Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr1
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: 35726063
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1821929 characters in sequence are not A, C, G, or T
File 42 of 109
Found at i:13692969 original size:4 final size:4
Alignment explanation
Indices: 13692953--13693570 Score: 909
Period size: 4 Copynumber: 155.0 Consensus size: 4
13692943 CTTTAGTAAA
* * *
13692953 TATG TATG CATG TATG TATG CATG TATG TATG TATG TATA TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
13693001 TATG TATG TATG TATG TATG TATG TATG TATG TATA TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
13693049 TATG TATA TATG TATG TATG TATG --TG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * * * *
13693095 TATG TATG CATG CATG TATG GATG CATG CATG CATG TATG GATG CATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * * * * * * *
13693143 CATG CATG GATG CATG CATG CATG GATG CATG CATG CATG TATG CATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * *
13693191 CATG CATG TATG CATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
13693239 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
13693287 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
13693335 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
13693383 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
13693431 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * *
13693479 TATG TATG TATG TATG TATG CATG TATG TATG TATG CATG CATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * *
13693527 TATG CT-TG CATG TATG TATG TAGG TATG TATG TATG TAGG TATG
1 TATG -TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
13693571 AAAATGTTAA
Statistics
Matches: 574, Mismatches: 36, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
2 2 0.00
4 571 0.99
5 1 0.00
ACGTcount: A:0.25, C:0.04, G:0.26, T:0.45
Consensus pattern (4 bp):
TATG
Found at i:13706996 original size:21 final size:21
Alignment explanation
Indices: 13706970--13707009 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13706960 CCAATGTGGC
* *
13706970 TAATTAATTGGCCACGTCAGT
1 TAATTAACTAGCCACGTCAGT
13706991 TAATTAACTAGCCACGTCA
1 TAATTAACTAGCCACGTCA
13707010 CCTATCCTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.30
Consensus pattern (21 bp):
TAATTAACTAGCCACGTCAGT
Found at i:13707370 original size:25 final size:23
Alignment explanation
Indices: 13707330--13707375 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
13707320 AATTGTAATT
13707330 TATATTTTATTATTTAATATAGA
1 TATATTTTATTATTTAATATAGA
*
13707353 TATATTTTTAATTATTTATTATA
1 TATA-TTTT-ATTATTTAATATA
13707376 TTATAATGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 4 0.20
25 12 0.60
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (23 bp):
TATATTTTATTATTTAATATAGA
Found at i:13707759 original size:24 final size:24
Alignment explanation
Indices: 13707732--13707786 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
13707722 ATGTGTCATA
*
13707732 ATTTTTTTTATAAAT-ATTTTAATT
1 ATTTATTTTAT-AATCATTTTAATT
13707756 ATTTATTTTATAATCATTTTAATT
1 ATTTATTTTATAATCATTTTAATT
13707780 ATTTATT
1 ATTTATT
13707787 GTAATTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 3 0.10
24 26 0.90
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (24 bp):
ATTTATTTTATAATCATTTTAATT
Found at i:13707762 original size:13 final size:13
Alignment explanation
Indices: 13707746--13707793 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
13707736 TTTTTATAAA
13707746 TATTTTAATTATT
1 TATTTTAATTATT
*
13707759 TATTTT-A-TAAT
1 TATTTTAATTATT
*
13707770 CATTTTAATTATT
1 TATTTTAATTATT
*
13707783 TATTGTAATTA
1 TATTTTAATTA
13707794 ATTACTATTG
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
11 8 0.29
12 2 0.07
13 18 0.64
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (13 bp):
TATTTTAATTATT
Found at i:13711230 original size:23 final size:23
Alignment explanation
Indices: 13711203--13711257 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 23
13711193 AAACTAATCC
13711203 TCTCTCAAATTTCC-TCTC-AATT
1 TCTCTCAAATTTCCTTC-CAAATT
13711225 TGCTCTCAAA-TTCCTTCCAAATT
1 T-CTCTCAAATTTCCTTCCAAATT
13711248 TCTCTCAAAT
1 TCTCTCAAAT
13711258 CCATATTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
22 14 0.48
23 15 0.52
ACGTcount: A:0.25, C:0.31, G:0.02, T:0.42
Consensus pattern (23 bp):
TCTCTCAAATTTCCTTCCAAATT
Found at i:13711252 original size:22 final size:21
Alignment explanation
Indices: 13711203--13711257 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 21
13711193 AAACTAATCC
13711203 TCTCTCAAATTTCCTCTCAATT
1 TCTCTCAAA-TTCCTCTCAATT
13711225 TGCTCTCAAATTCCT-TCCAAATT
1 T-CTCTCAAATTCCTCT-C-AATT
13711248 TCTCTCAAAT
1 TCTCTCAAAT
13711258 CCATATTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
21 1 0.03
22 16 0.53
23 13 0.43
ACGTcount: A:0.25, C:0.31, G:0.02, T:0.42
Consensus pattern (21 bp):
TCTCTCAAATTCCTCTCAATT
Found at i:13711256 original size:11 final size:11
Alignment explanation
Indices: 13711203--13711257 Score: 60
Period size: 11 Copynumber: 4.9 Consensus size: 11
13711193 AAACTAATCC
13711203 TCTCTCAAATT
1 TCTCTCAAATT
13711214 TCCTCTC-AATT
1 T-CTCTCAAATT
13711225 TGCTCTCAAATT
1 T-CTCTCAAATT
*
13711237 CCT-TCCAAATT
1 TCTCT-CAAATT
13711248 TCTCTCAAAT
1 TCTCTCAAAT
13711258 CCATATTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
10 1 0.03
11 26 0.70
12 10 0.27
ACGTcount: A:0.25, C:0.31, G:0.02, T:0.42
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:13711338 original size:20 final size:21
Alignment explanation
Indices: 13711312--13711363 Score: 97
Period size: 20 Copynumber: 2.5 Consensus size: 21
13711302 TGTAACTCCC
13711312 TTTTTTTAAATAATTTTAAAA
1 TTTTTTTAAATAATTTTAAAA
13711333 -TTTTTTAAATAATTTTAAAA
1 TTTTTTTAAATAATTTTAAAA
13711353 TTTTTTTAAAT
1 TTTTTTTAAAT
13711364 GCACTATCAC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 20 0.67
21 10 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTTTTAAATAATTTTAAAA
Found at i:13712506 original size:7 final size:7
Alignment explanation
Indices: 13712494--13712519 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
13712484 TAGTCGATTG
13712494 GTATTTA
1 GTATTTA
13712501 GTATTTA
1 GTATTTA
13712508 GTATTTA
1 GTATTTA
13712515 GTATT
1 GTATT
13712520 ATGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:13713687 original size:23 final size:22
Alignment explanation
Indices: 13713657--13713777 Score: 161
Period size: 23 Copynumber: 5.4 Consensus size: 22
13713647 GAGTTATTAC
13713657 TTAAAAACCCTAAACCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
*
13713680 TTAAAAACCCTAAACCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
* ** *
13713702 TTAAAAACTCTAAACTAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
13713725 TTAAAAACCCTAAACCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
*
13713748 TTAAAAACCCTAAACCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
13713770 TTAAAAAC
1 TTAAAAAC
13713778 NNNNNNNNNN
Statistics
Matches: 85, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
22 28 0.33
23 57 0.67
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (22 bp):
TTAAAAACCCTAAACCCTTAAA
Found at i:13713705 original size:45 final size:45
Alignment explanation
Indices: 13713655--13713777 Score: 167
Period size: 45 Copynumber: 2.7 Consensus size: 45
13713645 TTGAGTTATT
13713655 ACTTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAACCCTT-A
1 ACTTAAAAACCCTAAACCCTT-AAATTAAAAACCCTAAACCCTTAA
* ** *
13713700 ACTTAAAAACTCTAAACTAATTTAATTAAAAACCCTAAACCCTTAA
1 ACTTAAAAACCCTAAAC-CCTTAAATTAAAAACCCTAAACCCTTAA
* *
13713746 AATTAAAAACCCTAAACCCTTAACTTAAAAAC
1 ACTTAAAAACCCTAAACCCTTAAATTAAAAAC
13713778 NNNNNNNNNN
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
45 48 0.73
46 18 0.27
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.24
Consensus pattern (45 bp):
ACTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTTAA
Found at i:13713899 original size:23 final size:22
Alignment explanation
Indices: 13713828--13713910 Score: 85
Period size: 23 Copynumber: 3.6 Consensus size: 22
13713818 NNNNNNNNNN
*
13713828 AACCCTTAACTTAAAAACCCTA
1 AACCCTTAAATTAAAAACCCTA
** * *
13713850 AACTAATTTAATTAAAAACCCAA
1 AAC-CCTTAAATTAAAAACCCTA
13713873 AACCCTTAAAATTAAAAACCCTA
1 AACCCTT-AAATTAAAAACCCTA
*
13713896 AACCCTAAACATTAA
1 AACCCTTAA-ATTAA
13713911 CCCTTAACTT
Statistics
Matches: 48, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
22 7 0.15
23 41 0.85
ACGTcount: A:0.52, C:0.25, G:0.00, T:0.23
Consensus pattern (22 bp):
AACCCTTAAATTAAAAACCCTA
Found at i:13713925 original size:81 final size:79
Alignment explanation
Indices: 13713828--13713977 Score: 255
Period size: 81 Copynumber: 1.9 Consensus size: 79
13713818 NNNNNNNNNN
13713828 AACCCTTAACTTAAAAACCCTAAACTAATTTAATTAAAAACCCAAAACCCTTAAAATTAAAAACC
1 AACCCTTAACTTAAAAACCCTAAACTAATTTAATTAAAAACCC-AAACCCTT-AAATTAAAAACC
13713893 CTAAACCCTAAACATT
64 CTAAACCCTAAACATT
* * *
13713909 AACCCTTAACTTAAAAACCTTAAACTAATTTAATTAAAAACCCTAACCCTTAACTTAAAAACCCT
1 AACCCTTAACTTAAAAACCCTAAACTAATTTAATTAAAAACCCAAACCCTTAAATTAAAAACCCT
13713974 AAAC
66 AAAC
13713978 TAATTTAATT
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
79 17 0.26
80 7 0.11
81 42 0.64
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (79 bp):
AACCCTTAACTTAAAAACCCTAAACTAATTTAATTAAAAACCCAAACCCTTAAATTAAAAACCCT
AAACCCTAAACATT
Found at i:13713947 original size:23 final size:24
Alignment explanation
Indices: 13713914--13714243 Score: 181
Period size: 23 Copynumber: 14.8 Consensus size: 24
13713904 ACATTAACCC
*
13713914 TTAACTTAAAAACCTTAAACTAAT
1 TTAACTTAAAAACCCTAAACTAAT
**
13713938 TTAA-TTAAAAACCCT-AAC--CC
1 TTAACTTAAAAACCCTAAACTAAT
13713958 TTAACTTAAAAACCCTAAACTAAT
1 TTAACTTAAAAACCCTAAACTAAT
* **
13713982 TTAA-TTAAAAACCTTAAAC--CC
1 TTAACTTAAAAACCCTAAACTAAT
* **
13714003 TTAACTTAAAAATCCT-AAC--CC
1 TTAACTTAAAAACCCTAAACTAAT
* **
13714024 TTAAATTAAAAACCCTAAAC-CCT
1 TTAACTTAAAAACCCTAAACTAAT
* * *
13714047 TAAAATTTAAAACCCTAAA-TAA-
1 TTAACTTAAAAACCCTAAACTAAT
**
13714069 TTAACTT-AAAACCCT-AAC--CC
1 TTAACTTAAAAACCCTAAACTAAT
* **
13714089 TTAAATTAAAAACCCTAAAC-CCT
1 TTAACTTAAAAACCCTAAACTAAT
* * * **
13714112 TAAAATTAAAAACCCTAAGC--CC
1 TTAACTTAAAAACCCTAAACTAAT
13714134 TTAACTTAAAAACCCTAAACTAAT
1 TTAACTTAAAAACCCTAAACTAAT
* **
13714158 TTAA-TTAGAAACCCTAAAC-CCT
1 TTAACTTAAAAACCCTAAACTAAT
* * *
13714180 TAAAATTAAAAACCCTAAAC--CT
1 TTAACTTAAAAACCCTAAACTAAT
*
13714202 TTAACTT-AAAACCCTAAGCTAAT
1 TTAACTTAAAAACCCTAAACTAAT
*
13714225 TTAA-TTAAAAACCATAAAC
1 TTAACTTAAAAACCCTAAAC
13714244 CCTAAAAACC
Statistics
Matches: 246, Mismatches: 41, Indels: 39
0.75 0.13 0.12
Matches are distributed among these distances:
20 12 0.05
21 61 0.25
22 57 0.23
23 104 0.42
24 12 0.05
ACGTcount: A:0.48, C:0.24, G:0.01, T:0.27
Consensus pattern (24 bp):
TTAACTTAAAAACCCTAAACTAAT
Found at i:13713956 original size:44 final size:44
Alignment explanation
Indices: 13713908--13714199 Score: 344
Period size: 44 Copynumber: 6.6 Consensus size: 44
13713898 CCCTAAACAT
*
13713908 TAACCCTTAACTTAAAAACCTTAAACTAATTTAATTAAAAACCC
1 TAACCCTTAACTTAAAAACCCTAAACTAATTTAATTAAAAACCC
