size:21 final size:22
Alignment explanation
Indices: 6815731--6815774 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
6815721 TTTAAAAATA
6815731 TTGTGTTTAAAAATATTTAGTT
1 TTGTGTTTAAAAATATTTAGTT
*
6815753 TTGT-TTTAAAAATATTTTGTT
1 TTGTGTTTAAAAATATTTAGTT
6815774 T
1 T
6815775 AATTTACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (22 bp):
TTGTGTTTAAAAATATTTAGTT
Found at i:6815780 original size:20 final size:21
Alignment explanation
Indices: 6815736--6815780 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
6815726 AAATATTGTG
**
6815736 TTTAAAAATATTTAGTTTTGT
1 TTTAAAAATATTTAGTTTTAA
*
6815757 TTTAAAAATATTTTG-TTTAA
1 TTTAAAAATATTTAGTTTTAA
6815777 TTTA
1 TTTA
6815781 CATTGTATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
TTTAAAAATATTTAGTTTTAA
Found at i:6816070 original size:26 final size:25
Alignment explanation
Indices: 6816041--6816099 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
6816031 AAATCATATT
*
6816041 ATTATTAAATCATTAAATATCAAATC
1 ATTATTAAAT-AGTAAATATCAAATC
*
6816067 ATTAGATT-AATAGTAATTATCAAATC
1 ATT--ATTAAATAGTAAATATCAAATC
6816093 ATTATTA
1 ATTATTA
6816100 GGTTTATTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
24 3 0.11
26 19 0.68
27 3 0.11
28 3 0.11
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.41
Consensus pattern (25 bp):
ATTATTAAATAGTAAATATCAAATC
Found at i:6819006 original size:26 final size:26
Alignment explanation
Indices: 6818980--6819465 Score: 395
Period size: 26 Copynumber: 19.2 Consensus size: 26
6818970 GATGATTTAG
*
6818980 TAATGATTTGATAATAATCATTATAG
1 TAATGATTTGATAATAATCATTATAA
6819006 TAATGATTTGATAATAATCATTATAA
1 TAATGATTTGATAATAATCATTATAA
6819032 TAATGATTT-AGTAATAATCATTATAA
1 TAATGATTTGA-TAATAATCATTATAA
* * * *
6819058 AAATGATTTAATAATGATTTGATGATT-TAG
1 TAATGATTTGATAAT-A----ATCATTATAA
*
6819088 TAATGATTTGATAATAATCATTATAG
1 TAATGATTTGATAATAATCATTATAA
6819114 TAATGATTTGATAATAATCATTATAA
1 TAATGATTTGATAATAATCATTATAA
6819140 TAATGATTT-AGTAATAATCATTATAA
1 TAATGATTTGA-TAATAATCATTATAA
* * *
6819166 AAATGATTTAATAATGAT--TTA-AA
1 TAATGATTTGATAATAATCATTATAA
* * * * * * *
6819189 TATTTA-ATGAT-TTGATGATT-TAG
1 TAATGATTTGATAATAATCATTATAA
*
6819212 TAATGATTTGATAATAATCATTATAG
1 TAATGATTTGATAATAATCATTATAA
6819238 TAATGATTTGATAATAATCATTATAA
1 TAATGATTTGATAATAATCATTATAA
6819264 TAATGATTT-AGTAATAATCATTATAA
1 TAATGATTTGA-TAATAATCATTATAA
*
6819290 AAATGATTT-AGTAATAATCATTATAA
1 TAATGATTTGA-TAATAATCATTATAA
* * *
6819316 AAATGATTTAATAATGAT--TTA-AA
1 TAATGATTTGATAATAATCATTATAA
* * * * * * *
6819339 TATTTA-ATGAT-TTGATGATT-TAG
1 TAATGATTTGATAATAATCATTATAA
6819362 TAATGATTTGATAATAATCATTATAA
1 TAATGATTTGATAATAATCATTATAA
* * *
6819388 TAATGATTTTATAATAATTATT-TAG
1 TAATGATTTGATAATAATCATTATAA
* * *
6819413 TTATTATTT-AGTAATTAT--TTATAA
1 TAATGATTTGA-TAATAATCATTATAA
* * *
6819437 TAATGATTTAATACTAATGATT-TAA
1 TAATGATTTGATAATAATCATTATAA
6819462 TAAT
1 TAAT
6819466 TATTACTAAT
Statistics
Matches: 380, Mismatches: 51, Indels: 59
0.78 0.10 0.12
Matches are distributed among these distances:
21 8 0.02
22 6 0.02
23 26 0.07
24 29 0.08
25 43 0.11
26 243 0.64
27 4 0.01
29 1 0.00
30 15 0.04
31 5 0.01
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (26 bp):
TAATGATTTGATAATAATCATTATAA
Found at i:6819084 original size:19 final size:19
Alignment explanation
Indices: 6819060--6819099 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
6819050 CATTATAAAA
6819060 ATGATTTAATAATGATTTG
1 ATGATTTAATAATGATTTG
*
6819079 ATGATTTAGTAATGATTTG
1 ATGATTTAATAATGATTTG
6819098 AT
1 AT
6819100 AATAATCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.47
Consensus pattern (19 bp):
ATGATTTAATAATGATTTG
Found at i:6819085 original size:45 final size:45
Alignment explanation
Indices: 6819034--6819125 Score: 116
Period size: 45 Copynumber: 2.0 Consensus size: 45
6819024 CATTATAATA
*
6819034 ATGATTTAGTAATAATCATT-ATAAAAATGATT-TAATAATGATTTG
1 ATGATTTAGTAATAAT--TTGATAAAAATCATTATAATAATGATTTG
* * *
