Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 126 of 221
Found at i:38796620 original size:11 final size:11
Alignment explanation
Indices: 38796604--38796628 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
38796594 ACATTTCCAT
38796604 CAACCAACCAC
1 CAACCAACCAC
38796615 CAACCAACCAC
1 CAACCAACCAC
38796626 CAA
1 CAA
38796629 GCATAACTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (11 bp):
CAACCAACCAC
Found at i:38802496 original size:10 final size:10
Alignment explanation
Indices: 38802481--38802509 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
38802471 TGTTTCACTT
38802481 ACTCTCTCAA
1 ACTCTCTCAA
38802491 ACTCTCTCAA
1 ACTCTCTCAA
38802501 A-TCTCTCAA
1 ACTCTCTCAA
38802510 TACCTCTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.42
10 11 0.58
ACGTcount: A:0.31, C:0.38, G:0.00, T:0.31
Consensus pattern (10 bp):
ACTCTCTCAA
Found at i:38811524 original size:21 final size:21
Alignment explanation
Indices: 38811500--38811540 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
38811490 ATTGATACTT
38811500 TTTAAAAAGTATCAGTACTCA
1 TTTAAAAAGTATCAGTACTCA
*
38811521 TTTAAAAAGTATCGGTACTC
1 TTTAAAAAGTATCAGTACTC
38811541 GTTGGGTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (21 bp):
TTTAAAAAGTATCAGTACTCA
Found at i:38816936 original size:14 final size:15
Alignment explanation
Indices: 38816919--38816951 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
38816909 ATTTTACATG
38816919 TTTTAT-TTCAAAAT
1 TTTTATATTCAAAAT
38816933 TTTTATATTCAAAAT
1 TTTTATATTCAAAAT
38816948 TTTT
1 TTTT
38816952 CATACTATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTTATATTCAAAAT
Found at i:38825396 original size:24 final size:25
Alignment explanation
Indices: 38825360--38825407 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
38825350 TTTCTTTCCA
38825360 TTTTCTTTCTATT-TCTTTATTATG
1 TTTTCTTTCTATTATCTTTATTATG
38825384 TTTTCATTT-TATTATCTTTATTAT
1 TTTTC-TTTCTATTATCTTTATTAT
38825408 TATCATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.17, C:0.10, G:0.02, T:0.71
Consensus pattern (25 bp):
TTTTCTTTCTATTATCTTTATTATG
Found at i:38825409 original size:12 final size:12
Alignment explanation
Indices: 38825387--38825421 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
38825377 TATTATGTTT
38825387 TCATT-TTATTA
1 TCATTATTATTA
*
38825398 TCTTTATTATTA
1 TCATTATTATTA
38825410 TCATTATTATTA
1 TCATTATTATTA
38825422 AAGTTACTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 4 0.19
12 17 0.81
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.63
Consensus pattern (12 bp):
TCATTATTATTA
Found at i:38825961 original size:100 final size:103
Alignment explanation
Indices: 38825785--38825983 Score: 296
Period size: 100 Copynumber: 2.0 Consensus size: 103
38825775 CTAATGGTAT
* * * *
38825785 TTCTTATATTTTTAATTAACTTGGAGAAAAGGGGATGAGAGTTTGAGTTGTTCAAGAACTTTTTC
1 TTCTTATATATTTAATTAACTTGGAGAAAAGGGGAGGAGAGTTTGAGTTGTTAAAGAACTTTATC
* *
38825850 CTTATCTTTTAAGAGAGCTTGAAGTTATTGGAAAGCTA
66 CTTATCTTTTAAAAGAGCTTGAAGCTATTGGAAAGCTA
* * *
38825888 TTCTTATATATTTGATTGACTT-G-GAAAA-GGGAGGAGAGTTTGAGTTGTTAAATAACTTTATC
1 TTCTTATATATTTAATTAACTTGGAGAAAAGGGGAGGAGAGTTTGAGTTGTTAAAGAACTTTATC
38825950 CTTATCTTTTAAAAGAGCTTGAAGCTATTGGAAA
66 CTTATCTTTTAAAAGAGCTTGAAGCTATTGGAAA
38825984 ATTGTTTTCT
Statistics
Matches: 87, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
100 62 0.71
101 5 0.06
102 1 0.01
103 19 0.22
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (103 bp):
TTCTTATATATTTAATTAACTTGGAGAAAAGGGGAGGAGAGTTTGAGTTGTTAAAGAACTTTATC
CTTATCTTTTAAAAGAGCTTGAAGCTATTGGAAAGCTA
Found at i:38828476 original size:33 final size:31
Alignment explanation
Indices: 38828434--38828502 Score: 104
Period size: 33 Copynumber: 2.2 Consensus size: 31
38828424 TGTTACTATC
38828434 ACTGTAATGGGCTAAGG-CCACACTGATACTGA
1 ACTGTAATGGGCTAAGGCCCA-ACTGA-ACTGA
38828466 TACTGTAATGGGCTAAGGCCCAACTGAACTGA
1 -ACTGTAATGGGCTAAGGCCCAACTGAACTGA
38828498 ACTGT
1 ACTGT
38828503 TATTGAATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
31 5 0.14
32 5 0.14
33 22 0.63
34 3 0.09
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (31 bp):
ACTGTAATGGGCTAAGGCCCAACTGAACTGA
Found at i:38835301 original size:17 final size:17
Alignment explanation
Indices: 38835254--38835302 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
38835244 GGGTCGAAAT
*
38835254 GGGCTGTGTGGGCCCAAC
1 GGGCT-TGTGGACCCAAC
* * *
38835272 GGGTTTATAGACCCAAC
1 GGGCTTGTGGACCCAAC
38835289 GGGCTTGTGGACCC
1 GGGCTTGTGGACCC
38835303 CACACGGGTA
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
17 20 0.83
18 4 0.17
ACGTcount: A:0.16, C:0.27, G:0.37, T:0.20
Consensus pattern (17 bp):
GGGCTTGTGGACCCAAC
Found at i:38835915 original size:32 final size:31
Alignment explanation
Indices: 38835855--38835920 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 31
38835845 TTACTGTCAT
38835855 TGTAATGGGCTAAGGCCACATGATACTGATAC
1 TGTAATGGGCTAAGGCCACATGATACTGA-AC
38835887 TGTAATGGGCTAAGGCC-CAACTGA-ACTGAAC
1 TGTAATGGGCTAAGGCCAC-A-TGATACTGAAC
38835918 TGT
1 TGT
38835921 TATTGAATTG
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
31 6 0.19
32 23 0.72
33 3 0.09
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (31 bp):
TGTAATGGGCTAAGGCCACATGATACTGAAC
Found at i:38841838 original size:14 final size:14
Alignment explanation
Indices: 38841804--38841836 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
38841794 TCAAACAAAC
38841804 AAAAAATTAGAATT
1 AAAAAATTAGAATT
*
38841818 TAAAAATTA-AATT
1 AAAAAATTAGAATT
38841831 AAAAAA
1 AAAAAA
38841837 ATATTAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (14 bp):
AAAAAATTAGAATT
Found at i:38847258 original size:24 final size:24
Alignment explanation
Indices: 38847221--38847293 Score: 85
Period size: 24 Copynumber: 3.0 Consensus size: 24
38847211 GAACACACCA
38847221 TAGCTTGTATGAGCTTACCAATTT
1 TAGCTTGTATGAGCTTACCAATTT
38847245 TAGCTTGTGA-GAGCTTACCAATTCT
1 TAGCTTGT-ATGAGCTTACCAATT-T
* * * *
38847270 CAACTCGTATGAGCTTACCGATTT
1 TAGCTTGTATGAGCTTACCAATTT
38847294 CCAGCTCGTG
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
24 23 0.55
25 19 0.45
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.37
Consensus pattern (24 bp):
TAGCTTGTATGAGCTTACCAATTT
Found at i:38847301 original size:25 final size:26
Alignment explanation
Indices: 38847222--38847333 Score: 78
Period size: 25 Copynumber: 4.5 Consensus size: 26
38847212 AACACACCAT
* * *
38847222 AGCTTGTATGAGCTTACCAATTT--T
1 AGCTCGTATGAGCTTACCGATTTCAC
* *
38847246 AGCTTGTGA-GAGCTTACCAATTCTCA-
1 AGCTCGT-ATGAGCTTACCGATT-TCAC
38847272 A-CTCGTATGAGCTTACCGATTTC-C
1 AGCTCGTATGAGCTTACCGATTTCAC
* *
38847296 AGCTCGTGA-GAGCATACCGA-TTCAT
1 AGCTCGT-ATGAGCTTACCGATTTCAC
38847321 AGCTCGTATGAGC
1 AGCTCGTATGAGC
38847334 ATACATGTAC
Statistics
Matches: 74, Mismatches: 4, Indels: 19
0.76 0.04 0.20
Matches are distributed among these distances:
24 28 0.38
25 44 0.59
26 2 0.03
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (26 bp):
AGCTCGTATGAGCTTACCGATTTCAC
Found at i:38847327 original size:50 final size:49
Alignment explanation
Indices: 38847219--38847333 Score: 142
Period size: 50 Copynumber: 2.3 Consensus size: 49
38847209 GCGAACACAC
* * * *
38847219 CATAGCTTGTATGAGCTTACCAATTTTAGCTTGTGAGAGCTTACCAATT
1 CATAGCTCGTATGAGCTTACCAATTTCAGCTCGTGAGAGCATACCAATT
* * *
38847268 C-TCAACTCGTATGAGCTTACCGATTTCCAGCTCGTGAGAGCATACCGATT
1 CAT-AGCTCGTATGAGCTTACCAATTT-CAGCTCGTGAGAGCATACCAATT
38847318 CATAGCTCGTATGAGC
1 CATAGCTCGTATGAGC
38847334 ATACATGTAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
48 1 0.02
49 21 0.38
50 32 0.58
51 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.31
Consensus pattern (49 bp):
CATAGCTCGTATGAGCTTACCAATTTCAGCTCGTGAGAGCATACCAATT
Found at i:38847334 original size:25 final size:25
Alignment explanation
Indices: 38847273--38847337 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
38847263 CAATTCTCAA
*
38847273 CTCGTATGAGCTTACCGATTTCCAG
1 CTCGTATGAGCATACCGATTTCCAG
*
38847298 CTCGTGA-GAGCATACCGA-TTCATAG
1 CTCGT-ATGAGCATACCGATTTC-CAG
38847323 CTCGTATGAGCATAC
1 CTCGTATGAGCATAC
38847338 ATGTACAGGA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
24 4 0.11
25 30 0.86
26 1 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.28
Consensus pattern (25 bp):
CTCGTATGAGCATACCGATTTCCAG
Found at i:38855782 original size:25 final size:25
Alignment explanation
Indices: 38855718--38855784 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 25
38855708 GATACTCCAC
*
38855718 AGCTTGTGTGAGCACACCGATTCAT
1 AGCTTGTGTGAGCATACCGATTCAT
** *
38855743 AGCTCATGTGAGCATATCGATTCAT
1 AGCTTGTGTGAGCATACCGATTCAT
*
38855768 AGCTTGTGTAAGCATAC
1 AGCTTGTGTGAGCATAC
38855785 ATGTACAGGA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (25 bp):
AGCTTGTGTGAGCATACCGATTCAT
Found at i:38864345 original size:41 final size:41
Alignment explanation
Indices: 38864274--38864394 Score: 145
Period size: 41 Copynumber: 3.0 Consensus size: 41
38864264 CTAATAAAAT
* *
38864274 ACACCAACACGAAGCTTGCTAGGC-TCAAAGCTTGATATAAC
1 ACACCAGCACGAAGCTTGCTAGGCAT-AAAGCCTGATATAAC
* * *
38864315 ACACCAGCACGAAGCCTGCTTGGCATAAAGCCTGATATAAT
1 ACACCAGCACGAAGCTTGCTAGGCATAAAGCCTGATATAAC
*** *
38864356 ACATTGGCACGAAGCTTGCTAGGCACAAAGCCTGATATA
1 ACACCAGCACGAAGCTTGCTAGGCATAAAGCCTGATATA
38864395 GTACACCACA
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
41 67 0.99
42 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.20
Consensus pattern (41 bp):
ACACCAGCACGAAGCTTGCTAGGCATAAAGCCTGATATAAC
Found at i:38865890 original size:29 final size:29
Alignment explanation
Indices: 38865845--38866043 Score: 209
Period size: 29 Copynumber: 6.8 Consensus size: 29
38865835 ATCAAATAAA
* *
38865845 GAAAAGGGATGGTTTCGACCATTGAATAT
1 GAAAAGGGATGGCTTCGACCATCGAATAT
38865874 GAAAAGGGATGGCTTCGACCATCGAATAT
1 GAAAAGGGATGGCTTCGACCATCGAATAT
** * *
38865903 GAGTAGGGATGACTTCGACCAACGAATAT
1 GAAAAGGGATGGCTTCGACCATCGAATAT
* * *
38865932 GAAAAGGGATGACTTCAACCATCTAATAT
1 GAAAAGGGATGGCTTCGACCATCGAATAT
* *
38865961 GAAAGGGGATGGCTTTGACCATCGAATAT
1 GAAAAGGGATGGCTTCGACCATCGAATAT
* * * * * *
38865990 CAAAATGGATGGTTTCAACCATCGATTAAA
1 GAAAAGGGATGGCTTCGACCATCGAAT-AT
* * *
38866020 GAGAAGGGATGGTTTCGACTATCG
1 GAAAAGGGATGGCTTCGACCATCG
38866044 TTTAGCACAC
Statistics
Matches: 140, Mismatches: 29, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
29 120 0.86
30 20 0.14
ACGTcount: A:0.35, C:0.15, G:0.26, T:0.24
Consensus pattern (29 bp):
GAAAAGGGATGGCTTCGACCATCGAATAT
Found at i:38869518 original size:40 final size:40
Alignment explanation
Indices: 38869376--38869511 Score: 191
Period size: 40 Copynumber: 3.4 Consensus size: 40
38869366 TTCTTTATAA
* * ** *
38869376 TAGATTCAGTTGGTATGGCTTGAGGGCACATACGTTTCAG
1 TAGATTCAGTAGGTATGGCTCGAAAGCGCATACGTTTCAG
*
38869416 TAGATTCAGTAGGTATGGCTCGAAAGCGCATACATTTCAG
