Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 42 of 214
Found at i:11602886 original size:11 final size:11
Alignment explanation
Indices: 11602870--11602902 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
11602860 TTTCAGGCTT
11602870 AAAAAATCTAA
1 AAAAAATCTAA
11602881 AAAAAATCTAA
1 AAAAAATCTAA
*
11602892 TAAAAAT-TAA
1 AAAAAATCTAA
11602902 A
1 A
11602903 TGAGAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 3 0.15
11 17 0.85
ACGTcount: A:0.73, C:0.06, G:0.00, T:0.21
Consensus pattern (11 bp):
AAAAAATCTAA
Found at i:11603051 original size:11 final size:11
Alignment explanation
Indices: 11603029--11603062 Score: 54
Period size: 10 Copynumber: 3.3 Consensus size: 11
11603019 ACTTCTAATT
11603029 AATATG-AAAA
1 AATATGAAAAA
11603039 AATATGAAAAA
1 AATATGAAAAA
11603050 AAT-TGAAAAA
1 AATATGAAAAA
11603060 AAT
1 AAT
11603063 TAAATTGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 16 0.70
11 7 0.30
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.21
Consensus pattern (11 bp):
AATATGAAAAA
Found at i:11603190 original size:19 final size:19
Alignment explanation
Indices: 11603163--11603201 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
11603153 GAAATGTTAA
11603163 ATGAATATGAAATGAAATG
1 ATGAATATGAAATGAAATG
* *
11603182 ATGATTATGAAATGGAATG
1 ATGAATATGAAATGAAATG
11603201 A
1 A
11603202 AAGTTTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.23, T:0.28
Consensus pattern (19 bp):
ATGAATATGAAATGAAATG
Found at i:11603272 original size:20 final size:18
Alignment explanation
Indices: 11603225--11603322 Score: 90
Period size: 18 Copynumber: 5.1 Consensus size: 18
11603215 AATAAATTAT
*
11603225 AAATTTAAATGAAAACAA
1 AAATTTAAATGAAAATAA
* *
11603243 AAAGTGAAATGAAAATAA
1 AAATTTAAATGAAAATAA
11603261 AAATTTTGAAATGAGAAATAA
1 AAA-TTT-AAATGA-AAATAA
11603282 TTAAATTTAAATGGAAAA-AA
1 --AAATTTAAAT-GAAAATAA
11603302 ATAATTTAAATGAAAAGTAA
1 A-AATTTAAATGAAAA-TAA
11603322 A
1 A
11603323 TGTAAATGAA
Statistics
Matches: 66, Mismatches: 5, Indels: 16
0.76 0.06 0.18
Matches are distributed among these distances:
18 24 0.36
19 10 0.15
20 11 0.17
21 13 0.20
22 5 0.08
23 3 0.05
ACGTcount: A:0.62, C:0.01, G:0.11, T:0.26
Consensus pattern (18 bp):
AAATTTAAATGAAAATAA
Found at i:11603336 original size:5 final size:5
Alignment explanation
Indices: 11603309--11603384 Score: 82
Period size: 5 Copynumber: 14.6 Consensus size: 5
11603299 AAAATAATTT
* *
11603309 AAATG AAAAG TAAATG TAAATG AAATG AAATGG AAATAC AAATG AAATG
1 AAATG AAATG -AAATG -AAATG AAATG AAAT-G AAAT-G AAATG AAATG
*
11603358 AAAAG AAA-G AAATG AAATG AAATG AAA
1 AAATG AAATG AAATG AAATG AAATG AAA
11603385 AAAAGAAATA
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
4 4 0.06
5 39 0.63
6 19 0.31
ACGTcount: A:0.63, C:0.01, G:0.18, T:0.17
Consensus pattern (5 bp):
AAATG
Found at i:11603336 original size:22 final size:20
Alignment explanation
Indices: 11603326--11603406 Score: 87
Period size: 19 Copynumber: 4.0 Consensus size: 20
11603316 AAGTAAATGT
*
11603326 AAATGAAATGAAATGGAAATAC
1 AAATGAAATGAAAT-GAAA-AG
*
11603348 AAATGAAATGAAAAG-AAAG
1 AAATGAAATGAAATGAAAAG
11603367 AAATGAAATGAAATGAAAA-
1 AAATGAAATGAAATGAAAAG
*
11603386 AAA-GAAATAAAGATGAAAAG
1 AAATGAAATGAA-ATGAAAAG
11603406 A
1 A
11603407 CATGTTAGGC
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
18 7 0.13
19 25 0.48
20 6 0.12
21 1 0.02
22 13 0.25
ACGTcount: A:0.67, C:0.01, G:0.19, T:0.14
Consensus pattern (20 bp):
AAATGAAATGAAATGAAAAG
Found at i:11603401 original size:19 final size:23
Alignment explanation
Indices: 11603348--11603406 Score: 72
Period size: 24 Copynumber: 2.7 Consensus size: 23
11603338 ATGGAAATAC
11603348 AAATGAAATGAAAAGAAAGAAATG
1 AAATG-AATGAAAAGAAAGAAATG
11603372 AAATGAAATGAAAA-AAAGAAAT-
1 AAATG-AATGAAAAGAAAGAAATG
11603394 AAA-G-ATGAAAAGA
1 AAATGAATGAAAAGA
11603407 CATGTTAGGC
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
19 7 0.21
20 1 0.03
21 1 0.03
22 3 0.09
23 8 0.24
24 14 0.41
ACGTcount: A:0.69, C:0.00, G:0.19, T:0.12
Consensus pattern (23 bp):
AAATGAATGAAAAGAAAGAAATG
Found at i:11603777 original size:19 final size:18
Alignment explanation
Indices: 11603755--11603796 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 18
11603745 TGTATATTAG
11603755 GAAAAAAATAAATTTAAAT
1 GAAAAAAATAAA-TTAAAT
*
11603774 GAAAAAAAATTAATTAAAT
1 G-AAAAAAATAAATTAAAT
11603793 GAAA
1 GAAA
11603797 TGTTAAATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 3 0.14
19 8 0.38
20 10 0.48
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (18 bp):
GAAAAAAATAAATTAAAT
Found at i:11603779 original size:20 final size:19
Alignment explanation
Indices: 11603756--11603796 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
11603746 GTATATTAGG
11603756 AAAAAAATAAATTTAAATGA
1 AAAAAAATAAA-TTAAATGA
*
11603776 AAAAAAATTAATTAAATGA
1 AAAAAAATAAATTAAATGA
11603795 AA
1 AA
11603797 TGTTAAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (19 bp):
AAAAAAATAAATTAAATGA
Found at i:11603809 original size:5 final size:5
Alignment explanation
Indices: 11603789--11603880 Score: 58
Period size: 5 Copynumber: 16.2 Consensus size: 5
11603779 AAAATTAATT
* * *
11603789 AAATG AAATG TTAAATG AAATATG AATATG GAATG AAATG TAATTTG TAATG
1 AAATG AAATG --AAATG -AA-ATG AA-ATG AAATG AAATG -AA-ATG AAATG
11603841 AATATG AAATG AAATG TTAAATG AATATG AAATG AAATG A
1 AA-ATG AAATG AAATG --AAATG AA-ATG AAATG AAATG A
11603881 TGATTATGAA
Statistics
Matches: 71, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
5 34 0.48
6 22 0.31
7 15 0.21
ACGTcount: A:0.51, C:0.00, G:0.18, T:0.30
Consensus pattern (5 bp):
AAATG
Found at i:11603827 original size:23 final size:23
Alignment explanation
Indices: 11603801--11603883 Score: 87
Period size: 23 Copynumber: 3.6 Consensus size: 23
11603791 ATGAAATGTT
*
11603801 AAATGAAATATGAATATGGA-ATG
1 AAATGAAATATGAA-ATGAATATG
* * *
11603824 AAATGTAATTTGTAATGAATATG
1 AAATGAAATATGAAATGAATATG
* *
11603847 AAATGAAATGTTAAATGAATATG
1 AAATGAAATATGAAATGAATATG
11603870 AAATGAAATGATGA
1 AAATGAAAT-ATGA
11603884 TTATGAAACG
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
22 4 0.08
23 42 0.88
24 2 0.04
ACGTcount: A:0.51, C:0.00, G:0.19, T:0.30
Consensus pattern (23 bp):
AAATGAAATATGAAATGAATATG
Found at i:11603880 original size:28 final size:29
Alignment explanation
Indices: 11603789--11603880 Score: 118
Period size: 28 Copynumber: 3.2 Consensus size: 29
11603779 AAAATTAATT
11603789 AAATGAAATGTTAAATGAAATATGAATATG
1 AAATGAAATGTTAAATG-AATATGAATATG
* * *
11603819 GAATGAAATG-TAATTTGTA-ATGAATATG
1 AAATGAAATGTTAA-ATGAATATGAATATG
11603847 AAATGAAATGTTAAATGAATATGAA-ATG
1 AAATGAAATGTTAAATGAATATGAATATG
11603875 AAATGA
1 AAATGA
11603881 TGATTATGAA
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
28 30 0.57
29 12 0.23
30 11 0.21
ACGTcount: A:0.51, C:0.00, G:0.18, T:0.30
Consensus pattern (29 bp):
AAATGAAATGTTAAATGAATATGAATATG
Found at i:11603898 original size:19 final size:19
Alignment explanation
Indices: 11603838--11603899 Score: 52
Period size: 23 Copynumber: 3.1 Consensus size: 19
11603828 GTAATTTGTA
*
11603838 ATGAATATGAAATGAAATG
1 ATGAATATGAAACGAAATG
*
11603857 TTAAATGAATATGAAATGAAATG
1 ----ATGAATATGAAACGAAATG
* *
11603880 ATGATTATGAAACGGAATG
1 ATGAATATGAAACGAAATG
11603899 A
1 A
11603900 AAGTTTAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
19 17 0.47
23 19 0.53
ACGTcount: A:0.50, C:0.02, G:0.21, T:0.27
Consensus pattern (19 bp):
ATGAATATGAAACGAAATG
Found at i:11604016 original size:24 final size:24
Alignment explanation
Indices: 11603972--11604017 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
11603962 TTGAAATGAG
* *
11603972 AAATAATTAAATTTAACTGGAAAA
1 AAATAATTAAATTGAAATGGAAAA
11603996 AAATAATTTAAA-TGAAATGGAA
1 AAATAA-TTAAATTGAAATGGAA
11604018 GTGTAAATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.59, C:0.02, G:0.11, T:0.28
Consensus pattern (24 bp):
AAATAATTAAATTGAAATGGAAAA
Found at i:11604030 original size:5 final size:5
Alignment explanation
Indices: 11604005--11604062 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
11603995 AAAATAATTT
* *
11604005 AAATG AAATGG AAGTG TAAATG AAATG AAATGG AAATGG AAATC AAATG
1 AAATG AAAT-G AAATG -AAATG AAATG AAAT-G AAAT-G AAATG AAATG
11604054 AAATG AAAT
1 AAATG AAAT
11604063 AATCTTTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
5 27 0.59
6 19 0.41
ACGTcount: A:0.55, C:0.02, G:0.22, T:0.21
Consensus pattern (5 bp):
AAATG
Found at i:11604032 original size:22 final size:22
Alignment explanation
Indices: 11604005--11604062 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 22
11603995 AAAATAATTT
* * *
11604005 AAATGAAATGGAAGTGTAAATG
1 AAATGAAATGGAAATGGAAATC
11604027 AAATGAAATGGAAATGGAAATC
1 AAATGAAATGGAAATGGAAATC
11604049 AAATGAAAT-GAAAT
1 AAATGAAATGGAAAT
11604063 AATCTTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
21 5 0.15
22 28 0.85
ACGTcount: A:0.55, C:0.02, G:0.22, T:0.21
Consensus pattern (22 bp):
AAATGAAATGGAAATGGAAATC
Found at i:11604046 original size:17 final size:16
Alignment explanation
Indices: 11604005--11604062 Score: 64
Period size: 17 Copynumber: 3.6 Consensus size: 16
11603995 AAAATAATTT
* *
11604005 AAATGAAATGGAAGTGT
1 AAATGAAAT-GAAATGG
11604022 AAATGAAATGAAATGG
1 AAATGAAATGAAATGG
*
11604038 AAATGGAAATCAAAT-G
1 AAAT-GAAATGAAATGG
11604054 AAATGAAAT
1 AAATGAAAT
11604063 AATCTTTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
15 5 0.14
16 14 0.38
17 18 0.49
ACGTcount: A:0.55, C:0.02, G:0.22, T:0.21
Consensus pattern (16 bp):
AAATGAAATGAAATGG
Found at i:11606970 original size:18 final size:19
Alignment explanation
Indices: 11606944--11606983 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
11606934 AGGTGTGTTT
* *
11606944 CTTAGCCCTTATATGTA-C
1 CTTAACCCTTACATGTATC
11606962 CTTAACCCTTACATGTATC
1 CTTAACCCTTACATGTATC
11606981 CTT
1 CTT
11606984 TTCTGAATCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.23, C:0.30, G:0.07, T:0.40
Consensus pattern (19 bp):
CTTAACCCTTACATGTATC
Found at i:11610040 original size:29 final size:28
Alignment explanation
Indices: 11609974--11610041 Score: 66
Period size: 29 Copynumber: 2.4 Consensus size: 28
11609964 TAGCATATCC
* *
11609974 AAATTAATGTAACTTTCATATTATTTTG
1 AAATTAATTTAAATTTCATATTATTTTG
**
11610002 ATAAAAAATTTATAATTT-ATATTATTTTGG
1 A-AATTAATTTA-AATTTCATATTATTTT-G
11610032 AAATTAATTT
1 AAATTAATTT
11610042 TATTTTTATA
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
28 1 0.03
29 24 0.77
30 6 0.19
