Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 438 of 444
Found at i:126953356 original size:75 final size:75
Alignment explanation
Indices: 126953263--126953437 Score: 296
Period size: 75 Copynumber: 2.3 Consensus size: 75
126953253 ACTACAATGT
* * *
126953263 CAACTATTACAATGGTAACAATGAGGCCTTGTTCACTGAGAAAGGGTGGAGTACCAAGGAAAACC
1 CAACTATTACAATGGTAACAATGAGGCCATGTTCACCGAGAAAGGATGGAGTACCAAGGAAAACC
* *
126953328 AGAATAGCAA
66 AGAACAACAA
*
126953338 CAACTATTACAATGGTAACAATGAGGCCATGTTCACCGAGAAAGGATGGAGTACTAAGGAAAACC
1 CAACTATTACAATGGTAACAATGAGGCCATGTTCACCGAGAAAGGATGGAGTACCAAGGAAAACC
126953403 AGAACAACAA
66 AGAACAACAA
126953413 CAACTATTACAATGGTAACAATGAG
1 CAACTATTACAATGGTAACAATGAG
126953438 TACAACAATG
Statistics
Matches: 94, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
75 94 1.00
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (75 bp):
CAACTATTACAATGGTAACAATGAGGCCATGTTCACCGAGAAAGGATGGAGTACCAAGGAAAACC
AGAACAACAA
Found at i:126958551 original size:10 final size:10
Alignment explanation
Indices: 126958536--126958569 Score: 59
Period size: 10 Copynumber: 3.3 Consensus size: 10
126958526 AATCTATTAC
126958536 AAAAAAAGAA
1 AAAAAAAGAA
126958546 AAAAAAAGAA
1 AAAAAAAGAA
126958556 AAAAAAAGAGA
1 AAAAAAAGA-A
126958567 AAA
1 AAA
126958570 TCATAAATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 19 0.83
11 4 0.17
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:126962897 original size:20 final size:20
Alignment explanation
Indices: 126962868--126962914 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
126962858 TAATGGTTAT
* *
126962868 ATTTAAATATTTAAAATATA
1 ATTTATATATTTAAAATAAA
* *
126962888 ATTTATATATTTTAATTAAA
1 ATTTATATATTTAAAATAAA
126962908 ATTTATA
1 ATTTATA
126962915 AATAATTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTTATATATTTAAAATAAA
Found at i:126962938 original size:31 final size:32
Alignment explanation
Indices: 126962870--126962939 Score: 81
Period size: 31 Copynumber: 2.2 Consensus size: 32
126962860 ATGGTTATAT
*
126962870 TTAAATATTTAAAATATAATTTATATATTTTAA
1 TTAAA-ATTTAAAATATAATTAATATATTTTAA
* *
126962903 TTAAAATTTATAA-ATAATTAATAT-TTATTAC
1 TTAAAATTTAAAATATAATTAATATATT-TTAA
126962934 TTAAAA
1 TTAAAA
126962940 ATATTTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 2 0.06
31 19 0.58
32 7 0.21
33 5 0.15
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (32 bp):
TTAAAATTTAAAATATAATTAATATATTTTAA
Found at i:126962958 original size:30 final size:30
Alignment explanation
Indices: 126962918--126962974 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
126962908 ATTTATAAAT
126962918 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
*
126962948 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
126962975 AATAAGTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:126970782 original size:19 final size:20
Alignment explanation
Indices: 126970739--126970787 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
126970729 AATTATTTTC
126970739 ATTACTTTAT-GTATAAAAGA
1 ATTA-TTTATAGTATAAAAGA
*
126970759 TTTATTTATAGTATAAAA-A
1 ATTATTTATAGTATAAAAGA
126970778 ATTATTTATA
1 ATTATTTATA
126970788 AATTCTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (20 bp):
ATTATTTATAGTATAAAAGA
Found at i:126975556 original size:22 final size:22
Alignment explanation
Indices: 126975531--126975580 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
126975521 TCTTAGATCC
126975531 TAAAACCCTAAA-CTTTAAATTT
1 TAAAACCCTAAATC-TTAAATTT
*
126975553 TAAAACTCTAAATCTTAAATTT
1 TAAAACCCTAAATCTTAAATTT
126975575 TAAAAC
1 TAAAAC
126975581 GCTCAACATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 25 0.96
23 1 0.04
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (22 bp):
TAAAACCCTAAATCTTAAATTT
Found at i:126986876 original size:3 final size:3
Alignment explanation
Indices: 126986863--126986948 Score: 65
Period size: 3 Copynumber: 28.3 Consensus size: 3
126986853 GAGGGCATAT
126986863 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
126986907 ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
126986949 AACAAAGCTC
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
2 9 0.13
3 48 0.71
4 9 0.13
5 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:126986887 original size:12 final size:12
Alignment explanation
Indices: 126986863--126986945 Score: 73
Period size: 12 Copynumber: 6.8 Consensus size: 12
126986853 GAGGGCATAT
126986863 ATAATAT-AATA
1 ATAATATAAATA
126986874 ATAATATAAATA
1 ATAATATAAATA
126986886 ATAATATATACATGA
1 ATAATATA-A-AT-A
126986901 GA-AATA-ATAATA
1 -ATAATATA-AATA
126986913 ATAATATAAATA
1 ATAATATAAATA
* *
126986925 ATAGTAAAAATA
1 ATAATATAAATA
*
126986937 ATAAAATAA
1 ATAATATAA
126986946 TAAAACAAAG
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
11 8 0.13
12 37 0.62
13 4 0.07
14 5 0.08
15 5 0.08
16 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:126986907 original size:21 final size:18
Alignment explanation
Indices: 126986868--126986948 Score: 76
Period size: 18 Copynumber: 4.4 Consensus size: 18
126986858 CATATATAAT
*
126986868 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
126986886 ATAATATATACATGAGAAATA
1 ATAATA-ATA-AT-AGAAATA
*
126986907 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
* *
126986925 ATAGTAAAAATA-ATAA-A
1 ATAATAATAATAGA-AATA
126986942 ATAATAA
1 ATAATAA
126986949 AACAAAGCTC
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
17 8 0.15
18 24 0.44
19 5 0.09
20 5 0.09
21 12 0.22
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (18 bp):
ATAATAATAATAGAAATA
Found at i:126986936 original size:27 final size:27
Alignment explanation
Indices: 126986863--126986949 Score: 78
Period size: 27 Copynumber: 3.4 Consensus size: 27
126986853 GAGGGCATAT
* *
126986863 ATAATAT-AATAATAATATAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
* *
126986889 AT-ATATACAT--GAG-AAATAATAATA
1 ATAATATAAATAATAGTAAA-AATAATA
126986913 ATAATATAAATAATAGTAAAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
126986940 A-AATAATAAA
1 ATAAT-ATAAA
126986950 ACAAAGCTCT
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
23 2 0.04
24 10 0.21
25 11 0.23
26 7 0.15
27 15 0.31
28 3 0.06
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (27 bp):
ATAATATAAATAATAGTAAAAATAATA
Found at i:126987326 original size:23 final size:23
Alignment explanation
Indices: 126987250--126987360 Score: 91
Period size: 23 Copynumber: 4.7 Consensus size: 23
126987240 AATTAGCCTT
* * *
126987250 TCCAAGAAACAAAAACAACCTTCTT
1 TCCAAAAAACAAAAAAAACC-TC-C
* *
126987275 TCCAAAAAAACAAAAAAAAACACC
1 TCC-AAAAAACAAAAAAAACCTCC
126987299 TCCAAAAAACAAAAAAAACCTCC
1 TCCAAAAAACAAAAAAAACCTCC
* *
126987322 -CC-CAAAACAAAGAACAATCCTCC
1 TCCAAAAAACAAA-AA-AAACCTCC
*
126987345 TCCAAAAAACCAAAAA
1 TCCAAAAAACAAAAAA
126987361 CCCACCCCTA
Statistics
Matches: 70, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
21 8 0.11
22 4 0.06
23 26 0.37
24 7 0.10
25 11 0.16
26 14 0.20
ACGTcount: A:0.59, C:0.30, G:0.02, T:0.10
Consensus pattern (23 bp):
TCCAAAAAACAAAAAAAACCTCC
Found at i:126988093 original size:132 final size:132
Alignment explanation
Indices: 126987805--126988589 Score: 1128
Period size: 132 Copynumber: 5.9 Consensus size: 132
126987795 GATATCCGCT
* * * * * *
126987805 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATTTGCTGTTTTCAACTTGTTCCCTAT
1 ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
* * * * ** * * * *
126987870 AAGCACAGGGATGTC--ATGCTGAAGTCTTCGATCTACTTCACTGTAAGCACAGGAATGTCA-GA
66 AAGCACAGGGATGCCAAAT-CTGATGTTTTC-AACTTGTTCCCTATAAGCACAGGGATGCCATGA
**
126987932 TCTGCT
129 --TGAA
* * * * * * * * * * * *
126987938 ATCTTCGATCCG-TTCCCTATAAGCACAGGGATGCCAAATCTGTTGTTTTCAACTTATTCCCTAT
1 ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
126988002 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGATG
66 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGATG
126988067 AA
131 AA
* *
126988069 ATCTTTGATCTGCTTCAATGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
1 ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
* *
126988134 AAGTACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
66 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGATG
126988199 AA
131 AA
* *
126988201 ATCTTCGATCTGCTTCACTGTAAACACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTAT
1 ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
*
126988266 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
66 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGATG
126988331 AA
131 AA
*
126988333 ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGCCAGATCTGCTATCTTCGATTTGTTCCCTAT
1 ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
* *
126988398 AAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGTTG
66 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGATG
126988463 AA
131 AA
* *
126988465 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAAATCTGCTATCTTCGATTTGTTCCCTAT
1 ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
126988530 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCA
66 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCA
126988590 AATCTGATGT
Statistics
Matches: 596, Mismatches: 52, Indels: 9
0.91 0.08 0.01
Matches are distributed among these distances:
131 12 0.02
132 561 0.94
133 21 0.04
134 2 0.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (132 bp):
ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGATG
AA
Found at i:126988119 original size:176 final size:175
Alignment explanation
Indices: 126987825--126988897 Score: 999
Period size: 176 Copynumber: 6.1 Consensus size: 175
126987815 TGCTTCACTG
* * * * * *
126987825 TAAGCACAGGAATGTCAGATTTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGTCATGCT
1 TAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCT
* * * * * *
126987890 GAAGTCTTCGATCTACTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGTTCCC
66 GAAATCTTTGATCT-GTTCACTATAAGCACAGGAATGTCAGATCTGATATCTTCGATCTGTTCCC
* * * *
126987955 TATAAGCACAGGGATGCCAAATCTGTTGTTTTCAACTTATTCCCTA
130 TATAAGCACAGGGATGCCAAATCTGATATCTTCAACTTGTTCCCTA
*
126988001 TAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGAT
1 TAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCT
* * * *
126988066 GAAATCTTTGATCTGCTTCAATGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCC
66 GAAATCTTTGATCTG-TTCACTATAAGCACAGGAATGTCAGATCTGATATCTTCGATCTGTTCCC
* * *
126988131 TATAAGTACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTA
130 TATAAGCACAGGGATGCCAAATCTGATATCTTCAACTTGTTCCCTA
** * * * * * * *
126988177 TAAGCACAGGGATGCC--ATGCTGAAATCTTCGA-TCTGCTTCACTGTAAACACAGGAATGTCA-
1 TAAGCACAGGGATGCCAAAT-CTGATGTTTTCAACT-TG-TTCCCTATAAGCACAGGGATGCCAT
** * * * * * * * *
126988238 GATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTC-AACTTG
63 G--CTGAAATCTTTGATCTGTTCACTATAAGCACAGGAATGTCAGATCTGATATCTTCGATC-TG
* * * *
126988302 TTCCCTATAAGCACAGGGATGCC--ATGCTGAAATCTTCGA-TCTGCTTCACTG
125 TTCCCTATAAGCACAGGGATGCCAAAT-CTGATATCTTCAACT-TG-TTCCCTA
* * * * * * *
126988353 TAAGCACAGGAATGCCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAAT-
1 TAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCC--ATG
*** * * * * * * *
126988417 CTGCTGT-TTTCAACTTGTTCCCTATAAGCACAGGGATGCCATG-T-TGAAATCTTTGATCTGCT
64 CTGAAATCTTTGATC-TGTTCACTATAAGCACAGGAATGTCA-GATCTGATATCTTCGATCTG-T
* * * * * * *
126988479 TCACTGTAAGCACAGGAATGTCAAATCTGCTATCTTCGATTTGTTCCCTA
126 TCCCTATAAGCACAGGGATGCCAAATCTGATATCTTCAACTTGTTCCCTA
126988529 TAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCAAAT-
1 TAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCC--ATG
** * * * * * *
126988593 CTGATGT-TTTCAACTTGTTCCCTATAAGCACAGGGATG-C-CATGCTGAAATCTTCGATCTGCT
64 CTGAAATCTTTGATC-TGTTCACTATAAGCACAGGAATGTCAGAT-CTGATATCTTCGATCTG-T
* * * * * * * *
126988655 TCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTA
126 TCCCTATAAGCACAGGGATGCCAAATCTGATATCTTCAACTTGTTCCCTA
*
126988705 TAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCT
