Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007748.1 Hibiscus syriacus cultivar Beakdansim tig00110013_pilon, whole genome shotgun sequence
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: 4568288
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 24
Found at i:1907272 original size:13 final size:13
Alignment explanation
Indices: 1907254--1907278 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1907244 ATTATTATGT
1907254 ATAAATATATATA
1 ATAAATATATATA
1907267 ATAAATATATAT
1 ATAAATATATAT
1907279 GTTTATTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
ATAAATATATATA
Found at i:1907297 original size:26 final size:26
Alignment explanation
Indices: 1907267--1907323 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
1907257 AATATATATA
* *
1907267 ATAAATATAT-ATGTTTATTTATTTTT
1 ATAAATA-ATCATATTTATTTAATTTT
*
1907293 ATAAA-AATCCTATTTATTTAATTTT
1 ATAAATAATCATATTTATTTAATTTT
1907318 ATAAAT
1 ATAAAT
1907324 TACTTTTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 2 0.08
25 19 0.73
26 5 0.19
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (26 bp):
ATAAATAATCATATTTATTTAATTTT
Found at i:1908866 original size:13 final size:13
Alignment explanation
Indices: 1908840--1908874 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
1908830 CAATCCTGGC
1908840 GACATACG-GGGT
1 GACATACGAGGGT
1908852 GACATACGAGGGT
1 GACATACGAGGGT
1908865 GACATACGAG
1 GACATACGAG
1908875 CCATACGAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 8 0.36
13 14 0.64
ACGTcount: A:0.31, C:0.17, G:0.37, T:0.14
Consensus pattern (13 bp):
GACATACGAGGGT
Found at i:1908881 original size:9 final size:9
Alignment explanation
Indices: 1908867--1908906 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
1908857 ACGAGGGTGA
1908867 CATACGAGC
1 CATACGAGC
1908876 CATACGAGC
1 CATACGAGC
*
1908885 CATATACGAGT
1 C--ATACGAGC
1908896 CATACGAGC
1 CATACGAGC
1908905 CA
1 CA
1908907 ATGGGGAGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 19 0.70
11 8 0.30
ACGTcount: A:0.35, C:0.30, G:0.20, T:0.15
Consensus pattern (9 bp):
CATACGAGC
Found at i:1908893 original size:20 final size:20
Alignment explanation
Indices: 1908868--1908906 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1908858 CGAGGGTGAC
1908868 ATACGAGCCATACGAGCCAT
1 ATACGAGCCATACGAGCCAT
*
1908888 ATACGAGTCATACGAGCCA
1 ATACGAGCCATACGAGCCA
1908907 ATGGGGAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.15
Consensus pattern (20 bp):
ATACGAGCCATACGAGCCAT
Found at i:1908930 original size:22 final size:22
Alignment explanation
Indices: 1908899--1908978 Score: 79
Period size: 22 Copynumber: 3.4 Consensus size: 22
1908889 TACGAGTCAT
*
1908899 ACGAGCCAATGGGGAGGATGCA
1 ACGAGCCAATGGGGAGCATGCA
*
1908921 ACGAGGCAATGGGGAGCATGCAGGAA
1 ACGAGCCAATGGGGAGCATGC----A
*
1908947 TAGAGAGCCAATGGGGAGCATGCA
1 -A-CGAGCCAATGGGGAGCATGCA
1908971 ACGAGCCA
1 ACGAGCCA
1908979 TATACGAGCC
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
22 25 0.53
23 1 0.02
24 1 0.02
26 1 0.02
27 1 0.02
28 18 0.38
ACGTcount: A:0.34, C:0.19, G:0.39, T:0.09
Consensus pattern (22 bp):
ACGAGCCAATGGGGAGCATGCA
Found at i:1908959 original size:28 final size:28
Alignment explanation
Indices: 1908927--1909092 Score: 188
Period size: 28 Copynumber: 5.6 Consensus size: 28
1908917 TGCAACGAGG
1908927 CAATGGGGAGCATGCAGGAATAGAGAGC
1 CAATGGGGAGCATGCAGGAATAGAGAGC
* *
1908955 CAATGGGGAGCATGCAACGAGCCATATACGAGC
1 CAATGGGGAGCATGC-A-G-G-AATAGA-GAGC
* *
1908988 CCACGGGGAGCATGCAGGAATAGAGAGC
1 CAATGGGGAGCATGCAGGAATAGAGAGC
* *
1909016 CAATGGGGAGCATGCAACGAGCCATATACGAGC
1 CAATGGGGAGCATGC-A-G-G-AATAGA-GAGC
1909049 CAATGGGGAGCATGCAGGAATAGAGAGC
1 CAATGGGGAGCATGCAGGAATAGAGAGC
1909077 CAATGGGGAGCATGCA
1 CAATGGGGAGCATGCA
1909093 ACGAGCCATA
Statistics
Matches: 116, Mismatches: 12, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
28 52 0.45
29 10 0.09
30 4 0.03
31 4 0.03
32 10 0.09
33 36 0.31
ACGTcount: A:0.34, C:0.20, G:0.36, T:0.11
Consensus pattern (28 bp):
CAATGGGGAGCATGCAGGAATAGAGAGC
Found at i:1908960 original size:50 final size:51
Alignment explanation
Indices: 1908901--1909126 Score: 213
Period size: 61 Copynumber: 4.1 Consensus size: 51
1908891 CGAGTCATAC
* *
1908901 GAGCCAATGGGGAGGATGCAACGAGGCA-ATGGGGAGCATGCAGGAATAGA
1 GAGCCAATGGGGAGCATGCAACGAGCCATATGGGGAGCATGCAGGAATAGA
1908951 GAGCCAATGGGGAGCATGCAACGAGCCATATACGAGCCCACGGGGAGCATGCAGGAATAGA
1 GAGCCAATGGGGAGCATGCAACGAGCCATAT----------GGGGAGCATGCAGGAATAGA
1909012 GAGCCAATGGGGAGCATGCAACGAGCCATATACGAGCCAATGGGGAGCATGCAGGAATAGA
1 GAGCCAATGGGGAGCATGCAACGAGCC--AT--------ATGGGGAGCATGCAGGAATAGA
**
1909073 GAGCCAATGGGGAGCATGCAACGAGCCATAT-ACGAGCCATGCAGGAATAGA
1 GAGCCAATGGGGAGCATGCAACGAGCCATATGGGGAG-CATGCAGGAATAGA
1909124 GAG
1 GAG
1909127 GTCGCCATGC
Statistics
Matches: 150, Mismatches: 4, Indels: 43
0.76 0.02 0.22
Matches are distributed among these distances:
50 29 0.19
51 21 0.14
59 2 0.01
61 94 0.63
63 2 0.01
71 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.36, T:0.11
Consensus pattern (51 bp):
GAGCCAATGGGGAGCATGCAACGAGCCATATGGGGAGCATGCAGGAATAGA
Found at i:1909016 original size:61 final size:61
Alignment explanation
Indices: 1908921--1909111 Score: 346
Period size: 61 Copynumber: 3.1 Consensus size: 61
1908911 GGAGGATGCA
* *
1908921 ACGAGGCAATGGGGAGCATGCAGGAATAGAGAGCCAATGGGGAGCATGCAACGAGCCATAT
1 ACGAGCCAACGGGGAGCATGCAGGAATAGAGAGCCAATGGGGAGCATGCAACGAGCCATAT
*
1908982 ACGAGCCCACGGGGAGCATGCAGGAATAGAGAGCCAATGGGGAGCATGCAACGAGCCATAT
1 ACGAGCCAACGGGGAGCATGCAGGAATAGAGAGCCAATGGGGAGCATGCAACGAGCCATAT
*
1909043 ACGAGCCAATGGGGAGCATGCAGGAATAGAGAGCCAATGGGGAGCATGCAACGAGCCATAT
1 ACGAGCCAACGGGGAGCATGCAGGAATAGAGAGCCAATGGGGAGCATGCAACGAGCCATAT
1909104 ACGAGCCA
1 ACGAGCCA
1909112 TGCAGGAATA
Statistics
Matches: 125, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
61 125 1.00
ACGTcount: A:0.34, C:0.21, G:0.35, T:0.10
Consensus pattern (61 bp):
ACGAGCCAACGGGGAGCATGCAGGAATAGAGAGCCAATGGGGAGCATGCAACGAGCCATAT
Found at i:1909175 original size:29 final size:29
Alignment explanation
Indices: 1909125--1909262 Score: 242
Period size: 29 Copynumber: 4.8 Consensus size: 29
1909115 AGGAATAGAG
* *
1909125 AGGTCGCCATGCAG-CCTAGGCGACCTTGT
1 AGGTCGCCATGTAGTCC-CGGCGACCTTGT
1909154 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1909183 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1909212 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1909241 AGGTCGCCATGTAGTCCCGGCG
1 AGGTCGCCATGTAGTCCCGGCG
1909263 CCATTCCATC
Statistics
Matches: 106, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
29 104 0.98
30 2 0.02
ACGTcount: A:0.14, C:0.31, G:0.32, T:0.22
Consensus pattern (29 bp):
AGGTCGCCATGTAGTCCCGGCGACCTTGT
Found at i:1909380 original size:36 final size:37
Alignment explanation
Indices: 1909312--1909385 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
1909302 CATAGATTCC
*
1909312 TTCATGTGCTCCCCGCTGCATTGCCTACACCTCCCAA
1 TTCACGTGCTCCCCGCTGCATTGCCTACACCTCCCAA
1909349 TTCACGTGCTCCCCGCTGCA-TGCCTACACCTCCCAA
1 TTCACGTGCTCCCCGCTGCATTGCCTACACCTCCCAA
1909385 T
1 T
1909386 GCATGCATGT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 17 0.47
37 19 0.53
ACGTcount: A:0.16, C:0.45, G:0.14, T:0.26
Consensus pattern (37 bp):
TTCACGTGCTCCCCGCTGCATTGCCTACACCTCCCAA
Found at i:1909413 original size:18 final size:18
Alignment explanation
Indices: 1909390--1909424 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
1909380 CCCAATGCAT
1909390 GCATGTGAACCATTTGAG
1 GCATGTGAACCATTTGAG
1909408 GCATGTGAACCATTTGA
1 GCATGTGAACCATTTGA
1909425 TTATTGGTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (18 bp):
GCATGTGAACCATTTGAG
Found at i:1909564 original size:25 final size:21
Alignment explanation
Indices: 1909513--1909553 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
1909503 AAAGAAAGAA
1909513 AGAAAGGGAGAAGAGATTGCG
1 AGAAAGGGAGAAGAGATTGCG
*
1909534 AAAAAGGGAGAAGAGATTGC
1 AGAAAGGGAGAAGAGATTGC
1909554 AGCCGAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.46, C:0.05, G:0.39, T:0.10
Consensus pattern (21 bp):
AGAAAGGGAGAAGAGATTGCG
Found at i:1909598 original size:20 final size:20
Alignment explanation
Indices: 1909560--1909620 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
1909550 TTGCAGCCGA
1909560 GAAAGAAAGAAAGGGAGAAAG
1 GAAAGAAAGAAA-GGAGAAAG
*
1909581 GAAAGGAAGAAAGGAGAAAG
1 GAAAGAAAGAAAGGAGAAAG
* *
1909601 GAAAGTAAG-AAGAAGAAAG
1 GAAAGAAAGAAAGGAGAAAG
1909620 G
1 G
1909621 GAGATAAGGT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
19 10 0.27
20 16 0.43
21 11 0.30
ACGTcount: A:0.61, C:0.00, G:0.38, T:0.02
Consensus pattern (20 bp):
GAAAGAAAGAAAGGAGAAAG
Found at i:1909611 original size:13 final size:13
Alignment explanation
Indices: 1909562--1909595 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
1909552 GCAGCCGAGA
1909562 AAGAAA-GAAAGG
1 AAGAAAGGAAAGG
*
1909574 GAGAAAGGAAAGG
1 AAGAAAGGAAAGG
1909587 AAGAAAGGA
1 AAGAAAGGA
1909596 GAAAGGAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (13 bp):
AAGAAAGGAAAGG
Found at i:1912941 original size:26 final size:24
Alignment explanation
Indices: 1912883--1912941 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 24
1912873 CTAATAAACC
*
1912883 TAATAATGATTTGATAATTACTAT
1 TAATAATGATTTGATAATTAATAT
*
1912907 TAATCTAATGATTTGATATTTAATGATT
1 TAA--TAATGATTTGATAATTAAT-A-T
1912935 TAATAAT
1 TAATAAT
1912942 AATATGATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 3 0.10
26 21 0.72
27 1 0.03
28 4 0.14
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.47
Consensus pattern (24 bp):
TAATAATGATTTGATAATTAATAT
Found at i:1913708 original size:13 final size:14
Alignment explanation
Indices: 1913688--1913726 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
1913678 ATAATATAAT
1913688 ATATAACTTAAATA
1 ATATAACTTAAATA
1913702 ATA-AAC-TAATATA
1 ATATAACTTAA-ATA
1913715 ATATAACTTAAA
1 ATATAACTTAAA
1913727 CTAACAACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
12 3 0.14
13 9 0.41
14 7 0.32
15 3 0.14
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (14 bp):
ATATAACTTAAATA
Found at i:1913718 original size:27 final size:29
Alignment explanation
Indices: 1913679--1913739 Score: 83
Period size: 27 Copynumber: 2.2 Consensus size: 29
1913669 AATTTTTATA
1913679 TAATATAATATATAACTTAAA-TAATAAAC
1 TAATATAATATATAACTTAAACTAA-AAAC
*
1913708 TAATAT-A-ATATAACTTAAACTAACAAC
1 TAATATAATATATAACTTAAACTAAAAAC
1913735 TAATA
1 TAATA
1913740 ATTTACTAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 20 0.67
28 4 0.13
29 6 0.20
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (29 bp):
TAATATAATATATAACTTAAACTAAAAAC
Found at i:1913740 original size:20 final size:20
Alignment explanation
Indices: 1913717--1913762 Score: 51
Period size: 19 Copynumber: 2.3 Consensus size: 20
1913707 CTAATATAAT
1913717 ATAACTTAAACTAAC-AACTA
1 ATAACTT-AACTAACAAACTA
*
1913737 ATAA-TTTACTAACAAACTA
1 ATAACTTAACTAACAAACTA
1913756 ATTAACT
1 A-TAACT
1913763 AGATTTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
18 6 0.27
19 8 0.36
20 7 0.32
21 1 0.05
ACGTcount: A:0.52, C:0.17, G:0.00, T:0.30
Consensus pattern (20 bp):
ATAACTTAACTAACAAACTA
Found at i:1914395 original size:29 final size:29
Alignment explanation
Indices: 1914363--1914442 Score: 151
Period size: 29 Copynumber: 2.8 Consensus size: 29
1914353 TATACCTTGG
