Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 155 of 190
Found at i:45229092 original size:3 final size:3
Alignment explanation
Indices: 45229084--45229130 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
45229074 ATTCCCACTC
* * * *
45229084 ATA ATA ATA ATA ATA ATA CTA ATA ATA A-A TTA ATA CTA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
45229131 CTTACCTCAC
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
2 1 0.03
3 34 0.97
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:45229132 original size:12 final size:12
Alignment explanation
Indices: 45229084--45229130 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
45229074 ATTCCCACTC
*
45229084 ATAATAATAATA
1 ATAATATTAATA
*
45229096 ATAATACTAATA
1 ATAATATTAATA
45229108 ATAA-ATTAATA
1 ATAATATTAATA
*
45229119 CTAATATTAATA
1 ATAATATTAATA
45229131 CTTACCTCAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
11 9 0.29
12 22 0.71
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (12 bp):
ATAATATTAATA
Found at i:45229424 original size:24 final size:23
Alignment explanation
Indices: 45229384--45229430 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
45229374 CTCAATTTAA
45229384 TCCTAACTAAATTCACT-TATTT
1 TCCTAACTAAATTCACTCTATTT
*
45229406 TCCTAACTCAATTCACACTCTATTT
1 TCCTAACTAAATT--CACTCTATTT
45229431 CTATTCAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 12 0.57
24 4 0.19
25 5 0.24
ACGTcount: A:0.30, C:0.28, G:0.00, T:0.43
Consensus pattern (23 bp):
TCCTAACTAAATTCACTCTATTT
Found at i:45229848 original size:17 final size:17
Alignment explanation
Indices: 45229828--45229867 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
45229818 TTTCCTATTC
*
45229828 TGTTTCTTTTCTTCTTT
1 TGTTTCTTTTATTCTTT
45229845 TGTTTCTTTTATTCTTT
1 TGTTTCTTTTATTCTTT
45229862 TAGTTT
1 T-GTTT
45229868 ATGTTTTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.05, C:0.12, G:0.07, T:0.75
Consensus pattern (17 bp):
TGTTTCTTTTATTCTTT
Found at i:45229911 original size:16 final size:17
Alignment explanation
Indices: 45229883--45229914 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
45229873 TTGTTTATTA
45229883 TTTAATAAATATAATAC
1 TTTAATAAATATAATAC
45229900 TTTAAT-AATATAATA
1 TTTAATAAATATAATA
45229915 TAATATAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
TTTAATAAATATAATAC
Found at i:45229912 original size:5 final size:5
Alignment explanation
Indices: 45229904--45229930 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
45229894 TAATACTTTA
45229904 ATAAT ATAAT ATAAT ATAAT ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT AT
45229931 TTTCTTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:45230494 original size:20 final size:20
Alignment explanation
Indices: 45230466--45230506 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
45230456 GTAGTGCTGT
**
45230466 ATAGAGGCACTGAAGTGCAA
1 ATAGAGGCACCAAAGTGCAA
*
45230486 ATAGTGGCACCAAAGTGCAA
1 ATAGAGGCACCAAAGTGCAA
45230506 A
1 A
45230507 CCCGTATAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.17, G:0.27, T:0.15
Consensus pattern (20 bp):
ATAGAGGCACCAAAGTGCAA
Found at i:45240060 original size:26 final size:26
Alignment explanation
Indices: 45240024--45240123 Score: 130
Period size: 26 Copynumber: 3.8 Consensus size: 26
45240014 GGACTCACCA
45240024 CAGCTCGTATGAGCTTACCGATATAT
1 CAGCTCGTATGAGCTTACCGATATAT
*
45240050 CAGCTCTTATGAGCTTACCGATATAT
1 CAGCTCGTATGAGCTTACCGATATAT
* * * *
45240076 CAACTCTTATGAACTTACCG-TTTAT
1 CAGCTCGTATGAGCTTACCGATATAT
*
45240101 CAGCTCAGAATGAGCTTACCGAT
1 CAGCTC-GTATGAGCTTACCGAT
45240124 CATGGCTCGA
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
25 9 0.14
26 54 0.84
27 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (26 bp):
CAGCTCGTATGAGCTTACCGATATAT
Found at i:45240299 original size:20 final size:20
Alignment explanation
Indices: 45240270--45240322 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
45240260 CTATGTAATT
45240270 ATATGGATAAATTACTGTTG
1 ATATGGATAAATTACTGTTG
* *
45240290 ATATGTATAAGTTACTGTTG
1 ATATGGATAAATTACTGTTG
*
45240310 ATACGGATAAATT
1 ATATGGATAAATT
45240323 TCTGCTATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.36, C:0.06, G:0.19, T:0.40
Consensus pattern (20 bp):
ATATGGATAAATTACTGTTG
Found at i:45241056 original size:17 final size:17
Alignment explanation
Indices: 45241015--45241063 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 17
45241005 CTCATTTTGC
45241015 GGTGAATTT-GATAAAT
1 GGTGAATTTGGATAAAT
*
45241031 GGT-ATTTTGGCATAAA-
1 GGTGAATTTGG-ATAAAT
45241047 GGTGAATTT-GATAAAT
1 GGTGAATTTGGATAAAT
45241063 G
1 G
45241064 ATATTTTGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
15 9 0.33
16 9 0.33
17 9 0.33
ACGTcount: A:0.35, C:0.02, G:0.27, T:0.37
Consensus pattern (17 bp):
GGTGAATTTGGATAAAT
Found at i:45241056 original size:32 final size:32
Alignment explanation
Indices: 45241015--45241078 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
45241005 CTCATTTTGC
*
45241015 GGTGAATTTGATAAATGGTATTTTGGCATAAA
1 GGTGAATTTGATAAATGATATTTTGGCATAAA
45241047 GGTGAATTTGATAAATGATATTTTGGCATAAA
1 GGTGAATTTGATAAATGATATTTTGGCATAAA
45241079 TGAGACATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.38
Consensus pattern (32 bp):
GGTGAATTTGATAAATGATATTTTGGCATAAA
Found at i:45241079 original size:17 final size:17
Alignment explanation
Indices: 45241025--45241081 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
45241015 GGTGAATTTG
*
45241025 ATAAATGGTATTTTGGC
1 ATAAATGATATTTTGGC
45241042 ATAAAGGTGA-A-TTT-G-
1 ATAAA--TGATATTTTGGC
45241057 ATAAATGATATTTTGGC
1 ATAAATGATATTTTGGC
45241074 ATAAATGA
1 ATAAATGA
45241082 GACATATGTG
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
13 3 0.09
14 1 0.03
15 8 0.24
16 2 0.06
17 16 0.48
18 1 0.03
19 2 0.06
ACGTcount: A:0.39, C:0.04, G:0.21, T:0.37
Consensus pattern (17 bp):
ATAAATGATATTTTGGC
Found at i:45243873 original size:44 final size:42
Alignment explanation
Indices: 45243788--45243875 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 42
45243778 TTTGAAATAA
45243788 AATAAAAGTTGTGATAATTACATTTAAAAATAATTACAATTT
1 AATAAAAGTTGTGATAATTACATTTAAAAATAATTACAATTT
* *
45243830 AATAGAAA-TTGTGATAATTACACATTTAAAAATATTTAGAATTT
1 AATA-AAAGTTGTGATAATT--ACATTTAAAAATAATTACAATTT
45243874 AA
1 AA
45243876 ATTACAATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
42 15 0.37
43 3 0.07
44 23 0.56
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.38
Consensus pattern (42 bp):
AATAAAAGTTGTGATAATTACATTTAAAAATAATTACAATTT
Found at i:45251992 original size:8 final size:8
Alignment explanation
Indices: 45251980--45252011 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
45251970 AAAAAATTCA
45251980 AAAAAGTAT
1 AAAAA-TAT
45251989 AAAAATAT
1 AAAAATAT
45251997 AAAAATAT
1 AAAAATAT
45252005 AAAAATA
1 AAAAATA
45252012 ATTTAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.78
9 5 0.22
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (8 bp):
AAAAATAT
Found at i:45251992 original size:10 final size:9
Alignment explanation
Indices: 45251964--45252009 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 9
45251954 TAATATTTTC
45251964 AAATATAAA
1 AAATATAAA
45251973 AAAT-TCAAA
1 AAATAT-AAA
45251982 AAAGTAT-AA
1 AAA-TATAAA
45251991 AAATAT-AA
1 AAATATAAA
45251999 AAATATAAA
1 AAATATAAA
45252008 AA
1 AA
45252010 TAATTTAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
8 12 0.36
9 19 0.58
10 1 0.03
11 1 0.03
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (9 bp):
AAATATAAA
Found at i:45251994 original size:18 final size:17
Alignment explanation
Indices: 45251964--45252010 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 17
45251954 TAATATTTTC
45251964 AAATATAAAAAATTCA-AA
1 AAATAT-AAAAATT-ATAA
45251982 AAAGTATAAAAA-TATAA
1 AAA-TATAAAAATTATAA
45251999 AAATATAAAAAT
1 AAATATAAAAAT
45252011 AATTTAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
16 9 0.35
17 6 0.23
18 8 0.31
19 3 0.12
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.23
Consensus pattern (17 bp):
AAATATAAAAATTATAA
Found at i:45268225 original size:24 final size:23
Alignment explanation
Indices: 45268194--45268239 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
45268184 GGTTAATGAC
45268194 TTTAGTTT-CAACTATATATTTGA
1 TTTAGTTTGC-ACTATATATTTGA
*
45268217 TTTATGTTTGCATTATATATTTG
1 TTTA-GTTTGCACTATATATTTG
45268240 GCTTAGTTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 15 0.75
25 1 0.05
ACGTcount: A:0.26, C:0.07, G:0.11, T:0.57
Consensus pattern (23 bp):
TTTAGTTTGCACTATATATTTGA
Found at i:45274953 original size:20 final size:19
Alignment explanation
Indices: 45274925--45274977 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
45274915 AATTTCAGTA
*
45274925 TTTTATATTTTTAGAATTAT
1 TTTTCTATTTTTA-AATTAT
* *
45274945 TTTTCTA-TTTTATATTTT
1 TTTTCTATTTTTAAATTAT
45274963 TTTCTCTATTTTTAA
1 TTT-TCTATTTTTAA
45274978 TAATTTATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 7 0.26
19 9 0.33
20 11 0.41
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.70
Consensus pattern (19 bp):
TTTTCTATTTTTAAATTAT
Found at i:45274955 original size:19 final size:19
Alignment explanation
Indices: 45274933--45274974 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
45274923 TATTTTATAT
45274933 TTTTAGAATTATTTT-TCTA
1 TTTTA-AATTATTTTCTCTA
* *
45274952 TTTTATATTTTTTTCTCTA
1 TTTTAAATTATTTTCTCTA
45274971 TTTT
1 TTTT
45274975 TAATAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.19, C:0.07, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTTAAATTATTTTCTCTA
Found at i:45275112 original size:21 final size:20
Alignment explanation
Indices: 45275088--45275126 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
45275078 AAATAATTTT
45275088 AATACTTTTTGTA-ATTTTTAA
1 AATA-TTTTT-TACATTTTTAA
45275109 AATATTTTTTACATTTTT
1 AATATTTTTTACATTTTT
45275127 CTATTTTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 2 0.12
20 11 0.65
21 4 0.24
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.62
Consensus pattern (20 bp):
AATATTTTTTACATTTTTAA
Found at i:45275564 original size:27 final size:27
Alignment explanation
Indices: 45275526--45275580 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
45275516 GATCAAGGAA
* **
45275526 TGTGTTGAATTTTTATCTTTTAATCCC
1 TGTGTCGAATTTTTATCTTCCAATCCC
45275553 TGTGTCGAATTTTTATCTTCCAATCCC
1 TGTGTCGAATTTTTATCTTCCAATCCC
45275580 T
1 T
45275581 ATTAGGATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.18, C:0.20, G:0.11, T:0.51
Consensus pattern (27 bp):
TGTGTCGAATTTTTATCTTCCAATCCC
Found at i:45283931 original size:306 final size:306
Alignment explanation
Indices: 45283378--45283992 Score: 1194
Period size: 306 Copynumber: 2.0 Consensus size: 306
45283368 TTAGTCAGAG
45283378 ACTTAGTTGCATAAAGAGTTTATAATCTTTTCCACAATGCGGATGAAGTTTTCTCCATCAATACC
1 ACTTAGTTGCATAAAGAGTTTATAATCTTTTCCACAATGCGGATGAAGTTTTCTCCATCAATACC
*
45283443 TTCTGCAATACCCTATTCGCAAGGCACCACTGGATTGTAGATAGGGCATTTTCATCAAGCTCTTC
66 TTCTGCAATACCCTATTCGCAAAGCACCACTGGATTGTAGATAGGGCATTTTCATCAAGCTCTTC
* *
45283508 TCATTTTGTTTAGATTCTCAAGTTTTTTTTATCGATAACAACATTTTTCAATCTGGTCTGAACTA
