Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 116 of 343
Found at i:39045366 original size:48 final size:48
Alignment explanation
Indices: 39045308--39045450 Score: 225
Period size: 48 Copynumber: 3.0 Consensus size: 48
39045298 ACGATGTCTC
* * *
39045308 ATATCTATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCA-
1 ATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCAT
39045355 ACTATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCAT
1 A-TATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCAT
* *
39045404 ATATCGATGCTAATGTCATGTCCCAGACATGGTCTTACATGGGATCA
1 ATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCA
39045451 CACATAACCC
Statistics
Matches: 89, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
47 1 0.01
48 87 0.98
49 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (48 bp):
ATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCAT
Found at i:39051223 original size:36 final size:36
Alignment explanation
Indices: 39051176--39051250 Score: 132
Period size: 36 Copynumber: 2.1 Consensus size: 36
39051166 ATTATAATAA
*
39051176 CACATGTTATAAAACTAGGTCCCTACACATGCCACT
1 CACATGTTATAAAACTAGGTCCCTACACATACCACT
*
39051212 CACATGTTATAAAACTAGGTCCCTATACATACCACT
1 CACATGTTATAAAACTAGGTCCCTACACATACCACT
39051248 CAC
1 CAC
39051251 TTGATAATTC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.35, C:0.31, G:0.09, T:0.25
Consensus pattern (36 bp):
CACATGTTATAAAACTAGGTCCCTACACATACCACT
Found at i:39051975 original size:23 final size:22
Alignment explanation
Indices: 39051932--39051989 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
39051922 AAAGGGTATC
* *
39051932 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
39051953 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
39051976 TACATATCATATCT
1 TACAAATCATATCT
39051990 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:39051983 original size:17 final size:17
Alignment explanation
Indices: 39051961--39052011 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 17
39051951 ATTACAAAAT
39051961 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
*
39051978 CATATCATATCTAAGATTG
1 CATATC-T-TCTAAGATTA
*
39051997 CATATCTTCGAAGAT
1 CATATCTTCTAAGAT
39052012 CATGTTTCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 13 0.43
18 2 0.07
19 15 0.50
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Found at i:39051992 original size:19 final size:20
Alignment explanation
Indices: 39051945--39052002 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 20
39051935 AAATTAAATC
*
39051945 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-ATATCATA--T
39051968 TCTAAGATTACATATCATA-
1 TCTAAGATTACATATCATAT
*
39051987 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
39052003 TTCGAAGATC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.45
22 7 0.21
23 11 0.33
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (20 bp):
TCTAAGATTACATATCATAT
Found at i:39056967 original size:72 final size:73
Alignment explanation
Indices: 39056881--39057026 Score: 276
Period size: 74 Copynumber: 2.0 Consensus size: 73
39056871 ACGAGACAAG
39056881 AACAAGCCACAGAAAATAAGAACAC-AAGAGAGAGAGAAATTTGAGTGAATGCTCTCAAGAATTC
1 AACAAGCCACAGAAAATAAGAACACAAAGAGAGAGAGAAATTTGAGTGAATGCTCTCAAGAATTC
39056945 TTATTGTT
66 TTATTGTT
39056953 AACAAGCCACAGAAAATAAGAACACAAAAGAGAGAGAGAAATTTGAGTGAATGCTCTCAAGAATT
1 AACAAGCCACAGAAAATAAGAACAC-AAAGAGAGAGAGAAATTTGAGTGAATGCTCTCAAGAATT
39057018 CTTATTGTT
65 CTTATTGTT
39057027 CAAAAAAAAA
Statistics
Matches: 72, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
72 25 0.35
74 47 0.65
ACGTcount: A:0.45, C:0.14, G:0.19, T:0.22
Consensus pattern (73 bp):
AACAAGCCACAGAAAATAAGAACACAAAGAGAGAGAGAAATTTGAGTGAATGCTCTCAAGAATTC
TTATTGTT
Found at i:39057172 original size:22 final size:23
Alignment explanation
Indices: 39057145--39057189 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
39057135 GGGTATCTAC
*
39057145 AAATCAAATC-TCTAGGATTACA
1 AAATCAAATCTTCTAAGATTACA
*
39057167 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
39057190 TATCATATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.31
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTACA
Found at i:39057194 original size:22 final size:22
Alignment explanation
Indices: 39057142--39057199 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
39057132 AAAGGGTATC
* *
39057142 TACAAATCAAATC-TCTAGGAT
1 TACAAATCATATCTTCTAAGAT
39057163 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
39057186 TACATATCATATCT
1 TACAAATCATATCT
39057200 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 19 0.59
23 10 0.31
ACGTcount: A:0.41, C:0.19, G:0.05, T:0.34
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:39062054 original size:28 final size:28
Alignment explanation
Indices: 39062022--39062149 Score: 166
Period size: 29 Copynumber: 4.5 Consensus size: 28
39062012 ATAGTAAGTC
*
39062022 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
39062050 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGC-TATATAATCAAACT
39062079 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * ** * *
39062107 TGGACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
39062136 CGCACACTTAGTGC
1 CGCACACTTAGTGC
39062150 CAATCTCATG
Statistics
Matches: 87, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
28 43 0.49
29 44 0.51
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:39062114 original size:57 final size:57
Alignment explanation
Indices: 39062021--39062149 Score: 179
Period size: 57 Copynumber: 2.3 Consensus size: 57
39062011 TATAGTAAGT
*
39062021 CCGCACACTTAGTGTTATATAATCAAACTCGCACACTTAGTGCT-TACATAATCAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACA-AATCAAAC
* * * * * *
39062078 TCGCACACTTAGTGCTATATAATCAAACTTGGACACTTAGTGCTATGCAATTTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
39062135 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
39062150 CAATCTCATG
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
57 60 0.95
58 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.29
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
Found at i:39068624 original size:34 final size:34
Alignment explanation
Indices: 39068596--39068673 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 34
39068586 CAATAACAGT
39068596 CCAGTAACAGT-TAGGGCCTTAGCCCAATACAATA
1 CCAGTAACAGTGT-GGGCCTTAGCCCAATACAATA
* * * *
39068630 TCAGTATCAGTGTGGGCCTTAGCCCAATTCAGTA
1 CCAGTAACAGTGTGGGCCTTAGCCCAATACAATA
*
39068664 ACAGTAACAG
1 CCAGTAACAG
39068674 ATATGCAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
34 36 0.97
35 1 0.03
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (34 bp):
CCAGTAACAGTGTGGGCCTTAGCCCAATACAATA
Found at i:39070772 original size:22 final size:23
Alignment explanation
Indices: 39070744--39070790 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
39070734 ATTAATGGGG
* *
39070744 TTAACAATCCCTTAATT-AACAC
1 TTAACAAACCCATAATTCAACAC
*
39070766 TTAACAAAGCCATAATTCAACAC
1 TTAACAAACCCATAATTCAACAC
39070789 TT
1 TT
39070791 GCCTTGATCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.43, C:0.26, G:0.02, T:0.30
Consensus pattern (23 bp):
TTAACAAACCCATAATTCAACAC
Found at i:39074696 original size:26 final size:28
Alignment explanation
Indices: 39074667--39074743 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
39074657 TTTCAAGAAA
*
39074667 TCATTC-C-ATATTTTGCACACTAAGTG
1 TCATTCTCAATATTTCGCACACTAAGTG
* *
39074693 TCATTCTCAATATCTCGCACATTAAGTG
1 TCATTCTCAATATTTCGCACACTAAGTG
* *
39074721 CCATTCTCAATATTTCGTACACT
1 TCATTCTCAATATTTCGCACACT
39074744 GAGTACCATA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 6 0.14
27 1 0.02
28 35 0.83
ACGTcount: A:0.27, C:0.26, G:0.09, T:0.38
Consensus pattern (28 bp):
TCATTCTCAATATTTCGCACACTAAGTG
Found at i:39074712 original size:28 final size:28
Alignment explanation
Indices: 39074681--39074752 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
39074671 TCCATATTTT
*
39074681 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* *
39074709 GCACATTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* * *
39074737 GTACACTGAGTACCAT
1 GCACACTAAGTGCCAT
39074753 ATTTGATTGC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:39090723 original size:28 final size:29
Alignment explanation
Indices: 39090692--39090754 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
39090682 TCCATATTTT
*
39090692 GCACACT-AAGTGTCATTCTCAATATCTC
1 GCACACTCAAGTGCCATTCTCAATATCTC
* *
39090720 GCACA-TCAAGTGCCATTCTTAATATTTC
1 GCACACTCAAGTGCCATTCTCAATATCTC
*
39090748 GTACACT
1 GCACACT
39090755 GAGTACCATA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 1 0.03
28 27 0.93
29 1 0.03
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.33
Consensus pattern (29 bp):
GCACACTCAAGTGCCATTCTCAATATCTC
Found at i:39092300 original size:46 final size:48
Alignment explanation
Indices: 39092116--39092303 Score: 184
Period size: 48 Copynumber: 3.9 Consensus size: 48
39092106 CACACAACAA
* * * ** *
39092116 GCTGATGCCATGTCCCACATAGGTCTTACACTAGCTTGTC-TATCTTGAG
1 GCTGATG-CATGTCCCAGACATGTCTTACACTAGC-TCACATATCTCGAG
* * * *
39092165 GCCGATGCATGTCCCAGACATGTCGTACACTAGCTTAAATATCTCGAG
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTCACATATCTCGAG
* * * * *
39092213 GCTGATACATGTCCCAGTCATGTCTTACACTGGCTCTCATAT-T-GTG
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTCACATATCTCGAG
* *
39092259 GCTGATGTATGTCCCAGACATGTCTTACACTAGCACACATATCTC
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTCACATATCTC
39092304 CCAATATCAA
Statistics
Matches: 112, Mismatches: 24, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
46 38 0.34
47 3 0.03
48 65 0.58
49 6 0.05
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.30
Consensus pattern (48 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTAGCTCACATATCTCGAG
Found at i:39097514 original size:41 final size:41
Alignment explanation
Indices: 39097454--39097554 Score: 148
Period size: 41 Copynumber: 2.5 Consensus size: 41
39097444 CTCACGGGCT
*
39097454 TGCTCACACAAGCTGTCAGTCAGGACGTAGCTGCACAGTGC
1 TGCTCACACAAGCTGTCAGTCAGGACGTAGCTACACAGTGC
* * * *
39097495 TGCTCACACAAGCTATCAGTTAGGGCGTAGCTACACAGTTC
1 TGCTCACACAAGCTGTCAGTCAGGACGTAGCTACACAGTGC
*
39097536 AGCTCACACAAGCTGTCAG
1 TGCTCACACAAGCTGTCAG
39097555 ATATCTGCAA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.21
Consensus pattern (41 bp):
TGCTCACACAAGCTGTCAGTCAGGACGTAGCTACACAGTGC
Found at i:39099509 original size:7 final size:7
Alignment explanation
Indices: 39099497--39099521 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
39099487 TTCTACTTGA
39099497 AATTCTC
1 AATTCTC
39099504 AATTCTC
1 AATTCTC
39099511 AATTCTC
1 AATTCTC
39099518 AATT
1 AATT
39099522 TTGCTTCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (7 bp):
