Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 146 of 216
Found at i:46206128 original size:22 final size:23
Alignment explanation
Indices: 46206103--46206164 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
46206093 TTACTAACAA
* *
46206103 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAGTT
* *
46206125 TTAATTTTATTAAAAAAATATTT
1 TTAATTTTAATAAAAAAATAGTT
*
46206148 TTAATTTTAATTAAAAA
1 TTAATTTTAATAAAAAA
46206165 CGGGCCGGGC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.30
23 23 0.70
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAGTT
Found at i:46216225 original size:30 final size:30
Alignment explanation
Indices: 46216176--46216232 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
46216166 AAGTTGACAC
*
46216176 ATGACATGCCACATAGATAAATATATTGAT
1 ATGACATGACACATAGATAAATATATTGAT
* * *
46216206 ATGATATGACACATGGATAAGTATATT
1 ATGACATGACACATAGATAAATATATT
46216233 AACATGGTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.32
Consensus pattern (30 bp):
ATGACATGACACATAGATAAATATATTGAT
Found at i:46219437 original size:15 final size:16
Alignment explanation
Indices: 46219407--46219440 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
46219397 AAAATATATT
46219407 TTTATCATTTTAATAA
1 TTTATCATTTTAATAA
*
46219423 TTTAT-ATTTTTATAA
1 TTTATCATTTTAATAA
46219438 TTT
1 TTT
46219441 TTAAATGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTATCATTTTAATAA
Found at i:46221500 original size:31 final size:30
Alignment explanation
Indices: 46221435--46221518 Score: 118
Period size: 30 Copynumber: 2.7 Consensus size: 30
46221425 TAAATATATA
46221435 TTTTTTATTTTTAAAA-ATATTTTAAAATAC
1 TTTTTTATTTTTAAAATAT-TTTTAAAATAC
46221465 TTTTTTATTTTTAAAATATTTTTAAAATAC
1 TTTTTTATTTTTAAAATATTTTTAAAATAC
46221495 TTTTTTTAATTTTCTAAAAT-TTTT
1 -TTTTTT-ATTTT-TAAAATATTTT
46221519 CTTTGGTGTT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
30 27 0.54
31 8 0.16
32 9 0.18
33 6 0.12
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (30 bp):
TTTTTTATTTTTAAAATATTTTTAAAATAC
Found at i:46222690 original size:16 final size:16
Alignment explanation
Indices: 46222669--46222704 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
46222659 GGCTGTACCC
46222669 GCCTCTTTCAGTAAGT
1 GCCTCTTTCAGTAAGT
46222685 GCCTCTTTCAGTAAGT
1 GCCTCTTTCAGTAAGT
46222701 GCCT
1 GCCT
46222705 TAGGCTTCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.17, C:0.28, G:0.19, T:0.36
Consensus pattern (16 bp):
GCCTCTTTCAGTAAGT
Found at i:46224369 original size:71 final size:71
Alignment explanation
Indices: 46224253--46224394 Score: 230
Period size: 71 Copynumber: 2.0 Consensus size: 71
46224243 TCTCAGATTT
* * * * *
46224253 AAAAAAGGGATCATGCCCAATAAGTTAGGACACGATCTTTTCTTAATTCCTGAGATTGTTTAAAA
1 AAAAAAAGGATCACGCCCAATAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAA
46224318 CTTGAG
66 CTTGAG
*
46224324 AAAAAAAGGATCACGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAA
1 AAAAAAAGGATCACGCCCAATAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAA
46224389 CTTGAG
66 CTTGAG
46224395 TTTGAAAAGA
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
71 65 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (71 bp):
AAAAAAAGGATCACGCCCAATAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAA
CTTGAG
Found at i:46227437 original size:20 final size:20
Alignment explanation
Indices: 46227400--46227459 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
46227390 ATTTTTAAAA
46227400 TATAAAT-TTTAGAA-TTTT
1 TATAAATATTTAGAATTTTT
46227418 TATAAATATTTAGAATTTTT
1 TATAAATATTTAGAATTTTT
* *
46227438 GA-AAATTATTTTGAATTATTT
1 TATAAA-TATTTAGAATT-TTT
46227459 T
1 T
46227460 GCAATTTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 7 0.20
19 10 0.29
20 15 0.43
21 3 0.09
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (20 bp):
TATAAATATTTAGAATTTTT
Found at i:46227443 original size:19 final size:19
Alignment explanation
Indices: 46227400--46227437 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
46227390 ATTTTTAAAA
46227400 TATAAAT-TTTAGAATTTT
1 TATAAATATTTAGAATTTT
46227418 TATAAATATTTAGAATTTT
1 TATAAATATTTAGAATTTT
46227437 T
1 T
46227438 GAAAATTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (19 bp):
TATAAATATTTAGAATTTT
Found at i:46229442 original size:21 final size:21
Alignment explanation
Indices: 46229416--46229458 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
46229406 TTTTGCCTAA
*
46229416 AATATGAATTGGATTGAATTG
1 AATATGAATTGGATTAAATTG
*
46229437 AATATGAATTGTATTAAATTG
1 AATATGAATTGGATTAAATTG
46229458 A
1 A
46229459 GTTAAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.40
Consensus pattern (21 bp):
AATATGAATTGGATTAAATTG
Found at i:46230207 original size:31 final size:31
Alignment explanation
Indices: 46230163--46230224 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
46230153 TACTTAAATT
*
46230163 TTAAGTTAAAAGATATTTAT-TAGATAAATAA
1 TTAAATTAAAAGATATTTATGT-GATAAATAA
* * *
46230194 TTAAATTATAAGATTTTTGTGTGATAAATAA
1 TTAAATTAAAAGATATTTATGTGATAAATAA
46230225 AATAAATGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
31 25 0.96
32 1 0.04
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (31 bp):
TTAAATTAAAAGATATTTATGTGATAAATAA
Found at i:46230587 original size:11 final size:11
Alignment explanation
Indices: 46230573--46230603 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
46230563 ATACGAAAAT
46230573 AAGAAGAAAGA
1 AAGAAGAAAGA
46230584 AAGAAGAAAGA
1 AAGAAGAAAGA
46230595 AAGAA-AAAG
1 AAGAAGAAAG
46230604 GAGAAACTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.20
11 16 0.80
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (11 bp):
AAGAAGAAAGA
Found at i:46230956 original size:22 final size:24
Alignment explanation
Indices: 46230928--46230971 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
46230918 TATGACAAGA
46230928 AATTAAG-TAGAAAAG-AAGTATG
1 AATTAAGTTAGAAAAGTAAGTATG
46230950 AATTAAGTTAGAAAAGTAAGTA
1 AATTAAGTTAGAAAAGTAAGTA
46230972 AACTTAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.55, C:0.00, G:0.20, T:0.25
Consensus pattern (24 bp):
AATTAAGTTAGAAAAGTAAGTATG
Found at i:46232864 original size:25 final size:24
Alignment explanation
Indices: 46232783--46232864 Score: 69
Period size: 24 Copynumber: 3.3 Consensus size: 24
46232773 TAGCTCGAAA
* * *
46232783 GAGCGTCCCGTTATTAGCCCTCTC-
1 GAGCTTCCCGTTAATAGCTCT-TCG
* *
46232807 GAGCTTCCCGTTATATGGTTCTT-G
1 GAGCTTCCCGTTA-ATAGCTCTTCG
46232831 TGAGCTTCCCGTTAATAGCTCTTCG
1 -GAGCTTCCCGTTAATAGCTCTTCG
46232856 GAGCATTCC
1 GAGC-TTCC
46232865 AATTAGTTGT
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
24 24 0.52
25 22 0.48
ACGTcount: A:0.15, C:0.29, G:0.22, T:0.34
Consensus pattern (24 bp):
GAGCTTCCCGTTAATAGCTCTTCG
Found at i:46233065 original size:25 final size:25
Alignment explanation
Indices: 46233030--46233102 Score: 69
Period size: 25 Copynumber: 3.0 Consensus size: 25
46233020 TATTGACTTG
* *
46233030 CATGAGC-TTCCTGA-ATATGGCTCT
1 CATGAGCTTTCC-GATACATGGCTCA
*
46233054 TATGAGCTTTCCGATACATGGCTCA
1 CATGAGCTTTCCGATACATGGCTCA
* * *
46233079 CATGAGCTTCCCGTTATATGGCTC
1 CATGAGCTTTCCGATACATGGCTC
46233103 GAGAGAGTGC
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
24 8 0.20
25 32 0.80
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.33
Consensus pattern (25 bp):
CATGAGCTTTCCGATACATGGCTCA
Found at i:46233935 original size:21 final size:19
Alignment explanation
Indices: 46233902--46233940 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
46233892 TGGTTTTGGT
*
46233902 TTGGTTAAAATGTTTTAAG
1 TTGGTTAAAATGTGTTAAG
46233921 TTGGTTGATAAATGTGTTAA
1 TTGGTT-A-AAATGTGTTAA
46233941 AATGTTGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 1 0.06
21 10 0.59
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (19 bp):
TTGGTTAAAATGTGTTAAG
Found at i:46235587 original size:49 final size:49
Alignment explanation
Indices: 46235534--46235650 Score: 216
Period size: 49 Copynumber: 2.4 Consensus size: 49
46235524 ATTTGGTAGC
46235534 AGGGTTTTGTTATTACCTTCCGTGAGCCTCCCCCTATGCATCTAGGAAA
1 AGGGTTTTGTTATTACCTTCCGTGAGCCTCCCCCTATGCATCTAGGAAA
46235583 AGGGTTTTGTTATTACCTTCCGTGAGCCTCCCCCTATGCATCTAGGAAA
1 AGGGTTTTGTTATTACCTTCCGTGAGCCTCCCCCTATGCATCTAGGAAA
* *
46235632 AGAGTTTTATTATTACCTT
1 AGGGTTTTGTTATTACCTT
46235651 TCATAAGCCT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 66 1.00
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.36
Consensus pattern (49 bp):
AGGGTTTTGTTATTACCTTCCGTGAGCCTCCCCCTATGCATCTAGGAAA
Found at i:46242932 original size:30 final size:30
Alignment explanation
Indices: 46242896--46243308 Score: 544
Period size: 30 Copynumber: 13.8 Consensus size: 30
46242886 ATGTATACAT
46242896 ATACAAATCAATTCGGCAATGTATATCCAA
1 ATACAAATCAATTCGGCAATGTATATCCAA
*
46242926 ATACAAATTAATTCGGCAATGTATATCCAA
1 ATACAAATCAATTCGGCAATGTATATCCAA
* * * * *
46242956 ATACAAATCAATTCAGAAATGAATATCTAT
1 ATACAAATCAATTCGGCAATGTATATCCAA
** *
46242986 ATACAAATCAATTCAACAATATATATCCAA
1 ATACAAATCAATTCGGCAATGTATATCCAA
* * *
46243016 ATACGAATCAATTCGGTAATGTATATCCGA
1 ATACAAATCAATTCGGCAATGTATATCCAA
*
46243046 ATACAAATCAATTCAGCAATGTATAT-CAA
1 ATACAAATCAATTCGGCAATGTATATCCAA
* *
46243075 TATACCAATCAATTCGACAATGTATATCCAA
1 -ATACAAATCAATTCGGCAATGTATATCCAA
* * *
46243106 ATACAAATCAATTCGGTAATGTATATCTAT
1 ATACAAATCAATTCGGCAATGTATATCCAA
*
46243136 ATACAAATCAATTCGGCAGTGTATATCCAA
1 ATACAAATCAATTCGGCAATGTATATCCAA
* *
46243166 ATACGAATCAATTTGGCAATGTATATCCAA
1 ATACAAATCAATTCGGCAATGTATATCCAA
* * *
46243196 ATACAAATCAATTCGGCAATGTAGATCTAT
1 ATACAAATCAATTCGGCAATGTATATCCAA
* *
46243226 ATACCAATCAATTCGGCAATGTATAT--AT
1 ATACAAATCAATTCGGCAATGTATATCCAA
46243254 ATACAAATCAATTCGGCAATGTATATCCAA
1 ATACAAATCAATTCGGCAATGTATATCCAA
* *
46243284 ATACGAATTAATTCGGCAATGTATA
1 ATACAAATCAATTCGGCAATGTATA
46243309 AAACATATAC
Statistics
Matches: 330, Mismatches: 49, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
28 27 0.08
29 2 0.01
30 298 0.90
31 3 0.01
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.30
Consensus pattern (30 bp):
ATACAAATCAATTCGGCAATGTATATCCAA
Found at i:46243284 original size:24 final size:25
Alignment explanation
Indices: 46243223--46243285 Score: 67
Period size: 28 Copynumber: 2.4 Consensus size: 25
46243213 AATGTAGATC
46243223 TATATACC-AATCAATTCGGCAATGTATA
1 TATAT-CCAAATCAATTCGGCAATG---A
*
46243251 TATATACAAATCAATTCGGCAATG-
1 TATATCCAAATCAATTCGGCAATGA
46243275 TATATCCAAAT
1 TATATCCAAAT
46243286 ACGAATTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 10 0.31
27 1 0.03
28 21 0.66
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (25 bp):
TATATCCAAATCAATTCGGCAATGA
Found at i:46244418 original size:20 final size:21
Alignment explanation