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (28 bp):
AAATTAATTTAAATTTCATATTATTTTG
Found at i:11610306 original size:27 final size:28
Alignment explanation
Indices: 11610256--11610323 Score: 84
Period size: 27 Copynumber: 2.4 Consensus size: 28
11610246 TGATAAATAA
*
11610256 TTTATAATATTTTAAAAATTAAATTTATT
1 TTTATAATATTTTAAAAA-TAAATCTATT
* *
11610285 TTTATATTATTTTAATAA-AAATCTATT
1 TTTATAATATTTTAAAAATAAATCTATT
*
11610312 TTTATTATATTT
1 TTTATAATATTT
11610324 AAATTTAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
27 18 0.53
29 16 0.47
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (28 bp):
TTTATAATATTTTAAAAATAAATCTATT
Found at i:11610313 original size:26 final size:28
Alignment explanation
Indices: 11610256--11610316 Score: 79
Period size: 29 Copynumber: 2.2 Consensus size: 28
11610246 TGATAAATAA
* *
11610256 TTTATAATATTTTAAAAATTAAATTTATT
1 TTTATATTATTTTAAAAA-TAAATCTATT
*
11610285 TTTATATTATTTTAATAA-AAATCTATT
1 TTTATATTATTTTAAAAATAAATCTATT
11610312 TTTAT
1 TTTAT
11610317 TATATTTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 13 0.45
29 16 0.55
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (28 bp):
TTTATATTATTTTAAAAATAAATCTATT
Found at i:11612564 original size:85 final size:85
Alignment explanation
Indices: 11612421--11612591 Score: 315
Period size: 85 Copynumber: 2.0 Consensus size: 85
11612411 GAAATTTGCA
* *
11612421 ATATGGTCCATTAATTTTTAATCCATGGAAGATTAGATTAATAGAGCAATCATCGTTTCATTTAG
1 ATATGATCCATTAATTTTTAATCCATGGAAGATTAGATTAATAGAGCAATCATCGTTTCATATAG
11612486 CTGTTTTATACATGACCATT
66 CTGTTTTATACATGACCATT
*
11612506 ATATGATCCATTAATTTTTAATCCATGGAAGATTAGATTATTAGAGCAATCATCGTTTCATATAG
1 ATATGATCCATTAATTTTTAATCCATGGAAGATTAGATTAATAGAGCAATCATCGTTTCATATAG
11612571 CTGTTTTATACATGACCATT
66 CTGTTTTATACATGACCATT
11612591 A
1 A
11612592 ATCAGATTCT
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 83 1.00
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (85 bp):
ATATGATCCATTAATTTTTAATCCATGGAAGATTAGATTAATAGAGCAATCATCGTTTCATATAG
CTGTTTTATACATGACCATT
Found at i:11619026 original size:53 final size:53
Alignment explanation
Indices: 11618926--11619053 Score: 195
Period size: 53 Copynumber: 2.4 Consensus size: 53
11618916 GTTGGCCCAT
* *
11618926 ACGGGCACAGTGAGTTACATGGACTGGCAACATGATCGTGTGACCTAAGTTAC
1 ACGGGCACAGTGAGTTACATGGACTGACAACACGATCGTGTGACCTAAGTTAC
* *
11618979 ATGGGCACAGTGAGTTACATGGACTGACGACACGATC-TGTGACCCTAAGTTAC
1 ACGGGCACAGTGAGTTACATGGACTGACAACACGATCGTGTGA-CCTAAGTTAC
*
11619032 ACGGTCACAGTGAGTTACATGG
1 ACGGGCACAGTGAGTTACATGG
11619054 TCTGGCCATA
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
52 5 0.07
53 63 0.93
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (53 bp):
ACGGGCACAGTGAGTTACATGGACTGACAACACGATCGTGTGACCTAAGTTAC
Found at i:11619633 original size:17 final size:17
Alignment explanation
Indices: 11619611--11619647 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
11619601 CTAATATACA
*
11619611 ATGTCAGTTTAGACACG
1 ATGTCAGTTTAGACAAG
11619628 ATGTCAGTTTAGACAAG
1 ATGTCAGTTTAGACAAG
11619645 ATG
1 ATG
11619648 ACTTTGTAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (17 bp):
ATGTCAGTTTAGACAAG
Found at i:11620753 original size:27 final size:27
Alignment explanation
Indices: 11620719--11620795 Score: 100
Period size: 27 Copynumber: 2.9 Consensus size: 27
11620709 TGGGAACTAA
11620719 TGCCGCCTACAAGATTGGCACCACTGG
1 TGCCGCCTACAAGATTGGCACCACTGG
* * *
11620746 TGCTGCCTACAAGATTGGTACCATTGG
1 TGCCGCCTACAAGATTGGCACCACTGG
* * *
11620773 TGCCGCCTATAACATTAGCACCA
1 TGCCGCCTACAAGATTGGCACCA
11620796 GTTTTGGTGC
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (27 bp):
TGCCGCCTACAAGATTGGCACCACTGG
Found at i:11626750 original size:7 final size:7
Alignment explanation
Indices: 11626740--11626775 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
11626730 AAAACAGATC
11626740 AAAAAAG
1 AAAAAAG
11626747 AAAAAAG
1 AAAAAAG
11626754 AAAAAAG
1 AAAAAAG
11626761 AAAAAA-
1 AAAAAAG
*
11626767 AAAAGAG
1 AAAAAAG
11626774 AA
1 AA
11626776 CTTTGGGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
6 5 0.19
7 22 0.81
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:11628091 original size:11 final size:11
Alignment explanation
Indices: 11628075--11628119 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
11628065 AACTATTCAC
11628075 CTAAACCCAAT
1 CTAAACCCAAT
11628086 CTAAACCCAAGT
1 CTAAACCCAA-T
* *
11628098 ATTCAACCCAAT
1 -CTAAACCCAAT
11628110 CTAAACCCAA
1 CTAAACCCAA
11628120 GTATTCAACC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
11 18 0.64
12 2 0.07
13 8 0.29
ACGTcount: A:0.44, C:0.36, G:0.02, T:0.18
Consensus pattern (11 bp):
CTAAACCCAAT
Found at i:11628107 original size:13 final size:13
Alignment explanation
Indices: 11628089--11628132 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
11628079 ACCCAATCTA
11628089 AACCCAAGTATTC
1 AACCCAAGTATTC
* *
11628102 AACCCAA-T-CTA
1 AACCCAAGTATTC
11628113 AACCCAAGTATTC
1 AACCCAAGTATTC
11628126 AACCCAA
1 AACCCAA
11628133 CCCAATCATA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 8 0.32
12 2 0.08
13 15 0.60
ACGTcount: A:0.43, C:0.34, G:0.05, T:0.18
Consensus pattern (13 bp):
AACCCAAGTATTC
Found at i:11628110 original size:24 final size:24
Alignment explanation
Indices: 11628078--11628132 Score: 110
Period size: 24 Copynumber: 2.3 Consensus size: 24
11628068 TATTCACCTA
11628078 AACCCAATCTAAACCCAAGTATTC
1 AACCCAATCTAAACCCAAGTATTC
11628102 AACCCAATCTAAACCCAAGTATTC
1 AACCCAATCTAAACCCAAGTATTC
11628126 AACCCAA
1 AACCCAA
11628133 CCCAATCATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.44, C:0.35, G:0.04, T:0.18
Consensus pattern (24 bp):
AACCCAATCTAAACCCAAGTATTC
Found at i:11628283 original size:27 final size:27
Alignment explanation
Indices: 11628253--11628319 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
11628243 TCAATTTGGT
*
11628253 TAATTTGGTAAATTCAGGTAATTCGGG
1 TAATTCGGTAAATTCAGGTAATTCGGG
* *
11628280 TAATTCGGTTAATTCAGGTAATTC-GT
1 TAATTCGGTAAATTCAGGTAATTCGGG
*
11628306 TAATTCGGTTAATT
1 TAATTCGGTAAATT
11628320 TTTAACCAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
26 15 0.41
27 22 0.59
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (27 bp):
TAATTCGGTAAATTCAGGTAATTCGGG
Found at i:11628284 original size:18 final size:17
Alignment explanation
Indices: 11628263--11628319 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 17
11628253 TAATTTGGTA
11628263 AATTCAGGTAATTCGGGT
1 AATTC-GGTAATTCGGGT
*
11628281 AATTCGGTTAATTCAGGT
1 AATTCGG-TAATTCGGGT
* *
11628299 AATTCGTTAATTCGGTT
1 AATTCGGTAATTCGGGT
11628316 AATT
1 AATT
11628320 TTTAACCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
17 14 0.41
18 20 0.59
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (17 bp):
AATTCGGTAATTCGGGT
Found at i:11628309 original size:17 final size:18
Alignment explanation
Indices: 11628245--11628311 Score: 68
Period size: 18 Copynumber: 3.8 Consensus size: 18
11628235 GTAGTGATTC
* *
11628245 AATTTGGTTAATT-TGGT
1 AATTCGGTTAATTCAGGT
*
11628262 AAATTCAGG-TAATTCGGGT
1 -AATTC-GGTTAATTCAGGT
11628281 AATTCGGTTAATTCAGGT
1 AATTCGGTTAATTCAGGT
11628299 AATTC-GTTAATTC
1 AATTCGGTTAATTC
11628312 GGTTAATTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
17 10 0.23
18 28 0.65
19 5 0.12
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (18 bp):
AATTCGGTTAATTCAGGT
Found at i:11629318 original size:22 final size:23
Alignment explanation
Indices: 11629275--11629323 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
11629265 AGCTCGGGTT
* *
11629275 ATTAAAATTATATTTTTATTAAA
1 ATTAAAACTATATTGTTATTAAA
11629298 ATTAAAACTA-ATTGTTATTAAA
1 ATTAAAACTATATTGTTATTAAA
11629320 ATTA
1 ATTA
11629324 TATCAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
ATTAAAACTATATTGTTATTAAA
Found at i:11629332 original size:22 final size:21
Alignment explanation
Indices: 11629272--11629329 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 21
11629262 CCGAGCTCGG
11629272 GTTATTAAAATTATAT---TT
1 GTTATTAAAATTATATCAATT
* *
11629290 -TTATTAAAATTAAAACTAATT
1 GTTATTAAAATTATATC-AATT
11629311 GTTATTAAAATTATATCAA
1 GTTATTAAAATTATATCAA
11629330 ATTATATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
17 13 0.42
21 4 0.13
22 14 0.45
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (21 bp):
GTTATTAAAATTATATCAATT
Found at i:11629401 original size:19 final size:19
Alignment explanation
Indices: 11629377--11629441 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 19
11629367 ATCTAACATT
11629377 TTGTTAGTAAAATTATTAA
1 TTGTTAGTAAAATTATTAA
* *
11629396 TTGTTAGTAAACTTATCAAA
1 TTGTTAGTAAAATTAT-TAA
* *
11629416 TT-ATA-TCAAATTATTAA
1 TTGTTAGTAAAATTATTAA
11629433 TTGTTAGTA
1 TTGTTAGTA
11629442 CCAGTCAAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
17 4 0.11
18 9 0.26
19 18 0.51
20 4 0.11
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.46
Consensus pattern (19 bp):
TTGTTAGTAAAATTATTAA
Found at i:11629456 original size:96 final size:95
Alignment explanation
Indices: 11629318--11629497 Score: 306
Period size: 96 Copynumber: 1.9 Consensus size: 95
11629308 ATTGTTATTA
* * *
11629318 AAATTATATCAAATTATATTTTTTTGTACCAATCAAAACATTTTGTAAAATCTAACATTTTGTTA
1 AAATTATATCAAATTATAATTGTTAGTACCAATCAAAACATTTTGTAAAATCTAACATTTTGTTA
11629383 GTAAAATTATTAATTGTTAGTAAACTTATC
66 GTAAAATTATTAATTGTTAGTAAACTTATC
*
11629413 AAATTATATCAAATTATTAATTGTTAGTACCAGTCAAAACATTTTGTAAAATCTAACATTTTGTT
1 AAATTATATCAAATTA-TAATTGTTAGTACCAATCAAAACATTTTGTAAAATCTAACATTTTGTT
*
11629478 AGTCAAATTATTAATTGTTA
65 AGTAAAATTATTAATTGTTA
11629498 ATTGTATTAA
Statistics
Matches: 79, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
95 16 0.20
96 63 0.80
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.43
Consensus pattern (95 bp):
AAATTATATCAAATTATAATTGTTAGTACCAATCAAAACATTTTGTAAAATCTAACATTTTGTTA
GTAAAATTATTAATTGTTAGTAAACTTATC
Found at i:11629549 original size:6 final size:6
Alignment explanation
Indices: 11629538--11629563 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
11629528 TTATATCAGA
11629538 TTAGGG TTAGGG TTAGGG TTAGGG TT
1 TTAGGG TTAGGG TTAGGG TTAGGG TT
11629564 TTTGTTAGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.46, T:0.38
Consensus pattern (6 bp):
TTAGGG
Found at i:11629607 original size:15 final size:15
Alignment explanation
Indices: 11629587--11629705 Score: 83
Period size: 15 Copynumber: 8.2 Consensus size: 15
11629577 AGGTTTTGGT
11629587 GTTTTTAAGTTAAGG
1 GTTTTTAAGTTAAGG
11629602 GTTTTTAAGTTAAGG
1 GTTTTTAAGTTAAGG
* *