131 TCATTTTGTCTAGATTCTCAAGTTTTTTTTATCGATAACAACAATTTTCAATCTGGTCTGAACTA
45283573 GAATTGTCATCATTCAAACTTGTCACAGATTGAAATTTGTGACACCATCAAACTTCTCAATATCA
196 GAATTGTCATCATTCAAACTTGTCACAGATTGAAATTTGTGACACCATCAAACTTCTCAATATCA
45283638 AACCTTATTGTTGTCATCTCAGAACGGACTGCTCTACGAAATTTGA
261 AACCTTATTGTTGTCATCTCAGAACGGACTGCTCTACGAAATTTGA
45283684 ACTTAGTTGCATAAAGAGTTTATAATCTTTTCCACAATGCGGATGAAGTTTTCTCCATCAATACC
1 ACTTAGTTGCATAAAGAGTTTATAATCTTTTCCACAATGCGGATGAAGTTTTCTCCATCAATACC
45283749 TTCTGCAATACCCTATTCGCAAAGCACCACTGGATTGTAGATAGGGCATTTTCATCAAGCTCTTC
66 TTCTGCAATACCCTATTCGCAAAGCACCACTGGATTGTAGATAGGGCATTTTCATCAAGCTCTTC
45283814 TCATTTTGTCTAGATTCTCAAGTTTTTTTTATCGATAACAACAATTTTCAATCTGGTCTGAACTA
131 TCATTTTGTCTAGATTCTCAAGTTTTTTTTATCGATAACAACAATTTTCAATCTGGTCTGAACTA
45283879 GAATTGTCATCATTCAAACTTGTCACAGATTGAAATTTGTGACACCATCAAACTTCTCAATATCA
196 GAATTGTCATCATTCAAACTTGTCACAGATTGAAATTTGTGACACCATCAAACTTCTCAATATCA
*
45283944 AACCTTATTGTTGTCATCTCTGAACGGACTGCTCTACGAAATTTGA
261 AACCTTATTGTTGTCATCTCAGAACGGACTGCTCTACGAAATTTGA
45283990 ACT
1 ACT
45283993 AGCTCTAATA
Statistics
Matches: 305, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
306 305 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (306 bp):
ACTTAGTTGCATAAAGAGTTTATAATCTTTTCCACAATGCGGATGAAGTTTTCTCCATCAATACC
TTCTGCAATACCCTATTCGCAAAGCACCACTGGATTGTAGATAGGGCATTTTCATCAAGCTCTTC
TCATTTTGTCTAGATTCTCAAGTTTTTTTTATCGATAACAACAATTTTCAATCTGGTCTGAACTA
GAATTGTCATCATTCAAACTTGTCACAGATTGAAATTTGTGACACCATCAAACTTCTCAATATCA
AACCTTATTGTTGTCATCTCAGAACGGACTGCTCTACGAAATTTGA
Found at i:45284430 original size:45 final size:45
Alignment explanation
Indices: 45284364--45284454 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
45284354 TTCTAGAAAG
45284364 AAAACATATTTTGTTTAATTTAACTTGCAAGCAATCTCTTATTTT
1 AAAACATATTTTGTTTAATTTAACTTGCAAGCAATCTCTTATTTT
* *
45284409 AAAACATATTTTGTTTGATTTAACTTGCAAGTAATCTCTTATTTT
1 AAAACATATTTTGTTTAATTTAACTTGCAAGCAATCTCTTATTTT
45284454 A
1 A
45284455 TCTAATAAGA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.47
Consensus pattern (45 bp):
AAAACATATTTTGTTTAATTTAACTTGCAAGCAATCTCTTATTTT
Found at i:45308218 original size:28 final size:28
Alignment explanation
Indices: 45308173--45308239 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
45308163 TTAAAATTAA
45308173 AAAAATATATAAGAATTATTCTAAAAATT
1 AAAAATATATAAGAATTATT-TAAAAATT
45308202 AAAAATCAT-TAA-AATTATTTAAAAATT
1 AAAAAT-ATATAAGAATTATTTAAAAATT
*
45308229 ATAAAAAATAT
1 A-AAAATATAT
45308240 TTTTAAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
27 11 0.32
28 12 0.35
29 9 0.26
30 2 0.06
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.34
Consensus pattern (28 bp):
AAAAATATATAAGAATTATTTAAAAATT
Found at i:45308236 original size:21 final size:20
Alignment explanation
Indices: 45308157--45308255 Score: 64
Period size: 20 Copynumber: 5.2 Consensus size: 20
45308147 ATTAATTTTT
45308157 AAAAT-TTT-AAAATTA-AA
1 AAAATATTTAAAAATTATAA
* * **
45308174 AAAATATATAAGAATTATTCT
1 AAAATATTTAAAAATTA-TAA
* *
45308195 AAAA-A-TTAAAAATCATTA
1 AAAATATTTAAAAATTATAA
*
45308213 AAATTATTTAAAAATTATAA
1 AAAATATTTAAAAATTATAA
** *
45308233 AAAATATTTTTAAATTTTAA
1 AAAATATTTAAAAATTATAA
45308253 AAA
1 AAA
45308256 TAATTAAATG
Statistics
Matches: 60, Mismatches: 16, Indels: 9
0.71 0.19 0.11
Matches are distributed among these distances:
17 5 0.08
18 6 0.10
19 14 0.23
20 31 0.52
21 4 0.07
ACGTcount: A:0.60, C:0.02, G:0.01, T:0.37
Consensus pattern (20 bp):
AAAATATTTAAAAATTATAA
Found at i:45310606 original size:21 final size:21
Alignment explanation
Indices: 45310582--45310625 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
45310572 GCAAAGTCTA
45310582 AGAAGAA-TG-GAAGCCAAGAGG
1 AGAAGAAGTGAGAAG-CAA-AGG
45310603 AGAAGAAGTGAGAAGCAAAGG
1 AGAAGAAGTGAGAAGCAAAGG
45310624 AG
1 AG
45310626 TTCGAGAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 12 0.57
22 5 0.24
23 4 0.19
ACGTcount: A:0.50, C:0.07, G:0.39, T:0.05
Consensus pattern (21 bp):
AGAAGAAGTGAGAAGCAAAGG
Found at i:45316743 original size:28 final size:29
Alignment explanation
Indices: 45316680--45316761 Score: 96
Period size: 28 Copynumber: 2.7 Consensus size: 29
45316670 TAGGATAAAC
45316680 TACATTTTTAATCATTTAATTATTAACAAATT
1 TACA-TTTTAATCA-TTAATTA-TAACAAATT
45316712 TACATTTTAATCATATAATTATAA-AAA-T
1 TACATTTTAATCAT-TAATTATAACAAATT
*
45316740 TACAATTTAATCACTTAATTAT
1 TACATTTTAATCA-TTAATTAT
45316762 TTGAAATTGG
Statistics
Matches: 47, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
28 20 0.43
29 4 0.09
30 4 0.09
31 15 0.32
32 4 0.09
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (29 bp):
TACATTTTAATCATTAATTATAACAAATT
Found at i:45320253 original size:6 final size:6
Alignment explanation
Indices: 45320205--45320239 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
45320195 TGTGTCTATG
45320205 TATGTA TATGTA TATGTA TATGTA TATGTA TATGT
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATGT
45320240 GTGTATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.51
Consensus pattern (6 bp):
TATGTA
Found at i:45320607 original size:48 final size:48
Alignment explanation
Indices: 45320533--45320628 Score: 133
Period size: 48 Copynumber: 2.0 Consensus size: 48
45320523 AGAGGCCAAG
* *
45320533 GGCTTTTCTTGTTGTTTCTGCTGCACTTCTTCTTTCT-TCGAAACATTA
1 GGCTTTTCTTGTAGTTTCTGCTGCACTTCTTCTTCCTCT-GAAACATTA
*
45320581 GGCTTTTCTTGTAGTTTCTG-TCGCACTTTTTCTTCCTCTGAAACATTA
1 GGCTTTTCTTGTAGTTTCTGCT-GCACTTCTTCTTCCTCTGAAACATTA
45320629 CTTTCATCTT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
47 1 0.02
48 41 0.95
49 1 0.02
ACGTcount: A:0.14, C:0.23, G:0.15, T:0.49
Consensus pattern (48 bp):
GGCTTTTCTTGTAGTTTCTGCTGCACTTCTTCTTCCTCTGAAACATTA
Found at i:45321390 original size:48 final size:48
Alignment explanation
Indices: 45321316--45321411 Score: 156
Period size: 48 Copynumber: 2.0 Consensus size: 48
45321306 AGAGGCCAAG
* * * *
45321316 GGCTTTTCTTGTTGTTTCTGCTGCACTTTTTCTTTCTTTGAAACATTA
1 GGCTTTTCTTGTAGTTTCTGCCGCACTTTTTCTTCCTCTGAAACATTA
45321364 GGCTTTTCTTGTAGTTTCTGCCGCACTTTTTCTTCCTCTGAAACATTA
1 GGCTTTTCTTGTAGTTTCTGCCGCACTTTTTCTTCCTCTGAAACATTA
45321412 CTTTCATCTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.14, C:0.22, G:0.15, T:0.50
Consensus pattern (48 bp):
GGCTTTTCTTGTAGTTTCTGCCGCACTTTTTCTTCCTCTGAAACATTA
Found at i:45321991 original size:780 final size:783
Alignment explanation
Indices: 45320488--45322057 Score: 2975
Period size: 780 Copynumber: 2.0 Consensus size: 783
45320478 GAACCAAGAG
45320488 CAACAGTTGCTGCAAGCTGATTTCGATTTCAATGCAGAGGCCAAGGGCTTTTCTTGTTGTTTCTG
1 CAACAGTTGCTGCAAGCTGATTTCGATTTCAATGCAGAGGCCAAGGGCTTTTCTTGTTGTTTCTG
*
45320553 CTGCACTTCTTCTTTCTTCGAAACATTAGGCTTTTCTTGTAGTTTCTGTCGCACTTTTTCTTCCT
66 CTGCACTTCTTCTTTCTTCGAAACATTAGGCTTTTCTTGTAGTTTCTGCCGCACTTTTTCTTCCT
45320618 CTGAAACATTACTTTCATCTTCCGAACTGCAATGATACCAATATAACTTAAGCTGAAAAGTTCCC
131 CTGAAACATTACTTTCATCTTCCGAACTGCAATGATACCAATATAACTTAAGCTGAAAAGTTCCC
*
45320683 ACAAGATCTCGAATTTCTTGTAGATTGTATATGAAATCCCAAATATAAGCATCGTAAGCATAATA
196 ACAAGATCTCGAATTTCTTGTAGATTGTATATGAAACCCCAAATATAAGCATCGTAAGCATAATA
45320748 TGCAGCCCATGTTACTTGGATGTGAGTATTGGATACAGACATGTGATTGAGTATGCTTGATTTCT
261 TGCAGCCCATGTTACTTGGATGTGAGTATTGGATACAGACATGTGATTGAGTATGCTTGATTTCT
45320813 TCTCAGTTTTATCATATATTTAGAGCATTATCGGAAACAAATACCGGATATCAAACTTTTAAAAG
326 TCTCAGTTTTATCATATATTTAGAGCATTATCGGAAACAAATACCGGATATCAAACTTTTAAAAG
*
45320878 AAAGTTTTTCTTTCCCAAAGATATGCTATATCTAATATTTGATAGAGGTGGGGGAAAAGAGAAGT
391 AAAGTTTTTCTTTCCCAAAGATATGCTATATCTAATATTTGATAGAGGTAGGGGAAAAGAGAAGT
*
45320943 CTACACTGAAGAAAACTGCATACAATAACCCAAATATATGCATCATAAGTGCAGCCTATGTTAAT
456 CTACACTGAAGAAAACTGCATACAACAACCCAAATATATGCATCATAAGTGCAGCCTATGTTAAT
*
45321008 TGGACATGAGTGAGTGTCAGATATGGAGATGCGATTGAGTATGCTCGATTCTTCTTAGTTTTTTC
521 TGGACATGAGTGAGTGTCAGATATGGAGATGCGATTGAGTATGCTCAATTCTTCTTAGTTTTTTC
*
45321073 ATTTACTTGGAGCATCATATTCATACCTCTATACTCTCTACATTCATTTCCAAATATTGACATCA
586 ATTTACTTGGAGCATCATATTCATACCTCTATACTCTCTACACTCATTTCCAAATATTGACATCA
*
45321138 ATCTTTTAAAAGAAAGTCTTTCTTGCCCAAAGATCTACTTATATCTAATTTTTGATACAGTAGCA
651 ATCCTTTAAAAGAAAGTCTTTCTTGCCCAAAGATCTACTTATATCTAATTTTTGATACAGTAGCA
* *
45321203 TAGATGTAGGAAGAAAAAGAGAAACATACTCTGACCAACAACAGCAGAATCTTTTCAAGCTGCAG
716 TAGATGTAGGAAGAAAAAGAGAAACATACTCTGAACAACAACAGAAGAATCTTTTCAAGCTGCAG
45321268 TTC
781 TTC
45321271 CAACAGTTGCTGCAAGCTGATTTCGATTTCAATGCAGAGGCCAAGGGCTTTTCTTGTTGTTTCTG
1 CAACAGTTGCTGCAAGCTGATTTCGATTTCAATGCAGAGGCCAAGGGCTTTTCTTGTTGTTTCTG
* *
45321336 CTGCACTTTTTCTTTCTTTGAAACATTAGGCTTTTCTTGTAGTTTCTGCCGCACTTTTTCTTCCT
66 CTGCACTTCTTCTTTCTTCGAAACATTAGGCTTTTCTTGTAGTTTCTGCCGCACTTTTTCTTCCT
45321401 CTGAAACATTACTTTCATCTTCCGAACTGCAATGATACCAATATAACTTAAGCTGAAAAGTTCCC
131 CTGAAACATTACTTTCATCTTCCGAACTGCAATGATACCAATATAACTTAAGCTGAAAAGTTCCC
45321466 ACAAGATCTCGAATTTCTTGTAGATTGTATATG-AACCCCAAATATAAGCATCGTAAGCATAATA
196 ACAAGATCTCGAATTTCTTGTAGATTGTATATGAAACCCCAAATATAAGCATCGTAAGCATAATA
45321530 TGCAGCCCATGTTACTTGGATGTGAGTATTGGATACAGACATGTGATTGAGTATGCTTGATTTCT
261 TGCAGCCCATGTTACTTGGATGTGAGTATTGGATACAGACATGTGATTGAGTATGCTTGATTTCT
*
45321595 TCTCAGTTTTATCATATATTTAGAGCATTATTGGAAACAAATACCGGATATCAAACTTTT-AAAG
326 TCTCAGTTTTATCATATATTTAGAGCATTATCGGAAACAAATACCGGATATCAAACTTTTAAAAG
*
45321659 AAAGTTTTTCTTTCCCAAAGATATGCTATATGTAATATTTGATAGAGG-AGGGGAAAAGAGAAGT
391 AAAGTTTTTCTTTCCCAAAGATATGCTATATCTAATATTTGATAGAGGTAGGGGAAAAGAGAAGT
45321723 CTACACTGAAGAAAACTGCATACAACAACCCAAATATATGCATCATAAGTGCAGCCTATGTTAAT
456 CTACACTGAAGAAAACTGCATACAACAACCCAAATATATGCATCATAAGTGCAGCCTATGTTAAT
45321788 TGGACATGAGTGAGTGTCAGATATGGAGATGCGATTGAGTATGCTCAATTCTTCTTAGTTTTTTC
521 TGGACATGAGTGAGTGTCAGATATGGAGATGCGATTGAGTATGCTCAATTCTTCTTAGTTTTTTC
*
45321853 ATTTACTTGGAGCATCATATTCATACCTCTATACTCTCTATACTCATTTCCAAATATTGACATCA
586 ATTTACTTGGAGCATCATATTCATACCTCTATACTCTCTACACTCATTTCCAAATATTGACATCA
*
45321918 ATCCTTTAAAAGAAAGTCTTTCTTGCCCAAAGATCTACTTATATCTAATTTTTGATATAGTAGCA
651 ATCCTTTAAAAGAAAGTCTTTCTTGCCCAAAGATCTACTTATATCTAATTTTTGATACAGTAGCA
*
45321983 TAGATGTAGGGAGAAAAAGAGAAACATACTCTGAACAACAACAGAAGAATCTTTTCAAGCTGCAG
716 TAGATGTAGGAAGAAAAAGAGAAACATACTCTGAACAACAACAGAAGAATCTTTTCAAGCTGCAG
45322048 TTC
781 TTC
45322051 CAACAGT
1 CAACAGT
45322058 AGCACAACGC
Statistics
Matches: 771, Mismatches: 16, Indels: 3
0.98 0.02 0.00
Matches are distributed among these distances:
780 341 0.44
781 51 0.07
782 154 0.20
783 225 0.29
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (783 bp):
CAACAGTTGCTGCAAGCTGATTTCGATTTCAATGCAGAGGCCAAGGGCTTTTCTTGTTGTTTCTG
CTGCACTTCTTCTTTCTTCGAAACATTAGGCTTTTCTTGTAGTTTCTGCCGCACTTTTTCTTCCT
CTGAAACATTACTTTCATCTTCCGAACTGCAATGATACCAATATAACTTAAGCTGAAAAGTTCCC
ACAAGATCTCGAATTTCTTGTAGATTGTATATGAAACCCCAAATATAAGCATCGTAAGCATAATA
TGCAGCCCATGTTACTTGGATGTGAGTATTGGATACAGACATGTGATTGAGTATGCTTGATTTCT
TCTCAGTTTTATCATATATTTAGAGCATTATCGGAAACAAATACCGGATATCAAACTTTTAAAAG
AAAGTTTTTCTTTCCCAAAGATATGCTATATCTAATATTTGATAGAGGTAGGGGAAAAGAGAAGT
CTACACTGAAGAAAACTGCATACAACAACCCAAATATATGCATCATAAGTGCAGCCTATGTTAAT
TGGACATGAGTGAGTGTCAGATATGGAGATGCGATTGAGTATGCTCAATTCTTCTTAGTTTTTTC
ATTTACTTGGAGCATCATATTCATACCTCTATACTCTCTACACTCATTTCCAAATATTGACATCA