*
1914363 AGGTCGCCCGGATTGCATGGCGACCTCCA
1 AGGTCGCCTGGATTGCATGGCGACCTCCA
1914392 AGGTCGCCTGGATTGCATGGCGACCTCCA
1 AGGTCGCCTGGATTGCATGGCGACCTCCA
1914421 AGGTCGCCTGGATTGCATGGCG
1 AGGTCGCCTGGATTGCATGGCG
1914443 TCCTATGGCG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.16, C:0.30, G:0.34, T:0.20
Consensus pattern (29 bp):
AGGTCGCCTGGATTGCATGGCGACCTCCA
Found at i:1922497 original size:20 final size:20
Alignment explanation
Indices: 1922474--1922545 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
1922464 ACAGGTTCCA
* *
1922474 AAATCGCAACTCGAATAGGT
1 AAATCGCAACACGAATATGT
* **
1922494 AAATCACAACAATAATATGT
1 AAATCGCAACACGAATATGT
* *
1922514 AAATCGCAACGCGAATTTGT
1 AAATCGCAACACGAATATGT
1922534 AAATCGCAACAC
1 AAATCGCAACAC
1922546 ATAAGTCAAA
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.44, C:0.21, G:0.14, T:0.21
Consensus pattern (20 bp):
AAATCGCAACACGAATATGT
Found at i:1922621 original size:21 final size:21
Alignment explanation
Indices: 1922573--1922634 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
1922563 CACGGAATTT
**
1922573 CAAATTCGCAACGCGA-ACTC
1 CAAATTCGCAACGCGATTTTC
*
1922593 CAATTTCGCAACGCGATTTTC
1 CAAATTCGCAACGCGATTTTC
1922614 CAAATTCGCAACGCGATTTTC
1 CAAATTCGCAACGCGATTTTC
1922635 TAATTTGCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 15 0.41
21 22 0.59
ACGTcount: A:0.29, C:0.31, G:0.15, T:0.26
Consensus pattern (21 bp):
CAAATTCGCAACGCGATTTTC
Found at i:1922686 original size:47 final size:47
Alignment explanation
Indices: 1922617--1922735 Score: 166
Period size: 47 Copynumber: 2.5 Consensus size: 47
1922607 GATTTTCCAA
* *
1922617 ATTCGCAACGCGATTTTCTAATTTGCGGCGCTAATTCCGAATTCGCG
1 ATTCGCAACGCGATTTTGTAATTTGCGACGCTAATTCCGAATTCGCG
* ** * *
1922664 ATTCGCAATGCGATTTTGTAATTCACGACGCTAATTCCTAATTTGCG
1 ATTCGCAACGCGATTTTGTAATTTGCGACGCTAATTCCGAATTCGCG
*
1922711 ATTCGCAACACGATTTTGTAATTTG
1 ATTCGCAACGCGATTTTGTAATTTG
1922736 GAATTAGCGT
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 61 1.00
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.35
Consensus pattern (47 bp):
ATTCGCAACGCGATTTTGTAATTTGCGACGCTAATTCCGAATTCGCG
Found at i:1922755 original size:20 final size:20
Alignment explanation
Indices: 1922730--1922793 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
1922720 ACGATTTTGT
*
1922730 AATTTGGAATTAGCGTCATG
1 AATTTGGAATTAGCGTCACG
*
1922750 AATTTGGAATTAGCATCACG
1 AATTTGGAATTAGCGTCACG
*
1922770 AATTAGGAATTAGCGTCACG
1 AATTTGGAATTAGCGTCACG
1922790 AATT
1 AATT
1922794 GTGAATTTGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.31
Consensus pattern (20 bp):
AATTTGGAATTAGCGTCACG
Found at i:1922799 original size:20 final size:20
Alignment explanation
Indices: 1922736--1922800 Score: 80
Period size: 20 Copynumber: 3.2 Consensus size: 20
1922726 TTGTAATTTG
*
1922736 GAATTAGCGTCATGAATT-T
1 GAATTAGCGTCACGAATTGT
*
1922755 GGAATTAGCATCACGAATTAG-
1 -GAATTAGCGTCACGAATT-GT
1922776 GAATTAGCGTCACGAATTGT
1 GAATTAGCGTCACGAATTGT
1922796 GAATT
1 GAATT
1922801 TGAAATTAGC
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
19 1 0.03
20 38 0.97
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.31
Consensus pattern (20 bp):
GAATTAGCGTCACGAATTGT
Found at i:1922799 original size:27 final size:27
Alignment explanation
Indices: 1922769--1922820 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
1922759 TTAGCATCAC
*
1922769 GAATTAGGAATTAGCGTCACGAATTGT
1 GAATTAGAAATTAGCGTCACGAATTGT
* *
1922796 GAATTTGAAATTAGCGTCGCGAATT
1 GAATTAGAAATTAGCGTCACGAATT
1922821 CAGAGTTAGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.31
Consensus pattern (27 bp):
GAATTAGAAATTAGCGTCACGAATTGT
Found at i:1922799 original size:47 final size:47
Alignment explanation
Indices: 1922748--1922840 Score: 125
Period size: 47 Copynumber: 2.0 Consensus size: 47
1922738 ATTAGCGTCA
*
1922748 TGAATTTGGAATTAGCATCACGAATT-AGGAATTAGCGTCACGAATTG
1 TGAATTTGAAATTAGCATCACGAATTCA-GAATTAGCGTCACGAATTG
* * * *
1922795 TGAATTTGAAATTAGCGTCGCGAATTCAGAGTTAGCGTCGCGAATT
1 TGAATTTGAAATTAGCATCACGAATTCAGAATTAGCGTCACGAATT
1922841 CGTAAAATAA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
47 39 0.98
48 1 0.03
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (47 bp):
TGAATTTGAAATTAGCATCACGAATTCAGAATTAGCGTCACGAATTG
Found at i:1922819 original size:20 final size:21
Alignment explanation
Indices: 1922796--1922840 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
1922786 CACGAATTGT
*
1922796 GAATTTGA-AATTAGCGTCGC
1 GAATTTCAGAATTAGCGTCGC
*
1922816 GAA-TTCAGAGTTAGCGTCGC
1 GAATTTCAGAATTAGCGTCGC
1922836 GAATT
1 GAATT
1922841 CGTAAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 3 0.14
20 17 0.81
21 1 0.05
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (21 bp):
GAATTTCAGAATTAGCGTCGC
Found at i:1922905 original size:21 final size:20
Alignment explanation
Indices: 1922876--1922995 Score: 127
Period size: 21 Copynumber: 5.8 Consensus size: 20
1922866 TTAGGAATTA
*
1922876 GCGTCGCGAATTCGGAAAATC
1 GCGTTGCGAATT-GGAAAATC
1922897 GCGTTGCGAATTCGGAAAATC
1 GCGTTGCGAATT-GGAAAATC
**
1922918 GCGTTGCGAAATTGG-AGTTC
1 GCGTTGCG-AATTGGAAAATC
1922938 GCGTTGCGAATTTGGAAAATC
1 GCGTTGCGAA-TTGGAAAATC
**
1922959 GCGTTGCGAAATTGG-AGTTC
1 GCGTTGCG-AATTGGAAAATC
*
1922979 GCGTTGCGAATTTGAAA
1 GCGTTGCGAATTGGAAA
1922996 TTCCGTGTTG
Statistics
Matches: 85, Mismatches: 9, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
19 7 0.08
20 27 0.32
21 45 0.53
22 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.27
Consensus pattern (20 bp):
GCGTTGCGAATTGGAAAATC
Found at i:1922941 original size:20 final size:20
Alignment explanation
Indices: 1922916--1922988 Score: 110
Period size: 20 Copynumber: 3.6 Consensus size: 20
1922906 ATTCGGAAAA
1922916 TCGCGTTGCGAAATTGGAGT
1 TCGCGTTGCGAAATTGGAGT
* **
1922936 TCGCGTTGCGAATTTGGAAAA
1 TCGCGTTGCGAAATTGG-AGT
1922957 TCGCGTTGCGAAATTGGAGT
1 TCGCGTTGCGAAATTGGAGT
1922977 TCGCGTTGCGAA
1 TCGCGTTGCGAA
1922989 TTTGAAATTC
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
20 29 0.63
21 17 0.37
ACGTcount: A:0.22, C:0.16, G:0.33, T:0.29
Consensus pattern (20 bp):
TCGCGTTGCGAAATTGGAGT
Found at i:1922991 original size:41 final size:41
Alignment explanation
Indices: 1922895--1922992 Score: 187
Period size: 41 Copynumber: 2.4 Consensus size: 41
1922885 ATTCGGAAAA
*
1922895 TCGCGTTGCGAATTCGGAAAATCGCGTTGCGAAATTGGAGT
1 TCGCGTTGCGAATTTGGAAAATCGCGTTGCGAAATTGGAGT
1922936 TCGCGTTGCGAATTTGGAAAATCGCGTTGCGAAATTGGAGT
1 TCGCGTTGCGAATTTGGAAAATCGCGTTGCGAAATTGGAGT
1922977 TCGCGTTGCGAATTTG
1 TCGCGTTGCGAATTTG
1922993 AAATTCCGTG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.22, C:0.16, G:0.32, T:0.30
Consensus pattern (41 bp):
TCGCGTTGCGAATTTGGAAAATCGCGTTGCGAAATTGGAGT
Found at i:1923078 original size:20 final size:20
Alignment explanation
Indices: 1923053--1923143 Score: 146
Period size: 20 Copynumber: 4.5 Consensus size: 20
1923043 GTGTTGCGAA
*
1923053 TCGCGAATTAGGAATTAGTG
1 TCGCGAATTAGGAATTAGCG
*
1923073 TCGCGAATTAGGAATTAACG
1 TCGCGAATTAGGAATTAGCG
1923093 TCGCGAATTAGGAATTAGCG
1 TCGCGAATTAGGAATTAGCG
*
1923113 TCGCGAATTAAGAATTAGCG
1 TCGCGAATTAGGAATTAGCG
*
1923133 TCGGGAATTAG
1 TCGCGAATTAG
1923144 AAAATCGCGT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 65 1.00
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.26
Consensus pattern (20 bp):
TCGCGAATTAGGAATTAGCG
Found at i:1923159 original size:40 final size:40
Alignment explanation
Indices: 1923053--1923160 Score: 126
Period size: 40 Copynumber: 2.7 Consensus size: 40
1923043 GTGTTGCGAA
* * * *
1923053 TCGCGAATTAGGAATTAGTGTCGCGAATTAGGAATTAACG
1 TCGCGAATTAGAAAATAGCGTCGCGAATTAAGAATTAACG
* * *
1923093 TCGCGAATTAGGAATTAGCGTCGCGAATTAAGAATTAGCG
1 TCGCGAATTAGAAAATAGCGTCGCGAATTAAGAATTAACG
* * *
1923133 TCGGGAATTAGAAAATCGCGTTGCGAAT
1 TCGCGAATTAGAAAATAGCGTCGCGAAT
1923161 CGCGAATTCA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.26
Consensus pattern (40 bp):
TCGCGAATTAGAAAATAGCGTCGCGAATTAAGAATTAACG
Found at i:1923164 original size:67 final size:67
Alignment explanation
Indices: 1923093--1923226 Score: 189
Period size: 67 Copynumber: 2.0 Consensus size: 67
1923083 GGAATTAACG
* * * * *
1923093 TCGCGAATT-AGGAATTAGCGTCGCGAATTAAGAATTAGCGTCGGGAATTAGAAAATCGCGTTGC
1 TCGCGAATTCA-GAATCAGCGTCGCGAATTAAGAATCAGCGTAGCGAATTAGAAAATCGCGTTAC
1923157 GAA
65 GAA
* *
1923160 TCGCGAATTCAGAATCAGCGTCGCGAATTCAGAATCAGCGTAGCGAATTAGAAAATTGCGTTACG
1 TCGCGAATTCAGAATCAGCGTCGCGAATTAAGAATCAGCGTAGCGAATTAGAAAATCGCGTTACG
1923225 AA
66 AA
1923227 ATTGAAGTTC
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
67 58 0.98
68 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (67 bp):
TCGCGAATTCAGAATCAGCGTCGCGAATTAAGAATCAGCGTAGCGAATTAGAAAATCGCGTTACG
AA
Found at i:1923168 original size:60 final size:60
Alignment explanation
Indices: 1923053--1923215 Score: 148
Period size: 67 Copynumber: 2.6 Consensus size: 60
1923043 GTGTTGCGAA
* * * *
1923053 TCGCGAATTAGGAATTAGTGTCGCGAATTAGGAATTAACGTCGCGAATTAGGAATTAGCG
1 TCGCGAATTAAGAATTAGCGTCGCGAATTAGAAAATAACGTCGCGAATTAGGAATTAGCG
* ** *
1923113 TCGCGAATTAAGAATTAGCGTCGGGAATTAGAAAATCGCGTTGCGAATCGCGAATTCA-GAATCA
1 TCGCGAATTAAGAATTAGCGTCGCGAATTAGAAAA-----TAACG--TCGCGAATT-AGGAATTA
1923177 GCG
58 GCG
* * *
1923180 TCGCGAATTCAGAATCAGCGTAGCGAATTAGAAAAT
1 TCGCGAATTAAGAATTAGCGTCGCGAATTAGAAAAT
1923216 TGCGTTACGA
Statistics
Matches: 83, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
60 30 0.36
62 1 0.01
65 3 0.04
67 48 0.58
68 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (60 bp):
TCGCGAATTAAGAATTAGCGTCGCGAATTAGAAAATAACGTCGCGAATTAGGAATTAGCG
Found at i:1923185 original size:20 final size:20
Alignment explanation
Indices: 1923160--1923212 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
1923150 GCGTTGCGAA
1923160 TCGCGAATTCAGAATCAGCG
1 TCGCGAATTCAGAATCAGCG
1923180 TCGCGAATTCAGAATCAGCG
1 TCGCGAATTCAGAATCAGCG
*
1923200 TAGCGAATT-AGAA
1 TCGCGAATTCAGAA
1923213 AATTGCGTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 4 0.12
20 28 0.88
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.21
Consensus pattern (20 bp):
TCGCGAATTCAGAATCAGCG
Found at i:1923206 original size:47 final size:46
Alignment explanation
Indices: 1923073--1923207 Score: 122
Period size: 47 Copynumber: 3.0 Consensus size: 46
1923063 GGAATTAGTG
* * * *
1923073 TCGCGAATTAGGAATTAACGTCGCGAATTAGGAAT----TAGCG--
1 TCGCGAATTAAGAATCAGCGTCGCGAATTAGAAATCGCGTAGCGAA
* * *
1923113 TCGCGAATTAAGAATTAGCGTCGGGAATTAGAAAATCGCGTTGCGAA
1 TCGCGAATTAAGAATCAGCGTCGCGAATTAG-AAATCGCGTAGCGAA
*
1923160 TCGCGAATTCAGAATCAGCGTCGCGAATTCAG-AATCAGCGTAGCGAA
1 TCGCGAATTAAGAATCAGCGTCGCGAATT-AGAAATC-GCGTAGCGAA
1923207 T
1 T
1923208 TAGAAAATTG
Statistics
Matches: 77, Mismatches: 9, Indels: 11
0.79 0.09 0.11
Matches are distributed among these distances:
40 28 0.36
41 3 0.04
45 4 0.05
46 4 0.05
47 36 0.47
48 2 0.03
ACGTcount: A:0.33, C:0.18, G:0.27, T:0.23
Consensus pattern (46 bp):
TCGCGAATTAAGAATCAGCGTCGCGAATTAGAAATCGCGTAGCGAA
Found at i:1923248 original size:107 final size:106
Alignment explanation
Indices: 1923029--1923253 Score: 242
Period size: 107 Copynumber: 2.1 Consensus size: 106
1923019 ACGCTAATTC
* * * * *
1923029 CGAATTACAAAATCGTGTTGCGAATCGCGAATTAGGAATTAGTGTCGCGAATTAGGAATTAACGT
1 CGAATTAGAAAATCGCGTTGCGAATCGCGAATTAGGAATCAGCGTCGCGAATTAGGAATCAACGT
* * *