Indices: 46244393--46244434 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
46244383 TGTTGAATTG
46244393 TGTATT-TTGGAATGTT-CAAA
1 TGTATTCTT-GAATGTTACAAA
46244413 TGTATTCTTGAATGTTACAAA
1 TGTATTCTTGAATGTTACAAA
46244434 T
1 T
46244435 TGGTACAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.31, C:0.07, G:0.17, T:0.45
Consensus pattern (21 bp):
TGTATTCTTGAATGTTACAAA
Found at i:46250863 original size:19 final size:18
Alignment explanation
Indices: 46250835--46250870 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
46250825 AAGTTACCTT
46250835 CTTTGTTTCTGGTTTTGA
1 CTTTGTTTCTGGTTTTGA
*
46250853 CTTTGGTTTCTGTTTTTG
1 CTTT-GTTTCTGGTTTTG
46250871 TTTGTGGGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.03, C:0.11, G:0.22, T:0.64
Consensus pattern (18 bp):
CTTTGTTTCTGGTTTTGA
Found at i:46251699 original size:49 final size:49
Alignment explanation
Indices: 46251642--46251739 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
46251632 GATAGTTTTA
46251642 CCTTTAATATGTGTAAGAATCCCCTCATTCTTTTTTCTGAGTGCAGATG
1 CCTTTAATATGTGTAAGAATCCCCTCATTCTTTTTTCTGAGTGCAGATG
46251691 CCTTTAATATGTGTAAGAATCCCCTCATTCTTTTTTCTGAGTGCAGATG
1 CCTTTAATATGTGTAAGAATCCCCTCATTCTTTTTTCTGAGTGCAGATG
46251740 TCAAATGGTG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.41
Consensus pattern (49 bp):
CCTTTAATATGTGTAAGAATCCCCTCATTCTTTTTTCTGAGTGCAGATG
Found at i:46253514 original size:11 final size:11
Alignment explanation
Indices: 46253498--46253523 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
46253488 TTTTTTTAAA
46253498 TTTTAAAATAC
1 TTTTAAAATAC
46253509 TTTTAAAATAC
1 TTTTAAAATAC
46253520 TTTT
1 TTTT
46253524 TTTTTAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:46253518 original size:44 final size:43
Alignment explanation
Indices: 46253470--46253628 Score: 171
Period size: 44 Copynumber: 3.5 Consensus size: 43
46253460 CGAATATAAT
*
46253470 AAATA-TTTTTATTTTTAATTTTTTTAAATTTTAAAATACTTTTA
1 AAATACTTTTT-TTTTTAATTTTTTT-AATTTTAAAATATTTTTA
*
46253514 AAATACTTTTTTTTTAAATTTTTTTTAATTTTAAAATATTTTTA
1 AAATACTTTTTTTTTTAA-TTTTTTTAATTTTAAAATATTTTTA
*
46253558 AAATATTTTTAAAATACTTTTTTAATTTTTTTAATTTTAAAATATTTTTA
1 AAATA-CTTT----T--TTTTTTAATTTTTTTAATTTTAAAATATTTTTA
*
46253608 AAGTAC--TTTTTTTTAATTTTT
1 AAATACTTTTTTTTTTAATTTTT
46253629 AAAATAAAAT
Statistics
Matches: 100, Mismatches: 6, Indels: 21
0.79 0.05 0.17
Matches are distributed among these distances:
41 13 0.13
43 1 0.01
44 33 0.33
45 15 0.15
47 1 0.01
49 1 0.01
50 29 0.29
51 7 0.07
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.62
Consensus pattern (43 bp):
AAATACTTTTTTTTTTAATTTTTTTAATTTTAAAATATTTTTA
Found at i:46253547 original size:17 final size:17
Alignment explanation
Indices: 46253509--46253558 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
46253499 TTTAAAATAC
46253509 TTTTAAAATACTTTTT--
1 TTTTAAAATA-TTTTTAA
* *
46253525 TTTTAAATTTTTTTTAA
1 TTTTAAAATATTTTTAA
46253542 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
46253559 AATATTTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
15 5 0.18
16 8 0.29
17 15 0.54
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:46253556 original size:11 final size:11
Alignment explanation
Indices: 46253542--46253579 Score: 67
Period size: 11 Copynumber: 3.4 Consensus size: 11
46253532 TTTTTTTTAA
46253542 TTTTAAAATAT
1 TTTTAAAATAT
46253553 TTTTAAAATAT
1 TTTTAAAATAT
46253564 TTTTAAAATACT
1 TTTTAAAATA-T
46253576 TTTT
1 TTTT
46253580 TAATTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 21 0.81
12 5 0.19
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:46253630 original size:39 final size:38
Alignment explanation
Indices: 46253553--46253628 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 38
46253543 TTTAAAATAT
46253553 TTTTAAAATATTTTTAAAATACTTTTTTAATTTTTTTAA
1 TTTTAAAATATTTTTAAAATACTTTTTTAA-TTTTTTAA
*
46253592 TTTTAAAATATTTTTAAAGTACTTTTTTTTAATTTTT
1 TTTTAAAATATTTTTAAAATAC--TTTTTTAATTTTT
46253629 AAAATAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
39 21 0.62
40 5 0.15
41 8 0.24
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (38 bp):
TTTTAAAATATTTTTAAAATACTTTTTTAATTTTTTAA
Found at i:46256013 original size:27 final size:27
Alignment explanation
Indices: 46255982--46256050 Score: 70
Period size: 27 Copynumber: 2.5 Consensus size: 27
46255972 AAAACATATT
46255982 TATATTTTATAATAT-ATAAGTTGGTAAA
1 TATATTTTATAATATCATAAGTT--TAAA
* * *
46256010 -ATATATTTATATTTTCATTAGTTTAAA
1 TATAT-TTTATAATATCATAAGTTTAAA
46256037 TATATTTTATAATA
1 TATATTTTATAATA
46256051 CATTTATTTG
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
27 15 0.45
28 12 0.36
29 6 0.18
ACGTcount: A:0.41, C:0.01, G:0.06, T:0.52
Consensus pattern (27 bp):
TATATTTTATAATATCATAAGTTTAAA
Found at i:46260021 original size:2 final size:2
Alignment explanation
Indices: 46259951--46260004 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
46259941 TAATCTGTAC
46259951 GA GA GA GA GA 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 GA GA GA GA GA
46259993 GA GA GA GA GA GA
1 GA GA GA GA GA GA
46260005 CTTGATGAAG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:46261474 original size:15 final size:15
Alignment explanation
Indices: 46261465--46261497 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
46261455 CAAATGCTAT
46261465 AATAATAAATACAAC
1 AATAATAAATACAAC
*
46261480 AATAATAAATACATC
1 AATAATAAATACAAC
46261495 AAT
1 AAT
46261498 GACATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAATAAATACAAC
Found at i:46262071 original size:28 final size:24
Alignment explanation
Indices: 46262040--46262100 Score: 68
Period size: 28 Copynumber: 2.3 Consensus size: 24
46262030 ATATATTTTT
46262040 AAAAAATAATTAAATATGAAAAAGAATA
1 AAAAAATAATT-AATA--AAAAA-AATA
46262068 AAAAAACTAATTAATAAAAAAAATA
1 AAAAAA-TAATTAATAAAAAAAATA
46262093 AAGAAAAT
1 AA-AAAAT
46262101 GAAAAAGGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
25 7 0.23
26 9 0.29
28 10 0.32
29 5 0.16
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.20
Consensus pattern (24 bp):
AAAAAATAATTAATAAAAAAAATA
Found at i:46262072 original size:29 final size:25
Alignment explanation
Indices: 46262040--46262100 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 25
46262030 ATATATTTTT
46262040 AAAAAATAATTAAATATGAAAAAGAATAA
1 AAAAAATAATT-AATA--AAAAA-AATAA
*
46262069 AAAAACTAATTAATAAAAAAAATAA
1 AAAAAATAATTAATAAAAAAAATAA
*
46262094 AGAAAAT
1 AAAAAAT
46262101 GAAAAAGGAC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 10 0.34
26 5 0.17
28 4 0.14
29 10 0.34
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.20
Consensus pattern (25 bp):
AAAAAATAATTAATAAAAAAAATAA
Found at i:46263616 original size:44 final size:44
Alignment explanation
Indices: 46263549--46264461 Score: 388
Period size: 44 Copynumber: 21.1 Consensus size: 44
46263539 CCATGATTTG
* * * * *
46263549 TGGTTCTAATCTACTCCATTGCAACTTCAAGGAGATAGGATTAT
1 TGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT
46263593 TGGTTTTAATCTGCTCCACTGCAACTTC-GGGAGATAAGA-T-T
1 TGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT
* * *
46263634 TGCCATCTTCT-GTCTGC-CTCACTGCAACTTCA-GGAGGATAAGA--CT
1 TG--GT-TT-TAATCTGCTC-CACTGCAACTTCAGGGA-GATAAGATTAT
* * *
46263679 TGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTA-
1 TGGTT--TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT
* *** * * *
46263724 --GATGCGATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCCA-
1 TGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TAT
* * *
46263765 AGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAT
1 TGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT
* * * * * *
46263809 CGGCTTTAACCTACTCCACTACAACTTCAGGGAAATAAGA-T-T
1 TGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT
* * * * *
46263851 TGCCATCTTCAGTTTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTGCT
1 TG--GT-TTTAATCTGCTC-CACTGCAACTTCAGGGA-GATAAGA-TT-AT
* * * * *
46263900 T-G-CTTAGTTTGCTCTACTGCAACTTCAGGGAGATAAGACTA-
1 TGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT
* * * * *
46263941 --GATGTGATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTA-
1 TGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TAT
* * *
46263982 AGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAT
1 TGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT
* * *
46264026 TTGTTTTAATCTACTCCACTTCAACTTCAGGGAGATAAGATT-T
1 TGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT
** * * * *
46264069 TCCATCTTCAGTCTGC-CTCACTGCAACTTCAGGAAGATAAGACTTGCT
1 T-GGT-TTTAATCTGCTC-CACTGCAACTTCAGGGAGATAAGA-TT-AT
* * *
46264117 T-G-CTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTA-
1 TGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT
* *** * * *
46264158 --GATGCGATCTGCTTC-C-GACAACTTCAGAGAGATAAGATCCA-
1 TGGTTTTAATCTGCTCCACTG-CAACTTCAGGGAGATAAGAT-TAT
* * * *
46264199 AGGTTTTAAT-TCGCTCCACTTCAACTTCAGAGAGATAGGATTAT
1 TGGTTTTAATCT-GCTCCACTGCAACTTCAGGGAGATAAGATTAT
* *
46264243 TTGTTTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGATT-T
1 TGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT
*** * * *
46264286 ACCATCTTCAGTCTGC-CTCACTGCAACTTCA-GGAGGATAAGA--CT
1 -TGGT-TTTAATCTGCTC-CACTGCAACTTCAGGGA-GATAAGATTAT
* * *
46264330 TGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTA-
1 TGGTT--TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT
* *** * * *
46264375 --GATGCGATCTGCT-CTCTGCAACTTCAGAGAGATAAGA-T-C
1 TGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT
* ** * * *
46264414 TGTGATTTAATCCACTCCACTACAACTTCAGGGAGATAGGATCAT
1 TG-GTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT
46264459 TGG
1 TGG
46264462 CTTTCGATCT
Statistics
Matches: 657, Mismatches: 140, Indels: 144
0.70 0.15 0.15
Matches are distributed among these distances:
39 2 0.00
40 86 0.13
41 32 0.05
42 14 0.02
43 71 0.11
44 339 0.52
45 106 0.16
46 2 0.00
47 1 0.00
48 2 0.00
49 2 0.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (44 bp):
TGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT
Found at i:46263925 original size:217 final size:217
Alignment explanation
Indices: 46263471--46264461 Score: 1531
Period size: 217 Copynumber: 4.5 Consensus size: 217
46263461 CTTCAATCTA
* *
46263471 CTCCTCTGCAACTTCAGGGAGATAAGACTAGATGTGATCTGCTCTCTGCAACTTCAGAGAGATAA
1 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
* ** * *
46263536 GATCCATGATTTGTGGTTCTAATCTACTCCATTGCAACTTCAAGGAGATAGGATTATTGGTTTTA
66 GATCCA--A-----GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGTTTTA
* *
46263601 ATCTGCTCCACTGCAACTTC-GGGAGATAAGATTTGCCATCTTCTGTCTGCCTCACTGCAACTTC
124 ATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTC
46263665 AGGAGGATAAGACTTGCTTACTTAGTCTG