1 TAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCT
* * *
126988770 GAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCC
66 GAAATCTTTGATCTG-TTCACTATAAGCACAGGAATGTCAGATCTGATATCTTCGATCTGTTCCC
* *
126988835 TATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTA
130 TATAAGCACAGGGATGCCAAATCTGATATCTTCAACTTGTTCCCTA
126988881 TAAGCACAGGGATGCCA
1 TAAGCACAGGGATGCCA
126988898 TGCTGAAATC
Statistics
Matches: 760, Mismatches: 106, Indels: 62
0.82 0.11 0.07
Matches are distributed among these distances:
174 9 0.01
175 44 0.06
176 644 0.85
177 54 0.07
178 9 0.01
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (175 bp):
TAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCT
GAAATCTTTGATCTGTTCACTATAAGCACAGGAATGTCAGATCTGATATCTTCGATCTGTTCCCT
ATAAGCACAGGGATGCCAAATCTGATATCTTCAACTTGTTCCCTA
Found at i:126988359 original size:308 final size:306
Alignment explanation
Indices: 126987825--126988765 Score: 1196
Period size: 308 Copynumber: 3.1 Consensus size: 306
126987815 TGCTTCACTG
* * * * *
126987825 TAAGCACAGGAATGTCAGATTTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGTCATGCT
1 TAAGCACAGGGATGCCA-AATTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCT
* * *
126987890 GAAGTCTTCGATCTACTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGTTCCC
65 GAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCC
* *
126987955 TATAAGCACAGGGATGCCAAATCTGTTGTTTTCAACTTATTCCCTATAAGCACAGGGATGCCAAA
130 TATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCC--A
** * * * * * ** * *
126988020 T-CTGATGTTTTC-AACTTG-TTCCCTATAAGCACAGGGATGCCATGA-TGAAATCTTTGATCTG
193 TGCTGAAATCTTCGATC-TGCTTCACTGTAAGCACAGGAATGCCA-GACTGCTATCTTCGATTTG
** * * * * * * * *
126988081 CTTCAATGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTA
256 -TTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTA
*
126988133 TAAGTACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCT
1 TAAGCACAGGGATGCCAAAT-TGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCT
*
126988198 GAAATCTTCGATCTGCTTCACTGTAAACACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCC
65 GAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCC
126988263 TATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATG
130 TATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATG
126988328 CTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGCCAGATCTGCTATCTTCGATTTGTTC
195 CTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGCCAGA-CTGCTATCTTCGATTTGTTC
126988393 CCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTA
259 CCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTA
** ** * * * * * *
126988441 TAAGCACAGGGATGCCATGTTGAAATCTTTGATC-TGCTTCACTGTAAGCACAGGAATGTCAAAT
1 TAAGCACAGGGATGCCAAATTGATGT-TTTCAACTTG-TTCCCTATAAGCACAGGGATG-C-CAT
** * * * * * * * * * *
126988505 -CTGCTATCTTCGATTTG-TTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTC-AACTTGT
62 GCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATC-TGT
126988567 TCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGC
126 TCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGC
*
126988632 CATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTT
191 CATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGCCAGA-CTGCTATCTTCGATTT
126988697 GTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTA
255 GTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTA
126988749 TAAGCACAGGGATGCCA
1 TAAGCACAGGGATGCCA
126988766 TGCTGAAATC
Statistics
Matches: 564, Mismatches: 58, Indels: 22
0.88 0.09 0.03
Matches are distributed among these distances:
306 2 0.00
307 22 0.04
308 511 0.91
309 27 0.05
310 2 0.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (306 bp):
TAAGCACAGGGATGCCAAATTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
AAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCT
ATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGC
TGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGCCAGACTGCTATCTTCGATTTGTTCCC
TATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTA
Found at i:126988621 original size:132 final size:132
Alignment explanation
Indices: 126987825--126989022 Score: 1059
Period size: 132 Copynumber: 9.1 Consensus size: 132
126987815 TGCTTCACTG
* * * * * *
126987825 TAAGCACAGGAATGTCAGATTTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGTC--ATG
1 TAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAAT-
* * * ** * * * * * * * * *
126987888 CTGAAGTCTTCGATCTACTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA-TCCGTT
65 CTGATGTTTTC-AACTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACT-TGTT
126987952 CCCTA
128 CCCTA
* * * * * * * * *
126987957 TAAGCACAGGGATGCCAAATCTGTTGTTTTCAACTTATTCCCTATAAGCACAGGGATGCCAAATC
1 TAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATC
* * * *
126988022 TGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCC--ATGATGAAATCTTTGATC-TGCTT
66 TGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCAAAT-CTGATAT-TTTCAACTTG-TT
** *
126988084 CAATG
128 CCCTA
*
126988089 TAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGTACAGGGATGCCAAATC
1 TAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATC
* * *
126988154 TGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCC--ATGCTGAAATCTTCGA-TCTGCTT
66 TGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCAAAT-CTGATATTTTCAACT-TG-TT
* *
126988216 CACTG
128 CCCTA
* *
126988221 TAAACACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATC
1 TAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATC
* * *
126988286 TGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCC--ATGCTGAAATCTTCGA-TCTGCTT
66 TGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCAAAT-CTGATATTTTCAACT-TG-TT
* *
126988348 CACTG
128 CCCTA
*
126988353 TAAGCACAGGAATGCCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATC
1 TAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATC
* ** * * *
126988418 TGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGT-TGAAATCTTTGATC-TGCTTC
66 TGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATAT-TTTCAACTTG-TTC
* *
126988481 ACTG
129 CCTA
*
126988485 TAAGCACAGGAATGTCAAATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATC
1 TAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATC
*
126988550 TGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCC
66 TGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACTTGTTCCC
126988615 TA
131 TA
* * ** * * * * * *
126988617 TAAGCACAGGGATG-C-CATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGA
1 TAAGCACAGGAATGTCAGAT-CTGCTATCTTCGATTTG-TTCCCTATAAGCACAGGGATGCCAAA
* * * * * * *
126988680 TCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTC
64 TCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACTTGTTC
126988745 CCTA
129 CCTA
* * ** * * * * * * *
126988749 TAAGCACAGGGATG-C-CATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGA
1 TAAGCACAGGAATGTCAGAT-CTGCTATCTTCGATTTG-TTCCCTATAAGCACAGGGATGCCAAA
* * * * * *
126988812 TCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTC
64 TCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACTTGTTC
126988877 CCTA
129 CCTA
* * ** * * * * * * *
126988881 TAAGCACAGGGATG-C-CATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGA
1 TAAGCACAGGAATGTCAGAT-CTGCTATCTTCGATTTG-TTCCCTATAAGCACAGGGATGCCAAA
* * * * * * * *
126988944 TCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATCCCAAATCTGTTGTTTTCAACTTGTTC
64 TCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACTTGTTC
126989009 CCTA
129 CCTA
126989013 TAAGCACAGG
1 TAAGCACAGG
126989023 GATGCCATGC
Statistics
Matches: 964, Mismatches: 86, Indels: 32
0.89 0.08 0.03
Matches are distributed among these distances:
130 4 0.00
131 22 0.02
132 918 0.95
133 17 0.02
134 3 0.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (132 bp):
TAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATC
TGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACTTGTTCCC
TA
Found at i:126988766 original size:308 final size:308
Alignment explanation
Indices: 126987949--126988897 Score: 1288
Period size: 308 Copynumber: 3.1 Consensus size: 308
126987939 TCTTCGATCC
* *
126987949 GTTCCCTATAAGCACAGGGATGCCAAATCTGTTGTTTTCAACTTATTCCCTATAAGCACAGGGAT
1 GTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGAT
** * * * * * **
126988014 GCCAAAT-CTGATGTTTTC-AACTTG-TTCCCTATAAGCACAGGGATGCCATGA--TGAAATCTT
66 GCC--ATGCTGAAATCTTCGATC-TGCTTCACTGTAAGCACAGGAATGCCA-GATCTGCTATCTT
* * ** * * * * * * * * *
126988074 TGATCTGCTTCAATGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGTA
127 CGATTTG-TTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCA
** ** * * * * * * *
126988139 CAGGGATGCCAAATCTGATGT-TTTCAACTTG-TTCCCTATAAGCACAGGGATG-C-CATGCTGA
191 CAGGGATGCCATGT-TGAAATCTTTGATC-TGCTTCACTGTAAGCACAGGAATGTCAAAT-CTGC
* * * * * * * * * * * *
126988200 AATCTTCGATCTGCTTCACTGTAAACACAGGAATGTCAGATCTGCTATCTTCGA-TCT
253 TATCTTCGATTTG-TTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACT-T
126988257 GTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGAT
1 GTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGAT
126988322 GCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGCCAGATCTGCTATCTTCGAT
66 GCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGCCAGATCTGCTATCTTCGAT
126988387 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGG
131 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGG
126988452 ATGCCATGTTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAAATCTGCTATCTTCG
196 ATGCCATGTTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAAATCTGCTATCTTCG
126988517 ATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTT
261 ATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTT
126988565 GTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGAT
1 GTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGAT
*
126988630 GCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGAT
66 GCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGCCAGATCTGCTATCTTCGAT
126988695 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGG
131 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGG
* *
126988760 ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
196 ATGCCATGTTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAAATCTGCTATCTTCG
126988825 ATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTT
261 ATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTT
126988873 GTTCCCTATAAGCACAGGGATGCCA
1 GTTCCCTATAAGCACAGGGATGCCA
126988898 TGCTGAAATC
Statistics
Matches: 581, Mismatches: 50, Indels: 20
0.89 0.08 0.03
Matches are distributed among these distances:
306 2 0.00
307 18 0.03
308 531 0.91
309 28 0.05
310 2 0.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (308 bp):
GTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGAT
GCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGCCAGATCTGCTATCTTCGAT
TTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGG
ATGCCATGTTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAAATCTGCTATCTTCG
ATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTT
Found at i:126988931 original size:308 final size:307
Alignment explanation
Indices: 126987949--126989029 Score: 1265
Period size: 308 Copynumber: 3.5 Consensus size: 307
126987939 TCTTCGATCC
* *
126987949 GTTCCCTATAAGCACAGGGATGCCAAATCTGTTGTTTTCAACTTATTCCCTATAAGCACAGGGAT
1 GTTCCCTATAAGCACAGGGATGCC-AATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGAT
** * * * * * **
126988014 GCCAAAT-CTGATGTTTTC-AACTTG-TTCCCTATAAGCACAGGGATGCCATGA--TGAAATCTT
65 GCC--ATGCTGAAATCTTCGATC-TGCTTCACTGTAAGCACAGGAATGCCA-GATCTGCTATCTT
* * ** * * * * * * * * *
126988074 TGATCTGCTTCAATGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGTA
126 CGATTTG-TTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCA
** * * * * * *
126988139 CAGGGATGCCAAAT-CTGATGT-TTTCAACTTG-TTCCCTATAAGCACAGGGATG-C-CATGCTG
190 CAGGGATGCC--ATGCTGAAATCTTTGATC-TGCTTCACTGTAAGCACAGGAATGTCAAAT-CTG