1923094 CGCGAATTAGGAATTAGCGTCGCGAATTAAGAATTAGCGTCG
66 AGCGAATTAGAAATTAGCGTCACGAATTAAG-ATTAGCGTCG
* *
1923136 GGAATTAGAAAATCGCGTTGCGAATCGCGAATTCA-GAATCAGCGTCGCGAATTCA-GAATCAGC
1 CGAATTAGAAAATCGCGTTGCGAATCGCGAATT-AGGAATCAGCGTCGCGAATT-AGGAATCAAC
* * *
1923199 GTAGCGAATTAGAAAATT-GCGTTACGAAATTGAAG-TTCGCGTTG
64 GTAGCGAATTAG-AAATTAGCGTCACG-AATT-AAGATTAGCGTCG
*
1923243 CGAATTTGAAA
1 CGAATTAGAAA
1923254 TTCCGTGTTG
Statistics
Matches: 98, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
107 85 0.87
108 10 0.10
109 3 0.03
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (106 bp):
CGAATTAGAAAATCGCGTTGCGAATCGCGAATTAGGAATCAGCGTCGCGAATTAGGAATCAACGT
AGCGAATTAGAAATTAGCGTCACGAATTAAGATTAGCGTCG
Found at i:1923283 original size:20 final size:21
Alignment explanation
Indices: 1923239--1923286 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
1923229 TGAAGTTCGC
1923239 GTTGCGAATTTGAAATTCCGT
1 GTTGCGAATTTGAAATTCCGT
* * *
1923260 GTTGCGAGTTTG-ACTTCTGT
1 GTTGCGAATTTGAAATTCCGT
1923280 GTTGCGA
1 GTTGCGA
1923287 TTTACAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.17, C:0.15, G:0.29, T:0.40
Consensus pattern (21 bp):
GTTGCGAATTTGAAATTCCGT
Found at i:1923303 original size:20 final size:20
Alignment explanation
Indices: 1923280--1923366 Score: 120
Period size: 20 Copynumber: 4.3 Consensus size: 20
1923270 TGACTTCTGT
*
1923280 GTTGCGATTTACAAATTCGC
1 GTTGCGATTTACATATTCGC
* *
1923300 GTTGTGATTTACATATTCAC
1 GTTGCGATTTACATATTCGC
**
1923320 GTTGCGATTTACATATTATC
1 GTTGCGATTTACATATTCGC
*
1923340 GTTGCGATTTACCTATTCGC
1 GTTGCGATTTACATATTCGC
1923360 GTTGCGA
1 GTTGCGA
1923367 ATTTGGAAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 58 1.00
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (20 bp):
GTTGCGATTTACATATTCGC
Found at i:1927703 original size:21 final size:21
Alignment explanation
Indices: 1927658--1927713 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
1927648 TTGAGGAAAC
*
1927658 AAATTTGAAATTTTAAAGGGAT
1 AAATTTAAAATTTTAAA-GGAT
1927680 AAATTTAAAATTTTAGAA-GAT
1 AAATTTAAAATTTTA-AAGGAT
**
1927701 AAAAATAAAATTT
1 AAATTTAAAATTT
1927714 CAATAAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 14 0.47
22 14 0.47
23 2 0.07
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.36
Consensus pattern (21 bp):
AAATTTAAAATTTTAAAGGAT
Found at i:1927869 original size:2 final size:2
Alignment explanation
Indices: 1927862--1927908 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
1927852 CTTATAATAC
1927862 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1927904 AT AT A
1 AT AT A
1927909 GGTAAAGTAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1930844 original size:3 final size:3
Alignment explanation
Indices: 1930831--1930904 Score: 57
Period size: 3 Copynumber: 24.7 Consensus size: 3
1930821 CCCTTTTGAT
* *
1930831 TTA TT- TTA TTA TTA TT- TTA TTA TTTA TGT- TTT TTA AT- TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA T-TA TTA TTA TTA TTA -TTA
*
1930875 ATA TTTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA -TTA TTA TTA TTA TTA TTA TTA TTA TT
1930905 CTAACATTTT
Statistics
Matches: 58, Mismatches: 5, Indels: 16
0.73 0.06 0.20
Matches are distributed among these distances:
2 6 0.10
3 43 0.74
4 9 0.16
ACGTcount: A:0.28, C:0.00, G:0.01, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:1930862 original size:14 final size:13
Alignment explanation
Indices: 1930829--1930904 Score: 58
Period size: 11 Copynumber: 6.2 Consensus size: 13
1930819 TTCCCTTTTG
1930829 ATTTA-TTTTATT
1 ATTTATTTTTATT
1930841 A-TTA-TTTTATT
1 ATTTATTTTTATT
1930852 ATTTATGTTTT-TT
1 ATTTAT-TTTTATT
*
1930865 AATTTA--TTTAAT
1 -ATTTATTTTTATT
*
1930877 ATTTATTATTATT
1 ATTTATTTTTATT
*
1930890 A-TTATTATTATT
1 ATTTATTTTTATT
1930902 ATT
1 ATT
1930905 CTAACATTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
11 19 0.36
12 17 0.32
13 8 0.15
14 9 0.17
ACGTcount: A:0.29, C:0.00, G:0.01, T:0.70
Consensus pattern (13 bp):
ATTTATTTTTATT
Found at i:1936294 original size:84 final size:82
Alignment explanation
Indices: 1936099--1937124 Score: 924
Period size: 84 Copynumber: 12.5 Consensus size: 82
1936089 TTTTTAAAAG
* * * * * * * *
1936099 ACATCATTTGCAGCACAGCTTAAGTCGAGAAGGGCTATCTG--CCAAATACCCTCGAGTTCGATT
1 ACATCATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTGCACCAAAGACCTTCGAGTTCGACT
* ** *
1936162 ACACTCAGCTTTGAGGGC
66 ACGCTCAGC-TCCAAGGC
* * * * *
1936180 ACACCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCAA
1 ACATCATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTG-C-ACCAAAGACCTTCGAGTTCGA
*
1936245 CTACGCTCAGGTCCAAGGC
64 CTACGCTCAGCTCCAAGGC
* * * * * * **
1936264 ATATCATTTGCAACATAACTTAAGTCGAGAAGGGCTATCT--ACCAAAGACCCTCGAGTTCGGTT
1 ACATCATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTGCACCAAAGACCTTCGAGTTCGACT
* * * *
1936327 ACACTCAGCTTCGAGGT
66 ACGCTCAGCTCCAAGGC
* * * *
1936344 ACTTCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAAGACCTTCGAGTTCGA
1 ACATCATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTG-CACC-AAAGACCTTCGAGTTCGA
1936409 CTACGCTCAGCTCCAAGGC
64 CTACGCTCAGCTCCAAGGC
* * * * * *
1936428 ATATCATTTGCTGCATAACTTAAGTCTAGAAGTGTTGTCTGTGACCAAAAGACCTTCGAGTTCGA
1 ACATCATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTG-CACC-AAAGACCTTCGAGTTCGA
*
1936493 CTACGCTCAGCTCCAATGC
64 CTACGCTCAGCTCCAAGGC
* * * * *
1936512 ATATCATTTGCAGCATAAATTAAGTCAAGAAGGGTTATATGCCAACCAAAGACCTTCGAGTTCGA
1 ACATCATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTG-C-ACCAAAGACCTTCGAGTTCGA
* *
1936577 CTACGTTCAGCTCCAATGC
64 CTACGCTCAGCTCCAAGGC
* * * * * * * *
1936596 ACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG--CCAAAGTCCCTCAAGTTCGATT
1 ACATCATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTGCACCAAAGACCTTCGAGTTCGACT
* * *
1936659 ACACTCAGCTTCGAGGGC
66 ACGCTCAGC-TCCAAGGC
* * *
1936677 ACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGAA
1 ACATCATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTG-CACCAAAGACCTTCGAGTTCGAC
1936742 TACGCTCAGCTCCAAGGC
65 TACGCTCAGCTCCAAGGC
* * * * * * *
1936760 ACATTATTTGCAGCATAGCTTAAGTCAAGAAGGGATATATG--TCAAAGACCTTCGAGTTCGACT
1 ACATCATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTGCACCAAAGACCTTCGAGTTCGACT
*
1936823 ACGTTCAGCTCCAAGGC
66 ACGCTCAGCTCCAAGGC
* * * * *
1936840 ACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCCTCGAGTTTGAT
1 ACATCATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTG-CACCAAAGACCTTCGAGTTCGAC
* * ** *
1936905 TACACTCATCTTTGAGGGC
65 TACGCTCAGC-TCCAAGGC
* * * * * * * * *
1936924 ACATCATTTGCAACATAGCTCAAGGCTAGAAGAGTTGTTTGCCAACAAAGACCTTTGAGTTCGAT
1 ACATCATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTG-CACCAAAGACCTTCGAGTTCGAC
*
1936989 TACACTCAGCT-CAACGGC
65 TACGCTCAGCTCCAA-GGC
* * * ** *
1937007 ACATCATTTGCGGTATAGCACAAGGCTAGAA-GGTCTATCT--TCCAAAGACCTTCGAGTTCGAC
1 ACATCATTTGCAGCATAACTTAAGGCTAGAAGGGT-TATCTGCACCAAAGACCTTCGAGTTCGAC
*
1937069 TACGCTCATCTCCAAGGC
65 TACGCTCAGCTCCAAGGC
* * *
1937087 ACATCATTTACAGCATAACCTAAGGCAAGAAGGGTTAT
1 ACATCATTTGCAGCATAACTTAAGGCTAGAAGGGTTAT
1937125 TTGTCAATAA
Statistics
Matches: 775, Mismatches: 149, Indels: 43
0.80 0.15 0.04
Matches are distributed among these distances:
80 215 0.28
81 82 0.11
82 3 0.00
83 100 0.13
84 347 0.45
85 28 0.04
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (82 bp):
ACATCATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTGCACCAAAGACCTTCGAGTTCGACT
ACGCTCAGCTCCAAGGC
Found at i:1936426 original size:164 final size:165
Alignment explanation
Indices: 1936099--1937103 Score: 1064
Period size: 164 Copynumber: 6.1 Consensus size: 165
1936089 TTTTTAAAAG
* * *
1936099 ACATCATTTGCAGCACAGCTTAAGTCGAGAAGGGCTATCTGCCAAATACCCTCGAGTTCGATTAC
1 ACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGACCCTCGAGTTCGATTAC
** * * * *
1936164 ACTCAGCTTTGAGGGCACACCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAA
66 ACTCAGCTTCAAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAA
* *
1936229 AGACCTTCGAGTTCAACTACGCTCAGGTCCAAGGC
131 AGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGC
* * * *
1936264 ATATCATTTGCAACATAACTTAAGTCGAGAAGGGCTATCTACCAAAGACCCTCGAGTTCGGTTAC
1 ACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGACCCTCGAGTTCGATTAC
* * * *
1936329 ACTCAGCTTCGA-GGTACTTCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG-TAACCAA
66 ACTCAGCTTCAAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACC-A
1936392 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGC
130 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGC
* * * * * * * *
1936428 ATATCATTTGCTGCATAACTTAAGTCTAGAAGTGTTGTCTGTGACCAAAAGACCTTCGAGTTCGA
1 ACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC--T-ACC-AAAGACCCTCGAGTTCGA
* * * * * * * * * * *
1936493 CTACGCTCAGCTCCAA-TGCATATCATTTGCAGCATAAATTAAGTCAAGAAGGGTTATATGCCAA
62 TTACACTCAGCTTCAAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAA
* *
1936557 CCAAAGACCTTCGAGTTCGACTACGTTCAGCTCCAATGC
127 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGC
* * *
1936596 ACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGTCCCTCAAGTTCGATTAC
1 ACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGACCCTCGAGTTCGATTAC
* *
1936661 ACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAA
66 ACTCAGCTTCAAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAA
*
1936725 AGACCTTCGAGTTCGAATACGCTCAGCTCCAAGGC
131 AGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGC
* * * * ** * *
1936760 ACATTATTTGCAGCATAGCTTAAGTCAAGAAGGGATATATGTCAAAGACCTTCGAGTTCGACTAC
1 ACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGACCCTCGAGTTCGATTAC
** * *
1936825 GTTCAGCTCCAA-GGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAA-CAA
66 ACTCAGCTTCAAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAA
* * * * * ** *
1936888 AGACCCTCGAGTTTGATTACACTCATCTTTGAGGGC
131 AGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGC
* * * * * * * * *
1936924 ACATCATTTGCAACATAGCTCAAGGCTAGAAGAGTTG-TTTGCCAACAAAGACCTTTGAGTTCGA
1 ACATCATTTGCAGCATAGCTTAAGTCGAGAAG-G--GCTAT-CTACCAAAGACCCTCGAGTTCGA
* * * * * *
1936988 TTACACTCAGC-TCAACGGCACATCATTTGCGGTATAGCACAAGGCTAGAA-GGTCTATCT----
62 TTACACTCAGCTTCAAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGT-TATCTGCCA
* *
1937047 TCCAAAGACCTTCGAGTTCGACTACGCTCATCTCCAAGGC
126 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGC
*
1937087 ACATCATTTACAGCATA
1 ACATCATTTGCAGCATA
1937104 ACCTAAGGCA
Statistics
Matches: 703, Mismatches: 121, Indels: 34
0.82 0.14 0.04
Matches are distributed among these distances:
163 93 0.13
164 293 0.42
165 109 0.16
166 10 0.01
167 65 0.09
168 129 0.18
169 4 0.01
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (165 bp):
ACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGACCCTCGAGTTCGATTAC
ACTCAGCTTCAAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAA
AGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGC
Found at i:1936757 original size:332 final size:326
Alignment explanation
Indices: 1936099--1937131 Score: 1212
Period size: 332 Copynumber: 3.1 Consensus size: 326
1936089 TTTTTAAAAG
* * * * * * * * *
1936099 ACATCATTTGCAGCACAGCTTAAGTCGAGAAGGGCTATCTGCCAAATACCCTCGAGTTCGATTAC
1 ACATCATTTGCAGCATAACTTAAGTCAAGAAGGGATATATGTCAAAGACCTTCGAGTTCGACTAC
* ** * * * *
1936164 ACTCAGCTTTGAGGGCACACCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAA
66 GCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACCAA
* * * *
1936229 AGACCTTCGAGTTCAACTACGCTCAGGTCCAAGGCATATCATTTGCAACATAACTTAAGTCGAGA
130 AGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAACATAGCTTAAGTCGAGA
* * * *
1936294 AGGGCTATCTACCAAAGACCCTCGAGTTCGGTTACACTCAGCTTCGAGGTACTTCATTTACAGCA
195 AGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGCACATCATTTACAGCA
1936359 TAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCA
260 TAACTCAAGGCTAGAAGGGTTATCTGT-ACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCA
1936424 AGGC
323 AGGC
* * * * * * *
1936428 ATATCATTTGCTGCATAACTTAAGTCTAGAAGTGTTGTCTGTGACCAAAAGACCTTCGAGTTCGA
1 ACATCATTTGCAGCATAACTTAAGTCAAGAAGGGATATATGT---C-AAAGACCTTCGAGTTCGA
* * * *
1936493 CTACGCTCAGCTCCAATGCATATCATTTGCAGCATAAATTAAGTCAAGAAGGGTTATATGCCAAC
62 CTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAAC
* * *
1936558 CAAAGACCTTCGAGTTCGACTACGTTCAGCTCCAATGCACATCATTTGCAGCATAGCTTAAGTCG
127 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAACATAGCTTAAGTCG
* *
1936623 AGAAGGGCTATCTGCCAAAGTCCCTCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTAC
192 AGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGA-GGCACATCATTTAC
*
1936688 AGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGAATACGCTCAGCT
256 AGCATAACTCAAGGCTAGAAGGGTTATCTGT-ACCAAAGACCTTCGAGTTCGACTACGCTCAGCT
1936753 CCAAGGC
320 CCAAGGC
* *
1936760 ACATTATTTGCAGCATAGCTTAAGTCAAGAAGGGATATATGTCAAAGACCTTCGAGTTCGACTAC
1 ACATCATTTGCAGCATAACTTAAGTCAAGAAGGGATATATGTCAAAGACCTTCGAGTTCGACTAC
* * * *
1936825 GTTCAGCTCCAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAA-CAAA
66 GCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACCAAA
* * * * * ** * * * *
1936889 GACCCTCGAGTTTGATTACACTCATCTTTGAGGGCACATCATTTGCAACATAGCTCAAGGCTAGA
131 GACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAACATAGCTTAAGTCGAGA
* * * * * * * *
1936954 AGAGTTGTTTGCCAACAAAGACCTTTGAGTTCGATTACACTCAGC-TCAACGGCACATCATTTGC
195 AGGGCTATCTG-C--CAAAGACCCTCGAGTTCGATTACACTCAGCTTCGA-GGCACATCATTTAC
* * * * *
1937018 GGTATAGCACAAGGCTAGAA-GGTCTATCT-T-CCAAAGACCTTCGAGTTCGACTACGCTCATCT
256 AGCATAACTCAAGGCTAGAAGGGT-TATCTGTACCAAAGACCTTCGAGTTCGACTACGCTCAGCT
1937080 CCAAGGC
320 CCAAGGC
* * * * *
1937087 ACATCATTTACAGCATAACCTAAGGCAAGAAGGGTTATTTGTCAA
1 ACATCATTTGCAGCATAACTTAAGTCAAGAAGGGATATATGTCAA
1937132 TAAAATTATC
Statistics
Matches: 601, Mismatches: 93, Indels: 22
0.84 0.13 0.03
Matches are distributed among these distances:
327 99 0.16
328 111 0.18
329 39 0.06
330 37 0.06
331 26 0.04
332 218 0.36
333 71 0.12
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (326 bp):
ACATCATTTGCAGCATAACTTAAGTCAAGAAGGGATATATGTCAAAGACCTTCGAGTTCGACTAC
GCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACCAAA
GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAACATAGCTTAAGTCGAGAA
GGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGCACATCATTTACAGCAT
AACTCAAGGCTAGAAGGGTTATCTGTACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
C
Found at i:1938610 original size:24 final size:24
Alignment explanation
Indices: 1938561--1938616 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
1938551 CATTTTTTTG
* *
1938561 ATTTATTTATTATTATTATTTAAT
1 ATTTTTTTATTATTATTATATAAT
*
1938585 ATTTTTTTATTTTTA-TATATACAT
1 ATTTTTTTATTATTATTATATA-AT
1938609 ATTTTTTT
1 ATTTTTTT
1938617 GTGTTTTGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 5 0.18
24 23 0.82
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.70
Consensus pattern (24 bp):
ATTTTTTTATTATTATTATATAAT
Found at i:1938703 original size:19 final size:21
Alignment explanation
Indices: 1938679--1938722 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
1938669 CTTATTTTAA
1938679 TTTATTC-TTTTATTATT-CT
1 TTTATTCTTTTTATTATTACT
*
1938698 TTTATTCTTTTTATTTTTACT
1 TTTATTCTTTTTATTATTACT
1938719 TTTA
1 TTTA
1938723 CATTTTGTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.32
20 9 0.41
21 6 0.27
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTATTCTTTTTATTATTACT
Found at i:1938813 original size:15 final size:16
Alignment explanation
Indices: 1938780--1938846 Score: 57
Period size: 17 Copynumber: 4.1 Consensus size: 16
1938770 TCCCTTTTGA
1938780 TTTATTTTATTATTAT
1 TTTATTTTATTATTAT
*
1938796 TTTATTTT-TTATGTTTT
1 TTTATTTTATTA--TTAT
* *
1938813 TTTAATTTATT-TAAT
1 TTTATTTTATTATTAT
1938828 ATTTATTATTATTATTAT
1 -TTTATT-TTATTATTAT
1938846 T
1 T
1938847 ATTCTAACAT
Statistics
Matches: 39, Mismatches: 6, Indels: 11
0.70 0.11 0.20
Matches are distributed among these distances:
15 5 0.13
16 13 0.33
17 16 0.41
18 5 0.13
ACGTcount: A:0.25, C:0.00, G:0.01, T:0.73
Consensus pattern (16 bp):
TTTATTTTATTATTAT
Found at i:1940620 original size:31 final size:31
Alignment explanation
Indices: 1940582--1940735 Score: 256
Period size: 31 Copynumber: 5.0 Consensus size: 31
1940572 CCCGAAGGAC
* *
1940582 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TTCCGAAGAACATAGGTAAA
* *
1940613 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1940644 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1940675 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1940706 CAGTCCATATGTTCCGAAGAACATAGGTAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAA
1940736 CCCTCGACCC
Statistics
Matches: 116, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
31 115 0.99
32 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (31 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAAA
Found at i:1941632 original size:21 final size:21
Alignment explanation
Indices: 1941602--1941646 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1941592 ATTCTGTCGT
* *
1941602 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
1941623 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
1941644 TTG
1 TTG
1941647 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:1944646 original size:31 final size:31
Alignment explanation
Indices: 1944608--1944761 Score: 256
Period size: 31 Copynumber: 5.0 Consensus size: 31
1944598 CCCGAAGGAC
* *
1944608 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TTCCGAAGAACATAGGTAAA
* *
1944639 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1944670 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1944701 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1944732 CAGTCCATATGTTCCGAAGAACATAGGTAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAA
1944762 CCCTCGACCC
Statistics
Matches: 116, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
31 115 0.99
32 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (31 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAAA
Found at i:1947243 original size:20 final size:20
Alignment explanation
Indices: 1947179--1947243 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
1947169 ACGTTGCATT
*
1947179 TCGCATTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTG-AAA
** * **
1947200 TCGCGTTGCG-TTTTTCCATT
1 TCGCGTTGCGATAGTT-GAAA
1947220 TCGCGTTGCGATAGTTGAAA
1 TCGCGTTGCGATAGTTGAAA
1947240 TCGC
1 TCGC
1947244 AACGCGATCT
Statistics
Matches: 31, Mismatches: 11, Indels: 5
0.66 0.23 0.11
Matches are distributed among these distances:
20 19 0.61
21 12 0.39
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (20 bp):
TCGCGTTGCGATAGTTGAAA
Found at i:1947316 original size:101 final size:102
Alignment explanation
Indices: 1947146--1947448 Score: 382
Period size: 101 Copynumber: 3.0 Consensus size: 102
1947136 AATTCGCATT
* *
1947146 GCGATCTCCA-CTATCGCAAATTCACGTTGCATTTCGCATTGCGATAGTTGAAAATCGCGTTGCG
1 GCGATCTCCATC-ATCGCAAATTCGCGTTGCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCG
*
1947210 TTTTTCCATTTCGCGTTGCGATAGTTG-AAATCGCAAC
65 ATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCAAC
* *
1947247 GCGATCTCCATCATCGCAAATTCGCGTTGCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGTGG
1 GCGATCTCCATCATCGCAAATTCGCGTTGCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGA
***
1947312 TTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTT
66 TTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCAAC
* * * * * **
1947349 GCGATTTTCCAT-TTCGC--GTTGCGATAGTTGAAAATCGCGTTGCGATAGTTGAAAATCGCGTT
1 GCGA-TCTCCATCATCGCAAATT-CG--CGTTGCATTTCGCGTTGCGATAGTTGAAAATCGCGTT
*
1947411 GCGATTTTCCATTTCGCATTGCGATAGTTGAAAATCGC
62 GCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGC
1947449 GTTGCGATTT
Statistics
Matches: 179, Mismatches: 17, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
100 2 0.01
101 87 0.49
102 16 0.09
103 74 0.41
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.34
Consensus pattern (102 bp):
GCGATCTCCATCATCGCAAATTCGCGTTGCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGA
TTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCAAC
Found at i:1947387 original size:62 final size:62
Alignment explanation
Indices: 1947321--1947622 Score: 353
Period size: 62 Copynumber: 4.9 Consensus size: 62
1947311 GTTTTCCATT
*
1947321 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAATTCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
* *
1947383 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCATTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAATTCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
* ** * * * * * ** **
1947445 TCGCGTTGCGAT-TTTTCATTTCGCGTTGCGATAGTCTACA-GTCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAATTCGCGTTGCGAT--TTTCCATTTCGCGTTGCGATAGTTGAAAA
* *
1947506 TCGCGTTGCGATAGTTGAAATTCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCT-ACAG
1 TCGCGTTGCGATAGTTGAAATTCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT-TGAAAA
* ** *
1947568 TCGCGTTGCGAT-TTTCCATTTCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT
1 TCGCGTTGCGATAGTTGAAATTCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT
1947623 CTACAGTTGT
Statistics
Matches: 203, Mismatches: 31, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
60 4 0.02
61 81 0.40
62 113 0.56
63 5 0.02
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.37
Consensus pattern (62 bp):
TCGCGTTGCGATAGTTGAAATTCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
Found at i:1947393 original size:41 final size:41
Alignment explanation
Indices: 1947276--1947394 Score: 220
Period size: 41 Copynumber: 2.9 Consensus size: 41
1947266 ATTCGCGTTG
* *
1947276 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGTGGTTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1947317 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1947358 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT
1947395 AGTTGAAAAT
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 76 1.00
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.36
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
Found at i:1947409 original size:103 final size:103
Alignment explanation
Indices: 1947179--1947497 Score: 398
Period size: 103 Copynumber: 3.1 Consensus size: 103
1947169 ACGTTGCATT
* *
1947179 TCGCATTGCGATAGTTGAAAATCGCGTTGCGTTTTTCCATTTCGCGTTGCGATAGTTG-AAATCG
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCG
*** * * * * * **
1947243 CAACGCGA-TCTCCATCATCGCAAATT-CG--CGTTGCATT
66 CGTTGCGATTTTCCAT-TTCGC--GTTGCGATAGTTGAAAA
* *
1947280 TCGCGTTGCGATAGTTGAAAATCGCGTTGTGGTTTTCCATTTCGCGTTGCGATAGTTGAAAATCG