AATTCTC
Found at i:39102490 original size:6 final size:6
Alignment explanation
Indices: 39102479--39102650 Score: 138
Period size: 6 Copynumber: 27.8 Consensus size: 6
39102469 TATCATAACT
* * *
39102479 AGAATC AGAATC AGAATC AGAATC AG-GTGAC AGAATC AAAATC AGAACC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* * *
39102528 AGAATT AGAATT AGGTAA-C AGAATC AGAATC AGCATC AGGTAA-C AGAATC
1 AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
* * *
39102578 AGAATC AGAACC AGAATC AGAATT AGGTAA-C AGAATC AGAATC AGTATC
1 AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC
39102627 AGGTAA-C AGAATC AGAATC AGAAT
1 A-G-AATC AGAATC AGAATC AGAAT
39102651 GTGAATGCAA
Statistics
Matches: 135, Mismatches: 16, Indels: 30
0.75 0.09 0.17
Matches are distributed among these distances:
5 9 0.07
6 106 0.79
7 13 0.10
8 7 0.05
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.17
Consensus pattern (6 bp):
AGAATC
Found at i:39102512 original size:25 final size:24
Alignment explanation
Indices: 39102479--39102650 Score: 138
Period size: 25 Copynumber: 7.0 Consensus size: 24
39102469 TATCATAACT
39102479 AGAATCAGAATCAGAATCAGAATC
1 AGAATCAGAATCAGAATCAGAATC
* * *
39102503 AG-GTGACAGAATCAAAATCAGAACC
1 AGAAT--CAGAATCAGAATCAGAATC
* *
39102528 AGAATTAGAATTAGGTAA-CAGAATC
1 AGAATCAGAATCA-G-AATCAGAATC
*
39102553 AGAATCAGCATCAGGTAA-CAGAATC
1 AGAATCAGAATCA-G-AATCAGAATC
* *
39102578 AGAATCAGAACCAGAATCAGAATT
1 AGAATCAGAATCAGAATCAGAATC
*
39102602 AGGTAA-CAGAATCAGAATCAGTATC
1 A-G-AATCAGAATCAGAATCAGAATC
39102627 AGGTAA-CAGAATCAGAATCAGAAT
1 A-G-AATCAGAATCAGAATCAGAAT
39102651 GTGAATGCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 15
0.79 0.12 0.10
Matches are distributed among these distances:
23 3 0.02
24 16 0.13
25 98 0.80
26 5 0.04
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.17
Consensus pattern (24 bp):
AGAATCAGAATCAGAATCAGAATC
Found at i:39102523 original size:37 final size:37
Alignment explanation
Indices: 39102481--39102650 Score: 120
Period size: 37 Copynumber: 4.6 Consensus size: 37
39102471 TCATAACTAG
*
39102481 AATCAGAATCAGAATCAGAATCAGGTGACAGAATCAA
1 AATCAGAATCAGAATCAGAATCAGGTAACAGAATCAA
* * * *
39102518 AATCAGAACCAGAATTAGAATTAGGTAACAGAATCAG
1 AATCAGAATCAGAATCAGAATCAGGTAACAGAATCAA
* * *
39102555 AATCAGCATCAGGTAA-CAGAATCA-G-AATCAGAACCAG
1 AATCAGAATCA-G-AATCAGAATCAGGTAA-CAGAATCAA
* * *
39102592 AATCAGAATTAGGTAA-CAGAATCA-G-AATCAGTATCAGGT
1 AATCAGAATCA-G-AATCAGAATCAGGTAA-CAGAATCA--A
39102631 AA-CAGAATCAGAATCAGAAT
1 AATCAGAATCAGAATCAGAAT
39102651 GTGAATGCAA
Statistics
Matches: 111, Mismatches: 16, Indels: 12
0.80 0.12 0.09
Matches are distributed among these distances:
36 4 0.04
37 89 0.80
38 14 0.13
39 4 0.04
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.18
Consensus pattern (37 bp):
AATCAGAATCAGAATCAGAATCAGGTAACAGAATCAA
Found at i:39102554 original size:62 final size:62
Alignment explanation
Indices: 39102484--39102649 Score: 287
Period size: 62 Copynumber: 2.7 Consensus size: 62
39102474 TAACTAGAAT
* * *
39102484 CAGAATCAGAATCAGAATCAGGTGACAGAATCAAAATCAGAACCAGAATTAGAATTAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAACAGAATCAGAATCAGAACCAGAATCAGAATTAGGTAA
*
39102546 CAGAATCAGAATCAGCATCAGGTAACAGAATCAGAATCAGAACCAGAATCAGAATTAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAACAGAATCAGAATCAGAACCAGAATCAGAATTAGGTAA
*
39102608 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAA
1 CAGAATCAGAATCAGAATCAGGTAACAGAATCAGAATCAGAA
39102650 TGTGAATGCA
Statistics
Matches: 99, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 99 1.00
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.17
Consensus pattern (62 bp):
CAGAATCAGAATCAGAATCAGGTAACAGAATCAGAATCAGAACCAGAATCAGAATTAGGTAA
Found at i:39102641 original size:19 final size:19
Alignment explanation
Indices: 39102490--39102622 Score: 121
Period size: 19 Copynumber: 6.8 Consensus size: 19
39102480 GAATCAGAAT
*
39102490 CAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGGTAA
*
39102509 CAGAATCAAAATCA-G-AA
1 CAGAATCAGAATCAGGTAA
* *
39102526 CCAGAATTAGAATTAGGTAA
1 -CAGAATCAGAATCAGGTAA
39102546 CAGAATCAGAATCAGCATCAGGTAA
1 CAGAATCAG----A--ATCAGGTAA
39102571 CAGAATCAGAATCA-G-AA
1 CAGAATCAGAATCAGGTAA
*
39102588 CCAGAATCAGAATTAGGTAA
1 -CAGAATCAGAATCAGGTAA
39102608 CAGAATCAGAATCAG
1 CAGAATCAGAATCAG
39102623 TATCAGGTAA
Statistics
Matches: 93, Mismatches: 9, Indels: 24
0.74 0.07 0.19
Matches are distributed among these distances:
17 3 0.03
18 26 0.28
19 41 0.44
20 4 0.04
21 1 0.01
23 1 0.01
25 17 0.18
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.17
Consensus pattern (19 bp):
CAGAATCAGAATCAGGTAA
Found at i:39102861 original size:67 final size:67
Alignment explanation
Indices: 39102753--39102906 Score: 290
Period size: 67 Copynumber: 2.3 Consensus size: 67
39102743 CACCACAGAA
*
39102753 ATTGCAGCGAGGCTGCCAGATATTATGACGAAGTCACCAGAACAGATATATGTGGCGAAGCCACC
1 ATTGCAGCGAGGCTGCCAGATATTATGACGAAGTCACCAGAACAGATATATGTGACGAAGCCACC
39102818 AG
66 AG
*
39102820 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGATATATGTGACGAAGCCACC
1 ATTGCAGCGAGGCTGCCAGATATTATGACGAAGTCACCAGAACAGATATATGTGACGAAGCCACC
39102885 AG
66 AG
39102887 ATTGCAGCGAGGCTGCCAGA
1 ATTGCAGCGAGGCTGCCAGA
39102907 ACGCTTCCTC
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 85 1.00
ACGTcount: A:0.32, C:0.23, G:0.28, T:0.18
Consensus pattern (67 bp):
ATTGCAGCGAGGCTGCCAGATATTATGACGAAGTCACCAGAACAGATATATGTGACGAAGCCACC
AG
Found at i:39102876 original size:27 final size:26
Alignment explanation
Indices: 39102836--39102887 Score: 86
Period size: 27 Copynumber: 2.0 Consensus size: 26
39102826 GCGAGGCTGC
*
39102836 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
39102862 CAGATATATGTGACGAAGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
39102888 TTGCAGCGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 7 0.29
27 17 0.71
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:39103185 original size:27 final size:27
Alignment explanation
Indices: 39103128--39103430 Score: 360
Period size: 27 Copynumber: 11.3 Consensus size: 27
39103118 GGGGCAAAAT
* * * *
39103128 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
39103154 GGTAATTCCACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
39103181 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
39103208 GGTAATTCTACCCTATAAGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
39103235 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
39103262 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
39103289 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
39103316 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
39103343 AGTAATTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* ** *
39103370 GGTAATTTTA-CAAACTAGGGGTGTTTTC
1 GGTAATTCTACCCTAC-AGGGGT-ATTTC
* *
39103398 -GTAATTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
39103424 AGTAATT
1 GGTAATT
39103431 TCACAATCGA
Statistics
Matches: 236, Mismatches: 36, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
26 21 0.09
27 210 0.89
28 5 0.02
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:39103471 original size:27 final size:27
Alignment explanation
Indices: 39103435--39103526 Score: 121
Period size: 27 Copynumber: 3.4 Consensus size: 27
39103425 GTAATTTCAC
* * *
39103435 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCAAGGGTAAAACAGTAATTCTGTA
*
39103462 AATCAAGGGTAAAATAGTAATTCTGTA
1 AATCAAGGGTAAAACAGTAATTCTGTA
* * *
39103489 AATCGAGGGTAAAACAATAATTCTATA
1 AATCAAGGGTAAAACAGTAATTCTGTA
39103516 AATCAAGGGTA
1 AATCAAGGGTA
39103527 CTTTGGTAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.43, C:0.09, G:0.21, T:0.27
Consensus pattern (27 bp):
AATCAAGGGTAAAACAGTAATTCTGTA
Found at i:39103510 original size:54 final size:54
Alignment explanation
Indices: 39103435--39103798 Score: 232
Period size: 54 Copynumber: 6.7 Consensus size: 54
39103425 GTAATTTCAC
** *
39103435 AATCGAGGGTAAAACGGTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAATAGTAATTTTATAAATCAAGGGTAAAATAGTAATTCTGTA
* * * *** * *
39103489 AATCGAGGGTAAAACAATAATTCTATAAATCAAGGGTACTTTGGTAATT-TTTA
1 AATCGAGGGTAAAATAGTAATTTTATAAATCAAGGGTAAAATAGTAATTCTGTA
* ** * * ***
39103542 CCAGTCGAGGGT-ATTTCAGTAATTTTACAAATCAGGGGGTATTTTAGTAATT-T-TA
1 --AATCGAGGGTAAAAT-AGTAATTTTATAAATCA-AGGGTAAAATAGTAATTCTGTA
* * *** * * * ** * *
39103597 CAAACCAGGGGTATTTTTGTAGTTTTCTAAATTGAGGGTAAAATGGTAATTCTCTA
1 -AATCGA-GGGTAAAATAGTAATTTTATAAATCAAGGGTAAAATAGTAATTCTGTA
* * * * ** *
39103653 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAGAACGGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTTTATAAATCAAGGGTAAAATAGTAATTCTGTA
* * * * *
39103707 AATCGAGGGTAAAATAGTAATTTTGTAATTTAAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAATAGTAATTTTATAAATCAAGGGTAAAATAGTAATTCTGTA
* * *
39103761 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
1 AATCGAGGGTAAAATAGTAATTTTATAAATCAAGGGTA
39103799 CTTTGATAAT
Statistics
Matches: 240, Mismatches: 62, Indels: 16
0.75 0.19 0.05
Matches are distributed among these distances:
53 3 0.01
54 172 0.72
55 45 0.19
56 20 0.08
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.33
Consensus pattern (54 bp):
AATCGAGGGTAAAATAGTAATTTTATAAATCAAGGGTAAAATAGTAATTCTGTA
Found at i:39103622 original size:27 final size:28
Alignment explanation
Indices: 39103550--39103622 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
39103540 TACCAGTCGA
* *
39103550 GGGTATTTCAGTAATTTTACAAATCAGG
1 GGGTATTTTAGTAATTTTACAAACCAGG
39103578 GGGTATTTTAGTAATTTTACAAACCA-G
1 GGGTATTTTAGTAATTTTACAAACCAGG
* *
39103605 GGGTATTTTTGTAGTTTT
1 GGGTATTTTAGTAATTTT
39103623 CTAAATTGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 17 0.41
28 24 0.59
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.42
Consensus pattern (28 bp):
GGGTATTTTAGTAATTTTACAAACCAGG
Found at i:39103652 original size:27 final size:27
Alignment explanation
Indices: 39103624--39103798 Score: 215
Period size: 27 Copynumber: 6.5 Consensus size: 27
39103614 TGTAGTTTTC
* *
39103624 TAAATTGAGGGTAAAATGGTAATTCTC
1 TAAATCGAGGGTAAAATGGTAATTCTG
*
39103651 TAAATCGAGGGTAAAATGGTAATTCTA
1 TAAATCGAGGGTAAAATGGTAATTCTG
* * *
39103678 TAAATCGAGGGTAGAACGGTAATTTTG
1 TAAATCGAGGGTAAAATGGTAATTCTG
* *
39103705 TAAATCGAGGGTAAAATAGTAATTTTG
1 TAAATCGAGGGTAAAATGGTAATTCTG
* ** ** *
39103732 TAATTTAAGGGTAAAACAGTAATTCTA
1 TAAATCGAGGGTAAAATGGTAATTCTG
*
39103759 TAAATCGAGGGTAAAATGGTAATTTTG
1 TAAATCGAGGGTAAAATGGTAATTCTG
39103786 TAAATCGAGGGTA
1 TAAATCGAGGGTA
39103799 CTTTGATAAT
Statistics
Matches: 126, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 126 1.00
ACGTcount: A:0.39, C:0.06, G:0.23, T:0.31
Consensus pattern (27 bp):
TAAATCGAGGGTAAAATGGTAATTCTG
Found at i:39103709 original size:81 final size:81
Alignment explanation