** * * * * * * * * * * *
126988199 AAATCTTCGATCTGCTTCACTGTAAACACAGGAATGTCAGATCTGCTATCTTCGA-TCT
251 CTATCTTCGATTTG-TTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACT-T
126988257 GTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGAT
1 GTTCCCTATAAGCACAGGGATGCC-AATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGAT
126988322 GCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGCCAGATCTGCTATCTTCGAT
65 GCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGCCAGATCTGCTATCTTCGAT
126988387 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGG
130 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGG
*
126988452 ATGCCATGTTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAAATCTGCTATCTTCG
195 ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAAATCTGCTATCTTCG
126988517 ATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTT
260 ATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTT
126988565 GTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGAT
1 GTTCCCTATAAGCACAGGGATGCC-AATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGAT
*
126988630 GCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGAT
65 GCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGCCAGATCTGCTATCTTCGAT
126988695 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGG
130 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGG
*
126988760 ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
195 ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAAATCTGCTATCTTCG
126988825 ATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTT
260 ATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTT
** * * * * *
126988873 GTTCCCTATAAGCACAGGGATGCC-ATGCTGAAATCTTTGATC-TGCTTCACTGTAAGCACAGGA
1 GTTCCCTATAAGCACAGGGATGCCAAT-CTGATGT-TTTCAACTTG-TTCCCTATAAGCACAGGG
* ** * * * * * * * * *
126988936 ATGTCA-GATCTGCTATCTTCGATTTG-TTCCCTATAAGCACAGGGATCCCAAATCTGTTGTTTT
63 ATGCCATG--CTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGCCAGATCTGCTATCTT
* *
126988999 CAACTTGTTCCCTATAAGCACAGGGATGCCA
126 CGATTTGTTCCCTATAAGCACAGGGATGCCA
126989030 TGCTGAAATC
Statistics
Matches: 686, Mismatches: 71, Indels: 32
0.87 0.09 0.04
Matches are distributed among these distances:
306 6 0.01
307 26 0.04
308 610 0.89
309 42 0.06
310 2 0.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (307 bp):
GTTCCCTATAAGCACAGGGATGCCAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATG
CCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGCCAGATCTGCTATCTTCGATT
TGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGA
TGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAAATCTGCTATCTTCGA
TTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTT
Found at i:126989023 original size:132 final size:132
Alignment explanation
Indices: 126988563--126989088 Score: 998
Period size: 132 Copynumber: 4.0 Consensus size: 132
126988553 TGTTTTCAAC
126988563 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
1 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
*
126988628 ATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
66 ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
126988693 AT
131 AT
*
126988695 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGG
1 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
126988760 ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
66 ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
126988825 AT
131 AT
126988827 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
1 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
126988892 ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
66 ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
126988957 AT
131 AT
* *
126988959 TTGTTCCCTATAAGCACAGGGATCCCAAATCTGTTGTTTTCAACTTGTTCCCTATAAGCACAGGG
1 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
* *
126989024 ATGCCATGCTGAAATCTTGGATCTGTTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
66 ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
126989089 GTCTGCTCCT
Statistics
Matches: 387, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
132 387 1.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (132 bp):
TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
AT
Found at i:126989226 original size:68 final size:69
Alignment explanation
Indices: 126989141--126989328 Score: 267
Period size: 68 Copynumber: 2.8 Consensus size: 69
126989131 TCTTCTTCCA
* * *
126989141 CTGAAACTTCAAGGAGATCTGCTTTGGCTTTTAGCCTCTCCAATGCCATTTCT-GGAAGAAGAGG
1 CTGAAACTTCAAGGAGATCTGCTTTGGCTTTTAGCCGCTCCAATGCCATTTCTAGGAAGAAAAGA
*
126989205 T-TT
66 TCCT
* *
126989208 GCTGAAACTTCAAAGAGATCTG-TTGTGGCTTTTAGCCGCTCCAACGCCATTT-TAGGAAGAAAA
1 -CTGAAACTTCAAGGAGATCTGCTT-TGGCTTTTAGCCGCTCCAATGCCATTTCTAGGAAGAAAA
126989271 GATCCT
64 GATCCT
*
126989277 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTC
1 CTGAAACTTCAAGGAGATCTGCTTTGGCTTTTAGCCGCTCCAATGCCATTTC
126989329 AGGGAAAAAG
Statistics
Matches: 106, Mismatches: 9, Indels: 9
0.85 0.07 0.07
Matches are distributed among these distances:
67 3 0.03
68 101 0.95
69 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (69 bp):
CTGAAACTTCAAGGAGATCTGCTTTGGCTTTTAGCCGCTCCAATGCCATTTCTAGGAAGAAAAGA
TCCT
Found at i:126989469 original size:43 final size:43
Alignment explanation
Indices: 126989394--126989951 Score: 314
Period size: 43 Copynumber: 12.8 Consensus size: 43
126989384 GCCCATCATC
* * * * *
126989394 TTCGATCTATTTCCCAACTGCTTAAGAGGTTAAGATCTGTAAA
1 TTCGATCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAA
* * * * *
126989437 TTCAACCTGTTACCCTACTGGTTAGGGGGTTAAGGTTTGTAAA
1 TTCGATCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAA
* * *
126989480 TCTTC-AGCCTGTTACCCTACTGCTTAGGGGTTTAAG-GCTTGTAAA
1 --TTCGA-TCTGTTACCCTACTGCTTAGGGGGTTAAGATC-TGTAAA
* * * ** **
126989525 TCCG-GCTTGTTACCCTACTGCTTAGGGGGTTAA-AGCCAATCATT
1 TTCGATC-TGTTACCCTACTGCTTAGGGGGTTAAGA-TCTGT-AAA
** * *
126989569 TTTTATCTGTTTCCCTACTGCTTAGAGGGTTAAGATCTGTAAA
1 TTCGATCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAA
* * * *
126989612 TCTTC-AGCCAGTTACCCTACTGCTTAGGGGTTTAAG-GCTTGTAAA
1 --TTCGA-TCTGTTACCCTACTGCTTAGGGGGTTAAGATC-TGTAAA
* * * ** * **
126989657 TTCGGTTTGTTACCCTACTGCTTAGGGGATTAAAGCCCAT-CATC
1 TTCGATCTGTTACCCTACTGCTTAGGGGGTT-AAGATC-TGTAAA
* * **
126989701 TTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGAT-TTTCATC
1 TTCGATCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGT-AAA
* * **
126989744 TTCGATCTGTTTCCCTACTGCTTAGGTGGTTAAGATCT-TCATC
1 TTCGATCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGT-AAA
* *** *
126989787 TTCGATCTGTTTCCCTACTGCTTAGGGAAATAAGATTTG-AAA
1 TTCGATCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAA
* * * * *
126989829 TTCGGTCTGTTACCCTACCGATTAGGGGTTTAAGACTCTTCGT--C
1 TTCGATCTGTTACCCTACTGCTTAGGGGGTTAAGA-TC-T-GTAAA
*
126989873 TTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAA
1 TTCGATCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAA
* * *
126989916 TCTTC-AGCCTGTTACCCTATTGCTTAGGGGCTTAAG
1 --TTCGA-TCTGTTACCCTACTGCTTAGGGGGTTAAG
126989952 GCTTGTGAAT
Statistics
Matches: 400, Mismatches: 84, Indels: 60
0.74 0.15 0.11
Matches are distributed among these distances:
41 3 0.01
42 31 0.08
43 169 0.42
44 96 0.24
45 101 0.25
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (43 bp):
TTCGATCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAA
Found at i:126989599 original size:132 final size:132
Alignment explanation
Indices: 126989443--126989774 Score: 481
Period size: 132 Copynumber: 2.5 Consensus size: 132
126989433 TAAATTCAAC
* * *
126989443 CTGTTACCCTACTGGTTAGGGGGTTAAGGTTTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATTTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
* * **
126989508 GGTTTAAGGCTTGTAAATCCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCAATCATTTTTT
66 GGTTTAAGGCTTGTAAATCCGGCTTGTTACCCTACTGCTTAGGGGATTAAAGCCAATCATCTTCG
126989573 AT
131 AT
* * *
126989575 CTGTTTCCCTACTGCTTAGAGGGTTAAGATCTGTAAATCTTCAGCCAGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATTTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
* * *
126989640 GGTTTAAGGCTTGTAAATTCGGTTTGTTACCCTACTGCTTAGGGGATTAAAGCCCATCATCTTCG
66 GGTTTAAGGCTTGTAAATCCGGCTTGTTACCCTACTGCTTAGGGGATTAAAGCCAATCATCTTCG
126989705 AT
131 AT
* * *
126989707 CTGTTTCCCTACTGCTTAGGGGGTTAAGATTT-T-CATCTTC-GATCTGTTTCCCTACTGCTTAG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATTTGTAAATCTTCAG-CCTGTTACCCTACTGCTTAG
126989769 GTGGTT
65 G-GGTT
126989775 AAGATCTTCA
Statistics
Matches: 179, Mismatches: 19, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
129 1 0.01
130 24 0.13
131 5 0.03
132 149 0.83
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (132 bp):
CTGTTTCCCTACTGCTTAGGGGGTTAAGATTTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
GGTTTAAGGCTTGTAAATCCGGCTTGTTACCCTACTGCTTAGGGGATTAAAGCCAATCATCTTCG
AT
Found at i:126989613 original size:87 final size:87
Alignment explanation
Indices: 126989351--126989649 Score: 266
Period size: 88 Copynumber: 3.4 Consensus size: 87
126989341 ATTTGTAATT
** * * * * *
126989351 TCCAG-CTGTTACCCTACTATTTAGGGGTTTAAGGCCCATCA-TCTTCGATCTATTTCCCAACTG
1 TCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCAATCATTTTTC-ATCTGTTTCCCTACTG
126989414 CTTA-AGAGGTTAAGATCTGTAAA
65 CTTAGAG-GGTTAAGATCTGTAAA
* * * **** * * * * *
126989437 TTCAACCTGTTACCCTACTGGTTAGGGGGTTAAGGTTTGTAAATCTTCAGCCTGTTACCCTACTG
1 TCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCAATCATTTTTCA-TCTGTTTCCCTACTG
*
126989502 CTTAG-GGGTTTAAG-GCTTGTAAA
65 CTTAGAGGG-TTAAGATC-TGTAAA
* * * *
126989525 TCCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCAATCATTTTTTATCTGTTTCCCTACTGC
1 TCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCAATCATTTTTCATCTGTTTCCCTACTGC
126989590 TTAGAGGGTTAAGATCTGTAAA
66 TTAGAGGGTTAAGATCTGTAAA
* *
126989612 TCTTCAGCCAGTTACCCTACTGCTTAGGGGTTTAAGGC
1 TC--CAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC
126989650 TTGTAAATTC
Statistics
Matches: 166, Mismatches: 37, Indels: 17
0.75 0.17 0.08
Matches are distributed among these distances:
86 3 0.02
87 63 0.38
88 71 0.43
89 29 0.17
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (87 bp):
TCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCAATCATTTTTCATCTGTTTCCCTACTGC
TTAGAGGGTTAAGATCTGTAAA
Found at i:126989670 original size:175 final size:176
Alignment explanation
Indices: 126989356--126989905 Score: 539
Period size: 175 Copynumber: 3.2 Consensus size: 176
126989346 TAATTTCCAG
** * * * * *
126989356 CTGTTACCCTACTATTTAGGGGTTTAAGGCCCATCATCTTCGATCTATTTCCCAACTGCTTA-AG
1 CTGTTACCCTACTGCTTAGGGGGTTAAAGCCAATCATCTTCGATCTGTTTCCCTACTGCTTAGAG
* * *
126989420 AGGTTAAGATCTGTAAA--TTCAACCTGTTACCCTACTGGTTAGGGGGTTAAGGTTTGTAAATCT
66 AGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGATTAAGGTTTGTAAA--T
* * *** *
126989483 TCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAATC-CG-G
129 TCGGTCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCAT-AATCTCGAT
* **
126989530 CTTGTTACCCTACTGCTTAGGGGGTTAAAGCCAATCATTTTTTATCTGTTTCCCTACTGCTTAGA
1 C-TGTTACCCTACTGCTTAGGGGGTTAAAGCCAATCATCTTCGATCTGTTTCCCTACTGCTTAGA
* * *
126989595 G-GGTTAAGATCTGTAAATCTTCAGCCAGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAATT
65 GAGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGATTAAGGTTTGTAAATT
* * * *
126989659 CGGTTTGTTACCCTACTGCTTAGGGGATTAAAGCCCATCATCTTCGAT
130 CGGTCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATAATC-TCGAT
* ****
126989707 CTGTTTCCCTACTGCTTAGGGGGTT-AAGATTTTCATCTTCGATCTGTTTCCCTACTGCTTAG-G
1 CTGTTACCCTACTGCTTAGGGGGTTAAAGCCAATCATCTTCGATCTGTTTCCCTACTGCTTAGAG
* * * * * * *
126989770 TGGTTAAGATCT-T-CATCTTC-GATCTGTTTCCCTACTGCTTAGGGAAATAAGATTTG-AAATT
66 AGGTTAAGATCTGTAAATCTTCAG-CCTGTTACCCTACTGCTTAGGGGATTAAGGTTTGTAAATT
* * * * * **
126989831 CGGTCTGTTACCCTACCGATTAGGGGTTTAAGACTCTTCGTCTTCGAT
130 CGGTCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATAATC-TCGAT
*
126989879 CTGTTTCCCTACTGCTTAGGGGGTTAA