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCG
1947345 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
66 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
*
1947383 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCATTGCGATAGTTGAAAATCG
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCG
* * *
1947448 CGTTGCGATTTTTCATTTCGCGTTGCGATAGTCT-ACAG
66 CGTTGCGATTTTCCATTTCGCGTTGCGATAGT-TGAAAA
1947486 TCGCGTTGCGAT
1 TCGCGTTGCGAT
1947498 TTTCCATTTC
Statistics
Matches: 193, Mismatches: 19, Indels: 10
0.87 0.09 0.05
Matches are distributed among these distances:
100 2 0.01
101 57 0.30
102 15 0.08
103 118 0.61
104 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.35
Consensus pattern (103 bp):
TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCG
CGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
Found at i:1947433 original size:41 final size:41
Alignment explanation
Indices: 1947383--1947599 Score: 339
Period size: 41 Copynumber: 5.3 Consensus size: 41
1947373 TAGTTGAAAA
1947383 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATT
* *
1947424 TCGCATTGCGATAGTTGAAAATCGCGTTGCGATTTTTCATT
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATT
* *
1947465 TCGCGTTGCGATAGTCT-ACAGTCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATAGT-TGAAAATCGCGTTGCGATTTTCCATT
*
1947506 TCGCGTTGCGATAGTTGAAATTCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATT
* *
1947547 TCGCGTTGCGATAGTCT-ACAGTCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATAGT-TGAAAATCGCGTTGCGATTTTCCATT
1947588 TCGCGTTGCGAT
1 TCGCGTTGCGAT
1947600 TTTCCATTTC
Statistics
Matches: 163, Mismatches: 10, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
40 1 0.01
41 160 0.98
42 2 0.01
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.37
Consensus pattern (41 bp):
TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATT
Found at i:1947433 original size:82 final size:83
Alignment explanation
Indices: 1947276--1947622 Score: 319
Period size: 82 Copynumber: 4.2 Consensus size: 83
1947266 ATTCGCGTTG
* * ** * ** * **
1947276 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGTGGTTTTC-CATTTCGCGTTGCGATAGTTGAA
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTCTAAAGTCGCGTTGCGAT-TTTCCA
** *
1947340 AATCGCGTTGCGAT-TTTC
65 TTTCGCGTTGCGATAGTTC
*
1947358 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGT-TGAAAATCGCGTTGCGATTTTCCA
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTCT-AAAGTCGCGTTGCGATTTTCCA
* *
1947422 TTTCGCATTGCGATAGTTG
65 TTTCGCGTTGCGATAGTTC
* ** * ** ** *
1947441 AAAATCGCGTTGCGAT-TTTTCATTTCGCGTTGCGATAGTCTACAGTCGCGTTGCGATTTTCCAT
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTCTAAAGTCGCGTTGCGATTTTCCAT
*
1947505 TTCGCGTTGCGATAGTTG
66 TTCGCGTTGCGATAGTTC
* * * ** ** *
1947523 AAATTCGCGTTGCGAT-TTTCCATTTCGCGTTGCGATAGTCTACAGTCGCGTTGCGATTTTCCAT
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTCTAAAGTCGCGTTGCGATTTTCCAT
*
1947587 TTCGCGTTGCGAT-TTTC
66 TTCGCGTTGCGATAGTTC
1947604 CATTTCGCGTTGCGATAGT
1 CATTTCGCGTTGCGATAGT
1947623 CTACAGTTGT
Statistics
Matches: 227, Mismatches: 33, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
81 16 0.07
82 182 0.80
83 29 0.13
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.37
Consensus pattern (83 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTCTAAAGTCGCGTTGCGATTTTCCAT
TTCGCGTTGCGATAGTTC
Found at i:1947478 original size:144 final size:142
Alignment explanation
Indices: 1947175--1947538 Score: 475
Period size: 144 Copynumber: 2.5 Consensus size: 142
1947165 ATTCACGTTG
* *
1947175 CATTTCGCATTGCGATAGTTGAAAATCGCGTTGCGTTTTTCCATTTCGCGTTGCGATAGTTG-AA
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAA
*** ** * *
1947239 ATCGCAACGCGATCTCCATCATCGCAAATTCGCGTTGCATTTCGCGTTGCGATAGTTGAAAATCG
66 ATCGCGTTGCGATCTCCAAAATCGC-AATTCGCGTTCCATTTCGCATTGCGATAGTTGAAAATCG
* *
1947304 CGTTGTGGTTTTC
130 CGTTGCGATTTTC
1947317 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAA
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAA
* ** *
1947382 ATCGCGTTGCGATAGTTGAAAATCGC-GTT-GCGATTTTCCATTTCGCATTGCGATAGTTGAAAA
66 ATCGCGTTGCGAT-CTCCAAAATCGCAATTCGCG---TTCCATTTCGCATTGCGATAGTTGAAAA
*
1947445 TCGCGTTGCGATTTTT
127 TCGCGTTGCGATTTTC
* *
1947461 CATTTCGCGTTGCGATAGTCT-ACAGTCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAA
1 CATTTCGCGTTGCGATAGT-TGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAA
*
1947525 ATTCGCGTTGCGAT
65 AATCGCGTTGCGAT
1947539 TTTCCATTTC
Statistics
Matches: 197, Mismatches: 19, Indels: 10
0.87 0.08 0.04
Matches are distributed among these distances:
141 3 0.02
142 62 0.31
143 12 0.06
144 119 0.60
145 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.35
Consensus pattern (142 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAA
ATCGCGTTGCGATCTCCAAAATCGCAATTCGCGTTCCATTTCGCATTGCGATAGTTGAAAATCGC
GTTGCGATTTTC
Found at i:1947656 original size:61 final size:60
Alignment explanation
Indices: 1947345--1947656 Score: 249
Period size: 62 Copynumber: 5.1 Consensus size: 60
1947335 TTGAAAATCG
* * * ** *
1947345 CGTTGCGATTTTCCATTTCGCGTTGCGATAGT-TGAAAATCGCGTTGCGATAGTTGAAAATC
1 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTCT-ACAGTCGCGTTGCGAT-CTTCCAATTC
* * * * * *
1947406 GCGTTGCGATTTTCCATTTCGCATTGCGATAGT-TGAAAATCGCGTTGCGATTTTTCATTTC
1 -CGTTGCGATTTTCCATTTCGCGTTGCGATAGTCT-ACAGTCGCGTTGCGATCTTCCAATTC
* * * * * * * **
1947467 GCGTTGCGATAGTCTACA-GTCGCGTTGCGAT--TTTCCATTTCGCGTTGCGATAGTTGAAATTC
1 -CGTTGCGAT--TTTCCATTTCGCGTTGCGATAGTCTACA-GTCGCGTTGCGAT-CTTCCAATTC
* *
1947529 GCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTCGCGTTGCGATTTTCCATTTC
1 -CGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTCGCGTTGCGATCTTCCAATTC
*
1947590 GCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTTGTCGTTGCGATCTTCCAAATT-
1 -CGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTCG-CGTTGCGATCTTCC-AATTC
1947652 CGTTG
1 CGTTG
1947657 TGATAGTTAA
Statistics
Matches: 210, Mismatches: 30, Indels: 21
0.80 0.11 0.08
Matches are distributed among these distances:
60 6 0.03
61 92 0.44
62 101 0.48
63 11 0.05
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.38
Consensus pattern (60 bp):
CGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTCGCGTTGCGATCTTCCAATTC
Found at i:1947751 original size:6 final size:6
Alignment explanation
Indices: 1947740--1947772 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
1947730 GACACGTATT
*
1947740 ACCACG ACCACG ACCACG ACCACG ACCCCG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1947773 TGAGACGAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.30, C:0.55, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:1947904 original size:6 final size:6
Alignment explanation
Indices: 1947893--1947925 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
1947883 GGTCGGGTTG
1947893 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1947926 AATACGTGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.15, G:0.52, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:1948033 original size:19 final size:19
Alignment explanation
Indices: 1948009--1948074 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
1947999 TTAACTATCA
1948009 CAACGAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCG
* * **
1948028 CAACGACAACTGTAGACTATCG
1 CAACG--AA-TTTGGAAAATCG
1948050 CAACGAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCG
1948069 CAACGA
1 CAACGA
1948075 CAACTGTAGA
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
19 19 0.53
20 2 0.06
21 2 0.06
22 13 0.36
ACGTcount: A:0.41, C:0.21, G:0.20, T:0.18
Consensus pattern (19 bp):
CAACGAATTTGGAAAATCG
Found at i:1948051 original size:22 final size:22
Alignment explanation
Indices: 1948024--1948095 Score: 87
Period size: 22 Copynumber: 3.4 Consensus size: 22
1948014 AATTTGGAAA
1948024 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* * **
1948046 ATCGCAACG--AA-TTTGGAAA
1 ATCGCAACGACAACTGTAGACT
1948065 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
1948087 ATCGCAACG
1 ATCGCAACG
1948096 CCAAATGGAA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 13 0.33
20 2 0.05
21 2 0.05
22 22 0.56
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.18
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:1948059 original size:41 final size:40
Alignment explanation
Indices: 1948002--1948156 Score: 195
Period size: 41 Copynumber: 3.8 Consensus size: 40
1947992 CTTTTTTTTA
* *
1948002 ACTATCACAACGAATTTGGAAAATCGCAACGACAACTGTAG
1 ACTATCGCAACGAA-ATGGAAAATCGCAACGACAACTGTAG
*
1948043 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
1 ACTATCGCAACGAA-ATGGAAAATCGCAACGACAACTGTAG
*
1948084 ACTATCGCAACGCCAAATGGAAAATCGCAACG-CGACTGTAG
1 ACTATCGCAACG--AAATGGAAAATCGCAACGACAACTGTAG
**
1948125 AAAATCGCAACGCGAAATGGAAAATCGCAACG
1 ACTATCGCAA--CGAAATGGAAAATCGCAACG
1948157 CGATTTTCAA
Statistics
Matches: 105, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
41 86 0.82
42 15 0.14
43 4 0.04
ACGTcount: A:0.41, C:0.23, G:0.20, T:0.16
Consensus pattern (40 bp):
ACTATCGCAACGAAATGGAAAATCGCAACGACAACTGTAG
Found at i:1948112 original size:20 final size:20
Alignment explanation
Indices: 1948059--1948157 Score: 92
Period size: 20 Copynumber: 4.8 Consensus size: 20
1948049 GCAACGAATT
* *
1948059 TGGAAAATCGCAACGACAAC
1 TGGAAAATCGCAACGCCAAA
**
1948079 TGTAGACTATCGCAACGCCAAA
1 TG--GAAAATCGCAACGCCAAA
* *
1948101 TGGAAAATCGCAACG-CGAC
1 TGGAAAATCGCAACGCCAAA
*
1948120 TGTAGAAAATCGCAACGCGAAA
1 TG--GAAAATCGCAACGCCAAA
1948142 TGGAAAATCGCAACGC
1 TGGAAAATCGCAACGC
1948158 GATTTTCAAC
Statistics
Matches: 63, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
19 4 0.06
20 27 0.43
21 13 0.21
22 19 0.30
ACGTcount: A:0.40, C:0.24, G:0.22, T:0.13
Consensus pattern (20 bp):
TGGAAAATCGCAACGCCAAA
Found at i:1948157 original size:41 final size:42
Alignment explanation
Indices: 1948018--1948184 Score: 209
Period size: 41 Copynumber: 4.0 Consensus size: 42
1948008 ACAACGAATT
*
1948018 TGGAAAATCGCAACGACAACTGTAGACTATCGCAA--CGAATT
1 TGGAAAATCGCAACGACAACTGTAGACTATCGCAACGCGAA-A
*
1948059 TGGAAAATCGCAACGACAACTGTAGACTATCGCAACGCCAAA
1 TGGAAAATCGCAACGACAACTGTAGACTATCGCAACGCGAAA
* **
1948101 TGGAAAATCGCAACG-CGACTGTAGAAAATCGCAACGCGAAA
1 TGGAAAATCGCAACGACAACTGTAGACTATCGCAACGCGAAA
* * *
1948142 TGGAAAATCGCAACG-CGATTTTCA-ACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGACAACTGT-AGACTATCGCAACGCGAAA
1948183 TG
1 TG
1948185 CAACGCGAAT
Statistics
Matches: 113, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
41 94 0.83
42 16 0.14
43 3 0.03
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.17
Consensus pattern (42 bp):
TGGAAAATCGCAACGACAACTGTAGACTATCGCAACGCGAAA
Found at i:1948158 original size:20 final size:20
Alignment explanation
Indices: 1948087--1948159 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
1948077 ACTGTAGACT
*
1948087 ATCGCAACGCCAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
*
1948107 ATCGCAACGCG-ACTGTAGAAA
1 ATCGCAACGCGAAATG--GAAA
1948128 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
1948148 ATCGCAACGCGA
1 ATCGCAACGCGA
1948160 TTTTCAACTA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.06
20 26 0.55
21 15 0.32
22 3 0.06
ACGTcount: A:0.41, C:0.25, G:0.23, T:0.11
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:1948188 original size:21 final size:21