11629617 G---TTAGGGCT-AGG
1 GTTTTTA-AGTTAAGG
* ** *
11629629 GTTTTTAGGGTTTTGAT
1 GTTTTTA-AGTTAAG-G
11629646 GTTTTTAAGTTAAGG
1 GTTTTTAAGTTAAGG
11629661 GTTTTTAAGTTAAGG
1 GTTTTTAAGTTAAGG
*
11629676 G---TTAGGGTT-AGG
1 GTTTTTA-AGTTAAGG
11629688 GTTTTTAAGTTAAGG
1 GTTTTTAAGTTAAGG
11629703 GTT
1 GTT
11629706 AGGGTTATGG
Statistics
Matches: 82, Mismatches: 11, Indels: 22
0.71 0.10 0.19
Matches are distributed among these distances:
12 14 0.17
13 5 0.06
14 3 0.04
15 48 0.59
16 5 0.06
17 7 0.09
ACGTcount: A:0.22, C:0.01, G:0.32, T:0.45
Consensus pattern (15 bp):
GTTTTTAAGTTAAGG
Found at i:11629629 original size:27 final size:27
Alignment explanation
Indices: 11629599--11629740 Score: 144
Period size: 27 Copynumber: 5.1 Consensus size: 27
11629589 TTTTAAGTTA
*
11629599 AGGGTTTTTAAGTTAAGGGTTAGGGCT
1 AGGGTTTTTAAGTTAAGGGTTAGGGTT
* * ** *
11629626 AGGGTTTTTAGGGTTTTGATGTTTTTA-AGTT
1 AGGGTTTTTA-AG--TT-AAG-GGTTAGGGTT
11629657 AAGGGTTTTTAAGTTAAGGGTTAGGGTT
1 -AGGGTTTTTAAGTTAAGGGTTAGGGTT
11629685 AGGGTTTTTAAGTTAAGGGTTAGGGTT
1 AGGGTTTTTAAGTTAAGGGTTAGGGTT
* *
11629712 ATGGTTTTTAAGTTAATGGTT-GGGTT
1 AGGGTTTTTAAGTTAAGGGTTAGGGTT
11629738 AGG
1 AGG
11629741 CTAGGGTTTT
Statistics
Matches: 94, Mismatches: 14, Indels: 15
0.76 0.11 0.12
Matches are distributed among these distances:
26 7 0.07
27 59 0.63
28 6 0.06
29 2 0.02
30 2 0.02
31 5 0.05
32 13 0.14
ACGTcount: A:0.21, C:0.01, G:0.35, T:0.44
Consensus pattern (27 bp):
AGGGTTTTTAAGTTAAGGGTTAGGGTT
Found at i:11629641 original size:59 final size:58
Alignment explanation
Indices: 11629574--11629861 Score: 234
Period size: 59 Copynumber: 4.8 Consensus size: 58
11629564 TTTGTTAGCA
11629574 TTAAGGTTTTGGTGTTTTTAAGTTAAGGGTTTTTAAGTTAAGGGTTAGGGCTAGGGTTT
1 TTAA-GTTTTGGTGTTTTTAAGTTAAGGGTTTTTAAGTTAAGGGTTAGGGCTAGGGTTT
* * *
11629633 TTAGGGTTTTGATGTTTTTAAGTTAAGGGTTTTTAAGTTAAGGGTTAGGGTTAGGGTTT
1 TTA-AGTTTTGGTGTTTTTAAGTTAAGGGTTTTTAAGTTAAGGGTTAGGGCTAGGGTTT
** * *
11629692 TTAAGTTAAGG-G---TTAGGGTT-ATGGTTTTTAAGTTAATGGTTGGGTTA-GGCTAGGGTTTT
1 TTAAGTTTTGGTGTTTTTA-AGTTAAGGGTTTTTAAGTTAA-----GGGTTAGGGCTAGGG--TT
11629751 T
58 T
* * * *
11629752 GTTAAAGTTTTGGTGTTTTTAAGTTAAGGG-TTTTAAGTAAAGAGTTAGTGTTAGGGTTT
1 -TT-AAGTTTTGGTGTTTTTAAGTTAAGGGTTTTTAAGTTAAGGGTTAGGGCTAGGGTTT
** * *
11629811 TTAAGTTAAGG-GTTAGGGTTATGGTT-AGGGTTTTTAAGTTAAGGGTTAGGG
1 TTAAGTTTTGGTGTT---TTTA-AGTTAAGGGTTTTTAAGTTAAGGGTTAGGG
11629862 TTAAGGCTAG
Statistics
Matches: 182, Mismatches: 25, Indels: 43
0.73 0.10 0.17
Matches are distributed among these distances:
54 18 0.10
55 3 0.02
56 3 0.02
57 8 0.04
58 13 0.07
59 74 0.41
60 28 0.15
61 8 0.04
62 7 0.04
63 1 0.01
65 13 0.07
66 6 0.03
ACGTcount: A:0.22, C:0.01, G:0.33, T:0.45
Consensus pattern (58 bp):
TTAAGTTTTGGTGTTTTTAAGTTAAGGGTTTTTAAGTTAAGGGTTAGGGCTAGGGTTT
Found at i:11629812 original size:27 final size:27
Alignment explanation
Indices: 11629778--11629836 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
11629768 TTTTAAGTTA
*
11629778 AGGG-TTTTAAGTAAAGAGTTAGTGTT
1 AGGGTTTTTAAGTAAAGAGTTAGGGTT
* *
11629804 AGGGTTTTTAAGTTAAGGGTTAGGGTT
1 AGGGTTTTTAAGTAAAGAGTTAGGGTT
*
11629831 ATGGTT
1 AGGGTT
11629837 AGGGTTTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 4 0.14
27 24 0.86
ACGTcount: A:0.25, C:0.00, G:0.34, T:0.41
Consensus pattern (27 bp):
AGGGTTTTTAAGTAAAGAGTTAGGGTT
Found at i:11629814 original size:119 final size:124
Alignment explanation
Indices: 11629614--11629900 Score: 392
Period size: 119 Copynumber: 2.3 Consensus size: 124
11629604 TTTTAAGTTA
* ** * * *
11629614 AGGGTTAGGGCTAGGG--TTT-TTAGGGTTTTGATGTTTTTAAGTTAAGGGTTTTTAAGTTAAGG
1 AGGGTTAAGGCTAGGGTTTTTGTTAAAGTTTTGGTGTTTTTAAGTTAAGGGTTTTTAAGTAAAGA
*
11629676 GTTAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTA-T-GGTTTTTAAGTTAATGGTT
66 GTTAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTAGTAGGTTTTTAAGTTAAGGGTT
11629733 -GGGTT-AGGCTAGGGTTTTTGTTAAAGTTTTGGTGTTTTTAAGTTAAGGG-TTTTAAGTAAAGA
1 AGGGTTAAGGCTAGGGTTTTTGTTAAAGTTTTGGTGTTTTTAAGTTAAGGGTTTTTAAGTAAAGA
*
11629795 GTTAGTGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTATGGTTAGGGTTTTTAAGTTAAGGGTT
66 GTTAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTA--G-TA-GGTTTTTAAGTTAAGGGTT
**
11629858 AGGGTTAAGGCTAGGGTTTTTGTTAGGGTTTTGGTGTTTTTAA
1 AGGGTTAAGGCTAGGGTTTTTGTTAAAGTTTTGGTGTTTTTAA
11629901 TAAATTAGTT
Statistics
Matches: 147, Mismatches: 10, Indels: 14
0.86 0.06 0.08
Matches are distributed among these distances:
117 8 0.05
118 5 0.03
119 50 0.34
120 26 0.18
123 1 0.01
125 18 0.12
126 5 0.03
127 34 0.23
ACGTcount: A:0.21, C:0.01, G:0.33, T:0.45
Consensus pattern (124 bp):
AGGGTTAAGGCTAGGGTTTTTGTTAAAGTTTTGGTGTTTTTAAGTTAAGGGTTTTTAAGTAAAGA
GTTAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTAGTAGGTTTTTAAGTTAAGGGTT
Found at i:11629838 original size:33 final size:33
Alignment explanation
Indices: 11629801--11629878 Score: 138
Period size: 33 Copynumber: 2.4 Consensus size: 33
11629791 AAGAGTTAGT
*
11629801 GTTAGGGTTTTTAAGTTAAGGGTTAGGGTTATG
1 GTTAGGGTTTTTAAGTTAAGGGTTAGGGTTAAG
11629834 GTTAGGGTTTTTAAGTTAAGGGTTAGGGTTAAG
1 GTTAGGGTTTTTAAGTTAAGGGTTAGGGTTAAG
*
11629867 GCTAGGGTTTTT
1 GTTAGGGTTTTT
11629879 GTTAGGGTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.21, C:0.01, G:0.36, T:0.42
Consensus pattern (33 bp):
GTTAGGGTTTTTAAGTTAAGGGTTAGGGTTAAG
Found at i:11629874 original size:92 final size:88
Alignment explanation
Indices: 11629673--11629877 Score: 214
Period size: 92 Copynumber: 2.2 Consensus size: 88
11629663 TTTTAAGTTA
* * * * *
11629673 AGGGTTAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTATGGTTTTTAAGTTAATGGTTGGGTT
1 AGGGTTAAGGTTAGGG-TTTTAAGTAAAGAGTTAGGGTTAGGGTTTTTAAGTTAAGGGTTGGGTT
*
11629738 AGGCTAGGGTTTTTGTTAAAGTTT
65 AGGCTAGGGTTTTTGTTAAAGGTT
* *
11629762 TGGTGTTTTTAA-GTTAAGGGTTTTAAGTAAAGAGTTAGTGTTAGGGTTTTTAAGTTAAGGGTTA
1 AGG-G---TTAAGGTT-AGGGTTTTAAGTAAAGAGTTAGGGTTAGGGTTTTTAAGTTAAGGGTT-
* *
11629826 GGGTTATGGTTAGGGTTTTTAAGTTAAGGGTT
60 GGGTTA-GGCTAGGGTTTTT--GTTAAAGGTT
*
11629858 AGGGTTAAGGCTAGGGTTTT
1 AGGGTTAAGGTTAGGGTTTT
11629878 TGTTAGGGTT
Statistics
Matches: 94, Mismatches: 12, Indels: 17
0.76 0.10 0.14
Matches are distributed among these distances:
89 2 0.02
90 1 0.01
92 53 0.56
93 15 0.16
94 12 0.13
95 1 0.01
96 10 0.11
ACGTcount: A:0.22, C:0.01, G:0.34, T:0.43
Consensus pattern (88 bp):
AGGGTTAAGGTTAGGGTTTTAAGTAAAGAGTTAGGGTTAGGGTTTTTAAGTTAAGGGTTGGGTTA
GGCTAGGGTTTTTGTTAAAGGTT
Found at i:11630416 original size:18 final size:18
Alignment explanation
Indices: 11630390--11630433 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
11630380 GACTGGAAAA
* * *
11630390 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
11630408 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
11630426 AGGATACA
1 AGGATACA
11630434 CACTTGGCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.45, C:0.09, G:0.27, T:0.18
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:11632308 original size:51 final size:51
Alignment explanation
Indices: 11632238--11632337 Score: 132
Period size: 51 Copynumber: 2.0 Consensus size: 51
11632228 AAATAATTAA
11632238 AAATAGGGATTTAAGAGAAATTTA-AGAGGAAAATGAGAGCAAATTGAGATT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAAAATGAGAGCAAATTGAGATT
* * * *
11632289 AAATATGGATTTGAA-AGAAATTTGGAAGGAAATTGAGAGCAATTTGAGA
1 AAATAGGGATTT-AAGAGAAATTTAGAAGGAAAATGAGAGCAAATTGAGA
11632338 GGAAATTGAG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
51 40 0.93
52 3 0.07
ACGTcount: A:0.47, C:0.02, G:0.26, T:0.25
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAAAATGAGAGCAAATTGAGATT
Found at i:11632332 original size:22 final size:22
Alignment explanation
Indices: 11632307--11632348 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
11632297 ATTTGAAAGA
11632307 AATTTG-GAAGGAAATTGAGAGC
1 AATTTGAG-AGGAAATTGAGAGC
11632329 AATTTGAGAGGAAATTGAGA
1 AATTTGAGAGGAAATTGAGA
11632349 AGAAATTGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.43, C:0.02, G:0.31, T:0.24
Consensus pattern (22 bp):
AATTTGAGAGGAAATTGAGAGC
Found at i:11632334 original size:33 final size:33
Alignment explanation
Indices: 11632297--11632359 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
11632287 TTAAATATGG
11632297 ATTTGA-AAGAAATTTG-GAAGGAAATTGAGAGCA
1 ATTTGAGAAGAAA-TTGAGAA-GAAATTGAGAGCA
*
11632330 ATTTGAGAGGAAATTGAGAAGAAATTGAGA
1 ATTTGAGAAGAAATTGAGAAGAAATTGAGA
11632360 ATGGATTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 19 0.70
34 8 0.30
ACGTcount: A:0.46, C:0.02, G:0.29, T:0.24
Consensus pattern (33 bp):
ATTTGAGAAGAAATTGAGAAGAAATTGAGAGCA
Found at i:11632356 original size:11 final size:11
Alignment explanation
Indices: 11632299--11632360 Score: 58
Period size: 11 Copynumber: 5.6 Consensus size: 11
11632289 AAATATGGAT
11632299 TTGA-AAGAAA
1 TTGAGAAGAAA
11632309 TTTG-GAAGGAAA
1 -TTGAGAA-GAAA
*
11632321 TTGAG-AGCAAT
1 TTGAGAAG-AAA
*
11632332 TTGAGAGGAAA
1 TTGAGAAGAAA
11632343 TTGAGAAGAAA
1 TTGAGAAGAAA
11632354 TTGAGAA
1 TTGAGAA
11632361 TGGATTAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
10 1 0.02
11 35 0.83
12 6 0.14
ACGTcount: A:0.47, C:0.02, G:0.29, T:0.23
Consensus pattern (11 bp):
TTGAGAAGAAA
Found at i:11632357 original size:22 final size:22
Alignment explanation
Indices: 11632299--11632359 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
11632289 AAATATGGAT
11632299 TTGA-AAGAAATTTG-GAAGGAAA
1 TTGAGAAGAAA-TTGAG-AGGAAA
*
11632321 TTGAG-AGCAATTTGAGAGGAAA
1 TTGAGAAG-AAATTGAGAGGAAA
11632343 TTGAGAAGAAATTGAGA
1 TTGAGAAGAAATTGAGA
11632360 ATGGATTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
22 28 0.85
23 5 0.15
ACGTcount: A:0.46, C:0.02, G:0.30, T:0.23
Consensus pattern (22 bp):
TTGAGAAGAAATTGAGAGGAAA
Found at i:11633708 original size:16 final size:16
Alignment explanation
Indices: 11633687--11633718 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
11633677 TTTCTTAGTT
11633687 TTTTTAACATTTTCAA
1 TTTTTAACATTTTCAA
11633703 TTTTTAACATTTTCAA
1 TTTTTAACATTTTCAA
11633719 ATTGACATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTTTAACATTTTCAA
Found at i:11634494 original size:9 final size:9
Alignment explanation
Indices: 11634476--11634521 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
11634466 CGAAGAAACA
*
11634476 TCATCATCC
1 TCATCGTCC
11634485 TCATCGTCC
1 TCATCGTCC
*
11634494 TCATCGTCG
1 TCATCGTCC
* *
11634503 TCATTGTCG
1 TCATCGTCC
11634512 TCATCGTCC
1 TCATCGTCC
11634521 T
1 T
11634522 TTTTGCAACC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.13, C:0.37, G:0.13, T:0.37