189 AGGAGGATAAGACTTGCTTACTTAGTCTG
46263694 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
1 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
* * *
46263759 GATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAACCTACT
66 GATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGTTTTAATCTACT
* * *
46263824 CCACTACAACTTCAGGGAAATAAGATTTGCCATCTTCAGTTTGCCTCACTGCAACTTCAGGAGGA
131 CCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGA
* *
46263889 TAAGACTTGCTTGCTTAGTTTG
196 TAAGACTTGCTTACTTAGTCTG
* *
46263911 CTCTACTGCAACTTCAGGGAGATAAGACTAGATGTGATCTGCTCTCTGCAACTTCAGAGAGATAA
1 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
* *
46263976 GATCTAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTGTTTTAATCTACT
66 GATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGTTTTAATCTACT
* * *
46264041 CCACTTCAACTTCAGGGAGATAAGATTTTCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAAGA
131 CCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGA
*
46264106 TAAGACTTGCTTGCTTAGTCTG
196 TAAGACTTGCTTACTTAGTCTG
*
46264128 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCT-TCCGACAACTTCAGAGAGATA
1 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTG-CAACTTCAGAGAGATA
* * * * *
46264192 AGATCCAAGGTTTTAATTCGCTCCACTTCAACTTCAGAGAGATAGGATTATTTGTTTTAATCTGC
65 AGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGTTTTAATCTAC
* *
46264257 TCCACTGTAACTTCAGGGAGATAAGATTTACCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGG
130 TCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGG
46264322 ATAAGACTTGCTTACTTAGTCTG
195 ATAAGACTTGCTTACTTAGTCTG
46264345 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
1 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
* * * * *
46264410 GAT-C-TGTGATTTAATCCACTCCACTACAACTTCAGGGAGATAGGATCATTGG
66 GATCCAAG-GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGG
46264462 CTTTCGATCT
Statistics
Matches: 712, Mismatches: 52, Indels: 15
0.91 0.07 0.02
Matches are distributed among these distances:
215 1 0.00
216 103 0.14
217 535 0.75
218 3 0.00
221 1 0.00
223 69 0.10
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (217 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
GATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGTTTTAATCTACT
CCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGA
TAAGACTTGCTTACTTAGTCTG
Found at i:46276236 original size:15 final size:16
Alignment explanation
Indices: 46276209--46276242 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
46276199 CAAATGCTAT
46276209 AATAATAAAATACAAC
1 AATAATAAAATACAAC
*
46276225 AATAAT-AAATACATC
1 AATAATAAAATACAAC
46276240 AAT
1 AAT
46276243 GGCATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.24
Consensus pattern (16 bp):
AATAATAAAATACAAC
Found at i:46276827 original size:19 final size:20
Alignment explanation
Indices: 46276786--46276827 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
46276776 ACATATATTT
**
46276786 AAAAAAATAATTAAATATGA
1 AAAAAAATAATTAAATAAAA
46276806 AAAAAAATAATT-AATAAAA
1 AAAAAAATAATTAAATAAAA
46276825 AAA
1 AAA
46276828 TAAAGAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (20 bp):
AAAAAAATAATTAAATAAAA
Found at i:46284794 original size:31 final size:31
Alignment explanation
Indices: 46284756--46284816 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
46284746 GGCCCATTTT
46284756 TATTTTAAAAAT-TTTAAAAAATTAAAAAAAG
1 TATTTTAAAAATATTT-AAAAATTAAAAAAAG
*
46284787 TATTTTAAAAATATTTTAAAATTAAAAAAA
1 TATTTTAAAAATATTTAAAAATTAAAAAAA
46284817 ATTTAAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 25 0.89
32 3 0.11
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (31 bp):
TATTTTAAAAATATTTAAAAATTAAAAAAAG
Found at i:46284796 original size:11 final size:11
Alignment explanation
Indices: 46284756--46284849 Score: 67
Period size: 12 Copynumber: 8.9 Consensus size: 11
46284746 GGCCCATTTT
46284756 TATTTT-AAAA
1 TATTTTAAAAA
46284766 -ATTTTAAAAA
1 TATTTTAAAAA
**
46284776 -ATTAAAAAAA
1 TATTTTAAAAA
46284786 GTATTTTAAAAA
1 -TATTTTAAAAA
46284798 TATTTT--AAA
1 TATTTTAAAAA
*
46284807 -A-TTAAAAAA
1 TATTTTAAAAA
* *
46284816 AATTTAAAAAAA
1 TATTT-TAAAAA
46284828 GTATTTTAAAAA
1 -TATTTTAAAAA
46284840 TATTTTAAAA
1 TATTTTAAAA
46284850 TTAAAAAAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
7 2 0.03
8 1 0.01
9 11 0.16
10 13 0.19
11 18 0.26
12 19 0.28
13 4 0.06
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:46284802 original size:42 final size:41
Alignment explanation
Indices: 46284756--46284942 Score: 245
Period size: 42 Copynumber: 4.5 Consensus size: 41
46284746 GGCCCATTTT
46284756 TATTTTAAAAATTTTAAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTT-AAAATTTTAAAAAATTAAAAAAAGTATTTTAAAAA
**
46284798 TATTTTAAAATTAAAAAAAATTTAAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTTTAAAAAA-TTAAAAAAAGTATTTTAAAAA
** *
46284840 TATTTTAAAATTAAAAAAAAATAAAAAAAAAAGTATTTTAAAAA
1 TATTTTAAAATT-TTAAAAAAT--TAAAAAAAGTATTTTAAAAA
* *
46284884 TATTTTAAAA--TTAAAAAA-TAAAAAAAGTATGTAAAAAA
1 TATTTTAAAATTTTAAAAAATTAAAAAAAGTATTTTAAAAA
46284922 TATTTTAAAATTTTAAAAAAT
1 TATTTTAAAATTTTAAAAAAT
46284943 AAATATATTT
Statistics
Matches: 130, Mismatches: 8, Indels: 15
0.85 0.05 0.10
Matches are distributed among these distances:
38 27 0.21
40 8 0.06
41 18 0.14
42 40 0.31
43 8 0.06
44 29 0.22
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.35
Consensus pattern (41 bp):
TATTTTAAAATTTTAAAAAATTAAAAAAAGTATTTTAAAAA
Found at i:46284813 original size:17 final size:17
Alignment explanation
Indices: 46284791--46284824 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
46284781 AAAAAGTATT
* *
46284791 TTAAAAATATTTTAAAA
1 TTAAAAAAAATTTAAAA
46284808 TTAAAAAAAATTTAAAA
1 TTAAAAAAAATTTAAAA
46284825 AAAGTATTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TTAAAAAAAATTTAAAA
Found at i:46284833 original size:31 final size:30
Alignment explanation
Indices: 46284773--46284838 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 30
46284763 AAAATTTTAA
*
46284773 AAAATTAAAAAAAGTATTTTAAAAATATTTT
1 AAAATTAAAAAAAG-ATTTAAAAAATATTTT
46284804 AAAATTAAAAAAA-ATTTAAAAAAAGTATTTT
1 AAAATTAAAAAAAGATTT-AAAAAA-TATTTT
46284835 AAAA
1 AAAA
46284839 ATATTTTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 4 0.12
30 5 0.16
31 23 0.72
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (30 bp):
AAAATTAAAAAAAGATTTAAAAAATATTTT
Found at i:46284941 original size:10 final size:11
Alignment explanation
Indices: 46284756--46284943 Score: 59
Period size: 11 Copynumber: 18.2 Consensus size: 11
46284746 GGCCCATTTT
*
46284756 TATTTTAAAAA
1 TATTTAAAAAA
46284767 T-TTT-AAAAA
1 TATTTAAAAAA
*
46284776 -ATTAAAAAAA
1 TATTTAAAAAA
*
46284786 GTATTTTAAAAA
1 -TATTTAAAAAA
*
46284798 TATTT--TAAA
1 TATTTAAAAAA
46284807 -A-TTAAAAAA
1 TATTTAAAAAA
*
46284816 AATTTAAAAAAA
1 TATTT-AAAAAA
*
46284828 GTATTTTAAAAA
1 -TATTTAAAAAA
* *
46284840 TATTTTAAAAT
1 TATTTAAAAAA
**
46284851 TA-AAAAAAAA
1 TATTTAAAAAA
***
46284861 TAAAAAAAAAA
1 TATTTAAAAAA
*
46284872 GTATTTTAAAAA
1 -TATTTAAAAAA
*
46284884 TATTT--TAAA
1 TATTTAAAAAA
46284893 -A-TTAAAAAA
1 TATTTAAAAAA
46284902 TA---AAAAAA
1 TATTTAAAAAA
*
46284910 GTATGTAAAAAA
1 -TATTTAAAAAA
*
46284922 TATTT-TAAAA
1 TATTTAAAAAA
46284932 T-TTTAAAAAA
1 TATTTAAAAAA
46284942 TA
1 TA
46284944 AATATATTTA
Statistics
Matches: 135, Mismatches: 21, Indels: 42
0.68 0.11 0.21
Matches are distributed among these distances:
7 4 0.03
8 8 0.06
9 24 0.18
10 26 0.19
11 37 0.27
12 32 0.24
13 4 0.03
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.35
Consensus pattern (11 bp):
TATTTAAAAAA
Found at i:46291925 original size:24 final size:24
Alignment explanation
Indices: 46291898--46291944 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
46291888 ATTGAAATGG
46291898 ATTG-ATTTAGTATATGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
46291922 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
46291945 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.34, C:0.00, G:0.15, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:46293501 original size:13 final size:13
Alignment explanation
Indices: 46293483--46293521 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
46293473 ACCGTGTGCC
46293483 TCACATGGCTGTG
1 TCACATGGCTGTG
*
46293496 TCACATGCCTGTG
1 TCACATGGCTGTG
*
46293509 TCCCA-GGCTGTG
1 TCACATGGCTGTG
46293521 T
1 T
46293522 GAACCCAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 7 0.30
13 16 0.70
ACGTcount: A:0.13, C:0.28, G:0.28, T:0.31
Consensus pattern (13 bp):
TCACATGGCTGTG
Found at i:46298550 original size:40 final size:40
Alignment explanation
Indices: 46298453--46298637 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
46298443 TCGAATGATG
* * * * * *
46298453 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGC-GAGTTACTAAA
**
46298493 TCCGGACTAAGAT-CCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTGGTGCGAGTTACTAAA
* *
46298533 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAA
*
46298573 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AA
* *
46298614 -CCGGGCTATGTCCCGAAGGCATTG
1 TCCGGGTTAAGTCCCGAAGGCATTG
46298638 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 117 0.92
41 9 0.07
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAA
Found at i:46298593 original size:80 final size:81
Alignment explanation
Indices: 46298454--46298636 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 81
46298444 CGAATGATGT
*
46298454 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTG
46298518 GTGCGAGTTACTA-AA
66 GTGCGAGTTACTATAA
* * * * * **
46298533 TCTGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
*
46298596 TTGTGCGAGTTACTATAA
64 TGGTGCGAGTTACTATAA
*
46298614 CCGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
46298637 GAACGAGTAG
Statistics
Matches: 88, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
79 1 0.01
80 78 0.89
81 9 0.10
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTG
GTGCGAGTTACTATAA
Found at i:46317844 original size:21 final size:20
Alignment explanation
Indices: 46317802--46317861 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 20
46317792 AGCTTATTTA
* **
46317802 TATTTTAATTAATCATGTTT
1 TATTTTAATTAATCTTAATT
46317822 TAGTTTTAATTAATCTTAATT
1 TA-TTTTAATTAATCTTAATT
* *
46317843 TA-CTTAATTAAGCTTAATT
1 TATTTTAATTAATCTTAATT
46317862 GTTAATTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
19 15 0.44
20 2 0.06
21 17 0.50
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (20 bp):
TATTTTAATTAATCTTAATT
Found at i:46323067 original size:21 final size:21
Alignment explanation
Indices: 46323043--46323089 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
