Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 145 of 255
Found at i:46949977 original size:37 final size:37
Alignment explanation
Indices: 46949927--46950005 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
46949917 TTATTACGAA
* * *
46949927 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
46949964 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
46950001 GTCTT
1 GTCTT
46950006 TGGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:46950283 original size:47 final size:47
Alignment explanation
Indices: 46950123--46950517 Score: 565
Period size: 47 Copynumber: 8.7 Consensus size: 47
46950113 GCCCTTCGGG
* *
46950123 ACTTATCACATTGATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
46950173 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
46950222 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
46950269 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
46950316 ACTTTCACATTCATCACATCGGCCATTAGG-CTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
46950362 AC-TTCA-ATTCATCACAT--G-CATTA---C--AT----TATC---
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
46950392 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
46950439 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATGC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
46950486 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
46950518 ATACTATCAT
Statistics
Matches: 323, Mismatches: 5, Indels: 37
0.88 0.01 0.10
Matches are distributed among these distances:
30 2 0.01
31 4 0.01
32 11 0.03
33 3 0.01
34 1 0.00
35 5 0.02
37 2 0.01
38 1 0.00
39 1 0.00
40 2 0.01
41 5 0.02
42 1 0.00
44 14 0.04
45 4 0.01
46 18 0.06
47 162 0.50
49 83 0.26
50 4 0.01
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:46950405 original size:123 final size:128
Alignment explanation
Indices: 46950259--46950504 Score: 448
Period size: 123 Copynumber: 2.0 Consensus size: 128
46950249 AGGCCCTATC
46950259 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCAC
1 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCAC
46950324 ATTCATCACATCGGCCATTAGG-CTTATCACATATATACAC-TTCA-ATTCATCACATGCATT
66 ATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATGCATT
46950384 ACAT-TAT-CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCAC
1 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCAC
*
46950447 ATTCATCACATCGGCCATTAGGCCTTATCACATATATGCACTTTCACATTCATCACAT
66 ATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
46950505 CGGCCATTAG
Statistics
Matches: 117, Mismatches: 1, Indels: 5
0.95 0.01 0.04
Matches are distributed among these distances:
123 78 0.67
124 20 0.17
125 8 0.07
126 11 0.09
ACGTcount: A:0.31, C:0.29, G:0.07, T:0.33
Consensus pattern (128 bp):
ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCAC
ATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATGCATT
Found at i:46956007 original size:29 final size:30
Alignment explanation
Indices: 46955975--46956040 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
46955965 TGTCTAAGGC
*
46955975 CGTGTGAGGCACA-GGCCTGTTCACACGGA
1 CGTGTGAGGCACACGGCCTATTCACACGGA
46956004 CGTGTGAGGCACACGGCCTATTCACACGGA
1 CGTGTGAGGCACACGGCCTATTCACACGGA
46956034 CGTGTGA
1 CGTGTGA
46956041 CCATTTAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 13 0.37
30 22 0.63
ACGTcount: A:0.21, C:0.27, G:0.33, T:0.18
Consensus pattern (30 bp):
CGTGTGAGGCACACGGCCTATTCACACGGA
Found at i:46957201 original size:6 final size:7
Alignment explanation
Indices: 46957184--46957213 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
46957174 TAATATTTGA
46957184 AAAAAGT
1 AAAAAGT
46957191 AAAAAGT
1 AAAAAGT
46957198 AAAAAGT
1 AAAAAGT
46957205 AAAAA-T
1 AAAAAGT
46957211 AAA
1 AAA
46957214 TTAAATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 19 0.83
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (7 bp):
AAAAAGT
Found at i:46960570 original size:54 final size:54
Alignment explanation
Indices: 46960506--46960619 Score: 210
Period size: 54 Copynumber: 2.1 Consensus size: 54
46960496 GCAAGGTAAG
46960506 GTTAAGGAGATTCTGACTTTTCTTAAAGTATTCAATAAGTATGTGAGATTAATC
1 GTTAAGGAGATTCTGACTTTTCTTAAAGTATTCAATAAGTATGTGAGATTAATC
*
46960560 GTTAAGGAGATTCTGACTTTTCTTAAAGTATTCGATAAGTATGTGAGATTAATC
1 GTTAAGGAGATTCTGACTTTTCTTAAAGTATTCAATAAGTATGTGAGATTAATC
*
46960614 TTTAAG
1 GTTAAG
46960620 TGATATCGAT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 58 1.00
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.39
Consensus pattern (54 bp):
GTTAAGGAGATTCTGACTTTTCTTAAAGTATTCAATAAGTATGTGAGATTAATC
Found at i:46961027 original size:29 final size:29
Alignment explanation
Indices: 46960972--46961061 Score: 128
Period size: 29 Copynumber: 3.1 Consensus size: 29
46960962 ATGAGCATGA
* * *
46960972 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
*
46961000 ATATAAATGTGATTTGGGCATAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
*
46961029 ATATACATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
46961058 ATAT
1 ATAT
46961062 GAATATGAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
28 11 0.20
29 44 0.80
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGGGCC
Found at i:46964008 original size:16 final size:16
Alignment explanation
Indices: 46963987--46964017 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
46963977 GTAAAGCCCT
*
46963987 AAAAATCTTGAAATCC
1 AAAAATCCTGAAATCC
46964003 AAAAATCCTGAAATC
1 AAAAATCCTGAAATC
46964018 TTGATTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.19, G:0.06, T:0.23
Consensus pattern (16 bp):
AAAAATCCTGAAATCC
Found at i:46965523 original size:28 final size:28
Alignment explanation
Indices: 46965483--46965568 Score: 100
Period size: 28 Copynumber: 3.0 Consensus size: 28
46965473 GTGAGCATGA
* *
46965483 ATATGAATGTGATTGGGCCTAACGGGCC
1 ATATGAATGTGATTGGGCATAATGGGCC
* *
46965511 ATATAAATGTGATTTAGGCATAATGGGCC
1 ATATGAATGTGA-TTGGGCATAATGGGCC
* * *
46965540 ATATGAATATGAATGGGCTTAATGGGCC
1 ATATGAATGTGATTGGGCATAATGGGCC
46965568 A
1 A
46965569 GATATAGGTA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
28 25 0.52
29 23 0.48
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.28
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCATAATGGGCC
Found at i:46965543 original size:29 final size:28
Alignment explanation
Indices: 46965483--46965543 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
46965473 GTGAGCATGA
* * *
46965483 ATATGAATGTGATTGGGCCTAACGGGCC
1 ATATAAATGTGATTAGGCATAACGGGCC
*
46965511 ATATAAATGTGATTTAGGCATAATGGGCC
1 ATATAAATGTGA-TTAGGCATAACGGGCC
46965540 ATAT
1 ATAT
46965544 GAATATGAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 11 0.39
29 17 0.61
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (28 bp):
ATATAAATGTGATTAGGCATAACGGGCC
Found at i:46966955 original size:46 final size:46
Alignment explanation
Indices: 46966888--46967060 Score: 138
Period size: 46 Copynumber: 3.7 Consensus size: 46
46966878 TAACCCGCCT
46966888 ATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCC
* * * * ** *
46966934 ATAAGTGAACTTGGACTCAACTAAATGAGTTTAGACACCTAGTT-ACAT-C
1 ATAAGTGAACTCGGACTCAACTCAATGAG-CTCG--GGC--GTTCGCATCC
* * * *
46966983 -TCA-TGAACTTGGACTCAACTTAATGAGCTCGGGTGTTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCC
* * * *
46967027 ATAAATGAACTCGGATTCAACTCAACGAGTTCGG
1 ATAAGTGAACTCGGACTCAACTCAATGAGCTCGG
46967061 ATGCCTAGTT
Statistics
Matches: 97, Mismatches: 21, Indels: 18
0.71 0.15 0.13
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 1 0.01
45 2 0.02
46 53 0.55
47 25 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (46 bp):
ATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCC
Found at i:46967057 original size:93 final size:93
Alignment explanation
Indices: 46966893--46967098 Score: 295
Period size: 93 Copynumber: 2.2 Consensus size: 93
46966883 CGCCTATAAG
* *
46966893 TGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTTGGACTCAACTAA
1 TGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTAA
* *
46966958 ATGAGTTTAGACACCTAGTTACATCTCA
66 ACGAGTTCAGACACCTAGTTACATCTCA
* * * * *
46966986 TGAACTTGGACTCAACTTAATGAGCTCGGGTGTTCGCATCCATAAATGAACTCGGATTCAACTCA
1 TGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTAA
* **