Indices: 39103435--39103798 Score: 295
Period size: 81 Copynumber: 4.5 Consensus size: 81
39103425 GTAATTTCAC
* * *
39103435 AATCGAGGGTAAAACGGTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTGTAAATCGAGGGTA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTCTAAATCAAGGGTA
*
39103500 AAACAATAATTCTATA
66 AAACAGTAATTCTATA
* **** * ** * *
39103516 AATCAAGGGTACTTTGGTAATTTT-TACCAGTCGAGGGT-ATTTCAGTAATTTTAC-AAATCAGG
1 AATCGAGGGTAAAACGGTAATTTTGTA--AATCGAGGGTAAAAT-AGTAATTCT-CTAAATCA-A
**** * *
39103578 GGGTATTTTAGTAATTTTACA
61 GGGTAAAACAGTAATTCTATA
* ***** * * * * *
39103599 AA-CCAGGGGTATTTTTGTAGTTTTCTAAATTGAGGGTAAAATGGTAATTCTCTAAATCGAGGGT
1 AATCGA-GGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTCTAAATCAAGGGT
**
39103663 AAAATGGTAATTCTATA
65 AAAACAGTAATTCTATA
* * * * *
39103680 AATCGAGGGTAGAACGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTTTGTAATTTAAGGGTA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTCTAAATCAAGGGTA
39103745 AAACAGTAATTCTATA
66 AAACAGTAATTCTATA
*
39103761 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTA
39103799 CTTTGATAAT
Statistics
Matches: 216, Mismatches: 57, Indels: 20
0.74 0.19 0.07
Matches are distributed among these distances:
80 2 0.01
81 134 0.62
82 45 0.21
83 33 0.15
84 2 0.01
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.33
Consensus pattern (81 bp):
AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTCTAAATCAAGGGTA
AAACAGTAATTCTATA
Found at i:39104202 original size:36 final size:36
Alignment explanation
Indices: 39104155--39104227 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
39104145 ACACACCTGA
39104155 TTGGAGACTGGAGTTAATCCACGCTCCGACCACTCT
1 TTGGAGACTGGAGTTAATCCACGCTCCGACCACTCT
39104191 TTGGAGACTGGAGTTAATCCACGCTCCGACCACTCT
1 TTGGAGACTGGAGTTAATCCACGCTCCGACCACTCT
39104227 T
1 T
39104228 AGCCGATGCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (36 bp):
TTGGAGACTGGAGTTAATCCACGCTCCGACCACTCT
Found at i:39108133 original size:27 final size:27
Alignment explanation
Indices: 39108096--39108208 Score: 140
Period size: 27 Copynumber: 4.2 Consensus size: 27
39108086 AGCATGGCTG
** *
39108096 CCAGA-ACAGATATTTTGATAGAGTCA
1 CCAGATACAGATATTTTGGCAGAGCCA
*
39108122 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGATACAGATATTTTGGCAGAGCCA
* *
39108149 CCAAAAACAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATTT-TGGCAGAGCCA
39108177 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATTT-TGGCAGAGCCA
39108204 CCAGA
1 CCAGA
39108209 ATGCTTCCTC
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
26 5 0.07
27 56 0.74
28 15 0.20
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.20
Consensus pattern (27 bp):
CCAGATACAGATATTTTGGCAGAGCCA
Found at i:39108187 original size:54 final size:55
Alignment explanation
Indices: 39108100--39108206 Score: 164
Period size: 55 Copynumber: 2.0 Consensus size: 55
39108090 TGGCTGCCAG
* *
39108100 AACAGATATTTTGATAGAGTCACCAGATACAGATA-TTGTGGCAGAGCCACCAAA
1 AACAGATATTTTGACAGAGCCACCAGATACAGATATTTGTGGCAGAGCCACCAAA
*
39108154 AACAGATATTTGTGGCAGAGCCACCAGAT-CAGATATTTGTGGCAGAGCCACCA
1 AACAGATATTT-TGACAGAGCCACCAGATACAGATATTTGTGGCAGAGCCACCA
39108207 GAATGCTTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
54 17 0.35
55 31 0.65
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (55 bp):
AACAGATATTTTGACAGAGCCACCAGATACAGATATTTGTGGCAGAGCCACCAAA
Found at i:39115983 original size:28 final size:27
Alignment explanation
Indices: 39115904--39115987 Score: 123
Period size: 27 Copynumber: 3.1 Consensus size: 27
39115894 ATGGCTGCCA
* *
39115904 AAACAGATATTGTGACAGAGTCACCAG
1 AAACAGATATTGTGGCAGAGCCACCAG
* *
39115931 ATACAGATATTATGGCAGAGCCACCAG
1 AAACAGATATTGTGGCAGAGCCACCAG
39115958 AAACAGATATTTGTGGCAGAGCCACCAG
1 AAACAGATA-TTGTGGCAGAGCCACCAG
39115986 AA
1 AA
39115988 CGCTTCCTCC
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
27 31 0.62
28 19 0.38
ACGTcount: A:0.39, C:0.20, G:0.23, T:0.18
Consensus pattern (27 bp):
AAACAGATATTGTGGCAGAGCCACCAG
Found at i:39128821 original size:24 final size:24
Alignment explanation
Indices: 39128780--39128877 Score: 67
Period size: 25 Copynumber: 4.0 Consensus size: 24
39128770 GCTTTATCAT
**
39128780 ATAACTGGAGGCCTAGCCTCTTTTA
1 ATAACTGGAGGCAAAGCC-CTTTTA
*
39128805 ATAACT-GAGGCAAAGCCCTTTTTG
1 ATAACTGGAGGCAAAGCCC-TTTTA
* *
39128829 ATAAACTGG-GGCAAATCCCTTTTCG
1 AT-AACTGGAGGCAAAGCCCTTTT-A
* *
39128854 GTAAACTGG-GGCATAGCCCTTTTA
1 AT-AACTGGAGGCAAAGCCCTTTTA
39128878 TCACTTCCTC
Statistics
Matches: 61, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
23 1 0.02
24 19 0.31
25 40 0.66
26 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (24 bp):
ATAACTGGAGGCAAAGCCCTTTTA
Found at i:39128835 original size:25 final size:25
Alignment explanation
Indices: 39128807--39128876 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
39128797 CTCTTTTAAT
* *
39128807 AACTGAGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
39128832 AACTGGGGCAAATCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
39128857 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
39128877 ATCACTTCCT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:39151117 original size:25 final size:26
Alignment explanation
Indices: 39151062--39151126 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 26
39151052 AATGAAAAGG
*
39151062 GCACTATGTGTGCGTATGGAAAAGCTA
1 GCACTATGTGTGCGAATGGAAAA-CTA
*
39151089 GCACTATGTGTGCGAAT-GAATA-TA
1 GCACTATGTGTGCGAATGGAAAACTA
39151113 TGCACTATGTGTGC
1 -GCACTATGTGTGC
39151127 AAATTTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 2 0.06
25 13 0.37
26 4 0.11
27 16 0.46
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (26 bp):
GCACTATGTGTGCGAATGGAAAACTA
Found at i:39151723 original size:20 final size:20
Alignment explanation
Indices: 39151698--39151738 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
39151688 TGATCTTATA
39151698 ATGTTAAAATCTTGTTAACT
1 ATGTTAAAATCTTGTTAACT
39151718 ATGTTAAAATCTTGTTAACT
1 ATGTTAAAATCTTGTTAACT
39151738 A
1 A
39151739 GCATGCGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.44
Consensus pattern (20 bp):
ATGTTAAAATCTTGTTAACT
Found at i:39154445 original size:43 final size:43
Alignment explanation
Indices: 39154341--39154448 Score: 135
Period size: 43 Copynumber: 2.5 Consensus size: 43
39154331 GAATAATATT
* * * *
39154341 ATCGGGCTTCGGGCCTAACAGGCTATAATGCTAGTGAGATAAT
1 ATCGGGCTTCGGGCCTAGCAGGCTATAATGCCAGTGAAATAAC
* * *
39154384 ATCGGGCTTTGGGGCTAGCAGGCTATAATGCCAGTGAAATGAC
1 ATCGGGCTTCGGGCCTAGCAGGCTATAATGCCAGTGAAATAAC
**
39154427 ATCGGGCTTCAAGCCTAGCAGG
1 ATCGGGCTTCGGGCCTAGCAGG
39154449 TGAAATGCCG
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (43 bp):
ATCGGGCTTCGGGCCTAGCAGGCTATAATGCCAGTGAAATAAC
Found at i:39156489 original size:17 final size:17
Alignment explanation
Indices: 39156466--39156504 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
39156456 CTTGTAACAC
39156466 CCCAAAAATCCC-AAAA
1 CCCAAAAATCCCGAAAA
*
39156482 CCCAAAAATCCCGAAAT
1 CCCAAAAATCCCGAAAA
39156499 CCCAAA
1 CCCAAA
39156505 CTTTCTTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.51, C:0.38, G:0.03, T:0.08
Consensus pattern (17 bp):
CCCAAAAATCCCGAAAA
Found at i:39159284 original size:80 final size:80
Alignment explanation
Indices: 39159151--39159406 Score: 369
Period size: 80 Copynumber: 3.2 Consensus size: 80
39159141 GATGATAACG
* *
39159151 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
39159216 CGAGTTACTA-ATTCC
66 CGAGTTACTATATT-C
*
39159231 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAATTCCGGGCTAAGTCCCGAAGTCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
39159296 CGAGTTACTATATTC
66 CGAGTTACTATATTC
*
39159311 GGGCTAAGTCCCGAAGGCATTTGTGCGAA-CTACT-ATATCCGGGCTAAGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTGTGC-AAGTTACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTG
*
39159374 AGCGAG-TATCTATA-TC
64 TGCGAGTTA-CTATATTC
* * *
39159390 CGGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
39159407 TACTTGGTTT
Statistics
Matches: 163, Mismatches: 9, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
79 20 0.12
80 138 0.85
81 5 0.03
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
CGAGTTACTATATTC
Found at i:39159392 original size:40 final size:40
Alignment explanation
Indices: 39159151--39159380 Score: 365
Period size: 40 Copynumber: 5.8 Consensus size: 40
39159141 GATGATAACG
* *
39159151 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
39159191 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
*
39159231 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
*
39159271 GGGCTAAGTCCCGAAGTCATTTGTGCGAGTTACTATATT-C
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCC
**
39159311 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
*
39159351 GGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT
39159381 ATCTATATCC
Statistics
Matches: 176, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
38 2 0.01
39 1 0.01
40 170 0.97
41 3 0.02
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
Found at i:39165408 original size:47 final size:47
Alignment explanation
Indices: 39165345--39165738 Score: 610
Period size: 47 Copynumber: 8.4 Consensus size: 47
39165335 CCCTTCGGGA
* * * * *
39165345 CTTATCACATTTATACACTTTCACATCCATCACATTGGCTATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
39165392 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
39165439 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
39165486 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39165533 CTTATCACATATATTCACTTTCACATTCATCACAT-GGTCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGG-CCATTAGGC
39165580 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39165627 CATATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
39165674 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
39165721 CTTATCACATATACACAC
1 CTTATCACATATATACAC
39165739 CTTGTACACC
Statistics
Matches: 324, Mismatches: 21, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
46 2 0.01
47 320 0.99
48 2 0.01
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:39165683 original size:22 final size:22
Alignment explanation
Indices: 39165655--39165730 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
39165645 TTTCACATTC
39165655 ATCACATCGGCCATTAGGCCTT
1 ATCACATCGGCCATTAGGCCTT
*** *** *
39165677 ATCACATATACACACTTTCACATT
1 ATCACATCGGC-CA-TTAGGCCTT
39165701 CATCACATCGGCCATTAGGCCTT
1 -ATCACATCGGCCATTAGGCCTT
39165724 ATCACAT
1 ATCACAT
39165731 ATACACACCT
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 15 0.41
23 7 0.19
24 7 0.19
25 8 0.22
ACGTcount: A:0.29, C:0.32, G:0.11, T:0.29
Consensus pattern (22 bp):
ATCACATCGGCCATTAGGCCTT
Found at i:39169536 original size:40 final size:40
