Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 41 of 318
Found at i:11519899 original size:45 final size:46
Alignment explanation
Indices: 11519838--11519925 Score: 142
Period size: 45 Copynumber: 1.9 Consensus size: 46
11519828 TAAAATCACC
* * *
11519838 AAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGATTTTAT
1 AAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTTAT
11519884 AAAATA-CCCTAGTTTGTAAAATTACCAAAATACCCCTGATTT
1 AAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTT
11519926 GTGAAATTAC
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 33 0.85
46 6 0.15
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.34
Consensus pattern (46 bp):
AAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTTAT
Found at i:11519904 original size:72 final size:73
Alignment explanation
Indices: 11519810--11519946 Score: 222
Period size: 72 Copynumber: 1.9 Consensus size: 73
11519800 GTAAAATTAC
* *
11519810 TAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCT
1 TAAAATACCCTTAGTTTATAAAATCACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCT
11519875 TGATTTTA
66 TGATTTTA
* * *
11519883 TAAAATACCC-TAGTTTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTACTAAAATACCCT
1 TAAAATACCCTTAGTTTATAAAATCACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCT
11519947 CGACCTGTAA
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
72 49 0.83
73 10 0.17
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (73 bp):
TAAAATACCCTTAGTTTATAAAATCACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCT
TGATTTTA
Found at i:11519905 original size:17 final size:19
Alignment explanation
Indices: 11519864--11519905 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
11519854 GTAAAATTAC
*
11519864 TAAAATACCCTTGATTTTA
1 TAAAATACCCTTGAGTTTA
*
11519883 TAAAATACCC-T-AGTTTG
1 TAAAATACCCTTGAGTTTA
11519900 TAAAAT
1 TAAAAT
11519906 TACCAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 10 0.48
18 1 0.05
19 10 0.48
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.38
Consensus pattern (19 bp):
TAAAATACCCTTGAGTTTA
Found at i:11519956 original size:99 final size:100
Alignment explanation
Indices: 11519784--11519973 Score: 240
Period size: 99 Copynumber: 1.9 Consensus size: 100
11519774 TAAAATCACC
* * * *
11519784 AAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCT
1 AAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTATAAAATCACCAAAATACCCCT
***
11519849 GGTTTGTAAAATTACTAAAATACCCTTGATTTTAT
66 GACCTGTAAAATTACTAAAATACCCTTGATTTTAT
* * * *
11519884 AAAATA-CCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTACTAAAATA-CCCT
1 AAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTATAAAATCACCAAAATACCCCT
* *
11519947 CGACCTGTAAAATTATTGAAATACCCT
66 -GACCTGTAAAATTACTAAAATACCCT
11519974 CGACTTGTAA
Statistics
Matches: 76, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
98 4 0.05
99 66 0.87
100 6 0.08
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (100 bp):
AAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTATAAAATCACCAAAATACCCCT
GACCTGTAAAATTACTAAAATACCCTTGATTTTAT
Found at i:11519969 original size:126 final size:127
Alignment explanation
Indices: 11519756--11520006 Score: 308
Period size: 126 Copynumber: 2.0 Consensus size: 127
11519746 GTAAAATTAC
* *
11519756 TAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCT
1 TAAAATACCCTTAGTTTATAAAATCACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCT
* *** ** * *
11519821 TGGTTTATAAAATCACCAAAATACCC-CTGGTTTGTAAAATTACTAAAATACCCTTGATTTTA
66 CGACCTATAAAATCACCAAAATACCCTC-GACTTGTAAAACTACCAAAATACCCTTGATTTTA
* * *
11519883 TAAAATACCC-TAGTTTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTACTAAAATACCCT
1 TAAAATACCCTTAGTTTATAAAATCACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCT
* * *** *
11519947 CGACCTGTAAAATTATTGAAATACCCTCGACTTGTAAAACTACCAAAGTACCCTTGATTT
66 CGACCTATAAAATCACCAAAATACCCTCGACTTGTAAAACTACCAAAATACCCTTGATTT
11520007 ACAAAATTAT
Statistics
Matches: 104, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
126 93 0.89
127 11 0.11
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (127 bp):
TAAAATACCCTTAGTTTATAAAATCACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCT
CGACCTATAAAATCACCAAAATACCCTCGACTTGTAAAACTACCAAAATACCCTTGATTTTA
Found at i:11520052 original size:27 final size:27
Alignment explanation
Indices: 11519955--11520054 Score: 85
Period size: 27 Copynumber: 3.7 Consensus size: 27
11519945 CTCGACCTGT
* * **
11519955 AAAATTATTGAAATACCCTCGACTTGT
1 AAAATTATCGAAATACCCTCGATTTAC
* * *
11519982 AAAACTA-CCAAAGTACCCTTGATTTAC
1 AAAATTATCGAAA-TACCCTCGATTTAC
* ***
11520009 AAAATTATTGTTTTACCCTCGATTTAC
1 AAAATTATCGAAATACCCTCGATTTAC
11520036 AAAATTATCGAAATACCCT
1 AAAATTATCGAAATACCCT
11520055 TGTAGGGTAG
Statistics
Matches: 53, Mismatches: 18, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
26 3 0.06
27 50 0.94
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (27 bp):
AAAATTATCGAAATACCCTCGATTTAC
Found at i:11520074 original size:27 final size:27
Alignment explanation
Indices: 11520038--11520502 Score: 531
Period size: 27 Copynumber: 17.3 Consensus size: 27
11520028 CGATTTACAA
* *
11520038 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
11520065 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
11520092 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
11520119 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
11520146 AATTACCGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* **
11520173 AATTACCAAAATACCATTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* ** * *
11520200 AACTACTAAAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
11520227 AATTATCGAAATACCCCTGTAAGGTAC
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
11520254 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
11520281 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
11520308 AATTACTAAAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* **
11520335 AATTATCG-AATACCCCTGTAATGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
11520361 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
11520388 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
11520415 AATTACCGAAATACCCTTGTAGGGTAGG
1 AATTACCGAAATACCCCTGTAGGGTA-G
* *
11520443 AA-TACTGATATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
11520469 AATTGCCGAGAA-ACCCTTGTGGGGTAA
1 AATTACCGA-AATACCCCTGTAGGGTAG
11520496 AATTACC
1 AATTACC
11520503 ATTTTACCCT
Statistics
Matches: 381, Mismatches: 53, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
26 25 0.07
27 352 0.92
28 4 0.01
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:11520941 original size:6 final size:6
Alignment explanation
Indices: 11520904--11521015 Score: 68
Period size: 6 Copynumber: 18.3 Consensus size: 6
11520894 TTGCATTCCC
* * * *
11520904 ATTCTA ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * * *
11520953 -TCACCTA ATTTTG ATTTTG ATTCTG ATTCTG ATTCTG ATTTTG ATTTTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
11521002 ATTCT- AGTTCTG AT
1 ATTCTG A-TTCTG AT
11521016 AATGTTTCTT
Statistics
Matches: 83, Mismatches: 15, Indels: 16
0.73 0.13 0.14
Matches are distributed among these distances:
5 4 0.05
6 71 0.86
7 6 0.07
8 2 0.02
ACGTcount: A:0.20, C:0.13, G:0.14, T:0.53
Consensus pattern (6 bp):
ATTCTG
Found at i:11520945 original size:31 final size:31
Alignment explanation
Indices: 11520904--11521006 Score: 105
Period size: 31 Copynumber: 3.5 Consensus size: 31
11520894 TTGCATTCCC
*
11520904 ATTCTAATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
11520935 ATTCTGATTTTGATTCTGTCACCT-A-A-T-
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
11520962 -TT-TGATTTTGATTCTGATT--CTGATTCTG
1 ATTCTGATTTTGATTCTG-TTACCTGATACTG
*
11520990 ATTTTGATTTTGATTCT
1 ATTCTGATTTTGATTCT
11521007 AGTTCTGATA
Statistics
Matches: 61, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
24 2 0.03
25 15 0.25
26 3 0.05
27 1 0.02
28 1 0.02
29 3 0.05
30 14 0.23
31 22 0.36
ACGTcount: A:0.19, C:0.14, G:0.14, T:0.53
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:11525918 original size:22 final size:22
Alignment explanation
Indices: 11525874--11525925 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
11525864 ATAAGTTACA
* *
11525874 TTCATATAAATAAATAAATAAT
1 TTCATATAAATAAAAAAACAAT
11525896 TTCAT-TAAATAAAAAACACAAT
1 TTCATATAAATAAAAAA-ACAAT
11525918 TTCA-ATAA
1 TTCATATAA
11525926 TCATAATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 10 0.38
22 16 0.62
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.33
Consensus pattern (22 bp):
TTCATATAAATAAAAAAACAAT
Found at i:11526036 original size:20 final size:20
Alignment explanation
Indices: 11526011--11526055 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
11526001 TCAAAACTTA
11526011 TTACATAACTTAATAAGTAC
1 TTACATAACTTAATAAGTAC
11526031 TTACATAACTTAATAAGTAC
1 TTACATAACTTAATAAGTAC
11526051 TTACA
1 TTACA
11526056 CATTCAACCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.44, C:0.16, G:0.04, T:0.36
Consensus pattern (20 bp):
TTACATAACTTAATAAGTAC
Found at i:11527268 original size:35 final size:35
Alignment explanation
Indices: 11527213--11527328 Score: 142
Period size: 35 Copynumber: 3.3 Consensus size: 35
11527203 TGTATGGCCA
* * *
11527213 AATAAACAAGGTTCATTATATCATCACATATCGCCG
1 AATATACAA-GTTCAATATATCATCACATATAGCCG
* *
11527249 AATATACAAGTTCAATATATCATCATATATGGCCG
1 AATATACAAGTTCAATATATCATCACATATAGCCG
* * * *
11527284 AATATACAAGTTCAATAAAACATCACATGTAGCCA
1 AATATACAAGTTCAATATATCATCACATATAGCCG
11527319 AATATACAAG
1 AATATACAAG
11527329 GTCATTTAGA
Statistics
Matches: 70, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
35 62 0.89
36 8 0.11
ACGTcount: A:0.44, C:0.19, G:0.10, T:0.27
Consensus pattern (35 bp):
AATATACAAGTTCAATATATCATCACATATAGCCG
Found at i:11528106 original size:30 final size:29
Alignment explanation
Indices: 11528072--11528136 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 29
11528062 ATACTCATAC
*
11528072 TAGTCCAT-ATATTTCATTTATTTTT-CATTT
1 TAGTCCATCA-ATTT-A-TTATTTTTACAATT
*
11528102 TAGTCCTTCAATTTATTATTTTTACAATT
1 TAGTCCATCAATTTATTATTTTTACAATT
11528131 TAGTCC
1 TAGTCC
11528137 TAATAATTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 8 0.26
29 11 0.35
30 11 0.35
31 1 0.03
ACGTcount: A:0.25, C:0.15, G:0.05, T:0.55
Consensus pattern (29 bp):
TAGTCCATCAATTTATTATTTTTACAATT
Found at i:11530377 original size:200 final size:200
Alignment explanation
Indices: 11530025--11530414 Score: 678
Period size: 200 Copynumber: 1.9 Consensus size: 200
11530015 ATTACCTGAT