46967051 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCAGACACCTAGTTACATCTCA
*
46967079 CGAACTCGGACTCAACTCAA
1 TGAACTCGGACTCAACTCAA
46967099 CAAGCTCAGA
Statistics
Matches: 98, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 98 1.00
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (93 bp):
TGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTAA
ACGAGTTCAGACACCTAGTTACATCTCA
Found at i:46967617 original size:17 final size:17
Alignment explanation
Indices: 46967595--46967627 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
46967585 CCAAAGCTAA
46967595 AAAATTAATT-TTTTTTC
1 AAAATT-ATTATTTTTTC
46967612 AAAATTATTATTTTTT
1 AAAATTATTATTTTTT
46967628 ATGACATGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (17 bp):
AAAATTATTATTTTTTC
Found at i:46976596 original size:40 final size:40
Alignment explanation
Indices: 46976553--46977079 Score: 894
Period size: 40 Copynumber: 13.2 Consensus size: 40
46976543 CCGATAAAGG
*
46976553 GAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCG
1 GAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCC
* *
46976593 GAAGGCATTTGTGTGAATTGATATATCCGGGATAAGACCC
1 GAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCC
*
46976633 GAAGGCATTTGTGCGAATTGATATATCCGGGATAAGACCC
1 GAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCC
*
46976673 GAAGGCATTTGTGCGAATTGATATATCCGGGATAAGACCC
1 GAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCC
* *
46976713 GAAGGCATTTGTGCGAACTGATATATCCGGGTTAAGACCC
1 GAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCC
46976753 GAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCC
1 GAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCC
46976793 GAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCC
1 GAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCC
*
46976833 GAAGGCATTTGTGCGAATTGATATATCCGGGATAAGACCC
1 GAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCC
*
46976873 GAAGGCATTTGTGCGAATTGATATATCCGGGATAAGACCC
1 GAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCC
*
46976913 GAAGGCATTTGTGCGAACTGATATATCCGGGCTAAGACCC
1 GAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCC
* *
46976953 GACGGCGTTTGTGCGAATTGATATATCCGGGCTAAGACCC
1 GAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCC
*
46976993 GAAGGCAATTGTGC-AAGTTGATATATCCGGGCTAAGACCC
1 GAAGGCATTTGTGCGAA-TTGATATATCCGGGCTAAGACCC
* * *
46977033 GAAGGCATTTGTGTGAATTGATATACCCGGGTTAAGACCC
1 GAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCC
46977073 GAAGGCA
1 GAAGGCA
46977080 ATTGAGCTTG
Statistics
Matches: 464, Mismatches: 21, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
39 2 0.00
40 460 0.99
41 2 0.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (40 bp):
GAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCC
Found at i:46981139 original size:14 final size:15
Alignment explanation
Indices: 46981120--46981152 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
46981110 ACTAGGAGCC
46981120 TTTAAGTTAAT-TTG
1 TTTAAGTTAATGTTG
*
46981134 TTTAAGTTGATGTTG
1 TTTAAGTTAATGTTG
46981149 TTTA
1 TTTA
46981153 TAAGTTAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.24, C:0.00, G:0.18, T:0.58
Consensus pattern (15 bp):
TTTAAGTTAATGTTG
Found at i:46985034 original size:20 final size:20
Alignment explanation
Indices: 46985009--46985050 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
46984999 GTTCTTAATG
*
46985009 ATATTGCTGGTACCTTTTCT
1 ATATTGCTAGTACCTTTTCT
46985029 ATATTGCTAGTACCTTTTCT
1 ATATTGCTAGTACCTTTTCT
46985049 AT
1 AT
46985051 CTTTGATGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.12, T:0.50
Consensus pattern (20 bp):
ATATTGCTAGTACCTTTTCT
Found at i:46986002 original size:19 final size:20
Alignment explanation
Indices: 46985980--46986018 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
46985970 ATAAAAAAAT
46985980 CATATAATAATATAA-CATA
1 CATATAATAATATAATCATA
* *
46985999 CATATCATAGTATAATCATA
1 CATATAATAATATAATCATA
46986019 ATGTCCCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.51, C:0.13, G:0.03, T:0.33
Consensus pattern (20 bp):
CATATAATAATATAATCATA
Found at i:46988227 original size:21 final size:21
Alignment explanation
Indices: 46988161--46988229 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
46988151 CCTAATTCTC
46988161 CTTT-CTTTTTCT-TTTTATT
1 CTTTCCTTTTTCTATTTTATT
* *
46988180 CTTTCTCTATTTC-ATTTCATTGTTT
1 CTTTC-CTTTTTCTA-TT--TT-ATT
46988205 CTTTCCTTTTTCTATTTTATT
1 CTTTCCTTTTTCTATTTTATT
46988226 CTTT
1 CTTT
46988230 ATTTGTTTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
19 4 0.11
21 12 0.32
22 4 0.11
24 10 0.26
25 8 0.21
ACGTcount: A:0.09, C:0.19, G:0.01, T:0.71
Consensus pattern (21 bp):
CTTTCCTTTTTCTATTTTATT
Found at i:46989943 original size:40 final size:40
Alignment explanation
Indices: 46989872--46990078 Score: 247
Period size: 40 Copynumber: 5.2 Consensus size: 40
46989862 TGGAATTTAG
* * * *
46989872 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * *
46989912 CCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
46989952 CCAGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
*
46989992 CCGGATAAAATCACTAGCATAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* *
46990032 CCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
46990072 CCGGATA
1 CCGGATA
46990079 TCATTCAAAT
Statistics
Matches: 146, Mismatches: 19, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
39 2 0.01
40 140 0.96
41 4 0.03
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (40 bp):
CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:46997511 original size:21 final size:21
Alignment explanation
Indices: 46997445--46997513 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
46997435 CCTAATTCTC
46997445 CTTT-CTTTTTCT-TTTTATT
1 CTTTCCTTTTTCTATTTTATT
* *
46997464 CTTTCTCTATTTC-ATTTCATTGTTT
1 CTTTC-CTTTTTCTA-TT--TT-ATT
46997489 CTTTCCTTTTTCTATTTTATT
1 CTTTCCTTTTTCTATTTTATT
46997510 CTTT
1 CTTT
46997514 ATTTGTTTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
19 4 0.11
21 12 0.32
22 4 0.11
24 10 0.26
25 8 0.21
ACGTcount: A:0.09, C:0.19, G:0.01, T:0.71
Consensus pattern (21 bp):
CTTTCCTTTTTCTATTTTATT
Found at i:46999215 original size:40 final size:40
Alignment explanation
Indices: 46999154--46999360 Score: 256
Period size: 40 Copynumber: 5.2 Consensus size: 40
46999144 CGGAATTTAG
* * * *
46999154 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * *
46999194 CCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
46999234 CCAGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
46999274 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* *
46999314 CCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
46999354 CCGGATA
1 CCGGATA
46999361 TGATTCAAAT
Statistics
Matches: 148, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 142 0.96
41 4 0.03
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (40 bp):
CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:47006798 original size:21 final size:21
Alignment explanation
Indices: 47006732--47006800 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
47006722 CCTAATTCTC
47006732 CTTT-CTTTTTCT-TTTTATT
1 CTTTCCTTTTTCTATTTTATT
* *
47006751 CTTTCTCTATTTC-ATTTCATTGTTT
1 CTTTC-CTTTTTCTA-TT--TT-ATT
47006776 CTTTCCTTTTTCTATTTTATT
1 CTTTCCTTTTTCTATTTTATT
47006797 CTTT
1 CTTT
47006801 ATTTGTTTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
19 4 0.11
21 12 0.32
22 4 0.11
24 10 0.26
25 8 0.21
ACGTcount: A:0.09, C:0.19, G:0.01, T:0.71
Consensus pattern (21 bp):
CTTTCCTTTTTCTATTTTATT
Found at i:47008504 original size:40 final size:40
Alignment explanation
Indices: 47008443--47008649 Score: 256
Period size: 40 Copynumber: 5.2 Consensus size: 40
47008433 CGGAATTTAG
* * * *
47008443 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * *
47008483 CCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
47008523 CCAGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
47008563 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* *
47008603 CCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
47008643 CCGGATA
1 CCGGATA
47008650 TGATTCAAAT
Statistics
Matches: 148, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 142 0.96
41 4 0.03
