Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 64 of 313
Found at i:21651984 original size:23 final size:23
Alignment explanation
Indices: 21651958--21652003 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
21651948 ATTTGTATTG
21651958 GATTTACTTTTAGGTGTAAGTTT
1 GATTTACTTTTAGGTGTAAGTTT
*
21651981 GATTTACTTTTAGGTGTAGGTTT
1 GATTTACTTTTAGGTGTAAGTTT
21652004 TAACACTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.20, C:0.04, G:0.24, T:0.52
Consensus pattern (23 bp):
GATTTACTTTTAGGTGTAAGTTT
Found at i:21676876 original size:20 final size:19
Alignment explanation
Indices: 21676849--21676901 Score: 90
Period size: 18 Copynumber: 2.8 Consensus size: 19
21676839 TGACATGGAT
21676849 ACTTTTTTTTTAAATTATG
1 ACTTTTTTTTTAAATTATG
21676868 AC-TTTTTTTTAAATTATG
1 ACTTTTTTTTTAAATTATG
21676886 ACTTTTTTTTATAAAT
1 ACTTTTTTTT-TAAAT
21676902 CACATGTGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 18 0.56
19 9 0.28
20 5 0.16
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (19 bp):
ACTTTTTTTTTAAATTATG
Found at i:21680405 original size:3 final size:3
Alignment explanation
Indices: 21680397--21680430 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
21680387 GTTGTAAGGT
21680397 TGG TGG TGGG TGG TGG TGG TGG TGG TGG TGG TGG
1 TGG TGG T-GG TGG TGG TGG TGG TGG TGG TGG TGG
21680431 CATAGTGATG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.00, C:0.00, G:0.68, T:0.32
Consensus pattern (3 bp):
TGG
Found at i:21686934 original size:8 final size:8
Alignment explanation
Indices: 21686921--21686952 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
21686911 CTAGATCGGC
21686921 AAAAGCCG
1 AAAAGCCG
21686929 AAAAGCCG
1 AAAAGCCG
*
21686937 AAATGCCG
1 AAAAGCCG
21686945 AAAAGCCG
1 AAAAGCCG
21686953 GTATTTTGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.47, C:0.25, G:0.25, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:21687231 original size:28 final size:28
Alignment explanation
Indices: 21687199--21687260 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
21687189 ATGTACTAGA
*
21687199 ATACCCCTATGTATGCAAAATTACCAT-T
1 ATACCCCTATGTATGCAAAATGACC-TCT
21687227 ATACCCCTATGTATGCAAAATGACCTCT
1 ATACCCCTATGTATGCAAAATGACCTCT
21687255 ATACCC
1 ATACCC
21687261 GTAGGGTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 1 0.03
28 31 0.97
ACGTcount: A:0.34, C:0.29, G:0.08, T:0.29
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCTCT
Found at i:21687410 original size:28 final size:27
Alignment explanation
Indices: 21687369--21687425 Score: 69
Period size: 28 Copynumber: 2.1 Consensus size: 27
21687359 AGGAAGCGTC
*
21687369 CTGGTGGCTATGCCACAAATTATCTGTT
1 CTGGTGGCCATGCCACAAA-TATCTGTT
* **
21687397 CTGGTGGCCCTGCCACGTATATCTGTT
1 CTGGTGGCCATGCCACAAATATCTGTT
21687424 CT
1 CT
21687426 CTCAACCATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 10 0.40
28 15 0.60
ACGTcount: A:0.16, C:0.26, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCCATGCCACAAATATCTGTT
Found at i:21691815 original size:36 final size:36
Alignment explanation
Indices: 21691775--21691847 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
21691765 TTATTAAACC
21691775 ATTTAATCATCAAACATTAGGCCATTTATGTCCATT
1 ATTTAATCATCAAACATTAGGCCATTTATGTCCATT
21691811 ATTTAATCATCAAACATTAGGCCATTTATGTCCATT
1 ATTTAATCATCAAACATTAGGCCATTTATGTCCATT
21691847 A
1 A
21691848 ACCTTATCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.38
Consensus pattern (36 bp):
ATTTAATCATCAAACATTAGGCCATTTATGTCCATT
Found at i:21696002 original size:23 final size:23
Alignment explanation
Indices: 21695945--21696004 Score: 95
Period size: 23 Copynumber: 2.6 Consensus size: 23
21695935 TTACTTTTCC
*
21695945 AATTTT-AATTTCATTTACACACA
1 AATTTTCAA-TTCACTTACACACA
21695968 AATTTTCAATTCACTTACACACA
1 AATTTTCAATTCACTTACACACA
21695991 AATTTTCAATTCAC
1 AATTTTCAATTCAC
21696005 AATCAATTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
23 33 0.94
24 2 0.06
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.40
Consensus pattern (23 bp):
AATTTTCAATTCACTTACACACA
Found at i:21696401 original size:13 final size:13
Alignment explanation
Indices: 21696383--21696421 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
21696373 TTTTAGTTAC
21696383 TAATAATATATTA
1 TAATAATATATTA
*
21696396 TAATAATTTATTTA
1 TAATAATATA-TTA
21696410 TATATAATATAT
1 TA-ATAATATAT
21696422 AAATATCTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 9 0.41
14 6 0.27
15 7 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
TAATAATATATTA
Found at i:21699741 original size:43 final size:43
Alignment explanation
Indices: 21699692--21699860 Score: 159
Period size: 43 Copynumber: 4.0 Consensus size: 43
21699682 TAGGATTTCT
*
21699692 GATATGTG-TTCTCGTGTAAGACCACGTCTGGGACATTGGCATC
1 GATATGTGATT-TCATGTAAGACCACGTCTGGGACATTGGCATC
* * ** * *
21699735 GATATGTGATTAT-GTGTAAGACCATGTCTGGGACATCAGTAAC
1 GATATGTGATT-TCATGTAAGACCACGTCTGGGACATTGGCATC
* * *
21699778 G-TATTTGA-TTCATGTAAGACC-CTGTCTGGGACAATGGTATC
1 GATATGTGATTTCATGTAAGACCAC-GTCTGGGACATTGGCATC
* * *
21699819 GATATGTGATTACATGTAAGACCATGTCTGGGACGTTGGCAT
1 GATATGTGATTTCATGTAAGACCACGTCTGGGACATTGGCAT
21699861 TGTACGATAT
Statistics
Matches: 101, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
40 1 0.01
41 25 0.25
42 12 0.12
43 60 0.59
44 3 0.03
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (43 bp):
GATATGTGATTTCATGTAAGACCACGTCTGGGACATTGGCATC
Found at i:21699804 original size:41 final size:43
Alignment explanation
Indices: 21699706--21699852 Score: 165
Period size: 43 Copynumber: 3.5 Consensus size: 43
21699696 TGTGTTCTCG
* * * * * **
21699706 TGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATTATG
1 TGTAAGACCATGTCTGGGACAATAGTAACGATATGTGATTACA
*
21699749 TGTAAGACCATGTCTGGGAC-ATCAGTAACG-TATTTGATT-CA
1 TGTAAGACCATGTCTGGGACAAT-AGTAACGATATGTGATTACA
* * *
21699790 TGTAAGACCCTGTCTGGGACAATGGTATCGATATGTGATTACA
1 TGTAAGACCATGTCTGGGACAATAGTAACGATATGTGATTACA
21699833 TGTAAGACCATGTCTGGGAC
1 TGTAAGACCATGTCTGGGAC
21699853 GTTGGCATTG
Statistics
Matches: 87, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
41 24 0.28
42 19 0.22
43 44 0.51
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACAATAGTAACGATATGTGATTACA
Found at i:21700766 original size:41 final size:41
Alignment explanation
Indices: 21700719--21700858 Score: 99
Period size: 41 Copynumber: 3.4 Consensus size: 41
21700709 GGTTGTTATG
*
21700719 TTTGGTTAATGTGATATTATGTGATTTGGTATTAAAGAATA
1 TTTGGTTAATGTCATATTATGTGATTTGGTATTAAAGAATA
* * * * * ** *
21700760 TTTGGTT-ATGACATA-TAGGTGAAATTATAGT-TGGATATTATG
1 TTTGGTTAATGTCATATTATGTG--ATT-TGGTAT-TAAAGAATA
* **
21700802 TTTGGTTAAGGTTTTATTATGTGATTTGGTATTAAAGAATA
1 TTTGGTTAATGTCATATTATGTGATTTGGTATTAAAGAATA
*
21700843 TTTGGTT-ATGGCATAT
1 TTTGGTTAATGTCATAT
21700859 AGGTGAAATT
Statistics
Matches: 68, Mismatches: 24, Indels: 15
0.64 0.22 0.14
Matches are distributed among these distances:
39 5 0.07
40 11 0.16
41 25 0.37
42 18 0.26
43 4 0.06
44 5 0.07
ACGTcount: A:0.29, C:0.01, G:0.23, T:0.46
Consensus pattern (41 bp):
TTTGGTTAATGTCATATTATGTGATTTGGTATTAAAGAATA
Found at i:21700806 original size:83 final size:83
Alignment explanation
Indices: 21700714--21700877 Score: 283
Period size: 83 Copynumber: 2.0 Consensus size: 83
21700704 AACTTGGTTG
*
21700714 TTATGTTTGGTTAATGTGATATTATGTGATTTGGTATTAAAGAATATTTGGTTATGACATATAGG
1 TTATGTTTGGTTAAGGTGATATTATGTGATTTGGTATTAAAGAATATTTGGTTATGACATATAGG
21700779 TGAAATTATAGTTGGATA
66 TGAAATTATAGTTGGATA
** *
21700797 TTATGTTTGGTTAAGGTTTTATTATGTGATTTGGTATTAAAGAATATTTGGTTATGGCATATAGG
1 TTATGTTTGGTTAAGGTGATATTATGTGATTTGGTATTAAAGAATATTTGGTTATGACATATAGG
*
21700862 TGAAATTATTGTTGGA
66 TGAAATTATAGTTGGA
21700878 AATATATATG
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
83 76 1.00
ACGTcount: A:0.29, C:0.01, G:0.24, T:0.46
Consensus pattern (83 bp):
TTATGTTTGGTTAAGGTGATATTATGTGATTTGGTATTAAAGAATATTTGGTTATGACATATAGG
TGAAATTATAGTTGGATA
Found at i:21706456 original size:19 final size:19
Alignment explanation
Indices: 21706434--21706475 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
21706424 AGATAAAATT
*
21706434 AAAAGGTAAG-AAGAAAAGG
1 AAAAGG-AAGAAAGAAAAAG
*
21706453 AAAATGAAGAAAGAAAAAG
1 AAAAGGAAGAAAGAAAAAG
21706472 AAAA
1 AAAA
21706476 AGAAAAAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.05
Consensus pattern (19 bp):
AAAAGGAAGAAAGAAAAAG
Found at i:21706481 original size:5 final size:6
Alignment explanation
Indices: 21706444--21706482 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
21706434 AAAAGGTAAG
* *
21706444 AAGAAA AGGAAA ATGAAGA AAGAAA AAGAAA AAGAAA AA
1 AAGAAA AAGAAA AAGAA-A AAGAAA AAGAAA AAGAAA AA
21706483 AGTTAAATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
6 24 0.83
7 5 0.17
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.03
Consensus pattern (6 bp):
AAGAAA
Found at i:21706484 original size:19 final size:19
Alignment explanation
Indices: 21706444--21706484 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
21706434 AAAAGGTAAG
* * *
21706444 AAGAAAAGGAAAATGAAGA
1 AAGAAAAAGAAAAAGAAAA
21706463 AAGAAAAAGAAAAAGAAAA
1 AAGAAAAAGAAAAAGAAAA
21706482 AAG
1 AAG
21706485 TTAAATTGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (19 bp):
AAGAAAAAGAAAAAGAAAA
Found at i:21717915 original size:6 final size:6
Alignment explanation
Indices: 21717906--21717930 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
21717896 TCTCTCTCTC
21717906 AAAATG AAAATG AAAATG AAAATG A
1 AAAATG AAAATG AAAATG AAAATG A
21717931 TAAAAATATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:21720444 original size:69 final size:68
Alignment explanation
Indices: 21720368--21720502 Score: 207
Period size: 68 Copynumber: 2.0 Consensus size: 68
21720358 TAATTAAAAG
* *
21720368 TAATCACTTTAATATTAAATTAATATAATACTTATCAAGATAAATATTACATTAAATTTAATATT
1 TAATCACTTTAATATTAAATTAATAAAATAC-TATCAAGATAAATATTAAATTAAATTTAATATT
21720433 AAGA
65 AAGA
* * * *
21720437 TAATCACTTTAATATTAAATTCATAAAATACTATTAAGATAAGTATTAAATTTAATTTAATATTA
1 TAATCACTTTAATATTAAATTAATAAAATACTATCAAGATAAATATTAAATTAAATTTAATATTA
21720502 A
66 A
21720503 ATATATTAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
68 31 0.52
69 29 0.48
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.41
Consensus pattern (68 bp):
TAATCACTTTAATATTAAATTAATAAAATACTATCAAGATAAATATTAAATTAAATTTAATATTA
AGA
Found at i:21720518 original size:68 final size:69
Alignment explanation
Indices: 21720377--21720521 Score: 177
Period size: 68 Copynumber: 2.1 Consensus size: 69
21720367 GTAATCACTT
* *
21720377 TAATATTAAATTAATATAATACTTATCAAGATAAATATTACATTAAATTTAATATTAAGATAATC
1 TAATATTAAATTAATAAAATACTTATCAAGATAAATATTAAATTAAATTTAATATTAAGATAATC
***
21720442 ACTT
66 AAAA
* * * *
21720446 TAATATTAAATTCATAAAATAC-TATTAAGATAAGTATTAAATTTAATTTAATATTAA-ATATAT
1 TAATATTAAATTAATAAAATACTTATCAAGATAAATATTAAATTAAATTTAATATTAAGATA-AT
*
21720509 TAAAA
65 CAAAA
21720514 TAATATTA
1 TAATATTA
21720522 TTTTTAGAAT
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
67 3 0.05
68 42 0.65
69 20 0.31
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (69 bp):
TAATATTAAATTAATAAAATACTTATCAAGATAAATATTAAATTAAATTTAATATTAAGATAATC
AAAA
Found at i:21730492 original size:35 final size:35
Alignment explanation
Indices: 21730438--21730508 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