6819079 ATGATTTAGTAATGATTTGATAATAATCATTATAGTAATGATTTG
1 ATGATTTAGTAATAATTTGATAAAAATCATTATAATAATGATTTG
6819124 AT
1 AT
6819126 AATAATCATT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 2 0.05
44 10 0.24
45 29 0.71
ACGTcount: A:0.41, C:0.02, G:0.13, T:0.43
Consensus pattern (45 bp):
ATGATTTAGTAATAATTTGATAAAAATCATTATAATAATGATTTG
Found at i:6819085 original size:108 final size:108
Alignment explanation
Indices: 6818961--6819278 Score: 489
Period size: 108 Copynumber: 3.0 Consensus size: 108
6818951 TTTAAATATT
6818961 TAATGATTTGATGATTTAGTAATGATTTGATAATAATCATTATAGTAATGATTTGATAATAATCA
1 TAATGATTTGATGATTTAGTAATGATTTGATAATAATCATTATAGTAATGATTTGATAATAATCA
6819026 TTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTAA
66 TTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTAA
6819069 TAATGATTTGATGATTTAGTAATGATTTGATAATAATCATTATAGTAATGATTTGATAATAATCA
1 TAATGATTTGATGATTTAGTAATGATTTGATAATAATCATTATAGTAATGATTTGATAATAATCA
6819134 TTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTAA
66 TTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTAA
* *
6819177 TAATGATTT-A-AATATT--TAATGATTTG------ATGATT-TAGTAATGATTTGATAATAATC
1 TAATGATTTGATGAT-TTAGTAATGATTTGATAATAATCATTATAGTAATGATTTGATAATAATC
* * *
6819231 ATTATAGTAATGATTT-GATAATAATCATTATAATAATGATTTAG
65 ATTATAATAATGATTTAG-TAATAATCATTATAAAAATGATTTAA
6819275 TAAT
1 TAAT
6819279 AATCATTATA
Statistics
Matches: 203, Mismatches: 5, Indels: 14
0.91 0.02 0.06
Matches are distributed among these distances:
97 1 0.00
98 65 0.32
99 5 0.02
105 10 0.05
106 2 0.01
107 3 0.01
108 117 0.58
ACGTcount: A:0.43, C:0.03, G:0.11, T:0.43
Consensus pattern (108 bp):
TAATGATTTGATGATTTAGTAATGATTTGATAATAATCATTATAGTAATGATTTGATAATAATCA
TTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTAA
Found at i:6819197 original size:124 final size:129
Alignment explanation
Indices: 6818977--6819405 Score: 584
Period size: 124 Copynumber: 3.4 Consensus size: 129
6818967 TTTGATGATT
* *
6818977 TAGTAATGATTTGATAATAATCATTATAGTAATGATTT-GATAATAATCATTATAATAATGATTT
1 TAGTAATGATTTGATAATAATCATTATAATAATGATTTAG-TAATAATCATTATAAAAATGATTT
6819041 AGTAATAATCATTATAAAAATGATTTAATAATGATTTGATGATTTAGTAATGATTTGATAATAAT
65 A-TAATAATCATTAT-AAAATGA-TT--TAATGATTTGATGATTTAGTAATGATTTGATAATAAT
6819106 CATTA
125 CATTA
6819111 TAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGA-TT-
1 TAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTA
*
6819174 TAATAATGATT-T-AAAT-ATTTAATGATTTGATGATTTAGTAATGATTTGATAATAATCATTA
66 TAATAATCATTATAAAATGATTTAATGATTTGATGATTTAGTAATGATTTGATAATAATCATTA
6819235 TAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTA
1 TAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTA
* * * *
6819300 GTAATAATCATTATAAAAATGATTTAAT-A----ATGATTTA--AAT-ATTTAATGATTTGATGA
66 -TAATAATCATTAT-AAAATGATTTAATGATTTGATGATTTAGTAATGATTTGAT-A-ATAATCA
6819357 TT-
127 TTA
6819359 TAGTAATGATTTGATAATAATCATTATAATAATGATTTTA-TAATAAT
1 TAGTAATGATTTGATAATAATCATTATAATAATGA-TTTAGTAATAAT
6819406 TATTTAGTTA
Statistics
Matches: 276, Mismatches: 8, Indels: 32
0.87 0.03 0.10
Matches are distributed among these distances:
123 6 0.02
124 149 0.54
125 12 0.04
126 10 0.04
127 11 0.04
128 5 0.02
130 6 0.02
131 17 0.06
133 2 0.01
134 57 0.21
135 1 0.00
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.43
Consensus pattern (129 bp):
TAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTA
TAATAATCATTATAAAATGATTTAATGATTTGATGATTTAGTAATGATTTGATAATAATCATTA
Found at i:6819261 original size:150 final size:150
Alignment explanation
Indices: 6819085--6819446 Score: 615
Period size: 150 Copynumber: 2.4 Consensus size: 150
6819075 TTTGATGATT
6819085 TAGTAATGATTTGATAATAATCATTATAGTAATGATTT-GATAATAATCATTATAATAATGATTT
1 TAGTAATGATTTGATAATAATCATTATAGTAATGATTTAG-TAATAATCATTATAATAATGATTT
6819149 AGTAATAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTA
65 AGTAATAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTA
6819214 ATGATTTGATAATAATCATTA