11530025 TTAGCTTACTAATTCGAGGCATAAAAATTTGATTTTAAAATTAATTTAGTTTCATTCATTCAATA
1 TTAGCTTACTAATTCGAGGCATAAAAATTTGATTTTAAAATTAATTTAGTTTCATTCATTCAATA
* *
11530090 TGTCCTTAAAAAGGTTTCTCAGGACCCTAAAAAATGAAATTGAAATAGTTCAGGGACAAATCGGA
66 TGTCCTTAAAAAGGGTCCTCAGGACCCTAAAAAATGAAATTGAAATAGTTCAGGGACAAATCGGA
* *
11530155 ATCAATAAAAATTTTTCGATCACTTAAACAAATCAAAACAATTTATTTCATCTTTCATAAATAAA
131 ATCAATAAAAAATTTCCGATCACTTAAACAAATCAAAACAATTTATTTCATCTTTCATAAATAAA
11530220 ATGTC
196 ATGTC
*
11530225 TTAGCTTACTAATTCGAGGCATAAAAATTTGCTTTTAAAATTAATTTAGTTTCATTCATTCAATA
1 TTAGCTTACTAATTCGAGGCATAAAAATTTGATTTTAAAATTAATTTAGTTTCATTCATTCAATA
*
11530290 TGTCCTTAAAAAGGGTCCTC-GAGACCCTAAAACATGAAATTGAAATAGTTC-GGGAACAAA-CT
66 TGTCCTTAAAAAGGGTCCTCAG-GACCCTAAAAAATGAAATTGAAATAGTTCAGGG-ACAAATC-
11530352 GGAATCAATAAAAAATTTCCGATCACTTAAACAAATCAAAACAATTTATTTCATCTTTCATAA
128 GGAATCAATAAAAAATTTCCGATCACTTAAACAAATCAAAACAATTTATTTCATCTTTCATAA
11530415 TGTCCATCTG
Statistics
Matches: 181, Mismatches: 6, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
199 5 0.03
200 176 0.97
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.34
Consensus pattern (200 bp):
TTAGCTTACTAATTCGAGGCATAAAAATTTGATTTTAAAATTAATTTAGTTTCATTCATTCAATA
TGTCCTTAAAAAGGGTCCTCAGGACCCTAAAAAATGAAATTGAAATAGTTCAGGGACAAATCGGA
ATCAATAAAAAATTTCCGATCACTTAAACAAATCAAAACAATTTATTTCATCTTTCATAAATAAA
ATGTC
Found at i:11531370 original size:16 final size:16
Alignment explanation
Indices: 11531351--11531381 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11531341 CTTCTTCACT
11531351 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
11531367 TACTTACTTACTTAA
1 TACTCACTTACTTAA
11531382 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:11531387 original size:20 final size:20
Alignment explanation
Indices: 11531348--11531387 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
11531338 AAACTTCTTC
* *
11531348 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
11531368 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
11531388 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:11531702 original size:53 final size:54
Alignment explanation
Indices: 11531573--11531827 Score: 258
Period size: 55 Copynumber: 4.8 Consensus size: 54
11531563 ACATGGGTAC
* * * * *
11531573 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTA---TT--CTTTTGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
*
11531622 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * *
11531675 CTCACCAATGCCATG-CATTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGTC-TTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* * *
11531730 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * *
11531783 CCTTACCAATTTCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGTATCCTT
11531828 AAACCCTAAT
Statistics
Matches: 172, Mismatches: 21, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
49 35 0.20
52 5 0.03
53 46 0.27
54 13 0.08
55 70 0.41
56 3 0.02
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (54 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:11531764 original size:108 final size:110
Alignment explanation
Indices: 11531620--11531820 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
11531610 ATTCTTTTGA
* *
11531620 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
11531683 -TGCCATGCATTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCATTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
11531728 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
* *
11531793 TTCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCATTGGCATGGTCTTACATGG
11531821 TATCCTTAAA
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.59
109 7 0.08
110 26 0.31
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCATTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:11532213 original size:29 final size:30
Alignment explanation
Indices: 11532167--11532224 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
11532157 TCCTTGACTC
11532167 AAACTTTGGCAAAATTACA-TTTTGCCCCT
1 AAACTTTGGCAAAATTACACTTTTGCCCCT
* * * *
11532196 AAACTTTTGCATATTTACACTTTTTCCCC
1 AAACTTTGGCAAAATTACACTTTTGCCCC
11532225 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.28, C:0.26, G:0.07, T:0.40
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACACTTTTGCCCCT
Found at i:11533191 original size:33 final size:32
Alignment explanation
Indices: 11533117--11533208 Score: 85
Period size: 33 Copynumber: 2.8 Consensus size: 32
11533107 TTAGGGCCAT
* * * *
11533117 AGCCCATATCAATAATAGTAGCAGTCTGGGCCTG
1 AGCCCATTTCAATAACAGTA-CAGT-GGGGCCTA
*
11533151 AGCCCATTTCAATAACAGTATCAGTGGGGTCTA
1 AGCCCATTTCAATAACAGTA-CAGTGGGGCCTA
* * *
11533184 AGCCCATTACAGTATCAGTACAGTG
1 AGCCCATTTCAATAACAGTACAGTG
11533209 TGCAATCAAA
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
32 5 0.10
33 22 0.45
34 22 0.45
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (32 bp):
AGCCCATTTCAATAACAGTACAGTGGGGCCTA
Found at i:11534384 original size:13 final size:13
Alignment explanation
Indices: 11534364--11534395 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
11534354 AGTCGATAGA
11534364 AAAAGAATGAGTG
1 AAAAGAATGAGTG
*
11534377 AGAAGAATGAGTG
1 AAAAGAATGAGTG
11534390 AAAAGA
1 AAAAGA
11534396 TCACTTGTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.31, T:0.12
Consensus pattern (13 bp):
AAAAGAATGAGTG
Found at i:11534518 original size:176 final size:176
Alignment explanation
Indices: 11534209--11534529 Score: 543
Period size: 176 Copynumber: 1.8 Consensus size: 176
11534199 AACTTACTAC
* *
11534209 GAGTGAAAAGATCACTTGTTGGGAAAGAATAATTGGCCTAACCTCTTGACTATTAAGATCAAGCC
1 GAGTGAAAAGATCACTTGTTGGGAAAGAATAATCGGCCTAACCCCTTGACTATTAAGATCAAGCC
* * * *
11534274 CCTAGCAACAATCGGCAGAACCACAGTGTTAAATGAAATTCATCAGGGTGGAATGATGAATGAGT
66 CCTAACAACAATCGGCAGAACCACAGTGTTAAATGAAATTCATCAGGATGAAATGAAGAATGAGT
11534339 GAGAAGGATACATTCAGTCGATAGAAAAAGAATGAGTGAGAAGAAT
131 GAGAAGGATACATTCAGTCGATAGAAAAAGAATGAGTGAGAAGAAT
* *
11534385 GAGTGAAAAGATCACTTGTTGGGAAAGAATAATCGGCCTAACCCCTTGACTATTGAGATCGAGCC
1 GAGTGAAAAGATCACTTGTTGGGAAAGAATAATCGGCCTAACCCCTTGACTATTAAGATCAAGCC
* * *
11534450 CCTAACAACAATTGGCAGAACCACAGTGTTAAATGACATTCATCAGGATGAAATGAAGAATTAGT
66 CCTAACAACAATCGGCAGAACCACAGTGTTAAATGAAATTCATCAGGATGAAATGAAGAATGAGT
11534515 GAGAAGGATACATTC
131 GAGAAGGATACATTC
11534530 GACCCACAAA
Statistics
Matches: 134, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
176 134 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.22
Consensus pattern (176 bp):
GAGTGAAAAGATCACTTGTTGGGAAAGAATAATCGGCCTAACCCCTTGACTATTAAGATCAAGCC
CCTAACAACAATCGGCAGAACCACAGTGTTAAATGAAATTCATCAGGATGAAATGAAGAATGAGT
GAGAAGGATACATTCAGTCGATAGAAAAAGAATGAGTGAGAAGAAT
Found at i:11536977 original size:129 final size:128
Alignment explanation
Indices: 11536746--11536991 Score: 334
Period size: 129 Copynumber: 1.9 Consensus size: 128
11536736 TGAAAAAGCG
11536746 CCGCTATAGAACGTGGCCGTTAACGATGCTTTTCCCACAAAGCTGCTATAGAACATGGCCTTTAG
1 CCGCTATAGAACGTGGCCGTTAACGATGCTTTTCCCACAAAGCTGCTATAGAACATGGCCTTTAG
** * *** *
11536811 CAGTGCTTTTCCCACAAATTTCATTATAGAACATGGCCTTTAGCGACGCTTTTCCCACCAACA
66 CAGCACTTTCCCCACAAACACCACTATAGAACATGGCCTTTAGCGACGCTTTTCCCACCAACA
* **
11536874 CCGCTATAGAACGTGGCCTTTAGGGATGCTTTTCCCACAAATG-TCGCTATAGAACATGGCCTTT
1 CCGCTATAGAACGTGGCCGTTAACGATGCTTTTCCCACAAA-GCT-GCTATAGAACATGGCCTTT
* * *
11536938 AGC-GACACTTTCCCCACAAACACCGCTATAGAACGTGGCCTTTAGCGGCGCTTT
64 AGCAG-CACTTTCCCCACAAACACCACTATAGAACATGGCCTTTAGCGACGCTTT
11536992 CACCAAAAAA
Statistics
Matches: 102, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
128 40 0.39
129 62 0.61
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (128 bp):
CCGCTATAGAACGTGGCCGTTAACGATGCTTTTCCCACAAAGCTGCTATAGAACATGGCCTTTAG
CAGCACTTTCCCCACAAACACCACTATAGAACATGGCCTTTAGCGACGCTTTTCCCACCAACA
Found at i:11536991 original size:86 final size:86
Alignment explanation
Indices: 11536747--11536991 Score: 332
Period size: 86 Copynumber: 2.9 Consensus size: 86
11536737 GAAAAAGCGC
* * * * * * *
11536747 CGCTATAGAACGTGGCCGTTAACGATGCTTTTCCCACAAA-GCTGCTATAGAACATGGCCTTTAG
1 CGCTATAGAACATGGCCTTTAGCGACGCTTTTCCCACAAACACCGCTATAGAACGTGGCCTTTAG
* *
11536811 CAGTGCTTTTCCCACAAATTT
66 CGGTGCTTTTCCCACAAATGT
** *
11536832 CATTATAGAACATGGCCTTTAGCGACGCTTTTCCCACCAACACCGCTATAGAACGTGGCCTTTAG
1 CGCTATAGAACATGGCCTTTAGCGACGCTTTTCCCACAAACACCGCTATAGAACGTGGCCTTTAG
11536897 -GGATGCTTTTCCCACAAATGT
66 CGG-TGCTTTTCCCACAAATGT
* *
11536918 CGCTATAGAACATGGCCTTTAGCGACACTTTCCCCACAAACACCGCTATAGAACGTGGCCTTTAG
1 CGCTATAGAACATGGCCTTTAGCGACGCTTTTCCCACAAACACCGCTATAGAACGTGGCCTTTAG
*
11536983 CGGCGCTTT
66 CGGTGCTTT
11536992 CACCAAAAAA
Statistics
Matches: 139, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
85 34 0.24
86 103 0.74
87 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (86 bp):
CGCTATAGAACATGGCCTTTAGCGACGCTTTTCCCACAAACACCGCTATAGAACGTGGCCTTTAG
CGGTGCTTTTCCCACAAATGT
Found at i:11536992 original size:43 final size:43
Alignment explanation
Indices: 11536746--11536991 Score: 262
Period size: 43 Copynumber: 5.7 Consensus size: 43
11536736 TGAAAAAGCG
* * * * *
11536746 CCGCTATAGAACGTGGCCGTTAACGATGCTTTTCCCACAAA-G
1 CCGCTATAGAACATGGCCTTTAGCGACGCTTTTCCCACAAACA
* * **
11536788 CTGCTATAGAACATGGCCTTTAGC-AGTGCTTTTCCCACAAATT
1 CCGCTATAGAACATGGCCTTTAGCGA-CGCTTTTCCCACAAACA
* ** *
11536831 TCATTATAGAACATGGCCTTTAGCGACGCTTTTCCCACCAACA
1 CCGCTATAGAACATGGCCTTTAGCGACGCTTTTCCCACAAACA
* * * **
11536874 CCGCTATAGAACGTGGCCTTTAGGGATGCTTTTCCCACAAATG
1 CCGCTATAGAACATGGCCTTTAGCGACGCTTTTCCCACAAACA
* * *
11536917 TCGCTATAGAACATGGCCTTTAGCGACACTTTCCCCACAAACA
1 CCGCTATAGAACATGGCCTTTAGCGACGCTTTTCCCACAAACA
* *
11536960 CCGCTATAGAACGTGGCCTTTAGCGGCGCTTT
1 CCGCTATAGAACATGGCCTTTAGCGACGCTTT
11536992 CACCAAAAAA
Statistics
Matches: 167, Mismatches: 34, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
41 1 0.01
42 35 0.21
43 130 0.78
44 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (43 bp):
CCGCTATAGAACATGGCCTTTAGCGACGCTTTTCCCACAAACA
Found at i:11537309 original size:21 final size:21
Alignment explanation
Indices: 11537285--11537334 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
11537275 TTCTGCTTTA
* *
11537285 CTCTGCTTCCCTT-GTTGCTAC
1 CTCTGCTT-CCTTCGCTACTAC
11537306 CTCTGCTTCCTTCGCTACTAC
1 CTCTGCTTCCTTCGCTACTAC
11537327 CTCTGCTT
1 CTCTGCTT
11537335 TAAGTTGTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.06, C:0.40, G:0.12, T:0.42
Consensus pattern (21 bp):
CTCTGCTTCCTTCGCTACTAC
Found at i:11537797 original size:13 final size:14
Alignment explanation
Indices: 11537771--11537799 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