ATCCTTTAAAAGAAAGTCTTTCTTGCCCAAAGATCTACTTATATCTAATTTTTGATACAGTAGCA
TAGATGTAGGAAGAAAAAGAGAAACATACTCTGAACAACAACAGAAGAATCTTTTCAAGCTGCAG
TTC
Found at i:45322114 original size:30 final size:30
Alignment explanation
Indices: 45322052--45322121 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
45322042 CTGCAGTTCC
* * * **
45322052 AACAGTAGCACAACGCGCAGCTATAATTAG
1 AACAGTAGCACAAAGCCCAGCTACAACCAG
*
45322082 AACAGTAGCAGAAAGCCCAGCTACAACCAG
1 AACAGTAGCACAAAGCCCAGCTACAACCAG
*
45322112 AACAGGAGCA
1 AACAGTAGCA
45322122 TGATGGCCAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.43, C:0.26, G:0.21, T:0.10
Consensus pattern (30 bp):
AACAGTAGCACAAAGCCCAGCTACAACCAG
Found at i:45330596 original size:18 final size:18
Alignment explanation
Indices: 45330573--45330607 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
45330563 ATATATTTTA
45330573 TTTTCTTCTATCAATAAG
1 TTTTCTTCTATCAATAAG
* *
45330591 TTTTCTTTTATTAATAA
1 TTTTCTTCTATCAATAA
45330608 TAATAGCGCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.11, G:0.03, T:0.57
Consensus pattern (18 bp):
TTTTCTTCTATCAATAAG
Found at i:45332590 original size:22 final size:22
Alignment explanation
Indices: 45332565--45332635 Score: 106
Period size: 22 Copynumber: 3.2 Consensus size: 22
45332555 AAATTCAATA
* *
45332565 TCAATTTCTTTCAAAAATTCTC
1 TCAATTCCTTTCAAAATTTCTC
45332587 TCAATTCCTTTCAAAATTTCTC
1 TCAATTCCTTTCAAAATTTCTC
* *
45332609 TCAATTCCCTTCAAAATTTCTA
1 TCAATTCCTTTCAAAATTTCTC
45332631 TCAAT
1 TCAAT
45332636 NNNNNNNNNN
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.31, C:0.25, G:0.00, T:0.44
Consensus pattern (22 bp):
TCAATTCCTTTCAAAATTTCTC
Found at i:45336601 original size:123 final size:125
Alignment explanation
Indices: 45336380--45336620 Score: 364
Period size: 123 Copynumber: 1.9 Consensus size: 125
45336370 CCACGAGGGC
*
45336380 GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGC
1 GCGATTTGACACTATTTCCTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGC
* * *
45336445 GAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTGGAATCA
66 GAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGAATCA
* *
45336505 GCGATTTTATACTATTTCCTCAGAAAACGTC-AAAAAAAA-TATTT-CTCACATGACC-ACTGTA
1 GCGATTTGACACTATTTCCTCAG-AAACGTCAAAAAAAAATTATTTCCT-ACATGACCAACTGTA
* *
45336566 GCGAAATCGCGTCCACGAGGCCACTATTTCACAATTTCTTCTTAAATAGCATCCT
64 GCGAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCT
45336621 AGTAGAAGCG
Statistics
Matches: 106, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
123 58 0.55
124 13 0.12
125 28 0.26
126 7 0.07
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (125 bp):
GCGATTTGACACTATTTCCTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGC
GAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGAATCA
Found at i:45336631 original size:123 final size:125
Alignment explanation
Indices: 45336380--45336659 Score: 363
Period size: 123 Copynumber: 2.3 Consensus size: 125
45336370 CCACGAGGGC
*
45336380 GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGC
1 GCGATTTGACACTATTTCCTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGC
* * * * **
45336445 GAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTGGAATCA
66 GAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGAAGAA
* *
45336505 GCGATTTTATACTATTTCCTCAGAAAACGTC-AAAAAAAA-TATTT-CTCACATGACC-ACTGTA
1 GCGATTTGACACTATTTCCTCAG-AAACGTCAAAAAAAAATTATTTCCT-ACATGACCAACTGTA
* * *
45336566 GCGAAATCGCGTCCACGAGGCCACTATTTCACAATTTCTTCTTAAATAGCATCCTAGTAGAA
64 GCGAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGAAGAA
** *
45336628 GCGATTTCCCACTATTTAAC-CAGAAACGTCAA
1 GCGATTTGACACTATTT-CCTCAGAAACGTCAA
45336660 CTCGGAAAAA
Statistics
Matches: 135, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
122 7 0.05
123 79 0.59
124 14 0.10
125 28 0.21
126 7 0.05
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (125 bp):
GCGATTTGACACTATTTCCTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGC
GAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGAAGAA
Found at i:45337116 original size:8 final size:8
Alignment explanation
Indices: 45337105--45337133 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
45337095 CGTTTTCGTC
45337105 TTTTT-TT
1 TTTTTGTT
45337112 TTTTTGTT
1 TTTTTGTT
45337120 TTTTTGTT
1 TTTTTGTT
45337128 TTTTTG
1 TTTTTG
45337134 AATGATTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 5 0.24
8 16 0.76
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (8 bp):
TTTTTGTT
Found at i:45339421 original size:52 final size:52
Alignment explanation
Indices: 45339358--45339459 Score: 159
Period size: 52 Copynumber: 2.0 Consensus size: 52
45339348 ATCCAATAAA
45339358 GCCAAATGTGTCTTTGTGATAATACAAGTTCTGGTCTTATAGAAAAAAGGAG
1 GCCAAATGTGTCTTTGTGATAATACAAGTTCTGGTCTTATAGAAAAAAGGAG
* * ***
45339410 GCCAAGTGTGTCTTTGTGATACTATTTGTTCTGGTCTTATAGAAAAAAGG
1 GCCAAATGTGTCTTTGTGATAATACAAGTTCTGGTCTTATAGAAAAAAGG
45339460 TTAGGGTAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.30, C:0.12, G:0.24, T:0.34
Consensus pattern (52 bp):
GCCAAATGTGTCTTTGTGATAATACAAGTTCTGGTCTTATAGAAAAAAGGAG
Found at i:45348520 original size:39 final size:40
Alignment explanation
Indices: 45348447--45348597 Score: 252
Period size: 39 Copynumber: 3.8 Consensus size: 40
45348437 CGATATATAA
* *
45348447 CACCGGCATAAAGCCTGCTAGACATAAAGTCTGATATAATT
1 CACCGGCACAAAGCCTGCTAGGCATAAAG-CTGATATAATT
45348488 CACCGGCACAAAG-CTGCTAGGCATAAAGCTGATATAATT
1 CACCGGCACAAAGCCTGCTAGGCATAAAGCTGATATAATT
*
45348527 CACCGGCACAAAG-CTGCTAGGCATAAAGCTGATATAAAT
1 CACCGGCACAAAGCCTGCTAGGCATAAAGCTGATATAATT
45348566 CACCGGCACAAAGCCTGCTAGGCATAAAGCTG
1 CACCGGCACAAAGCCTGCTAGGCATAAAGCTG
45348598 CTAGGCATAA
Statistics
Matches: 106, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
39 62 0.58
40 32 0.30
41 12 0.11
ACGTcount: A:0.36, C:0.25, G:0.21, T:0.19
Consensus pattern (40 bp):
CACCGGCACAAAGCCTGCTAGGCATAAAGCTGATATAATT
Found at i:45348593 original size:79 final size:80
Alignment explanation
Indices: 45348447--45348597 Score: 252
Period size: 79 Copynumber: 1.9 Consensus size: 80
45348437 CGATATATAA
* *
45348447 CACCGGCATAAAGCCTGCTAGACATAAAGTCTGATATAATTCACCGGCACAAAGCTGCTAGGCAT
1 CACCGGCACAAAGCCTGCTAGACATAAAGTCTGATATAAATCACCGGCACAAAGCTGCTAGGCAT
45348512 AAAGCTGATATAATT
66 AAAGCTGATATAATT
*
45348527 CACCGGCACAAAG-CTGCTAGGCATAAAG-CTGATATAAATCACCGGCACAAAGCCTGCTAGGCA
1 CACCGGCACAAAGCCTGCTAGACATAAAGTCTGATATAAATCACCGGCACAAAG-CTGCTAGGCA
45348590 TAAAGCTG
65 TAAAGCTG
45348598 CTAGGCATAA
Statistics
Matches: 67, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
78 23 0.34
79 32 0.48
80 12 0.18
ACGTcount: A:0.36, C:0.25, G:0.21, T:0.19
Consensus pattern (80 bp):
CACCGGCACAAAGCCTGCTAGACATAAAGTCTGATATAAATCACCGGCACAAAGCTGCTAGGCAT
AAAGCTGATATAATT
Found at i:45348594 original size:16 final size:16
Alignment explanation
Indices: 45348570--45348613 Score: 72
Period size: 15 Copynumber: 2.8 Consensus size: 16
45348560 ATAAATCACC
*
45348570 GGCACAAAGCCTGCTA
1 GGCATAAAGCCTGCTA
45348586 GGCATAAAG-CTGCTA
1 GGCATAAAGCCTGCTA
45348601 GGCATAAAGCCTG
1 GGCATAAAGCCTG
45348614 AACTTACAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 15 0.58
16 11 0.42
ACGTcount: A:0.32, C:0.25, G:0.27, T:0.16
Consensus pattern (16 bp):
GGCATAAAGCCTGCTA
Found at i:45351892 original size:27 final size:27
Alignment explanation
Indices: 45351862--45351915 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
45351852 GATCTTTCCA
45351862 GTTTTATATTT-TTT-TTCTTAAAAAATT
1 GTTTT-TATTTCTTTATT-TTAAAAAATT
*
45351889 GTTTTTCTTTCTTTATTTTAAAAAATT
1 GTTTTTATTTCTTTATTTTAAAAAATT
45351916 AACTTATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 4 0.17
27 18 0.75
28 2 0.08
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.63
Consensus pattern (27 bp):
GTTTTTATTTCTTTATTTTAAAAAATT
Found at i:45360501 original size:20 final size:22
Alignment explanation
Indices: 45360476--45360540 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 22
45360466 TTACTTTTCC
45360476 AATTATAATATTTTTAA-AAA-
1 AATTATAATATTTTTAATAAAT
45360496 AATTATAAT-TTTTTAATAAAT
1 AATTATAATATTTTTAATAAAT
* * *
45360517 AAATAAAATATATTTTAATTAAT
1 AATTATAATAT-TTTTAATAAAT
45360540 A
1 A
45360541 TATACCATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
19 7 0.18
20 12 0.32
21 7 0.18
22 1 0.03
23 11 0.29
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
AATTATAATATTTTTAATAAAT
Found at i:45361168 original size:20 final size:21
Alignment explanation
Indices: 45361145--45361196 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
45361135 CTTATTTTCA
*
45361145 ATTTATTAATTTTATAAAA-T
1 ATTTATTAATTTTAGAAAATT
45361165 ATTT-TTAATGTTTAGAAAATT
1 ATTTATTAAT-TTTAGAAAATT
*
45361186 ATTTAGTAATT
1 ATTTATTAATT
45361197 GATTTAAGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 5 0.19
20 12 0.44
21 6 0.22
22 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (21 bp):
ATTTATTAATTTTAGAAAATT
Found at i:45361939 original size:27 final size:27
Alignment explanation
Indices: 45361906--45361962 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
45361896 AACGATCACT
* *
45361906 TTTTCTTTAACCCAAACGGAATTTCTC
1 TTTTCTTTAACCCAAACGGAACTTCCC
*
45361933 TTTTCTTTAATCCAAACGGAACTTCCC
1 TTTTCTTTAACCCAAACGGAACTTCCC
45361960 TTT
1 TTT
45361963 AAATTTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.25, C:0.26, G:0.07, T:0.42
Consensus pattern (27 bp):
TTTTCTTTAACCCAAACGGAACTTCCC
Found at i:45366797 original size:23 final size:23
Alignment explanation
Indices: 45366767--45366814 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
45366757 GGCACTCTGG
45366767 ATGGCCCCTACAGATCAGAATGA
1 ATGGCCCCTACAGATCAGAATGA
45366790 ATGGCCCCTACAGATCAGAATGA
1 ATGGCCCCTACAGATCAGAATGA
45366813 AT
1 AT
45366815 ATACTCCAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.19
Consensus pattern (23 bp):
ATGGCCCCTACAGATCAGAATGA
Found at i:45375688 original size:23 final size:23
Alignment explanation
Indices: 45375662--45375714 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
45375652 ATAAGTGCCA
45375662 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
45375685 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
45375708 CACTGAT
1 CACTGAT
45375715 CAATAACACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:45375966 original size:18 final size:17
Alignment explanation
Indices: 45375940--45375978 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
45375930 ATTTTCCTTC
45375940 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
45375957 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
45375975 CACA
1 CACA
45375979 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:45380744 original size:27 final size:27
Alignment explanation
Indices: 45380709--45380773 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
45380699 CCTATTAAGT
* * *
45380709 AGGCTCCAATGAAGGTGCCTCATATAG
1 AGGCGCCAATGAAGGCGCCTCATAGAG
*
45380736 AGGTGCCAATGAAGGCGCCTCATAGAG
1 AGGCGCCAATGAAGGCGCCTCATAGAG
45380763 AGGCGCCAATG
1 AGGCGCCAATG
45380774 GTGGCCTTCT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.29, C:0.23, G:0.31, T:0.17
Consensus pattern (27 bp):