130 ATGATTTGATAATAATCATTA
* *
6819235 TAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTA
1 TAGTAATGATTTGATAATAATCATTATAGTAATGATTTAGTAATAATCATTATAATAATGATTTA
6819300 GTAATAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAA
66 GTAATAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAA
6819365 TGATTTGATAATAATCATTA
131 TGATTTGATAATAATCATTA
* * * * * *
6819385 TAATAATGATTTTATAATAATTATT-TAGTTATTATTTAGTAATTAT--TTATAATAATGATTTA
1 TAGTAATGATTTGATAATAATCATTATAGTAATGATTTAGTAATAATCATTATAATAATGATTTA
6819447 ATACTAATGA
Statistics
Matches: 201, Mismatches: 10, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
147 15 0.07
149 17 0.08
150 168 0.84
151 1 0.00
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (150 bp):
TAGTAATGATTTGATAATAATCATTATAGTAATGATTTAGTAATAATCATTATAATAATGATTTA
GTAATAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAA
TGATTTGATAATAATCATTA
Found at i:6819456 original size:14 final size:14
Alignment explanation
Indices: 6818980--6819465 Score: 182
Period size: 14 Copynumber: 36.1 Consensus size: 14
6818970 GATGATTTAG
*
6818980 TAATGATTTGATAA
1 TAATGATTTAATAA
* *
6818994 TAATCA-TT-ATAG
1 TAATGATTTAATAA
*
6819006 TAATGATTTGATAA
1 TAATGATTTAATAA
*
6819020 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
6819032 TAATGATTTAGTAA
1 TAATGATTTAATAA
*
6819046 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
6819058 AAATGATTTAATAA
1 TAATGATTTAATAA
* *
6819072 TGATTTGATGATT--TAG
1 T-A-ATGAT--TTAATAA
*
6819088 TAATGATTTGATAA
1 TAATGATTTAATAA
* *
6819102 TAATCA-TT-ATAG
1 TAATGATTTAATAA
*
6819114 TAATGATTTGATAA
1 TAATGATTTAATAA
*
6819128 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
6819140 TAATGATTTAGTAA
1 TAATGATTTAATAA
*
6819154 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
6819166 AAATGA-TT--TAA
1 TAATGATTTAATAA
*
6819177 TAATGATTTAAATATT
1 TAATGATTT-AATA-A
*
6819193 TAATGATTTGATGATTTAG
1 TAATGATTT-A--A--TAA
*
6819212 TAATGATTTGATAA
1 TAATGATTTAATAA
* *
6819226 TAATCA-TT-ATAG
1 TAATGATTTAATAA
*
6819238 TAATGATTTGATAA
1 TAATGATTTAATAA
*
6819252 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
6819264 TAATGATTTAGTAA
1 TAATGATTTAATAA
*
6819278 TAATCA-TT-ATAA
1 TAATGATTTAATAA
* *
6819290 AAATGATTTAGTAA
1 TAATGATTTAATAA
*
6819304 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
6819316 AAATGA-TT--TAA
1 TAATGATTTAATAA
*
6819327 TAATGATTTAAATATT
1 TAATGATTT-AATA-A
*
6819343 TAATGATTTGATGATTTAG
1 TAATGATTT-A--A--TAA
*
6819362 TAATGATTTGATAA
1 TAATGATTTAATAA
*
6819376 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
6819388 TAATGATTTTATAA
1 TAATGATTTAATAA
* *
6819402 TAATTATTTAGT--
1 TAATGATTTAATAA
* *
6819414 T-ATTATTTAGTAA
1 TAATGATTTAATAA
6819427 T--T-ATTT-ATAA
1 TAATGATTTAATAA
*
6819437 TAATGATTTAATAC
1 TAATGATTTAATAA
6819451 TAATGATTTAATAA
1 TAATGATTTAATAA
6819465 T
1 T
6819466 TATTACTAAT
Statistics
Matches: 360, Mismatches: 64, Indels: 96
0.69 0.12 0.18
Matches are distributed among these distances:
10 4 0.01
11 30 0.08
12 101 0.28
13 45 0.12
14 119 0.33
15 6 0.02
16 29 0.08
18 4 0.01
19 18 0.05
20 4 0.01
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (14 bp):
TAATGATTTAATAA
Found at i:6819461 original size:124 final size:123
Alignment explanation
Indices: 6819111--6819449 Score: 392
Period size: 124 Copynumber: 2.8 Consensus size: 123
6819101 ATAATCATTA
6819111 TAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTA
1 TAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTA
* * * * * * *
6819176 ATAATGAT-TTA-AATATTTAATGA-TT--TGATGATTTAGTAATGATTTGAT-A-ATAATCATT
66 GTAATAATATTATAA-A---AATGATTTAATAATGATTTA--AAT-ATTTAATGATTTGATGATT
6819234 ATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTT
1 -TAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTT
6819299 AGTAATAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATT
65 AGTAATAAT-ATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATT
* *** *