11537761 ACAAGCTACG
11537771 AATTAAACCATTAT
1 AATTAAACCATTAT
11537785 AATTAAA-CATTAT
1 AATTAAACCATTAT
11537798 AA
1 AA
11537800 ATGTTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:11540209 original size:47 final size:47
Alignment explanation
Indices: 11540139--11540356 Score: 221
Period size: 48 Copynumber: 4.6 Consensus size: 47
11540129 ATGGATGTGT
11540139 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATA-ATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATAGATGAGA
* *
11540185 GCTAGTGTAAGATCATGTCTGGGACATGGCATCGG-CA-TTAAGACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACAT-AGATGAGA
* * *
11540233 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATGCA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATAGATG-AGA
* * * * *
11540281 GCTAGTGTAAGTCCTGTCTGAGACATGGCATC-GACATTGATAGATGAGA
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCA--CATAGATGAGA
* *
11540330 GCCAGTGTAAGACCTGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
11540357 GAATCGACTT
Statistics
Matches: 142, Mismatches: 18, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
46 20 0.14
47 32 0.23
48 55 0.39
49 35 0.25
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATAGATGAGA
Found at i:11540235 original size:48 final size:48
Alignment explanation
Indices: 11540139--11540464 Score: 267
Period size: 49 Copynumber: 6.8 Consensus size: 48
11540129 ATGGATGTGT
11540139 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCA-CATA-ATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGG-CATCATAGATGAGA
* *
11540185 GCTAGTGTAAGATCATGTCTGGGACATGGCATCGGCATTA-AGACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGCATCATAGATGAGA
* * *
11540233 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATATGCA-A
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCATC-ATAGATG-AGA
* * * * *
11540281 GCTAGTGTAAGTCCTGTCTGAGACATGGCATCGACATTGATAGATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCA-TCATAGATGAGA
* * * * * * *
11540330 GCCAGTGTAAGACCTGTCTGGGACATGGAATCGACTTCGATATATGAAA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCATC-ATAGATGAGA
* * *
11540379 G-TCAATGTAAGACCTGTCTGAGACATGGCATC-G-A-CATAGATGAGTGA
1 GCT-AGTGTAAGACATGTCTGGGACATGGCATCGGCATCATAGATGA--GA
* * * * *
11540426 GCCAATATAAGACCATGTTTGGAACATGGCATCGGCATC
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGCATC
11540465 GTACCCTATG
Statistics
Matches: 225, Mismatches: 36, Indels: 33
0.77 0.12 0.11
Matches are distributed among these distances:
45 7 0.03
46 22 0.10
47 42 0.19
48 70 0.31
49 81 0.36
50 2 0.01
51 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCATCATAGATGAGA
Found at i:11540408 original size:98 final size:97
Alignment explanation
Indices: 11540142--11540459 Score: 319
Period size: 98 Copynumber: 3.3 Consensus size: 97
11540132 GATGTGTGCT
* * * * * * *
11540142 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCAC-ATA-ATGAGAGCTAGTGTAAGATCATGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGAGATATGAAAGCTAATGTAAGA-CCTGTC
* * *
11540204 TGGGACATGGCATCGGCATT-A-AGACGAGAGCT
65 TGAGACATGGCATCGACATTGATAGA-GAGAGCC
* * * * *
11540236 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATATGCAAGCTAGTGTAAGTCCTGTCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGAGATATGAAAGCTAATGTAAGACCTGTCT
11540300 GAGACATGGCATCGACATTGATAGATGAGAGCC
66 GAGACATGGCATCGACATTGATAGA-GAGAGCC
* * *
11540333 AGTGTAAGACCTGTCTGGGACATGGAATCGACTTCGATATATGAAAG-TCAATGTAAGACCTGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGAGATATGAAAGCT-AATGTAAGACCTGTC
* *
11540397 TGAGACATGGCATCGACATAGAT-GAGTGAGCC
65 TGAGACATGGCATCGACATTGATAGAGAGAGCC
* * * *
11540429 AATATAAGACCATGTTTGGAACATGGCATCG
1 AGTGTAAGACC-TGTCTGGGACATGGCATCG
11540460 GCATCGTACC
Statistics
Matches: 192, Mismatches: 25, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
94 33 0.17
95 25 0.13
96 31 0.16
97 50 0.26
98 53 0.28
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (97 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGAGATATGAAAGCTAATGTAAGACCTGTCT
GAGACATGGCATCGACATTGATAGAGAGAGCC
Found at i:11543769 original size:40 final size:40
Alignment explanation
Indices: 11543692--11543908 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
11543682 AAACCAAGTA
** * *
11543692 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTAGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
11543731 CCTTCGGGACTTAACCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
11543771 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
11543811 CCTTCGGGACTTAGCCCGGATATAGTAACTTGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
11543851 CCTTCGGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAATA
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
11543890 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
11543909 GTATCAATCC
Statistics
Matches: 160, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
38 1 0.01
39 45 0.28
40 114 0.71
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:11546782 original size:114 final size:114
Alignment explanation
Indices: 11546582--11546808 Score: 427
Period size: 114 Copynumber: 2.0 Consensus size: 114
11546572 AAGTCCGTAC
*
11546582 TACTCCACATTTCCCTCAATAGGATTACTGTCCCTAGCACTAGCATAACTTGTAATTGAAGAATT
1 TACTCCACATTTCCCTCAATAGGATTACTATCCCTAGCACTAGCATAACTTGTAATTGAAGAATT
*
11546647 AACGACTATTCCACAATTTTGAGTCTTCCTCAATCTTTCGCGACATTTA
66 AACGACTATTCCACAATTTTGAGTCCTCCTCAATCTTTCGCGACATTTA
11546696 TACTCCACATTTCCCTCAATAGGATTACTATCCCTAGCACTAGCATAACTTGTAATTGAAGAATT
1 TACTCCACATTTCCCTCAATAGGATTACTATCCCTAGCACTAGCATAACTTGTAATTGAAGAATT
*
11546761 AACGACTATTCCACAATTTTGAGTCCTCCTCAATCTTTCGTGACATTT
66 AACGACTATTCCACAATTTTGAGTCCTCCTCAATCTTTCGCGACATTT
11546809 TGTATGAAAC
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
114 110 1.00
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.34
Consensus pattern (114 bp):
TACTCCACATTTCCCTCAATAGGATTACTATCCCTAGCACTAGCATAACTTGTAATTGAAGAATT
AACGACTATTCCACAATTTTGAGTCCTCCTCAATCTTTCGCGACATTTA
Found at i:11550119 original size:9 final size:9
Alignment explanation
Indices: 11550107--11550196 Score: 85
Period size: 9 Copynumber: 10.0 Consensus size: 9
11550097 GGGTGTAAAC
11550107 TATGTAAGT
1 TATGTAAGT
11550116 TATGTAAGT
1 TATGTAAGT
*
11550125 TATGTAAAT
1 TATGTAAGT
* *
11550134 TATGATATGA
1 TATG-TAAGT
* *
11550144 TATAT-ATT
1 TATGTAAGT
*
11550152 TATGTACGT
1 TATGTAAGT
11550161 TATGTTAA-T
1 TATG-TAAGT
*
11550170 TATGTATGT
1 TATGTAAGT
11550179 TATGTAAGT
1 TATGTAAGT
11550188 TATGTAAGT
1 TATGTAAGT
11550197 CCATAGATAT
Statistics
Matches: 63, Mismatches: 14, Indels: 8
0.74 0.16 0.09
Matches are distributed among these distances:
8 6 0.10
9 50 0.79
10 7 0.11
ACGTcount: A:0.33, C:0.01, G:0.18, T:0.48
Consensus pattern (9 bp):
TATGTAAGT
Found at i:11550227 original size:63 final size:62
Alignment explanation
Indices: 11550107--11550228 Score: 183
Period size: 63 Copynumber: 1.9 Consensus size: 62
11550097 GGGTGTAAAC
*
11550107 TATGTAAGTTATGTAAGTTATGTAAATTATGATATGATATATATTTATGTACGTTATGTTAAT
1 TATGTAAGTTATGTAAGTTATGTAAATCATGATATGATATATATTTATGTAC-TTATGTTAAT
* *
11550170 TATGTATGTTATGTAAGTTATGTAAGTCCATAGATATGATATATATTTATGTA-TTATGT
1 TATGTAAGTTATGTAAGTTATGTAAAT-CAT-GATATGATATATATTTATGTACTTATGT
11550229 GAGTTATGAT
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
63 31 0.57
64 2 0.04
65 21 0.39
ACGTcount: A:0.34, C:0.02, G:0.16, T:0.48
Consensus pattern (62 bp):
TATGTAAGTTATGTAAGTTATGTAAATCATGATATGATATATATTTATGTACTTATGTTAAT
Found at i:11560202 original size:40 final size:40
Alignment explanation
Indices: 11560157--11560323 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
11560147 CGGAATATAA
11560157 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
11560197 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
11560237 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
11560277 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
11560316 CCGGATAT
1 CCGGATAT
11560324 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:11560307 original size:80 final size:79
Alignment explanation
Indices: 11560157--11560323 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
11560147 CGGAATATAA
* *
11560157 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
11560222 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
11560237 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
11560299 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
11560316 CCGGATAT
1 CCGGATAT
11560324 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:11561171 original size:17 final size:19
Alignment explanation
Indices: 11561148--11561193 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
11561138 AAGAAGCATG
11561148 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
11561166 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
11561184 AATCATGCTC
1 AATCATGCTC
11561194 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:11568201 original size:40 final size:40
Alignment explanation
Indices: 11568156--11568322 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
11568146 CGGAATATAA
11568156 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
11568196 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
11568236 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
11568276 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
11568315 CCGGATAT
1 CCGGATAT
11568323 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:11568306 original size:80 final size:79
Alignment explanation
Indices: 11568156--11568322 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
11568146 CGGAATATAA
* *
11568156 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
11568221 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
11568236 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
11568298 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
11568315 CCGGATAT
1 CCGGATAT
11568323 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:11569170 original size:17 final size:19
Alignment explanation
Indices: 11569147--11569192 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
11569137 AAGAAGCATG
11569147 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
11569165 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
11569183 AATCATGCTC
1 AATCATGCTC
11569193 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:11572178 original size:41 final size:41
Alignment explanation
Indices: 11572133--11572333 Score: 262
Period size: 41 Copynumber: 4.9 Consensus size: 41
11572123 CATTTGGAAA