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (40 bp):
CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:47019670 original size:40 final size:40
Alignment explanation
Indices: 47019620--47019794 Score: 278
Period size: 40 Copynumber: 4.4 Consensus size: 40
47019610 TATGTGCACA
* *
47019620 GCATTTGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCGAAG
* *
47019660 GCATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCAAAC
1 GCATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCGAAG
47019700 GCATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCGAAG
* * *
47019740 GCATTCGTGCGAGTTATTATTACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCGAAG
*
47019780 GCATTCGTGCTGGTT
1 GCATTCGTGCGGGTT
47019795 GTTACATCCG
Statistics
Matches: 124, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 124 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCGAAG
Found at i:47022942 original size:15 final size:15
Alignment explanation
Indices: 47022897--47022947 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
47022887 GAAAAATAAG
*
47022897 AAATATTATATGTCA
1 AAATATTATATGTTA
*
47022912 AAAGT-TT-TA-ATTA
1 AAA-TATTATATGTTA
47022925 AAATATTATATGTTA
1 AAATATTATATGTTA
47022940 AAATATTA
1 AAATATTA
47022948 ATAAATGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
12 1 0.03
13 7 0.24
14 4 0.14
15 16 0.55
16 1 0.03
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (15 bp):
AAATATTATATGTTA
Found at i:47023815 original size:26 final size:26
Alignment explanation
Indices: 47023779--47024014 Score: 170
Period size: 26 Copynumber: 9.1 Consensus size: 26
47023769 TGTACTTGAA
* *
47023779 TAGCAGGCCTTGAACTGGTGTTTATT
1 TAGCAAGCCTTGAGCTGGTGTTTATT
* * * *
47023805 TAGCAGGCCTTGGGCTAGTGTTTCTT
1 TAGCAAGCCTTGAGCTGGTGTTTATT
* * * *
47023831 TAGTAGGCCATGAGATGGTGTTTATT
1 TAGCAAGCCTTGAGCTGGTGTTTATT
* * * * * *
47023857 TAGTAGGCCTTGGGCCGATGTTTCTT
1 TAGCAAGCCTTGAGCTGGTGTTTATT
* *
47023883 TAGCAAACCTTGAGCCGGTGTTTATT
1 TAGCAAGCCTTGAGCTGGTGTTTATT
* * *
47023909 TAACAAGCCTTTG-GCAGGTGTTTCTT
1 TAGCAAGCC-TTGAGCTGGTGTTTATT
* * *
47023935 TAGCAAGCTTTAAGCCGGTGTTTATT
1 TAGCAAGCCTTGAGCTGGTGTTTATT
* * * *
47023961 TAGCACGCCTTGTA-CTAGTGGTTATG
1 TAGCAAGCCTTG-AGCTGGTGTTTATT
* *
47023987 GAGCAAGCTTTGAGCTGGTGTTTATT
1 TAGCAAGCCTTGAGCTGGTGTTTATT
47024013 TA
1 TA
47024015 TATGGCTTTG
Statistics
Matches: 161, Mismatches: 45, Indels: 8
0.75 0.21 0.04
Matches are distributed among these distances:
25 3 0.02
26 154 0.96
27 4 0.02
ACGTcount: A:0.19, C:0.16, G:0.27, T:0.38
Consensus pattern (26 bp):
TAGCAAGCCTTGAGCTGGTGTTTATT
Found at i:47023903 original size:52 final size:52
Alignment explanation
Indices: 47023779--47023972 Score: 201
Period size: 52 Copynumber: 3.7 Consensus size: 52
47023769 TGTACTTGAA
* * * *
47023779 TAGCAGGCCTTGAACTGGTGTTTATTTAGCAGGCCTTGGG-CTAGTGTTTCTT
1 TAGCAAGCCTTGAGCCGGTGTTTATTTAGCAGGCCTTGGGCCGA-TGTTTCTT
* * * ** *
47023831 TAGTAGGCCATGAGATGGTGTTTATTTAGTAGGCCTTGGGCCGATGTTTCTT
1 TAGCAAGCCTTGAGCCGGTGTTTATTTAGCAGGCCTTGGGCCGATGTTTCTT
* * * * * *
47023883 TAGCAAACCTTGAGCCGGTGTTTATTTAACAAGCCTTTGGCAGGTGTTTCTT
1 TAGCAAGCCTTGAGCCGGTGTTTATTTAGCAGGCCTTGGGCCGATGTTTCTT
* * *
47023935 TAGCAAGCTTTAAGCCGGTGTTTATTTAGCACGCCTTG
1 TAGCAAGCCTTGAGCCGGTGTTTATTTAGCAGGCCTTG
47023973 TACTAGTGGT
Statistics
Matches: 117, Mismatches: 24, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
52 115 0.98
53 2 0.02
ACGTcount: A:0.19, C:0.18, G:0.27, T:0.37
Consensus pattern (52 bp):
TAGCAAGCCTTGAGCCGGTGTTTATTTAGCAGGCCTTGGGCCGATGTTTCTT
Found at i:47024630 original size:26 final size:28
Alignment explanation
Indices: 47024601--47024665 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 28
47024591 CTTATGTGAT
47024601 AAATGGTTT-TAT-GAAAT-GACTATACG
1 AAATGGTTTATATAGAAATAGA-TATACG
*
47024627 AAAT-GTTTATATAGAAATAGATATATG
1 AAATGGTTTATATAGAAATAGATATACG
47024654 -AATGGTTGTATA
1 AAATGGTT-TATA
47024666 AAGAGTTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
25 4 0.12
26 10 0.30
27 13 0.39
28 6 0.18
ACGTcount: A:0.42, C:0.03, G:0.18, T:0.37
Consensus pattern (28 bp):
AAATGGTTTATATAGAAATAGATATACG
Found at i:47026215 original size:9 final size:9
Alignment explanation
Indices: 47026201--47026225 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
47026191 TACATGCATA
47026201 TGGCCCATT
1 TGGCCCATT
47026210 TGGCCCATT
1 TGGCCCATT
47026219 TGGCCCA
1 TGGCCCA
47026226 ATTCACATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.36, G:0.24, T:0.28
Consensus pattern (9 bp):
TGGCCCATT
Found at i:47026292 original size:28 final size:28
Alignment explanation
Indices: 47026210--47026294 Score: 91
Period size: 28 Copynumber: 3.0 Consensus size: 28
47026200 ATGGCCCATT
* * * * *
47026210 TGGCCCATTTGGCCCAATTCACATCATA
1 TGGCCCACTAGGCCCAAATCACCTTATA
*
47026238 TGGCCCATTAGG-CCAAATCACCTTTATA
1 TGGCCCACTAGGCCCAAATCACC-TTATA
*
47026266 TGGCCCGCTAGGCCCAAATCACCTTATA
1 TGGCCCACTAGGCCCAAATCACCTTATA
47026294 T
1 T
47026295 TCATGCTCAC
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
27 8 0.16
28 31 0.63
29 10 0.20
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.27
Consensus pattern (28 bp):
TGGCCCACTAGGCCCAAATCACCTTATA
Found at i:47026379 original size:40 final size:40
Alignment explanation
Indices: 47026335--47026414 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
47026325 AGCATCAATT
* *
47026335 ATCAAATTTTGCAGATTTTGGGCCCAACAGCCCATCGGGC
1 ATCAAATTTTGCAGATTATGAGCCCAACAGCCCATCGGGC
**
47026375 ATCAAATTTTGCCTATTATGAGCCCAACAGCCCATCGGGC
1 ATCAAATTTTGCAGATTATGAGCCCAACAGCCCATCGGGC
47026415 CCATAAGCCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (40 bp):
ATCAAATTTTGCAGATTATGAGCCCAACAGCCCATCGGGC
Found at i:47039170 original size:9 final size:9
Alignment explanation
Indices: 47039156--47039181 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
47039146 CGTCAACTTA
47039156 AGACTCATG
1 AGACTCATG
47039165 AGACTCATG
1 AGACTCATG
47039174 AGACTCAT
1 AGACTCAT
47039182 AAGAGCCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (9 bp):
AGACTCATG
Found at i:47044382 original size:40 final size:40
Alignment explanation
Indices: 47044181--47044374 Score: 327
Period size: 40 Copynumber: 4.9 Consensus size: 40
47044171 ATTCGGATTG
47044181 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
47044220 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
47044260 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
47044300 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
47044340 ATAACCGGGCTAAGTTCCGAAGGCATTTGAGCGAG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
47044375 AAGCTATATC
Statistics
Matches: 146, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 13 0.09
40 133 0.91
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:47044382 original size:80 final size:80
Alignment explanation
Indices: 47044181--47044401 Score: 331
Period size: 80 Copynumber: 2.8 Consensus size: 80
47044171 ATTCGGATTG
47044181 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
*
47044245 TTTGTGCGAGTTACT
66 ATTGTGCGAGTTACT
* * *
47044260 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
47044325 ATTGTGCGAGTTACT
66 ATTGTGCGAGTTACT
* * * **
47044340 ATAACCGGGCTAAGTTCCGAAGGCATTTGAGCGAG-AAGCTATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
47044402 TACTTGGTTT
Statistics
Matches: 128, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
79 28 0.22
80 100 0.78
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.22
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
ATTGTGCGAGTTACT
Found at i:47045838 original size:29 final size:29
Alignment explanation
Indices: 47045796--47045871 Score: 143
Period size: 29 Copynumber: 2.6 Consensus size: 29
47045786 TCTTGGCTAT
*
47045796 GTGGGCCCACATGGGCTGCAATATGGGCC
1 GTGGGCCCACATGGGCCGCAATATGGGCC
47045825 GTGGGCCCACATGGGCCGCAATATGGGCC
1 GTGGGCCCACATGGGCCGCAATATGGGCC
47045854 GTGGGCCCACATGGGCCG
1 GTGGGCCCACATGGGCCG
47045872 TGGGCCCATT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.16, C:0.30, G:0.39, T:0.14
Consensus pattern (29 bp):
GTGGGCCCACATGGGCCGCAATATGGGCC
Found at i:47045840 original size:17 final size:17
Alignment explanation
Indices: 47045818--47045879 Score: 71
Period size: 17 Copynumber: 3.9 Consensus size: 17
47045808 GGGCTGCAAT