6819359 TAGTAATGATTTGATAATAATCATTATAATAATGATTTTA-TAATAATTATT-TAGTTATTATTT
1 TAGTAATGATTTGATAATAATCATTATAATAATGA-TTTAGTAATAATCATTATAAAAATGATTT
* *
6819422 AGTAATTAT-TTATAATAATGATTTAATA
65 AGTAATAATATTATAAAAATGATTTAATA
6819450 CTAATGATTT
Statistics
Matches: 192, Mismatches: 14, Indels: 21
0.85 0.06 0.09
Matches are distributed among these distances:
121 18 0.09
123 27 0.14
124 122 0.64
125 10 0.05
126 13 0.07
127 2 0.01
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.45
Consensus pattern (123 bp):
TAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTA
GTAATAATATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATT
Found at i:6819488 original size:38 final size:38
Alignment explanation
Indices: 6819418--6819491 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 38
6819408 TTTAGTTATT
* **
6819418 ATTTAGTAATTATTTATAATAATGATTTAATACTAATG
1 ATTTAATAATTATTTATAATAATGATAGAATACTAATG
*
6819456 ATTTAATAATTA-TTACTAATAATTATAGAATACTAA
1 ATTTAATAATTATTTA-TAATAATGATAGAATACTAA
6819492 CAAATGAGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 3 0.10
38 28 0.90
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (38 bp):
ATTTAATAATTATTTATAATAATGATAGAATACTAATG
Found at i:6819679 original size:24 final size:22
Alignment explanation
Indices: 6819615--6819683 Score: 63
Period size: 22 Copynumber: 3.1 Consensus size: 22
6819605 GATTTATTGT
6819615 TAATATTTAATTATTTGA-TAC
1 TAATATTTAATTATTTGATTAC
* *
6819636 TAATGATTTAA-AATAGTGATTTAC
1 TAAT-ATTTAATTAT-TTGA-TTAC
6819660 TAAATATTTAATTATTTGA-TAC
1 T-AATATTTAATTATTTGATTAC
6819682 TA
1 TA
6819684 GTAATGATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
21 7 0.18
22 13 0.34
24 13 0.34
25 5 0.13
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (22 bp):
TAATATTTAATTATTTGATTAC
Found at i:6819693 original size:17 final size:17
Alignment explanation
Indices: 6819668--6819700 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6819658 ACTAAATATT
*
6819668 TAATTATTTGATACTAG
1 TAATGATTTGATACTAG
6819685 TAATGATTTGATACTA
1 TAATGATTTGATACTA
6819701 AAAATCATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (17 bp):
TAATGATTTGATACTAG
Found at i:6821873 original size:15 final size:14
Alignment explanation
Indices: 6821850--6821880 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
6821840 TACAACACTA
6821850 AACTTTAATATAAT
1 AACTTTAATATAAT
6821864 AACTTATAATATAAT
1 AACTT-TAATATAAT
6821879 AA
1 AA
6821881 ACTAATAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (14 bp):
AACTTTAATATAAT
Found at i:6821888 original size:16 final size:16
Alignment explanation
Indices: 6821855--6821901 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
6821845 CACTAAACTT
*
6821855 TAATATAAT-AACTTA
1 TAATATAATAAACTAA
6821870 TAATATAATAAACTAA
1 TAATATAATAAACTAA
*
6821886 TAA-ACTAACAAACTAA
1 TAATA-TAATAAACTAA
6821902 ACTTTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 10 0.36
16 18 0.64
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.30
Consensus pattern (16 bp):
TAATATAATAAACTAA
Found at i:6822007 original size:35 final size:32
Alignment explanation
Indices: 6821941--6822024 Score: 84
Period size: 34 Copynumber: 2.6 Consensus size: 32
6821931 GCTAAACCCT
*
6821941 TAAAC-AACTAATAAAAATATTCTTTTATATAA
1 TAAACTAACTAAT-AAACTATTCTTTTATATAA
6821973 CTAAAACTAACTAATAAACTATT-TTTTCATTATAA
1 -T-AAACTAACTAATAAACTATTCTTTT-A-TATAA
*
6822008 TATACT-ACTAATAAACT
1 TAAACTAACTAATAAACT
6822025 TACTAACTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
32 11 0.24
33 9 0.20
34 13 0.29
35 12 0.27
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (32 bp):
TAAACTAACTAATAAACTATTCTTTTATATAA
Found at i:6822123 original size:44 final size:43
Alignment explanation
Indices: 6822074--6822170 Score: 99
Period size: 44 Copynumber: 2.2 Consensus size: 43
6822064 AAATATAACT
* *
6822074 TAACTAT-TTAACTAACACAAACTAATTAAATAATTTTTT-TTATA
1 TAACTATATTAAC-AAAAC-AACTAATT-AATAATTTTTTACTATA
*
6822118 TAACTAACTATTAACAAAACAACTAATTAATTATTTTTTAACTATA