1 CTGTTACCCTACTGCTTAGGGGGTTAA
126989906 GATCTGTAAA
Statistics
Matches: 315, Mismatches: 51, Indels: 21
0.81 0.13 0.05
Matches are distributed among these distances:
172 70 0.22
173 33 0.10
174 6 0.02
175 140 0.44
176 27 0.09
177 39 0.12
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (176 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAAGCCAATCATCTTCGATCTGTTTCCCTACTGCTTAGAG
AGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGATTAAGGTTTGTAAATTC
GGTCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATAATCTCGAT
Found at i:126989907 original size:86 final size:85
Alignment explanation
Indices: 126989574--126989951 Score: 368
Period size: 86 Copynumber: 4.3 Consensus size: 85
126989564 TCATTTTTTA
* * * * *
126989574 TCTGTTTCCCTACTGCTTAGAGGGTTAAGA-TCTGTAAATCTTC-AGCCAGTTACCCTACTGCTT
1 TCTGTTACCCTACTGCTTAG-GGGTTAAGACTCT-T-CATCTTCGA-TCTGTTTCCCTACTGCTT
* **
126989637 AGGGGTTTAAGGCTTGTAAATTCGG
62 AGGGGGTTAAGATTTG-AAATTCGG
* * *
126989662 TTTGTTACCCTACTGCTTAGGGGATTAA-AGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAG
1 TCTGTTACCCTACTGCTTAGGGG-TTAAGA-CTCTTCATCTTCGATCTGTTTCCCTACTGCTTAG
* ** *
126989726 GGGGTTAAGATTTTCATCTTCGA
64 GGGGTTAAGA-TTTGAAATTCGG
*
126989749 TCTGTTTCCCTACTGCTTAGGTGGTTAAGA-TCTTCATCTTCGATCTGTTTCCCTACTGCTTAGG
1 TCTGTTACCCTACTGCTTAGG-GGTTAAGACTCTTCATCTTCGATCTGTTTCCCTACTGCTTAGG
***
126989813 GAAATAAGATTTGAAATTCGG
65 GGGTTAAGATTTGAAATTCGG
* * *
126989834 TCTGTTACCCTACCGATTAGGGGTTTAAGACTCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGG
1 TCTGTTACCCTACTGCTTAGGGG-TTAAGACTCTTCATCTTCGATCTGTTTCCCTACTGCTTAGG
* *
126989899 GGGTTAAGATCTGTAAATCTTCAG
65 GGGTTAAGATTTG-AAA--TTCGG
* *
126989923 CCTGTTACCCTATTGCTTAGGGGCTTAAG
1 TCTGTTACCCTACTGCTTAGGGG-TTAAG
126989952 GCTTGTGAAT
Statistics
Matches: 238, Mismatches: 40, Indels: 23
0.79 0.13 0.08
Matches are distributed among these distances:
84 2 0.01
85 32 0.13
86 80 0.34
87 66 0.28
88 29 0.12
89 29 0.12
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.37
Consensus pattern (85 bp):
TCTGTTACCCTACTGCTTAGGGGTTAAGACTCTTCATCTTCGATCTGTTTCCCTACTGCTTAGGG
GGTTAAGATTTGAAATTCGG
Found at i:126990121 original size:66 final size:66
Alignment explanation
Indices: 126990015--126990141 Score: 227
Period size: 66 Copynumber: 1.9 Consensus size: 66
126990005 TCTATGCTTA
* *
126990015 TGTCAAATGATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
1 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCATAACTAGATGTGTTATGAAT
126990080 G
66 G
*
126990081 TGTCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCATAACTAGATGTGTTAT
1 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCATAACTAGATGTGTTAT
126990142 TATATGAATG
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (66 bp):
TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCATAACTAGATGTGTTATGAAT
G
Found at i:126991337 original size:6 final size:6
Alignment explanation
Indices: 126991324--126991359 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
126991314 TTTTTTTTTT
*
126991324 TTTGCC TTTACC TTTGCC TTTGCC TTTGCC TTTGCC
1 TTTGCC TTTGCC TTTGCC TTTGCC TTTGCC TTTGCC
126991360 ATATAACTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.03, C:0.33, G:0.14, T:0.50
Consensus pattern (6 bp):
TTTGCC
Found at i:126994165 original size:19 final size:20
Alignment explanation
Indices: 126994141--126994187 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
126994131 AGTGAAAGTT
126994141 TAATGCAAATGT-TGCAATG
1 TAATGCAAATGTATGCAATG
*
126994160 TAATGCAAATGTATGGAATG
1 TAATGCAAATGTATGCAATG
126994180 -AATGCAAA
1 TAATGCAAA
126994188 AGAAAGGAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.43, C:0.09, G:0.21, T:0.28
Consensus pattern (20 bp):
TAATGCAAATGTATGCAATG
Found at i:126996623 original size:2 final size:2
Alignment explanation
Indices: 126996616--126996649 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
126996606 ACAATAATAC
* *
126996616 TA TA TA TA AA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
126996650 ATAGAAATAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:126997021 original size:3 final size:3
Alignment explanation
Indices: 126997008--126997093 Score: 65
Period size: 3 Copynumber: 28.3 Consensus size: 3
126996998 GAGGGCATAT
126997008 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
126997052 ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
126997094 AACAAAGCTC
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
2 9 0.13
3 48 0.71
4 9 0.13
5 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:126997032 original size:12 final size:12
Alignment explanation
Indices: 126997008--126997090 Score: 73
Period size: 12 Copynumber: 6.8 Consensus size: 12
126996998 GAGGGCATAT
126997008 ATAATAT-AATA
1 ATAATATAAATA
126997019 ATAATATAAATA
1 ATAATATAAATA
126997031 ATAATATATACATGA
1 ATAATATA-A-AT-A
126997046 GA-AATA-ATAATA
1 -ATAATATA-AATA
126997058 ATAATATAAATA
1 ATAATATAAATA
* *
126997070 ATAGTAAAAATA
1 ATAATATAAATA
*
126997082 ATAAAATAA
1 ATAATATAA
126997091 TAAAACAAAG
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
11 8 0.13
12 37 0.62
13 4 0.07
14 5 0.08
15 5 0.08
16 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:126997052 original size:21 final size:18
Alignment explanation
Indices: 126997013--126997093 Score: 76
Period size: 18 Copynumber: 4.4 Consensus size: 18
126997003 CATATATAAT
*
126997013 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
126997031 ATAATATATACATGAGAAATA
1 ATAATA-ATA-AT-AGAAATA
*
126997052 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
* *
126997070 ATAGTAAAAATA-ATAA-A
1 ATAATAATAATAGA-AATA
126997087 ATAATAA
1 ATAATAA
126997094 AACAAAGCTC
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
17 8 0.15
18 24 0.44
19 5 0.09
20 5 0.09
21 12 0.22
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (18 bp):
ATAATAATAATAGAAATA
Found at i:126997081 original size:27 final size:27
Alignment explanation
Indices: 126997008--126997094 Score: 78
Period size: 27 Copynumber: 3.4 Consensus size: 27
126996998 GAGGGCATAT
* *
126997008 ATAATAT-AATAATAATATAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
* *
126997034 AT-ATATACAT--GAG-AAATAATAATA
1 ATAATATAAATAATAGTAAA-AATAATA
126997058 ATAATATAAATAATAGTAAAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
126997085 A-AATAATAAA
1 ATAAT-ATAAA
126997095 ACAAAGCTCT
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
23 2 0.04
24 10 0.21
25 11 0.23
26 7 0.15
27 15 0.31
28 3 0.06
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (27 bp):
ATAATATAAATAATAGTAAAAATAATA
Found at i:126997450 original size:20 final size:20
Alignment explanation
Indices: 126997427--126997464 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
126997417 CTTCTTTCCC
*
126997427 AAAAA-AAAAAACACCTCCA
1 AAAAACAAAAAAAACCTCCA
126997446 AAAAACAAAAAAAACCTCC
1 AAAAACAAAAAAAACCTCC
126997465 CCCAAAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.68, C:0.26, G:0.00, T:0.05
Consensus pattern (20 bp):
AAAAACAAAAAAAACCTCCA
Found at i:126997471 original size:21 final size:21
Alignment explanation
Indices: 126997424--126997475 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
126997414 AACCTTCTTT
126997424 CCCAAAA-AAAAAAACACCTC
1 CCCAAAACAAAAAAACACCTC
**
126997444 CAAAAAACAAAAAAA-ACCTCC
1 CCCAAAACAAAAAAACACCT-C
126997465 CCCAAAACAAA
1 CCCAAAACAAA
126997476 GAACAATCCT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.63, C:0.33, G:0.00, T:0.04
Consensus pattern (21 bp):
CCCAAAACAAAAAAACACCTC
Found at i:126997657 original size:4 final size:4
Alignment explanation
Indices: 126997650--126997676 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
126997640 AGCCAATGTT
126997650 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
126997677 TTTGTGTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:127004084 original size:40 final size:37
Alignment explanation
Indices: 127004011--127004085 Score: 87
Period size: 40 Copynumber: 1.9 Consensus size: 37
127004001 GATCGGCTTG
* ***
127004011 AAATTTAATTTAAATAATAAAAATATTTTTAAAATTT
1 AAATTTAATTTAAAAAATAAAAATATAAATAAAATTT
127004048 AAATTTAATTATAAAAATATATAAAATATAAATAAAAT
1 AAATTTAATT-TAAAAA-ATA-AAAATATAAATAAAAT
127004086 ATTCTCTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
37 10 0.32
38 5 0.16
39 3 0.10
40 13 0.42
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (37 bp):
AAATTTAATTTAAAAAATAAAAATATAAATAAAATTT
Found at i:127005452 original size:18 final size:18
Alignment explanation
Indices: 127005431--127005481 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
127005421 TATAAATTAT
127005431 ATAATATATAAAAATAAC
1 ATAATATATAAAAATAAC
*
127005449 ATAATATA-AAAATATTAC
1 ATAATATATAAAA-ATAAC
*
127005467 A-AACA-ATAAAAATAA
1 ATAATATATAAAAATAA
127005482 GTTAAGATGA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
16 4 0.14
17 11 0.39
18 13 0.46
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (18 bp):
ATAATATATAAAAATAAC
Found at i:127010355 original size:154 final size:154
Alignment explanation
Indices: 127010102--127010725 Score: 925
Period size: 154 Copynumber: 4.0 Consensus size: 154
127010092 TTTGACTCAA
* * * * ** *
127010102 TCTCACAACTCACT-AAACAACAACACGAAACACTCAATTCACGTTTAAAAAAAACAGCCAATCG
1 TCTCACAACTCACTGAAA-ATCAACACAAAACACTAAATTCAC-ATTCCAAAAACCAGCCAATCG
* * **
127010166 ACCAAA-CAAACCAAAGC-AAAAAATTGAATCCTAAACTGAATTATAAAAAAACAAGAAACGTTT
64 ACCAAATC--ACCAAAGCGAAAAAA-CGAATCGTAAACTGAATTATAAAAAAACAAGACTCGTTT
127010229 ATAAGAAGCTTAATCAAAATGAAATGTAAT
126 ATAAGAAGCTTAATCAAAAT-AAATGTAAT
* * * * *
127010259 TCTCACAGCCCACT-AACATCAATACAAAACACTAAATTCACATTTCAAAAACCAGCCAATCGAC
1 TCTCACAACTCACTGAAAATCAACACAAAACACTAAATTCACATTCCAAAAACCAGCCAATCGAC
*
127010323 CAAATCACCAAAGCGAAAAAACGAATCGTAAACTGAATTAT-AAAAAACAAGACTCATTTATAAG
66 CAAATCACCAAAGCGAAAAAACGAATCGTAAACTGAATTATAAAAAAACAAGACTCGTTTATAAG
127010387 AAGCTTAATCAAAATAAATGTAAT
131 AAGCTTAATCAAAATAAATGTAAT
*
127010411 TCTCACAACTCACTGAAAATCAACACAAAACACTAAATTCACATTCCAAAAACCAGCCAATCTAC
1 TCTCACAACTCACTGAAAATCAACACAAAACACTAAATTCACATTCCAAAAACCAGCCAATCGAC
*
127010476 CAAATCACCAAAGCGAAAAAACGAATCGTAAACTGAATTATAAAAAAACAAGCCTCGTTTATAAG
66 CAAATCACCAAAGCGAAAAAACGAATCGTAAACTGAATTATAAAAAAACAAGACTCGTTTATAAG
127010541 AAGCTTAATCAAAATAAATGTAAT
131 AAGCTTAATCAAAATAAATGTAAT
*
127010565 TCTCACAACTCACTGAAAATCAACACAAAACACTAAATTCACATTCCAAAAACCAGCCAATCTAC
1 TCTCACAACTCACTGAAAATCAACACAAAACACTAAATTCACATTCCAAAAACCAGCCAATCGAC
* * *
127010630 CAAATCACCAAAGCGAAAAAAAGAATCGTAAACTGAATTATAACAAAACAAGACTCGTTTACAAG
66 CAAATCACCAAAGCGAAAAAACGAATCGTAAACTGAATTATAAAAAAACAAGACTCGTTTATAAG
* *
127010695 AAGCTTAATAAAAACAAATGTAAT
131 AAGCTTAATCAAAATAAATGTAAT
*
127010719 TCACACA
1 TCTCACA
127010726 TCAAACATAT
Statistics
Matches: 432, Mismatches: 31, Indels: 11
0.91 0.07 0.02
Matches are distributed among these distances:
152 21 0.05
153 122 0.28
154 225 0.52
155 29 0.07
156 21 0.05
157 14 0.03
ACGTcount: A:0.50, C:0.22, G:0.08, T:0.20
Consensus pattern (154 bp):
TCTCACAACTCACTGAAAATCAACACAAAACACTAAATTCACATTCCAAAAACCAGCCAATCGAC
CAAATCACCAAAGCGAAAAAACGAATCGTAAACTGAATTATAAAAAAACAAGACTCGTTTATAAG
AAGCTTAATCAAAATAAATGTAAT
Found at i:127010545 original size:307 final size:309
Alignment explanation
Indices: 127010102--127010725 Score: 936
Period size: 307 Copynumber: 2.0 Consensus size: 309
127010092 TTTGACTCAA
* * *
127010102 TCTCACAACTCACTAAACAACAACACGAAACACTCAATTCACGTTTAAAAAAAACAGCCAATCGA
1 TCTCACAACTCACTAAACAACAACACAAAACACTAAATTCACGATTAAAAAAAACAGCCAATCGA
*
127010167 CCAAACAAACCAAAGCAAAAAATTGAATCCTAAACTGAATTATAAAAAAACAAGAAACGTTTATA
66 CCAAAC-AACCAAAGCAAAAAATCGAATCCTAAACTGAATTATAAAAAAACAAGAAACGTTTATA
* * *
127010232 AGAAGCTTAATCAAAATGAAATGTAATTCTCACAGCCCACT-AACATCAATACAAAACACTAAAT
130 AGAAGCTTAATCAAAAT-AAATGTAATTCTCACAACCCACTGAAAATCAACACAAAACACTAAAT
* *
127010296 TCACATTTCAAAAACCAGCCAATCGACCAAATCACCAAAGCGAAAAAACGAATCGTAAACTGAAT
194 TCACATTCCAAAAACCAGCCAATCGACCAAATCACCAAAGCGAAAAAAAGAATCGTAAACTGAAT
* * *
127010361 TATAA-AAAACAAGACTCATTTATAAGAAGCTTAATCAAAATAAATGTAAT