21730428 AAGAAAATAT
* * *
21730438 ATTTTGTTTAACTTGACTTGCAAGCAGTCTCTTAG
1 ATTTTGTTTAAATTAACTTGCAAGCAATCTCTTAG
*
21730473 ATTTTGTTTAAATTAACTTGCAAGTAATCTCTTAG
1 ATTTTGTTTAAATTAACTTGCAAGCAATCTCTTAG
21730508 A
1 A
21730509 ATATGGGTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (35 bp):
ATTTTGTTTAAATTAACTTGCAAGCAATCTCTTAG
Found at i:21730712 original size:29 final size:29
Alignment explanation
Indices: 21730675--21730730 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 29
21730665 TTTTTTAGGA
*
21730675 TTTTAAATA-ATATAATT-TTTTTATAACT
1 TTTTAAATACACA-AATTATTTTTATAACT
21730703 TTTTAAAATACACAAATTATTTTTATAA
1 TTTT-AAATACACAAATTATTTTTATAA
21730731 TATATTTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 4 0.17
29 9 0.38
30 11 0.46
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (29 bp):
TTTTAAATACACAAATTATTTTTATAACT
Found at i:21731174 original size:54 final size:54
Alignment explanation
Indices: 21731110--21731226 Score: 207
Period size: 54 Copynumber: 2.2 Consensus size: 54
21731100 GACGTCAAAA
*
21731110 CTAACAATCTTATTTTTTTATATATATAACAAAAATTTAAGAGAAATTTGCATT
1 CTAACAATCTTATTTTTTTATATATATAACAAAAATTTAAGAGAAATTTACATT
21731164 CTAACAATCTTATTTTTTTATATATATAACAAAAATTTAAGAGAAATTTACATT
1 CTAACAATCTTATTTTTTTATATATATAACAAAAATTTAAGAGAAATTTACATT
* *
21731218 TTAAAAATC
1 CTAACAATC
21731227 CACCCCTAAA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 60 1.00
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.42
Consensus pattern (54 bp):
CTAACAATCTTATTTTTTTATATATATAACAAAAATTTAAGAGAAATTTACATT
Found at i:21732641 original size:90 final size:90
Alignment explanation
Indices: 21732488--21732665 Score: 320
Period size: 90 Copynumber: 2.0 Consensus size: 90
21732478 AAAACTTGCT
* *
21732488 ATCACAATGAGGCAACACCTACTGCAAAGGGCAGATTGAAACGGTAGTATTAAACCTCTTTACCA
1 ATCACAATGAGGCAACACCCACTGCAAAGGGCAGATTGAAACGGAAGTATTAAACCTCTTTACCA
21732553 TAAGATTGCCACTACAGCCATGAGG
66 TAAGATTGCCACTACAGCCATGAGG
* *
21732578 ATCACAATGAGGCAACCCCCACTGCTAAGGGCAGATTGAAACGGAAGTATTAAACCTCTTTACCA
1 ATCACAATGAGGCAACACCCACTGCAAAGGGCAGATTGAAACGGAAGTATTAAACCTCTTTACCA
21732643 TAAGATTGCCACTACAGCCATGA
66 TAAGATTGCCACTACAGCCATGA
21732666 AAACCCATGG
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
90 84 1.00
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (90 bp):
ATCACAATGAGGCAACACCCACTGCAAAGGGCAGATTGAAACGGAAGTATTAAACCTCTTTACCA
TAAGATTGCCACTACAGCCATGAGG
Found at i:21733381 original size:33 final size:32
Alignment explanation
Indices: 21733321--21733397 Score: 95
Period size: 33 Copynumber: 2.4 Consensus size: 32
21733311 TAATCTTTAT
21733321 TTTATTGTTAATTTTACTATTATTTTAGAGGTA
1 TTTATTGTTAATTTTAC-ATTATTTTAGAGGTA
* *
21733354 TTTACTTGTTAAGTTTTA-ATTATTTTAGCGTTA
1 TTTA-TTGTTAA-TTTTACATTATTTTAGAGGTA
21733387 TTTATT-TTAAT
1 TTTATTGTTAAT
21733398 ATTTTTAGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
30 1 0.03
31 4 0.10
32 2 0.05
33 21 0.52
34 7 0.17
35 5 0.12
ACGTcount: A:0.26, C:0.04, G:0.10, T:0.60
Consensus pattern (32 bp):
TTTATTGTTAATTTTACATTATTTTAGAGGTA
Found at i:21733742 original size:24 final size:23
Alignment explanation
Indices: 21733702--21733747 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
21733692 AACATACCCA
*
21733702 CATATTTATAATAATAAATAATAT
1 CATATTTACAATAATAAA-AATAT
21733726 CATATTCTACAAT-ATAAAAATA
1 CATATT-TACAATAATAAAAATA
21733748 ATGAAACAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 11 0.55
25 5 0.25
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (23 bp):
CATATTTACAATAATAAAAATAT
Found at i:21734642 original size:18 final size:18
Alignment explanation
Indices: 21734619--21734663 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
21734609 TTATATTACT
*
21734619 ATAAAATATA-TATAATAC
1 ATAAAAAATACTATAA-AC
21734637 ATAAAAAATACTATAAAC
1 ATAAAAAATACTATAAAC
21734655 ATTAAAAAA
1 A-TAAAAAA
21734664 AATATTTCCC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 12 0.50
19 12 0.50
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (18 bp):
ATAAAAAATACTATAAAC
Found at i:21734643 original size:19 final size:19
Alignment explanation
Indices: 21734620--21734663 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
21734610 TATATTACTA
*
21734620 TAAAATATA-TATAATACA-
1 TAAAAAATACTATAA-ACAT
21734638 TAAAAAATACTATAAACAT
1 TAAAAAATACTATAAACAT
21734657 TAAAAAA
1 TAAAAAA
21734664 AATATTTCCC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (19 bp):
TAAAAAATACTATAAACAT
Found at i:21735569 original size:24 final size:24
Alignment explanation
Indices: 21735533--21735589 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
21735523 ACACTACTCC
*
21735533 AACTGCACAGAGCTTCCCACCCTA
1 AACTGCACCGAGCTTCCCACCCTA
21735557 AACTGCACCGAGCTTCCCACCCTA
1 AACTGCACCGAGCTTCCCACCCTA
21735581 AACTGCACC
1 AACTGCACC
21735590 CTCCATTTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.28, C:0.44, G:0.12, T:0.16
Consensus pattern (24 bp):
AACTGCACCGAGCTTCCCACCCTA
Found at i:21741639 original size:21 final size:21
Alignment explanation
Indices: 21741610--21741663 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
21741600 AGTTTGCTGA
* *
21741610 TGAGCTAGGGTAGATTTC-TAC
1 TGAGTTAGGGTAG-TCTCTTAC
21741631 TGAGTTAGGGTAGTCTCTTAC
1 TGAGTTAGGGTAGTCTCTTAC
*
21741652 TGAGTTAAGGTA
1 TGAGTTAGGGTA
21741664 CCTTGTTGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 3 0.10
21 26 0.90
ACGTcount: A:0.24, C:0.11, G:0.30, T:0.35
Consensus pattern (21 bp):
TGAGTTAGGGTAGTCTCTTAC
Found at i:21754105 original size:40 final size:40
Alignment explanation
Indices: 21754045--21754177 Score: 196
Period size: 40 Copynumber: 3.3 Consensus size: 40
21754035 AATGTCTCGT
* * *
21754045 ACACTAAGTGCCGTACATAGCCGAAGCTATCTC-AACTCGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATGTCGAA-TCGC
*
21754085 ACATTAAGTGCCATATATAGCCGAAGCTATGTCGAATCGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATGTCGAATCGC
* *
21754125 ACACTAAATGCCATATATAGCCGAAGCTATGTCGTATCGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATGTCGAATCGC
21754165 ACACTAAGTGCCA
1 ACACTAAGTGCCA
21754178 CAAATAACCG
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
40 82 0.98
41 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (40 bp):
ACACTAAGTGCCATATATAGCCGAAGCTATGTCGAATCGC
Found at i:21756455 original size:23 final size:22
Alignment explanation
Indices: 21756425--21756538 Score: 95
Period size: 23 Copynumber: 5.0 Consensus size: 22
21756415 GGACTCACCA
21756425 CAGCTCATAAGAGCTTACTGTTT
1 CAGCTCA-AAGAGCTTACTGTTT
** * *
21756448 CAGCTCATTGGAGCTTACCGATT
1 CAGCTCA-AAGAGCTTACTGTTT
* *
21756471 AAGCTCGAAAGAGCTTACT-ATT
1 CAGCTC-AAAGAGCTTACTGTTT
* *
21756493 CAGCTCAATGAGCTTACCGTTT
1 CAGCTCAAAGAGCTTACTGTTT
*
21756515 CCAACTCAATAGAGCTTACTGTTT
1 -CAGCTCAA-AGAGCTTACTGTTT
21756539 ATCAGTTTAG
Statistics
Matches: 72, Mismatches: 15, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
21 10 0.14
22 10 0.14
23 39 0.54
24 13 0.18
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.32
Consensus pattern (22 bp):
CAGCTCAAAGAGCTTACTGTTT
Found at i:21760112 original size:15 final size:15
Alignment explanation
Indices: 21760094--21760153 Score: 75
Period size: 15 Copynumber: 4.0 Consensus size: 15
21760084 AACTCTAATC
*
21760094 CTATTAGACACATCA
1 CTATCAGACACATCA
*
21760109 CTATCAGATACATCA
1 CTATCAGACACATCA
*
21760124 CTAACAGACACATCA
1 CTATCAGACACATCA
* *
21760139 CTGTCAAACACATCA
1 CTATCAGACACATCA
21760154 AAACCATACA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.42, C:0.30, G:0.07, T:0.22
Consensus pattern (15 bp):
CTATCAGACACATCA
Found at i:21760462 original size:110 final size:110
Alignment explanation
Indices: 21760336--21760569 Score: 396
Period size: 110 Copynumber: 2.1 Consensus size: 110
21760326 TATACATGGT
* *
21760336 AGACAATAACCAAACACTTTAACCCTAAACCTAGGCAATGGTAGACAATAACCAATACAATATAG
1 AGACAATAACCAAACACTTTAACCCTAAACCTAGGAAATGGCAGACAATAACCAATACAATATAG
21760401 AAGCTAAAGAACAAATTTAATCCAAAAAAATATCATGCACATGAA
66 AAGCTAAAGAACAAATTTAATCCAAAAAAATATCATGCACATGAA
* *
21760446 AGACAATAACCAAACACTTTAACCTTAAACTTAGGAAATGGCAGACAATAACCAATACAATATAG
1 AGACAATAACCAAACACTTTAACCCTAAACCTAGGAAATGGCAGACAATAACCAATACAATATAG
* **
21760511 AAGCTAAAGAACAAATTTAATCCAAAACAATATCATGCACATGGC
66 AAGCTAAAGAACAAATTTAATCCAAAAAAATATCATGCACATGAA
*
21760556 AGACAATAATCAAA
1 AGACAATAACCAAA
21760570 TAATAATCAT
Statistics
Matches: 116, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
110 116 1.00
ACGTcount: A:0.51, C:0.20, G:0.10, T:0.19
Consensus pattern (110 bp):
AGACAATAACCAAACACTTTAACCCTAAACCTAGGAAATGGCAGACAATAACCAATACAATATAG
AAGCTAAAGAACAAATTTAATCCAAAAAAATATCATGCACATGAA
Found at i:21761910 original size:9 final size:9
Alignment explanation
Indices: 21761862--21762057 Score: 60
Period size: 9 Copynumber: 20.7 Consensus size: 9
21761852 AAACAAACAT
21761862 TAAAAATT-
1 TAAAAATTA
21761870 TAAAAAATTA
1 T-AAAAATTA
*
21761880 T-TAAA-TA
1 TAAAAATTA
*
21761887 TGAAAAAATA
1 T-AAAAATTA
*
21761897 AAAAAATTA
1 TAAAAATTA
* *
21761906 TAAAACTAA
1 TAAAAATTA
*
21761915 TAAAACATATT
1 TAAAA-AT-TA
*
21761926 TAAATATT-
1 TAAAAATTA
**
21761934 TATAATTTTA
1 TA-AAAATTA
21761944 TAAAAATGTA
1 TAAAAAT-TA
*
21761954 TTAAAACTTTA
1 -TAAAA-ATTA
**
21761965 TAAAGTTTA
1 TAAAAATTA
*
21761974 TAAAAAAATCA
1 T--AAAAATTA
21761985 TAAAAATTA
1 TAAAAATTA
*
21761994 TAAAAA-AA
1 TAAAAATTA
*
21762002 TATCAAATGTA
1 TA-AAAAT-TA
*
21762013 TTAAAATTGA
1 TAAAAATT-A
21762023 TATAAAATTA
1 TA-AAAATTA
21762033 TAAAAATATA
1 TAAAAAT-TA
* *
21762043 AAAAAATCA
1 TAAAAATTA
21762052 TAAAAA
1 TAAAAA
21762058 CTTGAATTGG
Statistics
Matches: 139, Mismatches: 29, Indels: 39
0.67 0.14 0.19
Matches are distributed among these distances:
7 3 0.02
8 9 0.06
9 70 0.50
10 31 0.22
11 25 0.18
12 1 0.01
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (9 bp):
TAAAAATTA
Found at i:21761948 original size:29 final size:30
Alignment explanation
Indices: 21761914--21761979 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 30
21761904 TATAAAACTA
*
21761914 ATAAAACATAT-TTAAATA-TTTAT-AATTTT
1 ATAAAA-ATATATTAAA-ACTTTATAAAGTTT
*
21761943 ATAAAAATGTATTAAAACTTTATAAAGTTT
1 ATAAAAATATATTAAAACTTTATAAAGTTT
21761973 ATAAAAA
1 ATAAAAA
21761980 AATCATAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 4 0.12
29 16 0.50
30 12 0.38
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (30 bp):
ATAAAAATATATTAAAACTTTATAAAGTTT
Found at i:21761987 original size:20 final size:20
Alignment explanation
Indices: 21761971--21762057 Score: 65
Period size: 19 Copynumber: 4.5 Consensus size: 20
21761961 TTTATAAAGT
21761971 TTATAAAAAAATCATAAAAA
1 TTATAAAAAAATCATAAAAA
*
21761991 TTATAAAAAAAT-AT-CAAA
1 TTATAAAAAAATCATAAAAA
* * *
21762009 TGTAT-TAAAATTGATATAAAA
1 T-TATAAAAAAATCATA-AAAA
* *
21762030 TTATAAAAATAT-AAAAAAA
1 TTATAAAAAAATCATAAAAA
*
21762049 TCATAAAAA
1 TTATAAAAA
21762058 CTTGAATTGG
Statistics
Matches: 53, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
18 9 0.17
19 19 0.36
20 17 0.32
21 8 0.15
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (20 bp):
TTATAAAAAAATCATAAAAA
Found at i:21762030 original size:21 final size:20
Alignment explanation
Indices: 21761987--21762039 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
21761977 AAAAATCATA
*
21761987 AAAATTATAAAAA--AATAT
1 AAAATTATAAAAATTGATAT
* *
21762005 CAAATGTATTAAAATTGATAT