46323033 AGATATTGTG
*
46323043 ATACCCAAAGTGGATATCGCT
1 ATACCCAAAATGGATATCGCT
*
46323064 ATACCCAAAATGGATATCGTT
1 ATACCCAAAATGGATATCGCT
46323085 ATACC
1 ATACC
46323090 ACTGTAGGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (21 bp):
ATACCCAAAATGGATATCGCT
Found at i:46329104 original size:79 final size:82
Alignment explanation
Indices: 46328993--46329177 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
46328983 GCTACTCGTT
* *
46328993 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
46329056 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
46329073 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
46329136 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
46329153 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
46329178 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:46329177 original size:40 final size:40
Alignment explanation
Indices: 46328974--46329177 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
46328964 CGGAATTTAA
** *
46328974 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
46329014 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
46329054 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
46329093 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
46329133 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
46329173 CCGGA
1 CCGGA
46329178 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:46332521 original size:15 final size:16
Alignment explanation
Indices: 46332492--46332521 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
46332482 CAAACATGCT
46332492 TTAACACATTATCAAA
1 TTAACACATTATCAAA
46332508 TTAACACA-TATCAA
1 TTAACACATTATCAA
46332522 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:46333021 original size:20 final size:20
Alignment explanation
Indices: 46332970--46333012 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
46332960 CTCTTTCAAA
* *
46332970 ATTTC-TTATTTTCATTTGC
1 ATTTCATTACTTTCAATTGC
46332989 ATTTCATTACTTTCAATTGC
1 ATTTCATTACTTTCAATTGC
46333009 ATTT
1 ATTT
46333013 ACTTTCTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.21, C:0.16, G:0.05, T:0.58
Consensus pattern (20 bp):
ATTTCATTACTTTCAATTGC
Found at i:46337717 original size:11 final size:11
Alignment explanation
Indices: 46337703--46337738 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
46337693 TAGAAAACTG
46337703 TAAAGAAAAAC
1 TAAAGAAAAAC
*
46337714 TAAAGAAAACC
1 TAAAGAAAAAC
46337725 TAAAG-AAAAC
1 TAAAGAAAAAC
46337735 TAAA
1 TAAA
46337739 CCTAAAACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.69, C:0.11, G:0.08, T:0.11
Consensus pattern (11 bp):
TAAAGAAAAAC
Found at i:46337749 original size:22 final size:22
Alignment explanation
Indices: 46337694--46337738 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
46337684 AAAAACTCCT
*
46337694 AGAAAACTGTAAAGAAAAACTAA
1 AGAAAAC-CTAAAGAAAAACTAA
46337717 AGAAAACCTAAAG-AAAACTAA
1 AGAAAACCTAAAGAAAAACTAA
46337738 A
1 A
46337739 CCTAAAACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.43
22 5 0.24
23 7 0.33
ACGTcount: A:0.67, C:0.11, G:0.11, T:0.11
Consensus pattern (22 bp):
AGAAAACCTAAAGAAAAACTAA
Found at i:46340929 original size:37 final size:37
Alignment explanation
Indices: 46340879--46340957 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
46340869 TTATTACGAA
* * *
46340879 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
46340916 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
46340953 GTCTT
1 GTCTT
46340958 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:46341154 original size:47 final size:47
Alignment explanation
Indices: 46341076--46341843 Score: 1340
Period size: 47 Copynumber: 16.3 Consensus size: 47
46341066 CCCTTCGGGA
* * * * * *
46341076 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
46341123 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46341170 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46341217 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46341266 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46341315 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46341362 C-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46341408 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46341455 CTTATCACATATATACACTTTCACATTCATCGCATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46341502 CTTATCACATATATACACTTTCACATTCATCGCATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46341549 CTTATCACATATATACACTTTCACATTCATCGCATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46341596 CTTATCACATATATACACTTTCACATTCATCGCATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46341643 CTTATCACATATATACACTTTCACATTCATCGCATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46341690 CTTATCACATATATACACTTTCACATTCATCGCATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46341737 CTTATCACATATATACACTTTCACATTCATCGCATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46341784 CTTATCACATATATACACTTTCACATTCATCGCATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46341831 CTTATCACATATA
1 CTTATCACATATA
46341844 AACTTATAAT
Statistics
Matches: 705, Mismatches: 13, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
46 46 0.07
47 565 0.80
49 94 0.13
ACGTcount: A:0.29, C:0.30, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:46345232 original size:40 final size:40
Alignment explanation
Indices: 46345206--46345471 Score: 399
Period size: 40 Copynumber: 6.7 Consensus size: 40
46345196 TGATTACTCT
* * * *
46345206 TCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCT
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
* * * *
46345246 TCGAGG-TTTAGCACGGATATATTACTAGCACGAATGCTCT
1 TCG-GGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
* *
46345286 TCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
46345326 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
* *
46345366 TCGGGACTTAGCCCAGATATATCACTAGCACGAATGCTGC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
*
46345406 TCGGGACTTAGCCCAGATATATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
46345446 TCGGGACTTAGCCCGGATATATCACT
1 TCGGGACTTAGCCCGGATATATCACT
46345472 CTCAATTCTC
Statistics
Matches: 206, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 1 0.00
40 203 0.99
41 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
Found at i:46346734 original size:37 final size:37
Alignment explanation
Indices: 46346684--46346762 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
46346674 TTATTACGAA
* * *
46346684 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
46346721 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
46346758 GTCTT
1 GTCTT
46346763 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:46346959 original size:47 final size:47
Alignment explanation
Indices: 46346881--46347592 Score: 1289
Period size: 47 Copynumber: 15.0 Consensus size: 47
46346871 CCCTTCGGGA
* * * * * *
46346881 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
46346928 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46346975 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46347022 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46347071 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46347120 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46347167 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46347216 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46347263 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46347310 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46347357 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46347404 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46347451 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46347498 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46347545 CTTATCACATATATACACTTTCATATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46347592 C
1 C
46347593 ATACTATCAT
Statistics
Matches: 650, Mismatches: 11, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
47 507 0.78
49 143 0.22
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:46352378 original size:57 final size:57
Alignment explanation
Indices: 46352211--46352465 Score: 257
Period size: 56 Copynumber: 4.5 Consensus size: 57
46352201 TTACTGTTTG
* * * * *
46352211 CATGCTATCATAAATTGAATTAAAGCTGTTGTTTGAGTGCATCAAATTGAGCATTTC
1 CATGCTGTCATAAATTGAATTAAAGCTGTTATTTTAGTGTATCAAATTGAGCATTTT
* * * * *
46352268 CTTACTGTCTTAAATTGAA-TCAAGCTGTTATTTTAGTGTTTCAAATTGAGCATTTT
1 CATGCTGTCATAAATTGAATTAAAGCTGTTATTTTAGTGTATCAAATTGAGCATTTT
* *
46352324 CATGCTGTCATAAATTGAATTAAAGTTGCTATTTTAGTGTATCAAATTGAGCATTTT
1 CATGCTGTCATAAATTGAATTAAAGCTGTTATTTTAGTGTATCAAATTGAGCATTTT
* * * * ** * * * *
46352381 CATGTTGTCTTAAATTAAATT-AACCTAATGTTTTAATGTTTCAAATTGAGTATTATT
1 CATGCTGTCATAAATTGAATTAAAGCTGTTATTTTAGTGTATCAAATTGAGCATT-TT
* *
46352438 -ATGCTGTCCTAAATTAAATTAAAG-TGTT
1 CATGCTGTCATAAATTGAATTAAAGCTGTT
46352466 GCTTCAGTGT
Statistics
Matches: 162, Mismatches: 33, Indels: 7
0.80 0.16 0.03
Matches are distributed among these distances:
56 92 0.57
57 70 0.43
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.43
Consensus pattern (57 bp):
CATGCTGTCATAAATTGAATTAAAGCTGTTATTTTAGTGTATCAAATTGAGCATTTT
Found at i:46352415 original size:113 final size:114
Alignment explanation
Indices: 46352211--46352462 Score: 310
Period size: 113 Copynumber: 2.2 Consensus size: 114
46352201 TTACTGTTTG
* * * * *
46352211 CATGCTATCATAAATTGAATTAAAGCTGTTGTTTGAGTGCATCAAATTGAGCATTTCCTTACTGT
1 CATGCTGTCATAAATTGAATTAAAGTTGCTATTTGAGTGCATCAAATTGAGCATTTCCATACTGT
* * ** *
46352276 CTTAAATTGAATCAAGCTGTTATTTTAGTGTTTCAAATTGAGCATT-TT
66 CTTAAATTAAATCAACCTAATATTTTAATGTTTCAAATTGAGCATTATT
* * * **
46352324 CATGCTGTCATAAATTGAATTAAAGTTGCTATTTTAGTGTATCAAATTGAGCATTTTCATGTTGT
1 CATGCTGTCATAAATTGAATTAAAGTTGCTATTTGAGTGCATCAAATTGAGCATTTCCATACTGT
* * *
46352389 CTTAAATTAAATTAACCTAATGTTTTAATGTTTCAAATTGAGTATTATT
66 CTTAAATTAAATCAACCTAATATTTTAATGTTTCAAATTGAGCATTATT
* *
46352438 -ATGCTGTCCTAAATTAAATTAAAGT
1 CATGCTGTCATAAATTGAATTAAAGT
46352463 GTTGCTTCAG
Statistics
Matches: 118, Mismatches: 20, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
113 116 0.98
114 2 0.02
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (114 bp):
CATGCTGTCATAAATTGAATTAAAGTTGCTATTTGAGTGCATCAAATTGAGCATTTCCATACTGT
CTTAAATTAAATCAACCTAATATTTTAATGTTTCAAATTGAGCATTATT
Found at i:46352481 original size:56 final size:56
Alignment explanation
Indices: 46352211--46352498 Score: 222
Period size: 56 Copynumber: 5.1 Consensus size: 56
46352201 TTACTGTTTG
* * * * ** *
46352211 CATGCTATCATAAATTGAATTAAAGCTGTTGTTTGAGTGCATCAAATTGAGCATTTC
1 CATGCTGTCATAAATTAAATTAAAG-TGATGTTTTAGTGTTTCAAATTGAGCATTTT