Alignment explanation
Indices: 1948087--1948188 Score: 84
Period size: 21 Copynumber: 5.0 Consensus size: 21
1948077 ACTGTAGACT
* *
1948087 ATCGCAACGCCAAATGGAA-A
1 ATCGCAACGCGAAATGCAACA
* * *
1948107 ATCGCAACGCG-ACTGTAGAAA
1 ATCGCAACGCGAAATGCA-ACA
*
1948128 ATCGCAACGCGAAATGGAA-A
1 ATCGCAACGCGAAATGCAACA
** * *
1948148 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGCAACA
1948169 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATGCAAC
1948189 GCGAATTTGC
Statistics
Matches: 65, Mismatches: 13, Indels: 7
0.76 0.15 0.08
Matches are distributed among these distances:
19 4 0.06
20 27 0.42
21 30 0.46
22 4 0.06
ACGTcount: A:0.39, C:0.25, G:0.21, T:0.15
Consensus pattern (21 bp):
ATCGCAACGCGAAATGCAACA
Found at i:1952590 original size:13 final size:13
Alignment explanation
Indices: 1952553--1952592 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
1952543 TCGATATTGA
1952553 AAAATAAATA-TT
1 AAAATAAATATTT
*
1952565 AAAATAATTTATTT
1 AAAATAA-ATATTT
1952579 AAAATAAATATTT
1 AAAATAAATATTT
1952592 A
1 A
1952593 TTTATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 7 0.29
13 8 0.33
14 9 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATAAATATTT
Found at i:1953751 original size:16 final size:16
Alignment explanation
Indices: 1953730--1953770 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
1953720 ACCATTGGCT
*
1953730 GAGGCGGTTGGAGGCA
1 GAGGCGGCTGGAGGCA
1953746 GAGGCGGCTGGAGGCA
1 GAGGCGGCTGGAGGCA
1953762 GAGGCGGCT
1 GAGGCGGCT
1953771 AGGGTTAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.56, T:0.10
Consensus pattern (16 bp):
GAGGCGGCTGGAGGCA
Found at i:1953893 original size:3 final size:3
Alignment explanation
Indices: 1953885--1953940 Score: 94
Period size: 3 Copynumber: 18.7 Consensus size: 3
1953875 TATATATATT
* *
1953885 TAA TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1953933 TAA TAA TA
1 TAA TAA TA
1953941 TTTATAGTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:1953914 original size:18 final size:18
Alignment explanation
Indices: 1953893--1953953 Score: 92
Period size: 18 Copynumber: 3.6 Consensus size: 18
1953883 TTTAATAATA
1953893 ATAATAATAATAATATTT
1 ATAATAATAATAATATTT
1953911 ATAATAATAATAATA---
1 ATAATAATAATAATATTT
1953926 ATAATAATAATAATATTT
1 ATAATAATAATAATATTT
*
1953944 ATAGTAATAA
1 ATAATAATAA
1953954 ATCAATATGG
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
15 15 0.38
18 24 0.62
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (18 bp):
ATAATAATAATAATATTT
Found at i:1953951 original size:12 final size:12
Alignment explanation
Indices: 1953880--1953952 Score: 71
Period size: 12 Copynumber: 6.2 Consensus size: 12
1953870 ATATATATAT
1953880 ATATTTAATAATA
1 ATATTT-ATAATA
* *
1953893 ATAATAATAATA
1 ATATTTATAATA
1953905 ATATTTATAATA
1 ATATTTATAATA
1953917 ATA---ATAATA
1 ATATTTATAATA
* *
1953926 ATAATAATAATA
1 ATATTTATAATA
*
1953938 ATATTTATAGTA
1 ATATTTATAATA
1953950 ATA
1 ATA
1953953 AATCAATATG
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
9 9 0.18
12 37 0.74
13 4 0.08
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (12 bp):
ATATTTATAATA
Found at i:1954438 original size:113 final size:113
Alignment explanation
Indices: 1954300--1954906 Score: 909
Period size: 113 Copynumber: 5.4 Consensus size: 113
1954290 AACAAGTCCT
* *
1954300 TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTAGAAAAGTTGATCCATCAAGTGATGGAT
1 TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGAT-GAT
* * * * *
1954365 TTGA-GCAAAA-ATCTGAACAAATTCTTCTCATTATGAACTTCTTCATCA
65 TTCAGGCAAAAGGT-TGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC
* **** * *
1954413 TTCTTCAGATGAGTTCTTCTTATTATGAACTCGAACTGGAAAAGCTAATCTATCAAGTGATAGAT
1 TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGAT-GAT
* * *
1954478 TTGA-GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCC
65 TTCAGGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC
* * * *
1954526 TTCTTCAGATGAGTTCATT-TCATTATGAACTTTTTCTGGAAAGGCTGATCCATCAATTGATGAA
1 TTCTTCAGATGAGTTC-TTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGAT
*
1954590 TTCAGGTAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC
65 TTCAGGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC
* *
1954639 TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGGTCCATCAAGTGATGAAT
1 TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGATT
*
1954704 TCAGGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCA
66 TCAGGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC
1954752 TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGAAT
1 TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATG-AT
1954817 TT-AGGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC
65 TTCAGGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC
1954865 TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAA
1 TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAA
1954907 TGTCAATCTA
Statistics
Matches: 454, Mismatches: 35, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
112 7 0.02
113 441 0.97
114 6 0.01
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (113 bp):
TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGATT
TCAGGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC
Found at i:1955867 original size:83 final size:83
Alignment explanation
Indices: 1955723--1956063 Score: 628
Period size: 83 Copynumber: 4.1 Consensus size: 83
1955713 CTTATTTCTA
* *
1955723 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAAACAGATCAGATAACTCAAA
1 CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1955788 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
*
1955806 CTATTAGCAAATTCATCTTCCAAATTCAATGATTGATTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1955871 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
*
1955889 CTATTGGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1955954 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
*
1955972 CTATTGGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1956037 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
*
1956055 CTATGAGCA
1 CTATTAGCA
1956064 CATTGCATTT
Statistics
Matches: 251, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
83 251 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (83 bp):
CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
GAACACTTCCAGAAGATG
Found at i:1957232 original size:10 final size:10
Alignment explanation
Indices: 1957217--1957307 Score: 92
Period size: 8 Copynumber: 9.9 Consensus size: 10
1957207 TGACCCCCCC
1957217 TTTTTCTTCT
1 TTTTTCTTCT
1957227 TTTTTC-TC-
1 TTTTTCTTCT
1957235 TTTTT-TTCT
1 TTTTTCTTCT
1957244 TTTTT-TTCT
1 TTTTTCTTCT
1957253 TTTTTCTT-T
1 TTTTTCTTCT
*
1957262 TTCTT-TT-T
1 TTTTTCTTCT
1957270 TTTTT-TT-T
1 TTTTTCTTCT
1957278 TTTTTCTTTCT
1 TTTTTC-TTCT
*
1957289 TTTTTTTTCT
1 TTTTTCTTCT
1957299 TTTTTCTTC
1 TTTTTCTTC
1957308 AAGCATAATA
Statistics
Matches: 71, Mismatches: 4, Indels: 12
0.82 0.05 0.14
Matches are distributed among these distances:
8 22 0.31
9 21 0.30
10 22 0.31
11 6 0.08
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTCTTCT
Found at i:1957238 original size:7 final size:7
Alignment explanation
Indices: 1957218--1957306 Score: 100
Period size: 7 Copynumber: 13.3 Consensus size: 7
1957208 GACCCCCCCT
1957218 TTTTCTTC
1 TTTT-TTC
1957226 TTTTTTC
1 TTTTTTC
*
1957233 TCTTTT-
1 TTTTTTC
*
1957239 TTTCTT-
1 TTTTTTC
1957245 TTTTTTC
1 TTTTTTC
1957252 TTTTTTC
1 TTTTTTC
1957259 -TTTTTC
1 TTTTTTC
1957265 TTTTTT-
1 TTTTTTC
1957271 TTTTTT-
1 TTTTTTC
1957277 TTTTTTC
1 TTTTTTC
1957284 TTTCTTT-
1 TTT-TTTC
1957291 TTTTTTC
1 TTTTTTC
1957298 TTTTTTC
1 TTTTTTC
1957305 TT
1 TT
1957307 CAAGCATAAT
Statistics
Matches: 72, Mismatches: 4, Indels: 11
0.83 0.05 0.13
Matches are distributed among these distances:
6 30 0.42
7 35 0.49
8 7 0.10
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTTC
Found at i:1957239 original size:1 final size:1
Alignment explanation
Indices: 1957235--1957303 Score: 75
Period size: 1 Copynumber: 69.0 Consensus size: 1
1957225 CTTTTTTCTC
* * * * * * *
1957235 TTTTTTTCTTTTTTTTCTTTTTTCTTTTTCTTTTTTTTTTTTTTTTTTCTTTCTTTTTTTTTCTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1957300 TTTT
1 TTTT
1957304 CTTCAAGCAT
Statistics
Matches: 54, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (1 bp):
T
Found at i:1957245 original size:26 final size:24
Alignment explanation
Indices: 1957217--1957303 Score: 97
Period size: 25 Copynumber: 3.5 Consensus size: 24
1957207 TGACCCCCCC
1957217 TTTTTCTTCTTTTTTCTCTTTTTTT
1 TTTTTCTT-TTTTTTCTCTTTTTTT
1957242 CTTTTT-TTTCTTTTT-TCTTTTTCTT
1 -TTTTTCTTT-TTTTTCTCTTTTT-TT
* *
1957267 TTTTTTTTTTTTTTTTCTTTCTTTT
1 TTTTTCTTTTTTTTCTCTTT-TTTT
1957292 TTTTTCTTTTTT
1 TTTTTCTTTTTT
1957304 CTTCAAGCAT
Statistics
Matches: 55, Mismatches: 1, Indels: 11
0.82 0.01 0.16
Matches are distributed among these distances:
24 18 0.33
25 30 0.55
26 7 0.13
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (24 bp):
TTTTTCTTTTTTTTCTCTTTTTTT
Found at i:1957304 original size:17 final size:17
Alignment explanation
Indices: 1957217--1957306 Score: 102
Period size: 17 Copynumber: 5.5 Consensus size: 17
1957207 TGACCCCCCC
1957217 TTTTTCTTCTTTTTTCTCT
1 TTTTTCTT-TTTTTT-TCT
1957236 TTTTT-TCTTTTTTTTCT
1 TTTTTCT-TTTTTTTTCT
*
1957253 TTTTTCTTTTTCTTT-T
1 TTTTTCTTTTTTTTTCT
1957269 TTTTT-TTTTTTTTTC-
1 TTTTTCTTTTTTTTTCT
1957284 --TTTCTTTTTTTTTCT
1 TTTTTCTTTTTTTTTCT
1957299 TTTTTCTT
1 TTTTTCTT
1957307 CAAGCATAAT
Statistics
Matches: 62, Mismatches: 2, Indels: 16
0.77 0.03 0.20
Matches are distributed among these distances:
13 3 0.05
14 10 0.16
15 8 0.13
16 6 0.10
17 21 0.34
18 8 0.13
19 6 0.10
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (17 bp):
TTTTTCTTTTTTTTTCT
Found at i:1969924 original size:16 final size:16
Alignment explanation
Indices: 1969903--1969943 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
1969893 ACCGTTGGCT
*
1969903 GAGGCGGTTGGAGGCA
1 GAGGCGGCTGGAGGCA
1969919 GAGGCGGCTGGAGGCA
1 GAGGCGGCTGGAGGCA
1969935 GAGGCGGCT
1 GAGGCGGCT
1969944 AGGGTTAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.56, T:0.10
Consensus pattern (16 bp):
GAGGCGGCTGGAGGCA
Found at i:1970066 original size:3 final size:3
Alignment explanation
Indices: 1970058--1970140 Score: 121
Period size: 3 Copynumber: 27.7 Consensus size: 3
1970048 TATATATATT
* *
1970058 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
1970106 TAA TAA TAT TTA TAG TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1970141 TTTATAGTAA
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:1970101 original size:27 final size:27
Alignment explanation
Indices: 1970063--1970153 Score: 164
Period size: 27 Copynumber: 3.4 Consensus size: 27
1970053 ATATTTAATA
1970063 ATAATAATAATAATAATAATAATATTT
1 ATAATAATAATAATAATAATAATATTT
1970090 ATAATAATAATAATAATAATAATATTT
1 ATAATAATAATAATAATAATAATATTT
*
1970117 ATAGTAATAATAATAATAATAATATTT
1 ATAATAATAATAATAATAATAATATTT
*
1970144 ATAGTAATAA
1 ATAATAATAA
1970154 ATCAATATGG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 63 1.00
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (27 bp):
ATAATAATAATAATAATAATAATATTT
Found at i:1976113 original size:18 final size:18
Alignment explanation