Alignment explanation
Indices: 39169485--39169889 Score: 666
Period size: 40 Copynumber: 10.1 Consensus size: 40
39169475 CGAATACACG
* ** * *
39169485 TCACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
*
39169525 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
*
39169565 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
39169605 TCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
39169645 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
39169685 TCACTAGCACGAATGCTCTTCGCGACTTAGCTCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
*
39169725 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
*
39169765 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
*
39169805 TCACTAGCACGAATGCTCTTTGGGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
39169845 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCAGATATA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
39169885 TCACT
1 TCACT
39169890 CTCAATTCTC
Statistics
Matches: 346, Mismatches: 19, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 346 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:39169755 original size:23 final size:23
Alignment explanation
Indices: 39169729--39169795 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 23
39169719 GATACATCAC
39169729 TAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGGGACT
* * * *
39169752 TAGCCCGGAT-AT-ATC---AC-
1 TAGCACGAATGCTCTTCGGGACT
39169769 TAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGGGACT
39169792 TAGC
1 TAGC
39169796 CCGGATATAT
Statistics
Matches: 30, Mismatches: 8, Indels: 12
0.60 0.16 0.24
Matches are distributed among these distances:
17 8 0.27
18 3 0.10
19 2 0.07
21 2 0.07
22 3 0.10
23 12 0.40
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (23 bp):
TAGCACGAATGCTCTTCGGGACT
Found at i:39172890 original size:80 final size:80
Alignment explanation
Indices: 39172757--39173012 Score: 351
Period size: 80 Copynumber: 3.2 Consensus size: 80
39172747 GATGATAACG
* *
39172757 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
*
39172822 CGAGTTACTA-ATTCT
66 CGAGTTACTATA-TCC
*
39172837 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTTTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
39172902 CGAGTTACTATATCC
66 CGAGTTACTATATCC
* * *
39172917 GGGCTAAGTCCCGAAGGTATTTGTGCGAA-CTACT-ATATCTGGGCTAAGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTGTGC-AAGTTACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTG
*
39172980 AGCGAG-TAGCTATATCC
64 TGCGAGTTA-CTATATCC
* *
39172997 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
39173013 TACTTGGTTT
Statistics
Matches: 161, Mismatches: 11, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
79 18 0.11
80 140 0.87
81 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
CGAGTTACTATATCC
Found at i:39172995 original size:40 final size:40
Alignment explanation
Indices: 39172757--39172986 Score: 338
Period size: 40 Copynumber: 5.8 Consensus size: 40
39172747 GATGATAACG
* *
39172757 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
*
39172797 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
*
39172837 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
*
39172877 GGGCTAAGTCCCGAAGGCATTTTTGCGAGTTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
* ** *
39172917 GGGCTAAGTCCCGAAGGTATTTGTGCGAACTACT-ATATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
*
39172957 GGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT
39172987 AGCTATATCC
Statistics
Matches: 173, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
39 2 0.01
40 171 0.99
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
Found at i:39174148 original size:29 final size:29
Alignment explanation
Indices: 39174115--39174189 Score: 114
Period size: 29 Copynumber: 2.6 Consensus size: 29
39174105 TGAATATGAC
* * *
39174115 TGGGCCTAACGGGCCATATAAATGTTATT
1 TGGGCCTAATGGGCCATATAAAGGTGATT
*
39174144 TGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATAAAGGTGATT
39174173 TGGGCCTAATGGGCCAT
1 TGGGCCTAATGGGCCAT
39174190 GTGAATATGG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAAGGTGATT
Found at i:39185055 original size:17 final size:19
Alignment explanation
Indices: 39185025--39185064 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
39185015 GTGTGGTTCA
39185025 CCCATGTGGGCCCACAC-G
1 CCCATGTGGGCCCACACGG
39185043 CCCATGT-GGCCCACACGG
1 CCCATGTGGGCCCACACGG
39185061 CCCA
1 CCCA
39185065 CCTGATCGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.17, C:0.47, G:0.25, T:0.10
Consensus pattern (19 bp):
CCCATGTGGGCCCACACGG
Found at i:39189187 original size:43 final size:42
Alignment explanation
Indices: 39189131--39189270 Score: 131
Period size: 43 Copynumber: 3.3 Consensus size: 42
39189121 CTTTCGAGGA
39189131 GTGATT-TAGTGTAAGACCATGTCTGGGACATTGGCATCGATAT
1 GTGATTAT-GTGTAAGACCATGTCTGGGACA-TGGCATCGATAT
* * * *
39189174 GAGATTATGTGTAAGACCCTGTCTGAGACAGAGGCATCGATAT
1 GTGATTATGTGTAAGACCATGTCTGGGACA-TGGCATCGATAT
* ** * * * *
39189217 GTGATAACATGTAAGACCATATATGGGATATGGCATTG-TAT
1 GTGATTATGTGTAAGACCATGTCTGGGACATGGCATCGATAT
39189258 GTGATATATGTGT
1 GTGAT-TATGTGT
39189271 TTTCAAGTAT
Statistics
Matches: 76, Mismatches: 19, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
41 8 0.11
42 10 0.13
43 57 0.75
44 1 0.01
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.31
Consensus pattern (42 bp):
GTGATTATGTGTAAGACCATGTCTGGGACATGGCATCGATAT
Found at i:39200443 original size:29 final size:30
Alignment explanation
Indices: 39200372--39200501 Score: 87
Period size: 29 Copynumber: 4.5 Consensus size: 30
39200362 GAATCTCATT
* *
39200372 TCACACACATAGTG-CTCGATTGAA--GAAC
1 TCACACACATAGTGCCTCAATT-AACCGATC
* *
39200400 TCGCACACACAGTGCCTCAATT-ACCGATC
1 TCACACACATAGTGCCTCAATTAACCGATC
** ** *
39200429 TCACACACATAGTG-CTCGGTTAAAGGAATT
1 TCACACACATAGTGCCTCAATTAACCG-ATC
39200459 TGCACACAC--AGTGCCTCAATT-ACCGATC
1 T-CACACACATAGTGCCTCAATTAACCGATC
*
39200487 TCGCACACATAGTGC
1 TCACACACATAGTGC
39200502 TCGGTTAAAG
Statistics
Matches: 76, Mismatches: 17, Indels: 17
0.69 0.15 0.15
Matches are distributed among these distances:
27 7 0.09
28 20 0.26
29 34 0.45
30 8 0.11
31 7 0.09
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (30 bp):
TCACACACATAGTGCCTCAATTAACCGATC
Found at i:39200477 original size:58 final size:58
Alignment explanation
Indices: 39200372--39200533 Score: 272
Period size: 58 Copynumber: 2.8 Consensus size: 58
39200362 GAATCTCATT
* * * *
39200372 TCACACACATAGTGCTCGATTGAA-GAACTCGCACACACAGTGCCTCAATTACCGATC
1 TCACACACATAGTGCTCGGTTAAAGGAATTTGCACACACAGTGCCTCAATTACCGATC
39200429 TCACACACATAGTGCTCGGTTAAAGGAATTTGCACACACAGTGCCTCAATTACCGATC
1 TCACACACATAGTGCTCGGTTAAAGGAATTTGCACACACAGTGCCTCAATTACCGATC
*
39200487 TCGCACACATAGTGCTCGGTTAAAGGAATTTGCACACACAGTGCCTC
1 TCACACACATAGTGCTCGGTTAAAGGAATTTGCACACACAGTGCCTC
39200534 TAATCATTTG
Statistics
Matches: 99, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
57 22 0.22
58 77 0.78
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (58 bp):
TCACACACATAGTGCTCGGTTAAAGGAATTTGCACACACAGTGCCTCAATTACCGATC
Found at i:39200521 original size:29 final size:29
Alignment explanation
Indices: 39200432--39200530 Score: 103
Period size: 29 Copynumber: 3.4 Consensus size: 29
39200422 ACCGATCTCA
*
39200432 CACACATAGTGCTCGGTTAAAGGAATTTG
1 CACACACAGTGCTCGGTTAAAGGAATTTG
** ** *
39200461 CACACACAGTGCCTCAATT-ACCG-ATCTCG
1 CACACACAGTG-CTCGGTTAAAGGAAT-TTG
*
39200490 CACACATAGTGCTCGGTTAAAGGAATTTG
1 CACACACAGTGCTCGGTTAAAGGAATTTG
39200519 CACACACAGTGC
1 CACACACAGTGC
39200531 CTCTAATCAT
Statistics
Matches: 53, Mismatches: 13, Indels: 8
0.72 0.18 0.11
Matches are distributed among these distances:
28 7 0.13
29 39 0.74
30 7 0.13
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.23
Consensus pattern (29 bp):
CACACACAGTGCTCGGTTAAAGGAATTTG
Found at i:39200760 original size:43 final size:43
Alignment explanation
Indices: 39200690--39200951 Score: 416
Period size: 43 Copynumber: 6.1 Consensus size: 43
39200680 TGCTCGAATG
** *
39200690 ACCGGCATTAAGCCTGCTAGGCACGAAGACCCGAATACACATC
1 ACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATC
* **
39200733 ACTGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACATTTC
1 ACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATC
39200776 ACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATC
1 ACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATC
39200819 ACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATC
1 ACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATC
** *
39200862 ATTGGCACGAAGCCTGCTAGGCACAAAGGCCCGAATACACATC
1 ACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATC
** *
39200905 ACAAGCACGAAGCCTGCTAGGCACGAAGGCTCGAATACACATC
1 ACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATC
39200948 ACCG
1 ACCG
39200952 AGTTTCATGC
Statistics
Matches: 200, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 200 1.00
ACGTcount: A:0.31, C:0.32, G:0.24, T:0.12
Consensus pattern (43 bp):
ACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATC
Found at i:39207130 original size:153 final size:153
Alignment explanation
Indices: 39206852--39207141 Score: 517
Period size: 153 Copynumber: 1.9 Consensus size: 153
39206842 GAGTGTAGTA
*
39206852 AGTTGACAAGAGGATGTTATAAGTGTGGTTCTAAGGAACATTTTCTTAGGGACTTTCTGAATAGA
1 AGTTGACAAGAGGATGTTATAAGTGTGGTTCTAAAGAACATTTTCTTAGGGACTTTCTGAATAGA
*
39206917 ATAAAGGTATCACAGACTTAGAGTTTGGCACCTACTACTACTTTTGCTAGGGGTCATGGTCGCGA
66 ATAAAGGTATCACAGACTCAGAGTTTGGCACCTACTACTACTTTTGCTAGGGGTCATGGTCGCGA
39206982 TAGAGGTAATGGAAGAGTCTTTT
131 TAGAGGTAATGGAAGAGTCTTTT
* *
39207005 AGTTGACAAGTGGATGTTATAAGTGTGGTTCTAAAGAACATTTTCTTAGGGACTTTTTGAATAGA
1 AGTTGACAAGAGGATGTTATAAGTGTGGTTCTAAAGAACATTTTCTTAGGGACTTTCTGAATAGA
* * *
39207070 ATAAAGGTATCATAGACTCAGAGTTTGGCACTTACTACTACTTTTGCTAGGGGTCATGGTCGCGG
66 ATAAAGGTATCACAGACTCAGAGTTTGGCACCTACTACTACTTTTGCTAGGGGTCATGGTCGCGA
39207135 TAGAGGT
131 TAGAGGT
39207142 CGTAAAGAGT
Statistics
Matches: 130, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
153 130 1.00
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (153 bp):
AGTTGACAAGAGGATGTTATAAGTGTGGTTCTAAAGAACATTTTCTTAGGGACTTTCTGAATAGA
ATAAAGGTATCACAGACTCAGAGTTTGGCACCTACTACTACTTTTGCTAGGGGTCATGGTCGCGA
TAGAGGTAATGGAAGAGTCTTTT
Found at i:39209873 original size:34 final size:33
Alignment explanation
Indices: 39209801--39209877 Score: 93
Period size: 33 Copynumber: 2.3 Consensus size: 33
39209791 AGTGACAGTC
* * *
39209801 CAGTATCAGTGTGGGCCTTACCCATAGCAGTAG
1 CAGTATCAATGTGGGCCTTACCCATAGCAGCAA
*
39209834 TAGTATCAATGTGGGCCTTAGCCCATTA-CAGCAA
1 CAGTATCAATGTGGGCCTTA-CCCA-TAGCAGCAA
39209868 CAGTATCAAT
1 CAGTATCAAT
39209878 AATGCAATAG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
33 18 0.49
34 17 0.46