1 TAACT-A-TATTAACAAAACAACTAATTAATAATTTTTT-ACTATA
6822164 TAACTAT
1 TAACTAT
6822171 CAAACATATA
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
44 16 0.36
45 10 0.22
46 14 0.31
47 5 0.11
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.41
Consensus pattern (43 bp):
TAACTATATTAACAAAACAACTAATTAATAATTTTTTACTATA
Found at i:6822145 original size:45 final size:48
Alignment explanation
Indices: 6822066--6822156 Score: 127
Period size: 44 Copynumber: 2.0 Consensus size: 48
6822056 CAACAAACAA
*
6822066 ATATAACTTAACTATTTAACTAACACAAACTAATTAAATAATTTTTTTT
1 ATATAACTTAACTATTTAACTAAAACAAACTAATT-AATAATTTTTTTT
*
6822115 ATATAAC-TAACTA-TTAAC-AAAAC-AACTAATTAATTATTTTTT
1 ATATAACTTAACTATTTAACTAAAACAAACTAATTAATAATTTTTT
6822157 AACTATATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
44 10 0.25
45 8 0.20
46 4 0.10
47 5 0.12
48 6 0.15
49 7 0.17
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (48 bp):
ATATAACTTAACTATTTAACTAAAACAAACTAATTAATAATTTTTTTT
Found at i:6822381 original size:23 final size:23
Alignment explanation
Indices: 6822351--6822396 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
6822341 TCTTTCTCGG
6822351 CTGCAATCTCTTCTCCATTTCTT
1 CTGCAATCTCTTCTCCATTTCTT
*
6822374 CTGCAATCTCTTCTCCCTTTCTT
1 CTGCAATCTCTTCTCCATTTCTT
6822397 TCTTTCTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.11, C:0.37, G:0.04, T:0.48
Consensus pattern (23 bp):
CTGCAATCTCTTCTCCATTTCTT
Found at i:6822579 original size:27 final size:27
Alignment explanation
Indices: 6822541--6822597 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
6822531 CAATAATTCA
6822541 TGGCTAAAATGGTTCACATGCATGCAT
1 TGGCTAAAATGGTTCACATGCATGCAT
*
6822568 TGGCTCAAATGGTTCACATGCATGCAT
1 TGGCTAAAATGGTTCACATGCATGCAT
6822595 TGG
1 TGG
6822598 GAGCTGTAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (27 bp):
TGGCTAAAATGGTTCACATGCATGCAT
Found at i:6822705 original size:29 final size:29
Alignment explanation
Indices: 6822673--6822781 Score: 175
Period size: 29 Copynumber: 3.8 Consensus size: 29
6822663 ATGGGAATGG
6822673 CGCCGGGACTACATGGCGACCTACAAGGT
1 CGCCGGGACTACATGGCGACCTACAAGGT
*
6822702 CGCCGGGACTACATGGCGACCTATAAGGT
1 CGCCGGGACTACATGGCGACCTACAAGGT
6822731 CGCCGGGACTACATGGCGACCTACAAGGT
1 CGCCGGGACTACATGGCGACCTACAAGGT
* *
6822760 CGCCTAGG-CTGCATGGCGACCT
1 CGCC-GGGACTACATGGCGACCT
6822782 CTCTATTGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
29 73 0.97
30 2 0.03
ACGTcount: A:0.22, C:0.31, G:0.31, T:0.16
Consensus pattern (29 bp):
CGCCGGGACTACATGGCGACCTACAAGGT
Found at i:6822832 original size:28 final size:28
Alignment explanation
Indices: 6822800--6822856 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
6822790 GCTCGTACGA
* *
6822800 CTCGTCTAAGCCTGCATGGCGACCTCTC
1 CTCGTATAAGACTGCATGGCGACCTCTC
*
6822828 CTCGTATAAGATTGCATGGCGACCTCTC
1 CTCGTATAAGACTGCATGGCGACCTCTC
6822856 C
1 C
6822857 ATTGGCTCGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.18, C:0.35, G:0.21, T:0.26
Consensus pattern (28 bp):
CTCGTATAAGACTGCATGGCGACCTCTC
Found at i:6822873 original size:9 final size:9
Alignment explanation
Indices: 6822859--6822898 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
6822849 ACCTCTCCAT
6822859 TGGCTCGTA
1 TGGCTCGTA
6822868 TGGCTCGTATA
1 TGGCTCG--TA
*
6822879 TGGCTTGTA
1 TGGCTCGTA
6822888 TGGCTCGTA
1 TGGCTCGTA
6822897 TG
1 TG
6822899 TCACCCCGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 19 0.70
11 8 0.30
ACGTcount: A:0.12, C:0.17, G:0.33, T:0.38
Consensus pattern (9 bp):
TGGCTCGTA
Found at i:6822888 original size:20 final size:20
Alignment explanation
Indices: 6822859--6822897 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
6822849 ACCTCTCCAT
6822859 TGGCTCGTATGGCTCGTATA
1 TGGCTCGTATGGCTCGTATA
*
6822879 TGGCTTGTATGGCTCGTAT
1 TGGCTCGTATGGCTCGTAT
6822898 GTCACCCCGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.18, G:0.31, T:0.38
Consensus pattern (20 bp):
TGGCTCGTATGGCTCGTATA