Consensus pattern (9 bp):
TCATCGTCC
Found at i:11638370 original size:18 final size:18
Alignment explanation
Indices: 11638347--11638383 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
11638337 TTAAGTAAAC
11638347 AAAAATGTTACAAAGAAT
1 AAAAATGTTACAAAGAAT
*
11638365 AAAAATGTTGCAAAGAAT
1 AAAAATGTTACAAAGAAT
11638383 A
1 A
11638384 CTATATTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.59, C:0.05, G:0.14, T:0.22
Consensus pattern (18 bp):
AAAAATGTTACAAAGAAT
Found at i:11641430 original size:41 final size:41
Alignment explanation
Indices: 11641372--11641453 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 41
11641362 AATCTAATTG
*
11641372 GGAAAATAATTTTCTTATCCTAATAAACTACTAAAAGATAA
1 GGAAAATAATTTCCTTATCCTAATAAACTACTAAAAGATAA
* *
11641413 GGAAAAT-ATTTCCCTTATTCTAATAAACTGCTAAAAGATAA
1 GGAAAATAATTT-CCTTATCCTAATAAACTACTAAAAGATAA
11641454 AATAAAATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 4 0.11
41 33 0.89
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.32
Consensus pattern (41 bp):
GGAAAATAATTTCCTTATCCTAATAAACTACTAAAAGATAA
Found at i:11645345 original size:19 final size:19
Alignment explanation
Indices: 11645321--11645361 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
11645311 TGATTTATTC
11645321 TAAGATTTATCTACCTAAA
1 TAAGATTTATCTACCTAAA
11645340 TAAGATTTATCTACCTAAA
1 TAAGATTTATCTACCTAAA
11645359 TAA
1 TAA
11645362 CTTTAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.37
Consensus pattern (19 bp):
TAAGATTTATCTACCTAAA
Found at i:11652858 original size:34 final size:34
Alignment explanation
Indices: 11652819--11652903 Score: 86
Period size: 34 Copynumber: 2.5 Consensus size: 34
11652809 AGCTTTGGTC
* *
11652819 TTTCTCCTTTCTTTCTTTCCCTTT-TTTTTTTCTT
1 TTTCTCCTTTCTTTCTTT-CCTTTGTTTCTTTCTA
* *
11652853 TTTCTCC-TTGTTTCGTTTGCTTTGTTTCTTTCTA
1 TTTCTCCTTTCTTTC-TTTCCTTTGTTTCTTTCTA
*
11652887 TTTCT-ATTTCTTTCTTT
1 TTTCTCCTTTCTTTCTTT
11652904 ATTTTATTCA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
33 13 0.31
34 29 0.69
ACGTcount: A:0.02, C:0.22, G:0.05, T:0.71
Consensus pattern (34 bp):
TTTCTCCTTTCTTTCTTTCCTTTGTTTCTTTCTA
Found at i:11663602 original size:18 final size:19
Alignment explanation
Indices: 11663579--11663615 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
11663569 CGAACTTCAT
11663579 TTAATTCG-AAAAACATAA
1 TTAATTCGAAAAAACATAA
*
11663597 TTAATTTGAAAAAACATAA
1 TTAATTCGAAAAAACATAA
11663616 AATCATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.57, C:0.08, G:0.05, T:0.30
Consensus pattern (19 bp):
TTAATTCGAAAAAACATAA
Found at i:11663645 original size:7 final size:6
Alignment explanation
Indices: 11663630--11663680 Score: 84
Period size: 6 Copynumber: 8.2 Consensus size: 6
11663620 ATTTTTCAGG
11663630 TCATTT TCATTTT TCATTTT TCATTT TCATTT TCATTT TCATTT TCATTT
1 TCATTT TCA-TTT TCA-TTT TCATTT TCATTT TCATTT TCATTT TCATTT
11663680 T
1 T
11663681 GGAGAAAACA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
6 31 0.70
7 13 0.30
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.69
Consensus pattern (6 bp):
TCATTT
Found at i:11663784 original size:57 final size:57
Alignment explanation
Indices: 11663654--11663782 Score: 169
Period size: 57 Copynumber: 2.3 Consensus size: 57
11663644 CATTTTTCAT
*
11663654 TTTCATTT-T-CATTTTCATTTTCATTTTGGAGAAAACAACATTCATTTCCAAATGG
1 TTTCATTTCTCCATTTTCATTTTCATCTTGGAGAAAACAACATTCATTTCCAAATGG
*
11663709 TTTCATTTCTCCATTTTCATTTTCATCTTGGA-AAAAGTCATA-ATT-ATTTCCAAATGT
1 TTTCATTTCTCCATTTTCATTTTCATCTTGGAGAAAA--CA-ACATTCATTTCCAAATGG
11663766 TTTCTATTTCTCCATTT
1 TTTC-ATTTCTCCATTT
11663783 CACCATTTCT
Statistics
Matches: 66, Mismatches: 2, Indels: 9
0.86 0.03 0.12
Matches are distributed among these distances:
55 8 0.12
56 5 0.08
57 35 0.53
58 17 0.26
59 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.07, T:0.49
Consensus pattern (57 bp):
TTTCATTTCTCCATTTTCATTTTCATCTTGGAGAAAACAACATTCATTTCCAAATGG
Found at i:11677354 original size:50 final size:50
Alignment explanation
Indices: 11677238--11677476 Score: 289
Period size: 50 Copynumber: 4.6 Consensus size: 50
11677228 GATAATAACA
* ** *
11677238 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * **
11677289 TGCCTATGTCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * * *
11677339 TGCCAACGCCGTGTCCCAGATATGGTCTTACATGAGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
11677389 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTC---TCATCTC--GG
11677444 ATGCCAATGCCATGTCCCAGACATGGTCTTACA
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACA
11677477 AAAAAATCTT
Statistics
Matches: 159, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
50 88 0.55
51 32 0.20
53 5 0.03
55 2 0.01
56 32 0.20
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:11678147 original size:49 final size:49
Alignment explanation
Indices: 11678092--11678256 Score: 158
Period size: 49 Copynumber: 3.4 Consensus size: 49
11678082 CCTAGTTCAT
*
11678092 GGTGGTTATACGGTCACAGGTTCAAATATAACTAAGGCT-TTCAATTTAC
1 GGTGGTTATACGGTCACAGGTTCAAATATAACTAAGGCTCTT-AATTGAC
* *
11678141 GGTGGTTATATGGT-ACCAGGTTCAAATATAACTAAGGCTCTTAGTTGAC
1 GGTGGTTATACGGTCA-CAGGTTCAAATATAACTAAGGCTCTTAATTGAC
* * * * * * *
11678190 GGTGGTTATGCGATCACGGGTTTAAGTATAACT-CGAGCTC-AAAGTTGAC
1 GGTGGTTATACGGTCACAGGTTCAAATATAACTAAG-GCTCTTAA-TTGAC
* *
11678239 AGTGGTTATACGATCACA
1 GGTGGTTATACGGTCACA
11678257 AGTTTAAGTT
Statistics
Matches: 96, Mismatches: 15, Indels: 10
0.79 0.12 0.08
Matches are distributed among these distances:
48 3 0.03
49 90 0.94
50 3 0.03
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (49 bp):
GGTGGTTATACGGTCACAGGTTCAAATATAACTAAGGCTCTTAATTGAC
Found at i:11678859 original size:25 final size:25
Alignment explanation
Indices: 11678825--11678874 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
11678815 CAAATGGTAT
11678825 CGATACCCCTTGAAGGTACCAATAC
1 CGATACCCCTTGAAGGTACCAATAC
11678850 CGATACCCCTTGAAGGTACCAATAC
1 CGATACCCCTTGAAGGTACCAATAC
11678875 TAAATTTAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.20
Consensus pattern (25 bp):
CGATACCCCTTGAAGGTACCAATAC
Found at i:11682258 original size:28 final size:28
Alignment explanation
Indices: 11682214--11682324 Score: 134
Period size: 28 Copynumber: 4.0 Consensus size: 28
11682204 CACGAAATTG
*
11682214 ATTTGCTCACACAAGCTATAATATTCT-A
1 ATTTGCTCACACAAGCTATGATATT-TGA
* * *
11682242 ATTTGCTCACACGAGCTGTGACATTTGA
1 ATTTGCTCACACAAGCTATGATATTTGA
* *
11682270 ATTTGCTTAGACAAGCTATGATATTTGA
1 ATTTGCTCACACAAGCTATGATATTTGA
* *
11682298 ATTTGCTCACAAAAGCTGTGATATTTG
1 ATTTGCTCACACAAGCTATGATATTTG
11682325 GGTTGCTTAC
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
27 1 0.01
28 68 0.99
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (28 bp):
ATTTGCTCACACAAGCTATGATATTTGA
Found at i:11682301 original size:56 final size:56
Alignment explanation
Indices: 11682214--11682324 Score: 152
Period size: 56 Copynumber: 2.0 Consensus size: 56
11682204 CACGAAATTG
**
11682214 ATTTGCTCACACAAGCTATAATATTCTAATTTGCTCACACGAGCTGTGACATTTGA
1 ATTTGCTCACACAAGCTATAATATTCTAATTTGCTCACAAAAGCTGTGACATTTGA
* * * *
11682270 ATTTGCTTAGACAAGCTATGATATT-TGAATTTGCTCACAAAAGCTGTGATATTTG
1 ATTTGCTCACACAAGCTATAATATTCT-AATTTGCTCACAAAAGCTGTGACATTTG
11682325 GGTTGCTTAC
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
55 1 0.02
56 47 0.98
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (56 bp):
ATTTGCTCACACAAGCTATAATATTCTAATTTGCTCACAAAAGCTGTGACATTTGA
Found at i:11682920 original size:34 final size:34
Alignment explanation
Indices: 11682882--11682952 Score: 117
Period size: 34 Copynumber: 2.1 Consensus size: 34
11682872 AGTTGATTCA
*
11682882 AATCCCGATTTAT-GATAATTCATTTCAATTCATC
1 AATCCCAATTTATAG-TAATTCATTTCAATTCATC
11682916 AATCCCAATTTATAGTAATTCATTTCAATTCATC
1 AATCCCAATTTATAGTAATTCATTTCAATTCATC
11682950 AAT
1 AAT
11682953 TCTAAACATC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
34 34 0.97
35 1 0.03
ACGTcount: A:0.35, C:0.20, G:0.04, T:0.41
Consensus pattern (34 bp):
AATCCCAATTTATAGTAATTCATTTCAATTCATC
Found at i:11683529 original size:32 final size:32
Alignment explanation
Indices: 11683490--11683554 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
11683480 AATAAAGATG
11683490 ATAATGTCATCATTTTTTTAACTTTTATACTA
1 ATAATGTCATCATTTTTTTAACTTTTATACTA
11683522 ATAATGTCATCATTTTTTTAACTTTTATACTA
1 ATAATGTCATCATTTTTTTAACTTTTATACTA
11683554 A
1 A
11683555 CATTAAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.32, C:0.12, G:0.03, T:0.52
Consensus pattern (32 bp):
ATAATGTCATCATTTTTTTAACTTTTATACTA
Found at i:11684947 original size:19 final size:18
Alignment explanation
Indices: 11684886--11684982 Score: 92
Period size: 18 Copynumber: 5.3 Consensus size: 18
11684876 TATTTAAGCC
11684886 TAAAATTT-TTAAAATACTA
1 TAAAATTTATTAAAA-A-TA
*
11684905 TAATAAATTTATTGAAAATA
1 T-A-AAATTTATTAAAAATA
11684925 TAAAATTTATTAAAAAGTA
1 TAAAATTTATTAAAAA-TA
* *
11684944 TAAAATATAATAAAAATA
1 TAAAATTTATTAAAAATA
*
11684962 GAAAA-TTA-TAAAAATA
1 TAAAATTTATTAAAAATA
11684978 TAAAA
1 TAAAA
11684983 AGGTATTAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
16 12 0.18
17 2 0.03
18 19 0.28
19 18 0.27
20 4 0.06
21 7 0.10
22 5 0.07
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (18 bp):
TAAAATTTATTAAAAATA
Found at i:11684966 original size:8 final size:8
Alignment explanation
Indices: 11684919--11684983 Score: 58
Period size: 8 Copynumber: 7.5 Consensus size: 8
11684909 AAATTTATTG
11684919 AAAATATA
1 AAAATATA
*
11684927 AAATTTATTA
1 AAA-ATA-TA
11684937 AAAAGTATA
1 AAAA-TATA
11684946 AAATATAATA
1 AAA-AT-ATA
*
11684956 AAAATAGA
1 AAAATATA
*
11684964 AAATTATA
1 AAAATATA
11684972 AAAATATA
1 AAAATATA
11684980 AAAA
1 AAAA
11684984 GGTATTAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
8 22 0.48
9 10 0.22
10 14 0.30
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (8 bp):
AAAATATA
Found at i:11685026 original size:20 final size:22
Alignment explanation
Indices: 11684996--11685035 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
11684986 TATTAAATAT
11684996 TATTAATATATTAT-AAAAAGG
1 TATTAATATATTATGAAAAAGG
11685017 TATTAA-ATATTATGAAAAA
1 TATTAATATATTATGAAAAA
11685036 TATAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (22 bp):
TATTAATATATTATGAAAAAGG
Found at i:11685100 original size:21 final size:20
Alignment explanation
Indices: 11685066--11685105 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
11685056 ATTATAAAAC
* *
11685066 TTTTAAAAGTTATAGAAATT
1 TTTTAAAAATTATAAAAATT