*
13713952 TAACCCTTAACTTAAAAACCCTAAACTAATTTAATTAAAAACCT
1 TAACCCTTAACTTAAAAACCCTAAACTAATTTAATTAAAAACCC
* ** *
13713996 TAAACCCTTAACTTAAAAATCCT-AAC-CCTTAAATTAAAAACCC
1 T-AACCCTTAACTTAAAAACCCTAAACTAATTTAATTAAAAACCC
* *
13714039 TAAACCCTTAAAATTTAAAACCCTAAA-TAA-TTAACTT-AAAACCC
1 T-AACCCTT-AACTTAAAAACCCTAAACTAATTTAA-TTAAAAACCC
* ** *
13714083 TAACCCTTAAATTAAAAACCCTAAAC-CCTTAAAATTAAAAACCC
1 TAACCCTTAACTTAAAAACCCTAAACTAATT-TAATTAAAAACCC
*
13714127 TAAGCCCTTAACTTAAAAACCCTAAACTAATTTAATTAGAAACCC
1 TAA-CCCTTAACTTAAAAACCCTAAACTAATTTAATTAAAAACCC
*
13714172 TAAACCCTTAAAATTAAAAACCCTAAAC
1 T-AACCCTT-AACTTAAAAACCCTAAAC
13714200 CTTTAACTTA
Statistics
Matches: 212, Mismatches: 23, Indels: 24
0.82 0.09 0.09
Matches are distributed among these distances:
42 16 0.08
43 32 0.15
44 80 0.38
45 63 0.30
46 21 0.10
ACGTcount: A:0.48, C:0.25, G:0.01, T:0.26
Consensus pattern (44 bp):
TAACCCTTAACTTAAAAACCCTAAACTAATTTAATTAAAAACCC
Found at i:13713974 original size:125 final size:127
Alignment explanation
Indices: 13713828--13714218 Score: 394
Period size: 131 Copynumber: 3.0 Consensus size: 127
13713818 NNNNNNNNNN
* *
13713828 AACCCTTAACTTAAAAACCCTAAACTAATTTAATTAAAAACCCAAAACCCTTAAAATTAAAAACC
1 AACCCTTAACTTAAAAACCCTAAACTAATTTAATTAAAAACCCTAAACCCTT-AACTTAAAAACC
*
13713893 CTAAACCCTAAACATT-AACCCTTAA-CTTAAAAACCTT-AAA-CT-AAT-TTAA-TTAAAAACC
65 CTAAACCCTAAA-ATTAAACCCTAAACCTT-AAAA-CTTAAAACCTAAATATTAACTT-AAAACC
13713951 CT
126 CT
* *
13713953 AACCCTTAACTTAAAAACCCTAAACTAATTTAATTAAAAACCTTAAACCCTTAACTTAAAAATCC
1 AACCCTTAACTTAAAAACCCTAAACTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAACCC
* *
13714018 T-AACCCTTAAATTAAAAACCCTAAACCCTTAAAATTTAAAACCCTAAATAATTAACTTAAAACC
66 TAAACCCTAAAATT--AAACCCTAAA-CCTTAAAACTTAAAA-CCTAAAT-ATTAACTTAAAACC
13714082 CT
126 CT
* ** * *
13714084 AACCCTTAAATTAAAAACCCTAAAC-CCTTAAAATTAAAAACCCTAAGCCCTTAACTTAAAAACC
1 AACCCTTAACTTAAAAACCCTAAACTAATT-TAATTAAAAACCCTAAACCCTTAACTTAAAAACC
13714148 CTAAA--CTAATTTAATTAGAAACCCTAAACCCTTAAAA-TTAAAAACCCTAAACCT-TTAACTT
65 CTAAACCCTAA---AATT--AAACCCTAAA-CCTTAAAACTT-AAAA-CCTAAA--TATTAACTT
13714209 AAAACCCT
120 AAAACCCT
13714217 AA
1 AA
13714219 GCTAATTTAA
Statistics
Matches: 230, Mismatches: 16, Indels: 32
0.83 0.06 0.12
Matches are distributed among these distances:
122 3 0.01
123 8 0.03
124 12 0.05
125 60 0.26
126 7 0.03
127 3 0.01
128 2 0.01
129 3 0.01
130 5 0.02
131 68 0.30
132 6 0.03
133 52 0.23
135 1 0.00
ACGTcount: A:0.49, C:0.25, G:0.01, T:0.26
Consensus pattern (127 bp):
AACCCTTAACTTAAAAACCCTAAACTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAACCC
TAAACCCTAAAATTAAACCCTAAACCTTAAAACTTAAAACCTAAATATTAACTTAAAACCCT
Found at i:13714025 original size:110 final size:111
Alignment explanation
Indices: 13713908--13714218 Score: 364
Period size: 110 Copynumber: 2.8 Consensus size: 111
13713898 CCCTAAACAT
*
13713908 TAACCCTTAACTTAAAAACCTTAAACTAATTTAATTAAAAACCCT-AACCCTTAACTTAAAAACC
1 TAACCCTTAACTTAAAAACCCTAAACTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAACC
* * * *
13713972 CTAAACTAATTTAATTAAAAACCTTAAACCCTT-AACTTAAAAATCC
66 CTAAAC-AATTAAATTAAAAACCCTAAACCCTTAAAATTAAAAACCC
* ** * * ***
13714018 TAACCCTTAAATTAAAAACCCTAAAC-CCTTAAAATTTAAAACCCTAAATAATTAACTT-AAAAC
1 TAACCCTTAACTTAAAAACCCTAAACTAATT-TAATTAAAAACCCTAAACCCTTAACTTAAAAAC
**
13714081 CCT-AACCCTTAAATTAAAAACCCTAAACCCTTAAAATTAAAAACCC
65 CCTAAACAATTAAATTAAAAACCCTAAACCCTTAAAATTAAAAACCC
* *
13714127 TAAGCCCTTAACTTAAAAACCCTAAACTAATTTAATTAGAAACCCTAAACCCTTAAAATTAAAAA
1 TAA-CCCTTAACTTAAAAACCCTAAACTAATTTAATTAAAAACCCTAAACCCTT-AACTTAAAAA
** *
13714192 CCCTAAACCTTTAACTT-AAAACCCTAA
64 CCCTAAACAATTAAATTAAAAACCCTAA
13714219 GCTAATTTAA
Statistics
Matches: 166, Mismatches: 27, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
108 22 0.13
109 19 0.11
110 82 0.49
111 15 0.09
112 18 0.11
113 10 0.06
ACGTcount: A:0.48, C:0.25, G:0.01, T:0.27
Consensus pattern (111 bp):
TAACCCTTAACTTAAAAACCCTAAACTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAACC
CTAAACAATTAAATTAAAAACCCTAAACCCTTAAAATTAAAAACCC
Found at i:13717720 original size:21 final size:21
Alignment explanation
Indices: 13717667--13717731 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 21
13717657 ATTAATTAAT
* *
13717667 TTTAATAATGTTATCATTAT-
1 TTTAATACTGTTATTATTATG
**
13717687 TTT--TACTACTATTATTATG
1 TTTAATACTGTTATTATTATG
*
13717706 TTTAATACTGTTATTACTATTG
1 TTTAATACTGTTATTATTA-TG
13717728 TTTA
1 TTTA
13717732 TTTTTTTACT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
18 11 0.32
19 3 0.09
20 3 0.09
21 11 0.32
22 6 0.18
ACGTcount: A:0.29, C:0.08, G:0.06, T:0.57
Consensus pattern (21 bp):
TTTAATACTGTTATTATTATG
Found at i:13717724 original size:27 final size:26
Alignment explanation
Indices: 13717693--13717811 Score: 84
Period size: 27 Copynumber: 4.5 Consensus size: 26
13717683 TTATTTTTAC
*
13717693 TACTATTATTATGTTTAATACTGTTAT
1 TACTATTATTAT-TTTAATACTATTAT
* **
13717720 TACTATTGTTTATTTTTTTACTATTAT
1 TACTATT-ATTATTTTAATACTATTAT
* * *
13717747 TATTATTATTATTATTATTATTATTAT
1 TACTATTATTATT-TTAATACTATTAT
*
13717774 TACTCTTATTTATCTATT--TACTA-T-T
1 TACTATTA-TTAT-T-TTAATACTATTAT
13717799 TACTATTATTATT
1 TACTATTATTATT
13717812 CGTTTATTAA
Statistics
Matches: 76, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
23 1 0.01
24 4 0.05
25 8 0.11
26 6 0.08
27 45 0.59
28 8 0.11
29 4 0.05
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.62
Consensus pattern (26 bp):
TACTATTATTATTTTAATACTATTAT
Found at i:13717747 original size:3 final size:3
Alignment explanation
Indices: 13717741--13717775 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
13717731 ATTTTTTTAC
13717741 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
13717776 CTCTTATTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:13719789 original size:16 final size:16
Alignment explanation
Indices: 13719770--13719804 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
13719760 TTGTGTTTTG
*
13719770 TTTTGGTTGCATGGCA
1 TTTTGGCTGCATGGCA
13719786 TTTTGGCTGCATGGCA
1 TTTTGGCTGCATGGCA
13719802 TTT
1 TTT
13719805 CATTATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.11, C:0.14, G:0.29, T:0.46
Consensus pattern (16 bp):
TTTTGGCTGCATGGCA
Found at i:13722054 original size:19 final size:19
Alignment explanation
Indices: 13722013--13722055 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
13722003 TACCTCTTTT
*
13722013 TGCATTCATTTCATTCATC
1 TGCATTCATTTCATTCATA
13722032 TGCATTACATTTCATT-ATA
1 TGCATT-CATTTCATTCATA
13722051 TGCAT
1 TGCAT
13722056 CAAGTATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.26, C:0.21, G:0.07, T:0.47
Consensus pattern (19 bp):
TGCATTCATTTCATTCATA
Found at i:13727023 original size:37 final size:39
Alignment explanation
Indices: 13726961--13727041 Score: 103
Period size: 38 Copynumber: 2.1 Consensus size: 39
13726951 ATTCTACTTT
* * * *
13726961 TTCATAATTTCACTTTTTCACTTTCAA-TCACTATTCAG
1 TTCAAAATTTCACTTTTCCACTTTCAAGTCAATATTCAA
*
13726999 TTCAAAATTT-ACTTTTCCATTTTCAAGTCAATATTCAA
1 TTCAAAATTTCACTTTTCCACTTTCAAGTCAATATTCAA
13727037 TTCAA
1 TTCAA
13727042 TTCCACACAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 14 0.38
38 23 0.62
ACGTcount: A:0.31, C:0.21, G:0.02, T:0.46
Consensus pattern (39 bp):
TTCAAAATTTCACTTTTCCACTTTCAAGTCAATATTCAA
Found at i:13727072 original size:23 final size:22
Alignment explanation
Indices: 13727029--13727072 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
13727019 TTTCAAGTCA
13727029 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
13727052 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
13727073 TTAATCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:13727304 original size:51 final size:51
Alignment explanation
Indices: 13727246--13727388 Score: 211
Period size: 50 Copynumber: 2.8 Consensus size: 51
13727236 CCGGTTCACA
*
13727246 TAGTAGCCTACACATAGTACTACACATGTGACCATCACTATTC-GATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACT-TTCTGATACACG
* *
13727297 TAGTAGCCTGCACATAGTACTACACATGCGACC-T-ATCTTTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCA-CTTTCTGATACACG
*
13727347 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTTTC
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTTTC
13727389 ACTTTCACAT
Statistics
Matches: 83, Mismatches: 5, Indels: 8
0.86 0.05 0.08
Matches are distributed among these distances:
49 4 0.05
50 41 0.49
51 37 0.45
52 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTTTCTGATACACG
Found at i:13733021 original size:24 final size:24
Alignment explanation
Indices: 13732989--13733046 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
13732979 ATGTTCCAAA
*
13732989 ATTACAGTGGACTGAACCTTGAAG
1 ATTACAGTGGACTGAACCTTAAAG
* *
13733013 ATTACAGTGGATTGAACTTTAAAG
1 ATTACAGTGGACTGAACCTTAAAG
13733037 ATTACAGTGG
1 ATTACAGTGG
13733047 GGGCAATCCG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.29
Consensus pattern (24 bp):
ATTACAGTGGACTGAACCTTAAAG
Found at i:13733497 original size:44 final size:43
Alignment explanation
Indices: 13733349--13733779 Score: 171
Period size: 44 Copynumber: 10.0 Consensus size: 43
13733339 TTAAGCGGAT
* * * *
13733349 TAAAACCACATATCTTATCTCTCTGAACTTGCAGTAGAGCAGA
1 TAAAACCACAGATCTTATCTCCCTGAACTTACAGTGGAGCAGA
** * * * * *
13733392 TAGCATC-GAG-TCTTATCTCCCTAAAATTACAATGGAGCAGA
1 TAAAACCACAGATCTTATCTCCCTGAACTTACAGTGGAGCAGA
* * * * *
13733433 CAAAAGACACCA-ATCCTATCTCCCTGAACTTCCAGTGGAGTAGA
1 TAAAA-CCA-CAGATCTTATCTCCCTGAACTTACAGTGGAGCAGA
* * * * *
13733477 TTAAAACCACAGATCTTATCTCTCAGAAATTGCAGTAGAGCAGA
1 -TAAAACCACAGATCTTATCTCCCTGAACTTACAGTGGAGCAGA
*** * * * * **
13733521 TCGTATC-CAG-TCTTATCTCCCTAAAGTTGCAGCAGAGCAGA
1 TAAAACCACAGATCTTATCTCCCTGAACTTACAGTGGAGCAGA
* ** * * *
13733562 CAGAAAAAACCA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCGGA
1 TA-AAACCA-CAGATCTTATCTCCCTGAACTTACAGTGGAGCAGA
* * * * * *
13733606 TTAAAACCACAAATCTTATCTCCTTGAAGTTGCAGTAGAACAGA
1 -TAAAACCACAGATCTTATCTCCCTGAACTTACAGTGGAGCAGA
*** * * * *
13733650 TCGTATC-TAG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 TAAAACCACAGATCTTATCTCCCTGAACTTACAGTGGAGCAGA
* * * * * *
13733691 CAGAAGA-AACCA-ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGA
1 TA-AA-ACCA-CAGATCTTATCTCCCTGAACTTACAGTGGAGCAGA
* * * *
13733735 TTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA
1 -TAAAACCACAGATCTTATCTCCCTGAACTTACAGTGGAGCAGA
13733779 T
1 T
13733780 CGCATCCAAT
Statistics
Matches: 288, Mismatches: 80, Indels: 40
0.71 0.20 0.10
Matches are distributed among these distances:
41 81 0.28
42 7 0.02
43 19 0.07
44 175 0.61
45 6 0.02
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (43 bp):
TAAAACCACAGATCTTATCTCCCTGAACTTACAGTGGAGCAGA
Found at i:13733794 original size:85 final size:84
Alignment explanation
Indices: 13733442--13733859 Score: 297
Period size: 85 Copynumber: 4.9 Consensus size: 84
13733432 ACAAAAGACA
* * * * * *
13733442 CCAATCCTATCTCCCTGAACTTCCAGTGGAGTAGATTAAAACCACAGATCTTATCTCTCAGAAAT
1 CCAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAAACCACAGATCTTATCTCCCTGAAGT
* *
13733507 TGCAGTAGAGCAGATCGTAT
65 TGCAGTAGAGCAGATAGAAT
* * * ** * **