Indices: 1976086--1976120 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1976076 GGCGATTAAA
*
1976086 AATTGGTTAAAAAAGTGT
1 AATTGATTAAAAAAGTGT
*
1976104 AATTGATTAAATAAGTG
1 AATTGATTAAAAAAGTG
1976121 ATTAGTTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.20, T:0.34
Consensus pattern (18 bp):
AATTGATTAAAAAAGTGT
Found at i:1976206 original size:25 final size:26
Alignment explanation
Indices: 1976167--1976215 Score: 91
Period size: 25 Copynumber: 1.9 Consensus size: 26
1976157 GTCTCGAGTT
1976167 ATTTTATTTATATATATATATATATA
1 ATTTTATTTATATATATATATATATA
1976193 ATTTTA-TTATATATATATATATA
1 ATTTTATTTATATATATATATATA
1976216 AGTATATAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
ATTTTATTTATATATATATATATATA
Found at i:1976207 original size:23 final size:22
Alignment explanation
Indices: 1976173--1976216 Score: 79
Period size: 23 Copynumber: 2.0 Consensus size: 22
1976163 AGTTATTTTA
1976173 TTTATATATATATATATATAAT
1 TTTATATATATATATATATAAT
1976195 TTTATTATATATATATATATAA
1 TTTA-TATATATATATATATAA
1976217 GTATATAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTATATATATATATATATAAT
Found at i:1976223 original size:2 final size:2
Alignment explanation
Indices: 1976175--1976215 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
1976165 TTATTTTATT
*
1976175 TA TA TA TA TA TA TA TA TA -A T- TT TA T- TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1976214 TA
1 TA
1976216 AGTATATAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
1 3 0.09
2 32 0.91
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:1976231 original size:10 final size:9
Alignment explanation
Indices: 1976175--1976231 Score: 50
Period size: 10 Copynumber: 6.4 Consensus size: 9
1976165 TTATTTTATT
1976175 TATATATATA
1 TATATATA-A
1976185 TATATATAA
1 TATATATAA
*
1976194 T-T-T-TAT
1 TATATATAA
1976200 TATATAT-A
1 TATATATAA
1976208 TATATATAA
1 TATATATAA
1976217 GTATATAGTAA
1 -TATATA-TAA
1976228 TATA
1 TATA
1976232 GTTTGTGAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
6 3 0.08
7 2 0.05
8 9 0.23
9 4 0.10
10 18 0.46
11 3 0.08
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (9 bp):
TATATATAA
Found at i:1976338 original size:32 final size:32
Alignment explanation
Indices: 1976296--1976374 Score: 95
Period size: 32 Copynumber: 2.4 Consensus size: 32
1976286 TTGAAAATTT
* * *
1976296 ATATATTATATTGTTTTTGAAATATTTTTAAA
1 ATATAATATATTGTTTTGGAAATATTTTGAAA
*
1976328 ATATAATATATAGTTTTGGAAATATTTTGAAA
1 ATATAATATATTGTTTTGGAAATATTTTGAAA
* *
1976360 AAATTTATATATTGT
1 ATA-TAATATATTGT
1976375 ATAGTTTTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
32 30 0.77
33 9 0.23
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.51
Consensus pattern (32 bp):
ATATAATATATTGTTTTGGAAATATTTTGAAA
Found at i:1976414 original size:36 final size:36
Alignment explanation
Indices: 1976286--1976426 Score: 164
Period size: 36 Copynumber: 4.0 Consensus size: 36
1976276 AAAACGATTG
* *
1976286 TTGAAAATTTATATATTATATTGTTTTTGAAATATT
1 TTGAAAATTTATATATTATATAGTTTTTAAAATATT
* **
1976322 TTTAAAA--TATA-A-TATATAGTTTTGGAAATATT
1 TTGAAAATTTATATATTATATAGTTTTTAAAATATT
*
1976354 TTGAAAAAATTTATATATTGTATAGTTTTTAAAATATT
1 TTG--AAAATTTATATATTATATAGTTTTTAAAATATT
* *
1976392 TTGAAAACTTATATAGTATATAGTTTTTAAAATAT
1 TTGAAAATTTATATATTATATAGTTTTTAAAATAT
1976427 AATATATAGT
Statistics
Matches: 89, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
32 20 0.22
33 1 0.01
34 8 0.09
36 39 0.44
37 1 0.01
38 20 0.22
ACGTcount: A:0.41, C:0.01, G:0.09, T:0.50
Consensus pattern (36 bp):
TTGAAAATTTATATATTATATAGTTTTTAAAATATT
Found at i:1976419 original size:95 final size:95
Alignment explanation
Indices: 1976319--1976522 Score: 268
Period size: 95 Copynumber: 2.1 Consensus size: 95
1976309 TTTTTGAAAT
** * * *
1976319 ATTTTTAAAATATAATATATAGTTTTGGAAATATTTTGAAAAAATTTATATATTGTATAGTTT-T
1 ATTTTTAAAATATAATATATAGTTTTAAAAATATTTT-AAAAAA-TTATATAATATATAGTTTAA
* * *
1976383 TAAAATA-TTTTGAAAACTTATATAGTATATA
64 AAAAATATTTTTGAAAAATTATATAATATATA
* *
1976414 GTTTTTAAAATATAATATATAGTTTTAAAAATATTTTTAAAAATTATATAATATATAGTTTAAAA
1 ATTTTTAAAATATAATATATAGTTTTAAAAATATTTTAAAAAATTATATAATATATAGTTTAAAA
1976479 AAATATTTTTTGAAAAATTATATAATATATA
66 AAATA-TTTTTGAAAAATTATATAATATATA
*
1976510 ATTTTAAAAATAT
1 ATTTTTAAAATAT
1976523 TTTTGAAAAT
Statistics
Matches: 94, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
93 16 0.17
94 11 0.12
95 34 0.36
96 33 0.35
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (95 bp):
ATTTTTAAAATATAATATATAGTTTTAAAAATATTTTAAAAAATTATATAATATATAGTTTAAAA
AAATATTTTTGAAAAATTATATAATATATA
Found at i:1976426 original size:21 final size:21
Alignment explanation
Indices: 1976402--1976447 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
1976392 TTGAAAACTT
* *
1976402 ATATAGTATATAGTTTTTAAA
1 ATATAATATATAGTTTTAAAA
1976423 ATATAATATATAGTTTTAAAA
1 ATATAATATATAGTTTTAAAA
1976444 ATAT
1 ATAT
1976448 TTTTAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.46
Consensus pattern (21 bp):
ATATAATATATAGTTTTAAAA
Found at i:1976507 original size:37 final size:37
Alignment explanation
Indices: 1976423--1976679 Score: 244
Period size: 36 Copynumber: 7.3 Consensus size: 37
1976413 AGTTTTTAAA
1976423 ATATAATATATAGTTTTAAAAATATTTTT-AAAAATT
1 ATATAATATATAGTTTTAAAAATATTTTTGAAAAATT
*
1976459 ATATAATATATAGTTTAAAAAAATATTTTTTGAAAAATT
1 ATATAATATATAGTTT-TAAAAATA-TTTTTGAAAAATT
*
1976498 ATATAATATATAATTTTAAAAATATTTTTG-AAAATT
1 ATATAATATATAGTTTTAAAAATATTTTTGAAAAATT
* *
1976534 ATATAATATATAG-TTTAAAAACATTTTTTGAAAACTT
1 ATATAATATATAGTTTTAAAAATA-TTTTTGAAAAATT
* *
1976571 ATAT-A-ATAT--TTTT-AAAGTA-TTTTG-AAAACT
1 ATATAATATATAGTTTTAAAAATATTTTTGAAAAATT
* * *
1976601 ATATAACATATAGTTTTGAAAA-CTTTTT--AAAA-T
1 ATATAATATATAGTTTTAAAAATATTTTTGAAAAATT
* *
1976634 A-A-AATATATAG-TTTAAAAAAATATTTTGAAATA-T
1 ATATAATATATAGTTTTAAAAATAT-TTTTGAAAAATT
*
1976668 ATATATTATATA
1 ATATAATATATA
1976680 AATTATATTT
Statistics
Matches: 186, Mismatches: 17, Indels: 36
0.78 0.07 0.15
Matches are distributed among these distances:
30 15 0.08
31 15 0.08
32 9 0.05
33 6 0.03
34 16 0.09
35 21 0.11
36 48 0.26
37 22 0.12
38 12 0.06
39 22 0.12
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (37 bp):
ATATAATATATAGTTTTAAAAATATTTTTGAAAAATT
Found at i:1976507 original size:75 final size:73
Alignment explanation
Indices: 1976423--1976579 Score: 260
Period size: 75 Copynumber: 2.1 Consensus size: 73
1976413 AGTTTTTAAA
* *
1976423 ATATAATATATAGTTTTAAAAATATTTTTAAAAATTATATAATATATAGTTTAAAAAAATATTTT
1 ATATAATATATAATTTTAAAAATATTTTTAAAAATTATATAATATATAGTTT--AAAAACATTTT
1976488 TTGAAAAATT
64 TTGAAAAATT
*
1976498 ATATAATATATAATTTTAAAAATATTTTTGAAAATTATATAATATATAGTTTAAAAACATTTTTT
1 ATATAATATATAATTTTAAAAATATTTTTAAAAATTATATAATATATAGTTTAAAAACATTTTTT
*
1976563 GAAAACTT
66 GAAAAATT
1976571 ATATAATAT
1 ATATAATAT
1976580 TTTTAAAGTA
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
73 28 0.36
75 50 0.64
ACGTcount: A:0.50, C:0.01, G:0.04, T:0.45
Consensus pattern (73 bp):
ATATAATATATAATTTTAAAAATATTTTTAAAAATTATATAATATATAGTTTAAAAACATTTTTT
GAAAAATT
Found at i:1976522 original size:132 final size:127
Alignment explanation
Indices: 1976296--1976549 Score: 307
Period size: 132 Copynumber: 2.0 Consensus size: 127
1976286 TTGAAAATTT
* * ** ***
1976296 ATATATTATATTGTTTTTGAAATATTTTTAAAATATAATATATAGTTTTGGAAATATTTTGAAAA
1 ATATAATATATAGTTTTAAAAATATTTTTAAAATATAATATATAGTTTAAAAAATATTTTGAAAA
* * * * *
1976361 AATTTATATATTGTATAGTTTTTAAAATA-TTTTGAAAACTTATATAGTATATAGTTTTTAAA
66 AATTTATATAATATATAATTTTAAAAATATTTTTGAAAA-TTATATAATATATAGTTTTTAAA
1976423 ATATAATATATAGTTTTAAAAATATTTTTAAAAATTATATAATATATAGTTTAAAAAAATATTTT
1 ATATAATATATAGTTTTAAAAATATTTTT--AAA--ATATAATATATAGTTT-AAAAAATA--TT
1976488 TTG-AAAAA-TTATATAATATATAATTTTAAAAATATTTTTGAAAATTATATAATATATAGTTT
59 TTGAAAAAATTTATATAATATATAATTTTAAAAATATTTTTGAAAATTATATAATATATAGTTT
1976550 AAAAACATTT
Statistics
Matches: 107, Mismatches: 12, Indels: 11
0.82 0.09 0.08
Matches are distributed among these distances:
127 25 0.23
129 3 0.03
131 16 0.15
132 44 0.41
133 14 0.13
134 5 0.05
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (127 bp):
ATATAATATATAGTTTTAAAAATATTTTTAAAATATAATATATAGTTTAAAAAATATTTTGAAAA
AATTTATATAATATATAATTTTAAAAATATTTTTGAAAATTATATAATATATAGTTTTTAAA
Found at i:1976642 original size:68 final size:67
Alignment explanation
Indices: 1976415--1976672 Score: 186
Period size: 67 Copynumber: 3.7 Consensus size: 67
1976405 TAGTATATAG
* * * * *
1976415 TTTTTAAAATATAATATAT-AGTTTTAAAAATATTTTTAAAAATTATATAATATATAGTTTAAAA
1 TTTTTAAAA-AAAATATATAAATTTTAAAAATATTTTTGAAAACTATATAACATATAGTTT--AA
*
1976479 AAATA
63 AAACA
* * *
1976484 TTTTTTGAAAAATTATATAATATATAATTTTAAAAATATTTTTGAAAATTATATAATATATAGTT
1 -TTTTT-AAAAA--AAAT-ATATA-AATTTTAAAAATATTTTTGAAAACTATATAACATATAGTT
1976549 TAAAAACA
60 TAAAAACA
** ** * * *
1976557 TTTTTTGAAAACTTATATAATATTTTTAAAGTA-TTTTGAAAACTATATAACATATAGTTTTGAA
1 TTTTTAAAAAAAATATATAA-ATTTTAAAAATATTTTTGAAAACTATATAACATATAG-TTTAAA
1976621 AAC-
64 AACA
* *
1976624 TTTTTAAAATAAAATATAT--AGTTTAAAAAAATATTTTGAAATA-TATATA
1 TTTTTAAAA-AAAATATATAAATTTTAAAAATAT-TTTTGAAA-ACTATATA
1976673 TTATATAAAT
Statistics
Matches: 154, Mismatches: 22, Indels: 27
0.76 0.11 0.13
Matches are distributed among these distances:
65 8 0.05
67 44 0.29
68 31 0.20
69 2 0.01
70 6 0.04
71 7 0.05
72 7 0.05
73 10 0.06
75 39 0.25
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.45
Consensus pattern (67 bp):
TTTTTAAAAAAAATATATAAATTTTAAAAATATTTTTGAAAACTATATAACATATAGTTTAAAAA
CA
Found at i:1976714 original size:5 final size:5
Alignment explanation
Indices: 1976704--1976746 Score: 52
Period size: 5 Copynumber: 8.8 Consensus size: 5
1976694 TATTATTATT
* * *
1976704 TTTTA TTTTA TTTTA TTTTA -TTCA TTTTA ATTTA TTTCA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1976747 TTTCAGGTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
4 3 0.10
5 28 0.90
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (5 bp):
TTTTA
Found at i:1976731 original size:24 final size:24
Alignment explanation
Indices: 1976704--1976751 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1976694 TATTATTATT
* *
1976704 TTTTATTTTATTTTATTTTATTCA
1 TTTTAATTTATTTCATTTTATTCA
*
1976728 TTTTAATTTATTTCATTTTTTTCA
1 TTTTAATTTATTTCATTTTATTCA
1976752 GGTTTAATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (24 bp):
TTTTAATTTATTTCATTTTATTCA
Found at i:1976732 original size:14 final size:15
Alignment explanation
Indices: 1976705--1976746 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
1976695 ATTATTATTT
* *
1976705 TTTATTTTATTTTAT
1 TTTATTTCATTTTAA
1976720 TTTA-TTCATTTTAA
1 TTTATTTCATTTTAA
1976734 TTTATTTCATTTT
1 TTTATTTCATTTT
1976747 TTTCAGGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTATTTCATTTTAA
Found at i:1978055 original size:6 final size:6
Alignment explanation
Indices: 1978035--1978086 Score: 50
Period size: 6 Copynumber: 8.3 Consensus size: 6
1978025 ATATTTTCCT
* * * *
1978035 TTTTTA TTTCATTA TTTTTA TTTTTA TTTTTC TTATTA TTATTA TTATTA
1 TTTTTA TTT--TTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
1978085 TT
1 TT
1978087 ATATTTATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
6 35 0.85
8 6 0.15
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (6 bp):
TTTTTA
Found at i:1978075 original size:3 final size:3
Alignment explanation