259 TATAACAAAACAAGACTCATTTACAAGAAGCTTAATAAAAACAAATGTAAT
* ** * *
127010411 TCTCACAACTCACTGAAA-ATCAACACAAAACACTAAATTCAC-ATTCCAAAAACCAGCCAATCT
1 TCTCACAACTCACT-AAACAACAACACAAAACACTAAATTCACGATTAAAAAAAACAGCCAATCG
* ***
127010474 ACCAAATC-ACCAAAGCGAAAAAA-CGAATCGTAAACTGAATTATAAAAAAACAAGCCTCGTTTA
65 ACCAAA-CAACCAAAGC-AAAAAATCGAATCCTAAACTGAATTATAAAAAAACAAGAAACGTTTA
*
127010537 TAAGAAGCTTAATCAAAATAAATGTAATTCTCACAACTCACTGAAAATCAACACAAAACACTAAA
128 TAAGAAGCTTAATCAAAATAAATGTAATTCTCACAACCCACTGAAAATCAACACAAAACACTAAA
*
127010602 TTCACATTCCAAAAACCAGCCAATCTACCAAATCACCAAAGCGAAAAAAAGAATCGTAAACTGAA
193 TTCACATTCCAAAAACCAGCCAATCGACCAAATCACCAAAGCGAAAAAAAGAATCGTAAACTGAA
*
127010667 TTATAACAAAACAAGACTCGTTTACAAGAAGCTTAATAAAAACAAATGTAAT
258 TTATAACAAAACAAGACTCATTTACAAGAAGCTTAATAAAAACAAATGTAAT
*
127010719 TCACACA
1 TCTCACA
127010726 TCAAACATAT
Statistics
Matches: 285, Mismatches: 25, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
306 21 0.07
307 150 0.53
308 75 0.26
309 36 0.13
310 3 0.01
ACGTcount: A:0.50, C:0.22, G:0.08, T:0.20
Consensus pattern (309 bp):
TCTCACAACTCACTAAACAACAACACAAAACACTAAATTCACGATTAAAAAAAACAGCCAATCGA
CCAAACAACCAAAGCAAAAAATCGAATCCTAAACTGAATTATAAAAAAACAAGAAACGTTTATAA
GAAGCTTAATCAAAATAAATGTAATTCTCACAACCCACTGAAAATCAACACAAAACACTAAATTC
ACATTCCAAAAACCAGCCAATCGACCAAATCACCAAAGCGAAAAAAAGAATCGTAAACTGAATTA
TAACAAAACAAGACTCATTTACAAGAAGCTTAATAAAAACAAATGTAAT
Found at i:127011698 original size:23 final size:22
Alignment explanation
Indices: 127011671--127011717 Score: 76
Period size: 23 Copynumber: 2.1 Consensus size: 22
127011661 AATTTCAATG
*
127011671 TTTAATTTTGTATTTAAGTTTTT
1 TTTAATTTAGTATTTAA-TTTTT
127011694 TTTAATTTAGTATTTAATTTTT
1 TTTAATTTAGTATTTAATTTTT
127011716 TT
1 TT
127011718 CAATGTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.70
Consensus pattern (22 bp):
TTTAATTTAGTATTTAATTTTT
Found at i:127013870 original size:26 final size:24
Alignment explanation
Indices: 127013822--127013871 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
127013812 GTCAATTTTA
* *
127013822 AAAAATTATTTTTATACATGATAT
1 AAAAATTATTTATAAACATGATAT
127013846 AAAAATTATATTATAAACATGGATAT
1 AAAAATTAT-TTATAAACAT-GATAT
127013872 GAATTGAGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 9 0.41
25 8 0.36
26 5 0.23
ACGTcount: A:0.50, C:0.04, G:0.06, T:0.40
Consensus pattern (24 bp):
AAAAATTATTTATAAACATGATAT
Found at i:127013948 original size:16 final size:16
Alignment explanation
Indices: 127013927--127013968 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 16
127013917 ATATAAGTCC
127013927 TAAAAAATTATATTAT
1 TAAAAAATTATATTAT
*
127013943 TAAAAAA--ATATTTT
1 TAAAAAATTATATTAT
*
127013957 TATAAAATTATA
1 TAAAAAATTATA
127013969 ACAAAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 12 0.55
16 10 0.45
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TAAAAAATTATATTAT
Found at i:127014664 original size:17 final size:20
Alignment explanation
Indices: 127014642--127014678 Score: 53
Period size: 17 Copynumber: 2.0 Consensus size: 20
127014632 ATAATTGGAC
127014642 TTAAAT-TT-TAAAA-AAAA
1 TTAAATATTCTAAAATAAAA
127014659 TTAAATATTCTAAAATAAAA
1 TTAAATATTCTAAAATAAAA
127014679 ATAGTGGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.35
18 2 0.12
19 5 0.29
20 4 0.24
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (20 bp):
TTAAATATTCTAAAATAAAA
Found at i:127020554 original size:24 final size:25
Alignment explanation
Indices: 127020527--127020581 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
127020517 CAAAGTCAGC
*
127020527 ATTGAAACT-AAA-CTTAAACACTAA
1 ATTGAAA-TAAAATCTTAAACACCAA
* *
127020551 ATTGAGATAAAATCTTAGACACCAA
1 ATTGAAATAAAATCTTAAACACCAA
127020576 ATTGAA
1 ATTGAA
127020582 TATTAAAACT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
23 1 0.04
24 9 0.36
25 15 0.60
ACGTcount: A:0.51, C:0.15, G:0.09, T:0.25
Consensus pattern (25 bp):
ATTGAAATAAAATCTTAAACACCAA
Found at i:127030765 original size:40 final size:39
Alignment explanation
Indices: 127030651--127030769 Score: 170
Period size: 39 Copynumber: 3.0 Consensus size: 39
127030641 ATAAAGTATG
*
127030651 GTTTTAATTAATAATAAAAACAAAATAGTAT-GGGGAAT
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAGT
127030689 GTTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAGT
1 G-TTTTAATTAATAATAAAAACAAAATAGTATGGGGGAGT
* *
127030729 AGTTTTAATTAATAAT-AAAACAAAGTAGCATGGGGGGAGT
1 -GTTTTAATTAATAATAAAAACAAAATAGTAT-GGGGGAGT
127030769 G
1 G
127030770 GAATCAACTT
Statistics
Matches: 74, Mismatches: 3, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
38 1 0.01
39 44 0.59
40 28 0.38
41 1 0.01
ACGTcount: A:0.45, C:0.03, G:0.21, T:0.30
Consensus pattern (39 bp):
GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAGT
Found at i:127032484 original size:2 final size:2
Alignment explanation
Indices: 127032479--127032517 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
127032469 TTTTTTTTTA
127032479 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
127032518 GTGCGTGTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:127033502 original size:31 final size:30
Alignment explanation
Indices: 127033467--127033543 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 30
127033457 TGAAAATCTG
127033467 AATTAGTCCCTTCAAAAAATTTAAAATGTCT
1 AATTAG-CCCTTCAAAAAATTTAAAATGTCT
* ** * *
127033498 AATTAAGCCATTCAAAAGTTTTAAAATTTTT
1 AATT-AGCCCTTCAAAAAATTTAAAATGTCT
127033529 AATTAGACCCTTCAA
1 AATTAG-CCCTTCAA
127033544 TATTTTTGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
30 2 0.05
31 34 0.89
32 2 0.05
ACGTcount: A:0.42, C:0.16, G:0.06, T:0.36
Consensus pattern (30 bp):
AATTAGCCCTTCAAAAAATTTAAAATGTCT
Found at i:127036730 original size:17 final size:19
Alignment explanation
Indices: 127036687--127036730 Score: 58
Period size: 17 Copynumber: 2.4 Consensus size: 19
127036677 TATGAATTTA
127036687 AATTTTTTAATATTTCTAT
1 AATTTTTTAATATTTCTAT
127036706 -ATATTTTT-AT-TTTCTAT
1 AAT-TTTTTAATATTTCTAT
127036723 AATTTTTT
1 AATTTTTT
127036731 TTACATCTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 12 0.52
18 6 0.26
19 5 0.22
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (19 bp):
AATTTTTTAATATTTCTAT
Found at i:127038347 original size:21 final size:22
Alignment explanation
Indices: 127038307--127038349 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
127038297 TAAACAAGTA
127038307 AATTAATTGAAAATTTTTAATT
1 AATTAATTGAAAATTTTTAATT
127038329 AATTAAATT-AAAA-TTTTAATT
1 AATT-AATTGAAAATTTTTAATT
127038350 TGGTTTCCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 8 0.40
22 8 0.40
23 4 0.20
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
AATTAATTGAAAATTTTTAATT
Found at i:127045287 original size:22 final size:21
Alignment explanation
Indices: 127045261--127045312 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 21
127045251 ATTATTTTAT
127045261 TTAAATTTAATTATAAAA-TTA
1 TTAAATTTAA-TATAAAACTTA
127045282 TATAAATTTGAATATAAAACTT-
1 T-TAAATTT-AATATAAAACTTA
127045304 TTAAATTTA
1 TTAAATTTA
127045313 TATTTTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 15 0.54
23 4 0.14
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (21 bp):
TTAAATTTAATATAAAACTTA
Found at i:127045927 original size:11 final size:11
Alignment explanation
Indices: 127045913--127045955 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
127045903 CATTTTCCTG
127045913 TTATTTTGTTA
1 TTATTTTGTTA
*
127045924 TTATTTTGCTA
1 TTATTTTGTTA
*
127045935 TTATATTGTTA
1 TTATTTTGTTA
*
127045946 CTATTTTGTT
1 TTATTTTGTT
127045956 GGCATTTGCG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.19, C:0.05, G:0.09, T:0.67
Consensus pattern (11 bp):
TTATTTTGTTA
Found at i:127045953 original size:22 final size:22
Alignment explanation
Indices: 127045904--127045953 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
127045894 TTTTGCTGCC
* * * *
127045904 ATTTTCCTGTTATTTTGTTATT
1 ATTTTGCTATTATATTGTTACT
127045926 ATTTTGCTATTATATTGTTACT
1 ATTTTGCTATTATATTGTTACT
127045948 ATTTTG
1 ATTTTG
127045954 TTGGCATTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.18, C:0.08, G:0.10, T:0.64
Consensus pattern (22 bp):
ATTTTGCTATTATATTGTTACT
Found at i:127049309 original size:4 final size:4
Alignment explanation
Indices: 127049300--127049325 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
127049290 CATTATGTTG
127049300 ATAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC AT
127049326 TTCTGCAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAC
Found at i:127052535 original size:35 final size:33
Alignment explanation
Indices: 127052491--127052577 Score: 99
Period size: 35 Copynumber: 2.6 Consensus size: 33
127052481 TTTTTTTCTT
*
127052491 TATATATTTTAAAATGTTTATAAATTTTTTAAAAA
1 TATATATTTTAAAATATTTATAAA--TTTTAAAAA
*
127052526 TATAAATTTTAAAAATATTT-TAAATTTTAAAAA
1 TATATATTTT-AAAATATTTATAAATTTTAAAAA
*
127052559 -AT-TATTTTAAAATTTTTAT
1 TATATATTTTAAAATATTTAT
127052578 TGAGAGAATC
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
30 8 0.17
31 6 0.13
32 2 0.04
33 9 0.20
35 13 0.28
36 8 0.17
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (33 bp):
TATATATTTTAAAATATTTATAAATTTTAAAAA
Found at i:127052537 original size:15 final size:15
Alignment explanation
Indices: 127052517--127052570 Score: 58
Period size: 18 Copynumber: 3.5 Consensus size: 15
127052507 TTTATAAATT
127052517 TTTTAAAAATATAAA
1 TTTTAAAAATATAAA
127052532 TTTTAAAAATATTTTAAA
1 TTTTAAAAATA---TAAA
*
127052550 TTTTAAAAA-AT-TA
1 TTTTAAAAATATAAA
127052563 TTTTAAAA
1 TTTTAAAA
127052571 TTTTTATTGA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
13 9 0.26
14 1 0.03
15 11 0.31
17 1 0.03
18 13 0.37
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TTTTAAAAATATAAA
Found at i:127052564 original size:20 final size:18
Alignment explanation
Indices: 127052517--127052574 Score: 68
Period size: 15 Copynumber: 3.2 Consensus size: 18
127052507 TTTATAAATT
127052517 TTTTAAAAATA---TAAA
1 TTTTAAAAATATTTTAAA
127052532 TTTTAAAAATATTTTAAA
1 TTTTAAAAATATTTTAAA
127052550 TTTTAAAAAATTATTTTAAAA
1 TTTT-AAAAA-TATTTT-AAA
127052571 TTTT
1 TTTT
127052575 TATTGAGAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
15 11 0.30
18 8 0.22
19 5 0.14
20 6 0.16
21 7 0.19
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTTAAAAATATTTTAAA
Found at i:127054050 original size:30 final size:30
Alignment explanation
Indices: 127054016--127054094 Score: 81
Period size: 30 Copynumber: 2.7 Consensus size: 30
127054006 TACTAAACTA
* *
127054016 TTTATCGCCAAATTATTTAATTTTATCATT
1 TTTATCACCAAATTATTCAATTTTATCATT
* * * **
127054046 TTTATTATCAAATTGTTCAATTTTATTTTT
1 TTTATCACCAAATTATTCAATTTTATCATT
127054076 TTTATCACCAAA--ATTCAAT
1 TTTATCACCAAATTATTCAAT
127054095 ATGGTTAATC
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
28 6 0.15
30 33 0.85
ACGTcount: A:0.32, C:0.13, G:0.03, T:0.53
Consensus pattern (30 bp):
TTTATCACCAAATTATTCAATTTTATCATT
Found at i:127069205 original size:40 final size:40
Alignment explanation
Indices: 127069160--127069236 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
127069150 ATTCAAGCAC
*
127069160 GCAAGAACAAATACATATAAGTTACCCAGGTAAAGTATGT
1 GCAAGAACAAATACACATAAGTTACCCAGGTAAAGTATGT
*** *
127069200 GCAAGAATTCATACACATAAGTTACCCGGGTAAAGTA
1 GCAAGAACAAATACACATAAGTTACCCAGGTAAAGTA
127069237 CGTGTAACTG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.43, C:0.17, G:0.18, T:0.22
Consensus pattern (40 bp):
GCAAGAACAAATACACATAAGTTACCCAGGTAAAGTATGT
Found at i:127074016 original size:30 final size:29
Alignment explanation
Indices: 127073960--127074020 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
127073950 TAACTTATTT
* *
127073960 TTTTGTCATTTCAGTCTCTATTCTTTTCAA
1 TTTTGTCATTACAGTCTCAATTCTTTT-AA
127073990 TTTTGTCATTACAGTC-CAATTACTTTTAA
1 TTTTGTCATTACAGTCTCAATT-CTTTTAA
127074019 TT
1 TT
127074021 CGAGGAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 8 0.29
30 20 0.71
ACGTcount: A:0.21, C:0.18, G:0.07, T:0.54
Consensus pattern (29 bp):
TTTTGTCATTACAGTCTCAATTCTTTTAA