1 AAAAT-TATAAAAATTGATAT
21762026 AAAATTATAAAAAT
1 AAAATTATAAAAAT
21762040 ATAAAAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
18 4 0.15
19 7 0.26
20 8 0.30
21 8 0.30
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (20 bp):
AAAATTATAAAAATTGATAT
Found at i:21763313 original size:5 final size:5
Alignment explanation
Indices: 21763303--21763337 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
21763293 GCAATTAAGG
*
21763303 GAAAA GAAAA GAAAA GAAAA GAAAA GAGAA GAAAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA
21763338 ATAACAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:21770897 original size:28 final size:28
Alignment explanation
Indices: 21770865--21770922 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
21770855 ATGAAAAAAA
*
21770865 TTATAAAT-TTTTTAATT-TTTAATTTAAT
1 TTATAAATATTTATAATTGTTT--TTTAAT
21770893 TTATAAATATTTATAATTGTTTTTTAAT
1 TTATAAATATTTATAATTGTTTTTTAAT
21770921 TT
1 TT
21770923 TCAGAATTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
28 16 0.59
29 8 0.30
30 3 0.11
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (28 bp):
TTATAAATATTTATAATTGTTTTTTAAT
Found at i:21778818 original size:22 final size:21
Alignment explanation
Indices: 21778783--21778859 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 21
21778773 AAAGGATATC
* *
21778783 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
21778804 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
21778827 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
21778846 TGCATATCATATCT
1 TACAAATCATATCT
21778860 AAGATTGTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
19 19 0.40
21 4 0.08
22 15 0.31
23 10 0.21
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:21778826 original size:23 final size:22
Alignment explanation
Indices: 21778783--21778840 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
21778773 AAAGGATATC
* *
21778783 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
21778804 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
21778827 TGCATATCATATCT
1 TACAAATCATATCT
21778841 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:21778843 original size:19 final size:19
Alignment explanation
Indices: 21778819--21778908 Score: 166
Period size: 19 Copynumber: 4.8 Consensus size: 19
21778809 AATCATATCT
21778819 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
21778838 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
21778857 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
21778874 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
21778893 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
21778909 CTTAAAGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
17 17 0.25
19 52 0.75
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:21778871 original size:36 final size:37
Alignment explanation
Indices: 21778812--21778908 Score: 155
Period size: 36 Copynumber: 2.6 Consensus size: 37
21778802 ATTACAAAAT
21778812 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
21778848 CATATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
21778884 CATATCATATCTAAGATTGCATATC
1 CATATCATATCTAAGATTG-ATATC
21778909 CTTAAAGATT
Statistics
Matches: 57, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
36 42 0.74
37 1 0.02
38 14 0.25
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:21779645 original size:132 final size:132
Alignment explanation
Indices: 21779487--21780608 Score: 1839
Period size: 132 Copynumber: 8.4 Consensus size: 132
21779477 ATGGAAATGC
* * *
21779487 CAGATCTGTTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACTT
1 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
* * * * * *
21779552 GTTCCCTATAAACACAGGGCTGCCCTGCTGAAATCTTCGATCTGCTTTGCTATAAGCATAGGAAT
66 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAGT
21779617 GT
131 GT
* * *
21779619 CAGATCTGCTATCTTTGATTTATTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
1 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
* ** * *
21779684 GTTCGCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCATTGTAATCACAGGAAT
66 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAGT
21779749 GT
131 GT
21779751 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
1 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
*
21779816 GTTCCCTATAAACACAAGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAGT
66 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAGT
21779881 GT
131 GT
21779883 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
1 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
21779948 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAGT
66 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAGT
21780013 GT
131 GT
21780015 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
1 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
*
21780080 GTTCCCTATAAACACAGGGATGCTATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAGT
66 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAGT
21780145 GT
131 GT
*
21780147 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTGCAACTT
1 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
* *
21780212 GTTCCCTATAAACATAGGGATGCCATGCTGAAATCTTCGATCTACTTCGCTGTAAGCACAGGAGT
66 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAGT
21780277 GT
131 GT
* **
21780279 CAGATTTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTATTATCTTCAACTT
1 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
*
21780344 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTTGATCTGCTTCGCTGTAAGCACAGGAGT
66 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAGT
21780409 GT
131 GT
*
21780411 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATATGCTATCTTCAACTT
1 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAA---
*
21780476 GTTCCCTACCAACTCGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTTGC
63 -----CT------T-GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGC
21780541 TGTAAGCACAGGAGTGT
116 TGTAAGCACAGGAGTGT
* *
21780558 CAGATCTGCTATCTTTGATCTGTTCCCTATAAACACAGAGATGCCAAATCT
1 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCT
21780609 TGTTTCTCTG
Statistics
Matches: 931, Mismatches: 44, Indels: 15
0.94 0.04 0.02
Matches are distributed among these distances:
132 815 0.88
140 2 0.00
146 1 0.00
147 113 0.12
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.31
Consensus pattern (132 bp):
CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAGT
GT
Found at i:21779651 original size:88 final size:87
Alignment explanation
Indices: 21779496--21780456 Score: 729
Period size: 88 Copynumber: 10.9 Consensus size: 87
21779486 CCAGATCTGT
* * * * * * *
21779496 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACTTGTTCCCTAT
1 TATCTTCGATCTGTTCGCTATAAACACAGGGATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
* * *
21779561 AAACACAGGGCTGCCCTGCTGA
66 AAACACAGGGATGCCATGCTGC
* * * * * * *
21779583 AATCTTCGATCTGCTTTGCTATAAGCATAGGAATGTCAGATCTGCTATCTTTGATTTATTCCCTA
1 TATCTTCGATCTG-TTCGCTATAAACACAGGGATGTCAGATCTGCTATCTTCGATTTGTTCCCTA
21779648 TAAACACAGGGATGCCAAAT-CTGC
65 TAAACACAGGGATGCC--ATGCTGC
* * ** * **
21779672 TATCTTC-AACTTGTTCGCTATAAACACAGGGATG-C-CATGCTGAAATCTTCGATCTGCTTCAT
1 TATCTTCGATC-TGTTCGCTATAAACACAGGGATGTCAGAT-CTGCTATCTTCGATTTG-TTCCC
* * * *
21779734 TGTAATCACAGGAATGTCA-GATCTGC
63 TATAAACACAGGGATGCCATG--CTGC
* * * * *
21779760 TATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTAT
1 TATCTTCGATCTGTTCGCTATAAACACAGGGATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
* *
21779825 AAACACAAGGATGCCATGCTGA
66 AAACACAGGGATGCCATGCTGC
* * * *
21779847 AATCTTCGATCTGCTTCGCTGTAAGCACA-GGAGTGTCAGATCTGCTATCTTCGATCTGTTCCCT
1 TATCTTCGATCTG-TTCGCTATAAACACAGGGA-TGTCAGATCTGCTATCTTCGATTTGTTCCCT
21779911 ATAAACACAGGGATGCCAAAT-CTGC
64 ATAAACACAGGGATGCC--ATGCTGC
* * * ** * *
21779936 TATCTTC-AACTTGTTCCCTATAAACACAGGGATG-C-CATGCTGAAATCTTCGATCTGCTTCGC
1 TATCTTCGATC-TGTTCGCTATAAACACAGGGATGTCAGAT-CTGCTATCTTCGATTTG-TTCCC
* * *
21779998 TGTAAGCACA-GGAGTGTCA-GATCTGC
63 TATAAACACAGGGA-TGCCATG--CTGC
* * * * *
21780024 TATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTAT
1 TATCTTCGATCTGTTCGCTATAAACACAGGGATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
* *
21780089 AAACACAGGGATGCTATGCTGA
66 AAACACAGGGATGCCATGCTGC
* * * *
21780111 AATCTTCGATCTGCTTCGCTGTAAGCACA-GGAGTGTCAGATCTGCTATCTTCGATCTGTTCCCT
1 TATCTTCGATCTG-TTCGCTATAAACACAGGGA-TGTCAGATCTGCTATCTTCGATTTGTTCCCT
21780175 ATAAACACAGGGATGCCAAAT-CTGC
64 ATAAACACAGGGATGCC--ATGCTGC
* * * * * ** ** *
21780200 TATCTGC-AACTTGTTCCCTATAAACATAGGGATG-C-CATGCTGAAATCTTCGATCTACTTCGC
1 TATCTTCGATC-TGTTCGCTATAAACACAGGGATGTCAGAT-CTGCTATCTTCGAT-TTGTTCCC
* * * *
21780262 TGTAAGCACA-GGAGTGTCA-GATTTGC
63 TATAAACACAGGGA-TGCCATG--CTGC
* * * ** * *
21780288 TATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTATTATCTTCAACTTGTTCCCTAT
1 TATCTTCGATCTGTTCGCTATAAACACAGGGATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
*
21780353 AAACACAGGGATGCCATGCTGA
66 AAACACAGGGATGCCATGCTGC
* * * * *
21780375 AATCTTTGATCTGCTTCGCTGTAAGCACA-GGAGTGTCAGATCTGCTATCTTCGATCTGTTCCCT
1 TATCTTCGATCTG-TTCGCTATAAACACAGGGA-TGTCAGATCTGCTATCTTCGATTTGTTCCCT
21780439 ATAAACACAGGGATGCCA
64 ATAAACACAGGGATGCCA
21780457 AATATGCTAT
Statistics
Matches: 680, Mismatches: 145, Indels: 97
0.74 0.16 0.11
Matches are distributed among these distances:
86 9 0.01
87 111 0.16
88 460 0.68
89 89 0.13
90 11 0.02
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.31
Consensus pattern (87 bp):
TATCTTCGATCTGTTCGCTATAAACACAGGGATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
AAACACAGGGATGCCATGCTGC
Found at i:21780605 original size:147 final size:147
Alignment explanation
Indices: 21780338--21780606 Score: 493
Period size: 147 Copynumber: 1.8 Consensus size: 147
21780328 CTATTATCTT
* *
21780338 CAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTTGATCTGCTTCGCTGTAAGCAC
1 CAACTCGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCAC
*
21780403 AGGAGTGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATATGCTATC
66 AGGAGTGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGAGATGCCAAATATGCTATC
21780468 TTCAACTTGTTCCCTAC
131 TTCAACTTGTTCCCTAC
*
21780485 CAACTCGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTTGCTGTAAGCAC
1 CAACTCGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCAC
*
21780550 AGGAGTGTCAGATCTGCTATCTTTGATCTGTTCCCTATAAACACAGAGATGCCAAAT
66 AGGAGTGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGAGATGCCAAAT
21780607 CTTGTTTCTC
Statistics
Matches: 117, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
147 117 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (147 bp):
CAACTCGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCAC
AGGAGTGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGAGATGCCAAATATGCTATC
TTCAACTTGTTCCCTAC
Found at i:21781533 original size:7 final size:7
Alignment explanation
Indices: 21781521--21781577 Score: 55
Period size: 8 Copynumber: 7.9 Consensus size: 7
21781511 GGCCTCTCAA
21781521 TTTTTTC
1 TTTTTTC
21781528 TTTTTTC
1 TTTTTTC
*
21781535 TTTTTATT
1 TTTTT-TC
21781543 TTCTTTTC
1 TT-TTTTC
21781551 TCTTTTTC
1 T-TTTTTC
21781559 --TTTTC
1 TTTTTTC
21781564 TTTTTTCC
1 TTTTTT-C
21781572 TTTTTT
1 TTTTTT
21781578 TTGAAATAGA