47045818 ATGGGCCGTGGGCCCAC
1 ATGGGCCGTGGGCCCAC
* *
47045835 ATGGGCC----G-CAAT
1 ATGGGCCGTGGGCCCAC
47045847 ATGGGCCGTGGGCCCAC
1 ATGGGCCGTGGGCCCAC
47045864 ATGGGCCGTGGGCCCA
1 ATGGGCCGTGGGCCCA
47045880 TTTTCACTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
12 9 0.25
13 1 0.03
16 1 0.03
17 25 0.69
ACGTcount: A:0.15, C:0.32, G:0.40, T:0.13
Consensus pattern (17 bp):
ATGGGCCGTGGGCCCAC
Found at i:47047797 original size:40 final size:40
Alignment explanation
Indices: 47047742--47047959 Score: 253
Period size: 40 Copynumber: 5.5 Consensus size: 40
47047732 CGGATGATAA
* * *
47047742 CCGGGCTAAGTCCCGAAGGCATTTGCACTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTA-TAT
47047782 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTATAT
* * **
47047822 CCGGGTTAAGTCCCAAAGGCATTTTTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTATAT
* *
47047862 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTATAT
* * * *
47047902 TCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTA-CTATAT
* * *
47047942 -CTGGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
47047960 TACCTGGCTT
Statistics
Matches: 156, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
39 17 0.11
40 139 0.89
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTATAT
Found at i:47052959 original size:47 final size:47
Alignment explanation
Indices: 47052896--47053158 Score: 481
Period size: 47 Copynumber: 5.6 Consensus size: 47
47052886 ATGATAGTAT
47052896 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
47052943 GGCCTAATGGCCGATGTGATGAATGTAAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* *
47052990 TGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
47053037 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
47053084 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
47053131 TGCCTAATGGCCGATGTGATGAATGTGA
1 GGCCTAATGGCCGATGTGATGAATGTGA
47053159 TAATGCCTAA
Statistics
Matches: 209, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 209 1.00
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.31
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:47053103 original size:22 final size:23
Alignment explanation
Indices: 47053075--47053155 Score: 67
Period size: 22 Copynumber: 3.5 Consensus size: 23
47053065 AAGTGTATAT
47053075 ATGTGAT-AATGCCTAATGGCCG
1 ATGTGATGAATGCCTAATGGCCG
*** ****
47053097 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGCCTAA-TG-GCCG
47053122 ATGTGAT-AATGCCTAATGGCCG
1 ATGTGATGAATGCCTAATGGCCG
47053144 ATGTGATGAATG
1 ATGTGATGAATG
47053156 TGATAATGCC
Statistics
Matches: 41, Mismatches: 14, Indels: 7
0.66 0.23 0.11
Matches are distributed among these distances:
22 14 0.34
23 12 0.29
24 8 0.20
25 7 0.17
ACGTcount: A:0.31, C:0.10, G:0.28, T:0.31
Consensus pattern (23 bp):
ATGTGATGAATGCCTAATGGCCG
Found at i:47053160 original size:31 final size:31
Alignment explanation
Indices: 47053122--47053189 Score: 127
Period size: 31 Copynumber: 2.2 Consensus size: 31
47053112 AAGTGTATAT
47053122 ATGTGATAATGCCTAATGGCCGATGTGATGA
1 ATGTGATAATGCCTAATGGCCGATGTGATGA
*
47053153 ATGTGATAATGCCTAATGGCCTATGTGATGA
1 ATGTGATAATGCCTAATGGCCGATGTGATGA
47053184 ATGTGA
1 ATGTGA
47053190 AAGTGTATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.29, C:0.12, G:0.28, T:0.31
Consensus pattern (31 bp):
ATGTGATAATGCCTAATGGCCGATGTGATGA
Found at i:47053167 original size:78 final size:78
Alignment explanation
Indices: 47053075--47053236 Score: 306
Period size: 78 Copynumber: 2.1 Consensus size: 78
47053065 AAGTGTATAT
*
47053075 ATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAATGCCTAATG
1 ATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
47053140 GCCGATGTGATGA
66 GCCGATGTGATGA
*
47053153 ATGTGATAATGCCTAATGGCCTATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
1 ATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
47053218 GCCGATGTGATGA
66 GCCGATGTGATGA
47053231 ATGTGA
1 ATGTGA
47053237 AAGTGTATAT
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
78 82 1.00
ACGTcount: A:0.31, C:0.10, G:0.28, T:0.31
Consensus pattern (78 bp):
ATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
GCCGATGTGATGA
Found at i:47053189 original size:172 final size:173
Alignment explanation
Indices: 47052981--47053332 Score: 643
Period size: 172 Copynumber: 2.0 Consensus size: 173
47052971 AAGTGTATAT
*
47052981 ATGTGATAATGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
1 ATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
*
47053046 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTGATGAATGTG
66 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
*
47053111 AAAGTG-TATATATGTGATAATGCCTAATGGCCGATGTGATGA
131 AAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
47053153 ATGTGATAATGCCTAATGGCCTATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
1 ATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
47053218 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
66 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
*
47053283 AAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGA
131 AAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
47053327 ATGTGA
1 ATGTGA
47053333 AAGTGTATAT
Statistics
Matches: 173, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
172 133 0.77
174 40 0.23
ACGTcount: A:0.31, C:0.09, G:0.29, T:0.31
Consensus pattern (173 bp):
ATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
AAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:47053203 original size:25 final size:25
Alignment explanation
Indices: 47053174--47053253 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
47053164 CCTAATGGCC
47053174 TATGTGATGAATGTGAAAGTGTATA
1 TATGTGATGAATGTGAAAGTGTATA
* *** ***
47053199 TATGTGAT-AAGGCCTAA-TG-GCC
1 TATGTGATGAATGTGAAAGTGTATA
*
47053221 GATGTGATGAATGTGAAAGTGTATA
1 TATGTGATGAATGTGAAAGTGTATA
47053246 TATGTGAT
1 TATGTGAT
47053254 AAGGCCTAAT
Statistics
Matches: 36, Mismatches: 16, Indels: 6
0.62 0.28 0.10
Matches are distributed among these distances:
22 7 0.19
23 7 0.19
24 7 0.19
25 15 0.42
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.34
Consensus pattern (25 bp):
TATGTGATGAATGTGAAAGTGTATA
Found at i:47053204 original size:141 final size:141
Alignment explanation
Indices: 47052908--47053363 Score: 588
Period size: 125 Copynumber: 3.3 Consensus size: 141
47052898 CCTAATGGCC
47052908 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTAAAA
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTAAAA
* *
47052973 GTGTATATATGTGATAATGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
66 GTGTATATATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGTGATAAG
* **
47053038 GCCTAATGGCC
131 GCATAATGGAA
* *
47053049 GATGTGATGAATGTGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAA
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTAAAA
*
47053114 GTGTATATATGTGATAATGCCTAATGGCCGATGTGATGAATGTGATAA-TGC--CTA----AT--
66 GTGTATATATGTGATAATGCCTAATGGCCGATGTGATGAATGTGA-AAGTGCATATATGTGATAA
*
47053170 GGC---CT----
130 GGCATAATGGAA
*
47053175 -ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTAAAA
* *
47053239 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA
66 GTGTATATATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTG--CATATATGTGATA
* * **
47053304 GGGCCTAATGGCC
129 AGGCATAATGGAA
47053317 GATGTGATGAATGTGAAAGTGTATATATATGTGAT-AGGACCTAATGG
1 GATGTGATGAATGTGAAAGTG--TATATATGTGATAAGG-CCTAATGG
47053364 GGGATGATGT
Statistics
Matches: 281, Mismatches: 11, Indels: 42
0.84 0.03 0.13
Matches are distributed among these distances:
124 2 0.01
125 109 0.39
129 2 0.01
130 1 0.00
133 5 0.02
135 5 0.02
138 1 0.00
139 2 0.01
141 109 0.39
142 2 0.01
143 20 0.07
144 3 0.01
145 20 0.07
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.31
Consensus pattern (141 bp):
GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTAAAA
GTGTATATATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGTGATAAG
GCATAATGGAA
Found at i:47053314 original size:49 final size:47
Alignment explanation
Indices: 47053153--47053363 Score: 343
Period size: 47 Copynumber: 4.4 Consensus size: 47
47053143 GATGTGATGA
* *
47053153 ATGTGATAATGCCTAATGGCCTATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