AGGCGCCAATGAAGGCGCCTCATAGAG
Found at i:45380918 original size:17 final size:18
Alignment explanation
Indices: 45380884--45380943 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 18
45380874 TGGGGACGGT
45380884 AGAGAAA-AA-AA-AAAG
1 AGAGAAAGAAGAAGAAAG
*
45380899 AGAGAAAGGAGAAG-AAG
1 AGAGAAAGAAGAAGAAAG
45380916 AGA-AGAAGAAGAAGAAAG
1 AGAGA-AAGAAGAAGAAAG
*
45380934 AAAGAAAGAA
1 AGAGAAAGAA
45380944 AGGTAATGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
15 7 0.19
16 2 0.06
17 16 0.44
18 10 0.28
19 1 0.03
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (18 bp):
AGAGAAAGAAGAAGAAAG
Found at i:45380939 original size:14 final size:13
Alignment explanation
Indices: 45380896--45380935 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
45380886 AGAAAAAAAA
*
45380896 AAGAGAGAAAGGAG
1 AAGA-AGAAAGAAG
45380910 AAGAAGAGAAGAAG
1 AAGAAGA-AAGAAG
45380924 AAGAAGAAAGAA
1 AAGAAGAAAGAA
45380936 AGAAAGAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 8 0.33
14 16 0.67
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (13 bp):
AAGAAGAAAGAAG
Found at i:45381112 original size:19 final size:19
Alignment explanation
Indices: 45381088--45381457 Score: 92
Period size: 19 Copynumber: 19.2 Consensus size: 19
45381078 TTTGGATTAG
*
45381088 AATTTTGTATGAATATTCT
1 AATTTTGTATGAATATTGT
45381107 AATTTTTTTGTATGAATATTGT
1 AA---TTTTGTATGAATATTGT
* *
45381129 ATTTTTTTATGAATATTGT
1 AATTTTGTATGAATATTGT
*
45381148 AATTATTTTAT-AATTAAATTTGT
1 AATT-TTGTATGAA-T--A-TTGT
* * *
45381171 -ATTTATAGTTTTGGAT-TAGT
1 AATTT-T-G-TATGAATATTGT
45381191 -ATTTTGTATGAATATTGT
1 AATTTTGTATGAATATTGT
*
45381209 AATTTT-TTTG--TA-TG-
1 AATTTTGTATGAATATTGT
* *
45381223 AATATTG--T-AATATTAT
1 AATTTTGTATGAATATTGT
* **
45381239 AATTTTATATGAATATTAC
1 AATTTTGTATGAATATTGT
45381258 AATTTT-T-TG--TA-TG-
1 AATTTTGTATGAATATTGT
*
45381271 AATATTG--T-AATATTGT
1 AATTTTGTATGAATATTGT
45381287 AATTTTGTATGAATATTGT
1 AATTTTGTATGAATATTGT
* *
45381306 AATGTCGGGATATATTGTAATATTGT
1 AAT-T----TTGTA-TG-AATATTGT
45381332 AATTTTTTGTATGAATATTGT
1 AA--TTTTGTATGAATATTGT
*
45381353 AA-TTT-TAT-AATTTTGTAT
1 AATTTTGTATGAATATTG--T
*
45381371 GAATATTG--T-AATATTGT
1 -AATTTTGTATGAATATTGT
45381388 AATTTTGTATGAATATTGT
1 AATTTTGTATGAATATTGT
*
45381407 AATGTCGGTATATATTGTAATATTGT
1 AAT-T---T-TGTA-TG-AATATTGT
45381433 AATTTTTTGTATGAATATTGT
1 AA--TTTTGTATGAATATTGT
45381454 AATT
1 AATT
45381458 ATTTTATAAT
Statistics
Matches: 265, Mismatches: 30, Indels: 112
0.65 0.07 0.28
Matches are distributed among these distances:
13 7 0.03
14 10 0.04
15 7 0.03
16 25 0.09
17 11 0.04
18 15 0.06
19 75 0.28
20 18 0.07
21 21 0.08
22 26 0.10
23 11 0.04
24 10 0.04
25 5 0.02
26 20 0.08
27 2 0.01
28 2 0.01
ACGTcount: A:0.32, C:0.01, G:0.14, T:0.54
Consensus pattern (19 bp):
AATTTTGTATGAATATTGT
Found at i:45381117 original size:22 final size:22
Alignment explanation
Indices: 45381090--45381156 Score: 95
Period size: 22 Copynumber: 3.2 Consensus size: 22
45381080 TGGATTAGAA
*
45381090 TTTTGTATGAATATTCTAATTT
1 TTTTGTATGAATATTGTAATTT
45381112 TTTTGTATGAATATTGT-A-TT
1 TTTTGTATGAATATTGTAATTT
*
45381132 TTTT-TATGAATATTGTAATTA
1 TTTTGTATGAATATTGTAATTT
45381153 TTTT
1 TTTT
45381157 ATAATTAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
19 12 0.29
20 7 0.17
21 6 0.15
22 16 0.39
ACGTcount: A:0.27, C:0.01, G:0.10, T:0.61
Consensus pattern (22 bp):
TTTTGTATGAATATTGTAATTT
Found at i:45381153 original size:102 final size:102
Alignment explanation
Indices: 45381045--45381231 Score: 279
Period size: 102 Copynumber: 1.8 Consensus size: 102
45381035 TATTAATTAT
* * *
45381045 TAATTA-TAAATTATCTATATTTAGTGTTTATAG-TTTGGATTAGAATTTTGTATGAATATTCTA
1 TAATTATTAAATAAT-TAAATTT-GTATTTATAGTTTTGGATTAGAATTTTGTATGAATATTCTA
45381108 ATTTTTTTGTATGAATATTGTATTTTTTTATGAATATTG
64 ATTTTTTTGTATGAATATTGTATTTTTTTATGAATATTG
** * *
45381147 TAATTATTTTATAATTAAATTTGTATTTATAGTTTTGGATTAGTATTTTGTATGAATATTGTAAT
1 TAATTATTAAATAATTAAATTTGTATTTATAGTTTTGGATTAGAATTTTGTATGAATATTCTAAT
45381212 TTTTTTGTATGAATATTGTA
66 TTTTTTGTATGAATATTGTA
45381232 ATATTATAAT
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
101 9 0.12
102 62 0.82
103 5 0.07
ACGTcount: A:0.30, C:0.01, G:0.13, T:0.56
Consensus pattern (102 bp):
TAATTATTAAATAATTAAATTTGTATTTATAGTTTTGGATTAGAATTTTGTATGAATATTCTAAT
TTTTTTGTATGAATATTGTATTTTTTTATGAATATTG
Found at i:45381252 original size:27 final size:26
Alignment explanation
Indices: 45381191--45381409 Score: 186
Period size: 27 Copynumber: 8.8 Consensus size: 26
45381181 TTGGATTAGT
45381191 ATTTTGTATGAATATTGT-A-ATTT-
1 ATTTTGTATGAATATTGTAATATTTA
45381214 -TTTTGTATGAATATTGTAATATTATA
1 ATTTTGTATGAATATTGTAATATT-TA
*
45381240 ATTTTATATGAATA-T-TACA-A-TT-
1 ATTTTGTATGAATATTGTA-ATATTTA
45381262 -TTTTGTATGAATATTGTAATATTGTA
1 ATTTTGTATGAATATTGTAATATT-TA
45381288 ATTTTGTATGAATATTGT-A-A--T-
1 ATTTTGTATGAATATTGTAATATTTA
* ** *
45381309 -GTCGGGAT--ATATTGTAATATTGTA
1 ATTTTGTATGAATATTGTAATATT-TA
*
45381333 ATTTTTTGTATGAATATTGTAATTTTATA
1 A--TTTTGTATGAATATTGTAATATT-TA
45381362 ATTTTGTATGAATATTGTAATATTGTA
1 ATTTTGTATGAATATTGTAATATT-TA
45381389 ATTTTGTATGAATATTGTAAT
1 ATTTTGTATGAATATTGTAAT
45381410 GTCGGTATAT
Statistics
Matches: 158, Mismatches: 14, Indels: 44
0.73 0.06 0.20
Matches are distributed among these distances:
18 7 0.04
19 1 0.01
20 5 0.03
21 12 0.08
22 20 0.13
23 6 0.04
24 5 0.03
25 6 0.04
26 3 0.02
27 78 0.49
29 15 0.09
ACGTcount: A:0.33, C:0.01, G:0.14, T:0.53
Consensus pattern (26 bp):
ATTTTGTATGAATATTGTAATATTTA
Found at i:45381284 original size:8 final size:8
Alignment explanation
Indices: 45381271--45381435 Score: 75
Period size: 8 Copynumber: 19.4 Consensus size: 8
45381261 TTTTTGTATG
45381271 AATATTGT
1 AATATTGT
45381279 AATATTGT
1 AATATTGT
*
45381287 AATTTTGTAT
1 AATATTG--T
45381297 GAATATTGT
1 -AATATTGT
* * *
45381306 AATGTCGGG
1 AATAT-TGT
45381315 ATATATTGT
1 A-ATATTGT
45381324 AATATTGT
1 AATATTGT
*
45381332 AAT-TTTT
1 AATATTGT
**
45381339 TGTA-TG-
1 AATATTGT
45381345 AATATTGT
1 AATATTGT
* *
45381353 AATTTTAT
1 AATATTGT
*
45381361 AATTTTGTAT
1 AATATTG--T
45381371 GAATATTGT
1 -AATATTGT
45381380 AATATTGT
1 AATATTGT
*
45381388 AATTTTGTAT
1 AATATTG--T
45381398 GAATATTGT
1 -AATATTGT
* *
45381407 AATGTCGGT
1 AATAT-TGT
45381416 ATATATTGT
1 A-ATATTGT
45381425 AATATTGT
1 AATATTGT
45381433 AAT
1 AAT
45381436 TTTTTGTATG
Statistics
Matches: 117, Mismatches: 24, Indels: 32
0.68 0.14 0.18
Matches are distributed among these distances:
6 2 0.02
7 7 0.06
8 68 0.58
9 13 0.11
10 9 0.08
11 18 0.15
ACGTcount: A:0.33, C:0.01, G:0.16, T:0.50
Consensus pattern (8 bp):
AATATTGT
Found at i:45381350 original size:74 final size:74
Alignment explanation
Indices: 45381214--45381456 Score: 253
Period size: 74 Copynumber: 3.3 Consensus size: 74
45381204 ATTGTAATTT
*** * * **
45381214 TTTTGTATGAATATTGTAATATTATAATTTTATATGAATATTACAATTTTTTGTATGAATATTGT
1 TTTTGTATGAATATTGTAATATGGGAATATT-GATGAATATTGTAATTTTTTGTATGAATATTGT
45381279 AATATTGTAA
65 AATATTGTAA
*
45381289 TTTTGTATGAATATTGTAATGTCGGGATATATTG-T-AATATTGTAATTTTTTGTATGAATATTG
1 TTTTGTATGAATATTGTAATAT-GGGA-ATATTGATGAATATTGTAATTTTTTGTATGAATATTG
* *
45381352 TAATTTTATAA
64 TAATATTGTAA
* * * * **
45381363 TTTTGTATGAATATTGTAATATTGTAATTTTGTATGAATATTGTAA-TGTCGGTAT--ATATTGT
1 TTTTGTATGAATATTGTAATATGGGAATATTG-ATGAATATTGTAATTTTTTGTATGAATATTGT
45381425 AATATTGTAA
65 AATATTGTAA
45381435 TTTTTTGTATGAATATTGTAAT
1 --TTTTGTATGAATATTGTAAT
45381457 TATTTTATAA
Statistics
Matches: 142, Mismatches: 19, Indels: 15
0.81 0.11 0.09
Matches are distributed among these distances:
72 20 0.14
73 2 0.01
74 83 0.58
75 32 0.23
76 1 0.01
77 4 0.03
ACGTcount: A:0.33, C:0.01, G:0.14, T:0.52
Consensus pattern (74 bp):
TTTTGTATGAATATTGTAATATGGGAATATTGATGAATATTGTAATTTTTTGTATGAATATTGTA
ATATTGTAA
Found at i:45381372 original size:101 final size:101
Alignment explanation
Indices: 45381262--45381457 Score: 383
Period size: 101 Copynumber: 1.9 Consensus size: 101
45381252 TATTACAATT
45381262 TTTTGTATGAATATTGTAATATTGTAATTTTGTATGAATATTGTAATGTCGGGATATATTGTAAT
1 TTTTGTATGAATATTGTAATATTGTAATTTTGTATGAATATTGTAATGTCGGGATATATTGTAAT
45381327 ATTGTAATTTTTTGTATGAATATTGTAATTTTATAA
66 ATTGTAATTTTTTGTATGAATATTGTAATTTTATAA
*
45381363 TTTTGTATGAATATTGTAATATTGTAATTTTGTATGAATATTGTAATGTCGGTATATATTGTAAT
1 TTTTGTATGAATATTGTAATATTGTAATTTTGTATGAATATTGTAATGTCGGGATATATTGTAAT
45381428 ATTGTAATTTTTTGTATGAATATTGTAATT
66 ATTGTAATTTTTTGTATGAATATTGTAATT
45381458 ATTTTATAAT
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
101 94 1.00
ACGTcount: A:0.31, C:0.01, G:0.16, T:0.52
Consensus pattern (101 bp):
TTTTGTATGAATATTGTAATATTGTAATTTTGTATGAATATTGTAATGTCGGGATATATTGTAAT
ATTGTAATTTTTTGTATGAATATTGTAATTTTATAA
Found at i:45384903 original size:22 final size:22
Alignment explanation
Indices: 45384876--45384917 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
45384866 AAATACCTTT
*
45384876 TTTTTTTCTTCT-TTTCCTTCC
1 TTTTTTTCTTCTGCTTCCTTCC
45384897 TTTTTTTCTTCTGCTTCCTTC
1 TTTTTTTCTTCTGCTTCCTTC
45384918 TTATTTCTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.00, C:0.29, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTTTTTCTTCTGCTTCCTTCC
Found at i:45384905 original size:18 final size:18
Alignment explanation
Indices: 45384878--45384927 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 18
45384868 ATACCTTTTT
*
45384878 TTTTTCTTCTTTTCCTTCC
1 TTTTT-TTCTTCTCCTTCC
*
45384897 TTTTTTTCTTCTGCTTCC
1 TTTTTTTCTTCTCCTTCC
45384915 TTCTTATTTCTTC
1 TT-TT-TTTCTTC
45384928 CGTTTCTCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 13 0.48
19 7 0.26
20 7 0.26
ACGTcount: A:0.02, C:0.28, G:0.02, T:0.68
Consensus pattern (18 bp):
TTTTTTTCTTCTCCTTCC
Found at i:45385036 original size:27 final size:27
Alignment explanation
Indices: 45385006--45385067 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
45384996 CTCAGTATGA
45385006 CACCAATAATGGCGCCTCCCAGATAGG
1 CACCAATAATGGCGCCTCCCAGATAGG
** *
45385033 CACCACCATTGGCGCCTCCCAGATAGG
1 CACCAATAATGGCGCCTCCCAGATAGG
*
45385060 CGCCAATA
1 CACCAATA
45385068 CTATATATTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.27, C:0.37, G:0.21, T:0.15
Consensus pattern (27 bp):
CACCAATAATGGCGCCTCCCAGATAGG
Found at i:45386763 original size:17 final size:17
Alignment explanation
Indices: 45386741--45386773 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
45386731 CAAAATTATT
45386741 TTTAAAATATT-TTTAAA
1 TTTAAAA-ATTATTTAAA
45386758 TTTAAAAATTATTTAA
1 TTTAAAAATTATTTAA
45386774 TTATTAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TTTAAAAATTATTTAAA
Found at i:45389432 original size:21 final size:21
Alignment explanation
Indices: 45389388--45389436 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
45389378 CTGATAAAAT
* *
45389388 AAATAAATTAATTTATTAGCA
1 AAATAAATTAATTTATCAACA
* *
45389409 AAATAAATTTATTTATCAATA
1 AAATAAATTAATTTATCAACA
45389430 AAATAAA
1 AAATAAA
45389437 AATACTGTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (21 bp):
AAATAAATTAATTTATCAACA
Found at i:45392171 original size:39 final size:39
Alignment explanation
Indices: 45392128--45392222 Score: 172
Period size: 39 Copynumber: 2.4 Consensus size: 39