35 2 0.05
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (33 bp):
CAGTATCAATGTGGGCCTTACCCATAGCAGCAA
Found at i:39213955 original size:29 final size:29
Alignment explanation
Indices: 39213913--39213970 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
39213903 TGATGATTTA
*
39213913 TTTGCTTCTGGCTTACTAAGTTTTCAAAG
1 TTTGCTTATGGCTTACTAAGTTTTCAAAG
39213942 TTTGCTTATGGCTTACTAAGTTTTCAAAG
1 TTTGCTTATGGCTTACTAAGTTTTCAAAG
39213971 CTTACCTTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.22, C:0.16, G:0.17, T:0.45
Consensus pattern (29 bp):
TTTGCTTATGGCTTACTAAGTTTTCAAAG
Found at i:39220439 original size:77 final size:77
Alignment explanation
Indices: 39220297--39220442 Score: 170
Period size: 77 Copynumber: 1.9 Consensus size: 77
39220287 AGTGCAAGTC
* * * * * * *
39220297 TTAAATGATGCTAATGTATTAATGTAAAGCATTAACTAAATACACATTCAATAAATAAGAAACAT
1 TTAAAAGATGCTAATGTATTAATGCAAAACATTAAATAAAGACACATTCAACAAACAAGAAACAT
39220362 AATGCACATTTT
66 AATGCACATTTT
** *
39220374 TTAAAAGATG-TAGATGTATTAATGCAAAACATTAAATAAAGATGCATTTAACAAACAA-AACAC
1 TTAAAAGATGCTA-ATGTATTAATGCAAAACATTAAATAAAGACACATTCAACAAACAAGAA-AC
39220437 ATAATG
64 ATAATG
39220443 AAGCAGATCA
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
76 4 0.07
77 53 0.93
ACGTcount: A:0.49, C:0.11, G:0.10, T:0.29
Consensus pattern (77 bp):
TTAAAAGATGCTAATGTATTAATGCAAAACATTAAATAAAGACACATTCAACAAACAAGAAACAT
AATGCACATTTT
Found at i:39237337 original size:40 final size:40
Alignment explanation
Indices: 39237272--39237364 Score: 109
Period size: 40 Copynumber: 2.3 Consensus size: 40
39237262 GACTTTGATC
* * *
39237272 GGCACTAAGTGTGCGGTTCGAAATAGCTTCGGCTACA-AA
1 GGCACTAAGTGTGCGATTAGAAATAGCTTCAGCTACATAA
* *
39237311 TGGCACTAAGTGTGCGAATTAG-AATAGCTTCAGCTATATGA
1 -GGCACTAAGTGTGCG-ATTAGAAATAGCTTCAGCTACATAA
39237352 GGCACTAAGTGTG
1 GGCACTAAGTGTG
39237365 TGATACCGAG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
40 42 0.91
41 4 0.09
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (40 bp):
GGCACTAAGTGTGCGATTAGAAATAGCTTCAGCTACATAA
Found at i:39239037 original size:42 final size:42
Alignment explanation
Indices: 39238882--39239045 Score: 195
Period size: 42 Copynumber: 3.9 Consensus size: 42
39238872 GTACCATACA
* * *
39238882 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
* * ** * **
39238924 ATGCCAATAGCCCAGCTACAGTCTTACACAAAGTCTCGCATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
39238967 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
* *
39239009 ATGCCATATCCTAGATATGCTCTTACACGTAA-TCTCA
1 ATGCCATATCCCAGATATGGTCTTACACG-AAGTCTCA
39239046 GTAACCCTAA
Statistics
Matches: 103, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
42 67 0.65
43 36 0.35
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.28
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:39240768 original size:10 final size:10
Alignment explanation
Indices: 39240755--39240800 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
39240745 TAGTGACTAA
*
39240755 ATGTGATTGT
1 ATGTGATTAT
*
39240765 ATGTAATTAT
1 ATGTGATTAT
*
39240775 ATGTGCTTAT
1 ATGTGATTAT
39240785 ATGTGATTGAT
1 ATGTGATT-AT
39240796 ATGTG
1 ATGTG
39240801 TCGGAATATA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
10 23 0.77
11 7 0.23
ACGTcount: A:0.26, C:0.02, G:0.24, T:0.48
Consensus pattern (10 bp):
ATGTGATTAT
Found at i:39241561 original size:22 final size:20
Alignment explanation
Indices: 39241544--39241581 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
39241534 CAATACCACT
39241544 TAAAGGAAATATCGATACCA
1 TAAAGGAAATATCGATACCA
* *
39241564 TAGAGGCAATATCGATAC
1 TAAAGGAAATATCGATAC
39241582 ATACGTAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.16, G:0.18, T:0.21
Consensus pattern (20 bp):
TAAAGGAAATATCGATACCA
Found at i:39248801 original size:26 final size:26
Alignment explanation
Indices: 39248771--39248822 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
39248761 CACCGCTGAA
*
39248771 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
39248797 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
39248823 CTTTCATTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.23, T:0.13
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:39248966 original size:104 final size:103
Alignment explanation
Indices: 39248739--39249104 Score: 614
Period size: 104 Copynumber: 3.6 Consensus size: 103
39248729 TAACCGTTAT
* ** *
39248739 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
1 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
39248804 ATCAGCACATAGCAACCCCCTTT--CATTTCAAAGATA
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
39248840 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTC-GGGG
39248905 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
39248944 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
1 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
39249009 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* * **
39249047 TGGTGGATCA-CGCACATAGCACCACC-ATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCT
39249105 TTATATACAA
Statistics
Matches: 253, Mismatches: 8, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
101 56 0.22
102 57 0.23
103 66 0.26
104 74 0.29
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.19
Consensus pattern (103 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:39249007 original size:26 final size:26
Alignment explanation
Indices: 39248977--39249027 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
39248967 ACCAATGAAC
*
39248977 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
39249003 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
39249028 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:39249463 original size:29 final size:29
Alignment explanation
Indices: 39249430--39249493 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
39249420 TAATCCACCA
39249430 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
39249459 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
39249489 CCCAA
1 CCCAA
39249494 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:39249467 original size:30 final size:30
Alignment explanation
Indices: 39249437--39249493 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
39249427 CCACCCAACT
39249437 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
39249466 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
39249494 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:39256565 original size:26 final size:26
Alignment explanation
Indices: 39256535--39256585 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
39256525 ACCAATGAAC
*
39256535 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
39256561 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
39256586 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:39256619 original size:103 final size:104
Alignment explanation
Indices: 39256433--39256663 Score: 403
Period size: 103 Copynumber: 2.2 Consensus size: 104
39256423 ACTTAGCAAT
39256433 GGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAA
1 GGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAA
*
39256498 GATATGGTGGATATCGCACTTAGCACCACCAATGAACCG
66 GATATGGTGGATATCGCACATAGCACCACCAATGAACCG
39256537 GGGAATCAGCACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAA
1 GGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAA
*
39256601 GATATGGTGGATCA-CGCACATAGCACCACCAATGAATCG
66 GATATGGTGGAT-ATCGCACATAGCACCACCAATGAACCG
**
39256640 GGGAATCAGCACACAGCAACCCCT
1 GGGAATCAGCACTTAGCAACCCCT
39256664 TTATATACAA
Statistics
Matches: 122, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
103 96 0.79
104 26 0.21
ACGTcount: A:0.32, C:0.31, G:0.20, T:0.18
Consensus pattern (104 bp):
GGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAA
GATATGGTGGATATCGCACATAGCACCACCAATGAACCG
Found at i:39257025 original size:30 final size:30
Alignment explanation
Indices: 39256995--39257051 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
39256985 CCACCCAACT
39256995 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
39257024 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
39257052 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:39265208 original size:817 final size:799
Alignment explanation
Indices: 39263501--39265087 Score: 2511
Period size: 817 Copynumber: 1.9 Consensus size: 799
39263491 TAAATTTTTT
* * * *
39263501 AAAAATT-CGACAGCATTCCTACTTATTTTTGCTTAAACCTCCTGCAAATTTAGAACACATTCCA
1 AAAAATTACAACAGCATTCCTA--TATTTTTGCTT-AACATCATGCAAATATAGAACACATTCCA
*
39263565 TATACCAACCAATTTCATTTGTATAAACACACATATAGTTTAACTATTAATAAACACTACATTTA
63 -ATA--TA-CAATTTCATTTGTATAAACACACATATAGTTTAACTATTAATAAACACTACATTTA
39263630 AAAGGGAACCATAACATATATTTACATGATGATCCCACATTCATAAAGTGTCTATACATATAAAT
124 AAAGGGAACCATAACATATATTTACATGATGATCCCACATTCATAAAGTGTCTATACATATAAAT
39263695 TTCGGACACTAGTAGTAAATACCCCAAATGTGAAGGATAGTGTAGATGATTGTCTGACTTCGTTC
189 TTCGGACACTAGTAGTAAATACCCCAAATGTGAAGGATAGTGTAGATGATTGTCTGACTTCGTTC
*
39263760 CAATTTTCGAGTTGTTGGAAGTCACTATAACCAAGAGAAAATATAAAATCGAGTAAGCATATAAC
254 CAATTTCCGAGTTGTTGGAAGTCACTATAACCAAGAGAAAATATAAAATCGAGTAAGCATATAAC
39263825 TTAGTAAGTAAACACATGATAAATAAGTAATTACTCCATAACTACACCAAATATAAACTTATTCA
319 TTAGTAAGTAAACACATGATAAATAAGTAATTACTCCATAACTACACCAAATATAAACTTATTCA
39263890 TGAATAACTTTATTGTTTAGGCAATTTCCAGCAAGCTGTTTTTCTGCGTCATAGTCGCTAATTTA
384 TGAATAACTTTATTGTTTAGGCAATTTCCAGCAAGCTGTTTTTCTGCGTCATAGTCGCTAATTTA
39263955 TTTTTACTGGAGCTACAGAGCTCCAAATTGAGTTCCGTAAATTTTCCTGAAACTAGACTCATATA
449 TTTTTACTGGAGCTACAGAGCTCCAAATTGAGTTCCGTAAATTTTCCTGAAACTAGACTCATATA
* *
39264020 TCATTTCATCATAAAAATTTAAGAATTTTTACCCAGCCAATTAGTAGTTTATTCATTAAACCTTC
514 CCATTTCACCATAAAAATTTAAGAATTTTTACCCAGCCAATTAGTAGTTTATTCATTAAACCTTC
*
39264085 CCCTGTTTCACTGCCCAACGTTCTGACCCTTCCTCACTAAAATTTTAATTCTCTGTACAAAATTT
579 CCCTGTTTCACTGCCCAACGTTCTGACCCTTCCTCACTAAAATTTTAACTCTCTGTACAAAATTT
*
39264150 TAAAAATGGTTTTTCTTGTTCTAATAAAAATAGACTAAATAAGGATTCCAGGGATATAAATTTCA
644 TAAAAATGGGTTTTCTTGTTCTAATAAAAATAGACTAAATAAGGATTCCAGGGATATAAATTTCA
*** * **
39264215 TGCCATAATTATTTTTTTTCAATTTTGGTAATTTCCAAATTCCCTTACCCGTATTCCTTACCGGA
709 TGCCATAATTATTTTTTTTCAATTTTGGTAATTTCCAAATT-CAGAACCCGGATTCCAAACC-GA
* ** * **
39264280 ACAGAGTATGAGGTATTACTAAATTTTT
772 ACAGAGTATCAGGTAAAACTAAATCTCC
* * * * *
39264308 AAAAATTTTCGACAGCATTCCTACTATTTTTGCTTAAACCTCCTGCAAATTTAGAACACATTCCA
1 AAAAA-TTACAACAGCATTCCTA-TATTTTTGCTT-AACATCATGCAAATATAGAACACATTCCA
39264373 ATATACCAACCAATTTCATTTGTATAAACACACATATAGTTTAACTATTAATAAACACTACATTT
63 ATAT----A-CAATTTCATTTGTATAAACACACATATAGTTTAACTATTAATAAACACTACATTT
39264438 AAAAGGGAACCATAACATATATTTACATGATGATCCCACATTACATAAAGTGTCTATACATGCCA
123 AAAAGGGAACCATAACATATATTTACATGATGATCCCACATT-CATAAAGTGTCTATACAT---A
39264503 TAAAATTTCGGAACACTAGTAGTAAAATACCCCAAATGTGAAGGATAGTGTAGATGATTGTCTGA