Found at i:6830885 original size:31 final size:29
Alignment explanation
Indices: 6830801--6830889 Score: 92
Period size: 31 Copynumber: 3.0 Consensus size: 29
6830791 ATTATCATTT
*
6830801 TAATTATT-AATTTTTAAAAA-TATAAAA
1 TAATTATTAAATTTATAAAAATTATAAAA
* **
6830828 TTATTATTAAATTTATCGAATCATTATAAAA
1 TAATTATTAAATTTAT--AAAAATTATAAAA
6830859 TAATTATTATAATATTATAAAAATTATAAAA
1 TAATTATTA-AAT-TTATAAAAATTATAAAA
6830890 ATTAATAAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
27 7 0.14
28 6 0.12
30 3 0.06
31 26 0.53
32 3 0.06
33 4 0.08
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (29 bp):
TAATTATTAAATTTATAAAAATTATAAAA
Found at i:6830929 original size:31 final size:31
Alignment explanation
Indices: 6830886--6830959 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
6830876 TAAAAATTAT
*
6830886 AAAAATTAATAAA-TCTAATAATCATTTATAA
1 AAAAATTGATAAAGTCTAATAATCATTT-TAA
* * *
6830917 AAAAATTGATAAAGTTTAATAGTCATTTTAT
1 AAAAATTGATAAAGTCTAATAATCATTTTAA
*
6830948 AACAATTGATAA
1 AAAAATTGATAA
6830960 GATTTATTGA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 25 0.68
32 12 0.32
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.36
Consensus pattern (31 bp):
AAAAATTGATAAAGTCTAATAATCATTTTAA
Found at i:6835619 original size:21 final size:21
Alignment explanation
Indices: 6835595--6835654 Score: 111
Period size: 21 Copynumber: 2.9 Consensus size: 21
6835585 AGAAACACTT
*
6835595 ACCAAGGTACTTCATTTATTA
1 ACCAAGGTACTTCATCTATTA
6835616 ACCAAGGTACTTCATCTATTA
1 ACCAAGGTACTTCATCTATTA
6835637 ACCAAGGTACTTCATCTA
1 ACCAAGGTACTTCATCTA
6835655 CTTACCATGG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (21 bp):
ACCAAGGTACTTCATCTATTA
Found at i:6835661 original size:21 final size:22
Alignment explanation
Indices: 6835591--6835676 Score: 108
Period size: 21 Copynumber: 4.1 Consensus size: 22
6835581 TTTCAGAAAC
*
6835591 ACTT-ACCAAGGTACTTCATTT
1 ACTTAACCAAGGTACTTCATCT
6835612 A-TTAACCAAGGTACTTCATCT
1 ACTTAACCAAGGTACTTCATCT
6835633 A-TTAACCAAGGTACTTCATCT
1 ACTTAACCAAGGTACTTCATCT
* * *
6835654 ACTT-ACCATGGTAATTTATCT
1 ACTTAACCAAGGTACTTCATCT
6835675 AC
1 AC
6835677 GCCCACTTCT
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
20 2 0.03
21 55 0.93
22 2 0.03
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.36
Consensus pattern (22 bp):
ACTTAACCAAGGTACTTCATCT
Found at i:6842631 original size:25 final size:25
Alignment explanation
Indices: 6842602--6842652 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
6842592 TACCTAAAAT
6842602 TTAGTTTTTATTTCATTTTAGTACC
1 TTAGTTTTTATTTCATTTTAGTACC
6842627 TTAGTTTTTATTTCATTTTAGTACC
1 TTAGTTTTTATTTCATTTTAGTACC
6842652 T
1 T
6842653 CATTCAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.20, C:0.12, G:0.08, T:0.61
Consensus pattern (25 bp):
TTAGTTTTTATTTCATTTTAGTACC
Found at i:6843406 original size:16 final size:16
Alignment explanation
Indices: 6843371--6843411 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
6843361 GTTTACTTCA
* *
6843371 GAATGATT-AAGTGTT
1 GAATGATTCAAATGCT
6843386 GAATGATTCAAATGCT
1 GAATGATTCAAATGCT
6843402 GAATGATTCA
1 GAATGATTCA
6843412 GAGGCTCTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (16 bp):
GAATGATTCAAATGCT
Found at i:6843784 original size:26 final size:25
Alignment explanation
Indices: 6843754--6843802 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
6843744 AGACAAGAAC
6843754 TTATAAAACTAAAAAA-ATAAAAAAAA
1 TTAT-AAA-TAAAAAATATAAAAAAAA
*
6843780 TTATAAATAAAAAATATGAAAAA
1 TTATAAATAAAAAATATAAAAAA
6843803 TATACTTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 7 0.33
25 10 0.48
26 4 0.19
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (25 bp):
TTATAAATAAAAAATATAAAAAAAA
Found at i:6843803 original size:16 final size:16
Alignment explanation
Indices: 6843766--6843804 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
6843756 ATAAAACTAA
*
6843766 AAAAATAAAAAAAATT
1 AAAAATAAAAAAAATG
* *
6843782 ATAAATAAAAAATATG
1 AAAAATAAAAAAAATG