45392118 CCCGGTGCTT
45392128 GTCCCTGTTGTCGGTGTCCCCGTTGTTGGTGTGGTAGGA
1 GTCCCTGTTGTCGGTGTCCCCGTTGTTGGTGTGGTAGGA
45392167 GTCCCTGTTGTCGGTGTCCCCGTTGTTGGTGTGGTAGGA
1 GTCCCTGTTGTCGGTGTCCCCGTTGTTGGTGTGGTAGGA
* *
45392206 GTCCCTGTGGTTGGTGT
1 GTCCCTGTTGTCGGTGT
45392223 TGAGGTAGGC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.04, C:0.20, G:0.39, T:0.37
Consensus pattern (39 bp):
GTCCCTGTTGTCGGTGTCCCCGTTGTTGGTGTGGTAGGA
Found at i:45392218 original size:24 final size:24
Alignment explanation
Indices: 45392182--45392273 Score: 94
Period size: 24 Copynumber: 3.7 Consensus size: 24
45392172 TGTTGTCGGT
* *
45392182 GTCCCCGTTGTTGGTGTGGTAGGA
1 GTCCCTGTGGTTGGTGTGGTAGGA
*
45392206 GTCCCTGTGGTTGGTGTTGAGGTAGGC
1 GTCCCTGTGGTTGGTG-T--GGTAGGA
* * *
45392233 GTCCCTGTGGTCGGTGTCGTCGGA
1 GTCCCTGTGGTTGGTGTGGTAGGA
*
45392257 GTCCCTGTGGATGGTGT
1 GTCCCTGTGGTTGGTGT
45392274 TGTGCTTGTA
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
24 33 0.59
25 1 0.02
26 1 0.02
27 21 0.38
ACGTcount: A:0.07, C:0.18, G:0.42, T:0.33
Consensus pattern (24 bp):
GTCCCTGTGGTTGGTGTGGTAGGA
Found at i:45400595 original size:39 final size:38
Alignment explanation
Indices: 45400547--45400735 Score: 118
Period size: 39 Copynumber: 4.8 Consensus size: 38
45400537 GTTTAGTTAT
*
45400547 TAATAATTATTGTTACTTAGTATTATTATTAGTAAAAAAC
1 TAAT-ATTATTGTTAGTTAGTATTATTATTAGT-AAAAAC
* * **
45400587 TAATATTATTATCATGGTTAGTTATTAGGATTAGTAAAAACCC
1 TAATATTATTGT--TAGTTAG-TATTATTATTAGTAAAAA--C
* * ****
45400630 TAATTATTATT-TTAGTTAGTATGATTGTTAGTTTTTAC
1 TAA-TATTATTGTTAGTTAGTATTATTATTAGTAAAAAC
*
45400668 ATTATATTATTGTTAGTTAGTATTATT-TTGAGT-AAAAC
1 -TAATATTATTGTTAGTTAGTATTATTATT-AGTAAAAAC
* *
45400706 TATTATTATTGTTA-TT-GTGTTAGTTATTAG
1 TAATATTATTGTTAGTTAGTATTA-TTATTAG
45400736 GATTAGTGGT
Statistics
Matches: 116, Mismatches: 22, Indels: 26
0.71 0.13 0.16
Matches are distributed among these distances:
35 5 0.04
36 6 0.05
37 14 0.12
38 12 0.10
39 26 0.22
40 14 0.12
41 16 0.14
42 11 0.09
43 5 0.04
44 7 0.06
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.50
Consensus pattern (38 bp):
TAATATTATTGTTAGTTAGTATTATTATTAGTAAAAAC
Found at i:45402133 original size:2 final size:2
Alignment explanation
Indices: 45402126--45402161 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
45402116 ATATGTGATT
45402126 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
45402162 AATAAAAGTT
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):
TA
Found at i:45403151 original size:43 final size:42
Alignment explanation
Indices: 45403090--45403254 Score: 171
Period size: 43 Copynumber: 3.9 Consensus size: 42
45403080 ATTTCCAATA
45403090 TGTG-TTATCGTGTAAGACCACGTCTGGGACGTTGGCATCGACT
1 TGTGTTTA-CGTGTAAGACCACGTCTGGGACGTTGGCATCGA-T
* *
45403133 TGTGTTTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAT
1 TGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCATCG-AT
45403176 T-TGATTT--GTGTAAGACC-CTGTCTGGGACAG-TGGCATCGAT
1 TGTG-TTTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAT
* * * *
45403216 ATGTGATTACATGTAAGACCAGGTCTAGGACGTTGGCAT
1 -TGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCAT
45403255 TGTACGAGTC
Statistics
Matches: 103, Mismatches: 8, Indels: 22
0.77 0.06 0.17
Matches are distributed among these distances:
40 2 0.02
41 30 0.29
42 5 0.05
43 62 0.60
44 4 0.04
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.32
Consensus pattern (42 bp):
TGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
Found at i:45403252 original size:84 final size:84
Alignment explanation
Indices: 45403099--45403254 Score: 219
Period size: 84 Copynumber: 1.9 Consensus size: 84
45403089 ATGTGTTATC
* * * *
45403099 GTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTACGTGTAAGACCATGTCTGGGACA
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGATTACATGTAAGACCAGGTCTAGGACA
45403164 TTGGCATCGTATTTGATTT
66 TTGGCATCGTATTTGATTT
45403183 GTGTAAGACC-CTGTCTGGGACAG-TGGCATCGA-TATGTGATTACATGTAAGACCAGGTCTAGG
1 GTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGACT-TGTGATTACATGTAAGACCAGGTCTAGG
*
45403245 ACGTTGGCAT
63 ACATTGGCAT
45403255 TGTACGAGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
83 2 0.03
84 61 0.95
85 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.30
Consensus pattern (84 bp):
GTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGATTACATGTAAGACCAGGTCTAGGACA
TTGGCATCGTATTTGATTT
Found at i:45406851 original size:33 final size:31
Alignment explanation
Indices: 45406813--45406889 Score: 93
Period size: 33 Copynumber: 2.4 Consensus size: 31
45406803 CAACTATAAT
45406813 TGCCGAATGCACATAT-TCACTTATACCCACCTA
1 TGCCGAATGCACATATAT-A--TATACCCACCTA
*
45406846 TGCCGAATGCATACATATATATATATCCACCTA
1 TGCCGAATGC--ACATATATATATACCCACCTA
45406879 TGCCGAATGCA
1 TGCCGAATGCA
45406890 TACATATACA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
31 1 0.03
33 31 0.77
35 7 0.17
36 1 0.03
ACGTcount: A:0.32, C:0.29, G:0.12, T:0.27
Consensus pattern (31 bp):
TGCCGAATGCACATATATATATACCCACCTA
Found at i:45406890 original size:33 final size:33
Alignment explanation
Indices: 45406834--45406897 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
45406824 CATATTCACT
45406834 TATACCCACCTATGCCGAATGCATACATATATA
1 TATACCCACCTATGCCGAATGCATACATATATA
*
45406867 TATATCCACCTATGCCGAATGCATACATATA
1 TATACCCACCTATGCCGAATGCATACATATA
45406898 CACACTTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.09, T:0.28
Consensus pattern (33 bp):
TATACCCACCTATGCCGAATGCATACATATATA
Found at i:45407198 original size:82 final size:83
Alignment explanation
Indices: 45407111--45407288 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 83
45407101 CTTCACCTAA
* * *
45407111 TAGGCTTATAGTCTA-ATTCCGTTCACCGGCGCTTAGCCTGCTAGG-CCTATAG-CCTGATTCAG
1 TAGGCTTATAGTCTAGATTCAGTTCACCGGCACTTAGCCTGCT-GGACCTATAGTCC-GATTCAA
45407173 TTCACCGGCACTTAGCCTGC
64 TTCACCGGCACTTAGCCTGC
* * * *
45407193 TAGGCTTGTAG-CCAGATTCAGTTCACCGGCACTTAGCTTGCTGGACGTATAGTCCGATTCAATT
1 TAGGCTTATAGTCTAGATTCAGTTCACCGGCACTTAGCCTGCTGGACCTATAGTCCGATTCAATT
45407257 CACCGGCACTTAGCCTGC
66 CACCGGCACTTAGCCTGC
* *
45407275 TAGACGTATAGTCT
1 TAGGCTTATAGTCT
45407289 GAACAATTTC
Statistics
Matches: 81, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
81 4 0.05
82 74 0.91
83 3 0.04
ACGTcount: A:0.20, C:0.28, G:0.22, T:0.29
Consensus pattern (83 bp):
TAGGCTTATAGTCTAGATTCAGTTCACCGGCACTTAGCCTGCTGGACCTATAGTCCGATTCAATT
CACCGGCACTTAGCCTGC
Found at i:45407300 original size:41 final size:41
Alignment explanation
Indices: 45407117--45407290 Score: 206
Period size: 41 Copynumber: 4.2 Consensus size: 41
45407107 CTAATAGGCT
* * * * * *
45407117 TATAGTCTAATTCCGTTCACCGGCGCTTAGCCTGCTAGGCC
1 TATAGCCTGATTCAGTTCACCGGCACTTAGCCTGCTAGACG
* *
45407158 TATAGCCTGATTCAGTTCACCGGCACTTAGCCTGCTAGGCT
1 TATAGCCTGATTCAGTTCACCGGCACTTAGCCTGCTAGACG
* * * *
45407199 TGTAGCCAGATTCAGTTCACCGGCACTTAGCTTGCTGGACG
1 TATAGCCTGATTCAGTTCACCGGCACTTAGCCTGCTAGACG
*
45407240 TATAGTCC-GATTCAATTCACCGGCACTTAGCCTGCTAGACG
1 TATAG-CCTGATTCAGTTCACCGGCACTTAGCCTGCTAGACG
*
45407281 TATAGTCTGA
1 TATAGCCTGA
45407291 ACAATTTCAC
Statistics
Matches: 115, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
40 1 0.01
41 112 0.97
42 2 0.02
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.29
Consensus pattern (41 bp):
TATAGCCTGATTCAGTTCACCGGCACTTAGCCTGCTAGACG
Found at i:45412530 original size:155 final size:154
Alignment explanation
Indices: 45412332--45413165 Score: 1023
Period size: 155 Copynumber: 5.4 Consensus size: 154
45412322 CTTCAAAAAG
* * * *
45412332 AATTTAGTAAAAACCCCTTATTTTGGCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTT-
1 AATTTAGAAAAAAACCCTTATTTCGGCCCTTTGCTCGTATTTTTTTCCCGAATTTTATTACTTTA
* * *
45412396 AAAAAATATAATATTTTCTAATTTTATTGTATTACATTATTTTAGTACATTATGTTTAAAATTCA
66 AAAAAATATAATATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATT-A
*
45412461 TTAATTTAGTGTGTTTTTTTAAATA
130 TTAATTTATTGTGTTTTTTTAAATA
*
45412486 AATTTAGAAAAATAACCCTTATTTCGACCCTTTGCTC-TATTTTTTTCCCGAATTTTATTACTTT
1 AATTTAGAAAAA-AACCCTTATTTCGGCCCTTTGCTCGTATTTTTTTCCCGAATTTTATTACTTT
** *
45412550 CAATAAAAATATTTTATTTTCGT-ATTTTATTATTTTACATTATTTAAGTACATTATGTTTGAAA
65 -AA-AAAAATATAATATTTTC-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAA
* * *
45412614 TGTATTAATTAATTCTATTTTTTT-AA-A
127 T-TATTAATTTATTGTGTTTTTTTAAATA
* * * * * * *
45412641 AA--TAGTAAAAAACTCTTATTTCTGCCCTTTGTTTGTATTTTTTT-TCTAGATTTTATTACTTT
1 AATTTAGAAAAAAACCCTTATTTCGGCCCTTTGCTCGTATTTTTTTCCCGA-ATTTTATTACTTT
* * * *
45412703 AAAAAAATATACTGTTTTTTATTTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTT
65 AAAAAAATATAATATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAA-TT
45412768 ATTAATTTATTGTGTTTTTTTAAATA
129 ATTAATTTATTGTGTTTTTTTAAATA
* * *
45412794 AATTT--AAAAAAACTCTTATTTCGGCCCTTTACTCGTATTTTTTTCCCAAATTTTATTACTTTC
1 AATTTAGAAAAAAACCCTTATTTCGGCCCTTTGCTCGTATTTTTTTCCCGAATTTTATTACTTT-
*
45412857 AATAAAAATATATTATTTTCGT-ATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAAT
65 AA-AAAAATATAATATTTTC-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAAT
* * *
45412921 GTATTAATTAATTCTATTTTTTT-AA-A
128 -TATTAATTTATTGTGTTTTTTTAAATA
* * * * * *
45412947 ATTTTAGTAAAATACCCTTATTTCGGCTCTTTGTTCGTATTTTTTTCTCCGGATTTTATTACTTT
1 AATTTAGAAAAAAACCCTTATTTCGGCCCTTTGCTCGTATTTTTTTC-CCGAATTTTATTACTTT
*
45413012 AAAAAAATATACA-ATTTTCTAATTTTAGTATTTTACATTATTTTAGTACATTATGTTTGAAATT
65 AAAAAAATATA-ATATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAA-T
* *
45413076 TATTAATTTAGTGTG-TTTTCTAAATA
128 TATTAATTTATTGTGTTTTTTTAAATA
* *
45413102 AATTTAAAAAAATAACCCTTATTTCGGCCCTTTGCTCGTATTTTTTTCCCAAATTTTATTACTT
1 AATTTAGAAAAA-AACCCTTATTTCGGCCCTTTGCTCGTATTTTTTTCCCGAATTTTATTACTT
45413166 CCAAATTTTA
Statistics
Matches: 582, Mismatches: 70, Indels: 55
0.82 0.10 0.08
Matches are distributed among these distances:
150 1 0.00
151 71 0.12
152 26 0.04
153 90 0.15
154 113 0.19
155 158 0.27
156 51 0.09
157 70 0.12
158 2 0.00
ACGTcount: A:0.30, C:0.11, G:0.07, T:0.52
Consensus pattern (154 bp):
AATTTAGAAAAAAACCCTTATTTCGGCCCTTTGCTCGTATTTTTTTCCCGAATTTTATTACTTTA
AAAAAATATAATATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTAT
TAATTTATTGTGTTTTTTTAAATA
Found at i:45412981 original size:308 final size:308
Alignment explanation
Indices: 45412332--45413165 Score: 1304
Period size: 308 Copynumber: 2.7 Consensus size: 308
45412322 CTTCAAAAAG
* *
45412332 AATTTAGTAAAAACCCCTTATTTTGGCCCTTTGTTCGTA-TTTTTTTCCCGAATTTTATTACTTT
1 AATTTAGTAAAAA-CCCTTATTTCGGCCCTTTGTTCGTATTTTTTTTCCAG-ATTTTATTACTTT
* * * * *
45412396 -AAAAAATATAATATTTTCTAATTTTATTGTATTACATTATTTTAGTACATTATGTTTAAAATTC
64 AAAAAAATATACTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTT
*
45412460 ATTAATTTAGTGTGTTTTTTTAAATAAATTTAGAAAAATAACCCTTATTTCGACCCTTTGCTC-T
129 ATTAATTTAGTGTGTTTTTTTAAATAAATTTA-AAAAATAACCCTTATTTCGGCCCTTTGCTCGT
* *
45412524 ATTTTTTTCCCGAATTTTATTACTTTCAATAAAAATATTTTATTTTCGTATTTTATTATTTTACA
193 ATTTTTTTCCCAAATTTTATTACTTTCAATAAAAATATATTATTTTCGTATTTTATTATTTTACA
45412589 TTATTTAAGTACATTATGTTTGAAATGTATTAATTAATTCTATTTTTTTAA
258 TTATTTAAGTACATTATGTTTGAAATGTATTAATTAATTCTATTTTTTTAA