* * * * * * *
46352268 CTTACTGTCTTAAATTGAA-TCAAGCTGTTATTTTAGTGTTTCAAATTGAGCATTTT
1 CATGCTGTCATAAATTAAATTAAAG-TGATGTTTTAGTGTTTCAAATTGAGCATTTT
* * * *
46352324 CATGCTGTCATAAATTGAATTAAAGTTGCTATTTTAGTGTATCAAATTGAGCATTTT
1 CATGCTGTCATAAATTAAATTAAAG-TGATGTTTTAGTGTTTCAAATTGAGCATTTT
* * ** * * *
46352381 CATGTTGTCTTAAATTAAATTAACCTAATGTTTTAATGTTTCAAATTGAGTATTATT
1 CATGCTGTCATAAATTAAATTAAAGTGATGTTTTAGTGTTTCAAATTGAGCATT-TT
* * * * * * *
46352438 -ATGCTGTCCTAAATTAAATTAAAGTGTTGCTTCAGTGTCTCAAAGTAAGCATTATT
1 CATGCTGTCATAAATTAAATTAAAGTGATGTTTTAGTGTTTCAAATTGAGCATT-TT
46352494 -ATGCT
1 CATGCT
46352499 ATTGAAAAAT
Statistics
Matches: 188, Mismatches: 41, Indels: 5
0.80 0.18 0.02
Matches are distributed among these distances:
56 118 0.63
57 70 0.37
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (56 bp):
CATGCTGTCATAAATTAAATTAAAGTGATGTTTTAGTGTTTCAAATTGAGCATTTT
Found at i:46353354 original size:113 final size:113
Alignment explanation
Indices: 46353153--46353382 Score: 433
Period size: 113 Copynumber: 2.0 Consensus size: 113
46353143 GAAAAGTAAG
46353153 AATATTCATTATATTGATAAAGTACACCACATTCTCTTTTCGCTTATGTGCCTCCAATGTGATGA
1 AATATTCATTATATTGATAAAGTACACCACATTCTCTTTTCGCTTATGTGCCTCCAATGTGATGA
*
46353218 AAAATATAAGGAAATCAATAGTAAAATCTTGTTAAATGGTTTTCTTGA
66 AAAATATAAGGAAATCAAGAGTAAAATCTTGTTAAATGGTTTTCTTGA
*
46353266 AATATTCATTATATTGATAAAGTACACCACATTCTCTTTTGGCTTATGTGCCTCCAATGTGATGA
1 AATATTCATTATATTGATAAAGTACACCACATTCTCTTTTCGCTTATGTGCCTCCAATGTGATGA
*
46353331 AAATTATAAGGAAATCAAGAGTAAAATCTTGTTAAATGGTTTTCTTGA
66 AAAATATAAGGAAATCAAGAGTAAAATCTTGTTAAATGGTTTTCTTGA
46353379 AATA
1 AATA
46353383 CGTTAATAAT
Statistics
Matches: 114, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
113 114 1.00
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Consensus pattern (113 bp):
AATATTCATTATATTGATAAAGTACACCACATTCTCTTTTCGCTTATGTGCCTCCAATGTGATGA
AAAATATAAGGAAATCAAGAGTAAAATCTTGTTAAATGGTTTTCTTGA
Found at i:46366201 original size:25 final size:26
Alignment explanation
Indices: 46366173--46366222 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
46366163 AAAATCTACT
46366173 CTAAAAAGGAAAAAGAAAA-CCTAAA
1 CTAAAAAGGAAAAAGAAAATCCTAAA
* *
46366198 CTAAAAATGAAAAGGAAAATCCTAA
1 CTAAAAAGGAAAAAGAAAATCCTAA
46366223 CCCTAACCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.64, C:0.12, G:0.12, T:0.12
Consensus pattern (26 bp):
CTAAAAAGGAAAAAGAAAATCCTAAA
Found at i:46370262 original size:29 final size:29
Alignment explanation
Indices: 46370220--46370278 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
46370210 CTTTTCTTAG
46370220 CCATAGCACATTGGATAATAATTAATGTT
1 CCATAGCACATTGGATAATAATTAATGTT
46370249 CCATAGCACATTGGATAATAATTAATGTT
1 CCATAGCACATTGGATAATAATTAATGTT
46370278 C
1 C
46370279 AAAAGAAACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (29 bp):
CCATAGCACATTGGATAATAATTAATGTT
Found at i:46379563 original size:16 final size:16
Alignment explanation
Indices: 46379542--46379575 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
46379532 TTTCTTCCCC
46379542 AACTAAAAGTATAAAG
1 AACTAAAAGTATAAAG
46379558 AACTAAAAGTATAAAG
1 AACTAAAAGTATAAAG
46379574 AA
1 AA
46379576 ACCATAAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.65, C:0.06, G:0.12, T:0.18
Consensus pattern (16 bp):
AACTAAAAGTATAAAG
Found at i:46380675 original size:26 final size:29
Alignment explanation
Indices: 46380627--46380682 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 29
46380617 GATGTTGGTG
46380627 ATATTTTAAATAATATATATTAATAATAA
1 ATATTTTAAATAATATATATTAATAATAA
*
46380656 ATATTTT-GATAATAT-T-TTAATAATAA
1 ATATTTTAAATAATATATATTAATAATAA
46380682 A
1 A
46380683 ATGATATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 11 0.42
27 1 0.04
28 7 0.27
29 7 0.27
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (29 bp):
ATATTTTAAATAATATATATTAATAATAA
Found at i:46383545 original size:43 final size:43
Alignment explanation
Indices: 46383499--46383810 Score: 432
Period size: 43 Copynumber: 7.3 Consensus size: 43
46383489 TTTTTGAAAT
* *
46383499 AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTACCAT
1 AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * * *
46383542 AAACGCCGCTAAAGACCA-GTATCTTTAGCAGCACTTTTCCCAC
1 AAACGCCGCTATAGACCATG-ACCTTTAGCGGCGCTTTTCCCAC
* *
46383585 AAACGCCGCTAAAGACCAAT-ACCTTTAGCGGCGCTTTTCTCAC
1 AAACGCCGCTATAGACC-ATGACCTTTAGCGGCGCTTTTCCCAC
*
46383628 AAACGCCGCTATAGACCATGACCTTTAGCGGTGCTTTTCCCAC
1 AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTCCCAC
*
46383671 AAACGCCGCTATAGACCATGACCTTTAACGGCGCTTTTCCCAC
1 AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* *
46383714 AAACGCCGCTAAAGACCA-GTACCTTTAGCGACGCTTTTCCCAC
1 AAACGCCGCTATAGACCATG-ACCTTTAGCGGCGCTTTTCCCAC
* * * *
46383757 AAATGCCGCTATAGACCATGACCTTTAGCGACGCTTTTCACAA
1 AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTCCCAC
46383800 AAACGCCGCTA
1 AAACGCCGCTA
46383811 AACACTTATC
Statistics
Matches: 240, Mismatches: 23, Indels: 12
0.87 0.08 0.04
Matches are distributed among these distances:
42 4 0.02
43 234 0.98
44 2 0.01
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:46384134 original size:43 final size:43
Alignment explanation
Indices: 46384086--46384180 Score: 145
Period size: 43 Copynumber: 2.2 Consensus size: 43
46384076 ACATATGCAA
* * * *
46384086 GGTAATAAAATATACAATGCATTTTCTTAATCAAGTAAATCTT
1 GGTAATAAAAGATACAATACATTTACTTAATCAAGGAAATCTT
*
46384129 GGTAATAAAAGATATAATACATTTACTTAATCAAGGAAATCTT
1 GGTAATAAAAGATACAATACATTTACTTAATCAAGGAAATCTT
46384172 GGTAATAAA
1 GGTAATAAA
46384181 GTATCCTGAA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.34
Consensus pattern (43 bp):
GGTAATAAAAGATACAATACATTTACTTAATCAAGGAAATCTT
Found at i:46388240 original size:6 final size:6
Alignment explanation
Indices: 46388229--46388255 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
46388219 ATTTGGATAA
46388229 AAATTT AAATTT AAATTT AAATTT AAA
1 AAATTT AAATTT AAATTT AAATTT AAA
46388256 AACAAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (6 bp):
AAATTT
Found at i:46388443 original size:27 final size:27
Alignment explanation
Indices: 46388411--46388464 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
46388401 CATTCTTTTC
46388411 TCTTGTTTACATTCCCTTAATTAATTT
1 TCTTGTTTACATTCCCTTAATTAATTT
46388438 TCTTGTTTACATTCCCTTAATTAATTT
1 TCTTGTTTACATTCCCTTAATTAATTT
46388465 CAACATGTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.04, T:0.56
Consensus pattern (27 bp):
TCTTGTTTACATTCCCTTAATTAATTT
Found at i:46389080 original size:7 final size:7
Alignment explanation
Indices: 46389070--46389121 Score: 77
Period size: 7 Copynumber: 7.4 Consensus size: 7
46389060 CACTAACTCT
46389070 TAACCCC
1 TAACCCC
46389077 TAACCCC
1 TAACCCC
46389084 TAACCCC
1 TAACCCC
46389091 TAACCCC
1 TAACCCC
*
46389098 AAACCCC
1 TAACCCC
**
46389105 TAACTAC
1 TAACCCC
46389112 TAACCCC
1 TAACCCC
46389119 TAA
1 TAA
46389122 ACCTTATTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.35, C:0.50, G:0.00, T:0.15
Consensus pattern (7 bp):
TAACCCC
Found at i:46389086 original size:21 final size:20
Alignment explanation
Indices: 46389062--46389121 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 20
46389052 CCTTAAATCA
46389062 CTAACTCTTAACCCCTAACCC
1 CTAACTC-TAACCCCTAACCC
* *
46389083 CTAACCCCTAACCCCAAACCC
1 CTAA-CTCTAACCCCTAACCC
46389104 CTAACTACTAACCCCTAA
1 CTAACT-CTAACCCCTAA
46389122 ACCTTATTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.03
21 30 0.91
22 2 0.06
ACGTcount: A:0.33, C:0.48, G:0.00, T:0.18
Consensus pattern (20 bp):
CTAACTCTAACCCCTAACCC
Found at i:46389201 original size:13 final size:13
Alignment explanation
Indices: 46389165--46389211 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
46389155 TTAATTTAAA
46389165 CCCTAAACCCTAA-
1 CCCT-AACCCTAAC
*
46389178 CCCGAATCCCTAAC
1 CCCTAA-CCCTAAC
46389192 CCCTAACCCTTAAC
1 CCCTAACCC-TAAC
46389206 CCCTAA
1 CCCTAA
46389212 ATCACAACCC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 2 0.07
13 12 0.41
14 15 0.52
ACGTcount: A:0.32, C:0.49, G:0.02, T:0.17
Consensus pattern (13 bp):
CCCTAACCCTAAC
Found at i:46389624 original size:19 final size:20
Alignment explanation
Indices: 46389598--46389643 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
46389588 ATAGAATTTT
46389598 AATT-AATA-TAAATAAACA
1 AATTAAATAGTAAATAAACA
* *
46389616 AATTAAATAGTAATTAGACA
1 AATTAAATAGTAAATAAACA
*
46389636 AATAAAAT
1 AATTAAAT
46389644 GTTTTTGCGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 4 0.17
19 4 0.17
20 15 0.65
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.28
Consensus pattern (20 bp):
AATTAAATAGTAAATAAACA
Found at i:46389711 original size:41 final size:41
Alignment explanation
Indices: 46389650--46389842 Score: 248
Period size: 41 Copynumber: 4.7 Consensus size: 41
46389640 AAATGTTTTT
46389650 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
* * *
46389691 GCGGCGCTTTTCCAAGAACGCCGCTAAAGACCTGAGCGTTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
*
46389732 GCGGCGC--TTCACAGAAAACGCCGCTAAAGCCCTA-AGCATTA
1 GCGGCGCTTTTC-CA-AAAACGCCGCTAAAGACC-AGAGCATTA
* * * *
46389773 GCGGCGCTTCTCCAAAAACGGCGCTAAAGACCCGAGAATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
**
46389814 GCGGCGCTTTTATAAAAACGCCGCTAAAG
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAG
46389843 CCCCAAAAGG
Statistics
Matches: 130, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 3 0.02
40 2 0.02
41 121 0.93
42 2 0.02
43 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.24, T:0.17
Consensus pattern (41 bp):
GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
Found at i:46394995 original size:16 final size:16
Alignment explanation
Indices: 46394944--46394986 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
46394934 ATTAAAATGT
*
46394944 ATAATATATAACATATAA
1 ATAATATTTAA-A-ATAA
*
46394962 GTAATATTTAAAATAA
1 ATAATATTTAAAATAA
46394978 ATAATATTT
1 ATAATATTT
46394987 TATAAAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 12 0.55
17 1 0.05
18 9 0.41
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (16 bp):
ATAATATTTAAAATAA
Found at i:46395716 original size:44 final size:46
Alignment explanation
Indices: 46395666--46395764 Score: 130
Period size: 52 Copynumber: 2.1 Consensus size: 46
46395656 TACAAGATAG
46395666 AAAATTATTTT-AAG-ACATTTGGAAATTTAAAATGACATATATAT
1 AAAATTATTTTAAAGAACATTTGGAAATTTAAAATGACATATATAT
46395710 AAAATTATTTTAAAAGAACTTAACATTTGGAAATTTAAAATGACATATATAT
1 AAAATTATTTT-AAAG-----AACATTTGGAAATTTAAAATGACATATATAT
46395762 AAA
1 AAA
46395765 TATATGATAA
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
44 11 0.23
46 3 0.06
52 33 0.70
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.36