Indices: 1978045--1978088 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
1978035 TTTTTATTTC
* * * *
1978045 ATT ATT TTT ATT TTT ATT TTT CTT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1978089 ATTTATTTCA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (3 bp):
ATT
Found at i:1978195 original size:30 final size:32
Alignment explanation
Indices: 1978160--1978227 Score: 81
Period size: 30 Copynumber: 2.2 Consensus size: 32
1978150 TCCTTCATAT
*
1978160 TTTATTTTTATTT-TTTTA-TATTATATTATA
1 TTTATTTTTATTTATTTCACTATTATATTATA
* *
1978190 TTTA--TTTATTTATTTCACTATTATTTTTTA
1 TTTATTTTTATTTATTTCACTATTATATTATA
1978220 TTTATTTT
1 TTTATTTT
1978228 CATGCATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
28 7 0.23
29 4 0.13
30 18 0.58
32 2 0.06
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (32 bp):
TTTATTTTTATTTATTTCACTATTATATTATA
Found at i:1978781 original size:73 final size:74
Alignment explanation
Indices: 1978635--1978862 Score: 250
Period size: 73 Copynumber: 3.1 Consensus size: 74
1978625 CCGGAAATAT
* * ** * *
1978635 AAAATAGG-CGCTATCTATTATATTAAAATATTTATCTGTTTTTTTAAGGTTACTAATAATGTAA
1 AAAATAGGTCGATACCTATTATATTAAAATACCTA-CCGATTTTTTAAGGTTACTAATAATGTAA
*
1978699 ACAGT-AAAA
65 ACGGTAAAAA
* * * * **
1978708 AAAATAGGT-GCTACCTATTACT-TTAAACTACCTATCGGTTTTTTAAGGTTGTTAATAATGTAA
1 AAAATAGGTCGATACCTATTA-TATTAAAATACCTACCGATTTTTTAAGGTTACTAATAATGTAA
1978771 ACGGTAAAAA
65 ACGGTAAAAA
*
1978781 AAAATA-GTCGATACCTATTATATTAAAATACCTACCGATTTGTTTAGAGATTACTAATAATGTA
1 AAAATAGGTCGATACCTATTATATTAAAATACCTACCGATTT-TTTA-AGGTTACTAATAATGTA
*
1978845 AACGGTAAAAT
64 AACGGTAAAAA
1978856 AAAATAG
1 AAAATAG
1978863 TGCCTTTTTT
Statistics
Matches: 129, Mismatches: 18, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
72 31 0.24
73 63 0.49
74 5 0.04
75 30 0.23
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.36
Consensus pattern (74 bp):
AAAATAGGTCGATACCTATTATATTAAAATACCTACCGATTTTTTAAGGTTACTAATAATGTAAA
CGGTAAAAA
Found at i:1978893 original size:122 final size:120
Alignment explanation
Indices: 1978746--1978975 Score: 325
Period size: 122 Copynumber: 1.9 Consensus size: 120
1978736 TACCTATCGG
** * * *
1978746 TTTTTTAAGGTTGTTAATAATGTAAACGGTAAAAAAAAATAGTCGATACCTATTATATTAAAATA
1 TTTTTTAAGGTTACTAATAATGTAAACGATAAAAAAAAATAGGCGATACCTATTACATTAAAATA
* *
1978811 CCTACCGATTTGTTTAGAGATTACTAATAATGTAAACGGTAAAATAAAATAGTGCC
66 CCTACCGATTTGTTTA-AGATTACTAATAATATAAACAGTAAAATAAAATAGTGCC
* *
1978867 TTTTTTAAAGGTTACTAATAATGTAAATGATAAAAAAAAATAGGCGCTACCTATTACATTAAAAT
1 TTTTTT-AAGGTTACTAATAATGTAAACGATAAAAAAAAATAGGCGATACCTATTACATTAAAAT
* * * *
1978932 ACCTATCGATTTTTTTAAGGTTGCTAATAATATAAACAGTAAAA
65 ACCTACCGATTTGTTTAAGATTACTAATAATATAAACAGTAAAA
1978976 AAATAGGCTC
Statistics
Matches: 95, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
121 29 0.31
122 66 0.69
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.34
Consensus pattern (120 bp):
TTTTTTAAGGTTACTAATAATGTAAACGATAAAAAAAAATAGGCGATACCTATTACATTAAAATA
CCTACCGATTTGTTTAAGATTACTAATAATATAAACAGTAAAATAAAATAGTGCC
Found at i:1979034 original size:194 final size:192
Alignment explanation
Indices: 1978673--1979052 Score: 523
Period size: 194 Copynumber: 2.0 Consensus size: 192
1978663 TATTTATCTG
* * * *
1978673 TTTTTTTAAGGTTACTAATAATGTAAACAGTAAAAAAAATAGGTGCTACCTATTACTTTAAACTA
1 TTTTTTAAAGGTTACTAATAATGTAAACAGTAAAAAAAATAGGCGCTACCTATTACATTAAAATA
* * * * *
1978738 CCTATCGGTTTTTTAAGGTTGTTAATAATGTAAACGGTAAAAAAAAATAGTCGATACCTATTATA
66 CCTATCGGTTTTTTAAGGTTGCTAATAATATAAACAGT-AAAAAAAATAGGCGATACCTATTACA
1978803 TTAAAATACCTACCGATTTGTTTAGAGATTACTAATAATGTAAACGGTAAAATAAAATAGTGCC
130 TTAAAATACCTACCGATTTGTTTAGAGATTACTAATAATGTAAACGGTAAAA-AAAATAGTGCC
*
1978867 TTTTTTAAAGGTTACTAATAATGTAAA-TGATAAAAAAAAATAGGCGCTACCTATTACATTAAAA
1 TTTTTTAAAGGTTACTAATAATGTAAACAG-T-AAAAAAAATAGGCGCTACCTATTACATTAAAA
* **
1978931 TACCTATCGATTTTTTTAAGGTTGCTAATAATATAAACAGT-AAAAAAATAGGCTCTACCTATTA
64 TACCTATCG-GTTTTTTAAGGTTGCTAATAATATAAACAGTAAAAAAAATAGGCGATACCTATTA
* * * * *
1978995 CATTAAAATATCTACCGGTTT-TTTTGAAGGTTGCTAATAATGTAAACGGTAAAAAAAA
128 CATTAAAATACCTACCGATTTGTTTAG-AGATTACTAATAATGTAAACGGTAAAAAAAA
1979053 GTAGGCGCTA
Statistics
Matches: 164, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
193 9 0.05
194 90 0.55
195 38 0.23
196 27 0.16
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (192 bp):
TTTTTTAAAGGTTACTAATAATGTAAACAGTAAAAAAAATAGGCGCTACCTATTACATTAAAATA
CCTATCGGTTTTTTAAGGTTGCTAATAATATAAACAGTAAAAAAAATAGGCGATACCTATTACAT
TAAAATACCTACCGATTTGTTTAGAGATTACTAATAATGTAAACGGTAAAAAAAATAGTGCC
Found at i:1979087 original size:75 final size:73
Alignment explanation
Indices: 1978867--1979087 Score: 309
Period size: 72 Copynumber: 3.0 Consensus size: 73
1978857 AAATAGTGCC
* * * *
1978867 TTTTTTAAAGGTTACTAATAATGTAAATGATAAAAAAAAATAGGCGCTACCTATTACATTAAAAT
1 TTTTTTTAAGGTTGCTAATAATGTAAACGGT-AAAAAAAATAGGCGCTACCTATTACATTAAAAT
* *
1978932 ACCTATCGA
65 ACCTACCGG
* * *
1978941 TTTTTTTAAGGTTGCTAATAATATAAACAGT-AAAAAAATAGGCTCTACCTATTACATTAAAATA
1 TTTTTTTAAGGTTGCTAATAATGTAAACGGTAAAAAAAATAGGCGCTACCTATTACATTAAAATA
*
1979005 TCTACCGG
66 CCTACCGG
*
1979013 TTTTTTTGAAGGTTGCTAATAATGTAAACGGTAAAAAAAAGTAGGCGCTACCTATTACATTAAAC
1 TTTTTTT-AAGGTTGCTAATAATGTAAACGGTAAAAAAAA-TAGGCGCTACCTATTACATTAAAA
1979078 TACCTACCGG
64 TACCTACCGG
1979088 ATATGTTGAA
Statistics
Matches: 129, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
72 44 0.34
73 22 0.17
74 32 0.25
75 31 0.24
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (73 bp):
TTTTTTTAAGGTTGCTAATAATGTAAACGGTAAAAAAAATAGGCGCTACCTATTACATTAAAATA
CCTACCGG
Found at i:1979248 original size:20 final size:20
Alignment explanation
Indices: 1979223--1979274 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
1979213 CAGGTAAAAA
*
1979223 TATGACAAAACCAGTTTTAT
1 TATGACAAAACCAGTTTCAT
*
1979243 TATGACAAAATCAGTTTCAT
1 TATGACAAAACCAGTTTCAT
1979263 TATGACAAAACC
1 TATGACAAAACC
1979275 GGTAAAGAGC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.31
Consensus pattern (20 bp):
TATGACAAAACCAGTTTCAT
Found at i:1980220 original size:26 final size:26
Alignment explanation
Indices: 1980172--1980222 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
1980162 TGGTCAGCAT
* * * *
1980172 AAAAATGATTTATAATTTTATTTTTA
1 AAAAATGAATTAAAATCTGATTTTTA
1980198 AAAAATGAATTAAAATCTGATTTTT
1 AAAAATGAATTAAAATCTGATTTTT
1980223 TGTAAGTTCG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (26 bp):
AAAAATGAATTAAAATCTGATTTTTA
Found at i:1984347 original size:18 final size:18
Alignment explanation
Indices: 1984324--1984437 Score: 158
Period size: 18 Copynumber: 6.4 Consensus size: 18
1984314 ACCTTCTCTG
*
1984324 AGGTGGATACTGATTTTC
1 AGGTGGACACTGATTTTC
1984342 AGGTGGACACTGATTTTC
1 AGGTGGACACTGATTTTC
* *
1984360 AGGTTGACACT-ACTTTC
1 AGGTGGACACTGATTTTC
1984377 AGGTGGACACTGATTTTC
1 AGGTGGACACTGATTTTC
* * *
1984395 AGGTTGATACTGACTTTC
1 AGGTGGACACTGATTTTC
*
1984413 AGGTGGACATTGATTTTC
1 AGGTGGACACTGATTTTC
1984431 AGGTGGA
1 AGGTGGA
1984438 GCAAGTGGAC
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
17 15 0.18
18 68 0.82
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (18 bp):
AGGTGGACACTGATTTTC
Found at i:1984384 original size:35 final size:36
Alignment explanation
Indices: 1984332--1984434 Score: 172
Period size: 35 Copynumber: 2.9 Consensus size: 36
1984322 TGAGGTGGAT
*
1984332 ACTGATTTTCAGGTGGACACTGATTTTCAGGTTGAC
1 ACTGACTTTCAGGTGGACACTGATTTTCAGGTTGAC
*
1984368 ACT-ACTTTCAGGTGGACACTGATTTTCAGGTTGAT
1 ACTGACTTTCAGGTGGACACTGATTTTCAGGTTGAC
*
1984403 ACTGACTTTCAGGTGGACATTGATTTTCAGGT
1 ACTGACTTTCAGGTGGACACTGATTTTCAGGT
1984435 GGAGCAAGTG
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
35 33 0.52
36 30 0.48
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.37
Consensus pattern (36 bp):
ACTGACTTTCAGGTGGACACTGATTTTCAGGTTGAC
Found at i:1984407 original size:53 final size:54
Alignment explanation
Indices: 1984324--1984437 Score: 158
Period size: 53 Copynumber: 2.1 Consensus size: 54
1984314 ACCTTCTCTG
* * *
1984324 AGGTGGATACTGATTTTCAGGTGGACACTGATTTTCAGGTTGACACT-ACTTTC
1 AGGTGGACACTGATTTTCAGGTGGACACTGACTTTCAGGTGGACACTGACTTTC
* * * *
1984377 AGGTGGACACTGATTTTCAGGTTGATACTGACTTTCAGGTGGACATTGATTTTC
1 AGGTGGACACTGATTTTCAGGTGGACACTGACTTTCAGGTGGACACTGACTTTC
1984431 AGGTGGA
1 AGGTGGA
1984438 GCAAGTGGAC
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
53 41 0.77
54 12 0.23
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (54 bp):
AGGTGGACACTGATTTTCAGGTGGACACTGACTTTCAGGTGGACACTGACTTTC
Found at i:1987619 original size:24 final size:25
Alignment explanation
Indices: 1987581--1987632 Score: 79
Period size: 24 Copynumber: 2.1 Consensus size: 25
1987571 TGCTTTCGTG
1987581 ACATGCTTTTCTCTGCTCTTATGAC
1 ACATGCTTTTCTCTGCTCTTATGAC
* *
1987606 ACATG-TTTTCTCTGTTCTTGTGAC
1 ACATGCTTTTCTCTGCTCTTATGAC
1987630 ACA
1 ACA
1987633 ATTATTATGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 20 0.80
25 5 0.20
ACGTcount: A:0.17, C:0.25, G:0.13, T:0.44
Consensus pattern (25 bp):
ACATGCTTTTCTCTGCTCTTATGAC
Found at i:1989755 original size:34 final size:34
Alignment explanation
Indices: 1989707--1989771 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
1989697 AAAAGGAGTT
*
1989707 TTATCTTTTGAATATTTCAA-ATTAAAAGATATTA
1 TTATCTTTTGAATA-TTAAATATTAAAAGATATTA
1989741 TTATCTGTTT-AATATTAAATATTAAAAGATA
1 TTATCT-TTTGAATATTAAATATTAAAAGATA
1989772 ATTAGTTGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 4 0.14
34 21 0.75
35 3 0.11
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.46
Consensus pattern (34 bp):
TTATCTTTTGAATATTAAATATTAAAAGATATTA
Found at i:1996244 original size:21 final size:21
Alignment explanation
Indices: 1996218--1996266 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
1996208 ATAATCTCTT
*
1996218 GCATGTCTGAGCCTGCAATGA
1 GCATGTCTGAGCCTGCAACGA
1996239 GCATGTCTGAGCCTGCAACGA
1 GCATGTCTGAGCCTGCAACGA
1996260 GCATGTC
1 GCATGTC
1996267 ATCAACGTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.22, C:0.27, G:0.29, T:0.22
Consensus pattern (21 bp):
GCATGTCTGAGCCTGCAACGA
Found at i:1999118 original size:22 final size:22
Alignment explanation
Indices: 1999093--1999138 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
1999083 GAAAATCTTC
* *
1999093 AATCTGTATCTTCCAAAAGCCA
1 AATCTGCACCTTCCAAAAGCCA
1999115 AATCTGCACCTTCCAAAAGCCA
1 AATCTGCACCTTCCAAAAGCCA
1999137 AA
1 AA
1999139 ATCTACACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.39, C:0.30, G:0.09, T:0.22
Consensus pattern (22 bp):
AATCTGCACCTTCCAAAAGCCA
Found at i:1999153 original size:22 final size:22
Alignment explanation
Indices: 1999102--1999146 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
1999092 CAATCTGTAT
*
1999102 CTTCCAAAAGCCAAATCTGCAC
1 CTTCCAAAAGCCAAATCTACAC
1999124 CTTCCAAAAGCCAAAATCTACAC
1 CTTCCAAAAGCC-AAATCTACAC
1999147 TATCAAACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.40, C:0.36, G:0.07, T:0.18
Consensus pattern (22 bp):
CTTCCAAAAGCCAAATCTACAC
Found at i:2000553 original size:4 final size:4
Alignment explanation
Indices: 2000546--2000576 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
2000536 ATTTGTTTGT
2000546 ATTC ATTC ATTC ATTC ATTC ATTC ATTC ATT
1 ATTC ATTC ATTC ATTC ATTC ATTC ATTC ATT
2000577 TATAAATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.23, G:0.00, T:0.52
Consensus pattern (4 bp):
ATTC
Done.