6843798 AAAAATA
1 AAAAATA
6843805 TACTTATATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (16 bp):
AAAAATAAAAAAAATG
Found at i:6845621 original size:24 final size:24
Alignment explanation
Indices: 6845567--6845630 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 24
6845557 GACTAAATAT
6845567 AAAATAAAATATGCAAAGGAAAAAAACG
1 AAAATAAAA-AT--AAA-GAAAAAAACG
*
6845595 AAAATACAAATAAAGAAAAAGAA-G
1 AAAATAAAAATAAAGAAAAA-AACG
6845619 AAAATAAAAATA
1 AAAATAAAAATA
6845631 TAAATGGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 18 0.55
25 5 0.15
27 2 0.06
28 8 0.24
ACGTcount: A:0.73, C:0.05, G:0.11, T:0.11
Consensus pattern (24 bp):
AAAATAAAAATAAAGAAAAAAACG
Found at i:6845887 original size:17 final size:19
Alignment explanation
Indices: 6845867--6845920 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
6845857 ATACATATAC
*
6845867 ATATATAATAATAAAAAAT
1 ATATATAATAATAAATAAT
6845886 ATAATATAATAGCATAAATAA-
1 AT-ATATAATA--ATAAATAAT
*
6845907 ATAAATAATAATAA
1 ATATATAATAATAA
6845921 TAGTAAAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
18 4 0.13
19 2 0.07
20 15 0.50
21 2 0.07
22 7 0.23
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (19 bp):
ATATATAATAATAAATAAT
Found at i:6845892 original size:20 final size:20
Alignment explanation
Indices: 6845869--6845922 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 20
6845859 ACATATACAT
6845869 ATATAATAATAAA-AAATATA
1 ATATAATAATAAATAAATA-A
6845889 ATATAATAGCATAAATAAATAA
1 ATATAATA--ATAAATAAATAA
6845911 ATAATAATAATA
1 AT-ATAATAATA
6845923 GTAAAAAGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
20 8 0.27
21 3 0.10
22 8 0.27
23 11 0.37
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (20 bp):
ATATAATAATAAATAAATAA
Found at i:6847366 original size:20 final size:21
Alignment explanation
Indices: 6847327--6847369 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
6847317 AAAAAAAATG
6847327 TAAATATAATATAATTTATAA
1 TAAATATAATATAATTTATAA
6847348 TAAATAT-ATAT-ATTATATAA
1 TAAATATAATATAATT-TATAA
6847368 TA
1 TA
6847370 TAAGGATGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 3 0.14
20 11 0.52
21 7 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TAAATATAATATAATTTATAA
Found at i:6847607 original size:20 final size:20
Alignment explanation
Indices: 6847584--6847625 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
6847574 GAATCCTTCG
6847584 TCGTGAAATTGAAATCGAAC
1 TCGTGAAATTGAAATCGAAC
* *
6847604 TCGTGAAGTTGAAGTCGAAC
1 TCGTGAAATTGAAATCGAAC
6847624 TC
1 TC
6847626 AGAGTTCTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (20 bp):
TCGTGAAATTGAAATCGAAC
Found at i:6848129 original size:105 final size:105
Alignment explanation
Indices: 6848004--6848827 Score: 1477
Period size: 105 Copynumber: 7.8 Consensus size: 105
6847994 GAAATTGCTT
6848004 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTC
1 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTC
* * *
6848069 GTTGGGAAGTTGAAATTGGCTCTGAAATGGAGAAATGTTT
66 GTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTC
* * *
6848109 GGTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCTAATATCCTTC
1 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTC
*
6848174 GTTGTGAAGTTGAGATTGGCTCTGAAATTGAGAAATGTTC
66 GTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTC
6848214 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTC
1 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTC
6848279 GTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTC
66 GTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTC
* *
6848319 GTTGACAACCAGCGGTCCCTCCGTCGTGAAGTTGAACTTATGTTGTCTGGAGTCCAATATCCTTC
1 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTC
* *
6848384 GTTGTGAAGTTGAAATTGGCTCTGAAATGGAGAAATGTTT
66 GTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTC
* *
6848424 GGTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTC
1 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTC
*
6848489 GTTGTGAAGTTGAGATTGGCTCTGAAATTGAGAAATGTTC
66 GTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTC
*
6848529 ATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTC
1 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTC
*
6848594 GTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTCC
66 GTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTC
* *
6848634 GTTGACAACCAGCGGTCCCTCCGTCGTGAAGTTGAACTTATGTTGTCTGGAGTCCAATATCCTTC
1 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTC
6848699 GTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTC
66 GTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTC
*
6848739 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTC
1 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTC
6848804 GTTGTGAAGTTGAAATTGGCTCTG
66 GTTGTGAAGTTGAAATTGGCTCTG
6848828 GGTAAAACCT
Statistics
Matches: 685, Mismatches: 34, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
105 685 1.00
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (105 bp):
GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTC
GTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTC
Found at i:6849628 original size:51 final size:52
Alignment explanation
Indices: 6849562--6849661 Score: 148
Period size: 51 Copynumber: 1.9 Consensus size: 52
6849552 CTTATTTTTT
* ** *
6849562 CTCTTTTTTCTTTTTCAATTTAGGGTGCCCTTTCGGGTTTTCACCCTAAACG
1 CTCTTTTTTCTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAAACG
*
6849614 CTCTTTTTT-TTTTTCAACTTAGGACGCCCTCTCGGGTTTTCATCCTAA
1 CTCTTTTTTCTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAA
6849662 GCGAAGTATT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
51 34 0.79
52 9 0.21
ACGTcount: A:0.14, C:0.26, G:0.14, T:0.46
Consensus pattern (52 bp):
CTCTTTTTTCTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAAACG
Found at i:6860121 original size:25 final size:24
Alignment explanation
Indices: 6860058--6860122 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 24
6860048 GACTAAATAT
6860058 AAAATAAAATATGCAAAGGAAAAAAACG
1 AAAATAAAA-AT--AAA-GAAAAAAACG
*
6860086 AAAATACAAATAAAGAAAAAGAA-G
1 AAAATAAAAATAAAGAAAAA-AACG
6860110 AAAATATAAAATA
1 AAAATA-AAAATA
6860123 TAAATGGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
24 13 0.39
25 10 0.30
27 2 0.06
28 8 0.24
ACGTcount: A:0.72, C:0.05, G:0.11, T:0.12
Consensus pattern (24 bp):
AAAATAAAAATAAAGAAAAAAACG
Found at i:6860377 original size:17 final size:19
Alignment explanation
Indices: 6860357--6860410 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
6860347 ATACATATAC
*
6860357 ATATATAATAATAAAAAAT
1 ATATATAATAATAAATAAT
6860376 ATAATATAATAGCATAAATAA-
1 AT-ATATAATA--ATAAATAAT
*
6860397 ATAAATAATAATAA
1 ATATATAATAATAA
6860411 TAGTAAAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
18 4 0.13
19 2 0.07
20 15 0.50
21 2 0.07
22 7 0.23
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (19 bp):
ATATATAATAATAAATAAT
Found at i:6860382 original size:20 final size:20
Alignment explanation
Indices: 6860359--6860412 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 20
6860349 ACATATACAT
6860359 ATATAATAATAAA-AAATATA
1 ATATAATAATAAATAAATA-A
6860379 ATATAATAGCATAAATAAATAA
1 ATATAATA--ATAAATAAATAA
6860401 ATAATAATAATA
1 AT-ATAATAATA
6860413 GTAAAAAGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
20 8 0.27
21 3 0.10
22 8 0.27
23 11 0.37
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (20 bp):
ATATAATAATAAATAAATAA
Found at i:6861858 original size:20 final size:21
Alignment explanation
Indices: 6861819--6861861 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
6861809 AAAAAAAATG
6861819 TAAATATAATATAATTTATAA
1 TAAATATAATATAATTTATAA
6861840 TAAATAT-ATAT-ATTATATAA
1 TAAATATAATATAATT-TATAA
6861860 TA
1 TA
6861862 TAAGGATGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 3 0.14
20 11 0.52
21 7 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TAAATATAATATAATTTATAA
Done.