11685086 TTTTAAAAATATATAAAAAT
1 TTTTAAAAAT-TATAAAAAT
11685106 AATAAAATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (20 bp):
TTTTAAAAATTATAAAAATT
Found at i:11685148 original size:28 final size:29
Alignment explanation
Indices: 11685090--11685148 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 29
11685080 GAAATTTTTT
**
11685090 AAAAATATATAAAAATAATAAAATGTTAA
1 AAAAATATATAAAAATAATAAAATGAAAA
*
11685119 AAAAAT-TATTAAAATAATAAATAT-AAAA
1 AAAAATATATAAAAATAATAAA-ATGAAAA
11685147 AA
1 AA
11685149 TCATAGAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 18 0.69
29 8 0.31
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (29 bp):
AAAAATATATAAAAATAATAAAATGAAAA
Found at i:11685450 original size:36 final size:35
Alignment explanation
Indices: 11685410--11685485 Score: 109
Period size: 36 Copynumber: 2.1 Consensus size: 35
11685400 TTATAATATT
11685410 TTTATAGTTTTTCT-TTATTTCTAAAATTTTCTAAAA
1 TTTATAG-TTTTCTATTATTTCTAAAATTTTCT-AAA
* *
11685446 TTTATAGTTTTCTATTATTTTTACAATTTTCTAAA
1 TTTATAGTTTTCTATTATTTCTAAAATTTTCTAAA
11685481 TTTAT
1 TTTAT
11685486 TATAATATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
35 14 0.38
36 23 0.62
ACGTcount: A:0.29, C:0.08, G:0.03, T:0.61
Consensus pattern (35 bp):
TTTATAGTTTTCTATTATTTCTAAAATTTTCTAAA
Found at i:11689264 original size:27 final size:27
Alignment explanation
Indices: 11689211--11689264 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
11689201 ATATTGAGAA
* * **
11689211 TTATCTGAAATATAAAATTTATTGCAT
1 TTATATGAAATAAAAAATTTAAAGCAT
11689238 TTATATGAAATAAAAAATTTAAAGCAT
1 TTATATGAAATAAAAAATTTAAAGCAT
11689265 AAGCATGCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.48, C:0.06, G:0.07, T:0.39
Consensus pattern (27 bp):
TTATATGAAATAAAAAATTTAAAGCAT
Found at i:11690869 original size:19 final size:20
Alignment explanation
Indices: 11690840--11690891 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
11690830 TTCTCAATTC
*
11690840 GAATATATTCTAACCACTTA
1 GAATATATTCTAAACACTTA
11690860 GAAT-TATTCTAAACACTTA
1 GAATATATTCTAAACACTTA
* *
11690879 -ATTATAATCTAAA
1 GAATATATTCTAAA
11690892 AAACTGATGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 2 0.07
19 22 0.79
20 4 0.14
ACGTcount: A:0.44, C:0.15, G:0.04, T:0.37
Consensus pattern (20 bp):
GAATATATTCTAAACACTTA
Found at i:11691423 original size:18 final size:18
Alignment explanation
Indices: 11691400--11691434 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11691390 AGAGCTTTAA
11691400 AAAAAAAGAAAAGAAAAG
1 AAAAAAAGAAAAGAAAAG
* *
11691418 AAAAAAATAAAATAAAA
1 AAAAAAAGAAAAGAAAA
11691435 TGAATGCCAA
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:0.86, C:0.00, G:0.09, T:0.06
Consensus pattern (18 bp):
AAAAAAAGAAAAGAAAAG
Found at i:11694023 original size:12 final size:12
Alignment explanation
Indices: 11693998--11694036 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
11693988 ACTCGCTTTT
* *
11693998 TTACTTACTCAC
1 TTACTTGCTTAC
*
11694010 TTACTTGTTTAC
1 TTACTTGCTTAC
11694022 TTACTTGCTTAC
1 TTACTTGCTTAC
11694034 TTA
1 TTA
11694037 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:11694363 original size:50 final size:50
Alignment explanation
Indices: 11694298--11694430 Score: 151
Period size: 50 Copynumber: 2.7 Consensus size: 50
11694288 CAATGTCATA
* ** * * *
11694298 TCCCAGATATGGTCTTACATGAGAGTTCTCATATCGGTGTCTA-TGCCATG
1 TCCCAGACATGGTCTTACATGAGACCTCTCATATCAGTG-CCAGCGCCATG
* ** *
11694348 TCCCAGACATAGTCTTACGGGAGACCTCTCATCTCAGTGCCAGCGCCATG
1 TCCCAGACATGGTCTTACATGAGACCTCTCATATCAGTGCCAGCGCCATG
*
11694398 TCCCAGACATGGTCTTACATGGGACCTCTCATA
1 TCCCAGACATGGTCTTACATGAGACCTCTCATA
11694431 ATCTCAATAT
Statistics
Matches: 67, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
49 2 0.03
50 65 0.97
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGAGACCTCTCATATCAGTGCCAGCGCCATG
Found at i:11696753 original size:43 final size:43
Alignment explanation
Indices: 11696692--11696778 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
11696682 TGTTACACGA
*
11696692 TTTGGCGACATGGCTATGTGACCTTATTTCGAATTGCACACAG
1 TTTGGCAACATGGCTATGTGACCTTATTTCGAATTGCACACAG
11696735 TTTGGCAACATGGCTATGTGACCTTATTTCGAATTGCACACAG
1 TTTGGCAACATGGCTATGTGACCTTATTTCGAATTGCACACAG
11696778 T
1 T
11696779 CTATGACACG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (43 bp):
TTTGGCAACATGGCTATGTGACCTTATTTCGAATTGCACACAG
Found at i:11699249 original size:2 final size:2
Alignment explanation
Indices: 11699242--11699267 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11699232 CTTCATATTA
11699242 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
11699268 TTGTTAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:11700287 original size:30 final size:32
Alignment explanation
Indices: 11700238--11700314 Score: 95
Period size: 32 Copynumber: 2.4 Consensus size: 32
11700228 CTCGCATATA
*
11700238 CACAACTCGCACATTACACAAC-TCA-TTCTGT
1 CACAGCTCGCACA-TACACAACTTCATTTCTGT
* * *
11700269 CACAGCTTGCACATACACAACTTGATTTTTGT
1 CACAGCTCGCACATACACAACTTCATTTCTGT
11700301 CACAGCTCGCACAT
1 CACAGCTCGCACAT
11700315 TGGCTACCTT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
30 8 0.21
31 13 0.33
32 18 0.46
ACGTcount: A:0.30, C:0.32, G:0.10, T:0.27
Consensus pattern (32 bp):
CACAGCTCGCACATACACAACTTCATTTCTGT
Found at i:11700644 original size:52 final size:52
Alignment explanation
Indices: 11700492--11700743 Score: 236
Period size: 52 Copynumber: 4.8 Consensus size: 52
11700482 TCACACAAAC
* * **
11700492 CAATACAATGATAGTTCGCATGCACATTACATTGCAAGACAATTCATGCATT
1 CAATGCAATGATAGTTTGCATAAACATTACATTGCAAGACAATTCATGCATT
* * * * * * * *
11700544 TAATGCAATGATAGTTCGCATAAAAATTATATTACAAAAAAATGCATGCATT
1 CAATGCAATGATAGTTTGCATAAACATTACATTGCAAGACAATTCATGCATT
* * * * *
11700596 CAACGTAATGATAGTTTGCATAAACATTACATTGTAAGATAGTTCATGCATT
1 CAATGCAATGATAGTTTGCATAAACATTACATTGCAAGACAATTCATGCATT
* * * * * * *
11700648 CGATGCACTAATAATTTGCATAAACATTACCTTACAAGACAGTTCATGCCA-T
1 CAATGCAATGATAGTTTGCATAAACATTACATTGCAAGACAATTCATG-CATT
* * * *
11700700 CGATGCAATGACAGTTTACATAAACATTATATTGCAAGACAATT
1 CAATGCAATGATAGTTTGCATAAACATTACATTGCAAGACAATT
11700744 TATATACCAT
Statistics
Matches: 158, Mismatches: 41, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
52 156 0.99
53 2 0.01
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (52 bp):
CAATGCAATGATAGTTTGCATAAACATTACATTGCAAGACAATTCATGCATT
Found at i:11702190 original size:26 final size:26
Alignment explanation
Indices: 11702155--11702211 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
11702145 TCAATGGGGA
*
11702155 AAAATTGTCAAAATTTTACTA-GAGGT
1 AAAATCGTCAAAATTTTACTATG-GGT
11702181 AAAATCGTCAAAATTTTACTATGGGT
1 AAAATCGTCAAAATTTTACTATGGGT
11702207 AAAAT
1 AAAAT
11702212 AGGGATAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 28 0.97
27 1 0.03
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (26 bp):
AAAATCGTCAAAATTTTACTATGGGT
Found at i:11706389 original size:21 final size:19
Alignment explanation
Indices: 11706356--11706396 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
11706346 TTTTATTAAA
*
11706356 GATTAATTAAGCTAGTTAT
1 GATTAATTAAGCTAATTAT
11706375 GATTAATTATAAGCTAATTAT
1 GATTAA-T-TAAGCTAATTAT
11706396 G
1 G
11706397 GTATATAAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.32
20 1 0.05
21 12 0.63
ACGTcount: A:0.39, C:0.05, G:0.15, T:0.41
Consensus pattern (19 bp):
GATTAATTAAGCTAATTAT
Found at i:11724930 original size:16 final size:16
Alignment explanation
Indices: 11724911--11724942 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
11724901 TTATTTTACA
*
11724911 ATAAAATTATTTAATT
1 ATAAAATTAATTAATT
11724927 ATAAAATTAATTAATT
1 ATAAAATTAATTAATT
11724943 TAATAACTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATAAAATTAATTAATT
Found at i:11725484 original size:25 final size:25
Alignment explanation
Indices: 11725455--11725505 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
11725445 AGCCGAGAAG
11725455 ACCATTCGGTTGAAGGCTGAGAATA
1 ACCATTCGGTTGAAGGCTGAGAATA
11725480 ACCATTCGGTTGAAGGCTGAGAATA
1 ACCATTCGGTTGAAGGCTGAGAATA
11725505 A
1 A
11725506 GGATCCATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (25 bp):
ACCATTCGGTTGAAGGCTGAGAATA
Found at i:11748786 original size:29 final size:29
Alignment explanation
Indices: 11748744--11749063 Score: 245
Period size: 29 Copynumber: 11.1 Consensus size: 29
11748734 CTAGTTTCCA
* *
11748744 TATAAGTG-AGCCTTTGTGGCGATATCTAT
1 TATAAG-GAAGCCTTTGTGGCGATCTCTGT
* *
11748773 TATAAGGAAGCCTTTATGGCGATCTTTGT
1 TATAAGGAAGCCTTTGTGGCGATCTCTGT
* *
11748802 TATAAGGAAGCCTTAGCGGCGATCTCTGT
1 TATAAGGAAGCCTTTGTGGCGATCTCTGT
* * * *
11748831 TATAAGAAATCCTTTATGGCGATCTTTGT
1 TATAAGGAAGCCTTTGTGGCGATCTCTGT
* * *
11748860 TATAAGGAAGCCTTAGCGGCAATCTCTGT
1 TATAAGGAAGCCTTTGTGGCGATCTCTGT
* * * *
11748889 TATAAGAAATCCTTTATGGCGATCTCTAT
1 TATAAGGAAGCCTTTGTGGCGATCTCTGT
* * * *
11748918 TAAAAGGATGCCTTTGTGGCTATCTCAGT
1 TATAAGGAAGCCTTTGTGGCGATCTCTGT
* *
11748947 TA-AATGAATGCCTTTGTGGCTATCTCTGT
1 TATAAGGAA-GCCTTTGTGGCGATCTCTGT
* * *
11748976 TA-AGAGGATGCCTTTATGGCTATCTCTGT
1 TATA-AGGAAGCCTTTGTGGCGATCTCTGT
* ** * * * *
11749005 TAAAAATATGTCTTTGTGGCCATCTTTGT
1 TATAAGGAAGCCTTTGTGGCGATCTCTGT
* * *
11749034 T-CAAGGAATGCC-TTGTGGCAAACTCTGT
1 TATAAGGAA-GCCTTTGTGGCGATCTCTGT
11749062 TA
1 TA
11749064 AAAAGGACAC
Statistics
Matches: 229, Mismatches: 56, Indels: 12
0.77 0.19 0.04
Matches are distributed among these distances:
28 22 0.10
29 203 0.89
30 4 0.02
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (29 bp):
TATAAGGAAGCCTTTGTGGCGATCTCTGT
Found at i:11750758 original size:16 final size:17
Alignment explanation
Indices: 11750737--11750780 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
11750727 TAATTATTCA
11750737 AATTTTTTATTTAT-TT
1 AATTTTTTATTTATCTT
*
11750753 AATTTTTT-TCTATCTT
1 AATTTTTTATTTATCTT
*
11750769 AATTATTTATTT
1 AATTTTTTATTT
11750781 TAATTGATTC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 4 0.17
16 17 0.74
17 2 0.09
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (17 bp):
AATTTTTTATTTATCTT
Found at i:11754730 original size:14 final size:14
Alignment explanation
Indices: 11754711--11754739 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
11754701 AAATGAAATT
11754711 GAAGTTCAAATGAA
1 GAAGTTCAAATGAA
11754725 GAAGTTCAAATGAA
1 GAAGTTCAAATGAA
11754739 G
1 G
11754740 GGATATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.07, G:0.24, T:0.21
Consensus pattern (14 bp):
GAAGTTCAAATGAA
Found at i:11758526 original size:6 final size:7