* * * *
11572133 AAAAATGCCACTATTTCTCAACGTTTT-GCGGCATTTCGACC
1 AAAAACGCCACTATTGCTCAAC-TTTTAGCGGCGTTTTGACC
11572174 AAAAACGCCACTATTGCTCAACTTTTAGCGGCGTTTTGACC
1 AAAAACGCCACTATTGCTCAACTTTTAGCGGCGTTTTGACC
* *
11572215 AAAAACGCCACTATTGCTCAACTTTTAGTGGCGTTTTGTCCC
1 AAAAACGCCACTATTGCTCAACTTTTAGCGGCGTTTTG-ACC
* * * *
11572257 AAAAA-GCCATTATTGCTCAACTTTTAACGGTGTTTTGTCC
1 AAAAACGCCACTATTGCTCAACTTTTAGCGGCGTTTTGACC
* *
11572297 AAAAACGCCACTATTGCTCAACTTTTTGCTGCGTTTT
1 AAAAACGCCACTATTGCTCAACTTTTAGCGGCGTTTT
11572334 TTGTCCAAAC
Statistics
Matches: 141, Mismatches: 16, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
40 11 0.08
41 123 0.87
42 7 0.05
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (41 bp):
AAAAACGCCACTATTGCTCAACTTTTAGCGGCGTTTTGACC
Found at i:11577739 original size:2 final size:2
Alignment explanation
Indices: 11577732--11577758 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11577722 TCGATCGGAG
11577732 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
11577759 GTACGCACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11577881 original size:29 final size:29
Alignment explanation
Indices: 11577857--11577950 Score: 170
Period size: 29 Copynumber: 3.2 Consensus size: 29
11577847 TCGCACACCC
*
11577857 AGTGCCGTATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
11577886 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
*
11577915 AGTGCCATATATTTCCAGCACGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
11577944 AGTGCCA
1 AGTGCCA
11577951 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 63 1.00
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.29
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:11577882 original size:58 final size:58
Alignment explanation
Indices: 11577819--11577950 Score: 167
Period size: 58 Copynumber: 2.3 Consensus size: 58
11577809 GATTTAAGCC
* * * *
11577819 CGCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCA
* * * **
11577877 TGCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
11577935 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
11577951 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
58 62 0.98
59 1 0.02
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.25
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
Found at i:11581910 original size:78 final size:80
Alignment explanation
Indices: 11581820--11581970 Score: 200
Period size: 78 Copynumber: 1.9 Consensus size: 80
11581810 GATTATAGCG
* * * * *
11581820 ACTCGCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCCCAATGCCTTCGGG-CT
1 ACTCGCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACT
11581882 TAGCCCGGATTTATTA
65 TAGCCCGGATTTATTA
** *
11581898 ACTCGCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
11581963 AGCCCGGA
66 AGCCCGGA
11581971 CATCATTCGA
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
77 3 0.05
78 34 0.55
79 14 0.23
80 11 0.18
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
AGCCCGGATTTATTA
Found at i:11581911 original size:39 final size:40
Alignment explanation
Indices: 11581780--11581970 Score: 167
Period size: 40 Copynumber: 4.8 Consensus size: 40
11581770 GGATATAACG
* * ** **
11581780 ACTCGCTCAAATGCCTTCGGGACGAAGCCC-GATTATAGCG
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
11581820 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * *
11581860 ACTTGC-CCAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * * *
11581898 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCACGAATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
* *
11581938 ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACGAATGCCTTCGGGACTTAGCCCGGA
11581971 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
38 22 0.18
39 23 0.19
40 65 0.54
41 11 0.09
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (40 bp):
ACTCGCACGAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:11586343 original size:46 final size:46
Alignment explanation
Indices: 11586199--11586361 Score: 148
Period size: 46 Copynumber: 3.5 Consensus size: 46
11586189 GCATTAGTGT
* * * * * * **
11586199 AAGACCATGTTGGATATGGAATTGGCATGGAGACGAGAGCAAGTAT
1 AAGACCATGCTGGACATGGCATCGGCATGGAGATGAGAGCAAATGC
* * * * * * *
11586245 AAGACCATGTTGGACATGGTATCAGCATTGA-TTGAAAGCCAATGC
1 AAGACCATGCTGGACATGGCATCGGCATGGAGATGAGAGCAAATGC
* *
11586290 AAGACCATGCTGGACATGGCATCGGCATGGAGATGAGAGCTATTGC
1 AAGACCATGCTGGACATGGCATCGGCATGGAGATGAGAGCAAATGC
11586336 AAGACCATGTCTGGGACATGGCATCG
1 AAGACCATG-CT-GGACATGGCATCG
11586362 ACCTCGACAT
Statistics
Matches: 94, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
45 34 0.36
46 45 0.48
47 2 0.02
48 13 0.14
ACGTcount: A:0.31, C:0.17, G:0.30, T:0.21
Consensus pattern (46 bp):
AAGACCATGCTGGACATGGCATCGGCATGGAGATGAGAGCAAATGC
Found at i:11586378 original size:48 final size:47
Alignment explanation
Indices: 11586245--11586394 Score: 128
Period size: 48 Copynumber: 3.2 Consensus size: 47
11586235 GAGCAAGTAT
* * * * * *
11586245 AAGACCATGT-TGGACATGGTATC-AGCATTGA-TTGAAAGCCAATGC
1 AAGACCATGTCTGGACATGGCATCGA-CATCGACATGAGAGCTAGTGC
* * * *
11586290 AAGACCATG-CTGGACATGGCATCGGCATGGAGATGAGAGCTATTGC
1 AAGACCATGTCTGGACATGGCATCGACATCGACATGAGAGCTAGTGC
* * **
11586336 AAGACCATGTCTGGGACATGGCATCGACCTCGACATGTGAGCTAGTAT
1 AAGACCATGTCT-GGACATGGCATCGACATCGACATGAGAGCTAGTGC
11586384 AAGACCATGTC
1 AAGACCATGTC
11586395 CAAGATATGG
Statistics
Matches: 85, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
45 26 0.31
46 19 0.22
47 2 0.02
48 38 0.45
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (47 bp):
AAGACCATGTCTGGACATGGCATCGACATCGACATGAGAGCTAGTGC
Found at i:11602623 original size:131 final size:131
Alignment explanation
Indices: 11602319--11602704 Score: 434
Period size: 131 Copynumber: 2.9 Consensus size: 131
11602309 TCGAAAATAC
* * *
11602319 GAGTGAAATTCTGAAGAGATATTCGATTATTTTGAACAAACGGGAAATTGCAACCCAGCACGATA
1 GAGTGAAATTTTGAAGGGATATTCGATTATTTTGAACAAACGGGAAATTGCAACCCAGCACGTTA
* * * ** *
11602384 GGGTACTATTCCCCGAATTGCCAAACATTGAATATCGCCTTCGTTTTAAAGGGTTTTTAGAAAAC
66 GGGCACGATT-CCCGAATTACCAAACACCGAATATCGCCTTCGTTTTAAAGGATTTTTAGAAAAC
*
11602449 GT
130 AT
* * * * * ** * **
11602451 GAGTGAAATTTTGAAGGAATCTTCGATTGTTTTGAAAAAACGAGAAATCACAACCCAACGTGTTA
1 GAGTGAAATTTTGAAGGGATATTCGATTATTTTGAACAAACGGGAAATTGCAACCCAGCACGTTA
* * * * * *
11602516 GGGCACGATTCCTGAATTATCAAACACCGAGTATTGCCTTTGTTTTAAAGGATTTTTAGAAGACA
66 GGGCACGATTCCCGAATTACCAAACACCGAATATCGCCTTCGTTTTAAAGGATTTTTAGAAAACA
11602581 T
131 T
*
11602582 GAGTGAAATTTTGAAGGGATATTTGATTATTTT-AAGCAAACGGGAAATTGCAACCCAGCACGTT
1 GAGTGAAATTTTGAAGGGATATTCGATTATTTTGAA-CAAACGGGAAATTGCAACCCAGCACGTT
* * * * * *
11602646 AGGGCATGATTCCGCGAATTACCAAATATCGCATATCGCCTTC-ATTTAAGGGATTTTTA
65 AGGGCACGATTCC-CGAATTACCAAACACCGAATATCGCCTTCGTTTTAAAGGATTTTTA
11602705 ATAATTGTGA
Statistics
Matches: 204, Mismatches: 48, Indels: 5
0.79 0.19 0.02
Matches are distributed among these distances:
130 2 0.01
131 121 0.59
132 81 0.40
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.30
Consensus pattern (131 bp):
GAGTGAAATTTTGAAGGGATATTCGATTATTTTGAACAAACGGGAAATTGCAACCCAGCACGTTA
GGGCACGATTCCCGAATTACCAAACACCGAATATCGCCTTCGTTTTAAAGGATTTTTAGAAAACA
T
Found at i:11610972 original size:15 final size:16
Alignment explanation
Indices: 11610952--11610981 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
11610942 GAAAATTGCC
11610952 AAAATGGG-CTAAATA
1 AAAATGGGACTAAATA
11610967 AAAATGGGACTAAAT
1 AAAATGGGACTAAAT
11610982 TGGAATATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.07, G:0.20, T:0.20
Consensus pattern (16 bp):
AAAATGGGACTAAATA
Found at i:11612759 original size:46 final size:45
Alignment explanation
Indices: 11612659--11612773 Score: 122
Period size: 45 Copynumber: 2.5 Consensus size: 45
11612649 GGGTGTTACA
* * * ** *
11612659 AAGACCATGTTGGAGATGGCATCGGCGTTGATTGAGAGCCAGTGT
1 AAGACCATGTTGGACATGGCATCGGCATGGAACGAGAGCCAGTCT
* * *
11612704 AGGACCATGTTGGACATGGTATCGGCATGGAGACGAGAGCTAGTCT
1 AAGACCATGTTGGACATGGCATCGGCATGGA-ACGAGAGCCAGTCT
11612750 AAGACCATGTCTAGGACATGGCAT
1 AAGACCATGT-T-GGACATGGCAT
11612774 TGGCCTCGAC
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
45 26 0.46
46 19 0.34
47 1 0.02
48 10 0.18
ACGTcount: A:0.27, C:0.17, G:0.33, T:0.23
Consensus pattern (45 bp):
AAGACCATGTTGGACATGGCATCGGCATGGAACGAGAGCCAGTCT
Found at i:11620029 original size:12 final size:12
Alignment explanation
Indices: 11620012--11620041 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
11620002 ACAGGTTTGG
11620012 CACGGCCTAGCA
1 CACGGCCTAGCA
*
11620024 CACGGCCTGGCA
1 CACGGCCTAGCA
11620036 CACGGC
1 CACGGC
11620042 ATGTGTGGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.20, C:0.43, G:0.30, T:0.07
Consensus pattern (12 bp):
CACGGCCTAGCA
Found at i:11621753 original size:55 final size:55
Alignment explanation
Indices: 11621687--11621797 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
11621677 GAACCTACTG
11621687 ATGGGTCAGTAAGTGTACTTAGATCCCGATTTATGAAATGACCGTTATGCCTCGA
1 ATGGGTCAGTAAGTGTACTTAGATCCCGATTTATGAAATGACCGTTATGCCTCGA
11621742 ATGGGTCAGTAAGTGTACTTAGATCCCGATTTATGAAATGACCGTTATGCCTCGA
1 ATGGGTCAGTAAGTGTACTTAGATCCCGATTTATGAAATGACCGTTATGCCTCGA
11621797 A
1 A
11621798 GGGCAAAATG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (55 bp):
ATGGGTCAGTAAGTGTACTTAGATCCCGATTTATGAAATGACCGTTATGCCTCGA
Found at i:11625161 original size:19 final size:20
Alignment explanation
Indices: 11625134--11625172 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
11625124 TAGCCCACGT
11625134 TGGGCCAAAATAGGC-CGTG
1 TGGGCCAAAATAGGCTCGTG
*
11625153 TGGGTCAAAATAGGCTCGTG
1 TGGGCCAAAATAGGCTCGTG
11625173 GGCCCAACAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.26, C:0.18, G:0.36, T:0.21
Consensus pattern (20 bp):
TGGGCCAAAATAGGCTCGTG
Found at i:11628343 original size:22 final size:23
Alignment explanation
Indices: 11628318--11628363 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
11628308 CAACCAAACC
11628318 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
11628340 AATTCATACATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
11628363 A
1 A
11628364 CGTCATCACA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.27
23 15 0.68
24 1 0.05
ACGTcount: A:0.48, C:0.11, G:0.04, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:11628369 original size:23 final size:24
Alignment explanation
Indices: 11628324--11628375 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
11628314 AACCAATTCA
*
11628324 ACATATTTTCAAGATAAATTCAT-
1 ACATATTTTCAAGATAAAGTCATC
*
11628347 ACATATTTAT-AAGATAACGTCATC
1 ACATATTT-TCAAGATAAAGTCATC
11628371 ACATA