1 TAGATTCAGTAGGTATGGCTCGAAAGCGCATACGTTTCAG
*
38869456 TAGATTCAGTAGGTATGGCTCGAAAGTGCATACGTTTCAG
1 TAGATTCAGTAGGTATGGCTCGAAAGCGCATACGTTTCAG
**
38869496 TAGATTTGGTAGGTAT
1 TAGATTCAGTAGGTAT
38869512 CACTCGATGA
Statistics
Matches: 86, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 86 1.00
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.32
Consensus pattern (40 bp):
TAGATTCAGTAGGTATGGCTCGAAAGCGCATACGTTTCAG
Found at i:38871594 original size:45 final size:45
Alignment explanation
Indices: 38871498--38871651 Score: 134
Period size: 45 Copynumber: 3.4 Consensus size: 45
38871488 ATGTCATGGT
* * * **
38871498 GTCTTTCAACCATTGTCTTATTCATTT-CTCATCATGTTGCCATAGC
1 GTCTTTCAACTATGGTCTTATTCATTTGAT--TCATGACGCCATAGC
* *
38871544 ATCTTTCAACTATGGTCTTATTCATTTGATTCATGACGTCATAGC
1 GTCTTTCAACTATGGTCTTATTCATTTGATTCATGACGCCATAGC
* * * * * *
38871589 GTCTTTCAGCTATGGTCTTACTCGA-TAGAATCGTGATC-CCATAAC
1 GTCTTTCAACTATGGTCTTATTC-ATTTGATTCATGA-CGCCATAGC
38871634 GTCTTTCAACTATGGTCT
1 GTCTTTCAACTATGGTCT
38871652 CACTCGTTTC
Statistics
Matches: 89, Mismatches: 16, Indels: 7
0.79 0.14 0.06
Matches are distributed among these distances:
45 62 0.70
46 26 0.29
47 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.40
Consensus pattern (45 bp):
GTCTTTCAACTATGGTCTTATTCATTTGATTCATGACGCCATAGC
Found at i:38871693 original size:24 final size:24
Alignment explanation
Indices: 38871666--38871739 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 24
38871656 CGTTTCTAGC
38871666 ATGGTCTCATAATGTCTTTCAACT
1 ATGGTCTCATAATGTCTTTCAACT
* * * *
38871690 ATGGTCTTAT-TTAT-TTTCGA-T
1 ATGGTCTCATAATGTCTTTCAACT
*
38871711 ATAGTGC-CATAATGTCTTTCAACT
1 ATGGT-CTCATAATGTCTTTCAACT
38871735 ATGGT
1 ATGGT
38871740 TTTAATCATT
Statistics
Matches: 36, Mismatches: 10, Indels: 8
0.67 0.19 0.15
Matches are distributed among these distances:
21 7 0.19
22 8 0.22
23 7 0.19
24 14 0.39
ACGTcount: A:0.24, C:0.16, G:0.15, T:0.45
Consensus pattern (24 bp):
ATGGTCTCATAATGTCTTTCAACT
Found at i:38877249 original size:16 final size:16
Alignment explanation
Indices: 38877225--38877262 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
38877215 CTTCAGCATG
38877225 AAGCCTGCTAGGCACA
1 AAGCCTGCTAGGCACA
* *
38877241 AAGCTTGCTATGCACA
1 AAGCCTGCTAGGCACA
38877257 AAGCCT
1 AAGCCT
38877263 AATATACTAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.32, C:0.29, G:0.21, T:0.18
Consensus pattern (16 bp):
AAGCCTGCTAGGCACA
Found at i:38877653 original size:45 final size:45
Alignment explanation
Indices: 38877531--38877653 Score: 174
Period size: 45 Copynumber: 2.7 Consensus size: 45
38877521 TTGATTTGTT
* * *
38877531 ATGCTATAGCATCTTTCAGCTATGGTCTTACTCGATAGAATCGTA
1 ATGCCATAACATCTTTCAGCTATGGTCTTACTTGATAGAATCGTA
* * * *
38877576 ATGCCATTACATCTTTCAGCTATAGTCTTACTTGATATAATCGTG
1 ATGCCATAACATCTTTCAGCTATGGTCTTACTTGATAGAATCGTA
*
38877621 ATGCCATAACGTCTTTCAGCTATGGTCTTACTT
1 ATGCCATAACATCTTTCAGCTATGGTCTTACTT
38877654 ATTTCTAGTA
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 68 1.00
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.38
Consensus pattern (45 bp):
ATGCCATAACATCTTTCAGCTATGGTCTTACTTGATAGAATCGTA
Found at i:38877726 original size:45 final size:45
Alignment explanation
Indices: 38877621--38877740 Score: 136
Period size: 45 Copynumber: 2.7 Consensus size: 45
38877611 TATAATCGTG
** * * *
38877621 ATGCCATAACGTCTTTCAGCTATGGTCTTACTTATTTCTAGTATG
1 ATGCCATAGTGTCTTTCAACTATGGTCTTACTTATTTCGAGTATA
* *
38877666 GTGCCATAGTGTCTTTCAACTATGGTCTTATTTATTTCCGA-TATA
1 ATGCCATAGTGTCTTTCAACTATGGTCTTACTTATTT-CGAGTATA
*
38877711 ATGCTATAGAT-TCTTTCAACTATGGTCTTA
1 ATGCCATAG-TGTCTTTCAACTATGGTCTTA
38877741 ATCATTTTCT
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
45 61 0.95
46 3 0.05
ACGTcount: A:0.23, C:0.18, G:0.15, T:0.43
Consensus pattern (45 bp):
ATGCCATAGTGTCTTTCAACTATGGTCTTACTTATTTCGAGTATA
Found at i:38880035 original size:34 final size:35
Alignment explanation
Indices: 38879982--38880048 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
38879972 CAAACACCAA
*
38879982 AAAATATTTTTCAGTAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
*
38880017 AAAATATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAA
38880049 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.34
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:38881569 original size:29 final size:30
Alignment explanation
Indices: 38881511--38881580 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
38881501 ATAGAATAGC
*
38881511 CAAACCTTTATGAAAATGCTCAAATGAAGAT
1 CAAACCTTT-TGAAAATGCTCAAATAAAGAT
* *
38881542 CAAACCTTTT-AAAGTGGTCAAATAAAGAT
1 CAAACCTTTTGAAAATGCTCAAATAAAGAT
* *
38881571 AAAATCTTTT
1 CAAACCTTTT
38881581 TTAATGTACT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 24 0.71
30 1 0.03
31 9 0.26
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.30
Consensus pattern (30 bp):
CAAACCTTTTGAAAATGCTCAAATAAAGAT
Found at i:38887512 original size:74 final size:74
Alignment explanation
Indices: 38887367--38887514 Score: 224
Period size: 74 Copynumber: 2.0 Consensus size: 74
38887357 CCATATAAGC
* * * *
38887367 ACTAATTAAATAGAAGTTTGAACCCCTTTAGACTTAATAAATATTTTGTAATTTTTCATACCTAA
1 ACTAATCAAATAGAAGTTTAAACCCCTTTAGACTAAATAAATATTTTCTAATTTTTCATACCTAA
38887432 GTTAAAAAG
66 GTTAAAAAG
* *
38887441 ACTAATCAAATAGAAGTTTAAACCCCTTTAGACTAAATAACTATTTTTCTAGTTTTTCATACCTA
1 ACTAATCAAATAGAAGTTTAAACCCCTTTAGACTAAATAAATA-TTTTCTAATTTTTCATACCTA
*
38887506 AGTAAAAAA
65 AGTTAAAAA
38887515 AGGGTATCTT
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
74 39 0.59
75 27 0.41
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.36
Consensus pattern (74 bp):
ACTAATCAAATAGAAGTTTAAACCCCTTTAGACTAAATAAATATTTTCTAATTTTTCATACCTAA
GTTAAAAAG
Found at i:38889985 original size:6 final size:6
Alignment explanation
Indices: 38889971--38890004 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
38889961 AGGATTGCAA
*
38889971 ATTTCC ATTTTC ATTTCC ATTTCC ATTTCC ATTT
1 ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC ATTT
38890005 TCAGAAACCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.18, C:0.26, G:0.00, T:0.56
Consensus pattern (6 bp):
ATTTCC
Found at i:38889988 original size:12 final size:12
Alignment explanation
Indices: 38889971--38890007 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
38889961 AGGATTGCAA
38889971 ATTTCCATTTTC
1 ATTTCCATTTTC
*
38889983 ATTTCCATTTCC
1 ATTTCCATTTTC
38889995 ATTTCCATTTTC
1 ATTTCCATTTTC
38890007 A
1 A
38890008 GAAACCTACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.19, C:0.27, G:0.00, T:0.54
Consensus pattern (12 bp):
ATTTCCATTTTC
Found at i:38898896 original size:43 final size:43
Alignment explanation
Indices: 38898835--38898920 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
38898825 TATGTGATTG
* *
38898835 ATATTGGAATGACAAAGATAAGAAATGAATATGAGATGAGAAA
1 ATATTGAAATGACAAAGATAAGAAACGAATATGAGATGAGAAA
* *
38898878 ATATTGAAATGGCAAAGATGAGAAACGAATATGAGATGAGAAA
1 ATATTGAAATGACAAAGATAAGAAACGAATATGAGATGAGAAA
38898921 TGAAATATGA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.52, C:0.03, G:0.24, T:0.20
Consensus pattern (43 bp):
ATATTGAAATGACAAAGATAAGAAACGAATATGAGATGAGAAA
Found at i:38898929 original size:19 final size:19
Alignment explanation
Indices: 38898893--38898943 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
38898883 GAAATGGCAA
*
38898893 AGATGAGAAACG-AATATG
1 AGATGAGAAATGAAATATG
38898911 AGATGAGAAATGAAATATG
1 AGATGAGAAATGAAATATG
*
38898930 AAATGATGAAATGA
1 AGATGA-GAAATGA
38898944 GATGTGAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 11 0.38
19 11 0.38
20 7 0.24
ACGTcount: A:0.53, C:0.02, G:0.25, T:0.20
Consensus pattern (19 bp):
AGATGAGAAATGAAATATG
Found at i:38898938 original size:27 final size:27
Alignment explanation
Indices: 38898908--38898962 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
38898898 AGAAACGAAT
*
38898908 ATGAGATGAGAAATGAAA-TATGAAATG
1 ATGAAATGAGAAATGAAACT-TGAAATG
**
38898935 ATGAAATGAGATGTGAAACTTGAAATG
1 ATGAAATGAGAAATGAAACTTGAAATG
38898962 A
1 A
38898963 ATTCAAGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.49, C:0.02, G:0.25, T:0.24
Consensus pattern (27 bp):
ATGAAATGAGAAATGAAACTTGAAATG
Found at i:38898952 original size:20 final size:19
Alignment explanation
Indices: 38898895--38898943 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
38898885 AATGGCAAAG
* *
38898895 ATGAGAAACG-AATATGAG
1 ATGAGAAATGAAATATGAA
38898913 ATGAGAAATGAAATATGAA
1 ATGAGAAATGAAATATGAA
38898932 ATGATGAAATGA
1 ATGA-GAAATGA
38898944 GATGTGAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 9 0.33
19 11 0.41
20 7 0.26
ACGTcount: A:0.53, C:0.02, G:0.24, T:0.20
Consensus pattern (19 bp):
ATGAGAAATGAAATATGAA
Found at i:38899841 original size:54 final size:54
Alignment explanation
Indices: 38899754--38899893 Score: 172
Period size: 54 Copynumber: 2.6 Consensus size: 54
38899744 CGTGTGTCAC
* * * *
38899754 ACACGGGCAACACACGCGGGCGTGTGACCCAAGTCAGTGAGTTACAAGAGCTGAG
1 ACACGGGCAA-AGACACGGCCGTGTGTCCCAAGTCAGTGAGTTACAAGAGCTGAG
*** * * *
38899809 ACACGGGCTGGGACACGGCCGTGTGTCTCAAGTCAGTGAGTTACACGGGCTGAG
1 ACACGGGCAAAGACACGGCCGTGTGTCCCAAGTCAGTGAGTTACAAGAGCTGAG
*
38899863 ACATGGGCAAAGACACGGCCGTGTGTCCCAA
1 ACACGGGCAAAGACACGGCCGTGTGTCCCAA
38899894 CTCCGAGAGT
Statistics
Matches: 70, Mismatches: 15, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
54 62 0.89
55 8 0.11
ACGTcount: A:0.26, C:0.26, G:0.34, T:0.15
Consensus pattern (54 bp):
ACACGGGCAAAGACACGGCCGTGTGTCCCAAGTCAGTGAGTTACAAGAGCTGAG
Found at i:38908266 original size:11 final size:11
Alignment explanation
Indices: 38908250--38908279 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
38908240 AAAAAAAAAG
38908250 TATCGATTTAA
1 TATCGATTTAA
38908261 TATCGATTTAA
1 TATCGATTTAA
38908272 TATCGATT
1 TATCGATT
38908280 CAAACTATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (11 bp):
TATCGATTTAA
Found at i:38914824 original size:28 final size:28
Alignment explanation
Indices: 38914794--38914918 Score: 187
Period size: 28 Copynumber: 4.5 Consensus size: 28
38914784 CAGTACAGTG
* ** *
38914794 TGGGCCTTAGCCCAATACAGCAATGATG
1 TGGGCCTTAGCCCAATACAGTAACAATA
*
38914822 TGGGCCTTATCCCAATACAGTAACAATA
1 TGGGCCTTAGCCCAATACAGTAACAATA
*
38914850 TGGGCCTTAGCCCAAAACAGTAACAATA
1 TGGGCCTTAGCCCAATACAGTAACAATA
38914878 TGGGCCTTAGCCCAATACAGTAACAATA
1 TGGGCCTTAGCCCAATACAGTAACAATA
*
38914906 TAGGCCTTAGCCC
1 TGGGCCTTAGCCC
38914919 TAAACAATAT
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 88 1.00
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (28 bp):
TGGGCCTTAGCCCAATACAGTAACAATA
Found at i:38915064 original size:26 final size:26
Alignment explanation
Indices: 38915035--38915114 Score: 108
Period size: 26 Copynumber: 3.1 Consensus size: 26
38915025 AACACACCAA
*
38915035 TATCGCAGCAAAGCTACCAATAATAG