Alignment explanation
Indices: 11758501--11758541 Score: 55
Period size: 7 Copynumber: 5.4 Consensus size: 7
11758491 ATTTGTTTTA
11758501 TTTTATT
1 TTTTATT
11758508 TTTTCACATT
1 TTTT---ATT
11758518 TTTTATT
1 TTTTATT
11758525 TTTTATT
1 TTTTATT
11758532 TTTTATT
1 TTTTATT
11758539 TTT
1 TTT
11758542 CAACCTATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
7 24 0.77
10 7 0.23
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTTATT
Found at i:11762169 original size:164 final size:165
Alignment explanation
Indices: 11761966--11762295 Score: 436
Period size: 164 Copynumber: 2.0 Consensus size: 165
11761956 ACCTAAACTA
* * *
11761966 CTTTTTTCTTTTAAGTGACTAAGGTTCATATTCTAAATAAAACTAAATAGCTTAAAAGTTCAAAC
1 CTTTTTTCTTTTAAGTGACTAAGGTACATATTCTAAATAAAACTAAATAGCCTAAAAGTCCAAAC
* * * * *
11762031 ATTATAAAACTATAAGTACGGATTAT-GCTAGATTGT-T-AATAACAGAAAGTTGTTCTTAATTC
66 ATTATAAAACTATAAATACGGA-TATCACTAGATT-TCTCAATAACAGAAAGCTGTTCTCAACTC
* * *
11762093 AAATAG-ACCTGTCAA-TAAATTCTGAACCCCCCCCCCT
129 AAAT-GCACCTGTCAACT-AATACTGAACACCCCACCCT
* * *
11762130 CTTTTTTCTTTTAAGTGACTAAGGTACATATTTTAAATAAAACTCAATAGCCTAAATGTCCAAAC
1 CTTTTTTCTTTTAAGTGACTAAGGTACATATTCTAAATAAAACTAAATAGCCTAAAAGTCCAAAC
* * *
11762195 ATTATAAAACTATAAATATGGATATCACTAGGTTTCTCAATAACAGGAAGCTGTTCTCAACTCAA
66 ATTATAAAACTATAAATACGGATATCACTAGATTTCTCAATAACAGAAAGCTGTTCTCAACTCAA
11762260 ATGCACCTGTCAACTAATACTGAACACCCCACCCT
131 ATGCACCTGTCAACTAATACTGAACACCCCACCCT
11762295 C
1 C
11762296 CCAAAAAAGC
Statistics
Matches: 144, Mismatches: 17, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
163 4 0.03
164 87 0.60
165 52 0.36
166 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (165 bp):
CTTTTTTCTTTTAAGTGACTAAGGTACATATTCTAAATAAAACTAAATAGCCTAAAAGTCCAAAC
ATTATAAAACTATAAATACGGATATCACTAGATTTCTCAATAACAGAAAGCTGTTCTCAACTCAA
ATGCACCTGTCAACTAATACTGAACACCCCACCCT
Found at i:11766627 original size:3 final size:3
Alignment explanation
Indices: 11766615--11766650 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
11766605 TTGTGCAGTC
11766615 TCT T-T TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
11766651 TTTTCTTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TCT
Found at i:11769088 original size:17 final size:18
Alignment explanation
Indices: 11769047--11769090 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
11769037 TTTAAAATTG
11769047 AATATTTTGTAATTATATT
1 AATATTTT-TAATTATATT
*
11769066 -ACATTTTTAATT-TATT
1 AATATTTTTAATTATATT
11769082 AATATTTTT
1 AATATTTTT
11769091 TGAAAAAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 4 0.18
17 12 0.55
18 6 0.27
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (18 bp):
AATATTTTTAATTATATT
Found at i:11769089 original size:16 final size:17
Alignment explanation
Indices: 11769050--11769082 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
11769040 AAAATTGAAT
11769050 ATTTTGTAATTATATTAC
1 ATTTT-TAATTATATTAC
11769068 ATTTTTAATT-TATTA
1 ATTTTTAATTATATTA
11769083 ATATTTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 5 0.33
18 5 0.33
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (17 bp):
ATTTTTAATTATATTAC
Found at i:11793931 original size:25 final size:24
Alignment explanation
Indices: 11793896--11793989 Score: 100
Period size: 25 Copynumber: 3.8 Consensus size: 24
11793886 CTGATTACAG
11793896 CTCGTGAGAGCTTACCGATTCTCAA
1 CTCGT-AGAGCTTACCGATTCTCAA
* *
11793921 CTCGTATGAGCTTATCGATT-ACAA
1 CTCGTA-GAGCTTACCGATTCTCAA
* *
11793945 CTTGTGAGAGCTTACCGATTCTCAG
1 CTCGT-AGAGCTTACCGATTCTCAA
*
11793970 CTCGCAAGAGCTTACCGATT
1 CTCG-TAGAGCTTACCGATT
11793990 TATAGCTAGC
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
24 20 0.35
25 37 0.65
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (24 bp):
CTCGTAGAGCTTACCGATTCTCAA
Found at i:11793960 original size:49 final size:49
Alignment explanation
Indices: 11793883--11794030 Score: 172
Period size: 49 Copynumber: 3.0 Consensus size: 49
11793873 CCATTAGGGA
* * *
11793883 TTACTGATTACAGCTCGTGAGAGCTTACCGATTCTCAACTCGTATGAGC
1 TTACCGATTACAGCTAGTGAGAGCTTACCGATTCTCAGCTCGTATGAGC
* * * * *
11793932 TTATCGATTACAACTTGTGAGAGCTTACCGATTCTCAGCTCGCAAGAGC
1 TTACCGATTACAGCTAGTGAGAGCTTACCGATTCTCAGCTCGTATGAGC
* * *
11793981 TTACCGATTTATAGCTAGCGAGAGCATACCGATTCAT-AGCTCGTATGAGC
1 TTACCGA-TTACAGCTAGTGAGAGCTTACCGATTC-TCAGCTCGTATGAGC
11794031 ATACATGTAC
Statistics
Matches: 82, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
49 48 0.59
50 33 0.40
51 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (49 bp):
TTACCGATTACAGCTAGTGAGAGCTTACCGATTCTCAGCTCGTATGAGC
Found at i:11794034 original size:25 final size:24
Alignment explanation
Indices: 11793894--11794030 Score: 95
Period size: 25 Copynumber: 5.5 Consensus size: 24
11793884 TACTGATTAC
11793894 AGCTCGTGAGAGCTTACCGATTC-T
1 AGCTCGT-AGAGCTTACCGATTCAT
* *
11793918 CAACTCGTATGAGCTTATCGATTACA-
1 -AGCTCGTA-GAGCTTACCGATT-CAT
*
11793944 A-CTTGTGAGAGCTTACCGATTC-T
1 AGCTCGT-AGAGCTTACCGATTCAT
* *
11793967 CAGCTCGCAAGAGCTTACCGATTTAT
1 -AGCTCG-TAGAGCTTACCGATTCAT
*
11793993 AGCTAGCG-AGAGCATACCGATTCAT
1 AGCT--CGTAGAGCTTACCGATTCAT
11794018 AGCTCGTATGAGC
1 AGCTCGTA-GAGC
11794031 ATACATGTAC
Statistics
Matches: 90, Mismatches: 9, Indels: 26
0.72 0.07 0.21
Matches are distributed among these distances:
23 3 0.03
24 19 0.21
25 64 0.71
26 2 0.02
27 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (24 bp):
AGCTCGTAGAGCTTACCGATTCAT
Found at i:11805427 original size:27 final size:27
Alignment explanation
Indices: 11805397--11805574 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
11805387 ATATTGAGCC
* *
11805397 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
11805424 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
11805451 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
11805479 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
11805506 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
11805533 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
11805560 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
11805575 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:11805509 original size:55 final size:54
Alignment explanation
Indices: 11805397--11805574 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
11805387 ATATTGAGCC
* * * * *
11805397 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
11805451 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
11805506 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
11805560 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
11805575 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:11813366 original size:27 final size:27
Alignment explanation
Indices: 11813336--11813513 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
11813326 ATATTGAGCC
* *
11813336 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
11813363 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
11813390 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
11813418 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
11813445 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
11813472 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
11813499 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
11813514 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:11813448 original size:55 final size:54
Alignment explanation
Indices: 11813336--11813513 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
11813326 ATATTGAGCC
* * * * *
11813336 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
11813390 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
11813445 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
11813499 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
11813514 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:11824266 original size:3 final size:3
Alignment explanation
Indices: 11824258--11824286 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
11824248 ATCACATGTT
11824258 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
11824287 TGGATGTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:11824406 original size:73 final size:73
Alignment explanation
Indices: 11824287--11824472 Score: 363
Period size: 73 Copynumber: 2.5 Consensus size: 73
11824277 TATTATTATT
*
11824287 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
11824352 ATTTTAAG
66 ATTTTAAG
11824360 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
11824425 ATTTTAAG
66 ATTTTAAG
11824433 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
11824473 GTCAAGTTGT
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 112 1.00
ACGTcount: A:0.28, C:0.06, G:0.25, T:0.41
Consensus pattern (73 bp):
TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
ATTTTAAG
Found at i:11828697 original size:3 final size:3
Alignment explanation
Indices: 11828689--11828735 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
11828679 ATCACATGTT
*
11828689 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
11828736 TGGATGTAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:11832580 original size:20 final size:20
Alignment explanation
Indices: 11832532--11832594 Score: 81
Period size: 20 Copynumber: 3.0 Consensus size: 20
11832522 TTGAAATGCT
*
11832532 AACAGAGGCACCATAGTGCAA
1 AACAGAGGCACCAAAGTGC-A
*
11832553 ATACAGAGGCATCAAAGTGCA
1 A-ACAGAGGCACCAAAGTGCA
*
11832574 AACAGAGGCACCGAAGTGCA
1 AACAGAGGCACCAAAGTGCA
11832594 A
1 A
11832595 TCCCTTACAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
20 18 0.49
21 3 0.08
22 16 0.43
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (20 bp):
AACAGAGGCACCAAAGTGCA
Found at i:11835519 original size:3 final size:3
Alignment explanation
Indices: 11835511--11835561 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
11835501 ATAACCAAAT
** * *
11835511 ATA ATA ATA GCA ATA ATA ATA AGA GTA ATA ATA ATA ATA ATTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA
11835557 ATA AT
1 ATA AT
11835562 TAATTAATTA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:11837073 original size:45 final size:45
Alignment explanation
Indices: 11836901--11837073 Score: 142
Period size: 45 Copynumber: 3.9 Consensus size: 45
11836891 TGAGACTTGG
* * * * *
11836901 CTTCAATCTGCCCCGCTACAACTTCAGGGGGATAAGATTCGCTA-
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
* * * * *
11836945 --T-GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATACCAGT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-T-TGCTA-T