Found at i:127074219 original size:59 final size:59
Alignment explanation
Indices: 127074145--127074260 Score: 144
Period size: 59 Copynumber: 2.0 Consensus size: 59
127074135 TACAGTCCTT
* **
127074145 GTTCGTTTCAATTTTTGAAATTT-AGTCATTCTACTCTTATTTTGAGGAATTTAGCCCCC
1 GTTCGTTTCAATTTTTGAAATTTAAGTC-TTCTACTCTTAATTCAAGGAATTTAGCCCCC
* * * * *
127074204 GTTCTTTTCAATTTTTTAAGTTTAATTCTTCTACTTTTAATTCAAGGAATTTAGCCC
1 GTTCGTTTCAATTTTTGAAATTTAAGTCTTCTACTCTTAATTCAAGGAATTTAGCCC
127074261 TTCACTTGTT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
59 45 0.94
60 3 0.06
ACGTcount: A:0.23, C:0.17, G:0.11, T:0.48
Consensus pattern (59 bp):
GTTCGTTTCAATTTTTGAAATTTAAGTCTTCTACTCTTAATTCAAGGAATTTAGCCCCC
Found at i:127081046 original size:40 final size:40
Alignment explanation
Indices: 127080981--127081167 Score: 293
Period size: 40 Copynumber: 4.7 Consensus size: 40
127080971 CAATTGAGGA
* *
127080981 TTATATCCGGGTTAAGTCCCGAAGGCATTCATGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
127081021 TTATTTCCGGGTTAAGTCCCAAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
127081061 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
127081101 CTATTTCCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
** * *
127081141 TTACATCCGGGCTAAATCCCGAAGGCA
1 TTATTTCCGGGTTAAGTCCCGAAGGCA
127081168 ATTGGGTTGG
Statistics
Matches: 136, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 136 1.00
ACGTcount: A:0.19, C:0.21, G:0.28, T:0.32
Consensus pattern (40 bp):
TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
Found at i:127086333 original size:51 final size:51
Alignment explanation
Indices: 127086216--127086340 Score: 137
Period size: 51 Copynumber: 2.5 Consensus size: 51
127086206 TATTCTGTAT
* * * * *
127086216 AAATGTTACAGGCTAAATTTATTAAATTATGACCAAATTGACAGAATGTGT
1 AAATATTACGGGCTAAATTTGTTAAATCATGACCAAATTGACAGAATGTGC
* * * *
127086267 AAATATTACGAGCTAAATTTGTTAAATCATTATCAAATTGACATAATGTGC
1 AAATATTACGGGCTAAATTTGTTAAATCATGACCAAATTGACAGAATGTGC
127086318 AAACT-TTGA-GGGCTAAATTTGTT
1 AAA-TATT-ACGGGCTAAATTTGTT
127086341 GTTATATCAA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
51 60 0.97
52 2 0.03
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.35
Consensus pattern (51 bp):
AAATATTACGGGCTAAATTTGTTAAATCATGACCAAATTGACAGAATGTGC
Found at i:127088509 original size:25 final size:26
Alignment explanation
Indices: 127088451--127088511 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 26
127088441 CGAGCTGGAT
* *
127088451 CTGCGAGCTTACATCGCAAGCTAGGC
1 CTGCGAACTTTCATCGCAAGCTAGGC
* *
127088477 TTGCGAACTTTCATC-CAAGCTGGGC
1 CTGCGAACTTTCATCGCAAGCTAGGC
*
127088502 CTGTGAACTT
1 CTGCGAACTT
127088512 ACCTCGTTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
25 17 0.59
26 12 0.41
ACGTcount: A:0.21, C:0.28, G:0.25, T:0.26
Consensus pattern (26 bp):
CTGCGAACTTTCATCGCAAGCTAGGC
Found at i:127090471 original size:2 final size:2
Alignment explanation
Indices: 127090464--127090493 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
127090454 CCCATCCCAA
*
127090464 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
127090494 GTTTAAATTA
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:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:127091596 original size:35 final size:36
Alignment explanation
Indices: 127091533--127091603 Score: 135
Period size: 35 Copynumber: 2.0 Consensus size: 36
127091523 AGAGGACAAT
127091533 TATGAAAGAAGTGATATTTTTATAGTATACGAAAAA
1 TATGAAAGAAGTGATATTTTTATAGTATACGAAAAA
127091569 TATGAAAGAAGTGATA-TTTTATAGTATACGAAAAA
1 TATGAAAGAAGTGATATTTTTATAGTATACGAAAAA
127091604 GAGGTTAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 19 0.54
36 16 0.46
ACGTcount: A:0.48, C:0.03, G:0.17, T:0.32
Consensus pattern (36 bp):
TATGAAAGAAGTGATATTTTTATAGTATACGAAAAA
Found at i:127093635 original size:16 final size:16
Alignment explanation
Indices: 127093614--127093647 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
127093604 TCTATACACG
127093614 GAGACTTACGTATCTC
1 GAGACTTACGTATCTC
*
127093630 GAGACTTATGTATCTC
1 GAGACTTACGTATCTC
127093646 GA
1 GA
127093648 TATTACGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (16 bp):
GAGACTTACGTATCTC
Found at i:127096403 original size:28 final size:29
Alignment explanation
Indices: 127096346--127096413 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 29
127096336 AAAAATTTTC
* *
127096346 AAAAATAATATATATAATTATTAAATATT
1 AAAAATAATATAAATAATTATTAAAAATT
*
127096375 -AATATAATATAAATAATT-TTAAAAAATT
1 AAAAATAATATAAATAATTATT-AAAAATT
127096403 AAAAATAATAT
1 AAAAATAATAT
127096414 GGCGGGCTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 2 0.06
28 22 0.67
29 9 0.27
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (29 bp):
AAAAATAATATAAATAATTATTAAAAATT
Found at i:127098183 original size:21 final size:21
Alignment explanation
Indices: 127098156--127098203 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
127098146 TTCTAAACAT
127098156 TATATAAAAAAATAATCAAAA
1 TATATAAAAAAATAATCAAAA
* * * *
127098177 TTTATAATAAAATTATTAAAA
1 TATATAAAAAAATAATCAAAA
127098198 TATATA
1 TATATA
127098204 TTATACATTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
TATATAAAAAAATAATCAAAA
Found at i:127101684 original size:31 final size:31
Alignment explanation
Indices: 127101649--127101713 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
127101639 ATTTTAGATA
* * *
127101649 AATCTGACCCTCAAC-TTTTTAAAAATAGTCG
1 AATCTCACCATCAACATTTATAAAAA-AGTCG
*
127101680 AATCTCACCATCAACATTTATAAAAAAGTTG
1 AATCTCACCATCAACATTTATAAAAAAGTCG
127101711 AAT
1 AAT
127101714 TATTATTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 20 0.69
32 9 0.31
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.31
Consensus pattern (31 bp):
AATCTCACCATCAACATTTATAAAAAAGTCG
Found at i:127102231 original size:12 final size:12
Alignment explanation
Indices: 127102214--127102249 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
127102204 CGACCTGCCC
127102214 ATATTAATTTTT
1 ATATTAATTTTT
*
127102226 ATATTATTTTTT
1 ATATTAATTTTT
127102238 ATA-TAATTTTT
1 ATATTAATTTTT
127102249 A
1 A
127102250 AAAAATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 8 0.36
12 14 0.64
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:127109790 original size:2 final size:2
Alignment explanation
Indices: 127109783--127109825 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
127109773 TCAAGATAAG
127109783 AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
127109824 AT
1 AT
127109826 CGATGTGTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:127109917 original size:16 final size:18
Alignment explanation
Indices: 127109881--127109921 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
127109871 GTCAGATTGC
*
127109881 ATTTAAATATATATATAT
1 ATTTAAAAATATATATAT
127109899 ATTTAAAAAT-TAT-TAT
1 ATTTAAAAATATATATAT
127109915 ATTTAAA
1 ATTTAAA
127109922 GAGTGAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.45
17 3 0.14
18 9 0.41
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTTAAAAATATATATAT
Found at i:127110019 original size:20 final size:21
Alignment explanation
Indices: 127109980--127110025 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
127109970 CCTAAGATGA
**
127109980 AAATTTTTTATTTAGGATTTT
1 AAATTTTTTATTTAAAATTTT
*
127110001 GAATTTTTT-TTTAAAATTTT
1 AAATTTTTTATTTAAAATTTT
127110021 AAATT
1 AAATT
127110026 ACTAAAGGTA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.61
Consensus pattern (21 bp):
AAATTTTTTATTTAAAATTTT
Found at i:127110745 original size:24 final size:24
Alignment explanation
Indices: 127110713--127110763 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
127110703 CGTCCCATTA
127110713 TTCCTTTAATTAAAATTAGGGTTT
1 TTCCTTTAATTAAAATTAGGGTTT
127110737 TTCCTTTAATTAAAATTAGGGTTT
1 TTCCTTTAATTAAAATTAGGGTTT
127110761 TTC
1 TTC
127110764 TTTTCCACGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.27, C:0.10, G:0.12, T:0.51
Consensus pattern (24 bp):
TTCCTTTAATTAAAATTAGGGTTT
Found at i:127111139 original size:25 final size:26
Alignment explanation
Indices: 127111111--127111165 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 26
127111101 GAGATGTGAA
127111111 TTAAGTTATAAAATT-TAT-ACAATTT
1 TTAAGTTAT-AAATTATATAACAATTT
* * *
127111136 TTAATTTGTAAATTATATAATAATTT
1 TTAAGTTATAAATTATATAACAATTT
127111162 TTAA
1 TTAA
127111166 AAAATTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 5 0.20
25 10 0.40
26 10 0.40
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.51
Consensus pattern (26 bp):
TTAAGTTATAAATTATATAACAATTT
Found at i:127112905 original size:3 final size:3
Alignment explanation
Indices: 127112899--127112923 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
127112889 TGGTAATCTT
127112899 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
127112924 AATCAGTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:127113816 original size:18 final size:18
Alignment explanation
Indices: 127113789--127113824 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
127113779 GTTAATAATA
*
127113789 TTTTACATTATGTTATTT
1 TTTTACATTATGTAATTT
*
127113807 TTTTATATTATGTAATTT
1 TTTTACATTATGTAATTT
127113825 ATAACACATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.03, G:0.06, T:0.67
Consensus pattern (18 bp):
TTTTACATTATGTAATTT
Found at i:127113947 original size:23 final size:22
Alignment explanation
Indices: 127113921--127113994 Score: 64
Period size: 23 Copynumber: 3.4 Consensus size: 22
127113911 AAATTTTAAC
127113921 AAATAAAAATATATAAAATTATT
1 AAATAAAAAT-TATAAAATTATT
* *
127113944 AAATATTAAATTA-AAAATAATAT
1 AAATA-AAAATTATAAAATTAT-T
* *
127113967 AAATATAAATTTTAAAATT-TT
1 AAATAAAAATTATAAAATTATT
127113988 AAA-AAAA
1 AAATAAAA
127113995 TAAAATGGAC
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
20 3 0.07
21 4 0.09
22 14 0.33
23 18 0.42
24 4 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
AAATAAAAATTATAAAATTATT
Found at i:127121971 original size:29 final size:26
Alignment explanation
Indices: 127121929--127121987 Score: 66
Period size: 29 Copynumber: 2.2 Consensus size: 26
127121919 TAATGATGAA
127121929 AATAATAATAATAACAGTGAAAATAGGAT
1 AATAATAATAATAACAGT-AAAA-A-GAT
*
127121958 AATAATAA-ATATAATAGTAAAAAGAT
1 AATAATAATA-ATAACAGTAAAAAGAT
127121984 AATA
1 AATA
127121988 CTATATGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 7 0.25
27 1 0.04
28 5 0.18
29 15 0.54
ACGTcount: A:0.63, C:0.02, G:0.10, T:0.25
Consensus pattern (26 bp):
AATAATAATAATAACAGTAAAAAGAT
Found at i:127122190 original size:3 final size:3
Alignment explanation
Indices: 127122172--127122229 Score: 71
Period size: 3 Copynumber: 19.0 Consensus size: 3
127122162 AAACGTATAC
* * * *
127122172 TAA TACA TAG TAA TAA TAA TAA CAA TAA TAA TAC TAA TAC TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
127122218 TAA TAA TAA TAA
1 TAA TAA TAA TAA
127122230 ATAAGAAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
3 43 0.93
4 3 0.07
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:127123214 original size:22 final size:22
Alignment explanation
Indices: 127123184--127123254 Score: 99
Period size: 22 Copynumber: 3.2 Consensus size: 22
127123174 TACGAGGACT
127123184 GTGGCGGTATGGGGTTGGTTGTA
1 GTGG-GGTATGGGGTTGGTTGTA
*
127123207 GTGGGGTATGGGCTT-GTTGTA
1 GTGGGGTATGGGGTTGGTTGTA
*
127123228 GTGGGGGTATGGGGCTGGTTGTA
1 GT-GGGGTATGGGGTTGGTTGTA
127123251 GTGG
1 GTGG
127123255 TTGCGGCACA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
21 8 0.19
22 23 0.53
23 12 0.28
ACGTcount: A:0.08, C:0.04, G:0.54, T:0.34
Consensus pattern (22 bp):
GTGGGGTATGGGGTTGGTTGTA
Found at i:127123248 original size:23 final size:23
Alignment explanation
Indices: 127123184--127123254 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
127123174 TACGAGGACT
* *
127123184 GTGGCGGTATGGGGTTGGTTGTA
1 GTGGGGGTATGGGGCTGGTTGTA
*
127123207 GT-GGGGTAT-GGGCTTGTTGTA
1 GTGGGGGTATGGGGCTGGTTGTA
127123228 GTGGGGGTATGGGGCTGGTTGTA
1 GTGGGGGTATGGGGCTGGTTGTA
127123251 GTGG
1 GTGG