* * * * *
45412640 AA-ATAGTAAAAAACTCTTATTTCTGCCCTTTGTTTGTATTTTTTTTCTAGATTTTATTACTTTA
1 AATTTAGT-AAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTTCCAGATTTTATTACTTTA
* * *
45412704 AAAAAATATACTGTTTTTTATTTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTA
65 AAAAAATATACTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTA
* * *
45412769 TTAATTTATTGTGTTTTTTTAAATAAATTT-AAAAA-AACTCTTATTTCGGCCCTTTACTCGTAT
130 TTAATTTAGTGTGTTTTTTTAAATAAATTTAAAAAATAACCCTTATTTCGGCCCTTTGCTCGTAT
45412832 TTTTTTCCCAAATTTTATTACTTTCAATAAAAATATATTATTTTCGTATTTTATTATTTTACATT
195 TTTTTTCCCAAATTTTATTACTTTCAATAAAAATATATTATTTTCGTATTTTATTATTTTACATT
*
45412897 ATTTTAGTACATTATGTTTGAAATGTATTAATTAATTCTATTTTTTTAA
260 ATTTAAGTACATTATGTTTGAAATGTATTAATTAATTCTATTTTTTTAA
* *
45412946 AATTTTAGTAAAATACCCTTATTTCGGCTCTTTGTTCGTATTTTTTTCTCCGGATTTTATTACTT
1 AA-TTTAGTAAAA-ACCCTTATTTCGGCCCTTTGTTCGTATTTTTTT-TCCAGATTTTATTACTT
* *
45413011 TAAAAAAATATACAATTTTCTAATTTTAGTATTTTACATTATTTTAGTACATTATGTTTGAAATT
63 TAAAAAAATATACTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATT
*
45413076 TATTAATTTAGTGTG-TTTTCTAAATAAATTTAAAAAAATAACCCTTATTTCGGCCCTTTGCTCG
128 TATTAATTTAGTGTGTTTTTTTAAATAAATTT-AAAAAATAACCCTTATTTCGGCCCTTTGCTCG
45413140 TATTTTTTTCCCAAATTTTATTACTT
192 TATTTTTTTCCCAAATTTTATTACTT
45413166 CCAAATTTTA
Statistics
Matches: 477, Mismatches: 38, Indels: 19
0.89 0.07 0.04
Matches are distributed among these distances:
305 21 0.04
306 121 0.25
307 42 0.09
308 150 0.31
309 89 0.19
310 5 0.01
311 49 0.10
ACGTcount: A:0.30, C:0.11, G:0.07, T:0.52
Consensus pattern (308 bp):
AATTTAGTAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTTCCAGATTTTATTACTTTAA
AAAAATATACTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTAT
TAATTTAGTGTGTTTTTTTAAATAAATTTAAAAAATAACCCTTATTTCGGCCCTTTGCTCGTATT
TTTTTCCCAAATTTTATTACTTTCAATAAAAATATATTATTTTCGTATTTTATTATTTTACATTA
TTTAAGTACATTATGTTTGAAATGTATTAATTAATTCTATTTTTTTAA
Found at i:45413812 original size:10 final size:10
Alignment explanation
Indices: 45413769--45413831 Score: 56
Period size: 10 Copynumber: 5.8 Consensus size: 10
45413759 CTGGTGGGGT
45413769 GAGAAGAAAAG
1 GAGAAG-AAAG
45413780 GAGAAGAAAG
1 GAGAAGAAAG
*
45413790 AAAGAAAATGAAAG
1 ---GAGAA-GAAAG
45413804 GAGAAGAAAG
1 GAGAAGAAAG
45413814 GA-AAGGAAAG
1 GAGAA-GAAAG
45413824 GAGAAGAA
1 GAGAAGAA
45413832 GAAAAGGGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
9 2 0.05
10 21 0.48
11 12 0.27
13 4 0.09
14 5 0.11
ACGTcount: A:0.63, C:0.00, G:0.35, T:0.02
Consensus pattern (10 bp):
GAGAAGAAAG
Found at i:45413812 original size:20 final size:20
Alignment explanation
Indices: 45413772--45413857 Score: 97
Period size: 20 Copynumber: 4.3 Consensus size: 20
45413762 GTGGGGTGAG
45413772 AAGAAAAGGAGAA-GA-AAGA
1 AAGAAAAGGA-AAGGAGAAGA
*
45413791 AAGAAAATGAAAGGAGAAGA
1 AAGAAAAGGAAAGGAGAAGA
*
45413811 AAGGAAAGGAAAGGAGAAG-
1 AAGAAAAGGAAAGGAGAAGA
* *
45413830 AAGAAAAGGGAAGGAAAAAGA
1 AAGAAAAGGAAAGG-AGAAGA
45413851 AAGAAAA
1 AAGAAAA
45413858 AAAAGTGAAG
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
18 2 0.04
19 23 0.40
20 25 0.44
21 7 0.12
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (20 bp):
AAGAAAAGGAAAGGAGAAGA
Found at i:45413854 original size:24 final size:24
Alignment explanation
Indices: 45413805--45413860 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
45413795 AAATGAAAGG
*
45413805 AGAAG-AAAGGAAAGGAAAGGAGA
1 AGAAGAAAAGGAAAGGAAAAGAGA
*
45413828 AGAAGAAAAGGGAAGGAAAA-AGAA
1 AGAAGAAAAGGAAAGGAAAAGAG-A
*
45413852 AGAAAAAAA
1 AGAAGAAAA
45413861 AGTGAAGGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 7 0.25
24 21 0.75
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (24 bp):
AGAAGAAAAGGAAAGGAAAAGAGA
Found at i:45415029 original size:157 final size:153
Alignment explanation
Indices: 45414178--45415509 Score: 1652
Period size: 155 Copynumber: 8.6 Consensus size: 153
45414168 TAAAATCTGA
* * *
45414178 AAAAAAATATAAAATAACAAAATA-AAAAT-ATATATTTTTATTGAAAGTAATAAAATTCGGG--
1 AAAATAATGTAAAATAATAAAATAGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGAA
*
45414239 AAAAATACGAACAAAGGGCCGAAATAAGGGTTATTTTTTGAAATTTATTTAACAAACACATTAAA
66 AAAAATACGAACAAAGGGCCGAAATAAGGGTT-TTTTTT-AAATTTATTTAA-AAACACACTAAA
*
45414304 TTAATAAATTTCAAACATAATGTACT
128 TTAATACATTTCAAACATAATGTACT
* * *
45414330 AAAATAATGTAAAATAATAAAATTAAAAAATAGTATA-TTTT-TTAAAAGTAATAAAATTC-GG-
1 AAAATAATGTAAAATAATAAAA-TAGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGA
** ** * * *
45414391 AAAAAATACGAACAAAGGGCCGAAATAAGGGTATTTTACT-AA-TTA-ACAAAAACAGAATTAAT
65 AAAAAATACGAACAAAGGGCCGAAATAAGGGT-TTTTTTTAAATTTATTTAAAAACACACTAAAT
45414453 TAATACATTTCAAACATAATGTACT
129 TAATACATTTCAAACATAATGTACT
*
45414478 AAAATAATGTAAAATAATAAAATACGAAAATAATATATTTTTATTAAAAGTAATAAAATTCGGGA
1 AAAATAATGTAAAATAATAAAATA-GAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGA
* ** *
45414543 AAAAAATACTAGTAAAGGGCCGAAATAAGGG-TTTTTTTAAATTTATTTAAAAAACACACTAAAG
65 AAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTTTAAATTTATTT-AAAAACACACTAAAT
* *
45414607 TAATAAATTTAAAACATAATGTACT
129 TAATACATTTCAAACATAATGTACT
* ***
45414632 AAAATAATGTAAAATAATAAAATATCGAAAATAATATA-TTTT-TTGAAA-CAATGAGGCTTCGG
1 AAAATAATGTAAAATAATAAAATA--GAAAATAATATATTTTTATTGAAAGTAAT-AAAATTCGG
* * * *
45414694 TAAAAAAATATGAACAAAGGGCTGAAATAA-AGTTTTTTTACTAAATTTATTTAAAAAACACACT
63 GAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTT--TAAATTTATTT-AAAAACACACT
45414758 AAATTAATACATTTCAAACATAATGTACT
125 AAATTAATACATTTCAAACATAATGTACT
*
45414787 AAAATAATGTAAAATAATAAAATAAGAAAATAATATATTTTTATTGAAAGTAATAAAATTTGGGA
1 AAAATAATGTAAAATAATAAAAT-AGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGA
*
45414852 AAAAAATACGAACAAAGGGCCGAAATTAAGTAGTTTTTTTTAAATTTATTTAAAAACACACTAAA
65 AAAAAATACGAACAAAGGGCCGAAA-TAAG-GGTTTTTTTTAAATTTATTTAAAAACACACTAAA
*
45414917 TGAATACATTTCAAACATAATGTACT
128 TTAATACATTTCAAACATAATGTACT
*
45414943 AAAATAATATAAAATAATAAAATTACGAAAATAATATATTTTTATTGAAAGTAATAAAAATTCGG
1 AAAATAATGTAAAATAATAAAA-TA-GAAAATAATATATTTTTATTGAAAGTAAT-AAAATTCGG
**
45415008 GAAAAAAATAC-AGTAAAGGGCCGAAATAAGGGGTTTTTTTTAAATTTATTTAAAAAACACACTA
63 GAAAAAAATACGAACAAAGGGCCGAAATAA-GGGTTTTTTTTAAATTTATTT-AAAAACACACTA
* * *
45415072 AAGTAATAAATTTAAAAACATAATGTACT
126 AATTAATACATTT-CAAACATAATGTACT
*
45415101 AAAATAATGTAAAATAATAAAAAATAGAAAAATAATATATTTTT-TTTAAAGTAATAAAATTCGG
1 AAAATAATGTAAAATAAT--AAAATAG-AAAATAATATATTTTTATTGAAAGTAATAAAATTC--
* * * * *
45415165 GGGAAAAAAATACGAACAAAGTGCCGAAATAAGGGTTTTTTACTAAA-TTA--AAAAAACAGAAT
61 GGGAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTT-TTAAATTTATTTAAAAACACACT
*
45415227 TAATTAATACATTTCAAACATAATGTACT
125 AAATTAATACATTTCAAACATAATGTACT
* * *
45415256 AAAATAATGTAAAATAATAAAATACAAAAATAAAATATTTTAATTGAAAGTAATAAAATTCGGGA
1 AAAATAATGTAAAATAATAAAATA-GAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGA
** *
45415321 AAAAAATACGAGTAAAGGGCCAAAATAAGGGTTATTTTTCTAAATTTATTTAAAACACACACTAA
65 AAAAAATACGAACAAAGGGCCGAAATAAGGGTT-TTTTT-TAAATTTATTTAAAA-ACACACTAA
45415386 ATTAATGA-ATTTCAAACATAATGTACT
127 ATTAAT-ACATTTCAAACATAATGTACT
* * * * *
45415413 AAAATAATGTAAAATTAGAAAATTAGAAAATAGTATA---TTATTTAAAGTAATAAAATCCGGGG
1 AAAATAATGTAAAATAATAAAA-TAGAAAATAATATATTTTTATTGAAAGTAATAAAATTC-GGG
*
45415475 AAAAAAATACGAACAAATGGCCGAAATAAGGGTTT
64 AAAAAAATACGAACAAAGGGCCGAAATAAGGGTTT
45415510 CTTACTAAAT
Statistics
Matches: 1031, Mismatches: 99, Indels: 98
0.84 0.08 0.08
Matches are distributed among these distances:
147 2 0.00
148 66 0.06
149 6 0.01
150 26 0.03
151 6 0.01
152 89 0.09
153 123 0.12
154 123 0.12
155 158 0.15
156 143 0.14
157 150 0.15
158 64 0.06
159 52 0.05
160 23 0.02
ACGTcount: A:0.52, C:0.07, G:0.11, T:0.30
Consensus pattern (153 bp):
AAAATAATGTAAAATAATAAAATAGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGAA
AAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTTTAAATTTATTTAAAAACACACTAAATTA
ATACATTTCAAACATAATGTACT
Found at i:45415250 original size:469 final size:463
Alignment explanation
Indices: 45414201--45415506 Score: 1769
Period size: 469 Copynumber: 2.8 Consensus size: 463
45414191 ATAACAAAAT
45414201 AAAAAT-ATATATTTTTATTGAAAGTAATAAAATTCGGG--AAAAATACGAACAAAGGGCCGAAA
1 AAAAATAATATATTTTT-TTGAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGAAA
* * * *
45414263 TAAGGGTTATTTT-TTGAAATTTATTTAACAAACACATTAAATTAATAAATTTCAAACATAATGT
65 TAAGGGTT-TTTTACT-AAATTTA--TAAAAAACAAATT-AATTAATACATTTCAAACATAATGT
* * *
45414327 ACTAAAATAATGTAAAATAATAAAATTAAAAAATAGTATA-TTTT-TTAAAAGTAATAAAA-TTC
125 ACTAAAATAATGTAAAATAATAAAA-TAAAAAATAATATATTTTTATTGAAAGTAATAAAATTTG
** ** * * *
45414389 GG-AAAAAATACGAACAAAGGGCCGAAATAAGGGTATTTTACT-AA-TTA-ACAAAAACAGAATT
189 GGAAAAAAATACGAACAAAGGGCCGAAATAAGGGT-TTTTTTTAAATTTATTTAAAAACACACTA
45414450 AATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA-TACGAAAATAATAT
253 AATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTACGAAAATAATAT
*
45414514 ATTTTTATTAAAAGTAATAAAATTCGGGAAAAAAATACTAGTAAAGGGCCGAAATAA-GGGTTTT
318 ATTTTTATTAAAAGTAATAAAATTCGGGAAAAAAATACGAGTAAAGGGCCGAAATAAGGGGTTTT
45414578 TTTAAATTTATTTAAAAAACACACTAAAGTAATAAATTTAAAACATAATGTACTAAAATAATGTA
383 TTTAAATTTATTTAAAAAACACACTAAAGTAATAAATTTAAAACATAATGTACTAAAATAATGTA
* *
45414643 AAATAATAAAATATCG
448 AAATAATAAAAAATAG
* *** * * *
45414659 -AAAATAATATA-TTTTTTGAAA-CAATGAGGCTTCGGTAAAAAAATATGAACAAAGGGCTGAAA
1 AAAAATAATATATTTTTTTGAAAGTAAT-AAAATTCGGGAAAAAAATACGAACAAAGGGCCGAAA
* * * *
45414721 TAAAGTTTTTTTACTAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTAC
65 TAAGGGTTTTTTACTAAATTTA--TAAAAAACA-AATTAATTAATACATTTCAAACATAATGTAC
45414786 TAAAATAATGTAAAATAATAAAATAAGAAAATAATATATTTTTATTGAAAGTAATAAAATTTGGG
127 TAAAATAATGTAAAATAATAAAATAA-AAAATAATATATTTTTATTGAAAGTAATAAAATTTGGG
*
45414851 AAAAAAATACGAACAAAGGGCCGAAATTAAGTAGTTTTTTTTAAATTTATTTAAAAACACACTAA
191 AAAAAAATACGAACAAAGGGCCGAAA-TAAG-GGTTTTTTTTAAATTTATTTAAAAACACACTAA
* *
45414916 ATGAATACATTTCAAACATAATGTACTAAAATAATATAAAATAATAAAATTACGAAAATAATATA
254 ATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTACGAAAATAATATA
*
45414981 TTTTTATTGAAAGTAATAAAAATTCGGGAAAAAAATAC-AGTAAAGGGCCGAAATAAGGGGTTTT
319 TTTTTATTAAAAGTAAT-AAAATTCGGGAAAAAAATACGAGTAAAGGGCCGAAATAAGGGG-TTT
45415045 TTTTAAATTTATTTAAAAAACACACTAAAGTAATAAATTTAAAAACATAATGTACTAAAATAATG
382 TTTTAAATTTATTTAAAAAACACACTAAAGTAATAAATTT-AAAACATAATGTACTAAAATAATG
45415110 TAAAATAATAAAAAATAG
446 TAAAATAATAAAAAATAG
* *
45415128 AAAAATAATATATTTTTTTTAAAGTAATAAAATTCGGGGGAAAAAAATACGAACAAAGTGCCGAA
1 AAAAATAATATATTTTTTTGAAAGTAATAAAATTC--GGGAAAAAAATACGAACAAAGGGCCGAA
45415193 ATAAGGGTTTTTTACTAAA-TTA-AAAAAACAGAATTAATTAATACATTTCAAACATAATGTACT
64 ATAAGGGTTTTTTACTAAATTTATAAAAAACA-AATTAATTAATACATTTCAAACATAATGTACT
* * *
45415256 AAAATAATGTAAAATAATAAAATACAAAAATAAAATATTTTAATTGAAAGTAATAAAATTCGGGA
128 AAAATAATGTAAAATAATAAAATA-AAAAATAATATATTTTTATTGAAAGTAATAAAATTTGGGA
** *
45415321 AAAAAATACGAGTAAAGGGCCAAAATAAGGGTTATTTTTCTAAATTTATTTAAAACACACACTAA
192 AAAAAATACGAACAAAGGGCCGAAATAAGGGTT-TTTTT-TAAATTTATTTAAAA-ACACACTAA
* * *
45415386 ATTAATGA-ATTTCAAACATAATGTACTAAAATAATGTAAAATTAGAAAATTA-GAAAATAGTAT