184 T-AAATTTCGG-ACACTAGTAGT-AAATACCCCAAATGTGAAGGATAGTGTAGATGATTGTCTGA
39264568 CTTCGTTCCAATTTCCGAGTTGTTGGAAGTCACTATAACCAAGAGAAAA-ATAAAATCGAGTAAG
246 CTTCGTTCCAATTTCCGAGTTGTTGGAAGTCACTATAACCAAGAGAAAATATAAAATCGAGTAAG
*
39264632 CATATAGCTTAGTAAGTAAACACATGATAAATAAGTAATTACTCCCATAACTACACCAAAATATA
311 CATATAACTTAGTAAGTAAACACATGATAAATAAGTAATTACT-CCATAACTACACC-AAATATA
39264697 AACTTATTCATGAATAACTTTATTGTTTAGGCAATTTCCAGCAAGCTGTTTTTCTGCGTCATAGT
374 AACTTATTCATGAATAACTTTATTGTTTAGGCAATTTCCAGCAAGCTGTTTTTCTGCGTCATAGT
39264762 CGCTAATTTATTTTTATCTGGAGCTACAG-GCTCCAAATTGAGTTCCGTAAATTTTCCCTGAAAC
439 CGCTAATTTATTTTTA-CTGGAGCTACAGAGCTCCAAATTGAGTTCCGTAAATTTT-CCTGAAAC
*
39264826 TAGACTCATATACCATTTCACCATAAAAATTTCAGAATTTTTAACCCAGCCAATTAGTACAGTTT
502 TAGACTCATATACCATTTCACCATAAAAATTTAAGAATTTTT-ACCCAGCCAATTAGT--AGTTT
39264891 ATTCATTAAACCTTCCCCTGTTTCACTGCCCAACGGTTCTGACCCTTCCTCACTAAAATTTACTT
564 ATTCATTAAACCTTCCCCTGTTTCACTGCCCAAC-GTTCTGACCCTTCCTCACTAAAA-TT--TT
*
39264956 AACTCTCTGTACAAAA-TTTAAAAATGGGTTTTCTTGTTTCTAATAAAAATAGACTCAATAAGGA
625 AACTCTCTGTACAAAATTTTAAAAATGGGTTTTCTTG-TTCTAATAAAAATAGACTAAATAAGGA
39265020 TTCCAGGGATATAAATTTCATGCCATAATTA-TTTTTTTCAATTTTTGGTAATTTTCCAAAGTT-
689 TTCCAGGGATATAAATTTCATGCCATAATTATTTTTTTTCAA-TTTTGGTAA-TTTCCAAA-TTC
39265083 AGAAC
751 AGAAC
39265088 AGGGGATCTC
Statistics
Matches: 739, Mismatches: 13, Indels: 38
0.94 0.02 0.05
Matches are distributed among these distances:
807 8 0.01
808 43 0.06
809 113 0.15
810 18 0.02
813 2 0.00
814 9 0.01
815 68 0.09
816 102 0.14
817 114 0.15
818 59 0.08
819 15 0.02
821 39 0.05
822 23 0.03
823 2 0.00
824 29 0.04
825 85 0.12
826 8 0.01
827 2 0.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (799 bp):
AAAAATTACAACAGCATTCCTATATTTTTGCTTAACATCATGCAAATATAGAACACATTCCAATA
TACAATTTCATTTGTATAAACACACATATAGTTTAACTATTAATAAACACTACATTTAAAAGGGA
ACCATAACATATATTTACATGATGATCCCACATTCATAAAGTGTCTATACATATAAATTTCGGAC
ACTAGTAGTAAATACCCCAAATGTGAAGGATAGTGTAGATGATTGTCTGACTTCGTTCCAATTTC
CGAGTTGTTGGAAGTCACTATAACCAAGAGAAAATATAAAATCGAGTAAGCATATAACTTAGTAA
GTAAACACATGATAAATAAGTAATTACTCCATAACTACACCAAATATAAACTTATTCATGAATAA
CTTTATTGTTTAGGCAATTTCCAGCAAGCTGTTTTTCTGCGTCATAGTCGCTAATTTATTTTTAC
TGGAGCTACAGAGCTCCAAATTGAGTTCCGTAAATTTTCCTGAAACTAGACTCATATACCATTTC
ACCATAAAAATTTAAGAATTTTTACCCAGCCAATTAGTAGTTTATTCATTAAACCTTCCCCTGTT
TCACTGCCCAACGTTCTGACCCTTCCTCACTAAAATTTTAACTCTCTGTACAAAATTTTAAAAAT
GGGTTTTCTTGTTCTAATAAAAATAGACTAAATAAGGATTCCAGGGATATAAATTTCATGCCATA
ATTATTTTTTTTCAATTTTGGTAATTTCCAAATTCAGAACCCGGATTCCAAACCGAACAGAGTAT
CAGGTAAAACTAAATCTCC
Found at i:39265689 original size:26 final size:26
Alignment explanation
Indices: 39265659--39265709 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
39265649 ACCAATGAAC
*
39265659 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
39265685 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
39265710 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:39265743 original size:103 final size:104
Alignment explanation
Indices: 39265561--39265787 Score: 395
Period size: 103 Copynumber: 2.2 Consensus size: 104
39265551 AATAGCAATG
39265561 ATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
1 ATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*
39265626 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGA
66 TGGTGGATATCGCACATAGCACCACCAATGAACCGGGGA
39265665 ATCAGCACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
1 ATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*
39265729 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGA
66 TGGTGGAT-ATCGCACATAGCACCACCAATGAACCGGGGA
**
39265768 ATCAGCACACAGCAACCCCT
1 ATCAGCACTTAGCAACCCCT
39265788 TTATATACAA
Statistics
Matches: 118, Mismatches: 4, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
103 96 0.81
104 22 0.19
ACGTcount: A:0.32, C:0.31, G:0.19, T:0.18
Consensus pattern (104 bp):
ATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
TGGTGGATATCGCACATAGCACCACCAATGAACCGGGGA
Found at i:39266144 original size:29 final size:29
Alignment explanation
Indices: 39266111--39266174 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
39266101 TAATCCACCA
39266111 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
39266140 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
39266170 CCCAA
1 CCCAA
39266175 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:39266148 original size:30 final size:30
Alignment explanation
Indices: 39266118--39266174 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
39266108 CCACCCAACT
39266118 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
39266147 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
39266175 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:39273253 original size:26 final size:26
Alignment explanation
Indices: 39273223--39273273 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
39273213 ACCAATGAAC
*
39273223 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
39273249 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
39273274 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:39273274 original size:102 final size:103
Alignment explanation
Indices: 39272988--39273350 Score: 587
Period size: 102 Copynumber: 3.6 Consensus size: 103
39272978 TAACCGTTAT
* * **
39272988 TGGTGGATCTCGCACTTAGCACCACCGCTGAATC-GGGAATCAGCACTTAGCAACCCCTCGGGGA
1 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
39273052 ATCAGCACATAGCAACCCCCTTT--CATTTCAAAGATA
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*
39273088 TGGTGGAT-ATCGCACTTAGCACCACCAATGAA-CGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTC-GGG
39273151 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
64 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*
39273191 TGGTGGAT-ACGCACATAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
1 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
39273255 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
**
39273293 TGGTGGATCACGCACATAGCACCACC-ATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
39273351 TTATATACAA
Statistics
Matches: 249, Mismatches: 7, Indels: 12
0.93 0.03 0.04
Matches are distributed among these distances:
99 1 0.00
100 53 0.21
101 28 0.11
102 101 0.41
103 66 0.27
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.18
Consensus pattern (103 bp):
TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:39273710 original size:29 final size:29
Alignment explanation
Indices: 39273677--39273740 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
39273667 TAATCCACCA
39273677 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
39273706 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
39273736 CCCAA
1 CCCAA
39273741 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:39273714 original size:30 final size:30
Alignment explanation
Indices: 39273684--39273740 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
39273674 CCACCCAACT
39273684 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
39273713 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
39273741 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:39277955 original size:3 final size:3
Alignment explanation
Indices: 39277917--39277946 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
39277907 AACTTACCGG
*
39277917 CCA CCA CCA CCA CCA CCA CCA TCA CCA CCA
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA
39277947 AAACCACCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.63, G:0.00, T:0.03
Consensus pattern (3 bp):
CCA
Found at i:39283747 original size:93 final size:93
Alignment explanation
Indices: 39283635--39283804 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
39283625 CCCATAAGCG
*
39283635 AACTCGGACTCAACTCAACGAGCTT-AGGA-GTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 AACTCGGACTCAACTCAACGAG-TTCA-GACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
39283698 ACGAGTTCGGATGCCTAGTTACATCTCACA
64 ACGAGTTCGGATGCCTAGTTACATCTCACA
39283728 AACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
39283793 GAGTTCGGATGC
66 GAGTTCGGATGC
39283805 TCAATCATCC
Statistics
Matches: 74, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
92 4 0.05
93 70 0.95
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCACA
Found at i:39283820 original size:46 final size:46
Alignment explanation
Indices: 39283626--39283806 Score: 192
Period size: 46 Copynumber: 3.9 Consensus size: 46
39283616 TGTAACCCGC
* * *
39283626 CCATAAGCGAACTCGGACTCAACTCAACGAGCTTAGGA-GTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGATGCTCGCAT
*
39283672 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-CTCG---CAT
* * ***
39283722 CTCA-CA---AACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCGCAT
39283765 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
39283807 AATCATCCTA
Statistics
Matches: 110, Mismatches: 15, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 62 0.56
47 29 0.26
50 5 0.05
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCGCAT
Found at i:39290269 original size:15 final size:16
Alignment explanation
Indices: 39290240--39290269 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
39290230 CAAACATACT
39290240 TTAACACATTATCAAA
1 TTAACACATTATCAAA
39290256 TTAACACA-TATCAA
1 TTAACACATTATCAA
39290270 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:39291868 original size:23 final size:24
Alignment explanation
Indices: 39291815--39291870 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
39291805 AGCCTTATAA
* * *
39291815 CGGGAAGCTCACACAGAGCCATTT
1 CGGGAAGCTCACAAAAAGCCATAT
*
39291839 CGGGAAGCTCATAAAAAGCC-TAT
1 CGGGAAGCTCACAAAAAGCCATAT
39291862 CGGGAAGCT
1 CGGGAAGCT
39291871 TATTCGGGCT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 11 0.39
24 17 0.61
ACGTcount: A:0.32, C:0.25, G:0.27, T:0.16
Consensus pattern (24 bp):
CGGGAAGCTCACAAAAAGCCATAT
Found at i:39291932 original size:25 final size:24
Alignment explanation
Indices: 39291883--39291943 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 24
39291873 TTCGGGCTAT
* *
39291883 ATAA-TGGGAAGCTCATAAGAGCC
1 ATAATTGGGAAGCTCAAAAGAACC
*
39291906 ATAATTGGGAAGTTCACAAAGAACC
1 ATAATTGGGAAGCTCA-AAAGAACC
*
39291931 AT-ATCGGGAAGCT
1 ATAATTGGGAAGCT
39291944 TCGGATAGCC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
23 4 0.13
24 19 0.61
25 8 0.26
ACGTcount: A:0.39, C:0.16, G:0.25, T:0.20
Consensus pattern (24 bp):
ATAATTGGGAAGCTCAAAAGAACC
Found at i:39292049 original size:25 final size:26
Alignment explanation
Indices: 39291984--39292050 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
39291974 AGCACTATTA
**
39291984 GGAAGCTCACAAAGAGCCAATTAACG
1 GGAAGCTCATGAAGAGCCAATTAACG
*
39292010 GGAAGCTCATGAAGAGCC-TTTAATCG
1 GGAAGCTCATGAAGAGCCAATTAA-CG
*
39292036 GGATGCTCAT-AAGAG