47053200 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
47053247 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
*
47053296 ATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
47053345 ATGTGAT-AGGACCTAATGG
1 ATGTGATAAGG-CCTAATGG
47053364 GGGATGATGT
Statistics
Matches: 157, Mismatches: 4, Indels: 4
0.95 0.02 0.02
Matches are distributed among these distances:
47 87 0.55
48 2 0.01
49 68 0.43
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.31
Consensus pattern (47 bp):
ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
Found at i:47053338 original size:96 final size:95
Alignment explanation
Indices: 47053153--47053363 Score: 345
Period size: 96 Copynumber: 2.2 Consensus size: 95
47053143 GATGTGATGA
* *
47053153 ATGTGATAATGCCTAATGGCCTATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
47053218 GCCGATGTGATGAATGTGAAAGTG-TATAT
66 GCCGATGTGATGAATGTGAAAGTGATATAT
*
47053247 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAA
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAA
47053312 TGGCCGATGTGATGAATGTGAAAGTGTATATAT
64 TGGCCGATGTGATGAATGTGAAAGTG-ATATAT
47053345 ATGTGAT-AGGACCTAATGG
1 ATGTGATAAGG-CCTAATGG
47053364 GGGATGATGT
Statistics
Matches: 109, Mismatches: 3, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
94 40 0.37
96 46 0.42
97 3 0.03
98 20 0.18
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.31
Consensus pattern (95 bp):
ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
GCCGATGTGATGAATGTGAAAGTGATATAT
Found at i:47053380 original size:41 final size:46
Alignment explanation
Indices: 47053177--47053387 Score: 228
Period size: 49 Copynumber: 4.6 Consensus size: 46
47053167 AATGGCCTAT
47053177 GTGATGAATGTGAAAGTG--TATATATGTGATAAGG-CCTAATGGCCGA
1 GTGATGAATGTG-AAGTGTATATATATGTGAT-AGGACCTAATGG-CGA
47053223 TGTGATGAATGTGAAAGTG--TATATATGTGATAAGG-CCTAATGGCCGA
1 -GTGATGAATGTG-AAGTGTATATATATGTGAT-AGGACCTAATGG-CGA
*
47053270 TGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGA
1 -GTGATGAATGTG-AAGTGTATATATATGTGATAGGACCTAATGG-CGA
47053319 TGTGATGAATGTGAAAGTGTATATATATGTGATAGGACCTAATGG-G-
1 -GTGATGAATGTG-AAGTGTATATATATGTGATAGGACCTAATGGCGA
47053365 G-GATG-ATGTG-AGTGTATATATAT
1 GTGATGAATGTGAAGTGTATATATAT
47053388 AGGGCCTAAT
Statistics
Matches: 160, Mismatches: 1, Indels: 12
0.92 0.01 0.07
Matches are distributed among these distances:
41 13 0.08
43 5 0.03
44 4 0.03
45 1 0.01
47 66 0.41
48 3 0.02
49 68 0.43
ACGTcount: A:0.32, C:0.07, G:0.30, T:0.31
Consensus pattern (46 bp):
GTGATGAATGTGAAGTGTATATATATGTGATAGGACCTAATGGCGA
Found at i:47053579 original size:37 final size:37
Alignment explanation
Indices: 47053523--47053601 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
47053513 CCGAGCTCTA
* * * *
47053523 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
*
47053560 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGAGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
47053597 AAGAC
1 AAGAC
47053602 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
Found at i:47055503 original size:43 final size:43
Alignment explanation
Indices: 47055455--47055553 Score: 189
Period size: 43 Copynumber: 2.3 Consensus size: 43
47055445 TTGGTTTTCA
47055455 GCACTAAGTGTGCGGGCAAGAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAAGAAGTGTTCACGGTTGTGAGATTG
*
47055498 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAAGAAGTGTTCACGGTTGTGAGATTG
47055541 GCACTAAGTGTGC
1 GCACTAAGTGTGC
47055554 AGGCTTGAAA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.23, C:0.15, G:0.35, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAAGAAGTGTTCACGGTTGTGAGATTG
Found at i:47055574 original size:29 final size:29
Alignment explanation
Indices: 47055539--47055612 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
47055529 GTTGTGAGAT
*
47055539 TGGCACTAAGTGTGC-AGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGA-G-TTGAAAGTACA
*
47055568 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
47055597 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
47055613 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 5 0.12
29 35 0.85
30 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:47056046 original size:40 final size:40
Alignment explanation
Indices: 47055923--47056238 Score: 318
Period size: 40 Copynumber: 7.9 Consensus size: 40
47055913 TCGAATGATG
** *
47055923 TCCGGGCTAAGTCCCGAA-AGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATA
* ** * * *
47055963 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCATGCTAGTGA-TATA
*
47056003 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
*
47056043 TCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * *
47056083 TCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* *
47056123 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* ** * * *
47056163 TCCGTGCTAAACCCCAAAGAGCATTCGTGCTGGTG-TCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGAT-ATA
* * * *
47056203 TCCGGGCTAGGTCCCGAAGAGTAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
47056239 CGTGTATTCG
Statistics
Matches: 233, Mismatches: 36, Indels: 13
0.83 0.13 0.05
Matches are distributed among these distances:
39 2 0.01
40 212 0.91
41 19 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:47056059 original size:80 final size:80
Alignment explanation
Indices: 47055923--47056223 Score: 358
Period size: 80 Copynumber: 3.8 Consensus size: 80
47055913 TCGAATGATG
* * * *
47055923 TCCGGGCTAAGTCCCGAA-AGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAG-GCA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATATCCGGGCTAAGTTCCGAAGAGCA
* * * *
47055985 TTGGTGCGAGTTACTAAA
64 TTCGTGCTAGTGA-TATA
* *
47056003 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAAGAGCATT
*
47056068 CATGCTAGTGATATA
66 CGTGCTAGTGATATA
* *
47056083 TCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAAGAGCATT
47056148 CGTGCTAGTGATATA
66 CGTGCTAGTGATATA
* ** * * * *
47056163 TCCGTGCTAAACCCCAAAGAGCATTCGTGCTGGTG-TCATATCCGGGCTAGGTCCCGAAGAG
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGAT-ATATCCGGGCTAAGTTCCGAAGAG
47056224 TAATCATGCT
Statistics
Matches: 194, Mismatches: 23, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
79 1 0.01
80 167 0.86
81 20 0.10
82 6 0.03
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAAGAGCATT
CGTGCTAGTGATATA
Found at i:47059642 original size:47 final size:47
Alignment explanation
Indices: 47059581--47059943 Score: 629
Period size: 47 Copynumber: 7.6 Consensus size: 47
47059571 GATAGTATGA
47059581 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
1 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
47059628 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
1 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
**
47059675 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAATT
1 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
* *
47059722 CCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGATAATG
1 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
47059769 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
1 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
*
47059816 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGG
1 CCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGG
47059865 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT-AGG
1 CCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGG
47059913 CCTAATGGCCGATGTGATGAATGTGATAAGT
1 CCTAATGGCCGATGTGATGAATGTGA-AAGT
47059944 CCCAAAGGGC
Statistics
Matches: 305, Mismatches: 8, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 213 0.70
48 28 0.09
49 64 0.21
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.31
Consensus pattern (47 bp):
CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
Found at i:47060117 original size:37 final size:37
Alignment explanation
Indices: 47060061--47060139 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
47060051 CCGAGCTCTA
* * *
47060061 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
47060098 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
47060135 AAGAC
1 AAGAC
47060140 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:47061755 original size:20 final size:20
Alignment explanation