1 ACATA
11628376 CCCAAAATCG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.44, C:0.15, G:0.06, T:0.35
Consensus pattern (24 bp):
ACATATTTTCAAGATAAAGTCATC
Found at i:11636486 original size:23 final size:24
Alignment explanation
Indices: 11636437--11636488 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
11636427 TTATCACAGA
* *
11636437 AAGCTCACACAGAGCCATTTTGGG
1 AAGCTCACAAAGAGCCATATTGGG
*
11636461 AAGCTCACAAAGAG-CGTATTGGG
1 AAGCTCACAAAGAGCCATATTGGG
11636484 AAGCT
1 AAGCT
11636489 TATTCGGGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 12 0.48
24 13 0.52
ACGTcount: A:0.33, C:0.21, G:0.27, T:0.19
Consensus pattern (24 bp):
AAGCTCACAAAGAGCCATATTGGG
Found at i:11638330 original size:2 final size:2
Alignment explanation
Indices: 11638288--11638317 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
11638278 AAGGAAGAAT
*
11638288 TA TA TA TA CA 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
11638318 CTTATGAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:11640135 original size:49 final size:49
Alignment explanation
Indices: 11640057--11640366 Score: 159
Period size: 48 Copynumber: 6.5 Consensus size: 49
11640047 GATGATGACA
* *
11640057 CCATGTCCCAAACATGGTCTTACACTGGCTTTCATATAGCAAG-GCCGATG
1 CCATGTCCCAGACA-GGTCTTACACTGGCTCTCATATAGC-AGTGCCGATG
* * * *
11640107 CCATGTCCCAGACAGGTCTTATATTGGCTCTCATCTATCAGTGCCGATG
1 CCATGTCCCAGACAGGTCTTACACTGGCTCTCATATAGCAGTGCCGATG
* * * * * * * *
11640156 CCATGTCCTAGATAGGTCTTACACTGACACACCACA-AG--TTGACG-T-
1 CCATGTCCCAGACAGGTCTTACACTGGCTC-TCATATAGCAGTGCCGATG
* * * * *
11640201 -CATATCCCAGACAGGTCTTACACTAGCT-TGTATATCGCGAG-GCTGATG
1 CCATGTCCCAGACAGGTCTTACACTGGCTCT-CATATAGC-AGTGCCGATG
* * * * *
11640249 -CATGTCCCAGACATGTCTTACACTGGCT-T-AAATATCTTGAAGCCGATG
1 CCATGTCCCAGACAGGTCTTACACTGGCTCTCATATAGC-AG-TGCCGATG
* * * * *
11640297 -CGTGTCCCAGACATGTCTTACACTGGCTTTC--AT-GCTGTGGCTGATG
1 CCATGTCCCAGACAGGTCTTACACTGGCTCTCATATAGCAGT-GCCGATG
*
11640343 -CATGTCCCAGACATGTCTTACACT
1 CCATGTCCCAGACAGGTCTTACACT
11640367 AGCACACATA
Statistics
Matches: 201, Mismatches: 45, Indels: 32
0.72 0.16 0.12
Matches are distributed among these distances:
43 2 0.01
44 23 0.11
46 39 0.19
47 6 0.03
48 63 0.31
49 53 0.26
50 15 0.07
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.28
Consensus pattern (49 bp):
CCATGTCCCAGACAGGTCTTACACTGGCTCTCATATAGCAGTGCCGATG
Found at i:11640267 original size:48 final size:47
Alignment explanation
Indices: 11640205--11640369 Score: 190
Period size: 48 Copynumber: 3.5 Consensus size: 47
11640195 TGACGTCATA
*
11640205 TCCCAGACAGGTCTTACACTAGCTTGTATATCGCGAGGCTGATGCATG
1 TCCCAGACATGTCTTACACTAGCTT-TATATCGCGAGGCTGATGCATG
* * ** * * *
11640253 TCCCAGACATGTCTTACACTGGCTTAAATATCTTGAAGCCGATGCGTG
1 TCCCAGACATGTCTTACACTAGCTT-TATATCGCGAGGCTGATGCATG
* * *
11640301 TCCCAGACATGTCTTACACTGGCTTT-CAT-GCTGTGGCTGATGCATG
1 TCCCAGACATGTCTTACACTAGCTTTATATCGC-GAGGCTGATGCATG
11640347 TCCCAGACATGTCTTACACTAGC
1 TCCCAGACATGTCTTACACTAGC
11640370 ACACATATCA
Statistics
Matches: 98, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
46 34 0.35
48 64 0.65
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (47 bp):
TCCCAGACATGTCTTACACTAGCTTTATATCGCGAGGCTGATGCATG
Found at i:11640378 original size:94 final size:96
Alignment explanation
Indices: 11640205--11640378 Score: 246
Period size: 94 Copynumber: 1.8 Consensus size: 96
11640195 TGACGTCATA
*
11640205 TCCCAGACAGGTCTTACACTAGCTTGTATATCGCGAGGCTGATGCATGTCCCAGACATGTCTTAC
1 TCCCAGACAGGTCTTACACTAGCTTGTACATCGCGAGGCTGATGCATGTCCCAGACATGTCTTAC
* **
11640270 ACTGGCTTAAATATCTTGAAGCCGATGCGTG
66 ACTAGCACAAATATCTTGAAGCCGATGCGTG
* * *
11640301 TCCCAGACATGTCTTACACTGGCTT-T-CAT-GCTGTGGCTGATGCATGTCCCAGACATGTCTTA
1 TCCCAGACAGGTCTTACACTAGCTTGTACATCGC-GAGGCTGATGCATGTCCCAGACATGTCTTA
*
11640363 CACTAGCACACATATC
65 CACTAGCACAAATATC
11640379 ACCTATTATC
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
93 2 0.03
94 43 0.62
95 1 0.01
96 23 0.33
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.29
Consensus pattern (96 bp):
TCCCAGACAGGTCTTACACTAGCTTGTACATCGCGAGGCTGATGCATGTCCCAGACATGTCTTAC
ACTAGCACAAATATCTTGAAGCCGATGCGTG
Found at i:11642325 original size:4 final size:4
Alignment explanation
Indices: 11642316--11642465 Score: 219
Period size: 4 Copynumber: 37.0 Consensus size: 4
11642306 TTTTAAAGTC
* *
11642316 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATG CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * *
11642364 CATA CATA CATA CATA CATG CATG CATG CATA CATA CATA CATA CATGCA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT--A
* *
11642414 CATA CATA CATA CATG CATA CATA CATA CATA CATA TATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
11642462 CATA
1 CATA
11642466 TTCACTATAA
Statistics
Matches: 136, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
4 132 0.97
6 4 0.03
ACGTcount: A:0.45, C:0.25, G:0.05, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:11642888 original size:9 final size:9
Alignment explanation
Indices: 11642867--11642981 Score: 67
Period size: 9 Copynumber: 12.4 Consensus size: 9
11642857 CTTCATAAAA
11642867 TTTTATAATT
1 TTTTATAA-T
*
11642877 TTTTATGAT
1 TTTTATAAT
11642886 TTTTATAATTT
1 TTTTATAA--T
*
11642897 TTTTCTAA-
1 TTTTATAAT
*
11642905 TTTTAAATAT
1 TTTTATA-AT
11642915 TTTTAT-AT
1 TTTTATAAT
*
11642923 TTTTATTAAGA
1 TTTTA-TAA-T
*
11642934 TTTAATAAT
1 TTTTATAAT
*
11642943 TTGTATAAT
1 TTTTATAAT
*
11642952 TTTTATTGAT
1 TTTTA-TAAT
11642962 TTTTAT--T
1 TTTTATAAT
*
11642969 TTTTATCAT
1 TTTTATAAT
11642978 TTTT
1 TTTT
11642982 CATTACATGT
Statistics
Matches: 82, Mismatches: 13, Indels: 21
0.71 0.11 0.18
Matches are distributed among these distances:
7 7 0.09
8 12 0.15
9 27 0.33
10 24 0.29
11 12 0.15
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (9 bp):
TTTTATAAT
Found at i:11642891 original size:19 final size:19
Alignment explanation
Indices: 11642867--11642967 Score: 75
Period size: 19 Copynumber: 5.3 Consensus size: 19
11642857 CTTCATAAAA
11642867 TTTTATAATTTTTTATGAT
1 TTTTATAATTTTTTATGAT
* *
11642886 TTTTATAATTTTTT-TCTAA
1 TTTTATAATTTTTTAT-GAT
11642905 TTTTA-AATATTTTTAT-AT
1 TTTTATAAT-TTTTTATGAT
** * *
11642923 TTTTATTAAGATTTAATAAT
1 TTTTA-TAATTTTTTATGAT
*
11642943 TTGTATAA-TTTTTATTGAT
1 TTTTATAATTTTTTA-TGAT
11642962 TTTTAT
1 TTTTAT
11642968 TTTTTATCAT
Statistics
Matches: 64, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
18 14 0.22
19 41 0.64
20 9 0.14
ACGTcount: A:0.30, C:0.01, G:0.04, T:0.65
Consensus pattern (19 bp):
TTTTATAATTTTTTATGAT
Found at i:11642899 original size:29 final size:29
Alignment explanation
Indices: 11642836--11642926 Score: 71
Period size: 29 Copynumber: 3.2 Consensus size: 29
11642826 CTTTACATTT
* * *
11642836 TTTTTTATAATTTTCTTACGA-CTTCATAA
1 TTTTTTATAATTTT-TTATGATTTTTATAA
**
11642865 AATTTTATAATTTTTTATGATTTTTATAA
1 TTTTTTATAATTTTTTATGATTTTTATAA
* **
11642894 TTTTTTTCTAATTTTAAAT-ATTTTTAT-A
1 -TTTTTTATAATTTTTTATGATTTTTATAA
11642922 TTTTT
1 TTTTT
11642927 ATTAAGATTT
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
27 5 0.10
28 6 0.12
29 26 0.52
30 13 0.26
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (29 bp):
TTTTTTATAATTTTTTATGATTTTTATAA
Found at i:11642908 original size:10 final size:10
Alignment explanation
Indices: 11642867--11642899 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
11642857 CTTCATAAAA
11642867 TTTTATAATT
1 TTTTATAATT
*
11642877 TTTTATGA-T
1 TTTTATAATT
11642886 TTTTATAATT
1 TTTTATAATT
11642896 TTTT
1 TTTT
11642900 TCTAATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
9 8 0.40
10 12 0.60
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (10 bp):
TTTTATAATT
Found at i:11643433 original size:2 final size:2
Alignment explanation
Indices: 11643426--11643460 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
11643416 GCTACCTTGT
11643426 TA TA TA TA TA 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 TA TA TA TA TA T
11643461 TACTCTACAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11650727 original size:62 final size:62
Alignment explanation
Indices: 11650628--11650753 Score: 243
Period size: 62 Copynumber: 2.0 Consensus size: 62
11650618 TATTCCCACA
*
11650628 AACGCGTAATAGGGATTCAGTGCTGAAAGCTTGGAATGGCTATTCTGACCATCGCTGAATAG
1 AACGCGTAATAGGGATTCAGTGCTGAAAGCTTAGAATGGCTATTCTGACCATCGCTGAATAG
11650690 AACGCGTAATAGGGATTCAGTGCTGAAAGCTTAGAATGGCTATTCTGACCATCGCTGAATAG
1 AACGCGTAATAGGGATTCAGTGCTGAAAGCTTAGAATGGCTATTCTGACCATCGCTGAATAG
11650752 AA
1 AA
11650754 TTGAAGAAAA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.25
Consensus pattern (62 bp):
AACGCGTAATAGGGATTCAGTGCTGAAAGCTTAGAATGGCTATTCTGACCATCGCTGAATAG
Found at i:11654052 original size:53 final size:55
Alignment explanation
Indices: 11653940--11654071 Score: 151
Period size: 53 Copynumber: 2.4 Consensus size: 55
11653930 TTAATTCATA
* * * *
11653940 TAATAATAATTATATTAAGAATGTTATTAAATTATACATTATTTTATTAAATTATATT
1 TAATAATAATTATATTAA-AATATGATTAAATTAT--ATTATTTTAATAAAATATATT
* *
11653998 TAATAATAATTATGTTAAAATATGGTTAAATTAT-TT-TTTTAATAAAATATATT
1 TAATAATAATTATATTAAAATATGATTAAATTATATTATTTTAATAAAATATATT
* *
11654051 TAACAATAATTTTATTAAAAT
1 TAATAATAATTATATTAAAAT
11654072 TTAATAACAA
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
53 33 0.51
54 2 0.03
57 13 0.20
58 17 0.26
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (55 bp):
TAATAATAATTATATTAAAATATGATTAAATTATATTATTTTAATAAAATATATT
Found at i:11654257 original size:46 final size:44
Alignment explanation
Indices: 11654166--11654259 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 44
11654156 ATTACAACAT
*
11654166 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAGCTCTATTC
* ***
11654210 CATTCCATTCAACCAAATAGTTGAATTACTTATTACAGCTCTATTC
1 CATTCCATTCAACCAAACACAAGAA-TAC-TATTACAGCTCTATTC
11654256 CATT
1 CATT
11654260 ATAGCCTTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 21 0.49
45 3 0.07
46 19 0.44
ACGTcount: A:0.35, C:0.26, G:0.05, T:0.34
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAGCTCTATTC
Found at i:11654286 original size:16 final size:16
Alignment explanation
Indices: 11654267--11654310 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
11654257 ATTATAGCCT
11654267 TATTCCATTACAACAC
1 TATTCCATTACAACAC
** *
11654283 TATTTAATTACAACCC
1 TATTCCATTACAACAC
11654299 TATTCCATTACA
1 TATTCCATTACA
11654311 GCCAACTAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.36, C:0.27, G:0.00, T:0.36
Consensus pattern (16 bp):
TATTCCATTACAACAC
Found at i:11655075 original size:5 final size:5
Alignment explanation
Indices: 11655067--11655121 Score: 110