13733527 CCAGTCTTATCTCCCTAAAGTTGCAGCAGAGCAGACAGAAAAAACCA-ATCTTATCTCCCTGAAG
1 CCAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATA-AAACCA-CAGATCTTATCTCCCTGAAG
* * * *
13733591 TTGCAGTGGAGCGGATTAAAAC
64 TTGCAGTAGAGCAGA-TAGAAT
* * * * *** * *
13733613 CACAAATCTTATCTCCTTGAAGTTGCAGTAGAACAGATCGTATC-TAG-TCTTATCTCCCTGAAG
1 C-C-AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATAAAACCACAGATCTTATCTCCCTGAAG
*
13733676 TTGCAGTGGAGCAGACAGA-AGAAA
64 TTGCAGT--AG-AG-CAGATAGAAT
* *
13733700 CCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGT
1 CCAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAAACCACAGATCTTATCTCCCTGAAGT
* *
13733765 TGCAGTAGAGCAGATCGCAT
65 TGCAGTAGAGCAGATAGAAT
** * * * * * *
13733785 CCAATCCTATCTCTTTGAAGAT-CTAGTGGAGTAGACTAAAACCACAAATCTCATCCCCCTAAAG
1 CCAATCCTATCTCCCTGAAGTTGC-AGTGGAGCAGA-TAAAACCACAGATCTTATCTCCCTGAAG
*
13733849 TTACAGTAGAG
64 TTGCAGTAGAG
13733860 TGGATCGAAG
Statistics
Matches: 256, Mismatches: 62, Indels: 30
0.74 0.18 0.09
Matches are distributed among these distances:
84 6 0.02
85 175 0.68
86 11 0.04
87 9 0.04
88 52 0.20
89 3 0.01
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (84 bp):
CCAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATAAAACCACAGATCTTATCTCCCTGAAGTT
GCAGTAGAGCAGATAGAAT
Found at i:13733804 original size:129 final size:129
Alignment explanation
Indices: 13733314--13733797 Score: 673
Period size: 129 Copynumber: 3.8 Consensus size: 129
13733304 AGTAAAGCTA
* * ** * *
13733314 CAATCCTATCTCCCTAAAGTTGTAGTTAAGCGGATTAAAACCACATATCTTATCTCTCTGAACTT
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
* * * * * * *
13733379 GCAGTAGAGCAGATAGCATCGAGTCTTATCTCCCTAAAATTACAATGGAGCAGACAAAAGACAC
66 GCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACAGAAGAAAC
* * ** * *
13733443 CAATCCTATCTCCCTGAACTTCCAGTGGAGTAGATTAAAACCACAGATCTTATCTCTCAGAAATT
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
* ** *
13733508 GCAGTAGAGCAGATCGTATCCAGTCTTATCTCCCTAAAGTTGCAGCAGAGCAGACAGAAAAAAC
66 GCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACAGAAGAAAC
* *
13733572 CAATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAAATCTTATCTC-CTTGAAGT
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTC-TGAAGT
* * * *
13733636 TGCAGTAGAACAGATCGTATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAAC
65 TGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACAGAAGAAAC
13733701 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
* *
13733766 GCAGTAGAGCAGATCGCATCCAATCCTATCTC
66 GCAGTAGAGCAGATCGCATCCAGTCTTATCTC
13733798 TTTGAAGATC
Statistics
Matches: 310, Mismatches: 43, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
128 1 0.00
129 308 0.99
130 1 0.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (129 bp):
CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
GCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACAGAAGAAAC
Found at i:13737248 original size:291 final size:288
Alignment explanation
Indices: 13736624--13737249 Score: 670
Period size: 291 Copynumber: 2.1 Consensus size: 288
13736614 GCAGACGACC
* * *
13736624 CTTCGGAGACTTCTCCCAAAGGAGTCGACCCCCCTCCACAATAAAAAGGCTCAAGTGGTACCATT
1 CTTCGGAGACTTCTCCCAAAGG-GTCGA-CCCCCTCAACAATAAAAAGACTCAAGTGGTACCATG
* * *
13736689 TCTCCTTGAAAAGGCTAGTCATGCCTTGATTGGTGGCTCAATCAACATCTTGCGACTTCATTGAT
64 TCTCATTAAAAAGGCTAGTCATGCCTCGATTGGTGGCTCAATCAACATCTTGCGACTTCATTGAT
* * *
13736754 TAATTATCTACACGTCCTTCAGGCACGTACTCTCTCCACCAACCGAGGCACTCCCACTCGTGAAC
129 TAATTATCTACACATCCATCAGGCACGTACTCTCTCCACCAACCGAGGCACTCCCACTCATGAAC
* * * * * * *
13736819 CCTCGGGGCTCTCTGTGGAGTCGAGAGAAAAAACCCGAGTCTTAAGATAATACTTACAATTGTTG
194 CCTCGGGGCTCTCCGAGAAGTCGAGAGAAAAAACCCGAGTCTCAAGACAACACCTACAATTGTTG
* * *
13736884 AAGGTGGTATTAACCGCTCAATGAATGACA
259 AAGGTCGTATCAACCGCCCAATGAATGACA
** * *
13736914 CTTAAGAGACTTCTCCCGAAGAAGAT-GACCCCCTTCAACAATAAAAAGACTCAAGTGGTACCAT
1 CTTCGGAGACTTCTCCC-AA-AGGGTCGACCCCC-TCAACAATAAAAAGACTCAAGTGGTACCAT
* * * ** *
13736978 GTCTCATTAAAAAGGCTAGTTATGCCTCGGTTGGTGGTTCAATCCGCATCGTGTGCGGCTTCATT
63 GTCTCATTAAAAAGGCTAGTCATGCCTCGATTGGTGGCTCAATCAACATC-T-TGCGACTTCATT
* * * * *
13737043 GATTAATTATTTACGCATCCATCAGGTACGTACTCTCTCCACCAACTGAGGCTCTCCCACTCCAT
126 GATTAATTATCTACACATCCATCAGGCACGTACTCTCTCCACCAACCGAGGCACTCCCACT-CAT
* * * ** *
13737108 -AA-CCTCGGGGCTCTCCGCAGAATTGGA-AGACAAAACCC-AGGTCTCGGGACAACACCTACGA
190 GAACCCTCGGGGCTCTCCG-AGAAGTCGAGAGAAAAAACCCGA-GTCTCAAGACAACACCTACAA
** ** * *
13737169 TTGTTGGGGGTCGTATCAATTGCCCAGTGGA-GAACA
253 TTGTTGAAGGTCGTATCAACCGCCCAATGAATG-ACA
*
13737205 CTTCGGAGACTTCTCCCAAAGGGTTCGATCCCCCTCGACAATAAA
1 CTTCGGAGACTTCTCCCAAAGGG-TCGA-CCCCCTCAACAATAAA
13737250 TATAGTTACA
Statistics
Matches: 273, Mismatches: 51, Indels: 23
0.79 0.15 0.07
Matches are distributed among these distances:
289 7 0.03
290 91 0.33
291 94 0.34
292 79 0.29
293 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (288 bp):
CTTCGGAGACTTCTCCCAAAGGGTCGACCCCCTCAACAATAAAAAGACTCAAGTGGTACCATGTC
TCATTAAAAAGGCTAGTCATGCCTCGATTGGTGGCTCAATCAACATCTTGCGACTTCATTGATTA
ATTATCTACACATCCATCAGGCACGTACTCTCTCCACCAACCGAGGCACTCCCACTCATGAACCC
TCGGGGCTCTCCGAGAAGTCGAGAGAAAAAACCCGAGTCTCAAGACAACACCTACAATTGTTGAA
GGTCGTATCAACCGCCCAATGAATGACA
Found at i:13739967 original size:44 final size:44
Alignment explanation
Indices: 13739904--13739991 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
13739894 TTAATCAGGG
13739904 CGTTACAAGATCCTAAATCCATTTATGGATGTATTCACTCGTGA
1 CGTTACAAGATCCTAAATCCATTTATGGATGTATTCACTCGTGA
* * *
13739948 CGTTACAAGATCCTGAATCCGTTTATGGATGTATTCACTTGTGA
1 CGTTACAAGATCCTAAATCCATTTATGGATGTATTCACTCGTGA
13739992 TGATCATGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.35
Consensus pattern (44 bp):
CGTTACAAGATCCTAAATCCATTTATGGATGTATTCACTCGTGA
Found at i:13745223 original size:22 final size:20
Alignment explanation
Indices: 13745192--13745236 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
13745182 TTTTCTAGGT
13745192 TATATATATTTATGAATTTTTA
1 TATATATATTTAT--ATTTTTA
* *
13745214 TATATTTATTTCTATTTTTA
1 TATATATATTTATATTTTTA
13745234 TAT
1 TAT
13745237 TTTTTAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.48
22 11 0.52
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (20 bp):
TATATATATTTATATTTTTA
Found at i:13745253 original size:18 final size:17
Alignment explanation
Indices: 13745194--13745253 Score: 50
Period size: 18 Copynumber: 3.4 Consensus size: 17
13745184 TTCTAGGTTA
* *
13745194 TATATATTTATGAATTTT
1 TATATATTTTTTAA-TTT
*
13745212 TATATATTTATTTCTATTT
1 TATATATTT-TTT-AATTT
13745231 T-TATATTTTTTAATTT
1 TATATATTTTTTAATTT
13745247 GTATATA
1 -TATATA
13745254 CATTTAAGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
16 4 0.12
17 4 0.12
18 20 0.59
19 5 0.15
20 1 0.03
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.65
Consensus pattern (17 bp):
TATATATTTTTTAATTT
Found at i:13750869 original size:43 final size:44
Alignment explanation
Indices: 13750822--13750924 Score: 131
Period size: 43 Copynumber: 2.4 Consensus size: 44
13750812 CATGTACCAG
** *
13750822 TTTCCCTACTTCCG-TTTGTTTGATGATGCACTATGTGTGTCAA
1 TTTCCCTACTTCCGATTTGCCTGATGATGCACTATGTGTGACAA
* *
13750865 TTTCCCTACTT-TGATTTGCCTGATGATGCACTGTGTGTGACAA
1 TTTCCCTACTTCCGATTTGCCTGATGATGCACTATGTGTGACAA
*
13750908 TTTACCTACTT-CGATTT
1 TTTCCCTACTTCCGATTT
13750925 TATATGATGA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
42 1 0.02
43 51 0.98
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.44
Consensus pattern (44 bp):
TTTCCCTACTTCCGATTTGCCTGATGATGCACTATGTGTGACAA
Found at i:13752604 original size:18 final size:18
Alignment explanation
Indices: 13752583--13752617 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13752573 AAAAAAATCG
13752583 TAATAAAAAATAATAAAA
1 TAATAAAAAATAATAAAA
* *
13752601 TAATAAGAGATAATAAA
1 TAATAAAAAATAATAAA
13752618 TACAATATTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (18 bp):
TAATAAAAAATAATAAAA
Found at i:13763729 original size:21 final size:21
Alignment explanation
Indices: 13763687--13763729 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
13763677 GTCTGCTGTT
**
13763687 GAGGAGGAAGTTTTTGTGGAA
1 GAGGAGGAAGTTCGTGTGGAA
* *
13763708 GAGGAGGACGTTCGTGTTGAA
1 GAGGAGGAAGTTCGTGTGGAA
13763729 G
1 G
13763730 TTGTGAATAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.26, C:0.05, G:0.44, T:0.26
Consensus pattern (21 bp):
GAGGAGGAAGTTCGTGTGGAA
Found at i:13769314 original size:46 final size:47
Alignment explanation
Indices: 13769232--13769353 Score: 160
Period size: 46 Copynumber: 2.6 Consensus size: 47
13769222 TGCGAGCTTA
** *
13769232 TTGAAGACAGTTAGCTAAAGTGCGAGCCTGTCAAAGTTGTGAGCCTG
1 TTGAAGACAGAAAGCTAAAGTGCGAGCCTGCCAAAGTTGTGAGCCTG
* *
13769279 TTGAAGACAGAAAG-TAGAGTGTGAGCCTGCCAAAGTTGTGAGCCTG
1 TTGAAGACAGAAAGCTAAAGTGCGAGCCTGCCAAAGTTGTGAGCCTG
*
13769325 TTGAAGACA-ATAAGC-AAAGTGCAAGCCTG
1 TTGAAGACAGA-AAGCTAAAGTGCGAGCCTG
13769354 TTAAAATGTG
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
45 1 0.02
46 52 0.80
47 12 0.18
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.22
Consensus pattern (47 bp):
TTGAAGACAGAAAGCTAAAGTGCGAGCCTGCCAAAGTTGTGAGCCTG
Found at i:13770639 original size:30 final size:30
Alignment explanation
Indices: 13770603--13770690 Score: 160
Period size: 30 Copynumber: 3.0 Consensus size: 30
13770593 GTAAAGGTGC
13770603 GAGCCTGTTGAAGACAGTAAGCTAGAGTGT
1 GAGCCTGTTGAAGACAGTAAGCTAGAGTGT
13770633 GAGCCTGTTGAAGACAGTAAGCTAGAGTGT
1 GAGCCTGTTGAAGACAGTAAGCTAGAGTGT
*
13770663 GAGCCTGTTGAAGACAGAAAGC-AGAGTG
1 GAGCCTGTTGAAGACAGTAAGCTAGAGTG
13770691 CAAGCCTACC
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
29 6 0.11
30 51 0.89
ACGTcount: A:0.32, C:0.14, G:0.34, T:0.20
Consensus pattern (30 bp):
GAGCCTGTTGAAGACAGTAAGCTAGAGTGT
Found at i:13772628 original size:50 final size:50
Alignment explanation
Indices: 13772523--13772647 Score: 151
Period size: 50 Copynumber: 2.5 Consensus size: 50
13772513 TTATTGAGAT
* * *
13772523 TATGAGAGGTCCCACGTAAGACCATGTCTGGGACATAGCGTTGGTACCAA
1 TATGAGAGGTCCCACGTAAGACCATGTCTGGGACATAGCATGGGCACCAA
* * * *
13772573 GATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGA
1 TATGAGAGGTCCCACGTAAGACCATGTCTGGGACATAGCATGGGCACCAA
** * *
13772623 TATGAGAACTCCTATGTAAGACCAT
1 TATGAGAGGTCCCACGTAAGACCAT
13772648 ATTTGAGATA
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 62 1.00
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (50 bp):
TATGAGAGGTCCCACGTAAGACCATGTCTGGGACATAGCATGGGCACCAA
Found at i:13772710 original size:49 final size:49
Alignment explanation
Indices: 13772532--13772717 Score: 135
Period size: 50 Copynumber: 3.8 Consensus size: 49
13772522 TTATGAGAGG
* * * * * **
13772532 TCCCACGTAAGACCATGTCTGGGACATAGCGTTGGTACCA-AGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACGACAG--GAGAAC
** * * *
13772582 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGACAGGAGAAC
* * * * * *
13772632 TCCTATGTAAGACCATATTTGAGATATGGCATTGGTA-GTACAGGA-AAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACG-ACAGGAGAAC
*
13772680 ATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 -TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
13772718 TGTTATTATC
Statistics