254 ATTAAT-ACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTACGAAAATAATAT
* * ** *
45415449 A---TTATTTAAAGTAATAAAATCCGGGGAAAAAAATACGAACAAATGGCCGAAATAAGGG
318 ATTTTTATTAAAAGTAATAAAATTC-GGGAAAAAAATACGAGTAAAGGGCCGAAATAAGGG
45415507 TTTCTTACTA
Statistics
Matches: 753, Mismatches: 62, Indels: 57
0.86 0.07 0.07
Matches are distributed among these distances:
455 3 0.00
456 15 0.02
457 89 0.12
458 39 0.05
459 14 0.02
460 4 0.01
461 25 0.03
462 9 0.01
463 4 0.01
464 3 0.00
465 63 0.08
466 75 0.10
467 44 0.06
468 52 0.07
469 186 0.25
470 67 0.09
471 14 0.02
472 6 0.01
473 41 0.05
ACGTcount: A:0.52, C:0.08, G:0.11, T:0.30
Consensus pattern (463 bp):
AAAAATAATATATTTTTTTGAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGAAAT
AAGGGTTTTTTACTAAATTTATAAAAAACAAATTAATTAATACATTTCAAACATAATGTACTAAA
ATAATGTAAAATAATAAAATAAAAAATAATATATTTTTATTGAAAGTAATAAAATTTGGGAAAAA
AATACGAACAAAGGGCCGAAATAAGGGTTTTTTTTAAATTTATTTAAAAACACACTAAATTAATA
CATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTACGAAAATAATATATTTTTAT
TAAAAGTAATAAAATTCGGGAAAAAAATACGAGTAAAGGGCCGAAATAAGGGGTTTTTTTAAATT
TATTTAAAAAACACACTAAAGTAATAAATTTAAAACATAATGTACTAAAATAATGTAAAATAATA
AAAAATAG
Found at i:45416317 original size:8 final size:8
Alignment explanation
Indices: 45416303--45416350 Score: 53
Period size: 8 Copynumber: 6.1 Consensus size: 8
45416293 GGGTGTTAAA
45416303 ACAACATT
1 ACAACATT
*
45416311 GCAACATT
1 ACAACATT
45416319 ACAACATT
1 ACAACATT
*
45416327 AC-ACATA
1 ACAACATT
**
45416334 ACAATTTT
1 ACAACATT
45416342 ACAACATT
1 ACAACATT
45416350 A
1 A
45416351 GCTTAATTCC
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
7 6 0.19
8 25 0.81
ACGTcount: A:0.48, C:0.23, G:0.02, T:0.27
Consensus pattern (8 bp):
ACAACATT
Found at i:45419213 original size:76 final size:77
Alignment explanation
Indices: 45419128--45419337 Score: 207
Period size: 76 Copynumber: 2.7 Consensus size: 77
45419118 ACTAACACAA
45419128 TAACAATAATAATAGTTTTTTACTCAA-AATAATACTAACTAACAATAATAATTAAGG-TTTTAC
1 TAACAATAATAATAGTTTTTTACT-AACAATAATACTAACTAACAATAATAATTAAGGATTTTAC
45419191 TAAAAATAATAAC
65 TAAAAATAATAAC
* **** *
45419204 TAACAATAAT-ATAATGTAAAAACTAACAATCATACTAACTAA-AATAATAATT-AGGATTTTTA
1 TAACAATAATAATAGT-TTTTTACTAACAATAATACTAACTAACAATAATAATTAAGGA-TTTTA
***
45419266 CTAATCCTAATAAC
64 CTAAAAATAATAAC
* * *
45419280 TAACCATAATAATATTAGTTTTTTACTAATAATAATACTAAGC-AACAATAATTATTAA
1 TAA-C--AATAATAATAGTTTTTTACTAACAATAATACTAA-CTAACAATAATAATTAA
45419338 TAACTAAACC
Statistics
Matches: 105, Mismatches: 18, Indels: 17
0.75 0.13 0.12
Matches are distributed among these distances:
74 3 0.03
75 16 0.15
76 47 0.45
77 1 0.01
79 24 0.23
80 13 0.12
81 1 0.01
ACGTcount: A:0.50, C:0.11, G:0.04, T:0.34
Consensus pattern (77 bp):
TAACAATAATAATAGTTTTTTACTAACAATAATACTAACTAACAATAATAATTAAGGATTTTACT
AAAAATAATAAC
Found at i:45419246 original size:23 final size:23
Alignment explanation
Indices: 45419201--45419247 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
45419191 TAAAAATAAT
*
45419201 AACTAACAATAATATAATGTAAA
1 AACTAACAATAATATAATCTAAA
*
45419224 AACTAACAATCATACTAA-CTAAA
1 AACTAACAATAATA-TAATCTAAA
45419247 A
1 A
45419248 TAATAATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.60, C:0.15, G:0.02, T:0.23
Consensus pattern (23 bp):
AACTAACAATAATATAATCTAAA
Found at i:45419937 original size:12 final size:12
Alignment explanation
Indices: 45419917--45419970 Score: 56
Period size: 12 Copynumber: 4.6 Consensus size: 12
45419907 GGCCAGTACA
*
45419917 AATAACAAAAAC
1 AATAGCAAAAAC
*
45419929 AATAGCAAAAAT
1 AATAGCAAAAAC
*
45419941 AATAACAAAAAC
1 AATAGCAAAAAC
* *
45419953 AACAG-AAAAAT
1 AATAGCAAAAAC
45419964 AATAGCA
1 AATAGCA
45419971 CCAAAACACT
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
11 9 0.27
12 24 0.73
ACGTcount: A:0.70, C:0.13, G:0.06, T:0.11
Consensus pattern (12 bp):
AATAGCAAAAAC
Found at i:45419946 original size:24 final size:23
Alignment explanation
Indices: 45419917--45419967 Score: 84
Period size: 24 Copynumber: 2.2 Consensus size: 23
45419907 GGCCAGTACA
*
45419917 AATAACAAAAACAATAGCAAAAAT
1 AATAACAAAAACAACAG-AAAAAT
45419941 AATAACAAAAACAACAGAAAAAT
1 AATAACAAAAACAACAGAAAAAT
45419964 AATA
1 AATA
45419968 GCACCAAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 10 0.38
24 16 0.62
ACGTcount: A:0.73, C:0.12, G:0.04, T:0.12
Consensus pattern (23 bp):
AATAACAAAAACAACAGAAAAAT
Found at i:45422345 original size:9 final size:10
Alignment explanation
Indices: 45422326--45422351 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
45422316 GAAATGAATA
45422326 TTTTAATTTT
1 TTTTAATTTT
45422336 TTTTAATTTT
1 TTTTAATTTT
45422346 TTTTAA
1 TTTTAA
45422352 AGATATTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTTAATTTT
Found at i:45422406 original size:9 final size:9
Alignment explanation
Indices: 45422392--45422416 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
45422382 AAATTTAAAA
45422392 AAAATATTT
1 AAAATATTT
45422401 AAAATATTT
1 AAAATATTT
45422410 AAAATAT
1 AAAATAT
45422417 ACATTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
AAAATATTT
Found at i:45422524 original size:22 final size:22
Alignment explanation
Indices: 45422475--45422564 Score: 60
Period size: 23 Copynumber: 4.0 Consensus size: 22
45422465 ATATATTTTA
*
45422475 AATA-TTTATAATATTAAAAAATT
1 AATATTTTA-AATTTTAAAAAA-T
*
45422498 TATATTTTAAATTTTAAAAAAT
1 AATATTTTAAATTTTAAAAAAT
* *
45422520 AATATTATAAAACATTTT-AAATAT
1 AATATT-T-TAA-ATTTTAAAAAAT
* *
45422544 -ACATTTTAAATTTTATAAAAT
1 AATATTTTAAATTTTAAAAAAT
45422565 CAGTAATAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
20 5 0.09
21 6 0.11
22 7 0.13
23 19 0.36
24 11 0.21
25 5 0.09
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
AATATTTTAAATTTTAAAAAAT
Found at i:45430961 original size:14 final size:15
Alignment explanation
Indices: 45430942--45430970 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
45430932 GCATAAGTAA
45430942 AAAATATTA-TAAAT
1 AAAATATTAGTAAAT
45430956 AAAATATTAGTAAAT
1 AAAATATTAGTAAAT
45430971 GGTTGATAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (15 bp):
AAAATATTAGTAAAT
Found at i:45436736 original size:22 final size:22
Alignment explanation
Indices: 45436710--45436752 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
45436700 AAAAACGTTT
*
45436710 GTTGTTTTTTTACTGTTTTGTC
1 GTTGTTTTTTCACTGTTTTGTC
*
45436732 GTTGTTTTTTCATTGTTTTGT
1 GTTGTTTTTTCACTGTTTTGT
45436753 TATCATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.05, C:0.07, G:0.19, T:0.70
Consensus pattern (22 bp):
GTTGTTTTTTCACTGTTTTGTC
Found at i:45436913 original size:11 final size:11
Alignment explanation
Indices: 45436893--45436930 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
45436883 AGTATAATTT
45436893 TAAAAA-AATA
1 TAAAAATAATA
45436903 TAAAAATAATA
1 TAAAAATAATA
* *
45436914 AAAAAATTATA
1 TAAAAATAATA
45436925 TAAAAA
1 TAAAAA
45436931 ATTATTCTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
10 6 0.25
11 18 0.75
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
TAAAAATAATA
Found at i:45438188 original size:44 final size:44
Alignment explanation
Indices: 45438125--45438218 Score: 152
Period size: 44 Copynumber: 2.1 Consensus size: 44
45438115 AGATAGAAAG
* * *
45438125 AAAGTTTATATAGGATGATGATGTTAATGTATTGTTGTCCCTTA
1 AAAGTTTATACAGGATGATGATGTTAATGTATTGCTATCCCTTA
*
45438169 AAAGTTTATACAGGATGATGATGTTAATGTATTGCTATCCCTTC
1 AAAGTTTATACAGGATGATGATGTTAATGTATTGCTATCCCTTA
45438213 AAAGTT
1 AAAGTT
45438219 AAGTTATGAC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (44 bp):
AAAGTTTATACAGGATGATGATGTTAATGTATTGCTATCCCTTA
Found at i:45440416 original size:43 final size:43
Alignment explanation
Indices: 45440369--45440450 Score: 123
Period size: 43 Copynumber: 1.9 Consensus size: 43
45440359 TAATCACAGA
45440369 TCGATGCC-ACTGTCCCAGACAG-GATCTTACACGAAAACATAAT
1 TCGATGCCAAC-GTCCCAGAC-GTGATCTTACACGAAAACATAAT
*
45440412 TCGATGCCAACGTCCCAGACGTGGTCTTACACGAAAACA
1 TCGATGCCAACGTCCCAGACGTGATCTTACACGAAAACA
45440451 CAAATTGGAG
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
42 1 0.03
43 33 0.92
44 2 0.06
ACGTcount: A:0.33, C:0.29, G:0.18, T:0.20
Consensus pattern (43 bp):
TCGATGCCAACGTCCCAGACGTGATCTTACACGAAAACATAAT
Found at i:45440620 original size:2 final size:2
Alignment explanation
Indices: 45440615--45440649 Score: 61
Period size: 2 Copynumber: 17.0 Consensus size: 2
45440605 TAATTTTTTC
45440615 AT AT AT CAT 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
45440650 TCTTAAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:45446329 original size:25 final size:27
Alignment explanation
Indices: 45446277--45446331 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 27
45446267 TAAATGTCTA
45446277 TTTTCGTAATTAATCGATTTTCCCTATAT
1 TTTTCGTAATTAATCGATTTT--CTATAT
*
45446306 TTTTCGTAATTAAT-TATTTT-TATAT
1 TTTTCGTAATTAATCGATTTTCTATAT
45446331 T
1 T
45446332 ATTTAGGTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 6 0.24
28 5 0.20
29 14 0.56
ACGTcount: A:0.25, C:0.11, G:0.05, T:0.58
Consensus pattern (27 bp):
TTTTCGTAATTAATCGATTTTCTATAT
Found at i:45457425 original size:2 final size:2
Alignment explanation
Indices: 45457418--45457455 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
45457408 AATAGTACTA
45457418 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
45457456 CTTTGACTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:45458839 original size:30 final size:30
Alignment explanation
Indices: 45458805--45458917 Score: 91
Period size: 30 Copynumber: 3.4 Consensus size: 30
45458795 TTATTTTTTA
*
45458805 TTTTTTAATTTTAAATTACTTTTAAAATAC
1 TTTTTTAATTTTAAATTATTTTTAAAATAC
45458835 TTTTTTAAAATTTTTTAAATTTTAAATTTTTTTTAAAATAC
1 TTTTTT--AA--TTTTAAA--TT--A---TTTTTAAAATAC
* * *
45458876 TTTTTTATTTTTAAAATATTTTTAAAATAT
1 TTTTTTAATTTTAAATTATTTTTAAAATAC
45458906 TTTTTTAATTTT
1 TTTTTTAATTTT
45458918 TGTTTTAATT
Statistics
Matches: 67, Mismatches: 5, Indels: 22
0.71 0.05 0.23
Matches are distributed among these distances:
30 28 0.42
32 2 0.03
33 1 0.01
34 7 0.10
35 1 0.01
36 2 0.03
37 7 0.10
38 1 0.01
39 1 0.01
41 17 0.25
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.63
Consensus pattern (30 bp):
TTTTTTAATTTTAAATTATTTTTAAAATAC
Found at i:45458856 original size:41 final size:40
Alignment explanation
Indices: 45458804--45458882 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 40
45458794 TTTATTTTTT
45458804 ATTTTTTAATTTTAAATTACTTTTAAAATACTTTTTTAAA
1 ATTTTTTAATTTTAAATTACTTTTAAAATACTTTTTTAAA
**
45458844 ATTTTTTAAATTTTAAATTTTTTTTAAAATACTTTTTTA
1 ATTTTTT-AATTTTAAATTACTTTTAAAATACTTTTTTA
45458883 TTTTTAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
40 7 0.19
41 29 0.81
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (40 bp):
ATTTTTTAATTTTAAATTACTTTTAAAATACTTTTTTAAA
Found at i:45458886 original size:18 final size:17
Alignment explanation
Indices: 45458861--45458898 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 17
45458851 AAATTTTAAA
45458861 TTTTTTTTAAAATACTTT
1 TTTTTTTTAAAATA-TTT
45458879 TTTATTTTTAAAATATTT
1 TTT-TTTTTAAAATATTT
45458897 TT
1 TT
45458899 AAAATATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTTTTTAAAATATTT
Found at i:45458899 original size:41 final size:39
Alignment explanation
Indices: 45458798--45458935 Score: 115
Period size: 41 Copynumber: 3.5 Consensus size: 39
45458788 AATATTTTTA
* **
45458798 TTTTTT-ATTTTT-TAATTTTAAATTACTTTTAAAATAC
1 TTTTTTAATTTTTAAAATTTTAAATTTTTTTTAAAATAC
*
45458835 TTTTTTAAAATTTTTTAAATTTTAAATTTTTTTTAAAATAC
1 TTTTTT--AATTTTTAAAATTTTAAATTTTTTTTAAAATAC
**
45458876 TTTTTT-ATTTTTAAAATATTTTTAAAATATTTTTTT--AATTT
1 TTTTTTAATTTTT-AAA-A-TTTT-AAAT-TTTTTTTAAAATAC
45458917 TTGTTTTAATTTTTAAAAT
1 TT-TTTTAATTTTTAAAAT
45458936 AAATTTTTGG
Statistics
Matches: 84, Mismatches: 6, Indels: 19
0.77 0.06 0.17
Matches are distributed among these distances:
37 6 0.07
38 6 0.07
39 2 0.02
40 8 0.10
41 38 0.45
42 11 0.13
43 13 0.15
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (39 bp):
TTTTTTAATTTTTAAAATTTTAAATTTTTTTTAAAATAC
Found at i:45471855 original size:25 final size:25
Alignment explanation
Indices: 45471814--45471870 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
45471804 ACAATCCATG
** * *
45471814 TAAATCATGTATTTCATGTAACTTT
1 TAAATCATGTAAATCATATAACATT
45471839 TAAATCATGTAAATCATATAACATT
1 TAAATCATGTAAATCATATAACATT
*
45471864 TATATCA
1 TAAATCA
45471871 ATTTTTTTTC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.42
Consensus pattern (25 bp):
TAAATCATGTAAATCATATAACATT
Found at i:45472164 original size:23 final size:23
Alignment explanation
Indices: 45472134--45472202 Score: 95
Period size: 23 Copynumber: 3.0 Consensus size: 23
45472124 CGAGCTGAAT
* *
45472134 AAACGGTAAGCTCTATTGAGCTG
1 AAACGGTAAGCTCCATAGAGCTG
*
45472157 AAACGGTAAGCTCCGTAGAGCTG
1 AAACGGTAAGCTCCATAGAGCTG
45472180 AAACGGTAAGCT-CATACGAGCTG
1 AAACGGTAAGCTCCATA-GAGCTG
45472203 TGGTGAGTCC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
22 3 0.07
23 38 0.93
ACGTcount: A:0.32, C:0.20, G:0.28, T:0.20
Consensus pattern (23 bp):
AAACGGTAAGCTCCATAGAGCTG
Found at i:45476690 original size:11 final size:11
Alignment explanation
Indices: 45476668--45476751 Score: 80
Period size: 11 Copynumber: 7.6 Consensus size: 11
45476658 AACTAATCCT
45476668 CTCTCAAATTTC
1 CTCTC-AATTTC
45476680 CTCTCAATTTC
1 CTCTCAATTTC
* *
45476691 TTCTAAATTTC
1 CTCTCAATTTC
45476702 CTCTCAATTTC
1 CTCTCAATTTC
* * *
45476713 TTTTAAATTTC
1 CTCTCAATTTC
*
45476724 CTCTCAATTTG
1 CTCTCAATTTC
* *
45476735 CTTTCAAATTC
1 CTCTCAATTTC
45476746 CT-TCAA
1 CTCTCAA
45476752 AATTTCTCTC
Statistics
Matches: 58, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
10 4 0.07
11 49 0.84
12 5 0.09
ACGTcount: A:0.24, C:0.27, G:0.01, T:0.48
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:45476746 original size:22 final size:22
Alignment explanation
Indices: 45476671--45476765 Score: 115
Period size: 22 Copynumber: 4.3 Consensus size: 22
45476661 TAATCCTCTC
45476671 TCAAATTTCCTCTCAATTTC-T
1 TCAAATTTCCTCTCAATTTCTT
45476692 TCTAAATTTCCTCTCAATTTCTT
1 TC-AAATTTCCTCTCAATTTCTT
*
45476715 TTAAATTTCCTCTCAATTTGCTT
1 TCAAATTTCCTCTCAATTT-CTT
*
45476738 TCAAA-TTCCT-TCAAAATTTCTC
1 TCAAATTTCCTCTC--AATTTCTT
45476760 TCAAAT
1 TCAAAT
45476766 CCATATTTAT
Statistics
Matches: 65, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
21 4 0.06
22 47 0.72
23 14 0.22
ACGTcount: A:0.26, C:0.25, G:0.01, T:0.47
Consensus pattern (22 bp):
TCAAATTTCCTCTCAATTTCTT
Found at i:45476765 original size:11 final size:11
Alignment explanation
Indices: 45476667--45476765 Score: 73
Period size: 11 Copynumber: 8.9 Consensus size: 11
45476657 AAACTAATCC
45476667 TCTCTCAAATT
1 TCTCTCAAATT
45476678 TCCTCTC-AATT
1 T-CTCTCAAATT
45476689 TCT-TCTAAATT
1 TCTCTC-AAATT
45476700 TCCTCTC-AATT
1 T-CTCTCAAATT
* *
45476711 TCTTTTAAATT
1 TCTCTCAAATT
45476722 TCCTCTC-AATT
1 T-CTCTCAAATT
*
45476733 TGCTTTCAAATT
1 T-CTCTCAAATT
*
45476745 CCT-TCAAAATT
1 TCTCTC-AAATT
45476756 TCTCTCAAAT
1 TCTCTCAAAT
45476766 CCATATTTAT
Statistics
Matches: 70, Mismatches: 8, Indels: 20
0.71 0.08 0.20
Matches are distributed among these distances:
9 2 0.03
10 7 0.10
11 43 0.61
12 16 0.23
13 2 0.03
ACGTcount: A:0.25, C:0.26, G:0.01, T:0.47
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:45476817 original size:51 final size:51
Alignment explanation
Indices: 45476727--45476824 Score: 119
Period size: 51 Copynumber: 1.9 Consensus size: 51
45476717 AAATTTCCTC
* *
45476727 TCAATTTGCTTTCAAATTCCTTCAAAATTTCTCTCAAATCCATATTTATTT
1 TCAATTTGCTCTCAAATTCCTTCAAAATTTCTATCAAATCCATATTTATTT
* * *
45476778 TCAATTTGCTCTCAAGTTCC-TCTTAAATTTCTAAT-AAATCCCTATTT
1 TCAATTTGCTCTCAAATTCCTTC-AAAATTTCT-ATCAAATCCATATTT
45476825 TTAAATAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
50 2 0.05
51 37 0.93
52 1 0.03
ACGTcount: A:0.29, C:0.22, G:0.03, T:0.46
Consensus pattern (51 bp):
TCAATTTGCTCTCAAATTCCTTCAAAATTTCTATCAAATCCATATTTATTT
Found at i:45483080 original size:20 final size:20
Alignment explanation
Indices: 45483047--45483087 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
45483037 ATTTCAAGTC
* *
45483047 AATAGATCCTTTTTTTTAGT
1 AATAGATCCATTTTATTAGT
*
45483067 AATAGTTCCATTTTATTAGT
1 AATAGATCCATTTTATTAGT
45483087 A
1 A
45483088 GTTGTTGTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.51
Consensus pattern (20 bp):
AATAGATCCATTTTATTAGT
Found at i:45493037 original size:24 final size:25
Alignment explanation
Indices: 45493010--45493057 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
45493000 AGAGGAAAGT
45493010 TTAAAGAACATAAAA-GAAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAAA
** *
45493034 TTAAATTACTTAAAACGAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAA
45493058 TATAGGGATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.19
Consensus pattern (25 bp):
TTAAAGAACATAAAACGAAAAAAAA
Found at i:45493786 original size:25 final size:25
Alignment explanation
Indices: 45493743--45493803 Score: 63
Period size: 24 Copynumber: 2.4 Consensus size: 25
45493733 CCCTTTAAAA
45493743 AAAATATAAAATGTAATACAATA-CAAT
1 AAAATA-AAAATGTAATAC--TAGCAAT
* *
45493770 AAAATAAAAAT-TTATACTAGTAAT
1 AAAATAAAAATGTAATACTAGCAAT
45493794 AAAATAAAAA
1 AAAATAAAAA
45493804 AAATTGGGGG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 2 0.06
24 13 0.42
25 5 0.16
26 5 0.16
27 6 0.19
ACGTcount: A:0.66, C:0.05, G:0.03, T:0.26
Consensus pattern (25 bp):
AAAATAAAAATGTAATACTAGCAAT
Found at i:45495415 original size:26 final size:25
Alignment explanation
Indices: 45495382--45495430 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 25
45495372 TACATATTTA
45495382 ATTATTTATAT-TTCATAATATAATAC
1 ATTATTTATATATTC--AATATAATAC
45495408 ATTATTTATATATTCAATATAAT
1 ATTATTTATATATTCAATATAAT
45495431 TTTTTTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 8 0.36
26 11 0.50
27 3 0.14
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (25 bp):
ATTATTTATATATTCAATATAATAC
Found at i:45495426 original size:20 final size:20
Alignment explanation
Indices: 45495403--45495465 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 20
45495393 TTCATAATAT
*
45495403 AATACATTATTTATATATTC
1 AATAAATTATTTATATATTC
* * *
45495423 AATATAATTTTTTTTAT-TTT
1 AATA-AATTATTTATATATTC
45495443 AATAAATTATTTA-ATATTAC
1 AATAAATTATTTATATATT-C
45495463 AAT
1 AAT
45495466 TTTATTTTAA
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
18 2 0.06
19 9 0.27
20 13 0.39
21 9 0.27
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (20 bp):
AATAAATTATTTATATATTC
Found at i:45495724 original size:18 final size:18
Alignment explanation
Indices: 45495697--45495731 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
45495687 TATATGTGAT
45495697 ATTAATTA-TTATAAAAC
1 ATTAATTATTTATAAAAC
45495714 ATTATATTATTTATAAAA
1 ATTA-ATTATTTATAAAA
45495732 ATAATATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 4 0.25
19 8 0.50
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTAATTATTTATAAAAC
Found at i:45495738 original size:18 final size:18
Alignment explanation
Indices: 45495701--45495739 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
45495691 TGTGATATTA
*
45495701 ATTATTATAAAACATTAT
1 ATTATTATAAAACATAAT
45495719 ATTATTTATAAAA-ATAAT
1 ATTA-TTATAAAACATAAT
45495737 ATT
1 ATT
45495740 TGATTGCAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTATTATAAAACATAAT
Found at i:45498441 original size:16 final size:16
Alignment explanation
Indices: 45498420--45498451 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
45498410 AATTAAAGAC
45498420 TAAAATGAGGGCAAAG
1 TAAAATGAGGGCAAAG
45498436 TAAAATGAGGGCAAAG
1 TAAAATGAGGGCAAAG
45498452 GAGAAAAATT
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:0.50, C:0.06, G:0.31, T:0.12
Consensus pattern (16 bp):
TAAAATGAGGGCAAAG
Found at i:45501911 original size:17 final size:19
Alignment explanation
Indices: 45501876--45501912 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
45501866 ACAATTAAGC
*
45501876 ATAAAATAAAAGAATAGTT
1 ATAAAATAAAAGAACAGTT
45501895 ATAAAA-AAAA-AACAGTT
1 ATAAAATAAAAGAACAGTT
45501912 A
1 A
45501913 ATACAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 7 0.41
18 4 0.24
19 6 0.35
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.22
Consensus pattern (19 bp):
ATAAAATAAAAGAACAGTT
Found at i:45501980 original size:18 final size:19
Alignment explanation
Indices: 45501943--45501980 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
45501933 TTATAAATAT
*
45501943 AAATAAAAACTCTTGTAAA
1 AAATAAAAACTCTTGCAAA
*
45501962 AAATAAAACCTCTT-CAAA
1 AAATAAAAACTCTTGCAAA
45501980 A
1 A
45501981 CAAGTCTCGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.58, C:0.16, G:0.03, T:0.24
Consensus pattern (19 bp):
AAATAAAAACTCTTGCAAA
Found at i:45508226 original size:2 final size:2
Alignment explanation
Indices: 45508221--45508245 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
45508211 ATTAGGTATT
45508221 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
45508246 TATCACCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:45512828 original size:23 final size:23
Alignment explanation
Indices: 45512798--45512841 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
45512788 TTGGTTTGGT
*
45512798 TTTTAAAA-ATATTTTCTATTTTA
1 TTTTAAAATA-ATTTTATATTTTA
45512821 TTTTAAAATAATTTTATATTT
1 TTTTAAAATAATTTTATATTT
45512842 GAAAAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (23 bp):
TTTTAAAATAATTTTATATTTTA
Found at i:45512836 original size:16 final size:18
Alignment explanation
Indices: 45512815--45512852 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
45512805 AATATTTTCT
*
45512815 ATTTTAT-TTT-AAAATA
1 ATTTTATATTTGAAAAAA
45512831 ATTTTATATTTGAAAAAA
1 ATTTTATATTTGAAAAAA
45512849 ATTT
1 ATTT
45512853 AAAAAAACAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 3 0.16
18 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
ATTTTATATTTGAAAAAA
Found at i:45513111 original size:2 final size:2
Alignment explanation
Indices: 45513104--45513148 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
45513094 CTACATTTAT
45513104 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
45513146 TA T
1 TA T
45513149 TTCCTGAAAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Done.