Period size: 5 Copynumber: 11.0 Consensus size: 5
11655057 TAATAAAATA
11655067 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
11655117 ATTAT
1 ATTAT
11655122 TGATTATATA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 50 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:11656512 original size:18 final size:18
Alignment explanation
Indices: 11656489--11656523 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
11656479 ACACAGTCGT
11656489 TATCAAGTAATAAGTAAG
1 TATCAAGTAATAAGTAAG
11656507 TATCAAGTAATAAGTAA
1 TATCAAGTAATAAGTAA
11656524 TGTGACAGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.06, G:0.14, T:0.29
Consensus pattern (18 bp):
TATCAAGTAATAAGTAAG
Found at i:11658301 original size:39 final size:40
Alignment explanation
Indices: 11658201--11658391 Score: 185
Period size: 39 Copynumber: 4.8 Consensus size: 40
11658191 TCGAATGATG
* * *
11658201 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
11658241 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
11658281 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
11658320 CCCGGGTTAAGTCCCGAAGGCATTCG-GCGAGTCACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
** *
11658360 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
11658392 CGTTATATCC
Statistics
Matches: 124, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
39 63 0.51
40 54 0.44
41 7 0.06
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:11658341 original size:79 final size:81
Alignment explanation
Indices: 11658201--11658384 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
11658191 TCGAATGATG
* * *
11658201 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
11658265 CGTGCGAGTTAATA-AA
66 CG-GCGAGTCAATATAA
* **
11658281 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
11658343 TCGGCGAGTCACTATAA
65 TCGGCGAGTCAATATAA
**
11658360 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
11658385 AGCGAGTCGT
Statistics
Matches: 90, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
78 18 0.20
79 54 0.60
80 18 0.20
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGGCGAGTCAATATAA
Found at i:11660797 original size:7 final size:7
Alignment explanation
Indices: 11660787--11660830 Score: 61
Period size: 7 Copynumber: 6.1 Consensus size: 7
11660777 AAGAGAGAAT
11660787 GATGAAG
1 GATGAAG
11660794 GATGAAG
1 GATGAAG
11660801 GATGAAG
1 GATGAAG
*
11660808 GATGATG
1 GATGAAG
*
11660815 GATGAGG
1 GATGAAG
11660822 GAATGAAG
1 G-ATGAAG
11660830 G
1 G
11660831 GGTCATATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
7 27 0.82
8 6 0.18
ACGTcount: A:0.39, C:0.00, G:0.45, T:0.16
Consensus pattern (7 bp):
GATGAAG
Found at i:11664452 original size:37 final size:37
Alignment explanation
Indices: 11664410--11664484 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
11664400 ATATCAGGAT
*
11664410 AGGATCACCTGTTCGGGCTAGATCCTTTTTATCGTCA
1 AGGATCACCTGTCCGGGCTAGATCCTTTTTATCGTCA
11664447 AGGATCACCTGTCCGGGCTAGATCCTTTTTATCGTCA
1 AGGATCACCTGTCCGGGCTAGATCCTTTTTATCGTCA
11664484 A
1 A
11664485 TTTCTTTTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.33
Consensus pattern (37 bp):
AGGATCACCTGTCCGGGCTAGATCCTTTTTATCGTCA
Found at i:11665702 original size:40 final size:40
Alignment explanation
Indices: 11665650--11665794 Score: 157
Period size: 41 Copynumber: 3.5 Consensus size: 40
11665640 GCAAAAATTG
* **
11665650 TAAAACACAGAGCAATAGCGGTGTTTTACCAAAAATGCCGC
1 TAAAA-ACAGAGCAATAGCGGCGTTTTACCAAAAACACCGC
11665691 TAAAAACAGAGCAATAGCGGCGTTTTACCAAAAACACCGC
1 TAAAAACAGAGCAATAGCGGCGTTTTACCAAAAACACCGC
* * * ** *
11665731 TAAAAACTAGAGCATTAGCTGCGCTTT-CGGTAAAACGCCGC
1 TAAAAAC-AGAGCAATAGCGGCGTTTTAC-CAAAAACACCGC
*
11665772 TAAAAACTAGAGCATTAGCGGCG
1 TAAAAAC-AGAGCAATAGCGGCG
11665795 CTGTTGGTAA
Statistics
Matches: 92, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
40 40 0.43
41 52 0.57
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.19
Consensus pattern (40 bp):
TAAAAACAGAGCAATAGCGGCGTTTTACCAAAAACACCGC
Found at i:11665766 original size:41 final size:41
Alignment explanation
Indices: 11665681--11665817 Score: 163
Period size: 41 Copynumber: 3.4 Consensus size: 41
11665671 TGTTTTACCA
* * * **
11665681 AAAATGCCGCTAAAAAC-AGAGCAATAGCGGCGTTTTAC-CA
1 AAAACGCCGCTAAAAACTAGAGCATTAGCGGCGCTTT-CGGT
* *
11665721 AAAACACCGCTAAAAACTAGAGCATTAGCTGCGCTTTCGGT
1 AAAACGCCGCTAAAAACTAGAGCATTAGCGGCGCTTTCGGT
11665762 AAAACGCCGCTAAAAACTAGAGCATTAGCGGCGCTGTT-GGT
1 AAAACGCCGCTAAAAACTAGAGCATTAGCGGCGCT-TTCGGT
*
11665803 AAAACGCTGCTAAAA
1 AAAACGCCGCTAAAA
11665818 GTCATATAAC
Statistics
Matches: 84, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
40 16 0.19
41 66 0.79
42 2 0.02
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACTAGAGCATTAGCGGCGCTTTCGGT
Found at i:11665900 original size:15 final size:16
Alignment explanation
Indices: 11665872--11665905 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
11665862 ACTAATCTAT
11665872 AACCCCTAAAACACTA
1 AACCCCTAAAACACTA
11665888 AACCCCT-AAACACTA
1 AACCCCTAAAACACTA
11665903 AAC
1 AAC
11665906 TATGACCCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.50, C:0.38, G:0.00, T:0.12
Consensus pattern (16 bp):
AACCCCTAAAACACTA
Found at i:11665900 original size:37 final size:37
Alignment explanation
Indices: 11665857--11665930 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
11665847 CAAAAAATAA
*
11665857 TAAACACTAATCTATAACCCCTAAAACACTAAACCCC
1 TAAACACTAAACTATAACCCCTAAAACACTAAACCCC
* *
11665894 TAAACACTAAACTATGACCCCTAAAACCCTAAACCCC
1 TAAACACTAAACTATAACCCCTAAAACACTAAACCCC
11665931 AAAAAACATC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.45, C:0.36, G:0.01, T:0.18
Consensus pattern (37 bp):
TAAACACTAAACTATAACCCCTAAAACACTAAACCCC
Found at i:11665920 original size:22 final size:21
Alignment explanation
Indices: 11665858--11665927 Score: 62
Period size: 22 Copynumber: 3.5 Consensus size: 21
11665848 AAAAAATAAT
*
11665858 AAACACTAATCTATAACCCCTA
1 AAACACTAAACTAT-ACCCCTA
11665880 AAACACT--A--A-ACCCCT-
1 AAACACTAAACTATACCCCTA
11665895 AAACACTAAACTATGACCCCTA
1 AAACACTAAACTAT-ACCCCTA
*
11665917 AAACCCTAAAC
1 AAACACTAAAC
11665928 CCCAAAAAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 14
0.71 0.04 0.25
Matches are distributed among these distances:
15 7 0.18
16 6 0.15
17 1 0.03
18 1 0.03
19 1 0.03
21 6 0.15
22 17 0.44
ACGTcount: A:0.47, C:0.34, G:0.01, T:0.17
Consensus pattern (21 bp):
AAACACTAAACTATACCCCTA
Found at i:11666489 original size:13 final size:13
Alignment explanation
Indices: 11666471--11666496 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11666461 GCTGCAACTC
11666471 TTTTTTTGTTTTT
1 TTTTTTTGTTTTT
11666484 TTTTTTTGTTTTT
1 TTTTTTTGTTTTT
11666497 AAATAAGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (13 bp):
TTTTTTTGTTTTT
Found at i:11667190 original size:14 final size:14
Alignment explanation
Indices: 11667156--11667195 Score: 55
Period size: 14 Copynumber: 2.8 Consensus size: 14
11667146 ACTATTTTAA
11667156 GGTTTATGGGTTATG
1 GGTTTA-GGGTTATG
11667171 GGTTTAGGGATTAT-
1 GGTTTAGGG-TTATG
11667185 GGTTTAGGGTT
1 GGTTTAGGGTT
11667196 TAACATTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 2 0.08
14 12 0.50
15 10 0.42
ACGTcount: A:0.15, C:0.00, G:0.40, T:0.45
Consensus pattern (14 bp):
GGTTTAGGGTTATG
Found at i:11672003 original size:42 final size:42
Alignment explanation
Indices: 11671941--11672020 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
11671931 ATATATGGTC
* * *
11671941 TTTAGTGGCGTTTTTGGGGAAAGCGTCGCTAAAGGTCATTTT
1 TTTAGCGGCGTTTTTAGGGAAAGCGCCGCTAAAGGTCATTTT
11671983 TTTAGCGGCGTTTTTAGGGAAAGCGCCGCTAAAGGTCA
1 TTTAGCGGCGTTTTTAGGGAAAGCGCCGCTAAAGGTCA
11672021 CGACGTTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.21, C:0.15, G:0.31, T:0.33
Consensus pattern (42 bp):
TTTAGCGGCGTTTTTAGGGAAAGCGCCGCTAAAGGTCATTTT
Found at i:11674608 original size:40 final size:39
Alignment explanation
Indices: 11674563--11674770 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 39
11674553 CGGAATACAA
*
11674563 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
11674603 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
11674643 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *** *
11674683 CCGAATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
11674723 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
11674763 CCGGATAT
1 CCGGATAT
11674771 CATTCATTTG
Statistics
Matches: 139, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 4 0.03
40 132 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:11674703 original size:80 final size:80
Alignment explanation
Indices: 11674563--11674765 Score: 221
Period size: 80 Copynumber: 2.5 Consensus size: 80
11674553 CGGAATACAA
* * * *
11674563 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGAATAGAACGACTAGCAC-AATG
*
11674627 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
11674643 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGAATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGAAT-AGAACGACTAGCACAATG
*
11674707 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
11674723 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCG
11674766 GATATCATTC
Statistics
Matches: 103, Mismatches: 18, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
79 3 0.03
80 98 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGAATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:11688642 original size:6 final size:6
Alignment explanation
Indices: 11688622--11688659 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
11688612 TTCAAAAGAG
**
11688622 AATAAA AATTGA AATAAA AATAAA AATAAA AATAAA AA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AA
11688660 GATAAGAGGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (6 bp):
AATAAA
Found at i:11694804 original size:37 final size:37
Alignment explanation
Indices: 11694754--11694827 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
11694744 ATGGATCCAG
11694754 CTTCTAAGATGGATCAATGGCTTCCTTGGAATAATTC
1 CTTCTAAGATGGATCAATGGCTTCCTTGGAATAATTC
* *
11694791 CTTCTGAGATGGATCAATGGCTTCCTTGGAGTAATTC
1 CTTCTAAGATGGATCAATGGCTTCCTTGGAATAATTC
11694828 TTTACCTTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (37 bp):
CTTCTAAGATGGATCAATGGCTTCCTTGGAATAATTC
Found at i:11702305 original size:40 final size:41
Alignment explanation
Indices: 11702261--11702341 Score: 119
Period size: 40 Copynumber: 2.0 Consensus size: 41
11702251 AAGCCATGTT
*
11702261 TTCTTCACCTTCTTTATCCTCCAAA-GGCCAAGAACTAAGG
1 TTCTTCACCTTCTTCATCCTCCAAAGGGCCAAGAACTAAGG
* * *
11702301 TTCTTCATCTTCTTCATCCTCCAAAGGGTCAAGATCTAAGG