1 TATCGCAGCAAAGCTACCAATAACAG
* *
38915061 TATCACAGCAAAGCTGCCAATAACA-
1 TATCGCAGCAAAGCTACCAATAACAG
* *
38915086 TATTGCAGCAAAGCTACCAGTAACAG
1 TATCGCAGCAAAGCTACCAATAACAG
38915112 TAT
1 TAT
38915115 ACTTCCTCCA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
25 21 0.46
26 25 0.54
ACGTcount: A:0.41, C:0.24, G:0.15, T:0.20
Consensus pattern (26 bp):
TATCGCAGCAAAGCTACCAATAACAG
Found at i:38915100 original size:25 final size:25
Alignment explanation
Indices: 38915034--38915110 Score: 100
Period size: 25 Copynumber: 3.0 Consensus size: 25
38915024 CAACACACCA
*
38915034 ATATCGCAGCAAAGCTACCAATAAT
1 ATATCGCAGCAAAGCTACCAATAAC
* *
38915059 AGTATCACAGCAAAGCTGCCAATAAC
1 A-TATCGCAGCAAAGCTACCAATAAC
* *
38915085 ATATTGCAGCAAAGCTACCAGTAAC
1 ATATCGCAGCAAAGCTACCAATAAC
38915110 A
1 A
38915111 GTATACTTCC
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
25 22 0.50
26 22 0.50
ACGTcount: A:0.43, C:0.25, G:0.14, T:0.18
Consensus pattern (25 bp):
ATATCGCAGCAAAGCTACCAATAAC
Found at i:38915291 original size:27 final size:27
Alignment explanation
Indices: 38915261--38915669 Score: 298
Period size: 27 Copynumber: 15.3 Consensus size: 27
38915251 GGTTATAATA
38915261 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
38915288 GTCATTTTACCCTATGGGGGTAATTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
38915315 GTCATTTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * * *
38915342 ATCATTTCACGCT-TCGAGGGTATTTCA
1 GTCATTTTACCCTAT-GGGGGTATTTCG
* ** *
38915369 GTCA-TTT-CACT-TTAGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
38915393 GTCATTTTACCTTATGGGGGTAATTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
38915420 GTGATTTTACCTTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
38915447 ATCATTTCT-CCCTTTAGGGGTATTTCA
1 GTCATTT-TACCCTATGGGGGTATTTCG
* * * * *
38915474 ATTATTTCACCCTTTGGGGGGTATTTCA
1 GTCATTTTACCCTAT-GGGGGTATTTCG
* * * *
38915502 ATCATTTTTCCC-ATCGAGGGTATTTTG
1 GTCATTTTACCCTAT-GGGGGTATTTCG
* * *
38915529 GTCATTTTACCCT-TCGAGGGAATTTTG
1 GTCATTTTACCCTAT-GGGGGTATTTCG
* * *
38915556 GTCATTTTACCTTGTAGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*** *
38915583 GTCATTTTACCCTGCAGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* ** *
38915610 GTCATTTTATCCT-TCAGAGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
38915636 GTCATTTT-CCCT-TCGGGGGCATTTCA
1 GTCATTTTACCCTAT-GGGGGTATTTCG
38915662 GTCATTTT
1 GTCATTTT
38915670 CCCACAAATC
Statistics
Matches: 313, Mismatches: 59, Indels: 21
0.80 0.15 0.05
Matches are distributed among these distances:
24 15 0.05
25 11 0.04
26 36 0.12
27 229 0.73
28 22 0.07
ACGTcount: A:0.18, C:0.19, G:0.22, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:38918137 original size:14 final size:14
Alignment explanation
Indices: 38918118--38918144 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
38918108 ATTTGGTATG
38918118 AAATGAAATTTTAA
1 AAATGAAATTTTAA
38918132 AAATGAAATTTTA
1 AAATGAAATTTTA
38918145 CCATTTTGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (14 bp):
AAATGAAATTTTAA
Found at i:38919414 original size:11 final size:11
Alignment explanation
Indices: 38919371--38919505 Score: 52
Period size: 11 Copynumber: 12.0 Consensus size: 11
38919361 AATATTAAAT
38919371 TTAATTTAATA
1 TTAATTTAATA
*
38919382 CTTATTTTAATA
1 -TTAATTTAATA
*
38919394 GT-ATTT--TA
1 TTAATTTAATA
38919402 TTAATTTAATA
1 TTAATTTAATA
*
38919413 TTAAAGTCATT-ATC
1 TT-AA-T--TTAATA
38919427 TTAATATTAA-A
1 TTAAT-TTAATA
38919438 TTAAATTTAATA
1 TT-AATTTAATA
* *
38919450 TTTATCTTATAGA
1 TTAAT-TTA-ATA
* *
38919463 TAAATATT-CTA
1 TTAAT-TTAATA
38919474 TTAATTTAATA
1 TTAATTTAATA
38919485 --AGATTTAATA
1 TTA-ATTTAATA
38919495 TTAATTTAATA
1 TTAATTTAATA
38919506 AAATAATAAC
Statistics
Matches: 92, Mismatches: 15, Indels: 33
0.66 0.11 0.24
Matches are distributed among these distances:
8 3 0.03
9 5 0.05
10 13 0.14
11 31 0.34
12 24 0.26
13 10 0.11
14 4 0.04
15 2 0.02
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.51
Consensus pattern (11 bp):
TTAATTTAATA
Found at i:38921055 original size:43 final size:43
Alignment explanation
Indices: 38920980--38921123 Score: 182
Period size: 43 Copynumber: 3.3 Consensus size: 43
38920970 TGTCCCATAC
* *
38920980 ATGGTCTTACATGGAAATCTCATATCGATGCCAATATCCCAGCT
1 ATGGTCTTACA-CGAAGTCTCATATCGATGCCAATATCCCAGCT
**
38921024 ATGGTCTTACACGAAGTCTCATATCGATGCCAATAGGCCAGCT
1 ATGGTCTTACACGAAGTCTCATATCGATGCCAATATCCCAGCT
* * * *
38921067 ATGGTCTTACACGAAGTTTCATATCAATGAC-ATATCCCAGAT
1 ATGGTCTTACACGAAGTCTCATATCGATGCCAATATCCCAGCT
* *
38921109 ATTGTCTTATACGAA
1 ATGGTCTTACACGAA
38921124 ATCTTAAATC
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 21 0.24
43 56 0.64
44 11 0.12
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.30
Consensus pattern (43 bp):
ATGGTCTTACACGAAGTCTCATATCGATGCCAATATCCCAGCT
Found at i:38921168 original size:48 final size:48
Alignment explanation
Indices: 38921093--38921280 Score: 162
Period size: 48 Copynumber: 3.9 Consensus size: 48
38921083 TTTCATATCA
* *
38921093 ATGACATATCCCAGATATTGTCTTATAC-GAAATCTTAAATCAATGCTG
1 ATGACATATCCCAGATATGGTCTTATACAG-AATCTCAAATCAATGCTG
* * * * ** *
38921141 ATGCCATATCCTATATATGGTCTTATACAGGATCTCAAATGGATGTTG
1 ATGACATATCCCAGATATGGTCTTATACAGAATCTCAAATCAATGCTG
** * * * *
38921189 ATGACATATCCCAGATATGGTCTTATATGGGATCTCAAAACGATGCCG
1 ATGACATATCCCAGATATGGTCTTATACAGAATCTCAAATCAATGCTG
* ** * ** *
38921237 ATGCCATATTTCAGATATAGTCTTATATGGGATCTCAAATCAAT
1 ATGACATATCCCAGATATGGTCTTATACAGAATCTCAAATCAAT
38921281 TCGGCAATAT
Statistics
Matches: 115, Mismatches: 24, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
48 114 0.99
49 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.33
Consensus pattern (48 bp):
ATGACATATCCCAGATATGGTCTTATACAGAATCTCAAATCAATGCTG
Found at i:38921240 original size:96 final size:96
Alignment explanation
Indices: 38921093--38921276 Score: 235
Period size: 96 Copynumber: 1.9 Consensus size: 96
38921083 TTTCATATCA
* * * * *
38921093 ATGACATATCCCAGATATTGTCTTATACGAAATCTTAAATCAATGCTGATGCCATATC-CTATAT
1 ATGACATATCCCAGATATGGTCTTATACGAAATCTCAAAACAATGCCGATGCCATATCTC-AGAT
*
38921157 ATGGTCTTATACAGGATCTCAAATGGATGTTG
65 ATAGTCTTATACAGGATCTCAAATGGATGTTG
* ** * *
38921189 ATGACATATCCCAGATATGGTCTTATATGGGATCTCAAAACGATGCCGATGCCATATTTCAGATA
1 ATGACATATCCCAGATATGGTCTTATACGAAATCTCAAAACAATGCCGATGCCATATCTCAGATA
**
38921254 TAGTCTTATATGGGATCTCAAAT
66 TAGTCTTATACAGGATCTCAAAT
38921277 CAATTCGGCA
Statistics
Matches: 74, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
96 73 0.99
97 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (96 bp):
ATGACATATCCCAGATATGGTCTTATACGAAATCTCAAAACAATGCCGATGCCATATCTCAGATA
TAGTCTTATACAGGATCTCAAATGGATGTTG
Found at i:38921306 original size:30 final size:30
Alignment explanation
Indices: 38921272--38921366 Score: 109
Period size: 30 Copynumber: 3.1 Consensus size: 30
38921262 TATGGGATCT
38921272 CAAATCAATTCGGCAATATATATACATATA
1 CAAATCAATTCGGCAATATATATACATATA
** * *
38921302 CAAATCAATTCGAAAATGTATATATCTACATA
1 CAAATCAATTCGGCAATATATATA-C-ATATA
* *
38921334 TAAATCAATTCAGCAATATATAATACATATA
1 CAAATCAATTCGGCAATATAT-ATACATATA
38921365 CA
1 CA
38921367 TTTGAATTCA
Statistics
Matches: 51, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
30 21 0.41
31 6 0.12
32 21 0.41
33 3 0.06
ACGTcount: A:0.48, C:0.16, G:0.05, T:0.31
Consensus pattern (30 bp):
CAAATCAATTCGGCAATATATATACATATA
Found at i:38930783 original size:9 final size:10
Alignment explanation
Indices: 38930763--38930791 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
38930753 ATTGCGTGTT
38930763 TGAATAGAAA
1 TGAATAGAAA
38930773 TGAAT-GAAA
1 TGAATAGAAA
38930782 TGAATAGAAA
1 TGAATAGAAA
38930792 ATGAGAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.59, C:0.00, G:0.21, T:0.21
Consensus pattern (10 bp):
TGAATAGAAA
Found at i:38931083 original size:25 final size:25
Alignment explanation
Indices: 38931039--38931087 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
38931029 ATGAATTTTC
**
38931039 TCAAAATTTTATCGTGGTAAAATCG
1 TCAAAATTTTATCGCAGTAAAATCG
*
38931064 TCAAAATTTTATTGCAGTAAAATC
1 TCAAAATTTTATCGCAGTAAAATC
38931088 AGGATGAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (25 bp):
TCAAAATTTTATCGCAGTAAAATCG
Found at i:38931537 original size:24 final size:24
Alignment explanation
Indices: 38931510--38931558 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
38931500 TGTTTCTATT
38931510 AAAGAAGAGAGAACTTTCATTTTC
1 AAAGAAGAGAGAACTTTCATTTTC
*
38931534 AAAGAAGAGAGAATTTTCATTTTC
1 AAAGAAGAGAGAACTTTCATTTTC
38931558 A
1 A
38931559 CCCCAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.31
Consensus pattern (24 bp):
AAAGAAGAGAGAACTTTCATTTTC
Found at i:38936086 original size:25 final size:25
Alignment explanation
Indices: 38936035--38936124 Score: 94
Period size: 25 Copynumber: 3.6 Consensus size: 25
38936025 GTACATGTAT
* *
38936035 GCTCATACGAGCTGTA-AATGGTAA
1 GCTCATACGAGCTGAATAACGGTAA
*
38936059 GCTCCT-CTGAGCTGAATAACGGTAA
1 GCTCATAC-GAGCTGAATAACGGTAA
* *
38936084 GCTCATACGAGCTGAGTATCGGTAA
1 GCTCATACGAGCTGAATAACGGTAA
* *
38936109 GCACATAAGAGCTGAA
1 GCTCATACGAGCTGAA
38936125 ATCGATAACC
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
23 1 0.02
24 12 0.22
25 40 0.74
26 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (25 bp):
GCTCATACGAGCTGAATAACGGTAA
Found at i:38948291 original size:70 final size:70
Alignment explanation
Indices: 38948209--38948351 Score: 277
Period size: 70 Copynumber: 2.0 Consensus size: 70
38948199 ATACAATATC
38948209 TAAAAATTATTTATATCATAATTTAATTCTTATTAACATAATATTTTATATTTTAAATAAAAGCT
1 TAAAAATTATTTATATCATAATTTAATTCTTATTAACATAATATTTTATATTTTAAATAAAAGCT
38948274 AAATA
66 AAATA
*
38948279 TAAAAATTATTTATATCATAATTTAATTCTTATTAACATAATATTTTATATTTTAAATAAAAGTT
1 TAAAAATTATTTATATCATAATTTAATTCTTATTAACATAATATTTTATATTTTAAATAAAAGCT
38948344 AAATA
66 AAATA
38948349 TAA
1 TAA
38948352 GTCTTGATAC
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 72 1.00
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.46
Consensus pattern (70 bp):
TAAAAATTATTTATATCATAATTTAATTCTTATTAACATAATATTTTATATTTTAAATAAAAGCT
AAATA
Found at i:38948327 original size:35 final size:35
Alignment explanation
Indices: 38948218--38948329 Score: 113
Period size: 35 Copynumber: 3.2 Consensus size: 35
38948208 CTAAAAATTA
38948218 TTTATATCATAATTTAATTCTTATTAACATAATAT
1 TTTATATCATAATTTAATTCTTATTAACATAATAT
** * * ** *
38948253 TTTATATTTTAAATAAAAGCTAAATATAA-A-AAT-T
1 TTTATATCATAATTTAATTCT-TAT-TAACATAATAT
38948287 ATTTATATCATAATTTAATTCTTATTAACATAATAT
1 -TTTATATCATAATTTAATTCTTATTAACATAATAT
38948323 TTTATAT
1 TTTATAT
38948330 TTTAAATAAA
Statistics
Matches: 57, Mismatches: 14, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
33 3 0.05
34 4 0.07
35 43 0.75
36 4 0.07
37 3 0.05
ACGTcount: A:0.44, C:0.06, G:0.01, T:0.49
Consensus pattern (35 bp):