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
5 5 0.12
7 16 0.38
8 17 0.40
9 4 0.10
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTTC
Found at i:21781538 original size:6 final size:6
Alignment explanation
Indices: 21781522--21781568 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
21781512 GCCTCTCAAT
*
21781522 TTTTTC TTTTTTC TTTTT- ATTTTC TTTTCTC TTTTTC -TTTTC TTTTT
1 TTTTTC -TTTTTC TTTTTC TTTTTC TTTT-TC TTTTTC TTTTTC TTTTT
21781569 TCCTTTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
5 9 0.26
6 14 0.40
7 12 0.34
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTC
Found at i:21781546 original size:18 final size:18
Alignment explanation
Indices: 21781523--21781576 Score: 81
Period size: 18 Copynumber: 2.9 Consensus size: 18
21781513 CCTCTCAATT
21781523 TTTTCTTTTTTCTTTTTA
1 TTTTCTTTTTTCTTTTTA
* *
21781541 TTTTCTTTTCTCTTTTTC
1 TTTTCTTTTTTCTTTTTA
21781559 TTTTCTTTTTTCCTTTTT
1 TTTTCTTTTTT-CTTTTT
21781577 TTTGAAATAG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
18 26 0.81
19 6 0.19
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTTCTTTTTTCTTTTTA
Found at i:21781557 original size:13 final size:12
Alignment explanation
Indices: 21781523--21781579 Score: 73
Period size: 13 Copynumber: 4.8 Consensus size: 12
21781513 CCTCTCAATT
21781523 TTTTCTTTTTTC
1 TTTTCTTTTTTC
*
21781535 TTTT-TATTTTC
1 TTTTCTTTTTTC
21781546 TTTTCTCTTTTTC
1 TTTTCT-TTTTTC
21781559 TTTTCTTTTTTCC
1 TTTTCTTTTTT-C
21781572 TTTT-TTTT
1 TTTTCTTTT
21781580 GAAATAGAAG
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
11 10 0.25
12 14 0.35
13 16 0.40
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTCTTTTTTC
Found at i:21786924 original size:22 final size:21
Alignment explanation
Indices: 21786894--21786959 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
21786884 TACAAATTAA
21786894 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
21786916 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
21786937 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
21786956 ATCT
1 ATCT
21786960 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:21786946 original size:19 final size:19
Alignment explanation
Indices: 21786911--21787008 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
21786901 AGATTACAAG
21786911 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
21786932 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21786951 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
21786968 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
*
21786987 ATCATATATAAGATTGCAT
1 ATCATATCTAAGATTGCAT
21787006 ATC
1 ATC
21787009 CTTAAAGATT
Statistics
Matches: 74, Mismatches: 1, Indels: 6
0.91 0.01 0.07
Matches are distributed among these distances:
17 17 0.23
19 48 0.65
20 1 0.01
21 8 0.11
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:21786953 original size:14 final size:15
Alignment explanation
Indices: 21786933--21786989 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
21786923 AGATTGCATA
21786933 TCATATCTAAGATTG
1 TCATATCTAAGATTG
21786948 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
21786967 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
21786984 -CATATC
1 TCATATC
21786990 ATATATAAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.16
17 17 0.45
19 15 0.39
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:21786975 original size:36 final size:37
Alignment explanation
Indices: 21786911--21787008 Score: 144
Period size: 36 Copynumber: 2.6 Consensus size: 37
21786901 AGATTACAAG
21786911 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTG-ATATCATATCTAAGATTGCAT
21786951 ATCATATCTAAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
*
21786987 ATCATATATAAGATTGCATATC
1 ATCATATCTAAGATTG-ATATC
21787009 CTTAAAGATT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
36 35 0.64
38 11 0.20
39 1 0.02
40 8 0.15
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
Found at i:21787017 original size:36 final size:35
Alignment explanation
Indices: 21786922--21787018 Score: 99
Period size: 36 Copynumber: 2.6 Consensus size: 35
21786912 TCATATCTTC
* *
21786922 AAGATTGCATATCATATCTAAGATTGCATATCATATCT
1 AAGATTGCATATC--CT-TAAGATTGCATATCATATAT
21786960 AAGATTGTATCATAT-C-TAAGATTGCATATCATATAT
1 AAGATTG---CATATCCTTAAGATTGCATATCATATAT
21786996 AAGATTGCATATCCTTAAAGATT
1 AAGATTGCATATCCTT-AAGATT
21787019 ATATTTCCAT
Statistics
Matches: 51, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
33 5 0.10
34 1 0.02
35 1 0.02
36 32 0.63
38 7 0.14
41 5 0.10
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.37
Consensus pattern (35 bp):
AAGATTGCATATCCTTAAGATTGCATATCATATAT
Found at i:21797603 original size:15 final size:16
Alignment explanation
Indices: 21797577--21797617 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
21797567 TATACGAATA
*
21797577 TTAATATTAATTTTAG
1 TTAATTTTAATTTTAG
*
21797593 TT-ATTTTAATTTTAT
1 TTAATTTTAATTTTAG
21797608 TTAATTTTAA
1 TTAATTTTAA
21797618 GTCACTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (16 bp):
TTAATTTTAATTTTAG
Found at i:21804345 original size:86 final size:85
Alignment explanation
Indices: 21804246--21804405 Score: 234
Period size: 86 Copynumber: 1.9 Consensus size: 85
21804236 GTTTATGGGG
*
21804246 AAAGTGCCGCTAAAAGTCACGACTTTTAGCGGCATTTGCGGGGGAGGCGTC-GCTAAAAGT-AAA
1 AAAGCGCCGCTAAAAGTCACGACTTTTAGCGGCATTTGC-GGGGAGGCG-CGGCTAAAAGTCAAA
21804309 GGCTTTTAGCGGTGTTTGTAACA
64 -GCTTTTAGCGGTGTTTGTAACA
* * * *
21804332 AAAGCGCCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGCGGGGAGGCGCGGCTAAAAGTCATAGC
1 AAAGCGCCGCTAAAAGTCACGACTTTTAGCGGCATTTGCGGGGAGGCGCGGCTAAAAGTCAAAGC
21804397 TTTTAGCGG
66 TTTTAGCGG
21804406 CATTTGCAGG
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
84 1 0.01
85 29 0.43
86 37 0.55
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (85 bp):
AAAGCGCCGCTAAAAGTCACGACTTTTAGCGGCATTTGCGGGGAGGCGCGGCTAAAAGTCAAAGC
TTTTAGCGGTGTTTGTAACA
Found at i:21804431 original size:85 final size:86
Alignment explanation
Indices: 21804246--21804446 Score: 246
Period size: 85 Copynumber: 2.3 Consensus size: 86
21804236 GTTTATGGGG
*
21804246 AAAGTGCCGCTAAAAGTCACGACTTTTAGCGGCATTTGCGGGGGAGGCGTCGCTAAAAGTAAAGG
1 AAAGTGCCGCTAAAAGTCATGACTTTTAGCGGCATTTGCGGGGGAGGCGTCGCTAAAAGTAAAGG
** *
21804311 CTTTTAGCGGTGTTTGTAACA
66 CTTTTAGCGGCATTTGCAACA
* * * *
21804332 AAAGCGCCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGC-GGGGAGGCG-CGGCTAAAAGTCATA
1 AAAGTGCCGCTAAAAGTCATGACTTTTAGCGGCATTTGCGGGGGAGGCGTC-GCTAAAAGT-AAA
**
21804395 -GCTTTTAGCGGCATTTGCAGGA
64 GGCTTTTAGCGGCATTTGCAACA
* * *
21804417 GAAGTGCCGTTAAAAGCCATGACTTTTAGC
1 AAAGTGCCGCTAAAAGTCATGACTTTTAGC
21804447 AGCGCTTTTG
Statistics
Matches: 98, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
84 1 0.01
85 60 0.61
86 37 0.38
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (86 bp):
AAAGTGCCGCTAAAAGTCATGACTTTTAGCGGCATTTGCGGGGGAGGCGTCGCTAAAAGTAAAGG
CTTTTAGCGGCATTTGCAACA
Found at i:21804445 original size:43 final size:43
Alignment explanation
Indices: 21804251--21804446 Score: 171
Period size: 43 Copynumber: 4.6 Consensus size: 43
21804241 TGGGGAAAGT
* * * *
21804251 GCCGCTAAAAGTCACGACTTTTAGCGGCATTTGCGGGGGAGGC
1 GCCGCTAAAAGTCATGACTTTTAGCGGCATTTGCAGGAGAAGC
* * * * ** * ** *
21804294 GTCGCTAAAAGTAAAGGCTTTTAGCGGTGTTTGTAACAAAAGC
1 GCCGCTAAAAGTCATGACTTTTAGCGGCATTTGCAGGAGAAGC
* * * *
21804337 GCCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGC-GGGGAGGC
1 GCCGCTAAAAGTCATGACTTTTAGCGGCATTTGCAGGAGAAGC
* *
21804379 GCGGCTAAAAGTCAT-AGCTTTTAGCGGCATTTGCAGGAGAAGT
1 GCCGCTAAAAGTCATGA-CTTTTAGCGGCATTTGCAGGAGAAGC
* *
21804422 GCCGTTAAAAGCCATGACTTTTAGC
1 GCCGCTAAAAGTCATGACTTTTAGC
21804447 AGCGCTTTTG
Statistics
Matches: 118, Mismatches: 32, Indels: 6
0.76 0.21 0.04
Matches are distributed among these distances:
42 33 0.28
43 84 0.71
44 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (43 bp):
GCCGCTAAAAGTCATGACTTTTAGCGGCATTTGCAGGAGAAGC
Found at i:21804561 original size:31 final size:31
Alignment explanation
Indices: 21804521--21804586 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
21804511 AACCCTTCCT
* *
21804521 GCATTAAATCCAACCAAAAACAGCATATATA
1 GCATGAAATCCAACCAAAAACAGCAAATATA
* *
21804552 GCATGAAATCCAACCAAAAATAGCAAATGTA
1 GCATGAAATCCAACCAAAAACAGCAAATATA
21804583 GCAT
1 GCAT
21804587 AAAAAATACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.50, C:0.21, G:0.11, T:0.18
Consensus pattern (31 bp):
GCATGAAATCCAACCAAAAACAGCAAATATA
Found at i:21804858 original size:18 final size:20
Alignment explanation
Indices: 21804824--21804881 Score: 50
Period size: 21 Copynumber: 3.0 Consensus size: 20
21804814 CTGCTCTGCT
*
21804824 CTGCTGCCATCGC-TGCTAC-
1 CTGCTGCCTTC-CTTGCTACA
*
21804843 CT-CTGCCTTCCTTGCTGCTA
1 CTGCTGCCTTCCTTGCTAC-A
*
21804863 CTGCTGCCTTCCTCGCTAC
1 CTGCTGCCTTCCTTGCTAC
21804882 TGCATCCGCT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
17 1 0.03
18 12 0.39
19 2 0.06
20 2 0.06
21 14 0.45
ACGTcount: A:0.07, C:0.43, G:0.17, T:0.33
Consensus pattern (20 bp):
CTGCTGCCTTCCTTGCTACA
Found at i:21804859 original size:21 final size:21
Alignment explanation
Indices: 21804835--21804875 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
21804825 TGCTGCCATC
21804835 GCTGCTACCT-CTGCCTTCCTT
1 GCTGCTA-CTGCTGCCTTCCTT
21804856 GCTGCTACTGCTGCCTTCCT
1 GCTGCTACTGCTGCCTTCCT
21804876 CGCTACTGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.05, C:0.41, G:0.17, T:0.37
Consensus pattern (21 bp):
GCTGCTACTGCTGCCTTCCTT
Found at i:21804882 original size:18 final size:18
Alignment explanation
Indices: 21804824--21804884 Score: 54
Period size: 18 Copynumber: 3.2 Consensus size: 18
21804814 CTGCTCTGCT
*
21804824 CTGCTGCCATCGCT-GCTA
1 CTGCTGCCTTC-CTCGCTA
21804842 CCT-CTGCCTTCCTTGCTGCTA
1 -CTGCTGCCTTCC-T-C-GCTA
21804863 CTGCTGCCTTCCTCGCTA
1 CTGCTGCCTTCCTCGCTA
21804881 CTGC
1 CTGC
21804885 ATCCGCTCTA
Statistics
Matches: 36, Mismatches: 1, Indels: 11
0.75 0.02 0.23
Matches are distributed among these distances:
17 1 0.03
18 16 0.44
19 3 0.08
20 3 0.08
21 13 0.36
ACGTcount: A:0.07, C:0.43, G:0.18, T:0.33
Consensus pattern (18 bp):
CTGCTGCCTTCCTCGCTA
Found at i:21810414 original size:9 final size:9
Alignment explanation
Indices: 21810400--21810618 Score: 124
Period size: 9 Copynumber: 25.1 Consensus size: 9
21810390 TATGTATTAC
*
21810400 GTAAGTTAA
1 GTAAGTTAT
*
21810409 GTAAGTTTT
1 GTAAGTTAT
21810418 GTAAGTTAT
1 GTAAGTTAT
21810427 GTAAGTTAT
1 GTAAGTTAT
*
21810436 GATAAAAATTTAT
1 G-T---AAGTTAT
*
21810449 GTAAGGTAT
1 GTAAGTTAT
21810458 GTAAGTTAT
1 GTAAGTTAT
*
21810467 GTAAATTAT
1 GTAAGTTAT
* **
21810476 GATATGAAAT
1 G-TAAGTTAT
* *
21810486 AT-ATTTAT
1 GTAAGTTAT
*
21810494 GT-A-TTAC
1 GTAAGTTAT
21810501 GTAAGTTAT
1 GTAAGTTAT
*
21810510 ATAAGTTAT
1 GTAAGTTAT
21810519 GTAAGTTAT
1 GTAAGTTAT
21810528 -T-A--TAT
1 GTAAGTTAT
* *
21810533 AT-ATTTAT
1 GTAAGTTAT
21810541 GT-A-TTAT
1 GTAAGTTAT
21810548 GTAAGTTAT
1 GTAAGTTAT
21810557 GTAAGTTAT
1 GTAAGTTAT
21810566 GTAAGTTAT
1 GTAAGTTAT
*
21810575 -TATA-TGAT
1 GTA-AGTTAT
* *
21810583 ATATATTTAT
1 GTA-AGTTAT
21810593 GT-A-TTAT
1 GTAAGTTAT
21810600 GTAAGTTAT
1 GTAAGTTAT
21810609 GTAAGTTAT
1 GTAAGTTAT
21810618 G
1 G
21810619 ATATCATGTA
Statistics
Matches: 167, Mismatches: 26, Indels: 34
0.74 0.11 0.15