1 TTCTTCACCTTCTTCATCCTCCAAAGGGCCAAGAACTAAGG
11702342 CTTTCTCCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 23 0.64
41 13 0.36
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.32
Consensus pattern (41 bp):
TTCTTCACCTTCTTCATCCTCCAAAGGGCCAAGAACTAAGG
Found at i:11704555 original size:13 final size:13
Alignment explanation
Indices: 11704537--11704561 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11704527 GAAATGACAT
11704537 GTGTGAAAATTTC
1 GTGTGAAAATTTC
11704550 GTGTGAAAATTT
1 GTGTGAAAATTT
11704562 TATCATTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:11710007 original size:2 final size:2
Alignment explanation
Indices: 11710000--11710036 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
11709990 AGACATTCGG
*
11710000 AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11710037 GTTAAATTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:11710768 original size:40 final size:39
Alignment explanation
Indices: 11710647--11710785 Score: 179
Period size: 39 Copynumber: 3.5 Consensus size: 39
11710637 GCATGATATT
*
11710647 TGGAAAAATATCCGGACTTAAGGTCCGCAGGCTATATGC
1 TGGAAATATATCCGGACTTAAGGTCCGCAGGCTATATGC
* *
11710686 TGGAAATATATCCGGACTTAAGGTCCACAGGCTATATAC
1 TGGAAATATATCCGGACTTAAGGTCCGCAGGCTATATGC
** * * **
11710725 TGGAGTTATAATCCGGACTTAAGGTTCGCAGGTTACGTGC
1 TGGAAATAT-ATCCGGACTTAAGGTCCGCAGGCTATATGC
*
11710765 TGGAAATATATCCGGGCTTAA
1 TGGAAATATATCCGGACTTAA
11710786 AGTTCCAAAG
Statistics
Matches: 85, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 54 0.64
40 31 0.36
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (39 bp):
TGGAAATATATCCGGACTTAAGGTCCGCAGGCTATATGC
Found at i:11712405 original size:24 final size:24
Alignment explanation
Indices: 11712373--11712440 Score: 91
Period size: 24 Copynumber: 2.8 Consensus size: 24
11712363 AATTTATGGA
* *
11712373 TCACATGGCCTGGGATACGAGCTG
1 TCACATGGCCTGGGACACAAGCTG
11712397 TCACATGGCCTGGGACACAAGCTG
1 TCACATGGCCTGGGACACAAGCTG
* *
11712421 TCACACGGCCATGTGACACA
1 TCACATGGCC-TGGGACACA
11712441 CATGGTGTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
24 31 0.79
25 8 0.21
ACGTcount: A:0.25, C:0.29, G:0.28, T:0.18
Consensus pattern (24 bp):
TCACATGGCCTGGGACACAAGCTG
Found at i:11713870 original size:35 final size:34
Alignment explanation
Indices: 11713831--11713903 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 34
11713821 TCTAGTTTGG
* *
11713831 TAAATCAACG-ATGTTTGTGGCTAGCACTAGTCAGA
1 TAAATCAACGAATG--TGTGCCTAGCACTAGTCAAA
* *
11713866 TAAATCGATGAATGTGTGCCTAGCACTAGTCAAA
1 TAAATCAACGAATGTGTGCCTAGCACTAGTCAAA
11713900 TAAA
1 TAAA
11713904 CTCATAAAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
34 22 0.67
35 8 0.24
36 3 0.09
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (34 bp):
TAAATCAACGAATGTGTGCCTAGCACTAGTCAAA
Found at i:11713931 original size:35 final size:35
Alignment explanation
Indices: 11713891--11713974 Score: 105
Period size: 35 Copynumber: 2.4 Consensus size: 35
11713881 GTGCCTAGCA
* * * *
11713891 CTAGTCAAATAAACTCATAAAAGTTGTGTCTAGTG
1 CTAGTCGAATAAACTAATAAAAGTTGTGCCCAGTG
* **
11713926 CTAGTCGGATAAACTAATGGAAGTTGTGCCCAGTG
1 CTAGTCGAATAAACTAATAAAAGTTGTGCCCAGTG
11713961 CTAGTCGAATAAAC
1 CTAGTCGAATAAAC
11713975 CGACAAATGT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (35 bp):
CTAGTCGAATAAACTAATAAAAGTTGTGCCCAGTG
Found at i:11717612 original size:43 final size:42
Alignment explanation
Indices: 11717530--11717685 Score: 111
Period size: 43 Copynumber: 3.6 Consensus size: 42
11717520 TAAGACATCG
* * * * *
11717530 TGTAAGACCGTGTCTGGGACACAGGCCTCGAT-TGAGATTTACA
1 TGTAAGACCATGTCT-GGACATAGGCATCAATAT-TGATTTACA
* * *
11717573 TATAAGACCATGTCTAGGACATTGGCATC-ATATCTGATTT-CG
1 TGTAAGACCATGTCT-GGACATAGGCATCAATAT-TGATTTACA
* * *
11717615 TGTAAGACCCTGTCTGAGACAGAGGCATCAATATTGAGTTACA
1 TGTAAGACCATGTCTG-GACATAGGCATCAATATTGATTTACA
* * *
11717658 TGTAAGACTACGTCTGGGACATCGGCAT
1 TGTAAGACCATGTCT-GGACATAGGCAT
11717686 TGTACTTGTT
Statistics
Matches: 88, Mismatches: 20, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
41 1 0.01
42 31 0.35
43 55 0.62
44 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGACATAGGCATCAATATTGATTTACA
Found at i:11717678 original size:85 final size:84
Alignment explanation
Indices: 11717527--11717685 Score: 194
Period size: 85 Copynumber: 1.9 Consensus size: 84
11717517 GTCTAAGACA
* * * *
11717527 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATTTACATATAAGACCATGTCTAGGA
1 TCGTGTAAGACCCTGTCTGAGACACAGGCATCGATTGAGA-TTACATATAAGACCACGTCTAGGA
*
11717592 CATTGGCATCATATCTGATT
65 CATCGGCATCATATCTGATT
* * * * *
11717612 TCGTGTAAGACCCTGTCTGAGACAGAGGCATCAATATTGAG-TTACATGTAAGACTACGTCTGGG
1 TCGTGTAAGACCCTGTCTGAGACACAGGCATC--GATTGAGATTACATATAAGACCACGTCTAGG
11717676 ACATCGGCAT
64 ACATCGGCAT
11717686 TGTACTTGTT
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
85 56 0.90
87 6 0.10
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (84 bp):
TCGTGTAAGACCCTGTCTGAGACACAGGCATCGATTGAGATTACATATAAGACCACGTCTAGGAC
ATCGGCATCATATCTGATT
Found at i:11722131 original size:50 final size:50
Alignment explanation
Indices: 11722056--11722155 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
11722046 GTGCGATGAA
11722056 TGTTCATTTAGTTCTGTCTGATGATGGTTCAGTTTTAGCTGAATTAAAAG
1 TGTTCATTTAGTTCTGTCTGATGATGGTTCAGTTTTAGCTGAATTAAAAG
11722106 TGTTCATTTAGTTCTGTCTGATGATGGTTCAGTTTTAGCTGAATTAAAAG
1 TGTTCATTTAGTTCTGTCTGATGATGGTTCAGTTTTAGCTGAATTAAAAG
11722156 CGAGACTTTG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.24, C:0.10, G:0.22, T:0.44
Consensus pattern (50 bp):
TGTTCATTTAGTTCTGTCTGATGATGGTTCAGTTTTAGCTGAATTAAAAG
Found at i:11722135 original size:25 final size:25
Alignment explanation
Indices: 11722057--11722136 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
11722047 TGCGATGAAT
11722057 GTTCATTTAGTTCTGTCTGATGATG
1 GTTCATTTAGTTCTGTCTGATGATG
** * * *
11722082 GTTCAGTTTTAG--CTGAATTA-AAAG
1 GTTCA--TTTAGTTCTGTCTGATGATG
11722106 TGTTCATTTAGTTCTGTCTGATGATG
1 -GTTCATTTAGTTCTGTCTGATGATG
11722132 GTTCA
1 GTTCA
11722137 GTTTTAGCTG
Statistics
Matches: 39, Mismatches: 10, Indels: 12
0.64 0.16 0.20
Matches are distributed among these distances:
23 5 0.13
24 2 0.05
25 25 0.64
26 2 0.05
27 5 0.13
ACGTcount: A:0.21, C:0.11, G:0.23, T:0.45
Consensus pattern (25 bp):
GTTCATTTAGTTCTGTCTGATGATG
Found at i:11724915 original size:43 final size:43
Alignment explanation
Indices: 11724831--11724988 Score: 162
Period size: 43 Copynumber: 3.7 Consensus size: 43
11724821 TCTGAGACAT
* * * *
11724831 CGTGTAAGACCGTGCCTGGGACA-CAGGCCTCGAT-TGAGATTTA
1 CGTGTAAGACCATGTCTGGGACATC-GGCATCGATAT-TGATTTA
*
11724874 CGTATAAGACCATGTCTGGGACATCGGCATCG-TATCTGATTT-
1 CGTGTAAGACCATGTCTGGGACATCGGCATCGATAT-TGATTTA
* ** *
11724916 CGTGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGAGTTA
1 CGTGTAAGACCATGTCTGGGACATCGGCATCGATATTGATTTA
* *
11724959 CATGTAAGACCACGTCTGGGACATCGGCAT
1 CGTGTAAGACCATGTCTGGGACATCGGCAT
11724989 TGTACTTGTT
Statistics
Matches: 95, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
42 34 0.36
43 60 0.63
44 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACATCGGCATCGATATTGATTTA
Found at i:11724967 original size:85 final size:84
Alignment explanation
Indices: 11724830--11724988 Score: 221
Period size: 85 Copynumber: 1.9 Consensus size: 84
11724820 GTCTGAGACA
* * * *
11724830 TCGTGTAAGACCGTGCCTGGGACACAGGCCTCGATTGAGATTTACGTATAAGACCATGTCTGGGA
1 TCGTGTAAGACCCTGCCTGGGACACAGGCATCGATTGAGA-TTACATATAAGACCACGTCTGGGA
11724895 CATCGGCATCGTATCTGATT
65 CATCGGCATCGTATCTGATT
* * *
11724915 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGAG-TTACATGTAAGACCACGTCTGGG
1 TCGTGTAAGACCCTGCCTGGGACACAGGCATCG--ATTGAGATTACATATAAGACCACGTCTGGG
11724979 ACATCGGCAT
64 ACATCGGCAT
11724989 TGTACTTGTT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
85 59 0.91
87 6 0.09
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (84 bp):
TCGTGTAAGACCCTGCCTGGGACACAGGCATCGATTGAGATTACATATAAGACCACGTCTGGGAC
ATCGGCATCGTATCTGATT
Found at i:11731546 original size:24 final size:24
Alignment explanation
Indices: 11731514--11731598 Score: 118
Period size: 24 Copynumber: 3.5 Consensus size: 24
11731504 AATCTCAAAT
11731514 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATA
*
11731538 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
** *
11731562 GCACTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGCG-ATTTACTATA
11731586 GCACTATGTGTGC
1 GCACTATGTGTGC
11731599 AACGTTTGGT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
24 50 0.91
25 5 0.09
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.33
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATA
Found at i:11737852 original size:17 final size:17
Alignment explanation
Indices: 11737827--11737859 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11737817 CAATCATGTA
*
11737827 AATTTATAATAATTCAC
1 AATTCATAATAATTCAC
11737844 AATTCATAATAATTCA
1 AATTCATAATAATTCA
11737860 ATATAAAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (17 bp):
AATTCATAATAATTCAC
Found at i:11739078 original size:11 final size:11
Alignment explanation
Indices: 11739062--11739086 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11739052 TGCTATAGAA
11739062 AATAAAATAAT
1 AATAAAATAAT
11739073 AATAAAATAAT
1 AATAAAATAAT
11739084 AAT
1 AAT
11739087 TTTTGACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:11739211 original size:20 final size:20
Alignment explanation
Indices: 11739164--11739213 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
11739154 CTGACCCCTA
**
11739164 TTTTCAAATTTTGTAACTTT
1 TTTTCAAATTTCCTAACTTT
** *
11739184 TTCCCAAATTTCCTAATTTT
1 TTTTCAAATTTCCTAACTTT
11739204 TTTTCAAATT
1 TTTTCAAATT
11739214 AGGCCCAAAT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.26, C:0.16, G:0.02, T:0.56
Consensus pattern (20 bp):
TTTTCAAATTTCCTAACTTT
Found at i:11743020 original size:24 final size:25
Alignment explanation
Indices: 11742989--11743062 Score: 82
Period size: 28 Copynumber: 2.9 Consensus size: 25
11742979 AATTTTAAAA
11742989 TATTTATTTTTAAATAAAATTATAC
1 TATTTATTTTTAAATAAAATTATAC
*
11743014 ATTTATTTATTTTTGAGA-AAAATTATAC
1 ---TATTTATTTTT-AAATAAAATTATAC
11743042 -ATTTA-TTTTAAATAAAATTAT
1 TATTTATTTTTAAATAAAATTAT
11743063 TTTTTATTCA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
22 2 0.05
23 12 0.29
24 5 0.12
28 21 0.50
29 2 0.05
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (25 bp):
TATTTATTTTTAAATAAAATTATAC
Found at i:11743020 original size:28 final size:28
Alignment explanation
Indices: 11742989--11743049 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