Indices: 47061730--47061783 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
47061720 ACAGAAACAA
47061730 GGGTATCAATATTTATTTTT
1 GGGTATCAATATTTATTTTT
47061750 GGGTATCAATATTTATTTTT
1 GGGTATCAATATTTATTTTT
47061770 GGGTATCAATATTT
1 GGGTATCAATATTT
47061784 TATGAAAAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.26, C:0.06, G:0.17, T:0.52
Consensus pattern (20 bp):
GGGTATCAATATTTATTTTT
Found at i:47062869 original size:18 final size:18
Alignment explanation
Indices: 47062846--47062901 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
47062836 AGTCTATTCC
**
47062846 ATATCATTTGTTATTTCA
1 ATATCATTTCCTATTTCA
47062864 ATATCATTTCCTATTTCA
1 ATATCATTTCCTATTTCA
*
47062882 ACATCATTTTCC-ATTTCA
1 ATATCA-TTTCCTATTTCA
47062900 AT
1 AT
47062902 GTTATTATCT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
18 28 0.85
19 5 0.15
ACGTcount: A:0.29, C:0.20, G:0.02, T:0.50
Consensus pattern (18 bp):
ATATCATTTCCTATTTCA
Found at i:47066644 original size:29 final size:28
Alignment explanation
Indices: 47066599--47066653 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
47066589 GCTAATAATT
*
47066599 CGATTTAGTCCACAACCTTGTTCTTTCCC
1 CGATTTAGTCCACAACC-TCTTCTTTCCC
*
47066628 CGATTTAGGT-CAGAACCTCTTCTTTC
1 CGATTTA-GTCCACAACCTCTTCTTTC
47066654 TTGATCTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 8 0.35
29 13 0.57
30 2 0.09
ACGTcount: A:0.18, C:0.31, G:0.13, T:0.38
Consensus pattern (28 bp):
CGATTTAGTCCACAACCTCTTCTTTCCC
Found at i:47071703 original size:23 final size:23
Alignment explanation
Indices: 47071677--47071734 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
47071667 ATCGCAGTGT
*
47071677 AGCTGCTAATAGTAAAATAGCAA
1 AGCTGCTAATAGTAAAACAGCAA
* * *
47071700 AGCTACTAATAGTAAAGCAGTAA
1 AGCTGCTAATAGTAAAACAGCAA
47071723 AGCTGCTAATAG
1 AGCTGCTAATAG
47071735 CGGTAAACGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.45, C:0.14, G:0.19, T:0.22
Consensus pattern (23 bp):
AGCTGCTAATAGTAAAACAGCAA
Found at i:47081005 original size:24 final size:24
Alignment explanation
Indices: 47080971--47081019 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
47080961 GAAATCTAGG
*
47080971 TGGATTTCTCCTTGGGTGTCGTCT
1 TGGATTCCTCCTTGGGTGTCGTCT
47080995 TGGATTCCTCCTTGGGTGTCGTCT
1 TGGATTCCTCCTTGGGTGTCGTCT
47081019 T
1 T
47081020 TATCAATTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.04, C:0.22, G:0.29, T:0.45
Consensus pattern (24 bp):
TGGATTCCTCCTTGGGTGTCGTCT
Found at i:47083466 original size:60 final size:60
Alignment explanation
Indices: 47083345--47083486 Score: 153
Period size: 60 Copynumber: 2.4 Consensus size: 60
47083335 ATCAGAGTTA
* * *
47083345 ACTAGGCCTTAGCCCATATCAATATTAATCTGGGCCATATCCCTTTACAATATCAGAATAT
1 ACTAGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCTTAACAATATCAGAATAT
* * * *
47083406 ACTAGGCCTAGCCCATATTAGTATCAATCTGGGCCGTAGCCCTATAACAA-GTC-GAGATAT
1 ACTAGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCT-TAACAATATCAGA-ATAT
* * *
47083466 ATTGGGCCTTGCCCATATCAA
1 ACTAGGCCTAGCCCATATCAA
47083487 CACAGTTGGC
Statistics
Matches: 67, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
59 2 0.03
60 52 0.78
61 13 0.19
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.28
Consensus pattern (60 bp):
ACTAGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTTAACAATATCAGAATAT
Found at i:47104718 original size:21 final size:21
Alignment explanation
Indices: 47104694--47104763 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
47104684 TGATCTGAAC
47104694 TCATTGAGTTGTGGTCTGAGT
1 TCATTGAGTTGTGGTCTGAGT
* * *
47104715 TCA-TGATATATGTGACATCTGAAT
1 TCATTGA-GT-TGTG--GTCTGAGT
*
47104739 TCATTGAGTTGTGGTATGAGT
1 TCATTGAGTTGTGGTCTGAGT
47104760 TCAT
1 TCAT
47104764 GATGTGTGTG
Statistics
Matches: 37, Mismatches: 7, Indels: 10
0.69 0.13 0.19
Matches are distributed among these distances:
20 3 0.08
21 13 0.35
22 4 0.11
23 4 0.11
24 10 0.27
25 3 0.08
ACGTcount: A:0.23, C:0.10, G:0.26, T:0.41
Consensus pattern (21 bp):
TCATTGAGTTGTGGTCTGAGT
Found at i:47107903 original size:47 final size:47
Alignment explanation
Indices: 47107849--47108222 Score: 523
Period size: 47 Copynumber: 8.0 Consensus size: 47
47107839 TTAGGATTTT
** *
47107849 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* ** *
47107896 ATGTGATGAATGTGAGCATGCATACGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
47107943 ATGTGGTGAATATGAACATGTATATATGTGATAAGGCCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
47107990 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
47108037 ATGTGATGAATGTGAACATGTATATATGTGATGAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
47108084 ATGTGATGAATGTGAGCATGCATATATATGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
47108131 ATGTGATGAATTTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
47108178 ATGTGGTGAATATGAACATGCACATATGTGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
47108223 TAGTGTGAAA
Statistics
Matches: 288, Mismatches: 39, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 288 1.00
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:47108435 original size:37 final size:37
Alignment explanation
Indices: 47108385--47108530 Score: 229
Period size: 37 Copynumber: 3.9 Consensus size: 37
47108375 GGAAATATAT
* * * *
47108385 TCCGGGTGAGACCCGATGACTACGTGTAGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
47108422 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
47108459 CCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
47108496 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
47108531 CGTCTGAGCT
Statistics
Matches: 101, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 101 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:47109971 original size:47 final size:47
Alignment explanation
Indices: 47109909--47110444 Score: 703
Period size: 47 Copynumber: 11.1 Consensus size: 47
47109899 ACACGTTTCG
* * * **
47109909 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * * *
47109956 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCATATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
47110003 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
47110050 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ** *
47110097 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCATCA
47110150 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ** *
47110197 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCATCA
*
47110250 CATTGGCCATTCGGCCTTATAACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
47110297 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
*
47110348 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
47110395 CAGTGGTCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
47110442 CAT
1 CAT
47110445 AAAATCCTAA
Statistics
Matches: 436, Mismatches: 37, Indels: 32
0.86 0.07 0.06
Matches are distributed among these distances:
47 305 0.70
49 2 0.00
51 46 0.11
53 83 0.19
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:47110169 original size:100 final size:100
Alignment explanation
Indices: 47110036--47110422 Score: 697
Period size: 100 Copynumber: 3.9 Consensus size: 100
47110026 ACATACGCAT
47110036 GTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATT
1 GTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATT
47110101 GGCCATTCGGCCTTATCACGCATATATATATACAG
66 GGCCATTCGGCCTTATCACGCATATATATATACAG
47110136 GTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATT
1 GTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATT
47110201 GGCCATTCGGCCTTATCACGCATATATATATACAG
66 GGCCATTCGGCCTTATCACGCATATATATATACAG
*
47110236 GTTCACATTCATCACATTGGCCATTCGGCCTTATAACACATACGCATGTTCACATTCATCACATT
1 GTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATT
* *
47110301 GGCCATTCGGCCTTATCA--CACATATATATACGG
66 GGCCATTCGGCCTTATCACGCATATATATATACAG
* *
47110334 GTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACAGT
1 GTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATT
* *
47110399 GGTCATTCGGCCTTATCACACATA
66 GGCCATTCGGCCTTATCACGCATA
47110423 CGCATGTTCA
Statistics
Matches: 277, Mismatches: 8, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
98 92 0.33
100 185 0.67
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.30