Matches are distributed among these distances:
5 3 0.02
6 2 0.01
7 18 0.11
8 19 0.11
9 108 0.65
10 9 0.05
12 1 0.01
13 7 0.04
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:21810515 original size:52 final size:50
Alignment explanation
Indices: 21810384--21810618 Score: 264
Period size: 52 Copynumber: 4.7 Consensus size: 50
21810374 TTTTCAAGTG
* * * * * *
21810384 TATATTTATGTATTACGTAAGTTAAGTAAGTTTTGTAAGTTATGTAAG-T
1 TATATTTATGTATTATGTAAGTTATGTAAGTTATGTAAGTTATATATGAA
** ** * *
21810433 TATGATAAAAAT-TTATGTAAGGTATGTAAGTTATGTAAATTATGATATGAAA
1 TAT-ATTTATGTATTATGTAAGTTATGTAAGTTATGTAAGTTAT-ATATG-AA
* *
21810485 TATATTTATGTATTACGTAAGTTATATAAGTTATGTAAGTTAT-TAT--A
1 TATATTTATGTATTATGTAAGTTATGTAAGTTATGTAAGTTATATATGAA
21810532 TATATTTATGTATTATGTAAGTTATGTAAGTTATGTAAGTTATTATATGATA
1 TATATTTATGTATTATGTAAGTTATGTAAGTTATGTAAGTTA-TATATGA-A
21810584 TATATTTATGTATTATGTAAGTTATGTAAGTTATG
1 TATATTTATGTATTATGTAAGTTATGTAAGTTATG
21810619 ATATCATGTA
Statistics
Matches: 154, Mismatches: 22, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
47 41 0.27
48 1 0.01
49 32 0.21
50 10 0.06
51 4 0.03
52 66 0.43
ACGTcount: A:0.36, C:0.01, G:0.16, T:0.47
Consensus pattern (50 bp):
TATATTTATGTATTATGTAAGTTATGTAAGTTATGTAAGTTATATATGAA
Found at i:21810821 original size:29 final size:28
Alignment explanation
Indices: 21810788--21810854 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 28
21810778 ATCACCTAGA
21810788 AAAAAATTATTTTAATTAAATAAAATTT
1 AAAAAATTATTTTAATTAAATAAAATTT
* *
21810816 ATAAAATTTATTTTAATTAAATAATATTT
1 A-AAAAATTATTTTAATTAAATAAAATTT
21810845 AAATAAATTA
1 AAA-AAATTA
21810855 ATACAAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (28 bp):
AAAAAATTATTTTAATTAAATAAAATTT
Found at i:21810843 original size:16 final size:16
Alignment explanation
Indices: 21810795--21810857 Score: 53
Period size: 15 Copynumber: 4.1 Consensus size: 16
21810785 AGAAAAAAAT
21810795 TATTTTAATTAAATAA
1 TATTTTAATTAAATAA
* * *
21810811 -AATTT-ATAAAAT-T
1 TATTTTAATTAAATAA
21810824 TATTTTAATTAAATAA
1 TATTTTAATTAAATAA
*
21810840 TA-TTTAAATAAATTAA
1 TATTTTAATTAAA-TAA
21810856 TA
1 TA
21810858 CAAATTATAT
Statistics
Matches: 36, Mismatches: 7, Indels: 8
0.71 0.14 0.16
Matches are distributed among these distances:
14 10 0.28
15 19 0.53
16 7 0.19
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TATTTTAATTAAATAA
Found at i:21810853 original size:189 final size:195
Alignment explanation
Indices: 21810633--21811213 Score: 897
Period size: 203 Copynumber: 3.0 Consensus size: 195
21810623 CATGTATTTA
* *
21810633 ATTATTTTAACTAAATAATATTTAAATAAATTAATCCAAATTATATATTTTAAAAAATTGTGTAT
1 ATTATTTTAATTAAATAATATTTAAATAAATTAATCCAAATTATATAATTTAAAAAATTGTGTAT
*
21810698 AAAAAAGTCG-AACCGTATAAGATGAAATGTCAACTTTGTTCCTT-G-AAAAAAAATAGAAATAA
66 AAAAAAGTCGAAACCGTATAAGATGAAATGTCAACTTTGTTCCTTGGAAAAAAAAATAAAAATAA
* * * *
21810760 AATTTGACAATGTGGAAAATCACCTAGAAAAAAATTATTTTAATTAAATAAAATTTAT-AA-AAT
131 AATTTGACGATGTGGAAAATCACATGGAAAAAAATTATTTTAATTAAATAATATTTATAAATAAT
*
21810823 -TTATTTTAATTAAATAATATTTAAATAAATTAATACAAATTATATAATTTAAAAAATTGTGTAT
1 ATTATTTTAATTAAATAATATTTAAATAAATTAATCCAAATTATATAATTTAAAAAATTGTGTAT
21810887 AAAAAAGTCGAAAACCGTATAAGATGAAATGTCAACTTTGTTCCTTGGAAAATAAAAATAAAAAT
66 AAAAAAGTCG-AAACCGTATAAGATGAAATGTCAACTTTGTTCCTTGGAAAA-AAAAATAAAAAT
21810952 AAAATTTGACGATGTGGAAAATCACATGGAAAAAAA-TATTTTAATTAAATAATATTTAAATAAA
129 AAAATTTGACGATGTGGAAAATCACATGGAAAAAAATTATTTTAATTAAATAATATTT--ATAAA
21811016 TTAAT
192 -TAAT
* *
21811021 CCAAATTATATTAATTAATTAATATTTAAATAAATTAATCCAAATTATATAATTTAAAAAATTGT
1 ----ATTATTTTAATTAAATAATATTTAAATAAATTAATCCAAATTATATAATTTAAAAAATTGT
* * *
21811086 GTATAAAAAAGTCGAAAACCGTATAAGATGAGATGCCAATTTTGTTCCTTGGAAAAAAAAATTAA
62 GTATAAAAAAGTCG-AAACCGTATAAGATGAAATGTCAACTTTGTTCCTTGGAAAAAAAAA-TAA
21811151 AAATAAAATTTGACGATGTGGAAAATCACATGGAAAAAAATTATTTTAATTAAATAATATTTA
125 AAATAAAATTTGACGATGTGGAAAATCACATGGAAAAAAATTATTTTAATTAAATAATATTTA
21811214 AATAAATTAA
Statistics
Matches: 360, Mismatches: 14, Indels: 22
0.91 0.04 0.06
Matches are distributed among these distances:
189 71 0.20
191 34 0.09
192 1 0.00
193 23 0.06
194 44 0.12
195 2 0.01
196 2 0.01
198 3 0.01
202 6 0.02
203 153 0.43
204 21 0.06
ACGTcount: A:0.50, C:0.07, G:0.09, T:0.34
Consensus pattern (195 bp):
ATTATTTTAATTAAATAATATTTAAATAAATTAATCCAAATTATATAATTTAAAAAATTGTGTAT
AAAAAAGTCGAAACCGTATAAGATGAAATGTCAACTTTGTTCCTTGGAAAAAAAAATAAAAATAA
AATTTGACGATGTGGAAAATCACATGGAAAAAAATTATTTTAATTAAATAATATTTATAAATAAT
Found at i:21811020 original size:16 final size:16
Alignment explanation
Indices: 21810986--21811059 Score: 51
Period size: 16 Copynumber: 4.2 Consensus size: 16
21810976 CATGGAAAAA
*
21810986 AATATTTTAATTAAA-T
1 AATA-TTTAAATAAATT
21811002 AATATTTAAATAAATT
1 AATATTTAAATAAATT
*
21811018 AATCCAAATTATATTAATTAATT
1 AAT----ATT-TA--AATAAATT
21811041 AATATTTAAATAAATT
1 AATATTTAAATAAATT
21811057 AAT
1 AAT
21811060 CCAAATTATA
Statistics
Matches: 47, Mismatches: 3, Indels: 16
0.71 0.05 0.24
Matches are distributed among these distances:
15 9 0.19
16 18 0.38
18 2 0.04
19 3 0.06
20 3 0.06
21 2 0.04
23 10 0.21
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
AATATTTAAATAAATT
Found at i:21811038 original size:19 final size:19
Alignment explanation
Indices: 21811014--21811074 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 19
21811004 TATTTAAATA
21811014 AATTAATCCAAATTATATT
1 AATTAATCCAAATTATATT
* * *
21811033 AATTAAT-TAATATTTAAATA
1 AATTAATCCAA-A-TTATATT
21811053 AATTAATCCAAATTATA-T
1 AATTAATCCAAATTATATT
21811071 AATT
1 AATT
21811075 TAAAAAATTG
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
18 6 0.18
19 12 0.36
20 13 0.39
21 2 0.06
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.43
Consensus pattern (19 bp):
AATTAATCCAAATTATATT
Found at i:21811044 original size:39 final size:39
Alignment explanation
Indices: 21810992--21811074 Score: 150
Period size: 39 Copynumber: 2.2 Consensus size: 39
21810982 AAAAAATATT
21810992 TTAATTAAATAATATTTAAATAAATTAATCCAAATTATA
1 TTAATTAAATAATATTTAAATAAATTAATCCAAATTATA
*
21811031 TTAATTAATTAATATTTAAATAAATTAATCCAAATTATA
1 TTAATTAAATAATATTTAAATAAATTAATCCAAATTATA
21811070 -TAATT
1 TTAATT
21811075 TAAAAAATTG
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
38 5 0.12
39 38 0.88
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (39 bp):
TTAATTAAATAATATTTAAATAAATTAATCCAAATTATA
Found at i:21811059 original size:20 final size:20
Alignment explanation
Indices: 21810994--21811059 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
21810984 AAAATATTTT
*
21810994 AATTAAATAATATTTAAATA
1 AATTAATTAATATTTAAATA
* * *
21811014 AATTAATCCAA-A-TTATATT
1 AATTAAT-TAATATTTAAATA
21811033 AATTAATTAATATTTAAATA
1 AATTAATTAATATTTAAATA
21811053 AATTAAT
1 AATTAAT
21811060 CCAAATTATA
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
18 2 0.06
19 13 0.36
20 19 0.53
21 2 0.06
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
AATTAATTAATATTTAAATA
Found at i:21811077 original size:19 final size:19
Alignment explanation
Indices: 21811011--21811077 Score: 73
Period size: 19 Copynumber: 3.5 Consensus size: 19
21811001 TAATATTTAA
21811011 ATAAATTAATCCAAATTAT
1 ATAAATTAATCCAAATTAT
* * *
21811030 ATTAATTAAT-TAATATTTAA
1 ATAAATTAATCCAA-A-TTAT
21811050 ATAAATTAATCCAAATTAT
1 ATAAATTAATCCAAATTAT
*
21811069 ATAATTTAA
1 ATAAATTAA
21811078 AAAATTGTGT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
18 2 0.05
19 21 0.55
20 13 0.34
21 2 0.05
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (19 bp):
ATAAATTAATCCAAATTAT
Found at i:21812561 original size:17 final size:18
Alignment explanation
Indices: 21812538--21812577 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
21812528 AACTTAAATT
21812538 TAAAAAACAAAAACAAAA
1 TAAAAAACAAAAACAAAA
* *
21812556 -AAAAAAGAAAAAGAAAA
1 TAAAAAACAAAAACAAAA
21812573 TAAAA
1 TAAAA
21812578 GATTAACTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.85, C:0.05, G:0.05, T:0.05
Consensus pattern (18 bp):
TAAAAAACAAAAACAAAA
Found at i:21813946 original size:16 final size:16
Alignment explanation
Indices: 21813925--21813958 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
21813915 AATTTAATCG
*
21813925 AACAAGATGATAGACT
1 AACAAGATGATAAACT
21813941 AACAAGATGATAAACT
1 AACAAGATGATAAACT
21813957 AA
1 AA
21813959 TTTTGAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.56, C:0.12, G:0.15, T:0.18
Consensus pattern (16 bp):
AACAAGATGATAAACT
Found at i:21814312 original size:19 final size:19
Alignment explanation
Indices: 21814286--21814336 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
21814276 TCTAGCGGCA
*
21814286 GCGACAGAGAGAAGAGGCT
1 GCGACAGAGAGAAGAGGAT
*
21814305 GTGACAGAGAGAAGAGGAT
1 GCGACAGAGAGAAGAGGAT
21814324 GCGACAGAGAGAA
1 GCGACAGAGAGAA
21814337 AAGGGTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.41, C:0.12, G:0.41, T:0.06
Consensus pattern (19 bp):
GCGACAGAGAGAAGAGGAT
Found at i:21814522 original size:21 final size:22
Alignment explanation
Indices: 21814496--21814541 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
21814486 GACGTAGTTA
21814496 GGGAAAATCAGAGAA-GAAATT
1 GGGAAAATCAGAGAATGAAATT
* * *
21814517 GGGAAATTGAGGGAATGAAATT
1 GGGAAAATCAGAGAATGAAATT
21814539 GGG
1 GGG
21814542 GTAATCTGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.43, C:0.02, G:0.37, T:0.17
Consensus pattern (22 bp):
GGGAAAATCAGAGAATGAAATT
Found at i:21814917 original size:115 final size:115
Alignment explanation
Indices: 21814708--21814991 Score: 299
Period size: 115 Copynumber: 2.5 Consensus size: 115
21814698 CAAAAAATTG
* * * ** * *
21814708 CCACTAA-AATCAGATAAAAACGACAGCGTTTTGCACGGTCGTAAAACATTTTTGCGGCATTTTA
1 CCACTAATAGTCAGACAAAAACGACAACGTTTTGCACACTCGTAAAACATTTTTGCGCCATTTAA
** * *
21814772 TGAGAAAACGCCACTAAAGGATATCCTTTTGCGGCATTTTAGT-AAAAACG
66 TGAGAAAACAACACTAAAGGATATCCTTTTGCGGCATTTT-CTAAAAAACA
* * * *
21814822 CCACTATTAGGT-AGACAGAAACGACAACGTTTTGCACACTCTTAAAACATTTTTTGCGCCGTTT
1 CCACTAATA-GTCAGACAAAAACGACAACGTTTTGCACACTCGTAAAACA-TTTTTGCGCCATTT
* * **
21814886 AATGAGAAAACAACACTAAAGGCT-TCTTTTTGCGGTGTTTTCTAAAAAACA
64 AATGAGAAAACAACACTAAAGGATATCCTTTTGCGGCATTTTCTAAAAAACA
* * *
21814937 CCACTAATAGTCAGACAAAAACGACAACATTTTCCACACGT-GTAAAACATATTTG
1 CCACTAATAGTCAGACAAAAACGACAACGTTTTGCACAC-TCGTAAAACATTTTTG
21814992 TGGCGTTTTC
Statistics
Matches: 139, Mismatches: 25, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
114 14 0.10
115 91 0.65
116 34 0.24
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (115 bp):
CCACTAATAGTCAGACAAAAACGACAACGTTTTGCACACTCGTAAAACATTTTTGCGCCATTTAA
TGAGAAAACAACACTAAAGGATATCCTTTTGCGGCATTTTCTAAAAAACA
Found at i:21815463 original size:7 final size:7
Alignment explanation
Indices: 21815453--21815493 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
21815443 TTTTTTAGAT
21815453 TTTAGGG
1 TTTAGGG
21815460 TTTAGGG
1 TTTAGGG
*
21815467 TTTAAGAG
1 TTT-AGGG
21815475 TTTAGGG
1 TTTAGGG
*
21815482 TTTAGGA
1 TTTAGGG
21815489 TTTAG
1 TTTAG
21815494 TGTCCATAGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
7 24 0.80
8 6 0.20
ACGTcount: A:0.22, C:0.00, G:0.34, T:0.44
Consensus pattern (7 bp):
TTTAGGG
Found at i:21816948 original size:41 final size:41
Alignment explanation
Indices: 21816867--21816950 Score: 125
Period size: 41 Copynumber: 2.0 Consensus size: 41
21816857 CCTTCAAGTC
*