11742979 AATTTTAAAA
11742989 TATTTATTTTT-AAATAAAATTATACATT
1 TATTTATTTTTGAAA-AAAATTATACATT
*
11743017 TATTTATTTTTGAGAAAAATTATACATT
1 TATTTATTTTTGAAAAAAATTATACATT
11743045 TATTT
1 TATTT
11743050 TAAATAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 29 0.94
29 2 0.06
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.54
Consensus pattern (28 bp):
TATTTATTTTTGAAAAAAATTATACATT
Found at i:11744493 original size:24 final size:24
Alignment explanation
Indices: 11744461--11744509 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
11744451 GTTCGCATCC
11744461 ATAAGTGAACTCAGACTCAACTCA
1 ATAAGTGAACTCAGACTCAACTCA
*
11744485 ATAAGTGAACTCGGACTCAACTCA
1 ATAAGTGAACTCAGACTCAACTCA
11744509 A
1 A
11744510 CGAGCTCGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.41, C:0.24, G:0.14, T:0.20
Consensus pattern (24 bp):
ATAAGTGAACTCAGACTCAACTCA
Found at i:11748510 original size:68 final size:70
Alignment explanation
Indices: 11748438--11748635 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
11748428 ACACCCTGTA
* * * *
11748438 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
11748500 ATAAAT
65 ATAAAT
*
11748506 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
11748571 ATAAAT
65 ATAAAT
*
11748577 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
11748636 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:11748549 original size:41 final size:41
Alignment explanation
Indices: 11748504--11748621 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
11748494 TGAAAGATAA
11748504 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
11748545 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
11748575 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
11748616 ATGTAG
1 ATGTAG
11748622 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:11748561 original size:71 final size:71
Alignment explanation
Indices: 11748472--11748635 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
11748462 GAGATGTATC
11748472 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
11748537 AGGACA
66 AGGACA
11748543 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
11748608 AGGACA
66 AGGACA
11748614 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
11748636 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:11753676 original size:29 final size:29
Alignment explanation
Indices: 11753615--11753771 Score: 241
Period size: 29 Copynumber: 5.6 Consensus size: 29
11753605 CCTCCGAGCT
** * *
11753615 CGCACACCCAGTGCCGTAT-TTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
11753643 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
11753672 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
11753701 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
11753730 CGCACACTTAGTGCC--ATA-TTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
11753756 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
11753772 ATCTCGTCAC
Statistics
Matches: 121, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
26 23 0.19
27 3 0.02
28 15 0.12
29 80 0.66
ACGTcount: A:0.25, C:0.33, G:0.15, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:11763966 original size:40 final size:39
Alignment explanation
Indices: 11763871--11764058 Score: 137
Period size: 40 Copynumber: 4.7 Consensus size: 39
11763861 TGCTGGAAAT
* * * * **
11763871 TATAACCGGGTTAAGACCCGAAGGCAATGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTCAC
*
11763910 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTCAC
* * *
11763950 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGAGTCAC
* * * * * *
11763988 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTCAC
* * * *
11764029 CATAACCGGGCTATGTCCCGAAGGCGATTG
1 TATATCCGGGCTAAGACCCGAAGGC-ATTG
11764059 AACGAGTAGC
Statistics
Matches: 117, Mismatches: 25, Indels: 13
0.75 0.16 0.08
Matches are distributed among these distances:
38 3 0.03
39 52 0.44
40 58 0.50
41 4 0.03
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTCAC
Found at i:11764038 original size:79 final size:80
Alignment explanation
Indices: 11763872--11764053 Score: 183
Period size: 79 Copynumber: 2.3 Consensus size: 80
11763862 GCTGGAAATT
* * *
11763872 ATAACCGGGTTAAGACCCGAAGGCAATGTGCTAGTGGCTATATCCGGGCTAAGACCCGAAGGCAT
1 ATAACCGGGCTAAGACCCGAAGGCAATGTGCTAATCGCTATATCCGGGCTAAGACCCGAAGGCAT
*
11763937 TCGTGCGAGTCATTC
66 TCGTGCGAGTCATCC
* * * * *
11763952 -TATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCA-ATGTGCTAATCGCT-ATATCCGGGCTAAGACCCGAAGGC
* * * *
11764014 CTTGGTGCGGGTTA-CC
64 ATTCGTGCGAGTCATCC
* *
11764030 ATAACCGGGCTATGTCCCGAAGGC
1 ATAACCGGGCTAAGACCCGAAGGC
11764054 GATTGAACGA
Statistics
Matches: 83, Mismatches: 16, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
78 2 0.02
79 76 0.92
80 5 0.06
ACGTcount: A:0.23, C:0.25, G:0.30, T:0.23
Consensus pattern (80 bp):
ATAACCGGGCTAAGACCCGAAGGCAATGTGCTAATCGCTATATCCGGGCTAAGACCCGAAGGCAT
TCGTGCGAGTCATCC
Found at i:11766486 original size:27 final size:27
Alignment explanation
Indices: 11766429--11766486 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
11766419 CCACCTAATT
* *
11766429 GATAAAATGACTATTATGCCCCTGTGT
1 GATAAAATGACTATTATGCCCCTATGA
* *
11766456 GATAAAATGACTGTTATGCCCTTATGA
1 GATAAAATGACTATTATGCCCCTATGA
11766483 GATA
1 GATA
11766487 GATGATTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.33
Consensus pattern (27 bp):
GATAAAATGACTATTATGCCCCTATGA
Found at i:11769820 original size:54 final size:53
Alignment explanation
Indices: 11769749--11770038 Score: 273
Period size: 54 Copynumber: 5.4 Consensus size: 53
11769739 GACCCCAGTA
* *
11769749 TGTAGAATTATCAAAATACCCCTAGTTTGTAAAATTATCGAAATACCCTCGAAT
1 TGTAAAATTATCGAAATA-CCCTAGTTTGTAAAATTATCGAAATACCCTCGAAT
** * ** *
11769803 TGTAAAATTATCGAAATACCCCCGATTTGTAGAATTGCCGAAATACCC-CAAATT
1 TGTAAAATTATCGAAATACCCTAG-TTTGTAAAATTATCGAAATACCCTCGAA-T
* * ** **
11769857 TGTAAAATCATCGAAATACCCTTGAATGTAAAATTATTAAAATACCCTC-AATT
1 TGTAAAATTATCGAAATACCCTAGTTTGTAAAATTATCGAAATACCCTCGAA-T
* * * *
11769910 TGTAAAATTACCGAAATACCTTCAGTTTGTAAAATTAGCGAAATACTCTCGAAT
1 TGTAAAATTATCGAAATACCCT-AGTTTGTAAAATTATCGAAATACCCTCGAAT
* * * * * *
11769964 TGTAAAATTACCAAAATACCCTCGATTTGT-AAATTAAT-AAAATACCCCCGATT
1 TGTAAAATTATCGAAATACCCTAG-TTTGTAAAATT-ATCGAAATACCCTCGAAT
11770017 TGTAAAATTATCGAAATACCCT
1 TGTAAAATTATCGAAATACCCT
11770039 TGTAGTGTAA
Statistics
Matches: 191, Mismatches: 38, Indels: 15
0.78 0.16 0.06
Matches are distributed among these distances:
53 83 0.43
54 106 0.55
55 2 0.01
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (53 bp):
TGTAAAATTATCGAAATACCCTAGTTTGTAAAATTATCGAAATACCCTCGAAT
Found at i:11769925 original size:80 final size:80
Alignment explanation
Indices: 11769762--11770064 Score: 349
Period size: 80 Copynumber: 3.8 Consensus size: 80
11769752 AGAATTATCA
* * *
11769762 AAATACCCCTAGTTTGTAAAATTATCGAAATACCCTCGAATTGTAAAATTATCGAAATACCCCCG
1 AAATACCCC-AATTTGTAAAATTATCGAAATACCCTCGAATTGTAAAATTATCAAAATACCCTCG
* *
11769827 ATTTGTAGAATTGCCG
65 ATTTGTAAAATTACCG
* * * *
11769843 AAATACCCCAAATTTGTAAAATCATCGAAATACCCTTGAA-TGTAAAATTATTAAAATACCCTCA
1 AAATACCCC-AATTTGTAAAATTATCGAAATACCCTCGAATTGTAAAATTATCAAAATACCCTCG
11769907 ATTTGTAAAATTACCG
65 ATTTGTAAAATTACCG
* * * * *
11769923 AAATACCTTCAGTTTGTAAAATTAGCGAAATACTCTCGAATTGTAAAATTACCAAAATACCCTCG
1 AAATACC-CCAATTTGTAAAATTATCGAAATACCCTCGAATTGTAAAATTATCAAAATACCCTCG
***
11769988 ATTTGT-AAATTAATA
65 ATTTGTAAAATTACCG
* * * * * *
11770003 AAATACCCCCGATTTGTAAAATTATCGAAATACCCTTGTAGTGTAAAATGACCAAAATACCC
1 AAATA-CCCCAATTTGTAAAATTATCGAAATACCCTCGAATTGTAAAATTATCAAAATACCC
11770065 CTAAAGGGTA
Statistics
Matches: 188, Mismatches: 31, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
80 122 0.65
81 66 0.35
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (80 bp):
AAATACCCCAATTTGTAAAATTATCGAAATACCCTCGAATTGTAAAATTATCAAAATACCCTCGA
TTTGTAAAATTACCG
Found at i:11769992 original size:134 final size:134
Alignment explanation
Indices: 11769748--11770037 Score: 327
Period size: 134 Copynumber: 2.2 Consensus size: 134
11769738 AGACCCCAGT
* * *
11769748 ATGTAGAATTATCAAAATACCCCTAGTTTGTAAAATTATCGAAATACCCTCGAATTGTAAAATTA
1 ATGTAAAATTATCAAAATACCCCTAATTTGTAAAATTACCGAAATACCCTCGAATTGTAAAATTA
* * * * *
11769813 TCGAAATACCCCCGATTTGTAGAATTGCCGAAATACCCCAAATTTGTAAAATCATCGAAATACCC
66 GCGAAATACCCCCGAATTGTAAAATTACCAAAATACCCCAAATTTGTAAAATCATCGAAATACCC
11769878 TTGA
131 TTGA
* * *
11769882 ATGTAAAATTATTAAAATA-CCCTCAATTTGTAAAATTACCGAAATACCTTC-AGTTTGTAAAAT
1 ATGTAAAATTATCAAAATACCCCT-AATTTGTAAAATTACCGAAATACCCTCGA-ATTGTAAAAT
* * * * * *
11769945 TAGCGAAATACTCTCGAATTGTAAAATTACCAAAATACCCTC-GATTTGTAAATTAAT-AAAATA
64 TAGCGAAATACCCCCGAATTGTAAAATTACCAAAATACCC-CAAATTTGTAAAATCATCGAAATA
**
11770008 CCCCCGA
128 CCCTTGA
* *
11770015 TTTGTAAAATTATCGAAATACCC
1 -ATGTAAAATTATCAAAATACCC
11770038 TTGTAGTGTA
Statistics
Matches: 129, Mismatches: 22, Indels: 9
0.81 0.14 0.06
Matches are distributed among these distances:
133 15 0.12
134 111 0.86
135 3 0.02
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.30
Consensus pattern (134 bp):
ATGTAAAATTATCAAAATACCCCTAATTTGTAAAATTACCGAAATACCCTCGAATTGTAAAATTA
GCGAAATACCCCCGAATTGTAAAATTACCAAAATACCCCAAATTTGTAAAATCATCGAAATACCC
TTGA
Found at i:11770048 original size:107 final size:108
Alignment explanation
Indices: 11769749--11770065 Score: 312
Period size: 107 Copynumber: 3.0 Consensus size: 108
11769739 GACCCCAGTA
* * * *
11769749 TGTAGAATTATCAAAATACCC-CTAGTTTGTAAAATT-ATCGAAATACCCTCGAATTGTAAAATT
1 TGTAAAATTATCAAAATACCCTCGA-TTTGTAAAATTAAT-AAAATACCCTCGATTTGTAAAATT
** *
11769812 ATCGAAATACCCCCG-ATTTGTAGAATTGCCGAAATACCCCAAATT
64 ATCGAAATACCCTTGTA-TTGTAAAATTGCCGAAATACCCCAAATT
* * * * * * *
11769857 TGTAAAATCATCGAAATACCCTTGA-ATGTAAAATTATTAAAATACCCTCAATTTGTAAAATTAC
1 TGTAAAATTATCAAAATACCCTCGATTTGTAAAATTAATAAAATACCCTCGATTTGTAAAATTAT
* *
11769921 CGAAATA-CCTTCAGT-TTGTAAAATTAG-CGAAATACTCTCGAA-T
66 CGAAATACCCTT--GTATTGTAAAATT-GCCGAAATAC-CCCAAATT
* *
11769964 TGTAAAATTACCAAAATACCCTCGATTTGT-AAATTAATAAAATACCCCCGATTTGTAAAATTAT
1 TGTAAAATTATCAAAATACCCTCGATTTGTAAAATTAATAAAATACCCTCGATTTGTAAAATTAT
* *
11770028 CGAAATACCCTTGTAGTGTAAAA-TGACCAAAATACCCC
66 CGAAATACCCTTGTATTGTAAAATTG-CCGAAATACCCC
11770066 TAAAGGGTAA
Statistics
Matches: 169, Mismatches: 28, Indels: 26
0.76 0.13 0.12
Matches are distributed among these distances:
105 1 0.01
106 7 0.04
107 128 0.76
108 32 0.19
109 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (108 bp):
TGTAAAATTATCAAAATACCCTCGATTTGTAAAATTAATAAAATACCCTCGATTTGTAAAATTAT
CGAAATACCCTTGTATTGTAAAATTGCCGAAATACCCCAAATT
Done.