Consensus pattern (46 bp):
AAAATTATTTTAAAGAACATTTGGAAATTTAAAATGACATATATAT
Found at i:46396734 original size:124 final size:124
Alignment explanation
Indices: 46396592--46396845 Score: 508
Period size: 124 Copynumber: 2.0 Consensus size: 124
46396582 ACATAATTAG
46396592 AAGGTTTCTAAAGTTACTTTGAAGTTTAGTTAATGAATTCTCAAGTTTTAATGAATTTTCATCAT
1 AAGGTTTCTAAAGTTACTTTGAAGTTTAGTTAATGAATTCTCAAGTTTTAATGAATTTTCATCAT
46396657 AATGGCCAAAACTTGTAAAAAAATTTGAAACCTTGAAACATGTAGTTTTGTATAGTTTA
66 AATGGCCAAAACTTGTAAAAAAATTTGAAACCTTGAAACATGTAGTTTTGTATAGTTTA
46396716 AAGGTTTCTAAAGTTACTTTGAAGTTTAGTTAATGAATTCTCAAGTTTTAATGAATTTTCATCAT
1 AAGGTTTCTAAAGTTACTTTGAAGTTTAGTTAATGAATTCTCAAGTTTTAATGAATTTTCATCAT
46396781 AATGGCCAAAACTTGTAAAAAAATTTGAAACCTTGAAACATGTAGTTTTGTATAGTTTA
66 AATGGCCAAAACTTGTAAAAAAATTTGAAACCTTGAAACATGTAGTTTTGTATAGTTTA
46396840 AAGGTT
1 AAGGTT
46396846 GAGAATTAGT
Statistics
Matches: 130, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
124 130 1.00
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.39
Consensus pattern (124 bp):
AAGGTTTCTAAAGTTACTTTGAAGTTTAGTTAATGAATTCTCAAGTTTTAATGAATTTTCATCAT
AATGGCCAAAACTTGTAAAAAAATTTGAAACCTTGAAACATGTAGTTTTGTATAGTTTA
Found at i:46410577 original size:29 final size:29
Alignment explanation
Indices: 46410535--46410590 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
46410525 AAATTTTGTT
* *
46410535 CTTTTGTTTGATG-ATTGTGATACTATTCC
1 CTTTTGGTTAATGAATT-TGATACTATTCC
*
46410564 CTTTTGGTTAATGAATTTGATTCTATT
1 CTTTTGGTTAATGAATTTGATACTATT
46410591 TTATCCCCCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 20 0.87
30 3 0.13
ACGTcount: A:0.20, C:0.11, G:0.16, T:0.54
Consensus pattern (29 bp):
CTTTTGGTTAATGAATTTGATACTATTCC
Found at i:46410992 original size:24 final size:25
Alignment explanation
Indices: 46410946--46410992 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
46410936 ACTAAAAAAT
* *
46410946 CTTGCTAACTTCCTGCATTTGTCAC
1 CTTGCAAACTTCCAGCATTTGTCAC
46410971 CTTGCAAAC-TCCAGCATTTGTC
1 CTTGCAAACTTCCAGCATTTGTC
46410993 GTAGCTTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.19, C:0.32, G:0.13, T:0.36
Consensus pattern (25 bp):
CTTGCAAACTTCCAGCATTTGTCAC
Found at i:46444742 original size:20 final size:20
Alignment explanation
Indices: 46444714--46444751 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
46444704 AACTATCATG
*
46444714 TTTTCTTTATTTTATTAACC
1 TTTTATTTATTTTATTAACC
46444734 TTTTATTTATTTTATTAA
1 TTTTATTTATTTTATTAA
46444752 TAAAATAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTATTTATTTTATTAACC
Found at i:46447907 original size:47 final size:47
Alignment explanation
Indices: 46447836--46448287 Score: 760
Period size: 47 Copynumber: 9.6 Consensus size: 47
46447826 CCCTTCGGGA
* * * * * *
46447836 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
46447883 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46447930 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46447977 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46448024 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46448071 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
46448118 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46448167 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46448214 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46448261 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
46448288 TATTCAAATA
Statistics
Matches: 388, Mismatches: 15, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 343 0.88
49 45 0.12
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:46447914 original size:25 final size:25
Alignment explanation
Indices: 46447886--46447964 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
46447876 ACTCGGCCCT
46447886 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
46447911 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
46447933 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
46447958 ATCACAT
1 ATCACAT
46447965 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:46448249 original size:237 final size:235
Alignment explanation
Indices: 46447836--46448287 Score: 823
Period size: 237 Copynumber: 1.9 Consensus size: 235
46447826 CCCTTCGGGA
* * * *
46447836 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
46447901 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATC
46447966 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCA
131 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCA
46448031 CATATATACACTTTCACATTCATCACATCGGCTATTAGGC
196 CATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* * *
46448071 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCAC--ATATATAC
46448136 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
46448201 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
129 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
46448266 CACATATATACACTTTCACATT
194 CACATATATACACTTTCACATT
46448288 TATTCAAATA
Statistics
Matches: 208, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
235 48 0.23
237 160 0.77
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (235 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCA
CATATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:46454261 original size:12 final size:11
Alignment explanation
Indices: 46454233--46454262 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
46454223 TAAATTTTTT
46454233 TATTTTTAAAA
1 TATTTTTAAAA
46454244 TATTTTTAAAA
1 TATTTTTAAAA
46454255 TACTTTTT
1 TA-TTTTT
46454263 TTATTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:46454605 original size:21 final size:20
Alignment explanation
Indices: 46454554--46454606 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
46454544 TGTGTAATTA
* * *
46454554 AATTGTATTTATATGTTTTT
1 AATTGTATATATATGTTATG
*
46454574 AATTGAAATATATATGTTATG
1 AATTG-TATATATATGTTATG
46454595 AATTGTCATATA
1 AATTGT-ATATA
46454607 AAATTACCGA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 5 0.19
21 21 0.81
ACGTcount: A:0.36, C:0.02, G:0.11, T:0.51
Consensus pattern (20 bp):
AATTGTATATATATGTTATG
Found at i:46454812 original size:25 final size:25
Alignment explanation
Indices: 46454773--46454930 Score: 119
Period size: 25 Copynumber: 6.3 Consensus size: 25
46454763 CGGATACTCC
* * *
46454773 ACAGCTCGTGTGAGCATA-TCGATTT
1 ACAGCTCGAGAGAGCATACT-GATCT
*
46454798 ATAGCTCGAGAGAGCATAACTGATCT
1 ACAGCTCGAGAGAGCAT-ACTGATCT
46454824 ACAGCTCGAGTA-AGCATACTGATCT
1 ACAGCTCGAG-AGAGCATACTGATCT
* * * *
46454849 AGAGATTGAGTA-AGCATA-TAGATTT
1 ACAGCTCGAG-AGAGCATACT-GATCT
* *
46454874 ATAGCTCGAGAGAGTATACTGATCT
1 ACAGCTCGAGAGAGCATACTGATCT
* *
46454899 ACAGCTCGAGTGAGCATACCGAT-T
1 ACAGCTCGAGAGAGCATACTGATCT
46454923 CACAGCTC
1 -ACAGCTC
46454931 ATATGAGTAT
Statistics
Matches: 108, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
24 3 0.03
25 83 0.77
26 20 0.19
27 2 0.02
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.26
Consensus pattern (25 bp):
ACAGCTCGAGAGAGCATACTGATCT
Found at i:46459693 original size:21 final size:21
Alignment explanation
Indices: 46459632--46459693 Score: 52
Period size: 21 Copynumber: 3.0 Consensus size: 21
46459622 CTTTCTGTTT
* * *
46459632 AGCTTTTTCGAGCTTCTGTTT
1 AGCTCTTTCGAGCTTCCGTTC
* * * * *
46459653 AACTCATACGAGTTTTCGTTC
1 AGCTCTTTCGAGCTTCCGTTC
46459674 AGCTCTTTCGAGCTTCCGTT
1 AGCTCTTTCGAGCTTCCGTT
46459694 TAACCCTTAT
Statistics
Matches: 28, Mismatches: 13, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (21 bp):
AGCTCTTTCGAGCTTCCGTTC
Found at i:46459715 original size:42 final size:42
Alignment explanation
Indices: 46459623--46459751 Score: 134
Period size: 42 Copynumber: 3.1 Consensus size: 42
46459613 CATGTTTTAC
* * * * * * *
46459623 TTTCTGTTTAGCTTTTTCGAGCTTCTGTTTAACTCATACGAG
1 TTTCCGTTCAGCTCTTTCGAGCTTCTGTTTAACCCTTATGGG
* *
46459665 TTTTCGTTCAGCTCTTTCGAGCTTCCGTTTAACCCTTATGGG
1 TTTCCGTTCAGCTCTTTCGAGCTTCTGTTTAACCCTTATGGG
* * *
46459707 TTTCCGTTCTA-CTCTTACAAGCTTCTGTTCAACCCTTATGGG
1 TTTCCGTTC-AGCTCTTTCGAGCTTCTGTTTAACCCTTATGGG
46459749 TTT
1 TTT
46459752 AGGTCTCATA
Statistics
Matches: 72, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
42 71 0.99
43 1 0.01
ACGTcount: A:0.15, C:0.24, G:0.16, T:0.45
Consensus pattern (42 bp):
TTTCCGTTCAGCTCTTTCGAGCTTCTGTTTAACCCTTATGGG
Found at i:46461810 original size:20 final size:20
Alignment explanation
Indices: 46461767--46461808 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
46461757 TAAAGAAAGT
46461767 AAATGCAATGGAAAGTAATG
1 AAATGCAATGGAAAGTAATG
46461787 AAATGCAAAT-GAAAGTAA-G
1 AAATGC-AATGGAAAGTAATG
46461806 AAA
1 AAA
46461809 ATTTGGAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 14 0.67
21 3 0.14
ACGTcount: A:0.57, C:0.05, G:0.21, T:0.17
Consensus pattern (20 bp):
AAATGCAATGGAAAGTAATG
Found at i:46464676 original size:23 final size:23
Alignment explanation
Indices: 46464618--46464783 Score: 102
Period size: 23 Copynumber: 7.1 Consensus size: 23
46464608 AAAATAGTAA
* * *
46464618 GTATACTTGGTTTTTTTTGGAGG
1 GTATAATTGGTTGTGTTTGGAGG
* *
46464641 TTATATATATGGTTGTGTATGGAGG
1 GTATA-AT-TGGTTGTGTTTGGAGG
*
46464666 GTATACTTGGTTG-GTTTTGGAGG
1 GTATAATTGGTTGTG-TTTGGAGG
* ** *
46464689 TTATAAATAAAGTTGTGTTTGAAGG
1 GTAT-AAT-TGGTTGTGTTTGGAGG
46464714 GTATAATTGGTTGTG-TTGGAGG
1 GTATAATTGGTTGTGTTTGGAGG
** * *
46464736 GTATGTTTAGTTGTGTTTGGAAG
1 GTATAATTGGTTGTGTTTGGAGG
* ** * *
46464759 ATATGTTTGGTTATGTTTGGTGG
1 GTATAATTGGTTGTGTTTGGAGG
46464782 GT
1 GT
46464784 GATAGTTTTA
Statistics
Matches: 109, Mismatches: 27, Indels: 14
0.73 0.18 0.09
Matches are distributed among these distances:
22 19 0.17
23 51 0.47
24 7 0.06
25 31 0.28
26 1 0.01
ACGTcount: A:0.19, C:0.01, G:0.34, T:0.46
Consensus pattern (23 bp):
GTATAATTGGTTGTGTTTGGAGG
Found at i:46464689 original size:48 final size:47
Alignment explanation
Indices: 46464618--46464735 Score: 146
Period size: 48 Copynumber: 2.5 Consensus size: 47
46464608 AAAATAGTAA
* * ** *
46464618 GTATACTTGGTTTTTTTTGGAGGTTATATATATGGTTGTGTATGGAGG
1 GTATACTTGG-TTGTTTTGGAGGTTATAAATAAAGTTGTGTATGAAGG
*
46464666 GTATACTTGGTTGGTTTTGGAGGTTATAAATAAAGTTGTGTTTGAAGG
1 GTATACTTGGTT-GTTTTGGAGGTTATAAATAAAGTTGTGTATGAAGG
* *
46464714 GTATAATTGGTTGTGTTGGAGG
1 GTATACTTGGTTGTTTTGGAGG
46464736 GTATGTTTAG
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
47 11 0.18
48 50 0.82
ACGTcount: A:0.21, C:0.02, G:0.33, T:0.44
Consensus pattern (47 bp):
GTATACTTGGTTGTTTTGGAGGTTATAAATAAAGTTGTGTATGAAGG
Found at i:46465085 original size:21 final size:21
Alignment explanation
Indices: 46465059--46465099 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
46465049 AATAAACACC
*
46465059 AAAAAATTATTTTAAAAATAA
1 AAAAAAGTATTTTAAAAATAA