21816867 TGTTCACACTTCTTCTGTTCTTCACATTGTGCTTTGGATTT
1 TGTTCACACTTCTTCTGTTCTTCACATTGCGCTTTGGATTT
* *
21816908 TGTTCACACTTCTTCTGTTCTTCGCGTTGCGC-TTGTGATTT
1 TGTTCACACTTCTTCTGTTCTTCACATTGCGCTTTG-GATTT
21816949 TG
1 TG
21816951 ATATTCTTCG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
40 3 0.08
41 36 0.92
ACGTcount: A:0.10, C:0.23, G:0.18, T:0.50
Consensus pattern (41 bp):
TGTTCACACTTCTTCTGTTCTTCACATTGCGCTTTGGATTT
Found at i:21819159 original size:25 final size:25
Alignment explanation
Indices: 21819130--21819183 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 25
21819120 GTTTGCAAAG
21819130 AATAAATA-AAA-AAAATATTTAAGAC
1 AATAAATAGAAAGAAAAT-TTT-AGAC
21819155 AATAAATAGTAAAGAAAATTTTAGAC
1 AATAAATAG-AAAGAAAATTTTAGAC
21819181 AAT
1 AAT
21819184 GGTTAATATG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
25 8 0.31
26 7 0.27
27 6 0.23
28 5 0.19
ACGTcount: A:0.63, C:0.04, G:0.07, T:0.26
Consensus pattern (25 bp):
AATAAATAGAAAGAAAATTTTAGAC
Found at i:21819419 original size:26 final size:25
Alignment explanation
Indices: 21819376--21819433 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
21819366 AATAAATAGT
21819376 TAATAATAAAATGATATAAAATA-A
1 TAATAATAAAATGATATAAAATATA
*
21819400 TAAATAATAAAAATGATATAATATATA
1 T-AATAAT-AAAATGATATAAAATATA
21819427 TAATAAT
1 TAATAAT
21819434 TTACATATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 1 0.03
25 6 0.20
26 21 0.70
27 2 0.07
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (25 bp):
TAATAATAAAATGATATAAAATATA
Found at i:21819461 original size:15 final size:16
Alignment explanation
Indices: 21819366--21819485 Score: 52
Period size: 16 Copynumber: 7.2 Consensus size: 16
21819356 AATTATACAT
21819366 AATAAATAGT-TAATAA
1 AATAAATA-TATAATAA
*
21819382 TA-AAATGATATAA-AA
1 AATAAAT-ATATAATAA
*
21819397 TAATAAATA-ATAAAAA
1 -AATAAATATATAATAA
21819413 TGATATAATATATATAATAA
1 --A-ATAA-ATATATAATAA
**
21819433 TTTACATATATATAATAA
1 AATA-A-ATATATAATAA
* *
21819451 AATGAAT-TATAAAGAA
1 AATAAATATAT-AATAA
*
21819467 AAAAAATATATAATAA
1 AATAAATATATAATAA
21819483 AAT
1 AAT
21819486 TTATAAGAAA
Statistics
Matches: 78, Mismatches: 14, Indels: 24
0.67 0.12 0.21
Matches are distributed among these distances:
15 14 0.18
16 26 0.33
17 11 0.14
18 18 0.23
19 3 0.04
20 6 0.08
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (16 bp):
AATAAATATATAATAA
Found at i:21821595 original size:21 final size:21
Alignment explanation
Indices: 21821549--21821590 Score: 70
Period size: 19 Copynumber: 2.1 Consensus size: 21
21821539 CAATTCATTA
21821549 TTATTAAACTTCTCTTTTGAG
1 TTATTAAACTTCTCTTTTGAG
21821570 TTATTAAA-TTCTC-TTTGAG
1 TTATTAAACTTCTCTTTTGAG
21821589 TT
1 TT
21821591 TTATTTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 8 0.38
20 5 0.24
21 8 0.38
ACGTcount: A:0.24, C:0.12, G:0.10, T:0.55
Consensus pattern (21 bp):
TTATTAAACTTCTCTTTTGAG
Found at i:21823716 original size:96 final size:95
Alignment explanation
Indices: 21823552--21824201 Score: 643
Period size: 96 Copynumber: 6.8 Consensus size: 95
21823542 ATTACGGATA
* * * * *
21823552 CCATGTTCCAAACATGGTCTTACACTGGCTCACA-AGTCAA-GCCTAATGCCATGTCCCAGACAT
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATA-TCAATG-CTGATGCCATGTCCCAGACAT
* * * *
21823615 GGTCTTACGCTAGCTCTCGTCTCAATGCCGATG
64 GGTCTTACACTGGCTCTCAT-TCAATGTCGATG
* * *
21823648 CCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGCCGATGCCATGTCCCAGACATGG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCTGATGCCATGTCCCAGACATGG
* * *
21823713 TCTTACACTAGCTCACATGTCGAA-GCCGATG
66 TCTTACACTGGCTCTCAT-TC-AATGTCGATG
** * * * *
21823744 CCATGTCCCAGACATCATTTTACACTAGCTCTCGTCTCAATGTTGATGCCATGTCCCAGACATGG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCTGATGCCATGTCCCAGACATGG
*
21823809 TCTTACACTGGCTCTCA-T-AATGTGGTCGATT
66 TCTTACACTGGCTCTCATTCAA--T-GTCGATG
* * * *
21823840 CCATGTCCCAGACACGGTCTTACCCTAGCGCACATATCAATGCTGATGCCATGTCCCAGACATGG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCTGATGCCATGTCCCAGACATGG
*
21823905 TCTTACACTGGCTCTCATTACATTGTCGATG
66 TCTTACACTGGCTCTCATT-CAATGTCGATG
* * * * * *
21823936 CCATGTTCCAAACATGGTCATACATTGGCTCTCATAT-TATGGCTGATGCCATGTCCCAGACATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAAT-GCTGATGCCATGTCCCAGACATG
*
21824000 GTCATACACTGGCTCTCA-T-AATGTGGTCGATG
65 GTCTTACACTGGCTCTCATTCAA--T-GTCGATG
* * * * * * *
21824032 CCATGTCTCAGACTTGGTCTAACACTAGCACACATATCAATGTTGATGCCATGTCTCAGACATGG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCTGATGCCATGTCCCAGACATGG
* *
21824097 TCTTACACTGGCTCTCATTACATTGTCAATG
66 TCTTACACTGGCTCTCATT-CAATGTCGATG
* * * * * * * *
21824128 CCTTGTTCCAAACATGGTCATACACTGGCTCTAATATC-GTGGCCGATGCCATGTCCCAGACATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAAT-GCTGATGCCATGTCCCAGACATG
21824192 GTCTTACACT
65 GTCTTACACT
21824202 AGCGCACATA
Statistics
Matches: 459, Mismatches: 76, Indels: 38
0.80 0.13 0.07
Matches are distributed among these distances:
92 2 0.00
93 1 0.00
94 1 0.00
95 5 0.01
96 439 0.96
97 9 0.02
99 2 0.00
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (95 bp):
CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCTGATGCCATGTCCCAGACATGG
TCTTACACTGGCTCTCATTCAATGTCGATG
Found at i:21823812 original size:144 final size:144
Alignment explanation
Indices: 21823552--21824204 Score: 676
Period size: 144 Copynumber: 4.5 Consensus size: 144
21823542 ATTACGGATA
* * *
21823552 CCATGTTCCAAACATGGTCTTACACTGGCTCACA-AGTC-AAGCCTAATGCCATGTCCCAGACAT
1 CCATGTCCCAGACATGGTCTTACACTGGCTCACATA-TCGAAGCC-GATGCCATGTCCCAGACAT
* * * *
21823615 GGTCTTACGCTAGCTCTCGTCTCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT
64 GGTCTTACACTAGCTCTCATCTCAATGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT
* *
21823680 CGTCTCAAT-GCCGATG
129 CATAT-AATGGCCGATG
* * **
21823696 CCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCGAAGCCGATGCCATGTCCCAGACATCA
1 CCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAAGCCGATGCCATGTCCCAGACATGG
* * *
21823761 TTTTACACTAGCTCTCGTCTCAATGTTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA
66 TCTTACACTAGCTCTCATCTCAATGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA
* * *
21823826 TA-ATGTGGTCGATT
131 TATA-ATGGCCGATG
* * * * *
21823840 CCATGTCCCAGACACGGTCTTACCCTAGCGCACATATC-AATGCTGATGCCATGTCCCAGACATG
1 CCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAA-GCCGATGCCATGTCCCAGACATG
* * * * * *
21823904 GTCTTACACTGGCTCTCAT-TACATTGTCGATGCCATGTTCCAAACATGGTCATACATTGGCTCT
65 GTCTTACACTAGCTCTCATCT-CAATGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT
* *
21823968 CATATTATGGCTGATG
129 CATATAATGGCCGATG
* * ** * * *
21823984 CCATGTCCCAGACATGGTCATACACTGGCTCTCATAAT-GTGGTCGATGCCATGTCTCAGACTTG
1 CCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCGAAGCCGATGCCATGTCCCAGACATG
* * * * * *
21824048 GTCTAACACTAGCACACATATCAATGTTGATGCCATGTCTCAGACATGGTCTTACACTGGCTCTC
65 GTCTTACACTAGCTCTCATCTCAATGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC
* * *
21824113 AT-TACATTGTCAATG
130 ATATA-ATGGCCGATG
* * * * **
21824128 CCTTGTTCCAAACATGGTCATACACTGGCTCTA-ATATCGTGGCCGATGCCATGTCCCAGACATG
1 CCATGTCCCAGACATGGTCTTACACTGGCTC-ACATATCGAAGCCGATGCCATGTCCCAGACATG
21824192 GTCTTACACTAGC
65 GTCTTACACTAGC
21824205 GCACATATCA
Statistics
Matches: 422, Mismatches: 74, Indels: 26
0.81 0.14 0.05
Matches are distributed among these distances:
142 1 0.00
143 7 0.02
144 406 0.96
145 8 0.02
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (144 bp):
CCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAAGCCGATGCCATGTCCCAGACATGG
TCTTACACTAGCTCTCATCTCAATGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA
TATAATGGCCGATG
Found at i:21824213 original size:48 final size:47
Alignment explanation
Indices: 21823552--21824215 Score: 564
Period size: 48 Copynumber: 13.9 Consensus size: 47
21823542 ATTACGGATA
* * * * * *
21823552 CCATGTTCCAAACATGGTCTTACACTGGCTCACA-AGTCAAGCCTAATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATA-TCATGCC-GATG
* * *
21823600 CCATGTCCCAGACATGGTCTTACGCTAGCTCTCGTCTCAATGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC-ATGCCGATG
* *
21823648 CCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC-ATGCCGATG
* * *
21823696 CCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCGAAGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC-ATGCCGATG
** * * * **
21823744 CCATGTCCCAGACATCATTTTACACTAGCTCTCGTCTCAATGTTGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC-ATGCCGATG
* * * *
21823792 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGTCGATT
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-ATCAT-GCCGATG
* * * * *
21823840 CCATGTCCCAGACACGGTCTTACCCTAGCGCACATATCAATGCTGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC-ATGCCGATG
* *
21823888 CCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-TACATTGTCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATAT-CA-TGCCGATG
* * * * * * *
21823936 CCATGTTCCAAACATGGTCATACATTGGCTCTCATATTATGGCTGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAT-GCCGATG
* * * *
21823984 CCATGTCCCAGACATGGTCATACACTGGCTCTCATAAT-GTGGTCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-ATCAT-GCCGATG
* * * * * **
21824032 CCATGTCTCAGACTTGGTCTAACACTAGCACACATATCAATGTTGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC-ATGCCGATG
* * * *
21824080 CCATGTCTCAGACATGGTCTTACACTGGCTCTCAT-TACATTGTCAATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATAT-CA-TGCCGATG
* * * * * * *
21824128 CCTTGTTCCAAACATGGTCATACACTGGCTCTAATATCGTGGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAT-GCCGATG
* *
21824176 CCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAT
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAT
21824216 CCAAATGTCA
Statistics
Matches: 502, Mismatches: 97, Indels: 34
0.79 0.15 0.05
Matches are distributed among these distances:
47 11 0.02
48 480 0.96
49 11 0.02
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCATGCCGATG
Found at i:21841894 original size:48 final size:48
Alignment explanation
Indices: 21841838--21842201 Score: 317
Period size: 48 Copynumber: 7.6 Consensus size: 48
21841828 TGAATTACCA
* * ** *
21841838 ATGCCATGTTCCAAACATGGTCTTACACTGGCTAACATGTCGAGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAGGCTG
* * * * * * *
21841886 ATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCGTCTCAATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAGGCTG
* * * *
21841934 ATGCCATGTCGCAGACACGGTCTTACACTGGCTCACATGTCGAGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAGGCTG
* * * * * * * * *
21841982 ATGCCATGTCCCGGACATTGTGTTACACTAGCTCTCGTCTCAATGTTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAGGCTG
* * * * *
21842030 ATGGCATGTCCTAGACATAGTCTTACATTGGCTCTCATAAT--ATGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATCGA-GGCTG
*
21842078 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-TAC-ATTG-TCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAT-CGA-GGCT-G
* * * *
21842126 ATGCCATGTTCCAAACATGGT-TTACACTGGCTCTCATATCGTGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAGGCTG
*
21842173 ATGTCATGTCCCAGACATGGTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
21842202 AGCGTACATA
Statistics
Matches: 248, Mismatches: 59, Indels: 18
0.76 0.18 0.06
Matches are distributed among these distances:
46 1 0.00
47 38 0.15
48 208 0.84