Consensus pattern (100 bp):
GTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATT
GGCCATTCGGCCTTATCACGCATATATATATACAG
Found at i:47110182 original size:147 final size:143
Alignment explanation
Indices: 47109909--47110444 Score: 688
Period size: 147 Copynumber: 3.7 Consensus size: 143
47109899 ACACGTTTCG
* * * **
47109909 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
*
47109974 ATC-T-CATATATGCATGTTCATATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATG
66 ATCATACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATG
47110037 TTCACATTCATCA
131 TTCACATTCATCA
47110050 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* * *
47110115 ATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
66 AT----CATACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
47110180 CATGTTCACATTCATCA
127 CATGTTCACATTCATCA
* ** *
47110197 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTC
1 CATTGGCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCATCACATTGGCCATTC
* *
47110262 GGCCTTAT-A-ACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATA
60 GGCCTTATCATACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATA
***
47110325 TATATACGGGTTCACATTCATCA
125 CGCAT----GTTCACATTCATCA
* * *
47110348 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACAGTGGTCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* * *
47110413 ATC--ACACATACGCATGTTCACATCCATCACAT
66 ATCATACATATATGCATGTTCACATTCATCACAT
47110445 AAAATCCTAA
Statistics
Matches: 349, Mismatches: 29, Indels: 30
0.86 0.07 0.07
Matches are distributed among these distances:
141 62 0.18
145 66 0.19
146 1 0.00
147 141 0.40
148 1 0.00
149 2 0.01
151 36 0.10
153 40 0.11
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (143 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCATACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATG
TTCACATTCATCA
Found at i:47112757 original size:85 final size:85
Alignment explanation
Indices: 47112628--47112806 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
47112618 TATTTTATTG
*
47112628 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
47112693 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
47112713 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
47112778 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
47112798 CCCATGCTC
1 CCCATGCTC
47112807 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:47114327 original size:57 final size:58
Alignment explanation
Indices: 47114255--47114363 Score: 166
Period size: 57 Copynumber: 1.9 Consensus size: 58
47114245 GCCCACTGAT
* *
47114255 CGATCTCGCACACATAGTGCTTGGTT-GAAGAACTCGCACACACAGTGCCTCAATTAC
1 CGATCTCGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTCAATTAC
* * *
47114312 CGATTTCGCACACATAGTGCTCGGTTAAAAGAATTTGCACACACAGTGCCTC
1 CGATCTCGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTC
47114364 TAATCATTCG
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
57 24 0.52
58 22 0.48
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.24
Consensus pattern (58 bp):
CGATCTCGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTCAATTAC
Found at i:47114607 original size:40 final size:40
Alignment explanation
Indices: 47114575--47115166 Score: 887
Period size: 40 Copynumber: 14.8 Consensus size: 40
47114565 CCAGCATGAT
* * * *
47114575 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* ** *
47114615 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * *
47114655 TGCTCTTCGGAACTTAGCTCGGATACATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
47114695 TGCTCCTCGGGACTTAGCCTGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * * *
47114735 TGCTCTTCAGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
47114775 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACAAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
47114815 TGCTCCTCGGGACTTAGCCCGGATATACCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
47114855 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
47114895 TGCTCCTCGGGACTTAGCCTGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
47114935 TGCTCCTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
47114975 TGCTCTTCGGGATTTAGACCGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
47115015 TGCTCCTCGGGACTTAGCCTGGATATACCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
47115055 TGCTCCTCGGGACTTAGCCCGGATATATCGCTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
47115095 TGCTCCTCGGGACTTAGCCCGAATACATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
47115135 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCCTCGGGACTTAGCCCGGATATATCACT
47115167 CTCAATTCTC
Statistics
Matches: 498, Mismatches: 54, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 498 1.00
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:47115117 original size:23 final size:23
Alignment explanation
Indices: 47115046--47115118 Score: 59
Period size: 23 Copynumber: 3.4 Consensus size: 23
47115036 GATATACCAC
47115046 TAGCACGAATGCTCCTCGGGACT
1 TAGCACGAATGCTCCTCGGGACT
* * * *
47115069 TAGCCCGGAT-AT-ATC--G-C-
1 TAGCACGAATGCTCCTCGGGACT
47115086 TAGCACGAATGCTCCTCGGGACT
1 TAGCACGAATGCTCCTCGGGACT
*
47115109 TAGCCCGAAT
1 TAGCACGAAT
47115119 ACATCACTAG
Statistics
Matches: 35, Mismatches: 9, Indels: 12
0.62 0.16 0.21
Matches are distributed among these distances:
17 8 0.23
18 2 0.06
19 3 0.09
21 3 0.09
22 2 0.06
23 17 0.49
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (23 bp):
TAGCACGAATGCTCCTCGGGACT
Found at i:47116763 original size:47 final size:47
Alignment explanation
Indices: 47116701--47117134 Score: 625
Period size: 47 Copynumber: 9.1 Consensus size: 47
47116691 ACACGTTTCG
* * * **
47116701 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
47116748 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
47116795 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
47116842 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ** *
47116889 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCATCA
*
47116942 CATTGGCCATTCGGCCTTATAACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
47116989 CATTGGCCATTCGGCCTTATCACACATATATATGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT--GTTCACATTCATCA
*
47117038 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* *
47117085 CAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
47117132 CAT
1 CAT
47117135 AAAATCCTAA
Statistics
Matches: 353, Mismatches: 26, Indels: 16
0.89 0.07 0.04
Matches are distributed among these distances:
47 266 0.75
49 45 0.13
51 1 0.00
53 41 0.12
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:47119443 original size:85 final size:85
Alignment explanation
Indices: 47119314--47119492 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
47119304 TATTTTATTG
*
47119314 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
47119379 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
47119399 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
47119464 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
47119484 CCCATGCTC
1 CCCATGCTC
47119493 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:47127627 original size:45 final size:45
Alignment explanation
Indices: 47127554--47127641 Score: 122
Period size: 45 Copynumber: 2.0 Consensus size: 45
47127544 GAACTATATG
* * * *
47127554 ATCTAAACTTATTGATTTTTGGTCTGAGTTCATGATATATGTGAC
1 ATCTAAACTCATTGAGTTGTGGTATGAGTTCATGATATATGTGAC
* *
47127599 ATCTGAACTCATTGAGTTGTGGTATGAGTTCATGATGTATGTG
1 ATCTAAACTCATTGAGTTGTGGTATGAGTTCATGATATATGTG
47127642 GCACATGTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.25, C:0.10, G:0.23, T:0.42
Consensus pattern (45 bp):
ATCTAAACTCATTGAGTTGTGGTATGAGTTCATGATATATGTGAC
Found at i:47135905 original size:27 final size:27
Alignment explanation
Indices: 47135820--47135884 Score: 130
Period size: 27 Copynumber: 2.4 Consensus size: 27
47135810 TTTACGCACG
47135820 AGGGGCAAAATAGTCATTTAACACCCT
1 AGGGGCAAAATAGTCATTTAACACCCT
47135847 AGGGGCAAAATAGTCATTTAACACCCT
1 AGGGGCAAAATAGTCATTTAACACCCT
47135874 AGGGGCAAAAT
1 AGGGGCAAAAT
47135885 GGTAATTTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (27 bp):
AGGGGCAAAATAGTCATTTAACACCCT
Found at i:47135915 original size:27 final size:27