TTTATATCATAATTTAATTCTTATTAACATAATAT
Found at i:38951022 original size:21 final size:19
Alignment explanation
Indices: 38950966--38951026 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 19
38950956 TAATTATTTA
38950966 TTAAATT-TAATTAGAATAT
1 TTAAATTATAATTA-AATAT
* *
38950985 ATAAATTATATTTAAATAT
1 TTAAATTATAATTAAATAT
38951004 TTAAATATAGTAATTAAATAT
1 TTAAAT-TA-TAATTAAATAT
38951025 TT
1 TT
38951027 GTAATTAGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 16 0.46
20 7 0.20
21 12 0.34
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (19 bp):
TTAAATTATAATTAAATAT
Found at i:38951035 original size:21 final size:20
Alignment explanation
Indices: 38950973--38951026 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
38950963 TTATTAAATT
*
38950973 TAATTAGAATATATAAATTA-
1 TAATTA-AATATTTAAATTAG
*
38950993 TATTTAAATATTTAAATATAG
1 TAATTAAATATTTAAAT-TAG
38951014 TAATTAAATATTT
1 TAATTAAATATTT
38951027 GTAATTAGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 10 0.34
20 7 0.24
21 12 0.41
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (20 bp):
TAATTAAATATTTAAATTAG
Found at i:38953876 original size:24 final size:24
Alignment explanation
Indices: 38953841--38953909 Score: 79
Period size: 24 Copynumber: 2.9 Consensus size: 24
38953831 GACAAATAAA
*
38953841 AATAAAAATACAGT-ATAACTTTTA-
1 AATAATAATACA-TAATAA-TTTTAG
*
38953865 AGTAATAATACATAATAATTTTAG
1 AATAATAATACATAATAATTTTAG
*
38953889 AATAATAATACACAATAATTT
1 AATAATAATACATAATAATTT
38953910 CAAAAATATG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.15
24 33 0.85
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (24 bp):
AATAATAATACATAATAATTTTAG
Found at i:38956392 original size:30 final size:29
Alignment explanation
Indices: 38956334--38956390 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
38956324 CTCCAATTTC
38956334 ACCAGCAGAGGGAAAAGAACGTTTGGGGA
1 ACCAGCAGAGGGAAAAGAACGTTTGGGGA
38956363 ACCAGCAGAGGGGAAAA-AACGTTTGGGG
1 ACCAGCAGA-GGGAAAAGAACGTTTGGGG
38956391 GAGAAGACAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 20 0.74
30 7 0.26
ACGTcount: A:0.37, C:0.14, G:0.39, T:0.11
Consensus pattern (29 bp):
ACCAGCAGAGGGAAAAGAACGTTTGGGGA
Found at i:38956948 original size:40 final size:39
Alignment explanation
Indices: 38956903--38956991 Score: 124
Period size: 39 Copynumber: 2.3 Consensus size: 39
38956893 GACTTTAGTA
*
38956903 AATTGGGTTGTCTTTTACTTTTAGTTTTATTGGATTGGGT
1 AATTGGGTTGAC-TTTACTTTTAGTTTTATTGGATTGGGT
** * *
38956943 AATTGGGTAAACTTTAGTTTTAGTTTTATTGGGTTGGGT
1 AATTGGGTTGACTTTACTTTTAGTTTTATTGGATTGGGT
38956982 AATTGGGTTG
1 AATTGGGTTG
38956992 GGTAATTGAG
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
39 33 0.79
40 9 0.21
ACGTcount: A:0.18, C:0.03, G:0.28, T:0.51
Consensus pattern (39 bp):
AATTGGGTTGACTTTACTTTTAGTTTTATTGGATTGGGT
Found at i:38956988 original size:13 final size:13
Alignment explanation
Indices: 38956970--38956999 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
38956960 TTTTAGTTTT
38956970 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
38956983 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
38956996 ATTG
1 ATTG
38957000 AGTTTGGGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.43, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:38960413 original size:80 final size:79
Alignment explanation
Indices: 38960329--38960500 Score: 202
Period size: 79 Copynumber: 2.2 Consensus size: 79
38960319 GGACTAAGAT
*
38960329 CCGAAGGCATTTGTGAGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGAGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
38960393 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * * *
38960409 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGAGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
38960474 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
*
38960488 CCGAAAGCATTTG
1 CCGAAGGCATTTG
38960501 AACGAGGAGC
Statistics
Matches: 77, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
79 37 0.48
80 37 0.48
81 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGAGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:38960480 original size:39 final size:39
Alignment explanation
Indices: 38960276--38960498 Score: 191
Period size: 40 Copynumber: 5.6 Consensus size: 39
38960266 TTGAATGCTG
* * * * *
38960276 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
** *
38960316 TCCGGACTAAGAT-CCGAAGGCATTTGTGAGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
38960355 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
38960396 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
38960436 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * * *
38960475 ACCGGGCTATGTCCCGAAAGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
38960499 TGAACGAGGA
Statistics
Matches: 154, Mismatches: 21, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
39 39 0.25
40 102 0.66
41 12 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:38967322 original size:40 final size:39
Alignment explanation
Indices: 38967285--38967467 Score: 183
Period size: 39 Copynumber: 4.6 Consensus size: 39
38967275 ATATCCGGAC
38967285 TAAGATCCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAA-TCCGGGT
* *
38967325 TAAGCCCCGAAGGCCTTTG-GCGAGATACTAAATCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * *
38967364 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * * * *
38967404 TATGTCCCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGC
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* *
38967443 TATGTCCCGAAGGCATTTGAGCGAG
1 TAAGT-CCGAAGGCATTTGTGCGAG
38967468 GACCTATATC
Statistics
Matches: 123, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
39 65 0.53
40 58 0.47
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
Found at i:38967361 original size:39 final size:40
Alignment explanation
Indices: 38967238--38967494 Score: 224
Period size: 40 Copynumber: 6.5 Consensus size: 40
38967228 TTGAATGCTG
* * * *
38967238 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAA
**
38967278 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
* *
38967317 TTCCGGGTTAAGCCCCGAAGGCCTTTG-GCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * *
38967357 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * *
38967397 TCCGGGTTATGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * * * * *
38967436 ACCGGGCTATGTCCCGAAGGCATTTGAGCGAGGA-CCTATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-GATACTAAA
*
38967476 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
38967495 TACGTGATTT
Statistics
Matches: 180, Mismatches: 28, Indels: 19
0.79 0.12 0.08
Matches are distributed among these distances:
39 81 0.45
40 87 0.48
41 11 0.06
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:38967378 original size:79 final size:79
Alignment explanation
Indices: 38967291--38967467 Score: 214
Period size: 79 Copynumber: 2.2 Consensus size: 79
38967281 GGACTAAGAT
*
38967291 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTT-TGGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGGCATTGT-GCGAGATACT
* *
38967354 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
38967370 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
38967435 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
*
38967449 CCGAAGGCATTTGAGCGAG
1 CCGAAGGCATTTGTGCGAG
38967468 GACCTATATC
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
79 79 0.95
80 4 0.05
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.24
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:38967479 original size:79 final size:80
Alignment explanation
Indices: 38967291--38967494 Score: 211
Period size: 79 Copynumber: 2.6 Consensus size: 80
38967281 GGACTAAGAT
* * *
38967291 CCGAAGGCATTTGTGCGAGATACAAAT-TCCGGGTTAAGCCCCGAAGGCCTTTGGCGAGATACTA
1 CCGAAGGCATTTGTGCGAGATACATATATCCGGGTTAAGTCCCGAAGGCATTTGGCGAGATACTA
* *
38967355 AATCCGGGTTAAGTC
66 AAACCGGGCTAAGTC
* * * * * * *
38967370 CCGAAGGCATTCGTGCGAGTTA-TTAAATCCGGGTTATGTCCCGAAGGCA-TTGTGTGAGTTACT
1 CCGAAGGCATTTGTGCGAGATACATATATCCGGGTTAAGTCCCGAAGGCATTTG-GCGAGATACT
*
38967433 AAAACCGGGCTATGTC
65 AAAACCGGGCTAAGTC
* * * *
38967449 CCGAAGGCATTTGAGCGAG-GACCTATATCC-GGTTAAATCCCGAAGG
1 CCGAAGGCATTTGTGCGAGATACATATATCCGGGTTAAGTCCCGAAGG
38967495 TACGTGATTT
Statistics
Matches: 102, Mismatches: 20, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
78 19 0.19
79 83 0.81
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
CCGAAGGCATTTGTGCGAGATACATATATCCGGGTTAAGTCCCGAAGGCATTTGGCGAGATACTA
AAACCGGGCTAAGTC
Found at i:38971699 original size:23 final size:23
Alignment explanation
Indices: 38971643--38971695 Score: 63
Period size: 25 Copynumber: 2.3 Consensus size: 23
38971633 AATAAAAACA
38971643 AAAACATATGTATAAAATATATAT
1 AAAACATATGTAT-AAATATATAT
* *
38971667 ATAAGCATATGTAT-ACTATATAT
1 A-AAACATATGTATAAATATATAT
38971690 AAAACA
1 AAAACA
38971696 ATATATATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
22 4 0.16
23 9 0.36
24 1 0.04
25 11 0.44
ACGTcount: A:0.55, C:0.08, G:0.06, T:0.32
Consensus pattern (23 bp):
AAAACATATGTATAAATATATAT
Found at i:38971702 original size:21 final size:23
Alignment explanation
Indices: 38971660--38971703 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
38971650 ATGTATAAAA
* *
38971660 TATATATATAAGCATATGTATAC
1 TATATATATAAACATATATATAC
38971683 TATATATA-AAACAATATATAT
1 TATATATATAAAC-ATATATAT
38971704 TACATAAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 3 0.17
23 15 0.83
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.39
Consensus pattern (23 bp):
TATATATATAAACATATATATAC
Found at i:38971754 original size:16 final size:17
Alignment explanation
Indices: 38971728--38971759 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
38971718 CATGCGCATG
38971728 AATATAAAAATAATAAA
1 AATATAAAAATAATAAA
38971745 AATA-AAAAATAATAA
1 AATATAAAAATAATAA
38971760 TAATGATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (17 bp):
AATATAAAAATAATAAA
Found at i:38972272 original size:19 final size:19
Alignment explanation
Indices: 38972217--38972293 Score: 82
Period size: 19 Copynumber: 3.8 Consensus size: 19
38972207 AAATTAAATC
*
38972217 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
* *
38972237 TCTTCTAATATTGCATATCATA
1 ---TCTAAGATTACATATCATA
38972259 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
*
38972278 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
38972294 CTTGAAGATT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
19 32 0.67
22 7 0.15
23 9 0.19
ACGTcount: A:0.39, C:0.17, G:0.06, T:0.38
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:38972290 original size:38 final size:40
Alignment explanation
Indices: 38972217--38972293 Score: 104
Period size: 38 Copynumber: 1.9 Consensus size: 40
38972207 AAATTAAATC
*