Matches: 105, Mismatches: 27, Indels: 9
0.74 0.19 0.06
Matches are distributed among these distances:
48 4 0.04
49 34 0.32
50 64 0.61
51 2 0.02
52 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (49 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACGACAGGAGAAC
Found at i:13777712 original size:31 final size:31
Alignment explanation
Indices: 13777684--13777744 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
13777674 TTTAGTCATT
*
13777684 GAACTATTTGAAAGTTTTCATTTAAGTCACC
1 GAACTATTTAAAAGTTTTCATTTAAGTCACC
* *
13777715 GAGCTATTTAAAAGTTTTTATTTAAGTCAC
1 GAACTATTTAAAAGTTTTCATTTAAGTCAC
13777745 TGGATTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (31 bp):
GAACTATTTAAAAGTTTTCATTTAAGTCACC
Found at i:13782907 original size:21 final size:22
Alignment explanation
Indices: 13782865--13782907 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
13782855 CCTCGTAAAA
* *
13782865 TGATTGTTTTTAATAAACGATT
1 TGATTGTTATTAAAAAACGATT
*
13782887 TGATT-TTATTAAAAAATGATT
1 TGATTGTTATTAAAAAACGATT
13782908 CTGGTTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.37, C:0.02, G:0.12, T:0.49
Consensus pattern (22 bp):
TGATTGTTATTAAAAAACGATT
Found at i:13783611 original size:8 final size:8
Alignment explanation
Indices: 13783598--13783631 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
13783588 AAAATAATTG
13783598 AACAAATA
1 AACAAATA
*
13783606 AACAAACA
1 AACAAATA
13783614 AACAAATA
1 AACAAATA
*
13783622 AAAAAATA
1 AACAAATA
13783630 AA
1 AA
13783632 TCGACCACCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.79, C:0.12, G:0.00, T:0.09
Consensus pattern (8 bp):
AACAAATA
Found at i:13783968 original size:2 final size:2
Alignment explanation
Indices: 13783961--13783985 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13783951 AAGTAAAATA
13783961 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 A
13783986 ACTTAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13785647 original size:638 final size:638
Alignment explanation
Indices: 13784430--13785696 Score: 2516
Period size: 638 Copynumber: 2.0 Consensus size: 638
13784420 TAAACTAAAA
13784430 CTTTGTTTTGAAATTTCATTTTTCCTTCTTCAGAGAAAAAAAAAACTGGAAGGCTCTTTGAAGGC
1 CTTTGTTTTGAAATTTCATTTTTCCTTCTTCAGAGAAAAAAAAAACTGGAAGGCTCTTTGAAGGC
13784495 CCCCCATGTCTTCCGACGGTCGGGCTTCTCACCTCCGCTCGTTCGTCCCCCGCACCGCCACTAAA
66 CCCCCATGTCTTCCGACGGTCGGGCTTCTCACCTCCGCTCGTTCGTCCCCCGCACCGCCACTAAA
13784560 CCGACGGCCGACGAAGCACGACAAAGGGCTTTTAAAGCCCGGCTTCCGAGCATTTTGAAAAGTCG
131 CCGACGGCCGACGAAGCACGACAAAGGGCTTTTAAAGCCCGGCTTCCGAGCATTTTGAAAAGTCG
13784625 AGTCTTTGAACCCTTATGAGCGCCGAGACAGGGGCTCATAATCCCCCTTTCGGATCTGGGCCAAC
196 AGTCTTTGAACCCTTATGAGCGCCGAGACAGGGGCTCATAATCCCCCTTTCGGATCTGGGCCAAC
13784690 GACGAAGAACCACCCACCGACTGCGCGGTCGCGAGGTATCTCCGGTAATCCCCTTTTCCCCCTTT
261 GACGAAGAACCACCCACCGACTGCGCGGTCGCGAGGTATCTCCGGTAATCCCCTTTTCCCCCTTT
13784755 TTACTCCTTTATTTATTAAGAGTTTTTTTAAAAAATAATTCGTAAAAAAATAAATAAACAAATGA
326 TTACTCCTTTATTTATTAAGAGTTTTTTTAAAAAATAATTCGTAAAAAAATAAATAAACAAATGA
13784820 ATTGACAAAGAAGAAAACGAAGAACAAGAACAAAAACCTTTTTATTTTTGATTTCTGATGTTTTC
391 ATTGACAAAGAAGAAAACGAAGAACAAGAACAAAAACCTTTTTATTTTTGATTTCTGATGTTTTC
13784885 GTCAAAAAATCCAGAAGAAACAAATACAATCACCCTATTCGGCCTTTTATAGCCGATTTAAAAAG
456 GTCAAAAAATCCAGAAGAAACAAATACAATCACCCTATTCGGCCTTTTATAGCCGATTTAAAAAG
13784950 ACTAAGGGTGAGTTTGGATGGGCGGTGTGTTTACATGCGGTTAGTGTAAAATCAGCGGTGGCGGT
521 ACTAAGGGTGAGTTTGGATGGGCGGTGTGTTTACATGCGGTTAGTGTAAAATCAGCGGTGGCGGT
13785015 GAGATTAGATACTGTAGCGATACTGTAGCGGGAGACAAAAAGTATAAACGCAT
586 GAGATTAGATACTGTAGCGATACTGTAGCGGGAGACAAAAAGTATAAACGCAT
13785068 CTTTGTTTTGAAATTTCATTTTTCCTTCTTCAGAGAAAAAAAAAACTGGAAGGCTCTTTGAAGGC
1 CTTTGTTTTGAAATTTCATTTTTCCTTCTTCAGAGAAAAAAAAAACTGGAAGGCTCTTTGAAGGC
13785133 CCCCCATGTCTTCCGACGGTCGGGCTTCTCACCTCCGCTCGTTCGTCCCCCGCACCGCCACTAAA
66 CCCCCATGTCTTCCGACGGTCGGGCTTCTCACCTCCGCTCGTTCGTCCCCCGCACCGCCACTAAA
13785198 CCGACGGCCGACGAAGCACGACAAAGGGCTTTTAAAGCCCGGCTTCCGAGCATTTTGAAAAGTCG
131 CCGACGGCCGACGAAGCACGACAAAGGGCTTTTAAAGCCCGGCTTCCGAGCATTTTGAAAAGTCG
13785263 AGTCTTTGAACCCTTATGAGCGCCGAGACAGGGGCTCATAATCCCCCTTTCGGATCTGGGCCAAC
196 AGTCTTTGAACCCTTATGAGCGCCGAGACAGGGGCTCATAATCCCCCTTTCGGATCTGGGCCAAC
13785328 GACGAAGAACCACCCACCGACTGCGCGGTCGCGAGGTATCTCCGGTAATCCCCTTTTCCCCCTTT
261 GACGAAGAACCACCCACCGACTGCGCGGTCGCGAGGTATCTCCGGTAATCCCCTTTTCCCCCTTT
13785393 TTACTCCTTTATTTATTAAGAGTTTTTTTAAAAAATAATTCGTAAAAAAATAAATAAACAAATGA
326 TTACTCCTTTATTTATTAAGAGTTTTTTTAAAAAATAATTCGTAAAAAAATAAATAAACAAATGA
13785458 ATTGACAAAGAAGAAAACGAAGAACAAGAACAAAAACCTTTTTATTTTTGATTTCTGATGTTTTC
391 ATTGACAAAGAAGAAAACGAAGAACAAGAACAAAAACCTTTTTATTTTTGATTTCTGATGTTTTC
13785523 GTCAAAAAATCCAGAAGAAACAAATACAATCACCCTATTCGGCCTTTTATAGCCGATTTAAAAAG
456 GTCAAAAAATCCAGAAGAAACAAATACAATCACCCTATTCGGCCTTTTATAGCCGATTTAAAAAG
*
13785588 ACTAAGGGTGAGTTTGGATGGGCGGTGTGTTTACCTGCGGTTAGTGTAAAATCAGCGGTGGCGGT
521 ACTAAGGGTGAGTTTGGATGGGCGGTGTGTTTACATGCGGTTAGTGTAAAATCAGCGGTGGCGGT
*
13785653 GAGATTAGATACTGTAGCGATACTGTAGCGTGAGACAAAAAGTA
586 GAGATTAGATACTGTAGCGATACTGTAGCGGGAGACAAAAAGTA
13785697 AGTTAAACGC
Statistics
Matches: 627, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
638 627 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.27
Consensus pattern (638 bp):
CTTTGTTTTGAAATTTCATTTTTCCTTCTTCAGAGAAAAAAAAAACTGGAAGGCTCTTTGAAGGC
CCCCCATGTCTTCCGACGGTCGGGCTTCTCACCTCCGCTCGTTCGTCCCCCGCACCGCCACTAAA
CCGACGGCCGACGAAGCACGACAAAGGGCTTTTAAAGCCCGGCTTCCGAGCATTTTGAAAAGTCG
AGTCTTTGAACCCTTATGAGCGCCGAGACAGGGGCTCATAATCCCCCTTTCGGATCTGGGCCAAC
GACGAAGAACCACCCACCGACTGCGCGGTCGCGAGGTATCTCCGGTAATCCCCTTTTCCCCCTTT
TTACTCCTTTATTTATTAAGAGTTTTTTTAAAAAATAATTCGTAAAAAAATAAATAAACAAATGA
ATTGACAAAGAAGAAAACGAAGAACAAGAACAAAAACCTTTTTATTTTTGATTTCTGATGTTTTC
GTCAAAAAATCCAGAAGAAACAAATACAATCACCCTATTCGGCCTTTTATAGCCGATTTAAAAAG
ACTAAGGGTGAGTTTGGATGGGCGGTGTGTTTACATGCGGTTAGTGTAAAATCAGCGGTGGCGGT
GAGATTAGATACTGTAGCGATACTGTAGCGGGAGACAAAAAGTATAAACGCAT
Found at i:13792189 original size:19 final size:18
Alignment explanation
Indices: 13792147--13792189 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
13792137 TCTTCTTCTT
13792147 TTTTTAATAAAAATTTCA
1 TTTTTAATAAAAATTTCA
* *
13792165 TGTTTAATAAAATTTATCA
1 TTTTTAATAAAAATT-TCA
13792184 TTTTTA
1 TTTTTA
13792190 GATTATAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (18 bp):
TTTTTAATAAAAATTTCA
Found at i:13792376 original size:15 final size:16
Alignment explanation
Indices: 13792342--13792380 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
13792332 CACAAAATTG
13792342 AGATTAATTTATAGGA
1 AGATTAATTTATAGGA
*
13792358 AGATTCATTTATA-GA
1 AGATTAATTTATAGGA
13792373 AGA-TAATT
1 AGATTAATT
13792381 AAATTATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 4 0.19
15 5 0.24
16 12 0.57
ACGTcount: A:0.44, C:0.03, G:0.15, T:0.38
Consensus pattern (16 bp):
AGATTAATTTATAGGA
Found at i:13792622 original size:44 final size:46
Alignment explanation
Indices: 13792573--13792665 Score: 129
Period size: 44 Copynumber: 2.1 Consensus size: 46
13792563 TACAACTTCT
* *
13792573 ATTCCATTCAACCAAACACAA-GAA-TGCT-ATTACAGCTCTATTCC
1 ATTCCATTCAACCAAACA-AATGAATTACTGATTACAACTCTATTCC
*
13792617 ATTCCATTCAATCAAACAAATGAATTACTGATTACAACTCTATTCC
1 ATTCCATTCAACCAAACAAATGAATTACTGATTACAACTCTATTCC
13792663 ATT
1 ATT
13792666 ACAACCCTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 2 0.05
44 20 0.47
45 3 0.07
46 18 0.42
ACGTcount: A:0.38, C:0.26, G:0.05, T:0.31
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAAATGAATTACTGATTACAACTCTATTCC
Found at i:13792668 original size:16 final size:16
Alignment explanation
Indices: 13792647--13792681 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
13792637 TGAATTACTG
*
13792647 ATTACAACTCTATTCC
1 ATTACAACCCTATTCC
13792663 ATTACAACCCTATTCC
1 ATTACAACCCTATTCC
13792679 ATT
1 ATT
13792682 CCCTCCAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.37
Consensus pattern (16 bp):
ATTACAACCCTATTCC
Found at i:13793628 original size:10 final size:10
Alignment explanation
Indices: 13793613--13793649 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
13793603 ACTAAATTTT
*
13793613 TTAATTATAA
1 TTAATTATAG
*
13793623 TTAATTTTAG
1 TTAATTATAG
13793633 TTAATTATAG
1 TTAATTATAG
13793643 TTAATTA
1 TTAATTA
13793650 AGCTAATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (10 bp):
TTAATTATAG
Found at i:13797042 original size:18 final size:18
Alignment explanation
Indices: 13797021--13797059 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
13797011 TTTTCTGTCT
13797021 AAATTAATGAATTTA-ATA
1 AAATT-ATGAATTTAGATA
*
13797039 AAATTATTAATTTAGATA
1 AAATTATGAATTTAGATA
13797057 AAA
1 AAA
13797060 AATAAGTAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (18 bp):
AAATTATGAATTTAGATA
Found at i:13797567 original size:138 final size:138
Alignment explanation
Indices: 13797329--13797584 Score: 352
Period size: 138 Copynumber: 1.9 Consensus size: 138
13797319 TTTCGGGTGC
** *
13797329 TGGTCCTGAATGTTCTACCGATGGCTGAGGTCTGACATTTTTTACGAATACTCATCAGCTTGTGT
1 TGGTCCTGAATGTTCTACCGATGGCTGAGGTCCAACATTTGTTACGAATACTCATCAGCTTGTGT
* * *
13797394 GAGCAGCATCTTGTAGCTTACATTCTAACCATCAGCTTGTGTGAGCAGACCCAGGTTACTATGTT
66 GAGCAGCATCATATAGCTTACATTCCAACCATCAGCTTGTGTGAGCAGACCCAGGTTACTATGTT
13797459 TCGATTGT
131 TCGATTGT
* * * * * *
13797467 TGGTCCTGAATG-TCTTACTGGTGGCTGAGTTCCAACATTTGTTATGGATACTCATTAGCTTGTG
1 TGGTCCTGAATGTTC-TACCGATGGCTGAGGTCCAACATTTGTTACGAATACTCATCAGCTTGTG
* * * *
13797531 TGAGTAGCATCATATAGTTTACATTCCAATCGTCAGCTTGTGTGAGCAGACCCA
65 TGAGCAGCATCATATAGCTTACATTCCAACCATCAGCTTGTGTGAGCAGACCCA
13797585 TTTTATGGTT
Statistics
Matches: 101, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
137 2 0.02
138 99 0.98
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (138 bp):
TGGTCCTGAATGTTCTACCGATGGCTGAGGTCCAACATTTGTTACGAATACTCATCAGCTTGTGT
GAGCAGCATCATATAGCTTACATTCCAACCATCAGCTTGTGTGAGCAGACCCAGGTTACTATGTT
TCGATTGT
Found at i:13809215 original size:22 final size:22
Alignment explanation
Indices: 13809183--13809228 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
13809173 ACAGTTACTG
*
13809183 ATAGCTTTGTGCCATCCCGATT
1 ATAGCTCTGTGCCATCCCGATT
*
13809205 ATAGCTCTGTGCCATCCTGATT
1 ATAGCTCTGTGCCATCCCGATT
13809227 AT
1 AT
13809229 GGTTTATAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.37
Consensus pattern (22 bp):
ATAGCTCTGTGCCATCCCGATT
Found at i:13828210 original size:47 final size:46
Alignment explanation
Indices: 13828141--13828508 Score: 302
Period size: 47 Copynumber: 7.8 Consensus size: 46
13828131 NNNNNNNNNN
*
13828141 TAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATGTA
1 TAATGCTGTCC-ATTTTGAGTGTATTAATGCTGTCCATTTTAATGTA
* *
13828188 TAATGCTGTCCAATTTTGAGTGTATTGATGCTATCCAATTTTAA-GTA
1 TAATGCTGTCC-ATTTTGAGTGTATTAATGCTGTCC-ATTTTAATGTA
* * * *
13828235 TATTGATGCTGCCCATTTT-AATGTA-TAATGCTGTCAAATTTTGAGTGTA
1 TA---ATGCTGTCCATTTTGAGTGTATTAATGCTGTC-CATTTT-AATGTA
* * *
13828284 TTGATGCTGTCCATTTTTAATGTA-TAATGCTGTCCGATTTTAA-GTA
1 -TAATGCTGTCCATTTTGAGTGTATTAATGCTGTCC-ATTTTAATGTA
* * * *
13828330 TATTGATGCTGCCCATTTT-AATGTA-TAATACTGTCCAATTTTGAGTGTA
1 TA---ATGCTGTCCATTTTGAGTGTATTAATGCTGTCC-ATTTT-AATGTA
* * *
13828379 TTGATGCTGTCCATTTTGAGTATATTGATGCTGTCCATTTTAATGTA