* *
11836990 CTTCAATCTGCTCCACTGCAATTTCAGGGA-AGTGAGATTTGCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGA-TAAGATTTGCTAT
*
11837035 CTTCAGTCTGCTCCACTAG-AACTTCAGGGAGATAAGATT
1 CTTCAATCTGCTCCACT-GCAACTTCAGGGAGATAAGATT
11837074 CGCTGCCTTC
Statistics
Matches: 99, Mismatches: 20, Indels: 19
0.72 0.14 0.14
Matches are distributed among these distances:
41 27 0.27
42 2 0.02
43 2 0.02
45 33 0.33
46 5 0.05
47 3 0.03
48 27 0.27
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (45 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
Found at i:11837084 original size:45 final size:45
Alignment explanation
Indices: 11836990--11837085 Score: 106
Period size: 45 Copynumber: 2.1 Consensus size: 45
11836980 CTATACCAGT
* * * * *
11836990 CTTCAATCTGCTCCACTGCAATTTCAGGGAAGTGAGATTTGCTAT
1 CTTCAGTCTGCTCCACTGCAACTTCAGGGAAGTAAGATTCGCTAC
*
11837035 CTTCAGTCTGCTCCACTAG-AACTTCAGGG-AGATAAGATTCGCTGC
1 CTTCAGTCTGCTCCACT-GCAACTTCAGGGAAG-TAAGATTCGCTAC
11837080 CTTCAG
1 CTTCAG
11837086 CTTTAATCTG
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
44 2 0.05
45 40 0.93
46 1 0.02
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (45 bp):
CTTCAGTCTGCTCCACTGCAACTTCAGGGAAGTAAGATTCGCTAC
Found at i:11837178 original size:97 final size:97
Alignment explanation
Indices: 11837059--11837972 Score: 868
Period size: 97 Copynumber: 9.4 Consensus size: 97
11837049 ACTAGAACTT
* * * * *
11837059 CAGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGTTTCACTACAATGCCAAGGAAATAAGAT
1 CAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGAT
** *
11837124 TAACTGTCTTCAGCTTTAATCTATTGCAACGC
66 TCGCTGCCTTCAGCTTTAATCTATTGCAACGC
*
11837156 TAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGAT
1 CAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGAT
* *
11837221 TCGCTACCTTCAGCTTTAACCTATTGCAACGC
66 TCGCTGCCTTCAGCTTTAATCTATTGCAACGC
* * * * **
11837253 CAGGGAAATAAGATTTGCTGCCTTCATCTTTAATCTGTTCCACTACAACATCAAGGAAATAAGAT
1 CAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGAT
* *
11837318 TCGCTGCCTTCAGCTTTAATCTATCGCAATGC
66 TCGCTGCCTTCAGCTTTAATCTATTGCAACGC
* *
11837350 CAGGGAAGCAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAATGCCAAGGAAATAAGAT
1 CAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGAT
* *
11837415 TCGTTGCCTTCAGCTTTAATCTACTGCAACGC
66 TCGCTGCCTTCAGCTTTAATCTATTGCAACGC
* * * ** *
11837447 CAAGGAAATAAGATTCGTTGCCTTCAGCTTTAATCTGTTCCACTGCAACGTTAAGGAAATAAAAT
1 CAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGAT
**
11837512 TCGCTGCCTTCAGCTTTAATCTATTGCAACTT
66 TCGCTGCCTTCAGCTTTAATCTATTGCAACGC
* * **
11837544 CAGGGAAACAAGATTCACTGCCTTCAGCTTTAATCTATTCCACTGCAACGTTAAGGAAATAAGAT
1 CAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGAT
* *
11837609 CCGCTGCCTTCAGCTTTAATCTATTCCACTGCAACGT
66 TCGCTGCCTTCAGCTTTAATCTA-T----TGCAACGC
* * * * * * ** * *
11837646 CAAGGAAATAAGAATCGCTACCTTTAGCTTTAATC---T--ATTGCAATACCATGGAAACAAGAT
1 CAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGAT
* * *
11837706 TCGCTGCCTTCAGCTTTAATTTGTTCCAATGCAATGC
66 TCGCTGCCTTCAGCTTTAA-----TCTATTGCAACGC
** * * * * * * *
11837743 CAATGAAATAAGATTTGTTGCCTTCAGCTTTAAACTATT--A---CAACGCCAGGGAAACAAGAT
1 CAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGAT
* * * * *
11837803 TCACTGCATTCAGCTTTAATCTGTTCCACTGAAACGT
66 TCGCTGCCTTCAGCTTTAATC---T--ATTGCAACGC
* * * * *
11837840 CAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATC---T--ATTGCAACGCCAGGGAAACAAGAT
1 CAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGAT
* * *
11837900 TCGTTGCCTTCAGCTTTAATCTGTTCAACTGCAACGT
66 TCGCTGCCTTCAGCTTTAATC---T--ATTGCAACGC
* * *
11837937 CAAGGAAATAAGATTCCCTGCCTTCAGCTTTAATCT
1 CAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATCT
11837973 ACTACAATGC
Statistics
Matches: 696, Mismatches: 99, Indels: 43
0.83 0.12 0.05
Matches are distributed among these distances:
92 2 0.00
94 2 0.00
97 649 0.93
98 1 0.00
99 1 0.00
100 2 0.00
102 39 0.06
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.30
Consensus pattern (97 bp):
CAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGAT
TCGCTGCCTTCAGCTTTAATCTATTGCAACGC
Found at i:11837706 original size:342 final size:341
Alignment explanation
Indices: 11837066--11837973 Score: 1188
Period size: 342 Copynumber: 2.7 Consensus size: 341
11837056 CTTCAGGGAG
* * * *
11837066 ATAAGATTCGCTGCCTTCAGCTTTAATCTGTTTCACTACAATGCCAAGGAAATAAGATTAACTGT
1 ATAAGATTCGTTGCCTTCAGCTTTAATC----T-ACTACAACGCCAAGGAAATAAGATTCACTGC
* * * *
11837131 CTTCAGCTTTAATC---T--ATTGCAACGCTAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATC
61 CTTCAGCTTTAATCTGTTCCACTGCAACGTTAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATC
* * * * *
11837191 TGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTACCTTCAGCTTTAACCTA-T---TGCAACG
126 ---T--ATTGCAACGCCAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTATTCACTGCAACG
* * ** * *
11837252 CCAGGGAAATAAGATTTGCTGCCTTCATCTTTAATCTGTTCCACTACAACATCAAGGAAATAAGA
186 TCAAGGAAATAAGATCCGCTGCCTTCAGCTTTAATCTATTCCACTACAACATCAAGGAAATAAGA
* * * *
11837317 TTCGCTGCCTTCAGCTTTAATCTATCGCAATGCCAGGGAAGCAAGATTCGCTGCCTTCAGCTTTA
251 ATCGCTACCTTCAGCTTTAATCTATCGCAATACCAGGGAAACAAGATTCGCTGCCTTCAGCTTTA
*
11837382 ATCTGTTCCACTGCAATGCCAAGGAA
316 ATCTGTTCCAATGCAATGCCAAGGAA
* **
11837408 ATAAGATTCGTTGCCTTCAGCTTTAATCTACTGCAACGCCAAGGAAATAAGATTCGTTGCCTTCA
1 ATAAGATTCGTTGCCTTCAGCTTTAATCTACTACAACGCCAAGGAAATAAGATTCACTGCCTTCA
*
11837473 GCTTTAATCTGTTCCACTGCAACGTTAAGGAAATAAAATTCGCTGCCTTCAGCTTTAATCTATTG
66 GCTTTAATCTGTTCCACTGCAACGTTAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTATTG
** * *
11837538 CAACTTCAGGGAAACAAGATTCACTGCCTTCAGCTTTAATCTATTCCACTGCAACGTTAAGGAAA
131 CAACGCCAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTATT-CACTGCAACGTCAAGGAAA
* *
11837603 TAAGATCCGCTGCCTTCAGCTTTAATCTATTCCACTGCAACGTCAAGGAAATAAGAATCGCTACC
195 TAAGATCCGCTGCCTTCAGCTTTAATCTATTCCACTACAACATCAAGGAAATAAGAATCGCTACC
* * * *
11837668 TTTAGCTTTAATCTATTGCAATACCATGGAAACAAGATTCGCTGCCTTCAGCTTTAATTTGTTCC
260 TTCAGCTTTAATCTATCGCAATACCAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTGTTCC
*
11837733 AATGCAATGCCAATGAA
325 AATGCAATGCCAAGGAA
* * * * * *
11837750 ATAAGATTTGTTGCCTTCAGCTTTAAACTATTACAACGCCAGGGAAACAAGATTCACTGCATTCA
1 ATAAGATTCGTTGCCTTCAGCTTTAATCTACTACAACGCCAAGGAAATAAGATTCACTGCCTTCA
* *
11837815 GCTTTAATCTGTTCCACTGAAACGTCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTATTG
66 GCTTTAATCTGTTCCACTGCAACGTTAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTATTG
* *
11837880 CAACGCCAGGGAAACAAGATTCGTTGCCTTCAGCTTTAATCTGTTCAACTGCAACGTCAAGGAAA
131 CAACGCCAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTATTC-ACTGCAACGTCAAGGAAA
11837945 TAAGATTCC-CTGCCTTCAGCTTTAATCTA
195 TAAGA-TCCGCTGCCTTCAGCTTTAATCTA
11837974 CTACAATGCC
Statistics
Matches: 497, Mismatches: 57, Indels: 24
0.86 0.10 0.04
Matches are distributed among these distances:
337 78 0.16
338 2 0.00
339 1 0.00
340 1 0.00
341 1 0.00
342 411 0.83
343 3 0.01
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (341 bp):
ATAAGATTCGTTGCCTTCAGCTTTAATCTACTACAACGCCAAGGAAATAAGATTCACTGCCTTCA
GCTTTAATCTGTTCCACTGCAACGTTAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTATTG
CAACGCCAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTATTCACTGCAACGTCAAGGAAAT
AAGATCCGCTGCCTTCAGCTTTAATCTATTCCACTACAACATCAAGGAAATAAGAATCGCTACCT
TCAGCTTTAATCTATCGCAATACCAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCA
ATGCAATGCCAAGGAA
Found at i:11838026 original size:97 final size:97
Alignment explanation
Indices: 11837636--11838026 Score: 275
Period size: 97 Copynumber: 4.0 Consensus size: 97
11837626 AATCTATTCC
* * * * * * * ** *
11837636 ACTGCAACGTCAAGGAAATAAGAATCGCTACCTTTAGCTTTAATCTATTGCAATACCATGGAAAC
1 ACTGAAACGTCAAGGAAATAAGATTCCCTGCCTTCAGCTTTAATCTACTACAACGCCAGGGAAAC
* * * * *** *
11837701 AAGATTCGCTGCCTTCAGCTTTAATTTGTTCCA
66 AAGATTCGTTACCTTCAGATCTAA-TCACTGCA
* * * * *** * *
11837734 A-TGCAATGCCAATGAAATAAGATTTGTTGCCTTCAGCTTTAAACTATTACAACGCCAGGGAAAC
1 ACTGAAACGTCAAGGAAATAAGATTCCCTGCCTTCAGCTTTAATCTACTACAACGCCAGGGAAAC
** * * * * ** * *
11837798 AAGATTCACTGCATTCAGCTTTAATCTGTTCC
66 AAGATTCGTTACCTTCAGATCTAATCACTGCA
* * *
11837830 ACTGAAACGTCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTATTGCAACGCCAGGGAAAC
1 ACTGAAACGTCAAGGAAATAAGATTCCCTGCCTTCAGCTTTAATCTACTACAACGCCAGGGAAAC
* * * ** *
11837895 AAGATTCGTTGCCTTCAGCTTTAATCTGTTCA
66 AAGATTCGTTACCTTCAGATCTAATCACTGCA
* * *
11837927 ACTGCAACGTCAAGGAAATAAGATTCCCTGCCTTCAGCTTTAATCTACTACAATGCCAGGGAAAT
1 ACTGAAACGTCAAGGAAATAAGATTCCCTGCCTTCAGCTTTAATCTACTACAACGCCAGGGAAAC
* *
11837992 AAGATTC-TCTATCTTCA-ATCTACTCCACTGCA
66 AAGATTCGT-TACCTTCAGATCTAAT-CACTGCA
11838024 ACT
1 ACT
11838027 TCAGAGAGAT
Statistics
Matches: 244, Mismatches: 46, Indels: 7
0.82 0.15 0.02
Matches are distributed among these distances:
96 9 0.04
97 234 0.96
98 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (97 bp):
ACTGAAACGTCAAGGAAATAAGATTCCCTGCCTTCAGCTTTAATCTACTACAACGCCAGGGAAAC
AAGATTCGTTACCTTCAGATCTAATCACTGCA
Found at i:11838118 original size:45 final size:45
Alignment explanation
Indices: 11838004--11838626 Score: 270
Period size: 44 Copynumber: 13.8 Consensus size: 45
11837994 GATTCTCTAT
*
11838004 CTTC-AATCTACTCCACTGCAACTTCAGAGAGATAAGACTTGTAG
1 CTTCAAATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAG
* * * * * *
11838048 CTTCAATTC-GCTCTACTGCAACTTCAGGGAGATAGGA-TTATTGG
1 CTTCAAATCTACTCCACTGCAACTTCAGGGAGATAAGACTT-GTAG
* * * * *
11838092 CTTTAAATCTACTCCACTGTAACTTCAGGGAGATTCAGAGAGATAAGATTCTCCAT
1 CTTCAAATCTACTCCACTGCAACTTCAGGGAGA-T---A-AG---A-CTTGT--AG
* * *
11838148 CTTC-AGTCTACTCTACTGCAACTTTAGGGAGATAAGACTTGTAG
1 CTTCAAATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAG
** * * *
11838192 CTTC-AATCCT-CTCCACTATAACTTCAAGGAGATAGGA-TTATTAG
1 CTTCAAAT-CTACTCCACTGCAACTTCAGGGAGATAAGACTT-GTAG
* * * * * *
11838236 CTT-TAATATGCTCGACTGCAACTTCAGGGAGATAAGA-TTCGCCAT
1 CTTCAAATCTACTCCACTGCAACTTCAGGGAGATAAGACTT-G-TAG
* * * *
11838281 CTTC-AGTCT-GTCCCACTGCAACTTCAGGGGGATAAGACTTGTAA
1 CTTCAAATCTACT-CCACTGCAACTTCAGGGAGATAAGACTTGTAG
* * *
11838325 CTTCAACT-TGCTCCACTGCAACTTCAGGGAGATAAG-GTCTGCTAAG
1 CTTCAAATCTACTCCACTGCAACTTCAGGGAGATAAGACT-TG-T-AG
* * * *
11838371 -TTC-AGTCTGCTCTACTGCAACCTCAGGGAGATAAGACTTGT-G
1 CTTCAAATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAG
* * * * *
11838413 ACCTC-AATCTGC-CCACTACAACTTCAGGGGGATAAGA-TTGATAT
1 -CTTCAAATCTACTCCACTGCAACTTCAGGGAGATAAGACTTG-TAG
* * * * * *