38972217 TCTAAGATTACAAAATCATATCTTCTAATATTGCATATCATA
1 TCTAAGATTACAAAATCATA--TTCTAAGATTGCATATCATA
*
38972259 TCTAAGATTAC-ATATCATA-TCTAAGATTGCATATC
1 TCTAAGATTACAAAATCATATTCTAAGATTGCATATC
38972294 CTTGAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
38 15 0.45
41 7 0.21
42 11 0.33
ACGTcount: A:0.39, C:0.17, G:0.06, T:0.38
Consensus pattern (40 bp):
TCTAAGATTACAAAATCATATTCTAAGATTGCATATCATA
Found at i:38972894 original size:45 final size:44
Alignment explanation
Indices: 38972835--38972960 Score: 153
Period size: 45 Copynumber: 2.8 Consensus size: 44
38972825 ATTTGTTTAT
* * * *
38972835 TTAGTCTTCCCCACTGCAATTTCAGGGGGATAAGACTTGATTTC
1 TTAGTCTGCTCCACTGCAACTTCAGGGGGATAAGACTTGATTAC
* * *
38972879 TTGAGTCTGCTCCACTGCAACTTCAGGAGGATAAGGCTTGCTTAC
1 TT-AGTCTGCTCCACTGCAACTTCAGGGGGATAAGACTTGATTAC
** *
38972924 TTAGTCTGCTCCACTATAACTTCAGGGAGATAAGACT
1 TTAGTCTGCTCCACTGCAACTTCAGGGGGATAAGACT
38972961 AGATGCGATC
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
44 32 0.46
45 37 0.54
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (44 bp):
TTAGTCTGCTCCACTGCAACTTCAGGGGGATAAGACTTGATTAC
Found at i:38972945 original size:44 final size:44
Alignment explanation
Indices: 38972845--38972960 Score: 135
Period size: 44 Copynumber: 2.6 Consensus size: 44
38972835 TTAGTCTTCC
* * *
38972845 CCACTGCAATTTCAGGGGGATAAGACTTGATTTCTTGAGTCTGCT
1 CCACTACAACTTCA-GGGGATAAGACTTGATTACTTGAGTCTGCT
* * *
38972890 CCACTGCAACTTCAGGAGGATAAGGCTTGCTTACTT-AGTCTGCT
1 CCACTACAACTTCAGG-GGATAAGACTTGATTACTTGAGTCTGCT
*
38972934 CCACTATAACTTCAGGGAGATAAGACT
1 CCACTACAACTTCAGGG-GATAAGACT
38972961 AGATGCGATC
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
43 1 0.02
44 32 0.52
45 29 0.47
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (44 bp):
CCACTACAACTTCAGGGGATAAGACTTGATTACTTGAGTCTGCT
Found at i:38973308 original size:44 final size:44
Alignment explanation
Indices: 38973258--38973353 Score: 104
Period size: 44 Copynumber: 2.2 Consensus size: 44
38973248 CACTGTTGCT
* * * * *
38973258 CAGGGAGACAAGG-TTTACAATCTTTAATCTATTCCATTGCTGAC
1 CAGGGAGA-AAGGATTCACAATCTTCAACCTATTCCACTACTGAC
* * *
38973302 CAGGGAGATAGGATTCACAATCTTCAGCCTATTCCACTACTGTC
1 CAGGGAGAAAGGATTCACAATCTTCAACCTATTCCACTACTGAC
38973346 CAGGGAGA
1 CAGGGAGA
38973354 TAGGGCTGGG
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
43 3 0.07
44 40 0.93
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (44 bp):
CAGGGAGAAAGGATTCACAATCTTCAACCTATTCCACTACTGAC
Found at i:38973564 original size:88 final size:88
Alignment explanation
Indices: 38973357--38974640 Score: 1477
Period size: 88 Copynumber: 14.6 Consensus size: 88
38973347 AGGGAGATAG
* * * * * *
38973357 GGCTGGGGTCATCGATCTGCGTCGTTGTCAGTGCAGGAACGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
38973422 T-CACTGCAACCCAGGGAGGCAA
66 TCCGCTGCAACCTAGGGAGGCAA
* *
38973444 GGCTGGTGTCTTTGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAATCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
38973509 TCCGCTGTAACCTAAGGAGGCAA
66 TCCGCTGCAACCTAGGGAGGCAA
* * * *
38973532 GGCTGGTGCCTTCGATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGTTATTTTTGACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
38973597 GCCGCTGCAACCCAGGGAGGCAA
66 TCCGCTGCAACCTAGGGAGGCAA
* *
38973620 GGCTAGTGTCTTTGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
38973685 TCCGCTGCAACCTAGGGAGGCAA
66 TCCGCTGCAACCTAGGGAGGCAA
* * * * * *
38973708 CGCTAGTGTCTTCAATCTACTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGA
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* **** * *
38973773 TTCGCTG-TTGGTGCAGGAAAGCAA
66 TCCGCTGCAACCT--AGGGAGGCAA
* * * * ** * * * **** * * * * ** *
38973797 GATCTGCTATTTTTAACCTGCTCCGTTG-CAACCCA-GAGAGGCAAG-GCTGGTGTCTTCGATCT
1 G-GCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA-AGGCAAGATCTGCTATTTTTAACCT
* ** *** *
38973859 GTTTTGCTGTCGGTGC-AGGAAGGCAA
64 GCTCCGCTG-C-AACCTAGGGAGGCAA
* * * * ** *
38973885 GATCTGTTATTTTTAACCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTG
1 G-GCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTG
* * *
38973950 CTCTGCTGTAACCCAGGGAGGCAA
65 CTCCGCTGCAACCTAGGGAGGCAA
* *
38973974 GGCTGATGTCTTCGATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
38974039 TCCGCTGCAACCCAGGGAGGCAA
66 TCCGCTGCAACCTAGGGAGGCAA
* * *
38974062 GGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTGCAAGAAGGCAAAGATCTGCTATTTTTAACCTA
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGC-AAGATCTGCTATTTTTAACCTG
* *
38974127 CTCCACTACAATCC-AGGGAGGCAA
65 CTCCGCTGCAA-CCTAGGGAGGCAA
* * * *
38974151 GGTTGGTGTCTTTGATCTGTTTCGCTGTCGGCGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
38974216 TCCGCTGCAACCCAGGGGGGCAA
66 TCCGCTGCAACCTAGGGAGGCAA
* *
38974239 GGCTAGTGTCTTCGATCTACTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
38974304 TCCGCTACAACCTAGGGAGGCAA
66 TCCGCTGCAACCTAGGGAGGCAA
*
38974327 GGTTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* * *
38974392 TCCGCTACAACCCAGGGAGGCAC
66 TCCGCTGCAACCTAGGGAGGCAA
* * * * * *
38974415 GGTTGGTGTCTTCGATCTGCTTCGCTATCGGTACAAGAAGGCAAGATCTGCAATTTTTAACCTAC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
38974480 TCCGCTGCAACCTAGGGAGGCAA
66 TCCGCTGCAACCTAGGGAGGCAA
* * * ** *
38974503 GGCTAGTGTCTTCAATCTGCTTCACTGTCGGTATAGGAAAGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
38974568 T-CGACTGCAACCTAGGGAGGCAA
66 TCCG-CTGCAACCTAGGGAGGCAA
* *
38974591 GGCTGGTATCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCCAGATCTG
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
38974641 TTATCTTCAC
Statistics
Matches: 1022, Mismatches: 159, Indels: 31
0.84 0.13 0.03
Matches are distributed among these distances:
87 63 0.06
88 807 0.79
89 114 0.11
90 36 0.04
91 2 0.00
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.28
Consensus pattern (88 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
TCCGCTGCAACCTAGGGAGGCAA
Found at i:38973806 original size:133 final size:132
Alignment explanation
Indices: 38973373--38974309 Score: 712
Period size: 133 Copynumber: 7.1 Consensus size: 132
38973363 GGTCATCGAT
* * * * *
38973373 CTGCGTCGTTGTCAGTGCAGGAACGCAAGATCTGCTATTTTTAACCTGCT-CACTGCAACCCAGG
1 CTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGG
* *
38973437 GAGGCAAGGCTGGTGTCTTTGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTT
66 GAGGCAAGGCT-GTGTCTTCGATCTACTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTT
*
38973502 AAT
130 AAC
* * * * * *** ** * * * ****
38973505 CTGCTCCGCTGTAAC-CT-AAGG-AGGCAAG-GCTGGTGCCTTCGATCTGCTTCGTTGTCGGTGC
1 CTGCTTCGCTGT--CGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTG-CAACCC
* * * * * * * ** **** * * *
38973566 AGGAAGGCAAGATCTGTTATTTTTGACCTGCGCCGCTG-CAACCCAGGGAGGCAAG-GCTAG-TG
63 AGGGAGGCAAG-GCTG-TGTCTTCGATCTACTTCGCTGTCGGTGCAGGAAGGCAAGATCT-GCTA
* * *
38973628 TCTTTGAT
125 TTTTTAAC
*
38973636 CTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCTAGG
1 CTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGG
* * *
38973701 GAGGCAACGCTAGTGTCTTCAATCTACTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTT
66 GAGGCAAGGCT-GTGTCTTCGATCTACTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTT
38973766 AAC
130 AAC
* * * * *
38973769 CTGATTCGCTGTTGGTGCAGGAAAGCAAGATCTGCTATTTTTAACCTGCTCCGTTGCAACCCAGA
1 CTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGG
** * *
38973834 GAGGCAAGGCTGGTGTCTTCGATCTGTTTTGCTGTCGGTGCAGGAAGGCAAGATCTGTTATTTTT
66 GAGGCAAGGCT-GTGTCTTCGATCTACTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTT
38973899 AAC
130 AAC
* *
38973902 CTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCTGCTGTAACCCAGG
1 CTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGG
* *
38973967 GAGGCAAGGCTGATGTCTTCGATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTT
66 GAGGCAAGGCTG-TGTCTTCGATCTACTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTT
38974032 AAC
130 AAC
* **** * * * * ** * * ****
38974035 CTGCTCCGCTG-CAACCCAGGGAGGCAAG-GCTAG-TGTCTTCGATCTGCTTCGCTGTCGGTGCA
1 CTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCT-GCTATTTTTAACCTGCTCCGCTG-CAACCCA
* * * * * ** * * * * ** * * * * *
38974097 AGAAGGCAAAGATCTGCTATTTTTAACCTACTCCACT-ACAATCCAGGGAGGCAAGGT-TGGTGT
64 GGGAGGC-AAG-GCTG-TGTCTTCGATCTACTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTAT
* * *
38974160 CTTTGAT
126 TTTTAAC
* *
38974167 CTGTTTCGCTGTCGGCGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGG
1 CTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGG
*
38974232 GGGGCAAGGCTAGTGTCTTCGATCTACTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTT
66 GAGGCAAGGCT-GTGTCTTCGATCTACTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTT
38974297 AAC
130 AAC
*
38974300 CTGCTCCGCT
1 CTGCTTCGCT
38974310 ACAACCTAGG
Statistics
Matches: 594, Mismatches: 185, Indels: 51
0.72 0.22 0.06
Matches are distributed among these distances:
129 1 0.00
130 13 0.02
131 77 0.13
132 125 0.21
133 346 0.58
134 32 0.05
ACGTcount: A:0.20, C:0.24, G:0.27, T:0.29
Consensus pattern (132 bp):
CTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGG
GAGGCAAGGCTGTGTCTTCGATCTACTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTA
AC
Found at i:38974009 original size:221 final size:221
Alignment explanation
Indices: 38973460--38974125 Score: 842
Period size: 221 Copynumber: 3.0 Consensus size: 221
38973450 TGTCTTTGAT
* * *
38973460 CTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAATCTGCTCCGCTGTAACCTAAG
1 CTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAATCTGCTCTGCTGTAACCCAGG
* * *
38973525 GAGGCAAGGCTGGTGCCTTCGATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGTTATTTTT
66 GAGGCAAGGCTGATGTCTTCGATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTT
* * *
38973590 GACCTGCGCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTTGATCTGCTTCGCTGTCGGTGCA
131 AACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTGCA
38973655 GGAAGGCAAGATCTGCTATTTTTAAC
196 GGAAGGCAAGATCTGCTATTTTTAAC
* *** * * * * **
38973681 CTGCTCCGCTG-C-AACCTAGGGAGGC-A-A-C-GCTAGTGTCTTCAATCTACT-TCACTGTCGG
1 CTGCTTCGCTGTCGGTGC-AGGAAGGCAAGATCTGCTA-T-T-TTTAATCTGCTCT-GCTGT-AA
** * * * * * ** * * * * *
38973739 TGCAGGAAGGCAAGATCTGCTATTTTTAACCTGATTCGCTGTTGGTGCAGGAAAGCAAGATCTGC
60 CCCAGGGAGGCAAG-GCTGATGTCTTCGATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGC
* * * * *
38973804 TATTTTTAACCTGCTCCGTTGCAACCCAGAGAGGCAAGGCTGGTGTCTTCGATCTGTTTTGCTGT
124 TATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGT
*
38973869 CGGTGCAGGAAGGCAAGATCTGTTATTTTTAAC
189 CGGTGCAGGAAGGCAAGATCTGCTATTTTTAAC
*
38973902 CTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCTGCTGTAACCCAGG
1 CTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAATCTGCTCTGCTGTAACCCAGG
38973967 GAGGCAAGGCTGATGTCTTCGATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTT
66 GAGGCAAGGCTGATGTCTTCGATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTT
38974032 AACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTGCA
131 AACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTGCA
*
38974097 AGAAGGCAAAGATCTGCTATTTTTAAC
196 GGAAGGC-AAGATCTGCTATTTTTAAC
38974124 CT
1 CT
38974126 ACTCCACTAC
Statistics
Matches: 360, Mismatches: 70, Indels: 29
0.78 0.15 0.06
Matches are distributed among these distances:
216 4 0.01
217 2 0.01
218 2 0.01
219 15 0.04
220 17 0.05
221 258 0.72
222 39 0.11
223 14 0.04
224 3 0.01
225 2 0.01
226 4 0.01
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.29
Consensus pattern (221 bp):
CTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAATCTGCTCTGCTGTAACCCAGG
GAGGCAAGGCTGATGTCTTCGATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTT
AACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTGCA
GGAAGGCAAGATCTGCTATTTTTAAC
Found at i:38974195 original size:221 final size:219
Alignment explanation
Indices: 38973526--38974195 Score: 795
Period size: 221 Copynumber: 3.0 Consensus size: 219
38973516 TAACCTAAGG
* * * *
38973526 AGGCAAGGCTGGTGCCTTCGATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGTTATTTTTG
1 AGGCAAGGCTGATGTCTTCGATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTA
* *
38973591 ACCTGCGCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTTGATCTGCTTCGCTGTCGGTGCAG
66 ACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTGCAG
* * * *
38973656 GAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAA-CCTAGGGAGGCAACGCTAGTGTCTT
131 GAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAATCC-AGGGAGGCAAGGTTGGTGTCTT
* * * *
38973720 CAATCTACTTCACTGTCGGTGCAGGA
195 TAATCT-GTTCGCTGTCGGCGCAGGA
* * * * ** * * * * *
38973746 AGGCAAGATCTGCTATTTTTAACCTGATTCGCTGTTGGTGCAGGAAAGCAAGATCTGCTATTTTT
1 AGGCAAG-GCTGATGTCTTCGATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTT
* * * * *
38973811 AACCTGCTCCGTTGCAACCCAGAGAGGCAAGGCTGGTGTCTTCGATCTGTTTTGCTGTCGGTGCA
65 AACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTGCA
* * * ** * * * * * *
38973876 GGAAGGCAAGATCTGTTATTTTTAACCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATT
130 GGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCT-ACAATCCAGGGAGGCAAGGT-TGGTGTC
* * ** * *
38973941 TTTAACCTGCTCTGCTGT-AACCCAGGG
193 TTTAATCTGTTC-GCTGTCGGCGCAGGA
38973968 AGGCAAGGCTGATGTCTTCGATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTA
1 AGGCAAGGCTGATGTCTTCGATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTA
*
38974033 ACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTGCAA
66 ACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTGCAG
* *
38974098 GAAGGCAAAGATCTGCTATTTTTAACCTACTCCACTACAATCCAGGGAGGCAAGGTTGGTGTCTT
131 GAAGGC-AAGATCTGCTATTTTTAACCTGCTCCGCTACAATCCAGGGAGGCAAGGTTGGTGTCTT
*
38974163 TGATCTGTTTCGCTGTCGGCGCAGGA
195 TAATCTG-TTCGCTGTCGGCGCAGGA
38974189 AGGCAAG
1 AGGCAAG
38974196 ATCTGCTATT
Statistics
Matches: 360, Mismatches: 82, Indels: 15
0.79 0.18 0.03
Matches are distributed among these distances:
220 23 0.06
221 275 0.76
222 48 0.13
223 14 0.04
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.29
Consensus pattern (219 bp):
AGGCAAGGCTGATGTCTTCGATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTA
ACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTGCAG
GAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAATCCAGGGAGGCAAGGTTGGTGTCTTT
AATCTGTTCGCTGTCGGCGCAGGA
Found at i:38974441 original size:43 final size:43
Alignment explanation
Indices: 38974300--38974441 Score: 113
Period size: 43 Copynumber: 3.3 Consensus size: 43
38974290 TATTTTTAAC
*
38974300 CTGCTCCGCTACAACCTAGGGAGGCAAGGTTGGTGTCTTCGAT
1 CTGCTCCGCTACAACCCAGGGAGGCAAGGTTGGTGTCTTCGAT
* * **** * * * * * ** *
38974343 CTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAAC
1 CTGCTCCGCT-ACAACCCAGGGAGGCAAGGT-TGGTGTCTTCGAT
*
38974388 CTGCTCCGCTACAACCCAGGGAGGCACGGTTGGTGTCTTCGAT
1 CTGCTCCGCTACAACCCAGGGAGGCAAGGTTGGTGTCTTCGAT
*
38974431 CTGCTTCGCTA
1 CTGCTCCGCTA
38974442 TCGGTACAAG
Statistics
Matches: 66, Mismatches: 31, Indels: 4
0.65 0.31 0.04
Matches are distributed among these distances:
43 26 0.39
44 24 0.36
45 16 0.24
ACGTcount: A:0.18, C:0.27, G:0.28, T:0.27
Consensus pattern (43 bp):
CTGCTCCGCTACAACCCAGGGAGGCAAGGTTGGTGTCTTCGAT
Found at i:38976867 original size:25 final size:26
Alignment explanation
Indices: 38976816--38976882 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 26
38976806 AAGAAAATCC
**
38976816 AAAAGAATGAAAGAATAATGATTTCA
1 AAAAGAATGAAAGAATAATGAGCTCA
* *
38976842 AAAAGAATGAAATAATATTG-GCTCA
1 AAAAGAATGAAAGAATAATGAGCTCA
38976867 AAAATGAATGCAAAGA
1 AAAA-GAATG-AAAGA
38976883 TGTATTTTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
25 7 0.21
26 23 0.68
27 4 0.12
ACGTcount: A:0.57, C:0.06, G:0.16, T:0.21
Consensus pattern (26 bp):
AAAAGAATGAAAGAATAATGAGCTCA
Found at i:38981161 original size:19 final size:18
Alignment explanation
Indices: 38981134--38981173 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
38981124 GAATATAAAA
38981134 ATAAAAATAATAATAAATG
1 ATAAAAATAATAAT-AATG
*
38981153 ATAATAATAATAATAATG
1 ATAAAAATAATAATAATG
38981171 ATA
1 ATA
38981174 CAAGATTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (18 bp):
ATAAAAATAATAATAATG
Found at i:38981647 original size:22 final size:21
Alignment explanation
Indices: 38981612--38981688 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 21
38981602 AAAAGGTATC
* *
38981612 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
38981633 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
38981656 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
38981675 TATATATCATATCT
1 TACAAATCATATCT
38981689 AAGATTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
19 17 0.37
21 4 0.09
22 15 0.33
23 10 0.22
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.38
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:38981655 original size:23 final size:22
Alignment explanation
Indices: 38981612--38981669 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
38981602 AAAAGGTATC
* *
38981612 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
38981633 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
38981656 TGCATATCATATCT
1 TACAAATCATATCT
38981670 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:38981672 original size:19 final size:19
Alignment explanation
Indices: 38981648--38981701 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
38981638 AATCATATCT
38981648 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
38981667 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
38981686 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
38981702 CTTGAAGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:38983963 original size:7 final size:7
Alignment explanation
Indices: 38983951--38983977 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
38983941 CTAATTGGCT
38983951 AAATTAG
1 AAATTAG
38983958 AAATTAG
1 AAATTAG
38983965 AAATTAG
1 AAATTAG
38983972 AAATTA
1 AAATTA
38983978 TAAAAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (7 bp):
AAATTAG
Found at i:38984730 original size:3 final size:3
Alignment explanation
Indices: 38984716--38984770 Score: 58
Period size: 3 Copynumber: 18.0 Consensus size: 3
38984706 TATATGTTAT
* * *
38984716 TAA TAA TTA TAA TAA TAA GTAA AAA GAA -ATA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TA-A TAA TAA TAA TAA TAA
38984762 TAA TAA TAA
1 TAA TAA TAA
38984771 CATTATCATC
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
2 1 0.02
3 40 0.89
4 4 0.09
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:38985784 original size:20 final size:20
Alignment explanation
Indices: 38985769--38985839 Score: 97
Period size: 20 Copynumber: 3.5 Consensus size: 20
38985759 TTGCACATAT
38985769 GTGCCTCTGTTTGCACTTTG
1 GTGCCTCTGTTTGCACTTTG
* * *
38985789 GTGTCTTTGTATGCACTTTG
1 GTGCCTCTGTTTGCACTTTG
*
38985809 GTGCCTCTGTTTGCACTTCG
1 GTGCCTCTGTTTGCACTTTG
*
38985829 GTGTCTCTGTT
1 GTGCCTCTGTT
38985840 GGCATTGCCA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.06, C:0.23, G:0.25, T:0.46
Consensus pattern (20 bp):
GTGCCTCTGTTTGCACTTTG
Found at i:38994491 original size:20 final size:20
Alignment explanation
Indices: 38994468--38994513 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
38994458 TCCACGCTAC
* *
38994468 CGTGTGAACAGGCACGCAGT
1 CGTGTGAACAGGCACACACT
*
38994488 CGTGTGAATAGGCACACACT
1 CGTGTGAACAGGCACACACT
38994508 CGTGTG
1 CGTGTG
38994514 GCCACCCATG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.24, C:0.24, G:0.33, T:0.20
Consensus pattern (20 bp):
CGTGTGAACAGGCACACACT
Found at i:38995327 original size:24 final size:24
Alignment explanation
Indices: 38995295--38995356 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 24
38995285 TCAAAGAAGT
* **
38995295 TGATAGTAATAGTGTGAGTTATAA
1 TGATAGTAATAGTGTAAACTATAA
*
38995319 TGATAGTAATAGTGTAAACTATGA
1 TGATAGTAATAGTGTAAACTATAA
*
38995343 TGATAGTGATAGTG
1 TGATAGTAATAGTG
38995357 AACTTTGTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.37, C:0.02, G:0.26, T:0.35
Consensus pattern (24 bp):
TGATAGTAATAGTGTAAACTATAA
Found at i:38998248 original size:13 final size:13
Alignment explanation
Indices: 38998230--38998254 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38998220 CATATGAACT
38998230 AGTTAAATGGTGA
1 AGTTAAATGGTGA
38998243 AGTTAAATGGTG
1 AGTTAAATGGTG
38998255 TTCTCATTGG
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:0.00, G:0.32, T:0.32
Consensus pattern (13 bp):
AGTTAAATGGTGA
Found at i:38998465 original size:22 final size:22
Alignment explanation
Indices: 38998440--38998484 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
38998430 TCTATTACTT
*
38998440 AAACATAGTATCCAATTATACC
1 AAACATAATATCCAATTATACC
*
38998462 AAACATAATATCCATTTATACC
1 AAACATAATATCCAATTATACC
38998484 A
1 A
38998485 GCTCAATCGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.47, C:0.22, G:0.02, T:0.29
Consensus pattern (22 bp):
AAACATAATATCCAATTATACC
Found at i:38999571 original size:18 final size:19
Alignment explanation
Indices: 38999543--38999585 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
38999533 GCTGTGTTGC
* *
38999543 GACACAGGGCTGAATGTGG
1 GACACAGGGCTAAACGTGG
*
38999562 GACACA-GGCTAAACGTGT
1 GACACAGGGCTAAACGTGG
38999580 GACACA
1 GACACA
38999586 AGTATTATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.33, C:0.21, G:0.33, T:0.14
Consensus pattern (19 bp):
GACACAGGGCTAAACGTGG
Found at i:39000771 original size:13 final size:13
Alignment explanation
Indices: 39000753--39000829 Score: 118
Period size: 13 Copynumber: 5.9 Consensus size: 13
39000743 AGTTCTTCAT
39000753 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
39000766 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
* *
39000779 TGCTTTTCAAAAG