46465080 AAAAAAGTATTTTAAAAATA
1 AAAAAAGTATTTTAAAAATA
46465100 TTTTAAAATA
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:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (21 bp):
AAAAAAGTATTTTAAAAATAA
Found at i:46468428 original size:3 final size:3
Alignment explanation
Indices: 46468420--46468452 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
46468410 ATAAGTAAAT
46468420 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
46468453 CAAAGCTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:46470260 original size:37 final size:36
Alignment explanation
Indices: 46470207--46470281 Score: 105
Period size: 37 Copynumber: 2.1 Consensus size: 36
46470197 GTTCCACTGC
* * *
46470207 AACGCCAGGGAAATAAGATTTGCTGTCTTCAGTCTTT
1 AACGCCAGAGAAATAAGATTCGCTGCCTTCAG-CTTT
*
46470244 AACGCCAGAGAGATAAGATTCGCTGCCTTCAGCTTT
1 AACGCCAGAGAAATAAGATTCGCTGCCTTCAGCTTT
46470280 AA
1 AA
46470282 TCTACTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
36 6 0.18
37 28 0.82
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.28
Consensus pattern (36 bp):
AACGCCAGAGAAATAAGATTCGCTGCCTTCAGCTTT
Found at i:46470430 original size:102 final size:102
Alignment explanation
Indices: 46470254--46470493 Score: 372
Period size: 102 Copynumber: 2.4 Consensus size: 102
46470244 AACGCCAGAG
* * *
46470254 AGATAAGATTCGCTGCCTTCAGCTTTAATCTACTCCGCTGCAACGCCAGGGAAACAAGATTCTCT
1 AGATAGGATTCGCTGCCTTCAGCTTTAATCTACTCCGCTACAACACCAGGGAAACAAGATTCTCT
* * *
46470319 ACCTTTAGCTTTAATCTGTTCCACTGTAATGCCAAGA
66 ACCTTTAGCTTTAATCTATTCCACTATAAGGCCAAGA
* * * *
46470356 AGATAGGATTCGCTGCCTTTAGCTTTAATCTGCTCTGCTATAACACCAGGGAAACAAGATTCTCT
1 AGATAGGATTCGCTGCCTTCAGCTTTAATCTACTCCGCTACAACACCAGGGAAACAAGATTCTCT
*
46470421 ACCTTTAGCTTTAATCTATTCCACTATAAGGCCAAGG
66 ACCTTTAGCTTTAATCTATTCCACTATAAGGCCAAGA
*
46470458 AGATAGGATTCGCTGCCTTCAGCTTTAATCCACTCC
1 AGATAGGATTCGCTGCCTTCAGCTTTAATCTACTCC
46470494 ACTTCAGCTT
Statistics
Matches: 123, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
102 123 1.00
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (102 bp):
AGATAGGATTCGCTGCCTTCAGCTTTAATCTACTCCGCTACAACACCAGGGAAACAAGATTCTCT
ACCTTTAGCTTTAATCTATTCCACTATAAGGCCAAGA
Found at i:46470495 original size:51 final size:51
Alignment explanation
Indices: 46470243--46470496 Score: 231
Period size: 51 Copynumber: 5.0 Consensus size: 51
46470233 CTTCAGTCTT
* * *
46470243 TAACGCC-AGAGAGATAAGATTCGCTGCCTTCAGCTTTAATCTACTCCGCTG
1 TAACGCCAAG-GAGATAAGATTCGCTGCCTTTAGCTTTAATCTACTCCACTA
* * * * * * ** *
46470294 CAACGCCAGGGAAACAAGATTCTCTACCTTTAGCTTTAATCTGTTCCACTG
1 TAACGCCAAGGAGATAAGATTCGCTGCCTTTAGCTTTAATCTACTCCACTA
* * * * **
46470345 TAATGCCAAGAAGATAGGATTCGCTGCCTTTAGCTTTAATCTGCTCTGCTA
1 TAACGCCAAGGAGATAAGATTCGCTGCCTTTAGCTTTAATCTACTCCACTA
* * * * * * *
46470396 TAACACCAGGGAAACAAGATTCTCTACCTTTAGCTTTAATCTATTCCACTA
1 TAACGCCAAGGAGATAAGATTCGCTGCCTTTAGCTTTAATCTACTCCACTA
* * * *
46470447 TAAGGCCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCCACTCCACT
1 TAACGCCAAGGAGATAAGATTCGCTGCCTTTAGCTTTAATCTACTCCACT
46470497 TCAGCTTTAA
Statistics
Matches: 155, Mismatches: 47, Indels: 2
0.76 0.23 0.01
Matches are distributed among these distances:
51 154 0.99
52 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.30
Consensus pattern (51 bp):
TAACGCCAAGGAGATAAGATTCGCTGCCTTTAGCTTTAATCTACTCCACTA
Found at i:46470577 original size:51 final size:51
Alignment explanation
Indices: 46470499--46470660 Score: 198
Period size: 51 Copynumber: 3.2 Consensus size: 51
46470489 ACTCCACTTC
* * *
46470499 AGCTTTAATCTATTCCAGTGCAACGCCAGGGAAATATGATTCGCTACCTTT
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTACCTTT
* * * *
46470550 AACTTTAATCTGTTCCACTGCAACGCCAGAGAAACAAGATTCTCTACCTTT
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTACCTTT
* * * * * * *
46470601 AGCTTTAATCTGTTCCACTGTAACGCTAAGGAGATAGGATTCGCTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTACCTTT
46470652 AGCTTTAAT
1 AGCTTTAAT
46470661 TATCTCCACT
Statistics
Matches: 93, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 93 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (51 bp):
AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTACCTTT
Found at i:46470619 original size:174 final size:174
Alignment explanation
Indices: 46470325--46470765 Score: 598
Period size: 174 Copynumber: 2.5 Consensus size: 174
46470315 CTCTACCTTT
* * * * * * * *
46470325 AGCTTTAATCTGTTCCACTGTAATGCCA-AGAAGATAGGATTCGCTGCCTTTAGCTTTAATCTGC
1 AGCTTTAATCTATTCCAGTGCAACGCCAGGGAA-ATAAGATTCGCTACCTTTAGCTTTAATCTGT
** ** * * *
46470389 TCTGCTATAACACCAGGGAAACAAGATTCTCTACCTTTAGCTTTAATCTATTCCACTATAAGGCC
65 TCCACTGCAACGCCAGAGAAACAAGATTCTCTACCTTTAGCTTTAATCTATTCCACTATAACGCC
46470454 AAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCCA-CTCCACTTC
130 AAGGAGATAGGATTCGCTGCCTTCAGCTTTAAT-CATCTCCACTTC
* *
46470499 AGCTTTAATCTATTCCAGTGCAACGCCAGGGAAATATGATTCGCTACCTTTAACTTTAATCTGTT
1 AGCTTTAATCTATTCCAGTGCAACGCCAGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGTT
* * *
46470564 CCACTGCAACGCCAGAGAAACAAGATTCTCTACCTTTAGCTTTAATCTGTTCCACTGTAACGCTA
66 CCACTGCAACGCCAGAGAAACAAGATTCTCTACCTTTAGCTTTAATCTATTCCACTATAACGCCA
*
46470629 AGGAGATAGGATTCGCTGCCTTCAGCTTTAATTATCTCCACTTC
131 AGGAGATAGGATTCGCTGCCTTCAGCTTTAATCATCTCCACTTC
* * * *
46470673 AGCTTTCATCTATTCTAGTGCAACGCTAGGGAAATAAGATTCGCTATCTTTAGCTTTAATCTGTT
1 AGCTTTAATCTATTCCAGTGCAACGCCAGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGTT
* * *
46470738 CCACGGCAATGCCAGAGAAAAAAGATTC
66 CCACTGCAACGCCAGAGAAACAAGATTC
46470766 GCTGCCTACA
Statistics
Matches: 236, Mismatches: 29, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
173 1 0.00
174 232 0.98
175 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (174 bp):
AGCTTTAATCTATTCCAGTGCAACGCCAGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGTT
CCACTGCAACGCCAGAGAAACAAGATTCTCTACCTTTAGCTTTAATCTATTCCACTATAACGCCA
AGGAGATAGGATTCGCTGCCTTCAGCTTTAATCATCTCCACTTC
Found at i:46472141 original size:12 final size:12
Alignment explanation
Indices: 46472124--46472148 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46472114 TCTTTCTGAT
46472124 TATTATTTTTTA
1 TATTATTTTTTA
46472136 TATTATTTTTTA
1 TATTATTTTTTA
46472148 T
1 T
46472149 GACTCAAAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TATTATTTTTTA
Found at i:46472209 original size:45 final size:44
Alignment explanation
Indices: 46472141--46472273 Score: 187
Period size: 44 Copynumber: 3.0 Consensus size: 44
46472131 TTTTATATTA
*
46472141 TTTTTTATG-ACTCAAAGCACCCTTTGCGGGTTTTCACCTTGGTC
1 TTTTTTA-GAACTCAAAGCGCCCTTTGCGGGTTTTCACCTTGGTC
* * *
46472185 TTTTTTTAGAACTTAAGGCGCCCTTTGCGGGTTTTCACCTTAGTC
1 -TTTTTTAGAACTCAAAGCGCCCTTTGCGGGTTTTCACCTTGGTC
**
46472230 TTTTTTAGAACTCAAAGCGCCCTTTGCAAGTTTTCACCTTGGTC
1 TTTTTTAGAACTCAAAGCGCCCTTTGCGGGTTTTCACCTTGGTC
46472274 CCTTCTCTTT
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
44 40 0.51
45 38 0.49
ACGTcount: A:0.17, C:0.24, G:0.18, T:0.41
Consensus pattern (44 bp):
TTTTTTAGAACTCAAAGCGCCCTTTGCGGGTTTTCACCTTGGTC
Found at i:46472250 original size:44 final size:45
Alignment explanation
Indices: 46472141--46472269 Score: 181
Period size: 45 Copynumber: 2.9 Consensus size: 45
46472131 TTTTATATTA
* *
46472141 TTTTTTATG-ACTCAAAGCACCCTTTGCGGGTTTTCACCTTGGTCT
1 TTTTTTA-GAACTCAAAGCGCCCTTTGCGGGTTTTCACCTTAGTCT
* *
46472186 TTTTTTAGAACTTAAGGCGCCCTTTGCGGGTTTTCACCTTAGTC-
1 TTTTTTAGAACTCAAAGCGCCCTTTGCGGGTTTTCACCTTAGTCT
**
46472230 TTTTTTAGAACTCAAAGCGCCCTTTGCAAGTTTTCACCTT
1 TTTTTTAGAACTCAAAGCGCCCTTTGCGGGTTTTCACCTT
46472270 GGTCCCTTCT
Statistics
Matches: 75, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
44 37 0.49
45 38 0.51
ACGTcount: A:0.18, C:0.24, G:0.17, T:0.41
Consensus pattern (45 bp):
TTTTTTAGAACTCAAAGCGCCCTTTGCGGGTTTTCACCTTAGTCT
Found at i:46473200 original size:11 final size:11
Alignment explanation
Indices: 46473176--46473214 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
46473166 TCTCCTATTT
46473176 TTTTTCCTTTTC
1 TTTTT-CTTTTC
*
46473188 TTTTTCTTCTC
1 TTTTTCTTTTC
46473199 TTTTTCTTTTC
1 TTTTTCTTTTC
46473210 TTTTT
1 TTTTT
46473215 TTCATCATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 20 0.80
12 5 0.20
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTCTTTTC
Found at i:46473207 original size:22 final size:22
Alignment explanation
Indices: 46473176--46473236 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
46473166 TCTCCTATTT
46473176 TTTTTCCTTTTCTTTTTCTTC-TC
1 TTTTT-CTTTTCTTTTT-TTCATC
46473199 TTTTTCTTTTCTTTTTTTCATC
1 TTTTTCTTTTCTTTTTTTCATC
* *
46473221 ATTTTCATTT-TTTTTT
1 TTTTTCTTTTCTTTTTT
46473237 GAAATATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 9 0.26
22 21 0.60
23 5 0.14
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTTTCTTTTCTTTTTTTCATC
Found at i:46476771 original size:16 final size:16
Alignment explanation
Indices: 46476752--46476786 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
46476742 TTTTATAATG
* *
46476752 AAATGTCATGCAGTCA
1 AAATGCCATGCAATCA
46476768 AAATGCCATGCAATCA
1 AAATGCCATGCAATCA
46476784 AAA
1 AAA
46476787 CAAAACACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.46, C:0.20, G:0.14, T:0.20
Consensus pattern (16 bp):
AAATGCCATGCAATCA
Found at i:46485134 original size:7 final size:7
Alignment explanation
Indices: 46485122--46485179 Score: 75
Period size: 7 Copynumber: 8.3 Consensus size: 7
46485112 CAAAAAAATG
46485122 TGAAAAA
1 TGAAAAA
46485129 TGAAAAAA
1 TG-AAAAA
46485137 TG-AAAA
1 TGAAAAA
46485143 TGAAAAA
1 TGAAAAA
*
46485150 TGAAAAC
1 TGAAAAA
46485157 TGAAAAA
1 TGAAAAA
46485164 TGAAAAA
1 TGAAAAA
46485171 -GCAAAAA
1 TG-AAAAA
46485178 TG
1 TG
46485180 GAGAGGCCAA
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
6 7 0.16
7 30 0.67
8 8 0.18
ACGTcount: A:0.67, C:0.03, G:0.16, T:0.14
Consensus pattern (7 bp):
TGAAAAA
Found at i:46486640 original size:100 final size:100
Alignment explanation
Indices: 46486467--46487251 Score: 1072
Period size: 100 Copynumber: 7.8 Consensus size: 100
46486457 AATACCAGTT
* * * * * *
46486467 TTACTTCCCAGGCGATGCAATGGAACAGATTAAAGCCAC-ATCGGTGAATCTTGCCTCCCCGACA
1 TTACTCCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACAAT-GGCGAATCTTGCTTCCCCGACA
* * *
46486531 TTGTAGTTAAAAAGATTAAAGCAACAACAGTGAATC
65 TTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
* * ** * * *
46486567 TTACTCCCTAGGCAATGCAATGGAATAGATTAAAGCCAC-ATCGGTGAATCTTGCTTCCCCGACA
1 TTACTCCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACAAT-GGCGAATCTTGCTTCCCCGACA
* * *
46486631 TTGCAGTTAAAAAGATTAAAGCTACAATAGCAAATG
65 TTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
46486667 TTACTCCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACAATGGCGAATCTTGCTTCCCCGACAT