1 GGAAGCTCATGAAGAG
39292051 TTAAGGTGTG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
25 9 0.25
26 27 0.75
ACGTcount: A:0.36, C:0.19, G:0.27, T:0.18
Consensus pattern (26 bp):
GGAAGCTCATGAAGAGCCAATTAACG
Found at i:39297371 original size:92 final size:93
Alignment explanation
Indices: 39297157--39297423 Score: 258
Period size: 94 Copynumber: 2.9 Consensus size: 93
39297147 TGTGTGAGCT
* * *** * * * *
39297157 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATG-AGAGCTAGTGTAAGACCATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGGGACGTA-AGCCAATATAAGACCATGTCTG
*
39297221 GGACATGGCATCGGCATTGAGACGAGTGTT
65 GGACATGGCATCGGCATTGAGAC-AGTGTC
*
39297251 AGTGTAAGACATGTTTGGGACATGCATCAGCCTCGGGACGTAAGCCAATATAAGA-CATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGGGACGTAAGCCAATATAAGACCATGTCTGG
*
39297315 GACAT-GCATCGGC-TATGAGA-TGTGTC
66 GACATGGCATCGGCAT-TGAGACAGTGTC
* * * *
39297341 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAAGATG-ATAGCCAGTGTAAGACCATGT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCG-GGACGTA-AGCCAATATAAGACCATGT
* * *
39297405 TTGGGATATGGCATGGGCA
62 CTGGGACATGGCATCGGCA
39297424 CTTTACCCAT
Statistics
Matches: 144, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
90 13 0.09
91 14 0.10
92 26 0.18
93 28 0.19
94 55 0.38
95 8 0.06
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.24
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGGGACGTAAGCCAATATAAGACCATGTCTGG
GACATGGCATCGGCATTGAGACAGTGTC
Found at i:39301036 original size:40 final size:40
Alignment explanation
Indices: 39300804--39301022 Score: 309
Period size: 40 Copynumber: 5.5 Consensus size: 40
39300794 ATGTCCAGGC
* * * * **
39300804 TAAGTCCCGAAGGC-TTTGTGCTAGGTGACCAAATCTGGAC
1 TAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAATCCGGGT
39300844 TAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
1 TAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
39300884 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
*
39300924 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCTGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
*
39300964 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGT
*
39301004 TATGTCCCGAAGGCATTTG
1 TAAGTCCCGAAGGCATTTG
39301023 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 10, Indels: 8
0.90 0.05 0.04
Matches are distributed among these distances:
39 1 0.01
40 153 0.93
41 11 0.07
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
Found at i:39304682 original size:79 final size:82
Alignment explanation
Indices: 39304571--39304755 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
39304561 GCTACTCGTT
* * *
39304571 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
39304634 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
39304651 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
39304714 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
39304731 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
39304756 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:39304755 original size:40 final size:40
Alignment explanation
Indices: 39304552--39304755 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
39304542 CGGAATTTAA
** *
39304552 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
39304592 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
39304632 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
39304671 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
39304711 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
39304751 CCGGA
1 CCGGA
39304756 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:39311294 original size:46 final size:43
Alignment explanation
Indices: 39311212--39311328 Score: 126
Period size: 46 Copynumber: 2.6 Consensus size: 43
39311202 AGTTTTAGTG
* *
39311212 TAAGACAAGTTTGGGACATGCATCAGCCTTGGGATGTAAGCCAGTA
1 TAAGACATGTTTGGGACATGCATC-GCCTTGAGATGT--GCCAGTA
* * *
39311258 TAAGACATGTTTGGGACATGCATCGGCTATGAGATGTGTCAGTG
1 TAAGACATGTTTGGGACATGCATCGCCT-TGAGATGTGCCAGTA
*
39311302 TAAGACCATGTCTGGGACATGGCATCG
1 TAAGA-CATGTTTGGGACAT-GCATCG
39311329 ACACTTTACC
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
44 10 0.16
45 16 0.26
46 36 0.58
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (43 bp):
TAAGACATGTTTGGGACATGCATCGCCTTGAGATGTGCCAGTA
Found at i:39314220 original size:24 final size:25
Alignment explanation
Indices: 39314166--39314222 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
39314156 GTTGTGAATT
* *
39314166 AGTATGCTCTCACGAGCTATAAATC
1 AGTAAGCTCTCACGAGCTAGAAATC
*
39314191 -GATAAGCTCTCACGAGCT-GCAATC
1 AG-TAAGCTCTCACGAGCTAGAAATC
39314215 AGTAAGCT
1 AGTAAGCT
39314223 TATACGAGCT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
24 11 0.41
25 16 0.59
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (25 bp):
AGTAAGCTCTCACGAGCTAGAAATC
Found at i:39316649 original size:13 final size:13
Alignment explanation
Indices: 39316631--39316658 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
39316621 ACAAAATTGG
39316631 AAAGATGAAAAAT
1 AAAGATGAAAAAT
39316644 AAAGATGAAAAAT
1 AAAGATGAAAAAT
39316657 AA
1 AA
39316659 TAAAATAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (13 bp):
AAAGATGAAAAAT
Found at i:39319696 original size:29 final size:28
Alignment explanation
Indices: 39319653--39319708 Score: 103
Period size: 29 Copynumber: 2.0 Consensus size: 28
39319643 TATCAGAAGT
39319653 ACTGATATCATGGCCCGAAGCCAAATCA
1 ACTGATATCATGGCCCGAAGCCAAATCA
39319681 ACTGATATTCATGGCCCGAAGCCAAATC
1 ACTGATA-TCATGGCCCGAAGCCAAATC
39319709 GGTATAACCC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 7 0.26
29 20 0.74
ACGTcount: A:0.34, C:0.29, G:0.18, T:0.20
Consensus pattern (28 bp):
ACTGATATCATGGCCCGAAGCCAAATCA
Found at i:39323819 original size:13 final size:13
Alignment explanation
Indices: 39323803--39323827 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39323793 TGAATGAAAT
39323803 TTTCATGAAATCA
1 TTTCATGAAATCA
39323816 TTTCATGAAATC
1 TTTCATGAAATC
39323828 GTAGACCATA
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:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (13 bp):
TTTCATGAAATCA
Found at i:39324337 original size:54 final size:54
Alignment explanation
Indices: 39324141--39324354 Score: 252
Period size: 54 Copynumber: 4.0 Consensus size: 54
39324131 TTTCCTTTTT
* * * * *
39324141 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * **
39324194 GAACTCACCAATTCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATA
* * *
39324248 GTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * * *
39324303 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTACCTTA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTA
39324355 CCAAATTCCA
Statistics
Matches: 138, Mismatches: 19, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
52 2 0.01
53 43 0.31
54 47 0.34
55 44 0.32
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
Found at i:39324443 original size:47 final size:47
Alignment explanation
Indices: 39324327--39324448 Score: 190
Period size: 47 Copynumber: 2.6 Consensus size: 47
39324317 CATGCCTTGG
* ** *
39324327 CATGGTCTTACATGATATCCTTACCTTACCAAATTCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
* *
39324374 CATGGTCTTATATGGTATCCTTGTCTTACCGAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
39324421 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
39324449 GTGACAATGC
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.37
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:39324573 original size:10 final size:10
Alignment explanation
Indices: 39324554--39324594 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
39324544 CCAATGCCAT
39324554 GTCTTAACATG
1 GTCTT-ACATG
39324565 GTCTTACATG
1 GTCTTACATG
*
39324575 G--TAACATG
1 GTCTTACATG
39324583 GTCTTACATG
1 GTCTTACATG
39324593 GT
1 GT
39324595 ATCCTTAACC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
8 7 0.27
10 14 0.54
11 5 0.19
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.37
Consensus pattern (10 bp):
GTCTTACATG
Found at i:39324581 original size:18 final size:18
Alignment explanation
Indices: 39324558--39324595 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
39324548 TGCCATGTCT
39324558 TAACATGGTCTTACATGG
1 TAACATGGTCTTACATGG
39324576 TAACATGGTCTTACATGG
1 TAACATGGTCTTACATGG
39324594 TA
1 TA
39324596 TCCTTAACCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (18 bp):
TAACATGGTCTTACATGG
Found at i:39324589 original size:45 final size:45
Alignment explanation
Indices: 39324502--39324589 Score: 113
Period size: 45 Copynumber: 2.0 Consensus size: 45
39324492 ATCAATGCCG
* * * *
39324502 ATGCCATGTCTTGACATCGTCTTACATGGGATCCTTGCCTTACCA
1 ATGCCATGTCTTAACATCGTCTTACATGGGAACATGGCCTTACCA
* * *
39324547 ATGCCATGTCTTAACATGGTCTTACATGGTAACATGGTCTTAC
1 ATGCCATGTCTTAACATCGTCTTACATGGGAACATGGCCTTAC
39324590 ATGGTATCCT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (45 bp):
ATGCCATGTCTTAACATCGTCTTACATGGGAACATGGCCTTACCA
Found at i:39328473 original size:48 final size:48
Alignment explanation
Indices: 39328412--39328544 Score: 158
Period size: 48 Copynumber: 2.8 Consensus size: 48
39328402 TGATTAACGA
* *
39328412 GATCCCGTGTAAGACCATGTTTGGGACATGGCATCGACATCGATATGC
1 GATCTCGTGTAAGACCATGTTTGGGACATGGCATCGACATCGATAAGC
* * ** * * * *
39328460 GATCTCGTGTAAGATCATATCAGGGATATGGCTTCGGCATCGATAAGT
1 GATCTCGTGTAAGACCATGTTTGGGACATGGCATCGACATCGATAAGC
* *
39328508 GATTTCGTATAAGACCATGTTTGGGACATGGCATCGA
1 GATCTCGTGTAAGACCATGTTTGGGACATGGCATCGA
39328545 TATGAGGTCC
Statistics
Matches: 66, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
48 66 1.00
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (48 bp):
GATCTCGTGTAAGACCATGTTTGGGACATGGCATCGACATCGATAAGC
Found at i:39330406 original size:48 final size:48
Alignment explanation
Indices: 39330349--39330485 Score: 184
Period size: 48 Copynumber: 2.9 Consensus size: 48
39330339 ATCGATATGT
* *
39330349 GATCTCATGTAAGACCATATCTAGGACATGGCATTGGCATCAATCTAC
1 GATCCCATGTAAGACCATATCTAGGACATGGCATTGGCATCAATATAC
* * * * **
39330397 GATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGATATGT
1 GATCCCATGTAAGACCATATCTAGGACATGGCATTGGCATCAATATAC
* *
39330445 GATCCCATGTAAGACCATATCCAGGATATGGCATTGGCATC
1 GATCCCATGTAAGACCATATCTAGGACATGGCATTGGCATC
39330486 CTACTATGTG
Statistics
Matches: 76, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 76 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (48 bp):
GATCCCATGTAAGACCATATCTAGGACATGGCATTGGCATCAATATAC
Found at i:39335254 original size:40 final size:40
Alignment explanation
Indices: 39335193--39335416 Score: 274
Period size: 40 Copynumber: 5.5 Consensus size: 40
39335183 ACCCAAGTAT
* * *
39335193 CTTCGGGATTTAG-TCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