1 -TAATGCTGTCCATTTTGAGTGTATTAATGCTGTCCATTTTAATGTA
* * * *
13828426 TAATGCTGTCCAATTTTGAGTATATTTAA-GCTGTCTAATTTGATGTA
1 TAATGCTGTCC-ATTTTGAGTGTA-TTAATGCTGTCCATTTTAATGTA
** *
13828473 TAATGCTGTCCATTTTGAGCATATTATTGCTGTCCA
1 TAATGCTGTCCATTTTGAGTGTATTAATGCTGTCCA
13828509 ATTTGCTGAA
Statistics
Matches: 269, Mismatches: 31, Indels: 43
0.78 0.09 0.13
Matches are distributed among these distances:
45 4 0.01
46 31 0.12
47 144 0.54
48 60 0.22
49 20 0.07
50 10 0.04
ACGTcount: A:0.25, C:0.13, G:0.18, T:0.44
Consensus pattern (46 bp):
TAATGCTGTCCATTTTGAGTGTATTAATGCTGTCCATTTTAATGTA
Found at i:13828260 original size:72 final size:70
Alignment explanation
Indices: 13828141--13828512 Score: 371
Period size: 72 Copynumber: 5.2 Consensus size: 70
13828131 NNNNNNNNNN
*
13828141 TAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGCTGTCCAATTTTG
1 TAATGCTGTCCAATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGCTGTCC-ATTTTG
13828206 AGTGTA
65 AGTGTA
* * * * *
13828212 TTGATGCTATCCAATTTTAAGTATATTGATGCTGCCCATTTTAATGTATAATGCTGTCAAATTTT
1 -TAATGCTGTCCAATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGCTGTC-CATTTT
13828277 GAGTGTA
64 GAGTGTA
* * * *
13828284 TTGATGCTGTCCATTTTTAATGTATA---ATGCTGTCCGATTTTAA-GTATATTGATGCTGCCCA
1 -TAATGCTGTCCAATTTTGA-GTATATTGATGCTGTCC-ATTTTAATGTATA---ATGCTGTCCA
*
13828345 TTTT-AATGTA
60 TTTTGAGTGTA
* * *
13828355 TAATACTGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTGA-GTATATTGATGCTGTCCATTT
1 TAATGCTGTCCAATTTTGAGTATATTGATGCTGTCCATTTTAATGTATA---ATGCTGTCCATTT
*
13828419 T-AATGTA
63 TGAGTGTA
* * * * *
13828426 TAATGCTGTCCAATTTTGAGTATATTTAAGCTGTCTAATTTGATGTATAATGCTGTCCATTTTGA
1 TAATGCTGTCCAATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGCTGTCCATTTTGA
**
13828491 GCATA
66 GTGTA
*
13828496 TTATTGCTGTCCAATTT
1 -TAATGCTGTCCAATTT
13828513 GCTGAATAAT
Statistics
Matches: 259, Mismatches: 29, Indels: 25
0.83 0.09 0.08
Matches are distributed among these distances:
69 18 0.07
70 31 0.12
71 97 0.37
72 101 0.39
73 12 0.05
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.44
Consensus pattern (70 bp):
TAATGCTGTCCAATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGCTGTCCATTTTGA
GTGTA
Found at i:13828324 original size:95 final size:95
Alignment explanation
Indices: 13828190--13828427 Score: 370
Period size: 95 Copynumber: 2.5 Consensus size: 95
13828180 TTAATGTATA
*
13828190 ATGCTGTCCAATTTTGAGTGTATTGATGCTATCCAATTTTAAGTATATTGATGCTGCCCATTTTA
1 ATGCTGTCC-ATTTTGAGTGTATTGATGCTGTCC-ATTTTAAGTATATTGATGCTGCCCATTTTA
*
13828255 ATGTATAATGCTGTCAAATTTTGAGTGTATTG
64 ATGTATAATACTGTCAAATTTTGAGTGTATTG
* * *
13828287 ATGCTGTCCATTTTTAATGTA-TAATGCTGTCCGATTTTAAGTATATTGATGCTGCCCATTTTAA
1 ATGCTGTCCATTTTGAGTGTATTGATGCTGTCC-ATTTTAAGTATATTGATGCTGCCCATTTTAA
*
13828351 TGTATAATACTGTCCAATTTTGAGTGTATTG
65 TGTATAATACTGTCAAATTTTGAGTGTATTG
*
13828382 ATGCTGTCCATTTTGAGTATATTGATGCTGTCCATTTTAATGTATA
1 ATGCTGTCCATTTTGAGTGTATTGATGCTGTCCATTTTAA-GTATA
13828428 ATGCTGTCCA
Statistics
Matches: 128, Mismatches: 11, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
95 94 0.73
96 25 0.20
97 9 0.07
ACGTcount: A:0.25, C:0.13, G:0.18, T:0.44
Consensus pattern (95 bp):
ATGCTGTCCATTTTGAGTGTATTGATGCTGTCCATTTTAAGTATATTGATGCTGCCCATTTTAAT
GTATAATACTGTCAAATTTTGAGTGTATTG
Found at i:13828468 original size:95 final size:94
Alignment explanation
Indices: 13828143--13828512 Score: 325
Period size: 95 Copynumber: 3.9 Consensus size: 94
13828133 NNNNNNNNTA
* * * * *
13828143 ATGCTGTCCAATTTTGAGTGTAT-TGATGCTGTCCATTTT-AATGTATAATGCTGTCCAATTTTG
1 ATGCTG-CCAATTTT-AATGTATATTAAGCTGTCAATTTTGAGTGTATAATGCTGTCC-ATTTTG
* *
13828206 AGTGTATTGATGCTATCCAATTTTAAGTATATT
63 AGTATATTGATGCTGTCCAATTTTAAGTATA-T
* * * *
13828239 GATGCTGCCCATTTTAATGTATA--ATGCTGTCAAATTTTGAGTGTATTGATGCTGTCCATTTTT
1 -ATGCTGCCAATTTTAATGTATATTAAGCTGTC-AATTTTGAGTGTA-TAATGCTGTCCATTTTG
* * * *
13828302 AATGTA-TAATGCTGTCCGATTTTAAGTATATT
63 AGTATATTGATGCTGTCCAATTTTAAGTATA-T
* * *
13828334 GATGCTGCCCATTTTAATGTATAAT-A-CTGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTG
1 -ATGCTGCCAATTTTAATGTATATTAAGCTGT-CAATTTTGAGTGTA-TAATGCTGTCCATTTTG
13828397 AGTATATTGATGCTGTCC-ATTTTAATGTATA-
63 AGTATATTGATGCTGTCCAATTTTAA-GTATAT
*
13828428 ATGCTGTCCAATTTTGA-GTATATTTAAGCTGTCTAA-TTTGA-TGTATAATGCTGTCCATTTTG
1 ATGCTG-CCAATTTTAATGTATA-TTAAGCTGTC-AATTTTGAGTGTATAATGCTGTCCATTTTG
*
13828490 AGCATATT-ATTGCTGTCCAATTT
63 AGTATATTGA-TGCTGTCCAATTT
13828513 GCTGAATAAT
Statistics
Matches: 237, Mismatches: 20, Indels: 35
0.81 0.07 0.12
Matches are distributed among these distances:
92 1 0.00
93 42 0.18
94 25 0.11
95 109 0.46
96 44 0.19
97 16 0.07
ACGTcount: A:0.25, C:0.13, G:0.18, T:0.44
Consensus pattern (94 bp):
ATGCTGCCAATTTTAATGTATATTAAGCTGTCAATTTTGAGTGTATAATGCTGTCCATTTTGAGT
ATATTGATGCTGTCCAATTTTAAGTATAT
Found at i:13828504 original size:24 final size:23
Alignment explanation
Indices: 13828143--13828513 Score: 267
Period size: 25 Copynumber: 15.7 Consensus size: 23
13828133 NNNNNNNNTA
*
13828143 ATGCTGTCCAATTTTGAGTGTATT
1 ATGCTGTCC-ATTTTGAGTATATT
*
13828167 GATGCTGTCCATTTTAATGTATA--
1 -ATGCTGTCCATTTTGA-GTATATT
*
13828190 ATGCTGTCCAATTTTGAGTGTATT
1 ATGCTGTCC-ATTTTGAGTATATT
* *
13828214 GATGCTATCCAATTTTAAGTATATT
1 -ATGCTGTCC-ATTTTGAGTATATT
* *
13828239 GATGCTGCCCATTTTAATGTATA--
1 -ATGCTGTCCATTTTGA-GTATATT
* *
13828262 ATGCTGTCAAATTTTGAGTGTATT
1 ATGCTGTC-CATTTTGAGTATATT
* * * *
13828286 GATGCTGTCCATTTTTAATGTATA
1 -ATGCTGTCCATTTTGAGTATATT
*
13828310 ATGCTGTCCGATTTTAAGTATATT
1 ATGCTGTCC-ATTTTGAGTATATT
* *
13828334 GATGCTGCCCATTTTAATGTATA--
1 -ATGCTGTCCATTTTGA-GTATATT
* *
13828357 ATACTGTCCAATTTTGAGTGTATT
1 ATGCTGTCC-ATTTTGAGTATATT
13828381 GATGCTGTCCATTTTGAGTATATT
1 -ATGCTGTCCATTTTGAGTATATT
*
13828405 GATGCTGTCCATTTTAATGTATA--
1 -ATGCTGTCCATTTTGA-GTATATT
13828428 ATGCTGTCCAATTTTGAGTATATTT
1 ATGCTGTCC-ATTTTGAGTATA-TT
* * *
13828453 AAGCTGTCTAATTTGATGTATA--
1 ATGCTGTCCATTTTGA-GTATATT
*
13828475 ATGCTGTCCATTTTGAGCATATT
1 ATGCTGTCCATTTTGAGTATATT
*
13828498 ATTGCTGTCCAATTTG
1 A-TGCTGTCCATTTTG
13828514 CTGAATAATC
Statistics
Matches: 282, Mismatches: 38, Indels: 53
0.76 0.10 0.14
Matches are distributed among these distances:
21 4 0.01
22 62 0.22
23 34 0.12
24 89 0.32
25 93 0.33
ACGTcount: A:0.25, C:0.13, G:0.18, T:0.44
Consensus pattern (23 bp):
ATGCTGTCCATTTTGAGTATATT
Found at i:13829042 original size:24 final size:25
Alignment explanation
Indices: 13828997--13829043 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
13828987 TTCATGACTC
* *
13828997 AATTAAATTACTAATTATTTTCTGT
1 AATTAAATTAATAATTAGTTTCTGT
*
13829022 AATTAATTTAATAA-TAGTTTCT
1 AATTAAATTAATAATTAGTTTCT
13829044 CCAATCTATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 7 0.37
25 12 0.63
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.51
Consensus pattern (25 bp):
AATTAAATTAATAATTAGTTTCTGT
Found at i:13830641 original size:21 final size:21
Alignment explanation
Indices: 13830615--13830670 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
13830605 AACAGCGGTG
*
13830615 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
13830636 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
13830657 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
13830671 AACAATAGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.25, C:0.09, G:0.38, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:13832686 original size:116 final size:117
Alignment explanation
Indices: 13832541--13832774 Score: 434
Period size: 116 Copynumber: 2.0 Consensus size: 117
13832531 CCCAGCGGAG
13832541 GTGGTTGATGGTATGGTTGGAAGAAAAATAAGGATGTTGCTATTAAGGATGAAAATGATGCAATT
1 GTGGTTGATGGTATGGTTGGAAGAAAAATAAGGATGTTGCTATTAAGGATGAAAATGATGCAATT
13832606 GGATTTTGTTCAGCATACTCACGTCGAAGCCACCAAACCC-TCATCTGGATC
66 GGATTTTGTTCAGCATACTCACGTCGAAGCCACCAAACCCATCATCTGGATC
**
13832657 GTGGTTGATGGTATGGTTGGAAGGGAAATAAGGATGTTGCTATTAAGGATGAAAATGATGCAATT
1 GTGGTTGATGGTATGGTTGGAAGAAAAATAAGGATGTTGCTATTAAGGATGAAAATGATGCAATT
13832722 GGATTTTGTTCAGCATACTCACGTCGAAGCCACCAAACCCTATCATCTGGATC
66 GGATTTTGTTCAGCATACTCACGTCGAAGCCACCAAACCC-ATCATCTGGATC
13832775 TAAGTTCAAA
Statistics
Matches: 114, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
116 103 0.90
118 11 0.10
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (117 bp):
GTGGTTGATGGTATGGTTGGAAGAAAAATAAGGATGTTGCTATTAAGGATGAAAATGATGCAATT
GGATTTTGTTCAGCATACTCACGTCGAAGCCACCAAACCCATCATCTGGATC
Found at i:13834204 original size:39 final size:39
Alignment explanation
Indices: 13834159--13834239 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
13834149 ATGCAATCGA
13834159 TTTGTTCATCTTTAAAGCTTTACTTGAACTATTATTTTC
1 TTTGTTCATCTTTAAAGCTTTACTTGAACTATTATTTTC
*
13834198 TTTGTTCATCTTTAAAGCTTTACTTGAACTATTGTTTTC
1 TTTGTTCATCTTTAAAGCTTTACTTGAACTATTATTTTC
13834237 TTT
1 TTT
13834240 TCACTTTAGT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.21, C:0.15, G:0.09, T:0.56
Consensus pattern (39 bp):
TTTGTTCATCTTTAAAGCTTTACTTGAACTATTATTTTC
Found at i:13838353 original size:29 final size:29
Alignment explanation
Indices: 13838293--13838458 Score: 271
Period size: 29 Copynumber: 5.7 Consensus size: 29
13838283 GGCAATAGCG
13838293 TTTTTATTTTTAAAATACACTACATATA-
1 TTTTTATTTTTAAAATACACTACATATAT
13838321 TTTTTATTTTTAAAATACACTACATATATTT
1 TTTTTATTTTTAAAATACACTACATATA--T
*
13838352 TTTTTATTTTTTAAATACACTACATATAT
1 TTTTTATTTTTAAAATACACTACATATAT
13838381 TTTTTATTTTTAAAATACACTACATATAT
1 TTTTTATTTTTAAAATACACTACATATAT
* * *
13838410 TCTTTATTTTTAAAATACATTACATATTT
1 TTTTTATTTTTAAAATACACTACATATAT
13838439 TTTTTATTTTTAAAATACAC
1 TTTTTATTTTTAAAATACAC
13838459 AAATACAATG
Statistics
Matches: 128, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
28 28 0.22
29 73 0.57
31 27 0.21
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.54
Consensus pattern (29 bp):
TTTTTATTTTTAAAATACACTACATATAT
Found at i:13838579 original size:45 final size:43
Alignment explanation
Indices: 13838504--13838593 Score: 135
Period size: 45 Copynumber: 2.0 Consensus size: 43
13838494 CTTCCATCGA
* *
13838504 TTCCCCTCTTCCACCGTGCCCTCCTCCCATTTCCCATTCCTAT
1 TTCCCCTCTTCCACCGTCCCCTCCTCCCATTTCCCATTCCCAT
*
13838547 TTCCCCTCTTCCATCGATTCCCCTCCTCCCATTTCCCATTCCCAT
1 TTCCCCTCTTCCACCG--TCCCCTCCTCCCATTTCCCATTCCCAT
13838592 TT
1 TT
13838594 ACGGTTGCTT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
43 15 0.36
45 27 0.64
ACGTcount: A:0.10, C:0.50, G:0.03, T:0.37
Consensus pattern (43 bp):
TTCCCCTCTTCCACCGTCCCCTCCTCCCATTTCCCATTCCCAT
Found at i:13840820 original size:22 final size:22
Alignment explanation
Indices: 13840795--13840879 Score: 72
Period size: 21 Copynumber: 4.0 Consensus size: 22
13840785 CCAAGAACAA
13840795 AGCAA-AAGAGAGGGGAGAAACC
1 AGCAAGAAGAGA-GGGAGAAACC
* *
13840817 AGCAA-AA-ACGATGGACAAACC
1 AGCAAGAAGA-GAGGGAGAAACC
* *
13840838 AGTAAGAACA-AGGGAGAAACC
1 AGCAAGAAGAGAGGGAGAAACC
13840859 AGCAAGAAG-GAAGGGAGAAAC
1 AGCAAGAAGAG-AGGGAGAAAC
13840880 TGTTGTCTTG
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
21 29 0.57
22 21 0.41
23 1 0.02
ACGTcount: A:0.52, C:0.15, G:0.31, T:0.02
Consensus pattern (22 bp):
AGCAAGAAGAGAGGGAGAAACC
Found at i:13840865 original size:21 final size:21