49 1 0.00
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAGGCTG
Found at i:21842012 original size:96 final size:96
Alignment explanation
Indices: 21841838--21842204 Score: 431
Period size: 96 Copynumber: 3.8 Consensus size: 96
21841828 TGAATTACCA
* * *
21841838 ATGCCATGTTCCAAACATGGTCTTACACTGGCTAACATGTCGAGGCTGATGCCATGTCCCAGACA
1 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCCCAGACA
* *
21841903 TGGTCTTATACTAGCTCTCGTCTCAATGCCG
66 TGGTCTTACACTAGCTCTCGTCTCAATGTCG
* * * * *
21841934 ATGCCATG-TCGCAGACACGGTCTTACACTGGCTCACATGTCGAGGCTGATGCCATGTCCCGGAC
1 ATGCCATGTTC-CAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCCCAGAC
* * *
21841998 ATTGTGTTACACTAGCTCTCGTCTCAATGTTG
65 ATGGTCTTACACTAGCTCTCGTCTCAATGTCG
* * * * *
21842030 ATGGCATG-TCCTAGACATAGTCTTACATTGGCTCTCATAAT--ATGGCCGATGCCATGTCCCAG
1 ATGCCATGTTCC-AAACATGGTCTTACACTGGCTCACAT-ATCGA-GGCCGATGCCATGTCCCAG
* * *
21842092 ACATGGTCTTACACTGGCTCTCAT-TACATTGTCG
63 ACATGGTCTTACACTAGCTCTCGTCT-CAATGTCG
* * *
21842126 ATGCCATGTTCCAAACATGGT-TTACACTGGCTCTCATATCGTGGCCGATGTCATGTCCCAGACA
1 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCCCAGACA
21842190 TGGTCTTACACTAGC
66 TGGTCTTACACTAGC
21842205 GTACATATTA
Statistics
Matches: 233, Mismatches: 30, Indels: 17
0.83 0.11 0.06
Matches are distributed among these distances:
94 2 0.01
95 55 0.24
96 172 0.74
97 4 0.02
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (96 bp):
ATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCCCAGACA
TGGTCTTACACTAGCTCTCGTCTCAATGTCG
Found at i:21845572 original size:22 final size:22
Alignment explanation
Indices: 21845544--21845589 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
21845534 TCAAGTCAAG
21845544 GGCTCAATGATTTGCCTAACAT
1 GGCTCAATGATTTGCCTAACAT
21845566 GGCTCAATGATTTGCCTAACAT
1 GGCTCAATGATTTGCCTAACAT
21845588 GG
1 GG
21845590 AGTGGGTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (22 bp):
GGCTCAATGATTTGCCTAACAT
Found at i:21862800 original size:5 final size:5
Alignment explanation
Indices: 21862790--21862814 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
21862780 TATTATATGC
21862790 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
21862815 GGTAAGTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:21864508 original size:20 final size:21
Alignment explanation
Indices: 21864483--21864531 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 21
21864473 GTTTTCTAGT
21864483 TGTTTTAG-ATTATTTTGTTA
1 TGTTTTAGTATTATTTTGTTA
*
21864503 TGTTTTTCGTTATTATTTTGTTA
1 TG-TTTTAG-TATTATTTTGTTA
21864526 TGTTTT
1 TGTTTT
21864532 TCATTTTTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 2 0.08
21 5 0.20
22 4 0.16
23 14 0.56
ACGTcount: A:0.14, C:0.02, G:0.14, T:0.69
Consensus pattern (21 bp):
TGTTTTAGTATTATTTTGTTA
Found at i:21864532 original size:11 final size:11
Alignment explanation
Indices: 21864495--21864532 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
21864485 TTTTAGATTA
21864495 TTTTGTTATGT
1 TTTTGTTATGT
21864506 TTTTCGTTAT-T
1 TTTT-GTTATGT
21864517 ATTTTGTTATGT
1 -TTTTGTTATGT
21864529 TTTT
1 TTTT
21864533 CATTTTTAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
11 14 0.58
12 10 0.42
ACGTcount: A:0.11, C:0.03, G:0.13, T:0.74
Consensus pattern (11 bp):
TTTTGTTATGT
Found at i:21871717 original size:21 final size:18
Alignment explanation
Indices: 21871677--21871714 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
21871667 GTTTATTTGA
21871677 TGAAATGAAGATGATGGG
1 TGAAATGAAGATGATGGG
21871695 TGAAATGAAGATGATGGG
1 TGAAATGAAGATGATGGG
21871713 TG
1 TG
21871715 GTGGTGAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.39, T:0.24
Consensus pattern (18 bp):
TGAAATGAAGATGATGGG
Found at i:21873990 original size:14 final size:16
Alignment explanation
Indices: 21873957--21873997 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 16
21873947 TCATAATATG
*
21873957 AAAATATTTTATATTA
1 AAAATATATTATATTA
21873973 AAAATATATT-TA-TA
1 AAAATATATTATATTA
*
21873987 AAAATTTATTA
1 AAAATATATTA
21873998 GTTTTATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 11 0.50
15 2 0.09
16 9 0.41
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
AAAATATATTATATTA
Found at i:21882146 original size:39 final size:39
Alignment explanation
Indices: 21882084--21882207 Score: 167
Period size: 39 Copynumber: 3.2 Consensus size: 39
21882074 ATTTAATGTG
*
21882084 TATCCGGACATAGGGTCCACAGGCTATGTGCTGGATTTA
1 TATCCGGACTTAGGGTCCACAGGCTATGTGCTGGATTTA
* ** *
21882123 TATTCGGACTTAGGGTCTGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCACAGGCTATGTGCTGGATTTA
* * *
21882162 TATCCGGACTTAAGGTCCACAGGCTACGTGCTGGATATA
1 TATCCGGACTTAGGGTCCACAGGCTATGTGCTGGATTTA
*
21882201 TGTCCGG
1 TATCCGG
21882208 GCTAAAGTTC
Statistics
Matches: 72, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (39 bp):
TATCCGGACTTAGGGTCCACAGGCTATGTGCTGGATTTA
Found at i:21882224 original size:39 final size:39
Alignment explanation
Indices: 21882084--21882245 Score: 132
Period size: 39 Copynumber: 4.2 Consensus size: 39
21882074 ATTTAATGTG
* * * *
21882084 TATCCGGAC-ATAGGGTCCACAGGCTATGTGCTGGATTTA
1 TATCCGGACTA-AAGGTCCGCAGGCTACGTGCTGGAATTA
* * * * *
21882123 TATTCGGACTTAGGGTCTGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTAAAGGTCCGCAGGCTACGTGCTGGAATTA
* *
21882162 TATCCGGACTTAAGGTCCACAGGCTACGTGCTGG-ATATA
1 TATCCGGACTAAAGGTCCGCAGGCTACGTGCTGGAAT-TA
* * * * * *
21882201 TGTCCGGGCTAAAGTTCCGCAGGCTTCGAGCTGGTATTA
1 TATCCGGACTAAAGGTCCGCAGGCTACGTGCTGGAATTA
21882240 TA-CCGG
1 TATCCGG
21882246 GTTTAAATTC
Statistics
Matches: 102, Mismatches: 18, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
38 6 0.06
39 94 0.92
40 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (39 bp):
TATCCGGACTAAAGGTCCGCAGGCTACGTGCTGGAATTA
Found at i:21882234 original size:78 final size:78
Alignment explanation
Indices: 21882084--21882245 Score: 184
Period size: 78 Copynumber: 2.1 Consensus size: 78
21882074 ATTTAATGTG
* * * * * * *
21882084 TATCCGGACATAGGGTCCACAGGCTATGTGCTGGATTTATATTCGGACTTAGGGTCTGCAGGCTA
1 TATCCGGACATAAGGTCCACAGGCTACGTGCTGGATATATATCCGGACTAAAGGTCCGCAGGCTA
*
21882149 TGTGCTGGAATTA
66 TGAGCTGGAATTA
* * * *
21882162 TATCCGGACTTAAGGTCCACAGGCTACGTGCTGGATATATGTCCGGGCTAAAGTTCCGCAGGCT-
1 TATCCGGACATAAGGTCCACAGGCTACGTGCTGGATATATATCCGGACTAAAGGTCCGCAGGCTA
*
21882226 TCGAGCTGGTATTA
66 T-GAGCTGGAATTA
21882240 TA-CCGG
1 TATCCGG
21882246 GTTTAAATTC
Statistics
Matches: 70, Mismatches: 13, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
77 5 0.07
78 65 0.93
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (78 bp):
TATCCGGACATAAGGTCCACAGGCTACGTGCTGGATATATATCCGGACTAAAGGTCCGCAGGCTA
TGAGCTGGAATTA
Found at i:21889229 original size:39 final size:39
Alignment explanation
Indices: 21889142--21889249 Score: 99
Period size: 39 Copynumber: 2.8 Consensus size: 39
21889132 CCGGACTTAG
* * * *
21889142 GGTCCGCAGGCTATGTGCTGGAATTATATCCATACTTAA
1 GGTCCGCAGGCTACGTGCTGGAAATATATCCAGACTAAA
* * * *
21889181 GGTCTGCAGGCTACGTGCTGGAAATATGTCCGGGCTAAA
1 GGTCCGCAGGCTACGTGCTGGAAATATATCCAGACTAAA
* * * * *
21889220 GTTCCGCAGGCTTCGAGCTGGTATTATATC
1 GGTCCGCAGGCTACGTGCTGGAAATATATC
21889250 GGGTTTAAAT
Statistics
Matches: 54, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (39 bp):
GGTCCGCAGGCTACGTGCTGGAAATATATCCAGACTAAA
Found at i:21898194 original size:53 final size:53
Alignment explanation
Indices: 21898012--21898218 Score: 200
Period size: 53 Copynumber: 3.8 Consensus size: 53
21898002 ATTAGGGTTT
* * **
21898012 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTTCAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGTTCAT-AAGGC
* * * * * * * * *
21898066 ATGGAAATCATGGAAGACCATGCCAAGAG-ATGGCATTGATAAACTACGATAAGGA
1 AAGGATACCATGTAAGACCATGCCAAG-GCATGGCAATGGT-AAGTTC-ATAAGGC
* * *
21898121 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGTTCATAAGGC
* * *
21898174 AAGGATACCATGTAAGACCATGTCAAGACATGGTAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGTT
21898219 TAAAAGGGAA
Statistics
Matches: 120, Mismatches: 29, Indels: 9
0.76 0.18 0.06
Matches are distributed among these distances:
53 45 0.38
54 36 0.30
55 38 0.32
56 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.26, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGTTCATAAGGC
Found at i:21900616 original size:39 final size:40
Alignment explanation
Indices: 21900548--21900628 Score: 155
Period size: 39 Copynumber: 2.0 Consensus size: 40
21900538 AATGTGAATG
21900548 TCCATATTCTAATCCCCCCTCATTTATGAGGTAAAACCTC
1 TCCATATTCTAATCCCCCCTCATTTATGAGGTAAAACCTC
21900588 TCCATATTCTAAT-CCCCCTCATTTATGAGGTAAAACCTC
1 TCCATATTCTAATCCCCCCTCATTTATGAGGTAAAACCTC
21900627 TC
1 TC
21900629 ATTCATTATG
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
39 28 0.68
40 13 0.32
ACGTcount: A:0.27, C:0.32, G:0.07, T:0.33
Consensus pattern (40 bp):
TCCATATTCTAATCCCCCCTCATTTATGAGGTAAAACCTC
Found at i:21921002 original size:42 final size:42
Alignment explanation
Indices: 21920956--21921051 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 42
21920946 CGACCAAACT
21920956 ACACGCCCATGTACTCAGC-CGTGTGTCACACACAGTCTAGAC
1 ACACGCCCATGT-CTCAGCTCGTGTGTCACACACAGTCTAGAC
* * * * *
21920998 ACACGCCCTTGTGTCTGCTTGTGTGTCACACACGGTCTAGAC
1 ACACGCCCATGTCTCAGCTCGTGTGTCACACACAGTCTAGAC
*
21921040 ACACGCCTATGT
1 ACACGCCCATGT
21921052 GCCTGCCCAT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
41 4 0.09
42 42 0.91
ACGTcount: A:0.22, C:0.33, G:0.21, T:0.24
Consensus pattern (42 bp):
ACACGCCCATGTCTCAGCTCGTGTGTCACACACAGTCTAGAC
Found at i:21926835 original size:40 final size:40
Alignment explanation
Indices: 21926780--21927004 Score: 299
Period size: 40 Copynumber: 5.6 Consensus size: 40
21926770 TATTCGGATG
21926780 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
21926820 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
21926863 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
21926903 ATTTCCGGGCTAAGACCCGAAGGCATGTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
21926943 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGCG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
21926983 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
21927005 TACTTGGTTT
Statistics
Matches: 163, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 14 0.09
40 111 0.68
41 1 0.01
43 37 0.23
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:21926923 original size:83 final size:80
Alignment explanation
Indices: 21926784--21927004 Score: 286
Period size: 83 Copynumber: 2.7 Consensus size: 80
21926774 CGGATGATAT
* * *
21926784 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATGTG
*
21926849 TGCGAGTAGTTGCTATAC
66 TGC--G-AGTTACTATAC
* *
21926867 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATTTCCGGGCTAAGACCCGAAGGCATGTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATGTG
*
21926932 TGCGAGTTACTATAT
66 TGCGAGTTACTATAC
* * *
21926947 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTG-CGATATCC-GGCTAA-ATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGA-CCCGAAGG
21927005 TACTTGGTTT
Statistics
Matches: 125, Mismatches: 11, Indels: 8
0.87 0.08 0.06
Matches are distributed among these distances:
78 1 0.01
79 14 0.11
80 44 0.35
81 3 0.02
83 63 0.50
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATGTG
TGCGAGTTACTATAC