127123255 TTGCGGCACA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
21 12 0.29
22 13 0.31
23 17 0.40
ACGTcount: A:0.08, C:0.04, G:0.54, T:0.34
Consensus pattern (23 bp):
GTGGGGGTATGGGGCTGGTTGTA
Found at i:127123409 original size:16 final size:16
Alignment explanation
Indices: 127123353--127123421 Score: 56
Period size: 16 Copynumber: 4.3 Consensus size: 16
127123343 GGCTTCGGGT
*
127123353 TTAG-GGGTTAGTGGG
1 TTAGTGGGTTATTGGG
*
127123368 TTTAGTGGG-TCTT-GG
1 -TTAGTGGGTTATTGGG
127123383 TTAGTTAGGGTTATTGGG
1 TTAG-T-GGGTTATTGGG
127123401 TTAGTGGGTT-TTGGG
1 TTAGTGGGTTATTGGG
127123416 TCTAGT
1 T-TAGT
127123422 TGTTGGGCTC
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
14 4 0.09
15 9 0.20
16 18 0.41
17 7 0.16
18 6 0.14
ACGTcount: A:0.12, C:0.03, G:0.42, T:0.43
Consensus pattern (16 bp):
TTAGTGGGTTATTGGG
Found at i:127124166 original size:2 final size:2
Alignment explanation
Indices: 127124159--127124187 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
127124149 CTAATATGAT
127124159 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 T
127124188 TTATGCATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:127124481 original size:218 final size:218
Alignment explanation
Indices: 127124095--127124619 Score: 845
Period size: 218 Copynumber: 2.4 Consensus size: 218
127124085 TAAACAAACC
*
127124095 TTTAATTTTAATAATGCATACTTTATCCGGATGAAGTATGTATTAGCAAATTCACTAATATGATT
1 TTTAATTTTAATAATGCATACTTTATCCGGATGAAGTATGTATTAGCAGATTCACTAATATG---
* * *
127124160 ATATATATATATATATATATATATATATTTATGCATGTATCACATTACAAAAATAAAAATTTAAA
63 ----AT-TATATATATATATATATAGATTTACGCATGTATCACATTACAAAAACAAAAATTTAAA
*
127124225 TACTTATACATAATAAAACATGTATCTCATTACAATAATAGTTATTTTCCT-AATAACATATTGT
123 TACTTATACATAATAAAACATGTATCTCATTACAATAATAATTATTTT-CTAAATAACATATTGT
*
127124289 TTTATAATTTTATTTCTTATTTAATATTTTAG
187 TTTATAATTTTATTTCTTATTTAATATTTTAA
* * *
127124321 TTTAATTTTAATAATGCATACTTTATTCGGATAAAGTATGTATTAGTAGATTCACTAATATGATT
1 TTTAATTTTAATAATGCATACTTTATCCGGATGAAGTATGTATTAGCAGATTCACTAATATGATT
*
127124386 ATATATATATATATATAGATTTACGCATGTATCACATTATAAAAACAAAAATTTAAATACTTATA
66 ATATATATATATATATAGATTTACGCATGTATCACATTACAAAAACAAAAATTTAAATACTTATA
*
127124451 CATAATAAAACATGTATCTCATTACAATAATAATTATTTTCTAAATAGCATATTGTTTTATAATT
131 CATAATAAAACATGTATCTCATTACAATAATAATTATTTTCTAAATAACATATTGTTTTATAATT
127124516 TTATTTCTTATTTAATATTTTAA
196 TTATTTCTTATTTAATATTTTAA
*
127124539 TTTAATTTTAATAATGCATATTTTATCCGGATGAAGTATGTATTAGCAGATTCACTAATATGATT
1 TTTAATTTTAATAATGCATACTTTATCCGGATGAAGTATGTATTAGCAGATTCACTAATATGATT
*
127124604 CTATATATATATATAT
66 ATATATATATATATAT
127124620 TTACTTTAAT
Statistics
Matches: 282, Mismatches: 16, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
217 2 0.01
218 220 0.78
219 2 0.01
226 58 0.21
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (218 bp):
TTTAATTTTAATAATGCATACTTTATCCGGATGAAGTATGTATTAGCAGATTCACTAATATGATT
ATATATATATATATATAGATTTACGCATGTATCACATTACAAAAACAAAAATTTAAATACTTATA
CATAATAAAACATGTATCTCATTACAATAATAATTATTTTCTAAATAACATATTGTTTTATAATT
TTATTTCTTATTTAATATTTTAA
Found at i:127127003 original size:21 final size:21
Alignment explanation
Indices: 127126962--127127000 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
127126952 GCTTATTTTC
127126962 AAAATTGATAGAGATCAAAGG
1 AAAATTGATAGAGATCAAAGG
127126983 AAAATTGATAG-GATCAAA
1 AAAATTGATAGAGATCAAA
127127001 AGGGTATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.54, C:0.05, G:0.21, T:0.21
Consensus pattern (21 bp):
AAAATTGATAGAGATCAAAGG
Found at i:127130236 original size:30 final size:29
Alignment explanation
Indices: 127130200--127130279 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 29
127130190 GTTTTTTTTT
*
127130200 TAAATATGTTATTAATTTAATGGTAACA-A
1 TAAATATGTTATTAATTTAA-GGAAACATA
* *
127130229 CTAAATATATTATTAATTTAAGGAAATATA
1 -TAAATATGTTATTAATTTAAGGAAACATA
127130259 TAAATATATGTTATTAATTTA
1 T-AA-ATATGTTATTAATTTA
127130280 GATTTACTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
29 6 0.14
30 22 0.51
31 15 0.35
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (29 bp):
TAAATATGTTATTAATTTAAGGAAACATA
Found at i:127136421 original size:74 final size:75
Alignment explanation
Indices: 127136284--127136453 Score: 221
Period size: 74 Copynumber: 2.4 Consensus size: 75
127136274 CATGGAAAAG
**
127136284 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTATC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTGAAAAATGTAGGTATGGTATTATC
*
127136344 CATACTGAGC
66 CATACCGAGC
127136354 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTT-AAAAATGTAGGTATGGTATT-TC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTGAAAAATGTAGGTATGGTATTAT-
*
127136417 CCATACCGAGT
65 CCATACCGAGC
**
127136428 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
127136454 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
70 18 0.20
73 9 0.10
74 47 0.53
75 14 0.16
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.34
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTGAAAAATGTAGGTATGGTATTATC
CATACCGAGC
Found at i:127136449 original size:35 final size:35
Alignment explanation
Indices: 127136288--127136451 Score: 181
Period size: 35 Copynumber: 4.6 Consensus size: 35
127136278 GAAAAGTGTG
* **
127136288 AAATGTAGGTATGGTATCAT-CCATACTGAGTTGTG
1 AAATGTAGGTATGGTAT-TTCCCATACTGAGTTGAA
* **
127136323 AAATGTAGGTATGGTATTAT-CCATACTGAGCTGTG
1 AAATGTAGGTATGGTATT-TCCCATACTGAGTTGAA
127136358 AAATGTAGGTATGGTATTATCAAATCCATACTGAGTT-AA
1 AAATGTAGGTATGGTATT-TC----CCATACTGAGTTGAA
*
127136397 AAATGTAGGTATGGTATTTCCCATACCGAGTTGAA
1 AAATGTAGGTATGGTATTTCCCATACTGAGTTGAA
127136432 AAATGTAGGTATGGTATTTC
1 AAATGTAGGTATGGTATTTC
127136452 AATGAGGAAA
Statistics
Matches: 116, Mismatches: 6, Indels: 14
0.85 0.04 0.10
Matches are distributed among these distances:
34 11 0.09
35 74 0.64
38 2 0.02
39 18 0.16
40 11 0.09
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (35 bp):
AAATGTAGGTATGGTATTTCCCATACTGAGTTGAA
Found at i:127139416 original size:14 final size:14
Alignment explanation
Indices: 127139397--127139427 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
127139387 GAAAAGCCTA
127139397 GTTATTTCTGTTAG
1 GTTATTTCTGTTAG
127139411 GTTATTTCTGTTAG
1 GTTATTTCTGTTAG
127139425 GTT
1 GTT
127139428 CGATCTCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.13, C:0.06, G:0.23, T:0.58
Consensus pattern (14 bp):
GTTATTTCTGTTAG
Found at i:127139811 original size:23 final size:23
Alignment explanation
Indices: 127139767--127139811 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
127139757 ATCAATTTAA
*
127139767 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
127139790 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
127139812 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:127144299 original size:18 final size:17
Alignment explanation
Indices: 127144264--127144296 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
127144254 CTTTTTATTC
127144264 TTTTATTATTTCATTTA
1 TTTTATTATTTCATTTA
127144281 TTTTACTTATTT-ATTT
1 TTTTA-TTATTTCATTT
127144297 TATCATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTATTATTTCATTTA
Found at i:127147606 original size:269 final size:269
Alignment explanation
Indices: 127147120--127147663 Score: 1018
Period size: 269 Copynumber: 2.0 Consensus size: 269
127147110 ACATTTTGCA
*
127147120 CTAAAATAGTTTTGGACAGCAGCAATAGTCTAACTTTGAAAAATCTCCAAAAATTGTAGAAATCT
1 CTAAAACAGTTTTGGACAGCAGCAATAGTCTAACTTTGAAAAATCTCCAAAAATTGTAGAAATCT
*
127147185 AATTAGAGGATAAATAAAATATTAAATTAAAGCTTATTGAGTCTAGTTTCTTATAGAAGAAACGG
66 AATTAGAGGATAAATAAAATATTAAATTAAAGCTTATTAAGTCTAGTTTCTTATAGAAGAAACGG
*
127147250 TGTAAGCAATGGAATTGTAAATCATGAGATATAATAAGTTTTGTGAGACAATGTCAGAATGATTT
131 TGTAAGAAATGGAATTGTAAATCATGAGATATAATAAGTTTTGTGAGACAATGTCAGAATGATTT
*
127147315 TGGGTTCCTCTGTTCTAACTTTGGAAAATCATCAAAAATTGGAGAAAAATA-ATTAAGGGATTAA
196 TGGGTTCCCCTGTTCTAACTTTGGAAAATCATCAAAAATTGGAGAAAAATATA-TAAGGGATTAA
127147379 ATTTATATGT
260 ATTTATATGT
127147389 CTAAAACAGTTTTGGACAGCAGCAATAGTCTAACTTTGAAAAATCTCCAAAAATTGTAGAAATCT
1 CTAAAACAGTTTTGGACAGCAGCAATAGTCTAACTTTGAAAAATCTCCAAAAATTGTAGAAATCT
*
127147454 AATTAGATGATAAATAAAATATTAAATTAAAGCTTATTAAGTCTAGTTTCTTATAGAAGAAACGG
66 AATTAGAGGATAAATAAAATATTAAATTAAAGCTTATTAAGTCTAGTTTCTTATAGAAGAAACGG
127147519 TGTAAGAAATGGAATTGTAAATCATGAGATATAATAAGTTTTGTGAGACAATGTCAGAATGATTT
131 TGTAAGAAATGGAATTGTAAATCATGAGATATAATAAGTTTTGTGAGACAATGTCAGAATGATTT
127147584 TGGGTTCCCCTGTTCTAACTTTGGAAAATCATCAAAAATTGGAGAAAAATATATAAGGGATTAAA
196 TGGGTTCCCCTGTTCTAACTTTGGAAAATCATCAAAAATTGGAGAAAAATATATAAGGGATTAAA
127147649 TTTATATGT
261 TTTATATGT
*
127147658 TTAAAA
1 CTAAAA
127147664 TCCTTAAAGA
Statistics
Matches: 268, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
269 267 1.00
270 1 0.00
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.33
Consensus pattern (269 bp):
CTAAAACAGTTTTGGACAGCAGCAATAGTCTAACTTTGAAAAATCTCCAAAAATTGTAGAAATCT
AATTAGAGGATAAATAAAATATTAAATTAAAGCTTATTAAGTCTAGTTTCTTATAGAAGAAACGG
TGTAAGAAATGGAATTGTAAATCATGAGATATAATAAGTTTTGTGAGACAATGTCAGAATGATTT
TGGGTTCCCCTGTTCTAACTTTGGAAAATCATCAAAAATTGGAGAAAAATATATAAGGGATTAAA
TTTATATGT
Found at i:127151929 original size:23 final size:23
Alignment explanation
Indices: 127151885--127151929 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
127151875 ATCAATTCAA
*
127151885 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
127151908 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
127151930 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:127155194 original size:2 final size:2
Alignment explanation
Indices: 127155187--127155213 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
127155177 ATTGATAGAA
127155187 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
127155214 CACCAAAGTA
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:127156214 original size:32 final size:32
Alignment explanation
Indices: 127156173--127156237 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
127156163 TTTTGGATCT
*
127156173 AGAATGGATAGATTCAAGAAATAAGATAATTA
1 AGAATGGATAGATTCAAGAAATAAGACAATTA
127156205 AGAATGGATAGATTCAAGAAATAAGACAATTA
1 AGAATGGATAGATTCAAGAAATAAGACAATTA
127156237 A
1 A
127156238 AGATATCCAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.54, C:0.05, G:0.18, T:0.23
Consensus pattern (32 bp):
AGAATGGATAGATTCAAGAAATAAGACAATTA
Found at i:127187875 original size:18 final size:18
Alignment explanation
Indices: 127187852--127187890 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
127187842 TATGTACATA
*
127187852 TTCTCCTATTTATTCACT
1 TTCTCCAATTTATTCACT
127187870 TTCTCCAATTTATTCACT
1 TTCTCCAATTTATTCACT
127187888 TTC
1 TTC
127187891 ATCACATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.18, C:0.28, G:0.00, T:0.54
Consensus pattern (18 bp):
TTCTCCAATTTATTCACT
Found at i:127189685 original size:29 final size:29
Alignment explanation
Indices: 127189643--127189702 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
127189633 AAATAAACGT
127189643 ATGTATTCATTTTGAAACCTTTTTAGATA
1 ATGTATTCATTTTGAAACCTTTTTAGATA
127189672 ATGTATTCATTTTGAAACCTTTTTAGATA
1 ATGTATTCATTTTGAAACCTTTTTAGATA
127189701 AT
1 AT
127189703 TATGCTTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.32, C:0.10, G:0.10, T:0.48
Consensus pattern (29 bp):
ATGTATTCATTTTGAAACCTTTTTAGATA
Found at i:127189778 original size:24 final size:24
Alignment explanation
Indices: 127189729--127189778 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
127189719 AAATTAAGAA
* *
127189729 TTATTTTTTAATTTCATGTATAAT
1 TTATTTTTTAATTCCATATATAAT
*
127189753 TTATTTTATTAATTCCA-ATATTAT
1 TTATTTT-TTAATTCCATATATAAT
127189777 TT
1 TT
127189779 TATATAGTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (24 bp):
TTATTTTTTAATTCCATATATAAT
Found at i:127204716 original size:29 final size:30
Alignment explanation
Indices: 127204673--127204730 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
127204663 TTAGCCTTAT
* *
127204673 TTGATTCTTTTTAATAGTATAGGGACTAAA
1 TTGATTCTATTTAATAGTAGAGGGACTAAA
127204703 TTGA-TCTATTTAATAGTAGAGGGACTAA