Alignment explanation
Indices: 13840807--13840879 Score: 83
Period size: 21 Copynumber: 3.4 Consensus size: 21
13840797 CAAAAGAGAG
* *
13840807 GGGAGAAACCAGCAAAAACGA
1 GGGAGAAACCAGCAAGAACAA
* * *
13840828 TGGACAAACCAGTAAGAACAA
1 GGGAGAAACCAGCAAGAACAA
*
13840849 GGGAGAAACCAGCAAGAAGGAA
1 GGGAGAAACCAGCAAGAA-CAA
13840871 GGGAGAAAC
1 GGGAGAAAC
13840880 TGTTGTCTTG
Statistics
Matches: 42, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
21 31 0.74
22 11 0.26
ACGTcount: A:0.51, C:0.16, G:0.30, T:0.03
Consensus pattern (21 bp):
GGGAGAAACCAGCAAGAACAA
Found at i:13854591 original size:23 final size:23
Alignment explanation
Indices: 13854544--13854595 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
13854534 AAAAATTCAG
13854544 CTTT-TTTTCATTCAAATTCTCT
1 CTTTCTTTTCATTCAAATTCTCT
13854566 CTTTCTTTTCCATTGCAAATT-T-T
1 CTTTCTTTT-CATT-CAAATTCTCT
13854589 CTTTCTT
1 CTTTCTT
13854596 CTTAAATTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 4 0.15
23 12 0.44
24 5 0.19
25 6 0.22
ACGTcount: A:0.15, C:0.23, G:0.02, T:0.60
Consensus pattern (23 bp):
CTTTCTTTTCATTCAAATTCTCT
Found at i:13859072 original size:23 final size:24
Alignment explanation
Indices: 13859026--13859076 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
13859016 AAAATTCAGC
*
13859026 TCTTTTTCATTCAAATTCTCTCTT
1 TCTTTTCCATTCAAATTCTCTCTT
13859050 TCTTTTCCATTGCAAATT-T-TCTT
1 TCTTTTCCATT-CAAATTCTCTCTT
13859073 TCTT
1 TCTT
13859077 CTTAAATTGC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 8 0.32
24 11 0.44
25 6 0.24
ACGTcount: A:0.16, C:0.24, G:0.02, T:0.59
Consensus pattern (24 bp):
TCTTTTCCATTCAAATTCTCTCTT
Found at i:13863696 original size:192 final size:192
Alignment explanation
Indices: 13863192--13863746 Score: 566
Period size: 194 Copynumber: 2.9 Consensus size: 192
13863182 TCGTCTGAGC
* * * * * *
13863192 TGAATATATATATTTGTGTCAGGTTAGCAGTCCAAGCTTAACTTTTATAATGACACATCTGATTG
1 TGAATATATATATTTGTGTCAGGTTACCAGTCTAGGCTAAACCTTTATAACGACACATCTGATTG
* ** * * *
13863257 CTTGTCTAAGCCGAATATATACATGTTAGGTTACTCGTCTGGACTAAAGGTTTAAAATGGCATTA
66 CTTGTCTAAGCTGAATATATACATGTTAGGTTACTCGTCTGG-CTAAACCTTTAAAACGACATCA
* * * * * *
13863322 GGTTACAAGTCTAAGCTAAACTTGAGT-T-ACATATATCTTTGATACACTAATTGCTCGTCCGAG
130 GGTTACCAGTCT-GGCTAAA--TAAGTGTCACATGTATCTTTAATACACTAATTGCTCATCCGAG
13863385 T
192 T
* * * * *
13863386 TGAATATATATATTTGTGTCAGGTTACCAAT-TCAGGCTAAACCTTTATAACAACATATTTTATT
1 TGAATATATATATTTGTGTCAGGTTACCAGTCT-AGGCTAAACCTTTATAACGACACATCTGATT
* * * * * * * *
13863450 ACTTGTCTAAGTTGAATATATACATGTCAAGTTAC-CTATCCGGGCTAAACCTTTAAAACCACAA
65 GCTTGTCTAAGCTGAATATATACATGTTAGGTTACTC-GT-CTGGCTAAACCTTTAAAACGACAT
* * *
13863514 CAAGTTTCCAGTCCTGGCTAAATAAGTGTCACATGTATCTTTAATACAAC-AATTGCTCATCTGA
128 CAGGTTACCAGT-CTGGCTAAATAAGTGTCACATGTATCTTTAATAC-ACTAATTGCTCATCCGA
13863578 GT
191 GT
*
13863580 TG-A-ATATATATTTGTGTCAGGTTACCAGTCTAGGCTAAACCTTTATAACGATACATCTGATTG
1 TGAATATATATATTTGTGTCAGGTTACCAGTCTAGGCTAAACCTTTATAACGACACATCTGATTG
* * * * *
13863643 CTTGTCCAAGCTAAATATATACATGTTAGGTTACTCGTCTAAGTTAGACCTTTAAAACGACATCA
66 CTTGTCTAAGCTGAATATATACATGTTAGGTTACTCGTCT-GGCTAAACCTTTAAAACGACATCA
* ***
13863708 GGTTACCAGTGCAGGCTAAACCTGTGTCACATGTATCTT
130 GGTTACCAGT-CTGGCTAAATAAGTGTCACATGTATCTT
13863747 CTAGTCCACA
Statistics
Matches: 291, Mismatches: 60, Indels: 22
0.78 0.16 0.06
Matches are distributed among these distances:
191 1 0.00
192 136 0.47
193 5 0.02
194 142 0.49
195 7 0.02
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (192 bp):
TGAATATATATATTTGTGTCAGGTTACCAGTCTAGGCTAAACCTTTATAACGACACATCTGATTG
CTTGTCTAAGCTGAATATATACATGTTAGGTTACTCGTCTGGCTAAACCTTTAAAACGACATCAG
GTTACCAGTCTGGCTAAATAAGTGTCACATGTATCTTTAATACACTAATTGCTCATCCGAGT
Found at i:13866185 original size:13 final size:13
Alignment explanation
Indices: 13866169--13866193 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13866159 GAATTTCTCT
13866169 ATGAAAGAAAAAC
1 ATGAAAGAAAAAC
13866182 ATGAAAGAAAAA
1 ATGAAAGAAAAA
13866194 AACACAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.04, G:0.16, T:0.08
Consensus pattern (13 bp):
ATGAAAGAAAAAC
Found at i:13871178 original size:13 final size:13
Alignment explanation
Indices: 13871160--13871188 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
13871150 CTGAAAATTT
13871160 TATGGTAGAAAGG
1 TATGGTAGAAAGG
13871173 TATGGTAGAAAGG
1 TATGGTAGAAAGG
13871186 TAT
1 TAT
13871189 TTGAGTCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.34, T:0.28
Consensus pattern (13 bp):
TATGGTAGAAAGG
Found at i:13871789 original size:23 final size:24
Alignment explanation
Indices: 13871763--13871807 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
13871753 ATATCCCCAC
*
13871763 ATGGAGTGTAGA-GTTGGATGGAG
1 ATGGAGTGTAGAGGCTGGATGGAG
*
13871786 ATGGTGTGTAGAGGCTGGATGG
1 ATGGAGTGTAGAGGCTGGATGG
13871808 GTAGGATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.22, C:0.02, G:0.49, T:0.27
Consensus pattern (24 bp):
ATGGAGTGTAGAGGCTGGATGGAG
Found at i:13875571 original size:192 final size:192
Alignment explanation
Indices: 13875067--13875621 Score: 566
Period size: 194 Copynumber: 2.9 Consensus size: 192
13875057 TCGTCTGAGC
* * * * * *
13875067 TGAATATATATATTTGTGTCAGGTTAGCAGTCCAAGCTTAACTTTTATAATGACACATCTGATTG
1 TGAATATATATATTTGTGTCAGGTTACCAGTCTAGGCTAAACCTTTATAACGACACATCTGATTG
* ** * * *
13875132 CTTGTCTAAGCCGAATATATACATGTTAGGTTACTCGTCTGGACTAAAGGTTTAAAATGGCATTA
66 CTTGTCTAAGCTGAATATATACATGTTAGGTTACTCGTCTGG-CTAAACCTTTAAAACGACATCA
* * * * * *
13875197 GGTTACAAGTCTAAGCTAAACTTGAGT-T-ACATATATCTTTGATACACTAATTGCTCGTCCGAG
130 GGTTACCAGTCT-GGCTAAA--TAAGTGTCACATGTATCTTTAATACACTAATTGCTCATCCGAG
13875260 T
192 T
* * * * *
13875261 TGAATATATATATTTGTGTCAGGTTACCAAT-TCAGGCTAAACCTTTATAACAACATATTTTATT
1 TGAATATATATATTTGTGTCAGGTTACCAGTCT-AGGCTAAACCTTTATAACGACACATCTGATT
* * * * * * * *
13875325 ACTTGTCTAAGTTGAATATATACATGTCAAGTTAC-CTATCCGGGCTAAACCTTTAAAACCACAA
65 GCTTGTCTAAGCTGAATATATACATGTTAGGTTACTC-GT-CTGGCTAAACCTTTAAAACGACAT
* * *
13875389 CAAGTTTCCAGTCCTGGCTAAATAAGTGTCACATGTATCTTTAATACAAC-AATTGCTCATCTGA
128 CAGGTTACCAGT-CTGGCTAAATAAGTGTCACATGTATCTTTAATAC-ACTAATTGCTCATCCGA
13875453 GT
191 GT
*
13875455 TG-A-ATATATATTTGTGTCAGGTTACCAGTCTAGGCTAAACCTTTATAACGATACATCTGATTG
1 TGAATATATATATTTGTGTCAGGTTACCAGTCTAGGCTAAACCTTTATAACGACACATCTGATTG
* * * * *
13875518 CTTGTCCAAGCTAAATATATACATGTTAGGTTACTCGTCTAAGTTAGACCTTTAAAACGACATCA
66 CTTGTCTAAGCTGAATATATACATGTTAGGTTACTCGTCT-GGCTAAACCTTTAAAACGACATCA
* ***
13875583 GGTTACCAGTGCAGGCTAAACCTGTGTCACATGTATCTT
130 GGTTACCAGT-CTGGCTAAATAAGTGTCACATGTATCTT
13875622 CTAGTCCACA
Statistics
Matches: 291, Mismatches: 60, Indels: 22
0.78 0.16 0.06
Matches are distributed among these distances:
191 1 0.00
192 136 0.47
193 5 0.02
194 142 0.49
195 7 0.02
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (192 bp):
TGAATATATATATTTGTGTCAGGTTACCAGTCTAGGCTAAACCTTTATAACGACACATCTGATTG
CTTGTCTAAGCTGAATATATACATGTTAGGTTACTCGTCTGGCTAAACCTTTAAAACGACATCAG
GTTACCAGTCTGGCTAAATAAGTGTCACATGTATCTTTAATACACTAATTGCTCATCCGAGT
Found at i:13876946 original size:68 final size:69
Alignment explanation
Indices: 13876816--13876950 Score: 202
Period size: 68 Copynumber: 2.0 Consensus size: 69
13876806 TGATTAAACT
* * *
13876816 TAATCACTTTAATATTAAATTAGTATAATACTTATAACGATAAATATTAGATTAAATTTAATATT
1 TAATCACTTTAATATTAAATTAATAAAATACTTATAACGATAAATATTAAATTAAATTTAATATT
13876881 AAGA
66 AAGA
* *
13876885 TAATTACTTTAATATTAAATTAATAAAATAC-TATCAA-GATAATTATTAAATTAAATTTAATAT
1 TAATCACTTTAATATTAAATTAATAAAATACTTAT-AACGATAAATATTAAATTAAATTTAATAT
13876948 TAA
65 TAA
13876951 ATCTATTAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
68 30 0.50
69 30 0.50
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.41
Consensus pattern (69 bp):
TAATCACTTTAATATTAAATTAATAAAATACTTATAACGATAAATATTAAATTAAATTTAATATT
AAGA
Found at i:13876966 original size:68 final size:69
Alignment explanation
Indices: 13876825--13876969 Score: 179
Period size: 68 Copynumber: 2.1 Consensus size: 69
13876815 TTAATCACTT
* * *
13876825 TAATATTAAATTAGTATAATACTTATAACGATAAATATTAGATTAAATTTAATATTAAGATAATT
1 TAATATTAAATTAATAAAATACTTATAACGATAAATATTAAATTAAATTTAATATTAAGATAATT
***
13876890 ACTT
66 AAAA
* *
13876894 TAATATTAAATTAATAAAATAC-TATCAA-GATAATTATTAAATTAAATTTAATATTAA-ATCTA
1 TAATATTAAATTAATAAAATACTTAT-AACGATAAATATTAAATTAAATTTAATATTAAGAT-AA
13876956 TTAAAA
64 TTAAAA
13876962 TAATATTA
1 TAATATTA
13876970 TTTTTTGAAT
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
67 2 0.03
68 42 0.64
69 22 0.33
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.41
Consensus pattern (69 bp):
TAATATTAAATTAATAAAATACTTATAACGATAAATATTAAATTAAATTTAATATTAAGATAATT
AAAA
Found at i:13878312 original size:13 final size:13
Alignment explanation
Indices: 13878296--13878320 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13878286 GAATTTCTCT
13878296 ATGAAAGAAAAAC
1 ATGAAAGAAAAAC
13878309 ATGAAAGAAAAA
1 ATGAAAGAAAAA
13878321 AACACAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.04, G:0.16, T:0.08
Consensus pattern (13 bp):
ATGAAAGAAAAAC
Found at i:13883305 original size:13 final size:13
Alignment explanation
Indices: 13883287--13883315 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
13883277 CTGAAAATTT
13883287 TATGGTAGAAAGG
1 TATGGTAGAAAGG
13883300 TATGGTAGAAAGG
1 TATGGTAGAAAGG
13883313 TAT
1 TAT
13883316 TTGAGTCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.34, T:0.28
Consensus pattern (13 bp):
TATGGTAGAAAGG
Found at i:13883916 original size:23 final size:24
Alignment explanation
Indices: 13883890--13883934 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
13883880 ATATCCCCAC
*
13883890 ATGGAGTGTAGA-GTTGGATGGAG
1 ATGGAGTGTAGAGGCTGGATGGAG
*
13883913 ATGGTGTGTAGAGGCTGGATGG
1 ATGGAGTGTAGAGGCTGGATGG
13883935 GTAGGATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.22, C:0.02, G:0.49, T:0.27
Consensus pattern (24 bp):
ATGGAGTGTAGAGGCTGGATGGAG
Found at i:13884788 original size:27 final size:26
Alignment explanation
Indices: 13884758--13884842 Score: 89
Period size: 27 Copynumber: 3.2 Consensus size: 26
13884748 TATTCCCGAC
*
13884758 GAACTCTGAAGGGATAGTATGTATAGT
1 GAACACTGAAGGGATAGTATGTAT-GT
* *
13884785 GAACACTGAAGGGATAGTATGTGTGGC
1 GAACACTGAAGGGATAGTATGTAT-GT
* * *
13884812 GGACACTAAAGAGATAGTATGTATGAT
1 GAACACTGAAGGGATAGTATGTATG-T
13884839 GAAC
1 GAAC
13884843 TCTCAAGGAA
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
26 1 0.02
27 46 0.98
ACGTcount: A:0.35, C:0.09, G:0.31, T:0.25
Consensus pattern (26 bp):
GAACACTGAAGGGATAGTATGTATGT
Found at i:13886668 original size:33 final size:30
Alignment explanation
Indices: 13886613--13886718 Score: 87
Period size: 28 Copynumber: 3.6 Consensus size: 30
13886603 GAAACAGTCT
* *
13886613 GGGCCTGAGGCCTATA-TAGTAACAATATAGTGA
1 GGGCCTGAGCCCAATACT-GTAACAA-AT-GT-A
*
13886646 GGGCCTGAGCCCAATACTGTAAC-AGTGTA
1 GGGCCTGAGCCCAATACTGTAACAAATGTA
* *
13886675 -GGCCTGAGCCCAATACTGTAAC-AGT-TT
1 GGGCCTGAGCCCAATACTGTAACAAATGTA
*
13886702 GGGCCTTAGCCCAATAC
1 GGGCCTGAGCCCAATAC
13886719 AGTATCAGTA
Statistics
Matches: 66, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
27 1 0.02
28 40 0.61
29 1 0.02