1 TGCTTTTGAGAAG
39000792 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
* *
39000805 TGGTTTTCAGAAG
1 TGCTTTTGAGAAG
39000818 TGCTTTTGAGAA
1 TGCTTTTGAGAA
39000830 ATTTGAGTGT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 56 1.00
ACGTcount: A:0.25, C:0.09, G:0.27, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:39008710 original size:58 final size:55
Alignment explanation
Indices: 39008640--39008794 Score: 163
Period size: 57 Copynumber: 2.7 Consensus size: 55
39008630 TAGAGAGTTC
* *
39008640 AACTA-TAATTAAACTTAATCATTTTAA-TATTAAATTAATATAATACTTATCAAGAT
1 AACTATTAATTAAACTTAAT-A-TTAAACTATTAAATTAATAAAATA-TTATCAAGAT
*
39008696 AACTATTAGATTAAATTTAATATTAAATCTATTAAATTAATAAAATATTATCAAGAT
1 AACTATTA-ATTAAACTTAATATTAAA-CTATTAAATTAATAAAATATTATCAAGAT
* * *
39008753 AAGTATTTAA-TATAATTTAATATTAAATCTATTAAAATAATA
1 AACTA-TTAATTA-AACTTAATATTAAA-CTATTAAATTAATA
39008795 TTATTTTTGG
Statistics
Matches: 88, Mismatches: 5, Indels: 11
0.85 0.05 0.11
Matches are distributed among these distances:
56 11 0.12
57 46 0.52
58 31 0.35
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (55 bp):
AACTATTAATTAAACTTAATATTAAACTATTAAATTAATAAAATATTATCAAGAT
Found at i:39008771 original size:57 final size:58
Alignment explanation
Indices: 39008667--39008794 Score: 190
Period size: 57 Copynumber: 2.2 Consensus size: 58
39008657 ATCATTTTAA
*
39008667 TATTAAATTAATATAATACTTATCAAGATAACTATTAGATTAAATTTAATATTAAATC
1 TATTAAATTAATAAAATACTTATCAAGATAACTATTAGATTAAATTTAATATTAAATC
*
39008725 TATTAAATTAATAAAATA-TTATCAAGATAAGTATTTA-A-TATAATTTAATATTAAATC
1 TATTAAATTAATAAAATACTTATCAAGATAACTA-TTAGATTA-AATTTAATATTAAATC
*
39008782 TATTAAAATAATA
1 TATTAAATTAATA
39008795 TTATTTTTGG
Statistics
Matches: 65, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
56 2 0.03
57 43 0.66
58 20 0.31
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (58 bp):
TATTAAATTAATAAAATACTTATCAAGATAACTATTAGATTAAATTTAATATTAAATC
Found at i:39011455 original size:27 final size:27
Alignment explanation
Indices: 39011423--39011478 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
39011413 CTAGTTGATG
39011423 TAAGTTCGTGCTACATATAATATGTTA
1 TAAGTTCGTGCTACATATAATATGTTA
*
39011450 TAAGTTCGTGTTACATATAATATGTTA
1 TAAGTTCGTGCTACATATAATATGTTA
39011477 TA
1 TA
39011479 TTAAATTCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (27 bp):
TAAGTTCGTGCTACATATAATATGTTA
Found at i:39013064 original size:40 final size:40
Alignment explanation
Indices: 39013019--39013223 Score: 250
Period size: 40 Copynumber: 5.1 Consensus size: 40
39013009 CAATTGAATG
**
39013019 AATGCACATAAGTGCGTCTGTTTGTACTTCGGTACCCCTA
1 AATGCACATAAGTGCCCCTGTTTGTACTTCGGTACCCCTA
* * * * * *
39013059 AATGCACATACGTGCTCCTATTTGTACTTTGGTACCCTTG
1 AATGCACATAAGTGCCCCTGTTTGTACTTCGGTACCCCTA
* * * * *
39013099 AATGCATATAAGTGCCCCTGTTTCTACCTCGATACCCCTT
1 AATGCACATAAGTGCCCCTGTTTGTACTTCGGTACCCCTA
*
39013139 AATGCACATAAGTGCCGCTGTTTGTACTTCGGTACCCCTGA
1 AATGCACATAAGTGCCCCTGTTTGTACTTCGGTACCCCT-A
* *
39013180 AA-GCACATCAGTGCCCCTATTTGTACTTCGGTACCCCTA
1 AATGCACATAAGTGCCCCTGTTTGTACTTCGGTACCCCTA
39013219 AATGC
1 AATGC
39013224 CTTTACGTGC
Statistics
Matches: 137, Mismatches: 26, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
39 3 0.02
40 132 0.96
41 2 0.01
ACGTcount: A:0.22, C:0.28, G:0.18, T:0.32
Consensus pattern (40 bp):
AATGCACATAAGTGCCCCTGTTTGTACTTCGGTACCCCTA
Found at i:39013234 original size:120 final size:119
Alignment explanation
Indices: 39013019--39013240 Score: 324
Period size: 120 Copynumber: 1.9 Consensus size: 119
39013009 CAATTGAATG
*
39013019 AATGCACATAAGTGCGTCTGTTTGTACTTCGGTACCCCTAAATGCACATACGTGCTCCTATTTGT
1 AATGCACATAAGTGCGTCTGTTTGTACTTCGGTACCCCTAAATGCACATACGTGCCCCTATTTGT
* * *
39013084 ACTTTGGTACCCTTGAATGCATATAAGTGCCCCTGTTTCTACCTCGATACCCCTT
66 ACTTCGGTACCCCTAAATGCATATAAGTG-CCCTGTTTCTACCTCGATACCCCTT
39013139 AATGCACATAAGTGCCG-CTGTTTGTACTTCGGTACCCCTGAAA-GCACAT-CAGTGCCCCTATT
1 AATGCACATAAGTG-CGTCTGTTTGTACTTCGGTACCCCT-AAATGCACATAC-GTGCCCCTATT
* * *
39013201 TGTACTTCGGTACCCCTAAATGCCTTTACGTGCCCTGTTT
63 TGTACTTCGGTACCCCTAAATGCATATAAGTGCCCTGTTT
39013241 ATACTCTGGT
Statistics
Matches: 92, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
119 9 0.10
120 78 0.85
121 5 0.05
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (119 bp):
AATGCACATAAGTGCGTCTGTTTGTACTTCGGTACCCCTAAATGCACATACGTGCCCCTATTTGT
ACTTCGGTACCCCTAAATGCATATAAGTGCCCTGTTTCTACCTCGATACCCCTT
Found at i:39019996 original size:39 final size:40
Alignment explanation
Indices: 39019880--39020073 Score: 212
Period size: 40 Copynumber: 4.9 Consensus size: 40
39019870 AACAATTGAA
* ** *
39019880 TGAATGCACATAAGTGCGTCTGTTTGTTCTTCGGTACCCC
1 TGAATGCACATATGTGCCCCTGTTTGTACTTCGGTACCCC
* *
39019920 TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
1 TGAATGCACATATGTGCCCCTGTTTGTACTTCGGTACCCC
* * *
39019960 TGACTGCACATATGTG-CCATGTTTGTACTTCGGTACCCT
1 TGAATGCACATATGTGCCCCTGTTTGTACTTCGGTACCCC
* * **
39019999 TGAATGCACATAAGTGCCCCTATTTGTACTTTAGTACCCC
1 TGAATGCACATATGTGCCCCTGTTTGTACTTCGGTACCCC
* ** * *
39020039 TAAATGCATTTATGTG-CCCTGTTTATACTCCGGTA
1 TGAATGCACATATGTGCCCCTGTTTGTACTTCGGTA
39020074 ACTCTAAATT
Statistics
Matches: 127, Mismatches: 26, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
39 48 0.38
40 79 0.62
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.35
Consensus pattern (40 bp):
TGAATGCACATATGTGCCCCTGTTTGTACTTCGGTACCCC
Found at i:39020036 original size:79 final size:79
Alignment explanation
Indices: 39019882--39020073 Score: 242
Period size: 79 Copynumber: 2.4 Consensus size: 79
39019872 CAATTGAATG
* * *
39019882 AATGCACATAAGTGCGTC-TGTTTGTTCTTCGGTACCCCTGAATGCACATACGTGCCCCTATTTG
1 AATGCACATATGTGC--CATGTTTGTACTTCGGTACCCCTGAATGCACATAAGTGCCCCTATTTG
* *
39019946 TACTTCGGTACCCCTG
64 TACTTCAGTACCCCTA
* *
39019962 ACTGCACATATGTGCCATGTTTGTACTTCGGTACCCTTGAATGCACATAAGTGCCCCTATTTGTA
1 AATGCACATATGTGCCATGTTTGTACTTCGGTACCCCTGAATGCACATAAGTGCCCCTATTTGTA
*
39020027 CTTTAGTACCCCTA
66 CTTCAGTACCCCTA
** * * *
39020041 AATGCATTTATGTGCCCTGTTTATACTCCGGTA
1 AATGCACATATGTGCCATGTTTGTACTTCGGTA
39020074 ACTCTAAATT
Statistics
Matches: 97, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
78 1 0.01
79 83 0.86
80 13 0.13
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.34
Consensus pattern (79 bp):
AATGCACATATGTGCCATGTTTGTACTTCGGTACCCCTGAATGCACATAAGTGCCCCTATTTGTA
CTTCAGTACCCCTA
Found at i:39024242 original size:6 final size:6
Alignment explanation
Indices: 39024223--39024260 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
39024213 TTGATAATTA
*
39024223 CCTCTT CCTTTT CCTCTT CCTCTT CCTC-T CGCTCTT CC
1 CCTCTT CCTCTT CCTCTT CCTCTT CCTCTT C-CTCTT CC
39024261 ACGATTTCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
5 2 0.07
6 24 0.86
7 2 0.07
ACGTcount: A:0.00, C:0.50, G:0.03, T:0.47
Consensus pattern (6 bp):
CCTCTT
Found at i:39025482 original size:56 final size:56
Alignment explanation
Indices: 39025396--39025507 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
39025386 CTATGCACCT
39025396 TTGAACCAAACTAAATATGCAATATTAAGTTTAAATTTTAAATGAGTAGGATATGA
1 TTGAACCAAACTAAATATGCAATATTAAGTTTAAATTTTAAATGAGTAGGATATGA
39025452 TTGAACCAAACTAAATATGCAATATTAAGTTTAAATTTTAAATGAGTAGGATATGA
1 TTGAACCAAACTAAATATGCAATATTAAGTTTAAATTTTAAATGAGTAGGATATGA
39025508 GGTAGATGTA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (56 bp):
TTGAACCAAACTAAATATGCAATATTAAGTTTAAATTTTAAATGAGTAGGATATGA
Found at i:39025658 original size:22 final size:20
Alignment explanation
Indices: 39025607--39025659 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 20
39025597 TACAATGACT
*
39025607 AAAATTTTAAAATTTAATAA
1 AAAATTTTAAAATTAAATAA
*
39025627 AATAA-ATTAATAATTAAAATAA
1 AA-AATTTTAA-AATT-AAATAA
39025649 AAAATTTTAAA
1 AAAATTTTAAA
39025660 CTTGAATGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
20 6 0.23
21 9 0.35
22 11 0.42
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAATTTTAAAATTAAATAA
Found at i:39029142 original size:235 final size:234
Alignment explanation
Indices: 39028793--39029269 Score: 590
Period size: 237 Copynumber: 2.0 Consensus size: 234
39028783 AATCACATTT
* * * *
39028793 AAATATTGATTTAAAATTTACGAAAATTTGTGTAATAATATTTGGTACAGTGAAATTTTTAAACT
1 AAATAATGATTTAAAATTTACGAAAATATGTGTAATAATATTTAGTACAATGAAATTTTTAAACT
* ** * * *
39028858 CCATAAGTAGATTTAAGGAGTTTCGAGTATCTTATAAAAGCATAGTAAATTATTAAATATATATA
66 CCATAAATAGATTTAAAAAGTTAC-AGTATCTTATAAAAGCATAGTAAATAATTAAAAATATATA
**
39028923 TTTAAAAAAGAAATACATCAATTTTTTAAAATTGCTTATGTA-CCAAATACTC-ACCTATTAATT
130 TTT--AAAA-AAAT--ATCAATTTTTTAAAAGGGCTT-TGTAGCCAAATACTCTACCTATT-ATT
*
39028986 ATTATAATATTACTTT-A-AATGTAATATTTAGATTTCTATAACAAA
188 ATAATAATATTACTTTAATAATGTAATATTTAGATTTCTATAACAAA
* * * *
39029031 AAATAATGATTTAAAA-TTATGAAAATATG-GATAGTGATATTTAGTACAATGAATTTTTTAAAC
1 AAATAATGATTTAAAATTTACGAAAATATGTG-TAATAATATTTAGTACAATGAAATTTTTAAAC
* ** *
39029094 TCTATAAATAGATTTAAAAAGTTAC-GTATCTTATAAGGGTATAGTAAATAATTAAAAATATATA
65 TCCATAAATAGATTTAAAAAGTTACAGTATCTTATAAAAGCATAGTAAATAATTAAAAATATATA
* **
39029158 TTTAAAAAAATATCAATTTTTTAAGAGGGCTTTGTATGCCAAATACTCTTTCTATTATTATAATA
130 TTTAAAAAAATATCAATTTTTTAAAAGGGCTTTGTA-GCCAAATACTCTACCTATTATTATAATA
39029223 ATATTACTTTAAATAATGTAATATTTAGATTTCTATAACAAA
194 ATATTACTTT-AATAATGTAATATTTAGATTTCTATAACAAA
39029265 AAATA
1 AAATA
39029270 GAATGTGAAG
Statistics
Matches: 208, Mismatches: 24, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
229 4 0.02
230 18 0.09
231 28 0.13
232 9 0.04
233 5 0.02
234 33 0.16
235 37 0.18
236 1 0.00
237 58 0.28
238 15 0.07
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.39
Consensus pattern (234 bp):
AAATAATGATTTAAAATTTACGAAAATATGTGTAATAATATTTAGTACAATGAAATTTTTAAACT
CCATAAATAGATTTAAAAAGTTACAGTATCTTATAAAAGCATAGTAAATAATTAAAAATATATAT
TTAAAAAAATATCAATTTTTTAAAAGGGCTTTGTAGCCAAATACTCTACCTATTATTATAATAAT
ATTACTTTAATAATGTAATATTTAGATTTCTATAACAAA
Found at i:39030790 original size:2 final size:2
Alignment explanation
Indices: 39030783--39030814 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
39030773 AATAAGGCCT
39030783 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
39030815 ATGTTGGGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:39032795 original size:13 final size:13
Alignment explanation
Indices: 39032777--39032833 Score: 57
Period size: 13 Copynumber: 4.6 Consensus size: 13
39032767 AAATAATAAA
39032777 AATAAAATTTTTT
1 AATAAAATTTTTT
39032790 AAT-AAATTTTTT
1 AATAAAATTTTTT
* * *
39032802 TATATATTTTTTT
1 AATAAAATTTTTT
39032815 AAT--AATTTTTT
1 AATAAAATTTTTT
*
39032826 AAAAAAAT
1 AATAAAAT
39032834 ACGGGTTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
11 9 0.26
12 11 0.31
13 15 0.43
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
AATAAAATTTTTT
Found at i:39032798 original size:12 final size:12
Alignment explanation
Indices: 39032781--39032827 Score: 60