* * **
39335232 CTTCGGGTCTTAGCCTGGATATAGTC-ACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGC
39335272 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGC
* *
39335312 CTTCGGGACTTAGCTCGGGTATAGCAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTA---GCACAAATGC
* *
39335355 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
*
39335395 CCTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
39335417 CATCCGAATA
Statistics
Matches: 161, Mismatches: 18, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
39 12 0.07
40 112 0.70
41 1 0.01
43 36 0.22
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
Found at i:39335377 original size:83 final size:80
Alignment explanation
Indices: 39335193--39335416 Score: 267
Period size: 83 Copynumber: 2.8 Consensus size: 80
39335183 ACCCAAGTAT
* * * *
39335193 CTTCGGGATTTAG-TCGGATATAG-CAACTCGCACAAATGCCTTCGGGTCTTAGCCTGGATATAG
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCTGGATATAG
**
39335256 TCACTAGCATGAATGC
65 TCACTAGCACAAATGC
*
39335272 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAG-CTCGGGTATAG
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCT-GGATATAG
39335336 -CAACTACTCGCACAAATGC
65 TC-ACTA---GCACAAATGC
* * * *
39335355 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCCTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCTGGATAT
39335417 CATCCGAATA
Statistics
Matches: 125, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
79 15 0.12
80 45 0.36
81 1 0.01
83 63 0.50
84 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCTGGATATAGT
CACTAGCACAAATGC
Found at i:39349027 original size:26 final size:26
Alignment explanation
Indices: 39348991--39349042 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
39348981 AATACTAAGT
39348991 GCAGGCTACTATGCGTACCCGATAGC
1 GCAGGCTACTATGCGTACCCGATAGC
39349017 GCAGGCTACTATGCGTACCCGATAGC
1 GCAGGCTACTATGCGTACCCGATAGC
39349043 TTCGATCACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.31, G:0.27, T:0.19
Consensus pattern (26 bp):
GCAGGCTACTATGCGTACCCGATAGC
Found at i:39349408 original size:13 final size:13
Alignment explanation
Indices: 39349390--39349416 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
39349380 AAAGTAATCA
39349390 CACACGGGCGTGT
1 CACACGGGCGTGT
39349403 CACACGGGCGTGT
1 CACACGGGCGTGT
39349416 C
1 C
39349417 CCTATCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:39359489 original size:27 final size:26
Alignment explanation
Indices: 39359435--39359518 Score: 105
Period size: 27 Copynumber: 3.2 Consensus size: 26
39359425 AGCATTGCTG
* * *
39359435 CCAGAACAAATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
39359461 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
* *
39359488 CCAGATCAGATAAATGTGGCATAGCCA
1 CCAGAACAGAT-AATGTGGCAGAGCCA
39359515 CCAG
1 CCAG
39359519 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
26 12 0.24
27 37 0.73
28 2 0.04
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:39360967 original size:24 final size:24
Alignment explanation
Indices: 39360932--39361032 Score: 141
Period size: 24 Copynumber: 4.2 Consensus size: 24
39360922 CCAACACTGT
*
39360932 TCTCCCTAATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
39360956 TCTCCCTTATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
* *
39360980 TATCCCTTATCAACTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
* *
39361004 TATCCTTTATC-GACTCCTAAATCC
1 TCTCCCTTATCAG-CTCCTAAATCC
39361028 TCTCC
1 TCTCC
39361033 TGACAGACTT
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
24 70 1.00
ACGTcount: A:0.24, C:0.40, G:0.03, T:0.34
Consensus pattern (24 bp):
TCTCCCTTATCAGCTCCTAAATCC
Found at i:39361668 original size:48 final size:48
Alignment explanation
Indices: 39361605--39361729 Score: 169
Period size: 48 Copynumber: 2.6 Consensus size: 48
39361595 GGGCTACCGA
** *
39361605 CATCGATATGTGATCCCATGTAAGACCATGTCTCGGACATGGCGTTAG
1 CATCGATATACGATCCCATGTAAGACCATGTCTCGGACATGGCATTAG
* * *
39361653 CATCGATCTACGATCCCATGTAAGACCATGTCTGGGACATGGCATTGG
1 CATCGATATACGATCCCATGTAAGACCATGTCTCGGACATGGCATTAG
** *
39361701 CATCGATATGTGAACCCATGTAAGACCAT
1 CATCGATATACGATCCCATGTAAGACCAT
39361730 ACCCGAGATA
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 67 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (48 bp):
CATCGATATACGATCCCATGTAAGACCATGTCTCGGACATGGCATTAG
Found at i:39361743 original size:48 final size:47
Alignment explanation
Indices: 39361605--39361752 Score: 161
Period size: 48 Copynumber: 3.1 Consensus size: 47
39361595 GGGCTACCGA
* * * *
39361605 CATCGATATGTGATCCCATGTAAGACCATGTCTCGGACATGGCGTTAG
1 CATCGATATGTGATCCCATGTAAGACCAT-ACCCGGACATGGCATTGG
* ** * **
39361653 CATCGATCTACGATCCCATGTAAGACCATGTCTGGGACATGGCATTGG
1 CATCGATATGTGATCCCATGTAAGACCAT-ACCCGGACATGGCATTGG
* *
39361701 CATCGATATGTGAACCCATGTAAGACCATACCCGAGATATGGCATTGG
1 CATCGATATGTGATCCCATGTAAGACCATACCCG-GACATGGCATTGG
39361749 CATC
1 CATC
39361753 CTACCATGTG
Statistics
Matches: 85, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
47 2 0.02
48 83 0.98
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (47 bp):
CATCGATATGTGATCCCATGTAAGACCATACCCGGACATGGCATTGG
Found at i:39368060 original size:17 final size:17
Alignment explanation
Indices: 39368026--39368067 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
39368016 ATTAATAACA
39368026 TATAAAAATTTCAGAACT
1 TATAAAAATTTCA-AACT
39368044 TATAAAAATTTTC-AACT
1 TATAAAAA-TTTCAAACT
*
39368061 TTTAAAA
1 TATAAAA
39368068 GGTCACACGC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 10 0.45
18 8 0.36
19 4 0.18
ACGTcount: A:0.50, C:0.10, G:0.02, T:0.38
Consensus pattern (17 bp):
TATAAAAATTTCAAACT
Found at i:39371747 original size:12 final size:12
Alignment explanation
Indices: 39371718--39371747 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
39371708 ATCATGCTCA
39371718 AAATATTAAAAT
1 AAATATTAAAAT
39371730 -AATATTAAAAT
1 AAATATTAAAAT
39371741 AAATATT
1 AAATATT
39371748 TTAACTTTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
AAATATTAAAAT
Found at i:39373921 original size:110 final size:110
Alignment explanation
Indices: 39373728--39373947 Score: 422
Period size: 110 Copynumber: 2.0 Consensus size: 110
39373718 TGTGACTATT
39373728 ATAGAATTAAAGTTGAGTAAGTAATTAAACAAATTCATTTGTTTAAATTTAAAGCTCAAGAGCAA
1 ATAGAATTAAAGTTGAGTAAGTAATTAAACAAATTCATTTGTTTAAATTTAAAGCTCAAGAGCAA
*
39373793 AGAGGAACTAAATCAGATAGGGGAAAGGAGAAAGCAATCGAGTAG
66 AGAGGAACTAAATCAGATAAGGGAAAGGAGAAAGCAATCGAGTAG
39373838 ATAGAATTAAAGTTGAGTAAGTAATTAAACAAATTCATTTGTTTAAATTTAAAGCTCAAGAGCAA
1 ATAGAATTAAAGTTGAGTAAGTAATTAAACAAATTCATTTGTTTAAATTTAAAGCTCAAGAGCAA
*
39373903 AGAGGAACTAAATCAGATAAGGGAAAGGATAAAGCAATCGAGTAG
66 AGAGGAACTAAATCAGATAAGGGAAAGGAGAAAGCAATCGAGTAG
39373948 CCTATCCACA
Statistics
Matches: 108, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
110 108 1.00
ACGTcount: A:0.47, C:0.08, G:0.21, T:0.24
Consensus pattern (110 bp):
ATAGAATTAAAGTTGAGTAAGTAATTAAACAAATTCATTTGTTTAAATTTAAAGCTCAAGAGCAA
AGAGGAACTAAATCAGATAAGGGAAAGGAGAAAGCAATCGAGTAG
Found at i:39374334 original size:39 final size:39
Alignment explanation
Indices: 39374280--39374496 Score: 321
Period size: 39 Copynumber: 5.5 Consensus size: 39
39374270 TAATGGAGAA
*
39374280 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
39374319 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCT-GTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
39374357 TTATATCCGGGCTAAGTTCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
39374396 TTATATCCGGGTTAAGCCCCGAAGACATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
39374435 TTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGCTGGTA
1 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
39374474 TTATATCCGGGCTTAAAGTCCCG
1 TTATATCCGGGC-T-AAGTCCCG
39374497 CATGCTTTGT
Statistics
Matches: 163, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
38 37 0.23
39 106 0.65
40 20 0.12
ACGTcount: A:0.19, C:0.23, G:0.29, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:39374381 original size:77 final size:78
Alignment explanation
Indices: 39374280--39374496 Score: 314
Period size: 77 Copynumber: 2.8 Consensus size: 78
39374270 TAATGGAGAA
*
39374280 TTATATCCGGGCTAAG-TCCTGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGG
1 TTATATCCGGGCTAAGTTCC-GAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGA
39374344 CATTCGTGCT-GTG
65 CATTCGTGCTGGTG
* *
39374357 TTATATCCGGGCTAAGTTCCGAAGGCATTCGTGCTGGTGTTATATCCGGGTTAAGCCCCGAAGAC
1 TTATATCCGGGCTAAGTTCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGAC
39374422 ATTCGTGCTGGTG
66 ATTCGTGCTGGTG
* * * *
39374435 TTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGCTGGTATTATATCCGGGCTTAAAGTCCCG
1 TTATATCCGGGCT-AAGTTCCGAAGGCATTCGTGCTGGTGTTATATCCGGGC-T-AAGTCCCG
39374497 CATGCTTTGT
Statistics
Matches: 126, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
77 67 0.53
78 40 0.32
79 12 0.10
80 7 0.06
ACGTcount: A:0.19, C:0.23, G:0.29, T:0.30
Consensus pattern (78 bp):
TTATATCCGGGCTAAGTTCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGAC
ATTCGTGCTGGTG
Found at i:39377921 original size:24 final size:23
Alignment explanation
Indices: 39377890--39377969 Score: 90
Period size: 23 Copynumber: 3.3 Consensus size: 23
39377880 TACCGATATA
39377890 TCAGCTCATAAGAGCTTACTGTTC
1 TCAGCTCAT-AGAGCTTACTGTTC
* *
39377914 TCAGCTCATTAGAGTTTACTATT-
1 TCAGCTCA-TAGAGCTTACTGTTC
*
39377937 TCAGCTCAGTAGAGCTTACTGTCC
1 TCAGCTCA-TAGAGCTTACTGTTC
39377961 ATCAGCTCA
1 -TCAGCTCA
39377970 GGAGGAGCTT
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
23 19 0.40
24 19 0.40
25 9 0.19
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (23 bp):
TCAGCTCATAGAGCTTACTGTTC
Found at i:39377944 original size:23 final size:24
Alignment explanation
Indices: 39377890--39377956 Score: 91
Period size: 24 Copynumber: 2.8 Consensus size: 24
39377880 TACCGATATA
* *
39377890 TCAGCTCATAAGAGCTTACTGTTC
1 TCAGCTCATTAGAGCTTACTATTC
*
39377914 TCAGCTCATTAGAGTTTACTATT-
1 TCAGCTCATTAGAGCTTACTATTC
*
39377937 TCAGCTCAGTAGAGCTTACT
1 TCAGCTCATTAGAGCTTACT
39377957 GTCCATCAGC
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
23 18 0.47
24 20 0.53
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.36
Consensus pattern (24 bp):
TCAGCTCATTAGAGCTTACTATTC
Found at i:39380222 original size:21 final size:19
Alignment explanation
Indices: 39380196--39380243 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
39380186 AACAAAATGC
39380196 AATCAACCTAACA-TGAATTA
1 AATCAACCTAA-ATTG-ATTA
*
39380216 AATTCAAGCTAAATTGATTA
1 AA-TCAACCTAAATTGATTA
39380236 AATCAACC
1 AATCAACC
39380244 ATTCCAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 5 0.21
20 9 0.38
21 10 0.42
ACGTcount: A:0.48, C:0.19, G:0.06, T:0.27
Consensus pattern (19 bp):
AATCAACCTAAATTGATTA
Done.