11838457 CTTC-AACCTACTCCACTACAACTTTAGGGAAATCAAGTC-TGCTAA
1 CTTCAAATCTACTCCACTGCAACTTCAGGGAGAT-AAGACTTG-TAG
* * * *
11838502 CTTC-AGTCTACTCCACTACAACTTTAGGGAGATAAGACTTGTAA
1 CTTCAAATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAG
* *** * * * *
11838546 CTT-TAATCCGTTCCACTACAACTTCAGGGAGATAGGA-TTATTGG
1 CTTCAAATCTACTCCACTGCAACTTCAGGGAGATAAGACTT-GTAG
* * * *
11838590 CTT-TAATCTGCTCCACTGCAACTTAAAGGAGATAAGA
1 CTTCAAATCTACTCCACTGCAACTTCAGGGAGATAAGA
11838627 TTCGCCATAA
Statistics
Matches: 446, Mismatches: 93, Indels: 80
0.72 0.15 0.13
Matches are distributed among these distances:
42 4 0.01
43 38 0.09
44 228 0.51
45 130 0.29
46 8 0.02
47 1 0.00
49 1 0.00
50 3 0.01
51 1 0.00
53 1 0.00
54 2 0.00
55 26 0.06
56 3 0.01
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.29
Consensus pattern (45 bp):
CTTCAAATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAG
Found at i:11838215 original size:44 final size:44
Alignment explanation
Indices: 11838148--11838626 Score: 316
Period size: 44 Copynumber: 10.8 Consensus size: 44
11838138 GATTCTCCAT
* * * * *
11838148 CTTCAGTCTACTCTACTGCAACTTTAGGGAGATAAGACTTGTAG
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTAG
* * * *
11838192 CTTCAATCCT-CTCCACTATAACTTCAAGGAGATAGGA-TTATTAG
1 CTTCAAT-CTGCTCCACTACAACTTCAGGGAGATAAGACTT-GTAG
* * * * * *
11838236 CTTTAATATGCTCGACTGCAACTTCAGGGAGATAAGA-TTCGCCAT
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTT-G-TAG
* * * *
11838281 CTTCAGTCTG-TCCCACTGCAACTTCAGGGGGATAAGACTTGTAA
1 CTTCAATCTGCT-CCACTACAACTTCAGGGAGATAAGACTTGTAG
* *
11838325 CTTCAA-CTTGCTCCACTGCAACTTCAGGGAGATAAG-GTCTGCTAAG
1 CTTCAATC-TGCTCCACTACAACTTCAGGGAGATAAGACT-TG-T-AG
* * * *
11838371 -TTCAGTCTGCTCTACTGCAACCTCAGGGAGATAAGACTTGT-G
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTAG
* * *
11838413 ACCTCAATCTGC-CCACTACAACTTCAGGGGGATAAGA-TTGATAT
1 -CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTTG-TAG
* * * * * *
11838457 CTTCAACCTACTCCACTACAACTTTAGGGAAATCAAGTC-TGCTAA
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGAT-AAGACTTG-TAG
* * * *
11838502 CTTCAGTCTACTCCACTACAACTTTAGGGAGATAAGACTTGTAA
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTAG
* * * * * *
11838546 CTTTAATCCGTTCCACTACAACTTCAGGGAGATAGGA-TTATTGG
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTT-GTAG
* * * *
11838590 CTTTAATCTGCTCCACTGCAACTTAAAGGAGATAAGA
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGA
11838627 TTCGCCATAA
Statistics
Matches: 343, Mismatches: 70, Indels: 44
0.75 0.15 0.10
Matches are distributed among these distances:
42 4 0.01
43 37 0.11
44 190 0.55
45 107 0.31
46 5 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTAG
Found at i:11838375 original size:89 final size:89
Alignment explanation
Indices: 11838244--11838633 Score: 267
Period size: 89 Copynumber: 4.4 Consensus size: 89
11838234 AGCTTTAATA
* * *
11838244 TGCTCGACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTG-TCCCACTGCAACTTCAG
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCAACTTCAGTCTGCT-CCACTGCAACCTCAG
* *
11838308 GGGGATAAGACTTGTAACTTCAA-C
65 GGAGATAAGACTTGTAACCTCAATC
* * * *
11838332 TTGCTCCACTGCAACTTCAGGGAGATAAG-GTCTGCTAAGTTCAGTCTGCTCTACTGCAACCTCA
1 -TGCTCCACTGCAACTTCAGGGAGATAAGATTC-GCCAACTTCAGTCTGCTCCACTGCAACCTCA
*
11838396 GGGAGATAAGACTTGTGACCTCAATC
64 GGGAGATAAGACTTGTAACCTCAATC
* * ** * ** * * * *
11838422 TGC-CCACTACAACTTCAGGGGGATAAGATT-GATATCTTCAACCTACTCCACTACAACTTTAGG
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCAACTTCAGTCTGCTCCACTGCAACCTCAGG
* * * *
11838485 GAAATCAAGTC-TGCTAACTTCAGTC
66 GAGAT-AAGACTTG-TAACCTCAATC
* * * * * * * * * *
11838510 TACTCCACTACAACTTTAGGGAGATAAGACTT-G-TAACTTTAATCCGTTCCACTACAACTTCAG
1 TGCTCCACTGCAACTTCAGGGAGATAAGA-TTCGCCAACTTCAGTCTGCTCCACTGCAACCTCAG
* * ** * *
11838573 GGAGATAGGA-TTATTGGCTTTAATC
65 GGAGATAAGACTT-GTAACCTCAATC
* *
11838598 TGCTCCACTGCAACTTAAAGGAGATAAGATTCGCCA
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCA
11838634 TAATAACTTC
Statistics
Matches: 238, Mismatches: 51, Indels: 24
0.76 0.16 0.08
Matches are distributed among these distances:
87 31 0.13
88 74 0.31
89 128 0.54
90 5 0.02
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (89 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCAACTTCAGTCTGCTCCACTGCAACCTCAGG
GAGATAAGACTTGTAACCTCAATC
Found at i:11838461 original size:132 final size:133
Alignment explanation
Indices: 11838244--11838625 Score: 409
Period size: 132 Copynumber: 2.9 Consensus size: 133
11838234 AGCTTTAATA
* * * * *
11838244 TGCTCGACTGCAACTTCAGGGAGATAAGA-TTCGCCATCTTCAGTCTGTCCCACTGCAACTTCAG
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTT-G-TAACTTCAATCTGTCCCACTACAACTTCAG
* * *
11838308 GGGGATAAGACTTG-TAACTTCAACTTGCTCCACTGCAACTTCAGGGAGATAAGGTCTGCTAAGT
64 GGGGATAAGA-TTGATATCTTCAACTTGCTCCACTGCAACTTAAGGGAGATAAGGTCTGCTAACT
11838372 TCAGTC
128 TCAGTC
* * * *
11838378 TGCTCTACTGCAACCTCAGGGAGATAAGACTTGTGACCTCAATCTG-CCCACTACAACTTCAGGG
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGTCCCACTACAACTTCAGGG
* * * * *
11838442 GGATAAGATTGATATCTTCAACCTACTCCACTACAACTTTAGGGAAATCAA-GTCTGCTAACTTC
66 GGATAAGATTGATATCTTCAACTTGCTCCACTGCAACTTAAGGGAGAT-AAGGTCTGCTAACTTC
11838506 AGTC
130 AGTC
* * * * * *
11838510 TACTCCACTACAACTTTAGGGAGATAAGACTTGTAACTTTAATCCGTTCCACTACAACTTCAGGG
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGTCCCACTACAACTTCAGGG
* * * *
11838575 AGATAGGATT-AT-TGGCTTTAA-TCTGCTCCACTGCAACTTAAAGGAGATAAG
66 GGATAAGATTGATAT--CTTCAACT-TGCTCCACTGCAACTTAAGGGAGATAAG
11838626 ATTCGCCATA
Statistics
Matches: 206, Mismatches: 34, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
131 4 0.02
132 112 0.54
133 60 0.29
134 28 0.14
135 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.27
Consensus pattern (133 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGTCCCACTACAACTTCAGGG
GGATAAGATTGATATCTTCAACTTGCTCCACTGCAACTTAAGGGAGATAAGGTCTGCTAACTTCA
GTC
Found at i:11838575 original size:221 final size:222
Alignment explanation
Indices: 11838149--11838579 Score: 500
Period size: 221 Copynumber: 1.9 Consensus size: 222
11838139 ATTCTCCATC
* * * *
11838149 TTCAGTCTACTCTACTGCAACTTTAGGGAGATAAGACTTGTAGCTTCAATCCTCTCCACTATAAC
1 TTCAGTCTACTCTACTGCAACCTCAGGGAGATAAGACTTGTAGCCTCAATCCTCTCCACTACAAC
* * * * * * *
11838214 TTCAAGGAGATAGGATTATTAGCTTTAATATGCTCGACTGCAACTTCAGGGAGATAAGATTCGCC
66 TTCAAGGAGATAAGATTATTAGCTTCAACATACTCCACTACAACTTCAGGGAAATAAGATTCGCC
* * * * * *
11838279 ATCTTCAGTCTGTCCCACTGCAACTTCAGGGGGATAAGACTTGTAACTTCAACTTGCTCCACTGC
131 AACTTCAGTCTCTCCCACTACAACTTCAGGGAGATAAGACTTGTAACTTCAACTCGCTCCACTAC
11838344 AACTTCAGGGAGATAAGGTCTGCTAAG
196 AACTTCAGGGAGATAAGGTCTGCTAAG
*
11838371 TTCAGTCTGCTCTACTGCAACCTCAGGGAGATAAGACTTGT-GACCTCAAT-CTGC-CCACTACA
1 TTCAGTCTACTCTACTGCAACCTCAGGGAGATAAGACTTGTAG-CCTCAATCCT-CTCCACTACA
* * * * *
11838433 ACTTCAGGGGGATAAGATTGA-TATCTTCAACCTACTCCACTACAACTTTAGGGAAATCAAG--T
64 ACTTCAAGGAGATAAGATT-ATTAGCTTCAACATACTCCACTACAACTTCAGGGAAAT-AAGATT
* * * *
11838495 CTGCTAACTTCAGTCTACT-CCACTACAACTTTAGGGAGATAAGACTTGTAACTTTAA-TCCGTT
127 C-GCCAACTTCAGTCT-CTCCCACTACAACTTCAGGGAGATAAGACTTGTAACTTCAACT-CGCT
11838558 CCACTACAACTTCAGGGAGATA
189 CCACTACAACTTCAGGGAGATA
11838580 GGATTATTGG
Statistics
Matches: 175, Mismatches: 27, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
220 3 0.02
221 122 0.70
222 50 0.29
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (222 bp):
TTCAGTCTACTCTACTGCAACCTCAGGGAGATAAGACTTGTAGCCTCAATCCTCTCCACTACAAC
TTCAAGGAGATAAGATTATTAGCTTCAACATACTCCACTACAACTTCAGGGAAATAAGATTCGCC
AACTTCAGTCTCTCCCACTACAACTTCAGGGAGATAAGACTTGTAACTTCAACTCGCTCCACTAC
AACTTCAGGGAGATAAGGTCTGCTAAG
Found at i:11838992 original size:24 final size:24
Alignment explanation
Indices: 11838956--11839013 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
11838946 CAGATTGCCC
*
11838956 CCACTGTAATCTTCAAGGTTCAAT
1 CCACTGTACTCTTCAAGGTTCAAT
11838980 CCACTGTACTCTTCAAGGTTCAAT
1 CCACTGTACTCTTCAAGGTTCAAT
11839004 CCACTGTACT
1 CCACTGTACT
11839014 TTTGGGACAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (24 bp):
CCACTGTACTCTTCAAGGTTCAAT
Found at i:11839985 original size:43 final size:44
Alignment explanation
Indices: 11839916--11840044 Score: 197
Period size: 44 Copynumber: 3.0 Consensus size: 44
11839906 TGGCCTCTCC
* **
11839916 TTTTTTTTATGACTCAAAGCGCCCTTTTTGGGTTTTCACCTTA-
1 TTTTTTTTAGGACTCAAAGCGCCCTTTGCGGGTTTTCACCTTAG
* *
11839959 TTTTTTTTAGGACTCAAGGCGTCCTTTGCGGGTTTTCACCTTAG
1 TTTTTTTTAGGACTCAAAGCGCCCTTTGCGGGTTTTCACCTTAG
*
11840003 TCTTTTTTAGGACTCAAAGCGCCCTTTGCGGGTTTTCACCTT
1 TTTTTTTTAGGACTCAAAGCGCCCTTTGCGGGTTTTCACCTT
11840045 GGTCCCTTCT
Statistics
Matches: 77, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
43 38 0.49
44 39 0.51
ACGTcount: A:0.15, C:0.22, G:0.19, T:0.44
Consensus pattern (44 bp):
TTTTTTTTAGGACTCAAAGCGCCCTTTGCGGGTTTTCACCTTAG
Found at i:11841972 original size:16 final size:16
Alignment explanation
Indices: 11841951--11841982 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
11841941 ATTTTGTTGC
*
11841951 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
11841967 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
11841983 CTTTCAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:11842326 original size:47 final size:51
Alignment explanation
Indices: 11842210--11842346 Score: 183
Period size: 47 Copynumber: 2.8 Consensus size: 51
11842200 CCAGTTCACA
* *
11842210 TAGTAGCCTGCACATAGTATTACACATATGACCATCACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACG
* * * *
11842261 TAGTGGCCTGCACGTAGTACTACACATGTGACC-T-A-T-TCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACG
*
11842308 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACT
11842347 TTCACTTTCA
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
47 39 0.53
48 2 0.03
49 2 0.03
50 2 0.03
51 29 0.39
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.26
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACG
Found at i:11844270 original size:26 final size:27
Alignment explanation
Indices: 11844213--11844276 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 27
11844203 TTGGCCTCTC
* *
11844213 CTTTTTCTTTTCCTTTTCTTTTTCCTT
1 CTTTTTATTTTCCTTTTCTTTTTCCAT
**
11844240 CTTTTT-TTTT-CTTTTCTTTTTTGAT
1 CTTTTTATTTTCCTTTTCTTTTTCCAT
11844265 CATTTTTATTTT
1 C-TTTTTATTTT
11844277 TTGAAATATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 13 0.41
26 9 0.28
27 10 0.31
ACGTcount: A:0.05, C:0.17, G:0.02, T:0.77
Consensus pattern (27 bp):
CTTTTTATTTTCCTTTTCTTTTTCCAT
Done.