30 2 0.03
31 1 0.02
32 1 0.02
33 19 0.29
34 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.23
Consensus pattern (30 bp):
GGGCCTGAGCCCAATACTGTAACAAATGTA
Found at i:13886681 original size:28 final size:28
Alignment explanation
Indices: 13886647--13886727 Score: 117
Period size: 28 Copynumber: 2.9 Consensus size: 28
13886637 ATATAGTGAG
13886647 GGCCTGAGCCCAATACTGTAACAGTGTA
1 GGCCTGAGCCCAATACTGTAACAGTGTA
* *
13886675 GGCCTGAGCCCAATACTGTAACAGTTTG
1 GGCCTGAGCCCAATACTGTAACAGTGTA
* * *
13886703 GGCCTTAGCCCAATACAGTATCAGT
1 GGCCTGAGCCCAATACTGTAACAGT
13886728 ACAGTGCAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.23
Consensus pattern (28 bp):
GGCCTGAGCCCAATACTGTAACAGTGTA
Found at i:13887095 original size:27 final size:27
Alignment explanation
Indices: 13887075--13887323 Score: 287
Period size: 27 Copynumber: 9.2 Consensus size: 27
13887065 GGTATAACAT
**
13887075 TCATTTTACCCTAT-AGGGGTATTTTGG
1 TCATTTTACCCTATGA-GGGTATTTCAG
*
13887102 TCATTTAACCCTAT-AGGGGTATTTC-G
1 TCATTTTACCCTATGA-GGGTATTTCAG
*
13887128 ATTATTTTACCCTATGAGGGTATTTC-G
1 -TCATTTTACCCTATGAGGGTATTTCAG
* * * *
13887155 ATCATTTCACCATATGAAGGTATTTCGG
1 -TCATTTTACCCTATGAGGGTATTTCAG
13887183 TCATTTTACCCTATGAGGGTATTTCAG
1 TCATTTTACCCTATGAGGGTATTTCAG
13887210 TCATTTTACCCTATGAGGGTATTTCAG
1 TCATTTTACCCTATGAGGGTATTTCAG
13887237 TCATTTTACCCTATGAGGGTATTTCAG
1 TCATTTTACCCTATGAGGGTATTTCAG
*
13887264 TCATTTTACCCTAT-AGGGGTATTTTAG
1 TCATTTTACCCTATGA-GGGTATTTCAG
* *
13887291 TCATTGTACTCTAT-AGGGGTATTTC-G
1 TCATTTTACCCTATGA-GGGTATTTCAG
13887317 ATCATTT
1 -TCATTT
13887324 ATTTACCTCT
Statistics
Matches: 200, Mismatches: 17, Indels: 10
0.88 0.07 0.04
Matches are distributed among these distances:
26 3 0.01
27 195 0.98
28 2 0.01
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.42
Consensus pattern (27 bp):
TCATTTTACCCTATGAGGGTATTTCAG
Found at i:13889269 original size:21 final size:21
Alignment explanation
Indices: 13889243--13889284 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
13889233 GAACTTCTGA
*
13889243 GGCATACTCTTATCTTGTCGT
1 GGCATACTCTTAGCTTGTCGT
13889264 GGCATACTCTTAGCTTGTCGT
1 GGCATACTCTTAGCTTGTCGT
13889285 ACTCCTTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.14, C:0.24, G:0.21, T:0.40
Consensus pattern (21 bp):
GGCATACTCTTAGCTTGTCGT
Found at i:13891152 original size:15 final size:15
Alignment explanation
Indices: 13891125--13891170 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
13891115 TTAATTTTAC
13891125 ATTTTACTA-TTATGT
1 ATTTTA-TATTTATGT
*
13891140 ATTTTGTATTTATGT
1 ATTTTATATTTATGT
*
13891155 CTTTTATATTT-TGT
1 ATTTTATATTTATGT
13891169 AT
1 AT
13891171 GCATAGCGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
14 6 0.23
15 20 0.77
ACGTcount: A:0.22, C:0.04, G:0.09, T:0.65
Consensus pattern (15 bp):
ATTTTATATTTATGT
Found at i:13892241 original size:29 final size:29
Alignment explanation
Indices: 13892199--13892264 Score: 123
Period size: 29 Copynumber: 2.3 Consensus size: 29
13892189 GATGGTTGTG
*
13892199 AGAATTGTTCAACTAGAGAATTTGATTAA
1 AGAATTTTTCAACTAGAGAATTTGATTAA
13892228 AGAATTTTTCAACTAGAGAATTTGATTAA
1 AGAATTTTTCAACTAGAGAATTTGATTAA
13892257 AGAATTTT
1 AGAATTTT
13892265 CTTGAAAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.38
Consensus pattern (29 bp):
AGAATTTTTCAACTAGAGAATTTGATTAA
Found at i:13900181 original size:33 final size:32
Alignment explanation
Indices: 13900144--13900222 Score: 95
Period size: 33 Copynumber: 2.4 Consensus size: 32
13900134 CATAATTGTG
* *
13900144 AAATAGTATCAAAATAATGAAAAGACAACAAGA
1 AAATAGTAACAAAATAATGAAAA-AAAACAAGA
* * *
13900177 AAATAGGAACAAAATAATTAAAAAAAATAAGA
1 AAATAGTAACAAAATAATGAAAAAAAACAAGA
*
13900209 AAATAGTAATAAAA
1 AAATAGTAACAAAA
13900223 AAGTAATTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
32 19 0.49
33 20 0.51
ACGTcount: A:0.68, C:0.05, G:0.10, T:0.16
Consensus pattern (32 bp):
AAATAGTAACAAAATAATGAAAAAAAACAAGA
Found at i:13900420 original size:25 final size:25
Alignment explanation
Indices: 13900366--13900420 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
13900356 TCGGTCTGTC
* *
13900366 GCATTGCCATCGAAAGTCCTCTTCT
1 GCATCGCCATCGAAAGTCCTCTGCT
* *
13900391 ACATCGCCATCGACAGTCCTCTGCT
1 GCATCGCCATCGAAAGTCCTCTGCT
13900416 GCATC
1 GCATC
13900421 ATCGTGTAAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.36, G:0.16, T:0.27
Consensus pattern (25 bp):
GCATCGCCATCGAAAGTCCTCTGCT
Found at i:13900578 original size:24 final size:24
Alignment explanation
Indices: 13900543--13900592 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
13900533 CCAGAAACAG
*
13900543 CAACCCATAAAAGAGAAAAAAAAA
1 CAACCCAGAAAAGAGAAAAAAAAA
13900567 CAACCCAGAAAAGAGAAAAAAAAA
1 CAACCCAGAAAAGAGAAAAAAAAA
13900591 CA
1 CA
13900593 GCAACCCATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.70, C:0.18, G:0.10, T:0.02
Consensus pattern (24 bp):
CAACCCAGAAAAGAGAAAAAAAAA
Found at i:13904092 original size:16 final size:16
Alignment explanation
Indices: 13904071--13904116 Score: 74
Period size: 16 Copynumber: 2.9 Consensus size: 16
13904061 CTATTGCGCC
*
13904071 TCTATTCCATTACGCA
1 TCTATTCCATTACACA
*
13904087 TCTATTCCATTACACC
1 TCTATTCCATTACACA
13904103 TCTATTCCATTACA
1 TCTATTCCATTACA
13904117 ACGAACCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.26, C:0.33, G:0.02, T:0.39
Consensus pattern (16 bp):
TCTATTCCATTACACA
Found at i:13920726 original size:17 final size:17
Alignment explanation
Indices: 13920704--13920739 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
13920694 GGTTTTGTAC
*
13920704 AAGTTTTAAATTTCAAG
1 AAGTTTGAAATTTCAAG
13920721 AAGTTTGAAATTTCAAG
1 AAGTTTGAAATTTCAAG
13920738 AA
1 AA
13920740 TTTCAATGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.14, T:0.36
Consensus pattern (17 bp):
AAGTTTGAAATTTCAAG
Found at i:13926669 original size:19 final size:17
Alignment explanation
Indices: 13926622--13926669 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 17
13926612 CCACGTCAGC
*
13926622 AAATTATAAAAATATTA
1 AAATTATAAAAATATGA
*
13926639 AAATTTTAAAAAGATATAGA
1 AAATTAT-AAAA-ATAT-GA
13926659 AAATTATAAAA
1 AAATTATAAAA
13926670 TTATTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 6 0.24
18 4 0.16
19 8 0.32
20 7 0.28
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (17 bp):
AAATTATAAAAATATGA
Found at i:13926681 original size:18 final size:18
Alignment explanation
Indices: 13926622--13926681 Score: 68
Period size: 17 Copynumber: 3.3 Consensus size: 18
13926612 CCACGTCAGC
13926622 AAATTATAAAAATATT-A
1 AAATTATAAAAATATTAA
* *
13926639 AAATTTTAAAAAGATATAGA
1 AAATTATAAAAATAT-TA-A
*
13926659 AAATTATAAAATTATTAA
1 AAATTATAAAAATATTAA
13926677 AAATT
1 AAATT
13926682 TATATTAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
17 13 0.37
18 7 0.20
19 2 0.06
20 13 0.37
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (18 bp):
AAATTATAAAAATATTAA
Found at i:13926684 original size:19 final size:19
Alignment explanation
Indices: 13926625--13926685 Score: 65
Period size: 20 Copynumber: 3.3 Consensus size: 19
13926615 CGTCAGCAAA
13926625 TTATAAAAATATT-AAAAT
1 TTATAAAAATATTAAAAAT
*
13926643 TT-TAAAAAGATATAGAAAA-
1 TTATAAAAATAT-TA-AAAAT
*
13926662 TTATAAAATTATTAAAAAT
1 TTATAAAAATATTAAAAAT
13926681 TTATA
1 TTATA
13926686 TTAAATTCTA
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
17 8 0.23
18 7 0.20
19 9 0.26
20 11 0.31
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (19 bp):
TTATAAAAATATTAAAAAT
Found at i:13926897 original size:9 final size:9
Alignment explanation
Indices: 13926879--13926962 Score: 66
Period size: 9 Copynumber: 9.1 Consensus size: 9
13926869 TAGAAAATAT
*
13926879 TAAAAGTTA
1 TAAAAATTA
13926888 TAAAAATTA
1 TAAAAATTA
13926897 TAAAAA--A
1 TAAAAATTA
*
13926904 TAGAATATTA
1 TA-AAAATTA
13926914 TAAGAAACTTA
1 TAA-AAA-TTA
*
13926925 TAAGAATTA
1 TAAAAATTA
*
13926934 TAAAAATATT
1 TAAAAAT-TA
13926944 TAAAAA-TA
1 TAAAAATTA
13926952 TATAAAATTA
1 TA-AAAATTA
13926962 T
1 T
13926963 TACTTTTTGT
Statistics
Matches: 60, Mismatches: 7, Indels: 15
0.73 0.09 0.18
Matches are distributed among these distances:
7 3 0.05
8 6 0.10
9 28 0.47
10 17 0.28
11 6 0.10
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.33
Consensus pattern (9 bp):
TAAAAATTA
Found at i:13927814 original size:2 final size:2
Alignment explanation
Indices: 13927807--13927836 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
13927797 AGTAACATGT
13927807 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
13927837 GATGTTGACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13928308 original size:2 final size:2
Alignment explanation
Indices: 13928298--13928331 Score: 59
Period size: 2 Copynumber: 16.5 Consensus size: 2
13928288 TATAACAAAA
13928298 AT AT GAT 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 A
13928332 GATGTTGACA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 29 0.94
3 2 0.06
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:13928738 original size:495 final size:495
Alignment explanation
Indices: 13927808--13928781 Score: 1948
Period size: 495 Copynumber: 2.0 Consensus size: 495
13927798 GTAACATGTT
13927808 ATATATATATATATATATATATATATATAGATGTTGACAGAATTACAAAAAAACAATAAGCAAGA
1 ATATATATATATATATATATATATATATAGATGTTGACAGAATTACAAAAAAACAATAAGCAAGA
13927873 GAAGAAATCACAATATCTATATATGTATATAGTTGTGTAGATCGATGGAGGGCTCAAATGACCCA
66 GAAGAAATCACAATATCTATATATGTATATAGTTGTGTAGATCGATGGAGGGCTCAAATGACCCA
13927938 TCCATGGATGAAATTGGTCTCACCAGCCATGCCTGTGGGGGCTGAAGATCCTTCAGCCTCAACAT
131 TCCATGGATGAAATTGGTCTCACCAGCCATGCCTGTGGGGGCTGAAGATCCTTCAGCCTCAACAT
13928003 AGTGATGATACCTGACGCATTAATAGAAGCAGTCAGAAAAATTAAGAATAACATTAAAAACAAAC
196 AGTGATGATACCTGACGCATTAATAGAAGCAGTCAGAAAAATTAAGAATAACATTAAAAACAAAC
13928068 AAACAATGGTGATGATAACATTGAATCATATGCAATGGATGGTTTTTTTTCTTTCTGAAGGTCAA
261 AAACAATGGTGATGATAACATTGAATCATATGCAATGGATGGTTTTTTTTCTTTCTGAAGGTCAA
13928133 ATTTAGCAGAGCCATTAACTAGTATTTGTGAACAGTCAACCAACCAACCAACTATATACTATGTC
326 ATTTAGCAGAGCCATTAACTAGTATTTGTGAACAGTCAACCAACCAACCAACTATATACTATGTC
13928198 ATATACAAGTTTAATCAGTTTAAGGTACCTATGAAAATGAAAGCATTGAAGAGACATGGCACATT
391 ATATACAAGTTTAATCAGTTTAAGGTACCTATGAAAATGAAAGCATTGAAGAGACATGGCACATT
13928263 GATTTTATAGAGGTTGAAAGGGGTATATAACAAAAATATG
456 GATTTTATAGAGGTTGAAAGGGGTATATAACAAAAATATG
13928303 ATATATATATATATATATATATATATATAGATGTTGACAGAATTACAAAAAAACAATAAGCAAGA
1 ATATATATATATATATATATATATATATAGATGTTGACAGAATTACAAAAAAACAATAAGCAAGA
13928368 GAAGAAATCACAATATCTATATATGTATATAGTTGTGTAGATCGATGGAGGGCTCAAATGACCCA
66 GAAGAAATCACAATATCTATATATGTATATAGTTGTGTAGATCGATGGAGGGCTCAAATGACCCA
13928433 TCCATGGATGAAATTGGTCTCACCAGCCATGCCTGTGGGGGCTGAAGATCCTTCAGCCTCAACAT
131 TCCATGGATGAAATTGGTCTCACCAGCCATGCCTGTGGGGGCTGAAGATCCTTCAGCCTCAACAT
13928498 AGTGATGATACCTGACGCATTAATAGAAGCAGTCAGAAAAATTAAGAATAACATTAAAAACAAAC
196 AGTGATGATACCTGACGCATTAATAGAAGCAGTCAGAAAAATTAAGAATAACATTAAAAACAAAC
13928563 AAACAATGGTGATGATAACATTGAATCATATGCAATGGATGGTTTTTTTTCTTTCTGAAGGTCAA
261 AAACAATGGTGATGATAACATTGAATCATATGCAATGGATGGTTTTTTTTCTTTCTGAAGGTCAA
13928628 ATTTAGCAGAGCCATTAACTAGTATTTGTGAACAGTCAACCAACCAACCAACTATATACTATGTC
326 ATTTAGCAGAGCCATTAACTAGTATTTGTGAACAGTCAACCAACCAACCAACTATATACTATGTC