Found at i:21934567 original size:14 final size:14
Alignment explanation
Indices: 21934541--21934586 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
21934531 CCTACAACAA
21934541 CAAG-AAAACATATT
1 CAAGCAAAA-ATATT
21934555 CAAGCAAAAATATT
1 CAAGCAAAAATATT
* *
21934569 CAAACAAACATATT
1 CAAGCAAAAATATT
21934583 CAAG
1 CAAG
21934587 ATCGTTGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 24 0.86
15 4 0.14
ACGTcount: A:0.57, C:0.17, G:0.07, T:0.20
Consensus pattern (14 bp):
CAAGCAAAAATATT
Found at i:21941365 original size:297 final size:297
Alignment explanation
Indices: 21940831--21941424 Score: 1188
Period size: 297 Copynumber: 2.0 Consensus size: 297
21940821 TTTGGTGGTT
21940831 GACGTACCTTTGGTGGTTCACATACTGTAGCAAAGATTTTGCAAGCAGGTTTCTTTTGGCCTACG
1 GACGTACCTTTGGTGGTTCACATACTGTAGCAAAGATTTTGCAAGCAGGTTTCTTTTGGCCTACG
21940896 CTATTTAAAGATGCTTATGCTTTTATGAAGAACCGTGATAAATGCCAAAAGACCAGAAATATATC
66 CTATTTAAAGATGCTTATGCTTTTATGAAGAACCGTGATAAATGCCAAAAGACCAGAAATATATC
21940961 AAGGAGGAATGAGATACCCTTTACAAACATTTTGGAGATTGAATTATTCGATGTATGGGGCATTG
131 AAGGAGGAATGAGATACCCTTTACAAACATTTTGGAGATTGAATTATTCGATGTATGGGGCATTG
21941026 ACTTCTGAAGCCCATTTCCTTCTTCATATGGGAACAAATACATCTTAGTTGTTGTGGACTATGTA
196 ACTTCTGAAGCCCATTTCCTTCTTCATATGGGAACAAATACATCTTAGTTGTTGTGGACTATGTA
21941091 ACCAAGTGGGTTGAATCTGAAGCATACCCTACAAATG
261 ACCAAGTGGGTTGAATCTGAAGCATACCCTACAAATG
21941128 GACGTACCTTTGGTGGTTCACATACTGTAGCAAAGATTTTGCAAGCAGGTTTCTTTTGGCCTACG
1 GACGTACCTTTGGTGGTTCACATACTGTAGCAAAGATTTTGCAAGCAGGTTTCTTTTGGCCTACG
21941193 CTATTTAAAGATGCTTATGCTTTTATGAAGAACCGTGATAAATGCCAAAAGACCAGAAATATATC
66 CTATTTAAAGATGCTTATGCTTTTATGAAGAACCGTGATAAATGCCAAAAGACCAGAAATATATC
21941258 AAGGAGGAATGAGATACCCTTTACAAACATTTTGGAGATTGAATTATTCGATGTATGGGGCATTG
131 AAGGAGGAATGAGATACCCTTTACAAACATTTTGGAGATTGAATTATTCGATGTATGGGGCATTG
21941323 ACTTCTGAAGCCCATTTCCTTCTTCATATGGGAACAAATACATCTTAGTTGTTGTGGACTATGTA
196 ACTTCTGAAGCCCATTTCCTTCTTCATATGGGAACAAATACATCTTAGTTGTTGTGGACTATGTA
21941388 ACCAAGTGGGTTGAATCTGAAGCATACCCTACAAATG
261 ACCAAGTGGGTTGAATCTGAAGCATACCCTACAAATG
21941425 ATGATAAGGT
Statistics
Matches: 297, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
297 297 1.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (297 bp):
GACGTACCTTTGGTGGTTCACATACTGTAGCAAAGATTTTGCAAGCAGGTTTCTTTTGGCCTACG
CTATTTAAAGATGCTTATGCTTTTATGAAGAACCGTGATAAATGCCAAAAGACCAGAAATATATC
AAGGAGGAATGAGATACCCTTTACAAACATTTTGGAGATTGAATTATTCGATGTATGGGGCATTG
ACTTCTGAAGCCCATTTCCTTCTTCATATGGGAACAAATACATCTTAGTTGTTGTGGACTATGTA
ACCAAGTGGGTTGAATCTGAAGCATACCCTACAAATG
Found at i:21946752 original size:43 final size:43
Alignment explanation
Indices: 21946649--21946763 Score: 144
Period size: 43 Copynumber: 2.7 Consensus size: 43
21946639 AGAGCTATTA
*
21946649 AGATTACATGTAAGACCATATCTGGGATA-TGGCATCGATATG
1 AGATTACATGTAAGACCATATCTGGGATATTGGCATCGATACG
* * * * *
21946691 AGGCTT-CGTGTAAAACCATAGCTGGGATATTGGCATTGATACG
1 A-GATTACATGTAAGACCATATCTGGGATATTGGCATCGATACG
*
21946734 AGATTACATATAAGACCATATCTGGGATAT
1 AGATTACATGTAAGACCATATCTGGGATAT
21946764 GGAACTAGTA
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
42 24 0.41
43 35 0.59
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (43 bp):
AGATTACATGTAAGACCATATCTGGGATATTGGCATCGATACG
Found at i:21949712 original size:14 final size:15
Alignment explanation
Indices: 21949677--21949713 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
21949667 AAATATGACC
21949677 CATTCATTCCCTCATT
1 CATTCA-TCCCTCATT
21949693 CA-TCATCCCTCA-T
1 CATTCATCCCTCATT
21949706 CATTCATC
1 CATTCATC
21949714 ATTCTCTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 3 0.15
14 12 0.60
15 3 0.15
16 2 0.10
ACGTcount: A:0.22, C:0.41, G:0.00, T:0.38
Consensus pattern (15 bp):
CATTCATCCCTCATT
Found at i:21953724 original size:27 final size:27
Alignment explanation
Indices: 21953694--21953871 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
21953684 ATATTGAGTC
* * * *
21953694 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
21953721 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
21953748 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
21953776 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
21953803 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
21953830 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
21953857 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21953872 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:21953833 original size:82 final size:81
Alignment explanation
Indices: 21953715--21953870 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
21953705 TGCTATATAA
* *
21953715 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
21953780 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
21953797 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
21953861 CACTTAGTGC
65 CACTTAGTGC
21953871 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:21961787 original size:27 final size:27
Alignment explanation
Indices: 21961757--21961934 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
21961747 ATATTGAGTC
* * * *
21961757 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
21961784 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
21961811 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
21961839 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
21961866 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
21961893 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
21961920 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21961935 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:21961896 original size:82 final size:81
Alignment explanation
Indices: 21961778--21961933 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
21961768 TGCTATATAA
* *
21961778 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
21961843 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
21961860 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
21961924 CACTTAGTGC
65 CACTTAGTGC
21961934 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:21966251 original size:20 final size:20
Alignment explanation
Indices: 21966214--21966251 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
21966204 TGATGGGGAG
*
21966214 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
21966234 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
21966252 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:21968188 original size:46 final size:46
Alignment explanation
Indices: 21968136--21968409 Score: 451
Period size: 46 Copynumber: 6.0 Consensus size: 46
21968126 AGTGTGCTCT
21968136 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
21968182 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
21968228 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
21968274 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
21968320 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
21968366 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
21968410 TCATGTCAAA
Statistics
Matches: 218, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
45 1 0.00
46 217 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:21969029 original size:18 final size:18
Alignment explanation
Indices: 21969006--21969042 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
21968996 GTTAGGGGTG
21969006 TTACACCTCCTCAAAAGT
1 TTACACCTCCTCAAAAGT
21969024 TTACACCTCCTCAAAAGT
1 TTACACCTCCTCAAAAGT
21969042 T
1 T
21969043 AAGTCTGACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.32, G:0.05, T:0.30
Consensus pattern (18 bp):
TTACACCTCCTCAAAAGT
Found at i:21973952 original size:49 final size:49
Alignment explanation
Indices: 21973875--21974002 Score: 141
Period size: 49 Copynumber: 2.6 Consensus size: 49
21973865 ACATCAAAGT
* * * *
21973875 CGATGCCATGTCCCAGATAGCTCCTACACTAACCT-TCATATATCGAGGC
1 CGATGCTATGTCCCAGACAGGTCTTACACT-ACCTCTCATATATCGAGGC
** * * *
21973924 CGATGCTATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCGATGT
1 CGATGCTATGTCCCAGACAGGTCTTACACTACCTCTCATATATCGAGGC
* *
21973973 CGATACTATGTCTCAGACAGGTCTTACACT
1 CGATGCTATGTCCCAGACAGGTCTTACACT
21974003 GGCACACAAC
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
48 2 0.03
49 65 0.97
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (49 bp):
CGATGCTATGTCCCAGACAGGTCTTACACTACCTCTCATATATCGAGGC
Found at i:21974002 original size:98 final size:97
Alignment explanation
Indices: 21973827--21974002 Score: 219
Period size: 98 Copynumber: 1.8 Consensus size: 97
21973817 GATAAGATGT
*
21973827 CGATGCCATGTCCAAGACATGGTCTTACACTGGCTAACACATCAAAGTCGATGCCATGTCCCAGA
1 CGATGCCATGTCCAAGACATGGTCTTACACTGGCTAACACATCAAAGTCGATACCATGTCCCAGA
*
21973892 TAGCTCCTACACTAACCTTCATATATCGAGGC
66 CAGCTCCTACACTAACCTTCATATATCGAGGC
* * ** * * * *
21973924 CGATGCTATGTCCCAGACA-GGTCTTACACTGGCTCTCATCTATCGATGTCGATACTATGTCTCA
1 CGATGCCATGTCCAAGACATGGTCTTACACTGGCTAACA-C-ATCAAAGTCGATACCATGTCCCA
* *
21973988 GACAGGTCTTACACT
64 GACAGCTCCTACACT
21974003 GGCACACAAC
Statistics
Matches: 65, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
96 17 0.26
97 18 0.28
98 30 0.46
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (97 bp):
CGATGCCATGTCCAAGACATGGTCTTACACTGGCTAACACATCAAAGTCGATACCATGTCCCAGA
CAGCTCCTACACTAACCTTCATATATCGAGGC
Found at i:21974003 original size:49 final size:49
Alignment explanation
Indices: 21973910--21974005 Score: 147
Period size: 49 Copynumber: 2.0 Consensus size: 49
21973900 ACACTAACCT
*
21973910 TCATATATCGAGGCCGATGCTATGTCCCAGACAGGTCTTACACTGGCTC
1 TCATATATCGAGGCCGATACTATGTCCCAGACAGGTCTTACACTGGCTC
* * * *
21973959 TCATCTATCGATGTCGATACTATGTCTCAGACAGGTCTTACACTGGC
1 TCATATATCGAGGCCGATACTATGTCCCAGACAGGTCTTACACTGGC
21974006 ACACAACAAG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (49 bp):
TCATATATCGAGGCCGATACTATGTCCCAGACAGGTCTTACACTGGCTC
Found at i:21974134 original size:46 final size:48
Alignment explanation
Indices: 21974023--21974143 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 48
21974013 AAGCTAACGC
* * * *
21974023 CATGTCCCAGACATGTCTTACACTATCTTGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTCTACATCTCAAGGCCGATG
* * * * *
21974071 CATGTCCCAAACCTGTCTTACACTAGC-TCT-CGTCTCAATGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTCTACATCTCAAGGCCGATG
21974117 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
21974144 ACACATATCA
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
46 36 0.58
47 2 0.03
48 24 0.39
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.30
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTCTACATCTCAAGGCCGATG
Found at i:21980666 original size:49 final size:48
Alignment explanation
Indices: 21980562--21980693 Score: 167
Period size: 49 Copynumber: 2.7 Consensus size: 48
21980552 ACACATCAAA
* *
21980562 GTCGATGCCATGTCCCAGAAGGTCTTACACTGACTTTCATATATTGAG
1 GTCGATGCCATGTCCCAGAAGGTCTTACACTGACTCTCATATATCGAG
* * * *
21980610 GCCGATGCCATGTCCCAGATAGGTCTTATACTGGCTCTCATCTATCG-G
1 GTCGATGCCATGTCCCAGA-AGGTCTTACACTGACTCTCATATATCGAG
*
21980658 TGTCGATGCCATGTCCTAGACAGGTCTTACACTGAC
1 -GTCGATGCCATGTCCCAGA-AGGTCTTACACTGAC
21980694 ATACAACAAG
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
48 19 0.27
49 52 0.73
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.30
Consensus pattern (48 bp):
GTCGATGCCATGTCCCAGAAGGTCTTACACTGACTCTCATATATCGAG
Done.