1 TTGATTCTATTTAATAGTAGAGGGACTAA
127204731 TTGGATCAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.40
Consensus pattern (30 bp):
TTGATTCTATTTAATAGTAGAGGGACTAAA
Found at i:127207074 original size:135 final size:135
Alignment explanation
Indices: 127206832--127207261 Score: 700
Period size: 135 Copynumber: 3.2 Consensus size: 135
127206822 ACAATGCCTC
*
127206832 CTGAAACCGGTCTCCATTTTTGCTTTACAGTTCTTGAATCCCCATTTGCTTGACAATAATTCTGA
1 CTGAAACCGGTCTCCATTTTTGCTTTACAGTTCTTGAATCCCCATTTGCTTGACAAGAATTCTGA
*
127206897 CAACTATCACTACTAGATGATTCCAAAGGTTTATCCTTTTTCAGCTCGCTATTAGTCGTATTACT
66 GAACTATCACTACTAGATGATTCCAAAGGTTTATCCTTTTTCAGCTCGCTATTAGTCGTATTACT
127206962 AGAAG
131 AGAAG
127206967 CTGAAACCGGTCTCCATTTTTGCTTTACAGTTCTTGAATCCCCATTTGCTTGACAAGAATTCTGA
1 CTGAAACCGGTCTCCATTTTTGCTTTACAGTTCTTGAATCCCCATTTGCTTGACAAGAATTCTGA
* * *
127207032 GAATTATCACTACTAGATGATTCCAAAGGTTTATCCTTTTTCAGCTTGCTATTACTCGTATTACT
66 GAACTATCACTACTAGATGATTCCAAAGGTTTATCCTTTTTCAGCTCGCTATTAGTCGTATTACT
127207097 AGAAG
131 AGAAG
* * *
127207102 CTGAAATCGGT-TGCCAATTTTGCTTTACAGTTCTTGAATCCCCATTTGTTTGACAAGAATTCTG
1 CTGAAACCGGTCT-CCATTTTTGCTTTACAGTTCTTGAATCCCCATTTGCTTGACAAGAATTCTG
* * * * *
127207166 AGAACTATCACTACTGGATGATTCCAAAGGTTCATCCTTTTTCAGCTCGCTATTGGTTGCATTAC
65 AGAACTATCACTACTAGATGATTCCAAAGGTTTATCCTTTTTCAGCTCGCTATTAGTCGTATTAC
127207231 TAGAAG
130 TAGAAG
* * *
127207237 CTGAAACCAGTCGCCATATTTGCTT
1 CTGAAACCGGTCTCCATTTTTGCTT
127207262 AGGGGCTGTA
Statistics
Matches: 272, Mismatches: 21, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
134 1 0.00
135 271 1.00
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.37
Consensus pattern (135 bp):
CTGAAACCGGTCTCCATTTTTGCTTTACAGTTCTTGAATCCCCATTTGCTTGACAAGAATTCTGA
GAACTATCACTACTAGATGATTCCAAAGGTTTATCCTTTTTCAGCTCGCTATTAGTCGTATTACT
AGAAG
Found at i:127207833 original size:2 final size:2
Alignment explanation
Indices: 127207826--127207863 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
127207816 TCTGCCATGT
127207826 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
127207864 CACACTTAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:127208344 original size:23 final size:23
Alignment explanation
Indices: 127208318--127208365 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
127208308 TTGATATTGC
127208318 TACATTGATTGAGAGTGTCGGAG
1 TACATTGATTGAGAGTGTCGGAG
127208341 TACATTGATTGAGAGTGTCGGAG
1 TACATTGATTGAGAGTGTCGGAG
127208364 TA
1 TA
127208366 AATTCTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.08, G:0.33, T:0.31
Consensus pattern (23 bp):
TACATTGATTGAGAGTGTCGGAG
Found at i:127208522 original size:12 final size:11
Alignment explanation
Indices: 127208493--127208531 Score: 51
Period size: 12 Copynumber: 3.3 Consensus size: 11
127208483 ATTTTTCCTC
127208493 TTTTTATTTAT
1 TTTTTATTTAT
127208504 TTATTTAGTTTAT
1 TT-TTTA-TTTAT
127208517 TTTTTATATTAT
1 TTTTTAT-TTAT
127208529 TTT
1 TTT
127208532 CTCATTTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 3 0.12
12 15 0.60
13 7 0.28
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.77
Consensus pattern (11 bp):
TTTTTATTTAT
Found at i:127209154 original size:15 final size:15
Alignment explanation
Indices: 127209136--127209192 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
127209126 ATTAAATATT
127209136 AATATTTTAATAATA
1 AATATTTTAATAATA
*
127209151 AATATTTATTATAATTATA
1 AATA--T-TT-TAATAATA
*
127209170 AATATATTAATAATA
1 AATATTTTAATAATA
*
127209185 AATGTTTT
1 AATATTTT
127209193 GTAATATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 17 0.52
16 1 0.03
17 2 0.06
18 2 0.06
19 11 0.33
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:127209165 original size:19 final size:20
Alignment explanation
Indices: 127209123--127209174 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
127209113 ATATTATTGA
* *
127209123 AATATTAAATATTAATATTTT
1 AATAATAAATATT-ATATTAT
127209144 AATAATAAATATT-TATTAT
1 AATAATAAATATTATATTAT
*
127209163 AATTATAAATAT
1 AATAATAAATAT
127209175 ATTAATAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 16 0.57
21 12 0.43
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
AATAATAAATATTATATTAT
Found at i:127219863 original size:22 final size:22
Alignment explanation
Indices: 127219819--127219869 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
127219809 TTAAGTCGCT
* * * *
127219819 TATATTTAAAAATTTACTTAAA
1 TATATATAAAAATTAAATAAAA
127219841 TATATATAAAAATTAAATAAAA
1 TATATATAAAAATTAAATAAAA
*
127219863 TTTATAT
1 TATATAT
127219870 TTTTAAAATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
TATATATAAAAATTAAATAAAA
Found at i:127227283 original size:29 final size:29
Alignment explanation
Indices: 127227203--127227283 Score: 76
Period size: 29 Copynumber: 2.7 Consensus size: 29
127227193 TTTTCAAATT
*
127227203 ATTAAAATTGAATGATGAAATTAATTAAAAA
1 ATTAAAATTG-ATGATAAAATTAA-TAAAAA
* * *
127227234 ATTAAAGTTGGTGA-AGAAATTAA-ATAAA
1 ATTAAAATTGATGATA-AAATTAATAAAAA
127227262 ATTCAAAATTGATGATAAAATT
1 ATT-AAAATTGATGATAAAATT
127227284 CAGTGGCATA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
28 7 0.17
29 14 0.34
30 11 0.27
31 9 0.22
ACGTcount: A:0.54, C:0.01, G:0.12, T:0.32
Consensus pattern (29 bp):
ATTAAAATTGATGATAAAATTAATAAAAA
Found at i:127227984 original size:56 final size:56
Alignment explanation
Indices: 127227894--127228004 Score: 213
Period size: 56 Copynumber: 2.0 Consensus size: 56
127227884 TCATTTGCAT
127227894 CTGTTTTTCTTATTACTGTGCATAATAGGAAATGGTCGTATGAACTGTGTTAATCA
1 CTGTTTTTCTTATTACTGTGCATAATAGGAAATGGTCGTATGAACTGTGTTAATCA
*
127227950 CTGTTTTTCTTATTACTGTGCATAATAGGGAATGGTCGTATGAACTGTGTTAATC
1 CTGTTTTTCTTATTACTGTGCATAATAGGAAATGGTCGTATGAACTGTGTTAATC
127228005 GATCTTTATC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.41
Consensus pattern (56 bp):
CTGTTTTTCTTATTACTGTGCATAATAGGAAATGGTCGTATGAACTGTGTTAATCA
Found at i:127235406 original size:30 final size:31
Alignment explanation
Indices: 127235372--127235429 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
127235362 AAAATAGGTT
* *
127235372 AAAATATG-TCATTAGTCCCTGTCCTTTGAC
1 AAAATATGATCATTAATCCCTGTACTTTGAC
* *
127235402 AAAATTTGATCTTTAATCCCTGTACTTT
1 AAAATATGATCATTAATCCCTGTACTTT
127235430 AAAAGTTCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 7 0.30
31 16 0.70
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (31 bp):
AAAATATGATCATTAATCCCTGTACTTTGAC
Found at i:127237217 original size:32 final size:32
Alignment explanation
Indices: 127237181--127237248 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
127237171 CTAATTTCCA
*
127237181 TAAAGTACAGGGACTAGAGGCACATTTAAACC
1 TAAAGAACAGGGACTAGAGGCACATTTAAACC
127237213 TAAAGAACAGGGACTAGAGGCACATTTAAACC
1 TAAAGAACAGGGACTAGAGGCACATTTAAACC
127237245 TAAA
1 TAAA
127237249 AGTAGTTTGG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.44, C:0.18, G:0.21, T:0.18
Consensus pattern (32 bp):
TAAAGAACAGGGACTAGAGGCACATTTAAACC
Found at i:127248319 original size:16 final size:15
Alignment explanation
Indices: 127248285--127248324 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
127248275 TGCCTACTTC
127248285 AAAAAAATTCAAAAT
1 AAAAAAATTCAAAAT
*
127248300 -AAAAAATTCATAATT
1 AAAAAAATTCA-AAAT
127248315 AAAAAAATTC
1 AAAAAAATTC
127248325 CACATCCTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 10 0.45
15 3 0.14
16 9 0.41
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (15 bp):
AAAAAAATTCAAAAT
Found at i:127262052 original size:30 final size:31
Alignment explanation
Indices: 127262000--127262067 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 31
127261990 TTAACACAAC
*
127262000 TTAATAACTTAAATAAAAAC-TTTCAAATAAT
1 TTAATAAATTAAATAAAAACTTTTC-AATAAT
*
127262031 TTAATAAATTAAAT-TAAACTTTTCAATAAT
1 TTAATAAATTAAATAAAAACTTTTCAATAAT
127262061 TTAATAA
1 TTAATAA
127262068 TCATTTTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
30 17 0.50
31 17 0.50
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (31 bp):
TTAATAAATTAAATAAAAACTTTTCAATAAT
Found at i:127271165 original size:21 final size:21
Alignment explanation
Indices: 127271139--127271180 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
127271129 CATTTTTTAT
127271139 TTTAGTTGGACCAGTAAAAAC
1 TTTAGTTGGACCAGTAAAAAC
127271160 TTTAGTTGGACCAGTAAAAAC
1 TTTAGTTGGACCAGTAAAAAC
127271181 CTTGCAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (21 bp):
TTTAGTTGGACCAGTAAAAAC
Found at i:127272061 original size:18 final size:18
Alignment explanation
Indices: 127272038--127272076 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
127272028 TTTCGAGTCT
127272038 TTTCCATCTTTAGCATCC
1 TTTCCATCTTTAGCATCC
*
127272056 TTTCCATCTTTAGCGTCC
1 TTTCCATCTTTAGCATCC
127272074 TTT
1 TTT
127272077 GCTGGAGCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.13, C:0.31, G:0.08, T:0.49
Consensus pattern (18 bp):
TTTCCATCTTTAGCATCC
Found at i:127286041 original size:2 final size:2
Alignment explanation
Indices: 127286034--127286062 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
127286024 TGGTTAACGC
127286034 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 T
127286063 GAACGTTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:127290937 original size:41 final size:46
Alignment explanation
Indices: 127290868--127291000 Score: 141
Period size: 48 Copynumber: 2.9 Consensus size: 46
127290858 CTTCGTTTAC
** * *
127290868 TCGATGTCATAGTTCAACTATGGTCTTACAC-AT-C-T-TCATATA
1 TCGATGTCATAGCCCAGCTATGGTCTTACACAATACATATCACATA
127290910 TCGATGTCATAG-CCAGCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGTCATAGCCCAGCTATGGTCTTACAC--AAT-ACATATCACATA
*
127290958 TCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATC
1 TCGATGTCATAGCCCAGCTATGGTCTTACAC-AAT-ACATATC
127291001 TTACGGATGC
Statistics
Matches: 78, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
41 16 0.21
42 12 0.15
44 2 0.03
46 1 0.01
47 1 0.01
48 28 0.36
49 18 0.23
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (46 bp):
TCGATGTCATAGCCCAGCTATGGTCTTACACAATACATATCACATA
Found at i:127290969 original size:48 final size:48
Alignment explanation
Indices: 127290907--127291078 Score: 176
Period size: 47 Copynumber: 3.6 Consensus size: 48
127290897 ACATCTTCAT
*
127290907 ATATCGATGTCATAG-CCAGCTATGGTCTTACACGTAATCACATATCAC
1 ATATCGATGCCATAGCCCAGCTATGGTCTTACACG-AATCACATATCAC
127290955 ATATCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATAT--C
1 ATATCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCAC
* * * * * * *
127291001 TTA-CGGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCAC
1 ATATC-GATGCCATAGCCCAGCTATGGTCTTACAC-GAATCACATATCAC
* * *
127291050 A-CT-GATGCCATATCCCAGATATGGTCTTA
1 ATATCGATGCCATAGCCCAGCTATGGTCTTA
127291079 TACGGAAATC
Statistics
Matches: 108, Mismatches: 10, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
45 1 0.01
46 29 0.27
47 34 0.31
48 24 0.22
49 20 0.19
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (48 bp):
ATATCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCAC
Found at i:127291026 original size:46 final size:45
Alignment explanation
Indices: 127290886--127291078 Score: 171
Period size: 47 Copynumber: 4.2 Consensus size: 45
127290876 ATAGTTCAAC
* * * *
127290886 TATGGTCTTACAC--ATCTTCATAT-AT-CGATGTCATA-GCCAGC
1 TATGGTCTTACACGAATC-ACATATCATACGATGCCATATCCCAGA
* *
127290927 TATGGTCTTACACGTAATCACATATCACATATCGATGCCATAGCCCAGC
1 TATGGTCTTACACG-AATCACATAT--CATA-CGATGCCATATCCCAGA
*
127290976 TATGGTCTTACACGAATCACATATCTTACGGATGCCATATCCCAGA
1 TATGGTCTTACACGAATCACATATCATAC-GATGCCATATCCCAGA
* * * * *
127291022 TATGGTCTTATACAGTAGCATATATCACACTGATGCCATATCCCAGA
1 TATGGTCTTACAC-GAATCACATATCATAC-GATGCCATATCCCAGA
127291069 TATGGTCTTA
1 TATGGTCTTA
127291079 TACGGAAATC
Statistics
Matches: 128, Mismatches: 13, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
41 13 0.10
43 5 0.04
44 3 0.02
45 1 0.01
46 31 0.24
47 37 0.29
48 19 0.15
49 19 0.15
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.31
Consensus pattern (45 bp):
TATGGTCTTACACGAATCACATATCATACGATGCCATATCCCAGA
Done.