Period size: 12 Copynumber: 3.9 Consensus size: 12
39032771 AATAAAAATA
39032781 AAATTTTTTAAT
1 AAATTTTTTAAT
*
39032793 AAATTTTTTTAT
1 AAATTTTTTAAT
*
39032805 ATATTTTTTTAAT
1 A-AATTTTTTAAT
39032818 -AATTTTTTAA
1 AAATTTTTTAA
39032828 AAAAATACGG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
11 9 0.30
12 12 0.40
13 9 0.30
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
AAATTTTTTAAT
Found at i:39032827 original size:11 final size:11
Alignment explanation
Indices: 39032782--39032827 Score: 56
Period size: 11 Copynumber: 3.9 Consensus size: 11
39032772 ATAAAAATAA
39032782 AATTTTTTAAT
1 AATTTTTTAAT
39032793 AAATTTTTTTATAT
1 -AA-TTTTTTA-AT
*
39032807 ATTTTTTTAAT
1 AATTTTTTAAT
39032818 AATTTTTTAA
1 AATTTTTTAA
39032828 AAAAATACGG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
11 11 0.37
12 9 0.30
13 8 0.27
14 2 0.07
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
AATTTTTTAAT
Found at i:39034496 original size:40 final size:41
Alignment explanation
Indices: 39034445--39034704 Score: 148
Period size: 40 Copynumber: 6.1 Consensus size: 41
39034435 TTTGGATTAG
* *
39034445 AATTTTGTATGAATATTTTAATTTTTTTGTATGAATATTGT
1 AATTTTTTATGAATATTGTAATTTTTTTGTATGAATATTGT
* * *
39034486 -ATTTTTTATGAATATTGTAATTATTTTATAATTAA-ATT-T
1 AATTTTTTATGAATATTGTAATTTTTTTGT-ATGAATATTGT
* * * * *
39034525 -A-TATTTAT-AGTTTTG-GATTAGTATTTTGTATGGATATTGT
1 AATTTTTTATGAATATTGTAATT--T-TTTTGTATGAATATTGT
39034565 AATTTTTTGTATGAATATTGTAA---TTTTGTATGAATATTGT
1 AA-TTTTT-TATGAATATTGTAATTTTTTTGTATGAATATTGT
39034605 AATTTTTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATATTGT
1 AA--TTTTT-TATGAATATTGTAA--TT-T--TTTTGTATGAATATTGT
39034654 AATGTCGGGATATATTAT-AATATTGTAA-TTTTTTGTATGAATATTGT
1 AAT-T-----T-T-TTATGAATATTGTAATTTTTTTGTATGAATATTGT
39034701 AATT
1 AATT
39034705 ATTGTATAAT
Statistics
Matches: 172, Mismatches: 18, Indels: 53
0.71 0.07 0.22
Matches are distributed among these distances:
36 3 0.02
37 5 0.03
38 9 0.05
39 10 0.06
40 47 0.27
41 26 0.15
43 3 0.02
44 3 0.02
45 5 0.03
46 2 0.01
47 21 0.12
48 1 0.01
49 20 0.12
50 1 0.01
53 11 0.06
54 4 0.02
55 1 0.01
ACGTcount: A:0.30, C:0.00, G:0.14, T:0.55
Consensus pattern (41 bp):
AATTTTTTATGAATATTGTAATTTTTTTGTATGAATATTGT
Found at i:39034553 original size:101 final size:100
Alignment explanation
Indices: 39034428--39034613 Score: 302
Period size: 101 Copynumber: 1.9 Consensus size: 100
39034418 ATATTTAGTG
* *
39034428 TTTATAGTTTGGATTAGAATTTTGTATGAATATTTTAATTTTTTTGTATGAATATTGT-ATTTTT
1 TTTATAGTTTGGATTAGAATTTTGTATGAATATTGTAA-TTTTTTGTATGAATATTGTAATTTTG
39034492 TATGAATATTGTAATTATTTTATAATTAAATTTATA
65 TATGAATATTGTAATTATTTTATAATTAAATTTATA
* *
39034528 TTTATAGTTTTGGATTAGTATTTTGTATGGATATTGTAATTTTTTGTATGAATATTGTAATTTTG
1 TTTATAG-TTTGGATTAGAATTTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAATTTTG
*
39034593 TATGAATATTGTAATTTTTTT
65 TATGAATATTGTAATTATTTT
39034614 GTATGAATAT
Statistics
Matches: 79, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
100 26 0.33
101 53 0.67
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (100 bp):
TTTATAGTTTGGATTAGAATTTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAATTTTGT
ATGAATATTGTAATTATTTTATAATTAAATTTATA
Found at i:39034612 original size:41 final size:40
Alignment explanation
Indices: 39034447--39034635 Score: 167
Period size: 41 Copynumber: 4.7 Consensus size: 40
39034437 TGGATTAGAA
*
39034447 TTTTGTATGAATATTTTAATTTTTTTGTATGAATATTGT-A-T
1 TTTTGTATGAATATTGTAA---TTTTGTATGAATATTGTAATT
*
39034488 TTTT-TATGAATATTGTAATTATTTTAT-AATTAAATT-TATATT
1 TTTTGTATGAATATTGTAATT-TTGTATGAA-T--ATTGTA-ATT
* * * * * *
39034530 TATAGTTTTGGAT-TAGT-ATTTTGTATGGATATTGTAATT
1 TTTTG-TATGAATATTGTAATTTTGTATGAATATTGTAATT
39034569 TTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATTT
1 TTTTGTATGAATATTGTAATTTTGTATGAATATTGTAA-TT
39034610 TTTTGTATGAATATTGTAATTTTGTA
1 TTTTGTATGAATATTGTAATTTTGTA
39034636 ATTTTGTATG
Statistics
Matches: 119, Mismatches: 15, Indels: 28
0.73 0.09 0.17
Matches are distributed among these distances:
37 4 0.03
38 11 0.09
39 13 0.11
40 37 0.31
41 39 0.33
42 7 0.06
43 3 0.03
44 5 0.04
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (40 bp):
TTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATT
Found at i:39034626 original size:22 final size:22
Alignment explanation
Indices: 39034447--39034512 Score: 86
Period size: 22 Copynumber: 3.2 Consensus size: 22
39034437 TGGATTAGAA
*
39034447 TTTTGTATGAATATTTTAATTT
1 TTTTGTATGAATATTGTAATTT
39034469 TTTTGTATGAATATTGT-A--T
1 TTTTGTATGAATATTGTAATTT
*
39034488 TTTT-TATGAATATTGTAATTA
1 TTTTGTATGAATATTGTAATTT
39034509 TTTT
1 TTTT
39034513 ATAATTAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
18 12 0.31
19 6 0.15
21 5 0.13
22 16 0.41
ACGTcount: A:0.27, C:0.00, G:0.11, T:0.62
Consensus pattern (22 bp):
TTTTGTATGAATATTGTAATTT
Found at i:39034764 original size:25 final size:24
Alignment explanation
Indices: 39034697--39034781 Score: 66
Period size: 25 Copynumber: 3.3 Consensus size: 24
39034687 TGTATGAATA
*
39034697 TTGTAATTATTGTATAATTAATTTG
1 TTGTAATTATT-TAAAATTAATTTG
*
39034722 TTAGTAATT-TATATAAATT-ATTGTG
1 TT-GTAATTATTTA-AAATTAATT-TG
*
39034747 TGTGTAATTATTTAAAATTTAATTTA
1 T-TGTAATTATTTAAAA-TTAATTTG
39034773 TTAGTAATT
1 TT-GTAATT
39034782 TAGGATTAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
24 5 0.10
25 20 0.42
26 20 0.42
27 3 0.06
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (24 bp):
TTGTAATTATTTAAAATTAATTTG
Found at i:39034894 original size:37 final size:37
Alignment explanation
Indices: 39034843--39034923 Score: 135
Period size: 37 Copynumber: 2.2 Consensus size: 37
39034833 CATATAAAGT
39034843 TTATAAAAAAATTAAAAATCATTTTATTAAAAGTTTAA
1 TTAT-AAAAAATTAAAAATCATTTTATTAAAAGTTTAA
* *
39034881 TTATAAAAAATTAAAATTTATTTTATTAAAAGTTTAA
1 TTATAAAAAATTAAAAATCATTTTATTAAAAGTTTAA
39034918 TTATAA
1 TTATAA
39034924 CTGACTTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
37 37 0.90
38 4 0.10
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.43
Consensus pattern (37 bp):
TTATAAAAAATTAAAAATCATTTTATTAAAAGTTTAA
Found at i:39035001 original size:15 final size:15
Alignment explanation
Indices: 39034960--39035001 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
39034950 GTTAACTCAT
*
39034960 TTAATTTTTATATAA
1 TTAAATTTTATATAA
*
39034975 TGTAACTTTTATATAA
1 T-TAAATTTTATATAA
39034991 TTAAATTTTAT
1 TTAAATTTTAT
39035002 TTGATTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (15 bp):
TTAAATTTTATATAA
Found at i:39038621 original size:47 final size:47
Alignment explanation
Indices: 39038564--39038867 Score: 416
Period size: 47 Copynumber: 6.4 Consensus size: 47
39038554 ATTGATGTAC
* * *
39038564 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
39038611 AAGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATAT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
39038660 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
39038707 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
39038754 ACA-TGCATATATGAGATAAGGCCGAATGGCCAATATGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
39038801 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGG
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
39038848 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
39038868 TCCCGAAGGG
Statistics
Matches: 237, Mismatches: 16, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
46 1 0.00
47 195 0.82
49 40 0.17
50 1 0.00
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:39044463 original size:27 final size:27
Alignment explanation
Indices: 39044403--39044468 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
39044393 AAAATCAGAG
*
39044403 CATTGGCGCCTCTCAGTATGGCACCAA
1 CATTGGCGCCTCCCAGTATGGCACCAA
* * *
39044430 TAATGGCGCCTCCCAG-ATAGGCACCAC
1 CATTGGCGCCTCCCAGTAT-GGCACCAA
39044457 CATTGGCGCCTC
1 CATTGGCGCCTC
39044469 TAATACTATG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
26 2 0.06
27 30 0.94
ACGTcount: A:0.21, C:0.36, G:0.23, T:0.20
Consensus pattern (27 bp):
CATTGGCGCCTCCCAGTATGGCACCAA
Found at i:39048944 original size:20 final size:18
Alignment explanation
Indices: 39048897--39048945 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
39048887 GTATATAAAC
39048897 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
39048914 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
39048934 ATTAAATTAATA
1 ATTAAATTAATA
39048946 AAATACAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:39055923 original size:18 final size:18
Alignment explanation
Indices: 39055902--39055936 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
39055892 TTTATCATTA
39055902 TTATTA-TTATTATTAGTG
1 TTATTATTTA-TATTAGTG
39055920 TTATTATTTATATTAGT
1 TTATTATTTATATTAGT
39055937 TCATATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.63
Consensus pattern (18 bp):
TTATTATTTATATTAGTG
Found at i:39055969 original size:16 final size:16
Alignment explanation
Indices: 39055944--39055990 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 16
39055934 AGTTCATATA
39055944 TTTATCTATATAATT-T
1 TTTAT-TATATAATTAT
*
39055960 TTTATGTATATGCATTAT
1 TTTAT-TATAT-AATTAT
39055978 TTTATTATATAAT
1 TTTATTATATAAT
39055991 ATTATTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 12 0.46
17 8 0.31
18 6 0.23
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (16 bp):
TTTATTATATAATTAT
Found at i:39056194 original size:16 final size:16
Alignment explanation
Indices: 39056170--39056211 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
39056160 TTCAACTTTA
39056170 ATATATTATTATGTAT
1 ATATATTATTATGTAT
* *
39056186 ATATGTTATTATTTAT
1 ATATATTATTATGTAT
39056202 AT-TATTATTA
1 ATATATTATTA
39056212 AATCTTTCCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (16 bp):
ATATATTATTATGTAT
Found at i:39056206 original size:12 final size:13
Alignment explanation
Indices: 39056170--39056211 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
39056160 TTCAACTTTA
39056170 ATATATTATTATGT
1 ATATATTATTAT-T
39056184 ATATATGTTATTATT
1 ATATA--TTATTATT
39056199 -TATATTATTATT
1 ATATATTATTATT
39056211 A
1 A
39056212 AATCTTTCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
12 8 0.32
14 9 0.36
15 1 0.04
16 7 0.28
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (13 bp):
ATATATTATTATT
Found at i:39056299 original size:21 final size:21
Alignment explanation
Indices: 39056256--39056308 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
39056246 TAATATATGT
**
39056256 ATATAAT-TTTATGTATTTTG
1 ATATAATATTTATGTATTGGG
*
39056276 ATATAATATTTATTTATTGGG
1 ATATAATATTTATGTATTGGG
*
39056297 ATACTATTATTT
1 ATA-TAATATTT
39056309 TATGAAGTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 7 0.26
21 13 0.48
22 7 0.26
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (21 bp):
ATATAATATTTATGTATTGGG
Done.