13928693 ATATACAAGTTTAATCAGTTTAAGGTACCTATGAAAATGAAAGCATTGAAGAGACATGGCACATT
391 ATATACAAGTTTAATCAGTTTAAGGTACCTATGAAAATGAAAGCATTGAAGAGACATGGCACATT
13928758 GATTTTATAGAGGTTGAAAGGGGT
456 GATTTTATAGAGGTTGAAAGGGGT
13928782 GAATTTTGTG
Statistics
Matches: 479, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
495 479 1.00
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.28
Consensus pattern (495 bp):
ATATATATATATATATATATATATATATAGATGTTGACAGAATTACAAAAAAACAATAAGCAAGA
GAAGAAATCACAATATCTATATATGTATATAGTTGTGTAGATCGATGGAGGGCTCAAATGACCCA
TCCATGGATGAAATTGGTCTCACCAGCCATGCCTGTGGGGGCTGAAGATCCTTCAGCCTCAACAT
AGTGATGATACCTGACGCATTAATAGAAGCAGTCAGAAAAATTAAGAATAACATTAAAAACAAAC
AAACAATGGTGATGATAACATTGAATCATATGCAATGGATGGTTTTTTTTCTTTCTGAAGGTCAA
ATTTAGCAGAGCCATTAACTAGTATTTGTGAACAGTCAACCAACCAACCAACTATATACTATGTC
ATATACAAGTTTAATCAGTTTAAGGTACCTATGAAAATGAAAGCATTGAAGAGACATGGCACATT
GATTTTATAGAGGTTGAAAGGGGTATATAACAAAAATATG
Found at i:13929666 original size:20 final size:20
Alignment explanation
Indices: 13929641--13929678 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
13929631 ATTACACCAA
13929641 CAGTCACTCAACTTTCAATT
1 CAGTCACTCAACTTTCAATT
13929661 CAGTCACTCAACTTTCAA
1 CAGTCACTCAACTTTCAA
13929679 AAAACAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.32, G:0.05, T:0.32
Consensus pattern (20 bp):
CAGTCACTCAACTTTCAATT
Found at i:13930610 original size:3 final size:3
Alignment explanation
Indices: 13930602--13930653 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
13930592 GTATCTTCAT
13930602 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
13930650 TTC T
1 TTC T
13930654 ACCCAGCTGG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:13957641 original size:16 final size:16
Alignment explanation
Indices: 13957620--13957673 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
13957610 ACTATGGAAA
13957620 GAAAATTAAAAAGATG
1 GAAAATTAAAAAGATG
* ** *
13957636 GAAAATTGAAGGGGTG
1 GAAAATTAAAAAGATG
13957652 GAAAATTAGAAAA-ATG
1 GAAAATTA-AAAAGATG
13957668 GAAAAT
1 GAAAAT
13957674 ATAATTTTTC
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
16 27 0.93
17 2 0.07
ACGTcount: A:0.56, C:0.00, G:0.26, T:0.19
Consensus pattern (16 bp):
GAAAATTAAAAAGATG
Found at i:13960944 original size:16 final size:16
Alignment explanation
Indices: 13960923--13960954 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
13960913 TTACACACTT
13960923 GCTAGTGCATGAATAA
1 GCTAGTGCATGAATAA
13960939 GCTAGTGCATGAATAA
1 GCTAGTGCATGAATAA
13960955 TATTAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (16 bp):
GCTAGTGCATGAATAA
Found at i:13972736 original size:13 final size:13
Alignment explanation
Indices: 13972718--13972748 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
13972708 CATAGGGTGA
*
13972718 AAATGGATACATG
1 AAATGGACACATG
13972731 AAATGGACACATG
1 AAATGGACACATG
13972744 AAATG
1 AAATG
13972749 TAAATATGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.48, C:0.10, G:0.23, T:0.19
Consensus pattern (13 bp):
AAATGGACACATG
Found at i:13975293 original size:15 final size:16
Alignment explanation
Indices: 13975275--13975311 Score: 67
Period size: 15 Copynumber: 2.4 Consensus size: 16
13975265 GTTTGATTCA
13975275 TTATTTTTTGAAT-TT
1 TTATTTTTTGAATCTT
13975290 TTATTTTTTGAATCTT
1 TTATTTTTTGAATCTT
13975306 TTATTT
1 TTATTT
13975312 ATAAATTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.19, C:0.03, G:0.05, T:0.73
Consensus pattern (16 bp):
TTATTTTTTGAATCTT
Found at i:13976682 original size:21 final size:20
Alignment explanation
Indices: 13976639--13976678 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
13976629 ATAGAGTTGA
*
13976639 CATTTACTGTTTAAAAATAT
1 CATTTACTGTTTAAAAAAAT
13976659 CATTTACTGTTTAAAAAAAT
1 CATTTACTGTTTAAAAAAAT
13976679 TCATATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.42
Consensus pattern (20 bp):
CATTTACTGTTTAAAAAAAT
Found at i:13977739 original size:2 final size:2
Alignment explanation
Indices: 13977732--13977762 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
13977722 ATGCTAAAAT
13977732 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13977763 TGGAAGAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13985278 original size:48 final size:48
Alignment explanation
Indices: 13985207--13985301 Score: 172
Period size: 48 Copynumber: 2.0 Consensus size: 48
13985197 ATAGTGCTTC
13985207 AAGCGTTGTCCATTAACTTTAAATGTGACCCCCGTTTTCGTATCTTTA
1 AAGCGTTGTCCATTAACTTTAAATGTGACCCCCGTTTTCGTATCTTTA
* *
13985255 AAGCGTTGTCCATTAACTTTAAATGTGACCCTCGTTTTTGTATCTTT
1 AAGCGTTGTCCATTAACTTTAAATGTGACCCCCGTTTTCGTATCTTT
13985302 GACATCAATA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.22, C:0.21, G:0.15, T:0.42
Consensus pattern (48 bp):
AAGCGTTGTCCATTAACTTTAAATGTGACCCCCGTTTTCGTATCTTTA
Found at i:13989324 original size:17 final size:17
Alignment explanation
Indices: 13989304--13989377 Score: 60
Period size: 17 Copynumber: 4.4 Consensus size: 17
13989294 AAATGACAGC
*
13989304 TCATACAAAATAATAGT
1 TCATACAAAATAATAAT
**
13989321 TCATATGAAAT-ATCAAT
1 TCATACAAAATAAT-AAT
**
13989338 TCATACCGAATAATAAT
1 TCATACAAAATAATAAT
* * *
13989355 TTATGCAAAATAATAGT
1 TCATACAAAATAATAAT
13989372 TCATAC
1 TCATAC
13989378 TCCATCTAAC
Statistics
Matches: 42, Mismatches: 13, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
16 2 0.05
17 38 0.90
18 2 0.05
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.32
Consensus pattern (17 bp):
TCATACAAAATAATAAT
Found at i:13991744 original size:13 final size:13
Alignment explanation
Indices: 13991728--13991752 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13991718 TTAGATATAT
13991728 ATTTTATATATTC
1 ATTTTATATATTC
13991741 ATTTTATATATT
1 ATTTTATATATT
13991753 GTATGAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (13 bp):
ATTTTATATATTC
Found at i:13994348 original size:15 final size:14
Alignment explanation
Indices: 13994270--13994348 Score: 52
Period size: 15 Copynumber: 5.4 Consensus size: 14
13994260 CTCGAACACC
13994270 TAATTTTAATTATT
1 TAATTTTAATTATT
* **
13994284 TAACCTAAAATTA-T
1 TAA-TTTTAATTATT
*
13994298 TAATTCTAATTATTT
1 TAATTTTAATTA-TT
* *
13994313 TAATATTTTATATAAT
1 TAAT-TTTAAT-TATT
13994329 TAATTTTAAATTATT
1 TAATTTT-AATTATT
13994344 TAATT
1 TAATT
13994349 ATCTAACCTA
Statistics
Matches: 48, Mismatches: 11, Indels: 11
0.69 0.16 0.16
Matches are distributed among these distances:
13 6 0.12
14 7 0.15
15 22 0.46
16 11 0.23
17 2 0.04
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.56
Consensus pattern (14 bp):
TAATTTTAATTATT
Found at i:14009333 original size:21 final size:20
Alignment explanation
Indices: 14009307--14009349 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
14009297 GATTCCAAGG
*
14009307 TAACAAAATCATATCTAATGT
1 TAACAAAATCATAT-TAAAGT
14009328 TAACAAAATCATATTAAAGT
1 TAACAAAATCATATTAAAGT
14009348 TA
1 TA
14009350 TAGAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.51, C:0.12, G:0.05, T:0.33
Consensus pattern (20 bp):
TAACAAAATCATATTAAAGT
Found at i:14009486 original size:15 final size:15
Alignment explanation
Indices: 14009453--14009490 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
14009443 TATGTTAATA
14009453 AATAACATAATTATAT
1 AATAA-ATAATTATAT
14009469 AATAAATATATT-TAT
1 AATAAATA-ATTATAT
14009484 AATAAAT
1 AATAAAT
14009491 TTACATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (15 bp):
AATAAATAATTATAT
Found at i:14015348 original size:19 final size:19
Alignment explanation
Indices: 14015324--14015362 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
14015314 CTCCCACCTC
14015324 ATCACAACCATTCATCCAT
1 ATCACAACCATTCATCCAT
14015343 ATCACAACCATTCATCCAT
1 ATCACAACCATTCATCCAT
14015362 A
1 A
14015363 ATCATTTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.36, G:0.00, T:0.26
Consensus pattern (19 bp):
ATCACAACCATTCATCCAT
Found at i:14015668 original size:20 final size:20
Alignment explanation
Indices: 14015624--14015671 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
14015614 TAGAAATTTA
*
14015624 TATCGATACTAGTAAGGAAG
1 TATCGATACTAGTAAGCAAG
*
14015644 CATCGATACT-GTAAGTCAAG
1 TATCGATACTAGTAAG-CAAG
14015664 TATCGATA
1 TATCGATA
14015672 GTTGTTGATC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.27
Consensus pattern (20 bp):
TATCGATACTAGTAAGCAAG
Found at i:14020692 original size:18 final size:18
Alignment explanation
Indices: 14020669--14020706 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
14020659 TCGTTTTTAT
14020669 TTTCTCTTTTGCTATTTC
1 TTTCTCTTTTGCTATTTC
*
14020687 TTTCTCTTTTGTTATTTC
1 TTTCTCTTTTGCTATTTC
14020705 TT
1 TT
14020707 CTGTTCTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.05, C:0.18, G:0.05, T:0.71
Consensus pattern (18 bp):
TTTCTCTTTTGCTATTTC
Found at i:14021592 original size:2 final size:2
Alignment explanation
Indices: 14021585--14021609 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14021575 GATACTTAAC
14021585 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 A
14021610 ATGATTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14031198 original size:16 final size:16
Alignment explanation
Indices: 14031168--14031230 Score: 65
Period size: 16 Copynumber: 3.8 Consensus size: 16
14031158 TCTTATCCTA
14031168 AAAATTAAAAATATATT
1 AAAA-TAAAAATATATT
*
14031185 AAAATAAAATTATATT
1 AAAATAAAAATATATT
*
14031201 AAAATTTATAAAATAT-TA
1 AAAA--TA-AAAATATATT
14031219 AAAATAAAAATA
1 AAAATAAAAATA
14031231 AAATAATTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
15 6 0.15
16 17 0.43
17 4 0.10
18 7 0.17
19 6 0.15
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAATAAAAATATATT
Found at i:14037477 original size:41 final size:41
Alignment explanation
Indices: 14037432--14037513 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
14037422 GTGCTCTGTT
14037432 TGACACATTTTATTACTTGGATAAACATATACCCGATTTAG
1 TGACACATTTTATTACTTGGATAAACATATACCCGATTTAG
14037473 TGACACATTTTATTACTTGGATAAACATATACCCGATTTAG
1 TGACACATTTTATTACTTGGATAAACATATACCCGATTTAG
14037514 CAGAAAACAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (41 bp):
TGACACATTTTATTACTTGGATAAACATATACCCGATTTAG
Found at i:14045538 original size:18 final size:17
Alignment explanation
Indices: 14045510--14045544 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14045500 ATTATTAAGA
*
14045510 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
14045527 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
14045545 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:14045764 original size:44 final size:45
Alignment explanation
Indices: 14045701--14045796 Score: 142
Period size: 44 Copynumber: 2.2 Consensus size: 45
14045691 CTATTACACC
14045701 TCCATTACATTCAACCAAACACA-AGAA-TACTATTACACCTCTAT
1 TCCATTACATTCAACCAAACA-ATAGAATTACTATTACACCTCTAT
* * *
14045745 TCCATTACATTCAACCAAACAATTGAATTGCTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACAATAGAATTACTATTACACCTCTAT
14045790 TCCATTA
1 TCCATTA
14045797 TGCCTCTATT
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 24 0.51
45 22 0.47
ACGTcount: A:0.36, C:0.28, G:0.04, T:0.31
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAATAGAATTACTATTACACCTCTAT
Done.