1 TTACTCCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACAATGGCGAATCTTGCTTCCCCGACAT
46486732 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
66 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
* * * * *
46486767 TTACTCCCTAGGCGATGCAGTGGAACAGATTAAAGCCAC-ATCGGTGAATCTTACTTCCCCGACA
1 TTACTCCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACAAT-GGCGAATCTTGCTTCCCCGACA
*
46486831 TTGCAGTTAAAAAGATTAAAGCTACAACAGTGAATC
65 TTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
*
46486867 TTACTCCCCAAGCGGTGCAGTGGAATAGATTAAAGCCACAATGGCGAATCTTGCTTCCCCGACAT
1 TTACTCCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACAATGGCGAATCTTGCTTCCCCGACAT
*
46486932 TGCAGTTAAAAAGATTAAAACTACAACAGCGAATC
66 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
* *
46486967 TTACTCCCCAAGCAGTGCAGTGGAACAGATTAAAGCCACAATGGCGAACCTTGCTTCCCCGACAT
1 TTACTCCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACAATGGCGAATCTTGCTTCCCCGACAT
*
46487032 TGCAGTTAAAAAGATTAAAGCTACAACAACGAATC
66 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
* ** * * * *
46487067 TTACTTCTTAAGCGGTGCAGTGGAACAGATTAACGCCACAATGGTGAATCTTGCTTCCCCAATAT
1 TTACTCCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACAATGGCGAATCTTGCTTCCCCGACAT
*
46487132 TGCAGTTAGAAAGATTAAAGCTACAACAGCGAATC
66 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
* * * * * * ** *
46487167 TTACTTCCCAGGCGGTGTAGTGGAACAAATTGAAGCTACAACAGCGAATCTTGCTTCCTCGACAT
1 TTACTCCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACAATGGCGAATCTTGCTTCCCCGACAT
** *
46487232 CACAGTTAAACAGATTAAAG
66 TGCAGTTAAAAAGATTAAAG
46487252 TTACGAGTTA
Statistics
Matches: 613, Mismatches: 69, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
99 2 0.00
100 607 0.99
101 4 0.01
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (100 bp):
TTACTCCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACAATGGCGAATCTTGCTTCCCCGACAT
TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
Found at i:46487203 original size:50 final size:50
Alignment explanation
Indices: 46486467--46487224 Score: 475
Period size: 50 Copynumber: 15.2 Consensus size: 50
46486457 AATACCAGTT
* * * * *
46486467 TTACTTCCCAGGC-GATGCAATGGAACAGATTAAAGCCACATCGGTGAATC
1 TTACTTCCCAGGCAG-TGCAGTGGAACAGATTAAAGCTACAACAGCGAATC
* * * * * * ** * * *
46486517 TTGCCTCCCCGACATTGTAGTTAAAAAGATTAAAGCAACAACAGTGAATC
1 TTACTTCCCAGGCAGTGCAGTGGAACAGATTAAAGCTACAACAGCGAATC
* * * * * * *
46486567 TTAC-TCCCTAGGCAATGCAATGGAATAGATTAAAGCCACATCGGTGAATC
1 TTACTTCCC-AGGCAGTGCAGTGGAACAGATTAAAGCTACAACAGCGAATC
* * * * ** * * * *
46486617 TTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAATAGCAAATG
1 TTACTTCCCAGGCAGTGCAGTGGAACAGATTAAAGCTACAACAGCGAATC
* * * * **
46486667 TTACTCCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACAATGGCGAATC
1 TTACTTCCCAGGCAGTGCAGTGGAACAGATTAAAGCTACAACAGCGAATC
* * * * ** *
46486717 TTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
1 TTACTTCCCAGGCAGTGCAGTGGAACAGATTAAAGCTACAACAGCGAATC
* * * *
46486767 TTAC-TCCCTAGGC-GATGCAGTGGAACAGATTAAAGCCACATCGGTGAATC
1 TTACTTCCC-AGGCAG-TGCAGTGGAACAGATTAAAGCTACAACAGCGAATC
* * * ** * *
46486817 TTACTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACAGTGAATC
1 TTACTTCCCAGGCAGTGCAGTGGAACAGATTAAAGCTACAACAGCGAATC
* * * * * **
46486867 TTACTCCCCAAGCGGTGCAGTGGAATAGATTAAAGCCACAATGGCGAATC
1 TTACTTCCCAGGCAGTGCAGTGGAACAGATTAAAGCTACAACAGCGAATC
* * * * ** * *
46486917 TTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAACTACAACAGCGAATC
1 TTACTTCCCAGGCAGTGCAGTGGAACAGATTAAAGCTACAACAGCGAATC
* * * ** *
46486967 TTACTCCCCAAGCAGTGCAGTGGAACAGATTAAAGCCACAATGGCGAACC
1 TTACTTCCCAGGCAGTGCAGTGGAACAGATTAAAGCTACAACAGCGAATC
* * * * ** * *
46487017 TTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACAACGAATC
1 TTACTTCCCAGGCAGTGCAGTGGAACAGATTAAAGCTACAACAGCGAATC
** * * * * ** *
46487067 TTACTTCTTAAGCGGTGCAGTGGAACAGATTAACGCCACAATGGTGAATC
1 TTACTTCCCAGGCAGTGCAGTGGAACAGATTAAAGCTACAACAGCGAATC
* ** * *
46487117 TTGCTTCCCCA-ATATTGCAGTTAGAA-AGATTAAAGCTACAACAGCGAATC
1 TTACTT-CCCAGGCAGTGCAG-TGGAACAGATTAAAGCTACAACAGCGAATC
* * * *
46487167 TTACTTCCCAGGCGGTGTAGTGGAACAAATTGAAGCTACAACAGCGAATC
1 TTACTTCCCAGGCAGTGCAGTGGAACAGATTAAAGCTACAACAGCGAATC
*
46487217 TTGCTTCC
1 TTACTTCC
46487225 TCGACATCAC
Statistics
Matches: 515, Mismatches: 182, Indels: 22
0.72 0.25 0.03
Matches are distributed among these distances:
49 16 0.03
50 485 0.94
51 14 0.03
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.23
Consensus pattern (50 bp):
TTACTTCCCAGGCAGTGCAGTGGAACAGATTAAAGCTACAACAGCGAATC
Found at i:46487578 original size:26 final size:26
Alignment explanation
Indices: 46487549--46487620 Score: 103
Period size: 26 Copynumber: 2.8 Consensus size: 26
46487539 AGCTTTTACA
*
46487549 AACCCAATTAACCTAGCCCAAAATCT
1 AACCCAATTAACCTAGCCCAAAACCT
*
46487575 AACCCAATTAACCAAGCCC-AAACCT
1 AACCCAATTAACCTAGCCCAAAACCT
46487600 AAGCCCAA-TAACCTAGCCCAA
1 AA-CCCAATTAACCTAGCCCAA
46487621 CTAGCCTAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
25 17 0.41
26 24 0.59
ACGTcount: A:0.43, C:0.38, G:0.06, T:0.14
Consensus pattern (26 bp):
AACCCAATTAACCTAGCCCAAAACCT
Found at i:46487628 original size:14 final size:13
Alignment explanation
Indices: 46487551--46487620 Score: 65
Period size: 14 Copynumber: 5.4 Consensus size: 13
46487541 CTTTTACAAA
46487551 CCCAATTAACCTAG
1 CCCAA-TAACCTAG
* *
46487565 CCCAA-AATCTAA
1 CCCAATAACCTAG
*
46487577 CCCAATTAACCAAG
1 CCCAA-TAACCTAG
46487591 CCC-A-AACCTAAG
1 CCCAATAACCT-AG
46487603 CCCAATAACCTAG
1 CCCAATAACCTAG
46487616 CCCAA
1 CCCAA
46487621 CTAGCCTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
11 4 0.09
12 15 0.33
13 9 0.20
14 17 0.38
ACGTcount: A:0.41, C:0.39, G:0.06, T:0.14
Consensus pattern (13 bp):
CCCAATAACCTAG
Found at i:46487832 original size:13 final size:13
Alignment explanation
Indices: 46487814--46487838 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46487804 AACATATTGT
46487814 ATTTTTATTTTAG
1 ATTTTTATTTTAG
46487827 ATTTTTATTTTA
1 ATTTTTATTTTA
46487839 TTTTCCTTTT
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:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
ATTTTTATTTTAG
Found at i:46490183 original size:18 final size:17
Alignment explanation
Indices: 46490162--46490208 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
46490152 CAAGTAAAAC
46490162 AATAATAACAATAACAAA
1 AATAATAA-AATAACAAA
* *
46490180 AATAAATAAAATTATAAA
1 AAT-AATAAAATAACAAA
46490198 AATAA-AAAATA
1 AATAATAAAATA
46490209 TATGTATGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
16 5 0.20
17 2 0.08
18 13 0.52
19 5 0.20
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.21
Consensus pattern (17 bp):
AATAATAAAATAACAAA
Found at i:46490348 original size:3 final size:3
Alignment explanation
Indices: 46490340--46490461 Score: 108
Period size: 3 Copynumber: 40.0 Consensus size: 3
46490330 AAGTAATTAC
* *
46490340 ATA ATA ATA ATA ATA ATA ATA ATA ATA TATA ATA AGA CAAA AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA
* * *
46490386 TTTA A-A AT- TTA GATA AGTA A-A TATA ATA ATA ATA GTA ATA ATA ATA
1 -ATA ATA ATA ATA -ATA A-TA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
*
46490432 ATA GTA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
46490462 CAAAGATAAT
Statistics
Matches: 98, Mismatches: 11, Indels: 20
0.76 0.09 0.16
Matches are distributed among these distances:
2 6 0.06
3 79 0.81
4 13 0.13
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:46493192 original size:4 final size:4
Alignment explanation
Indices: 46493183--46493207 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
46493173 AACAATTCAT
46493183 ATTG ATTG ATTG ATTG ATTG ATTG A
1 ATTG ATTG ATTG ATTG ATTG ATTG A
46493208 GTAATTGTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (4 bp):
ATTG
Found at i:46493948 original size:14 final size:14
Alignment explanation
Indices: 46493929--46493956 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
46493919 CTTCTTACAT
46493929 ATATTTAATTTTTA
1 ATATTTAATTTTTA
46493943 ATATTTAATTTTTA
1 ATATTTAATTTTTA
46493957 GTCTTAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
ATATTTAATTTTTA
Found at i:46494971 original size:31 final size:31
Alignment explanation
Indices: 46494929--46494987 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
46494919 TATTTGAGTT
* *
46494929 AATTAAGTTTTTTGGATCAACTCAAATAAAA
1 AATTAAATTTTTCGGATCAACTCAAATAAAA
* *
46494960 AATTAAATTTTTCGGTTTAACTCAAATA
1 AATTAAATTTTTCGGATCAACTCAAATA
46494988 TGAATTACAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.39
Consensus pattern (31 bp):
AATTAAATTTTTCGGATCAACTCAAATAAAA
Found at i:46496532 original size:22 final size:21
Alignment explanation
Indices: 46496507--46496559 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 21
46496497 GAAATTGGTT
46496507 ATATATATTGCACTTAT-ATATA
1 ATATATATTG--CTTATAATATA
46496529 ATATAT-TGTGCTTATAGATATA
1 ATATATAT-TGCTTATA-ATATA
46496551 ATATATATT
1 ATATATATT
46496560 ATTAGATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
20 5 0.19
21 1 0.04
22 20 0.74
23 1 0.04
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.47
Consensus pattern (21 bp):
ATATATATTGCTTATAATATA
Found at i:46496534 original size:20 final size:21
Alignment explanation
Indices: 46496509--46496556 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
46496499 AATTGGTTAT
46496509 ATATATTGCACTTAT-ATATA
1 ATATATTGCACTTATAATATA
**
46496529 ATATATTGTGCTTATAGATATA
1 ATATATTGCACTTATA-ATATA
46496551 ATATAT
1 ATATAT
46496557 ATTATTAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 13 0.54
22 11 0.46
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.46
Consensus pattern (21 bp):
ATATATTGCACTTATAATATA
Found at i:46498427 original size:18 final size:18
Alignment explanation
Indices: 46498406--46498440 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
46498396 TAAGGGATAG
46498406 AAATAAATTAAT-AAAAAT
1 AAATAAA-TAATGAAAAAT
46498424 AAATAAATAATGAAAAA
1 AAATAAATAATGAAAAA
46498441 AAACAAACGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (18 bp):
AAATAAATAATGAAAAAT
Found at i:46504604 original size:39 final size:38
Alignment explanation
Indices: 46504542--46504629 Score: 131
Period size: 39 Copynumber: 2.3 Consensus size: 38
46504532 CGTTTAAGGT
* *
46504542 AAGTATGCATATTCGGTGAATATAAAATATTTGTGCAA
1 AAGTATGGATATTCGGCGAATATAAAATATTTGTGCAA
*
46504580 AAGTGATGGATATTTGGCGAATATAAAATATTTGTGCAA
1 AAGT-ATGGATATTCGGCGAATATAAAATATTTGTGCAA
46504619 AAGTAATGGAT
1 AAGT-ATGGAT
46504630 GCTTGTCGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
38 4 0.09
39 41 0.91
ACGTcount: A:0.40, C:0.06, G:0.22, T:0.33
Consensus pattern (38 bp):
AAGTATGGATATTCGGCGAATATAAAATATTTGTGCAA
Done.