Alignment explanation
Indices: 47135885--47136057 Score: 265
Period size: 27 Copynumber: 6.4 Consensus size: 27
47135875 GGGGCAAAAT
* *
47135885 GGTAATTTTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
47135912 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
47135939 GATAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
47135966 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
47135993 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
47136020 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
47136047 GGTAAATCTAC
1 GGTAATTCTAC
47136058 AACTTATCCA
Statistics
Matches: 131, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 131 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:47140345 original size:40 final size:40
Alignment explanation
Indices: 47140284--47140513 Score: 313
Period size: 40 Copynumber: 5.8 Consensus size: 40
47140274 GATGATAATG
** * *
47140284 GGGCTAAGTCCCGAAAACATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
47140324 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
* *
47140364 GGGCTAAGCCCCGAAGGCATTTGTGCTAGTTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
*
47140404 GGCCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
* **
47140444 GGGCTAAGTCCCGAAGGCATTTGTACGAACTACTATATT-C
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCC
*
47140484 GGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT
47140514 AGCTATATCC
Statistics
Matches: 170, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
39 2 0.01
40 165 0.97
41 1 0.01
42 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
Found at i:47143875 original size:27 final size:26
Alignment explanation
Indices: 47143858--47143927 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
47143848 ATATTAAGTC
47143858 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
47143885 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
47143913 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
47143928 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:47143921 original size:28 final size:28
Alignment explanation
Indices: 47143858--47143955 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
47143848 ATATTAAGTC
*
47143858 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
47143885 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
47143913 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
47143942 CGCACACTTAGTGC
1 CGCACACTTAGTGC
47143956 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:47144419 original size:12 final size:12
Alignment explanation
Indices: 47144402--47144428 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
47144392 TGGGCATACT
47144402 TATGTATATATA
1 TATGTATATATA
47144414 TATGTATATATA
1 TATGTATATATA
47144426 TAT
1 TAT
47144429 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:47148049 original size:27 final size:26
Alignment explanation
Indices: 47148001--47148052 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
47147991 GCGAGGCTGC
*
47148001 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
47148027 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
47148053 TTGTAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:47148736 original size:27 final size:27
Alignment explanation
Indices: 47148704--47149037 Score: 436
Period size: 27 Copynumber: 12.4 Consensus size: 27
47148694 GGGGTAAAAT
* * *
47148704 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
47148731 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
47148758 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
47148785 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
47148812 GGTAATTCTACCCTACAAGGCTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
47148839 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
47148866 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
47148893 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
47148920 TGAAATTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
47148947 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
47148974 AGTAATTCTACCCTAC-AGGTGTATTTC
1 GGTAATTCTACCCTACAAGG-GTATTTC
* * * *
47149001 AGTAATTCTACCTTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
47149028 GGTAATTCTA
1 GGTAATTCTA
47149038 TAACTTATCC
Statistics
Matches: 268, Mismatches: 37, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
26 2 0.01
27 264 0.99
28 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:47154395 original size:56 final size:56
Alignment explanation
Indices: 47154335--47154486 Score: 196
Period size: 56 Copynumber: 2.7 Consensus size: 56
47154325 CCAGACAAGT
* * * * *
47154335 TCTTACTCACATACACATATCGGAGTCACATATCGATGCCAACGTATAAAACGTGG
1 TCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATAAAACGTCG
* *
47154391 TCTTACTCGCACACATATATCAGAATCACATATCGATGCCGACGTATAAAACGTCG
1 TCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATAAAACGTCG
* * * * *
47154447 TCTTTCTTGCACACATATATCGGATTCACATGTCTATGCC
1 TCTTACTCGCACACATATATCGGAATCACATATCGATGCC
47154487 TCATATACAT
Statistics
Matches: 83, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
56 83 1.00
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.28
Consensus pattern (56 bp):
TCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATAAAACGTCG
Found at i:47158287 original size:46 final size:47
Alignment explanation
Indices: 47158181--47158300 Score: 138
Period size: 46 Copynumber: 2.6 Consensus size: 47
47158171 TGTCTTCGAC
** * *
47158181 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCGTATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCG-ATATATATAAT
*
47158229 ATAGG-CTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATA-ACTGAT
1 AT-GGACTTACATGGCTCATTCCTGTCTCCAAAGCCGATATATA-TAAT
*
47158275 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
47158301 CTGTCCTGTC
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
45 3 0.05
46 30 0.48
48 28 0.44
49 2 0.03
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.35
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCGATATATATAAT
Found at i:47165640 original size:46 final size:48
Alignment explanation
Indices: 47165536--47165649 Score: 126
Period size: 48 Copynumber: 2.4 Consensus size: 48
47165526 TGTCTTCGAC
** * * *
47165536 ATGGACTTACATGAATTATTCTAGTCTCTAATGCCATATATATATAAT
1 ATGGACTTACATGGCTCATTCTAGTCTCCAAAGCCATATATATATAAT
* * *
47165584 ATGGGA-TTACATGGCTCATTCTTGTCTCCAAAGCCATATA-A-CTGAT
1 AT-GGACTTACATGGCTCATTCTAGTCTCCAAAGCCATATATATATAAT
47165630 ATGGACTTACATGGCTCATT
1 ATGGACTTACATGGCTCATT
47165650 TCTGGCCTGT
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
45 3 0.05
46 19 0.34
47 1 0.02
48 30 0.54
49 3 0.05
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (48 bp):
ATGGACTTACATGGCTCATTCTAGTCTCCAAAGCCATATATATATAAT
Found at i:47169276 original size:41 final size:42
Alignment explanation
Indices: 47169215--47169305 Score: 139
Period size: 41 Copynumber: 2.2 Consensus size: 42
47169205 AATAGGGTTA
*
47169215 ATGAGACTACGTGTAAGACCATATCTAGGATATAGCATCGAT
1 ATGAGACTACGTGTAAGACCATACCTAGGATATAGCATCGAT
* * *
47169257 ATGAGACTAC-TGTAAGACCATACCTGGGATATGGTATCGAT
1 ATGAGACTACGTGTAAGACCATACCTAGGATATAGCATCGAT
47169298 ATGAGACT
1 ATGAGACT
47169306 TTATGTAATA
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
41 35 0.78
42 10 0.22
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.26
Consensus pattern (42 bp):
ATGAGACTACGTGTAAGACCATACCTAGGATATAGCATCGAT
Found at i:47174600 original size:47 final size:47
Alignment explanation
Indices: 47174548--47174869 Score: 394
Period size: 47 Copynumber: 6.6 Consensus size: 47
47174538 GATAATTGTG
* *
47174548 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
47174595 ATGTGAAAGTGTATATATGTGATAATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 A--T----GTG-A-A-A-GTG-T-ATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
47174654 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTAATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
47174703 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
47174750 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
47174797 ATGTGAAAGTGTATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAG-GCCTAATGGCCGATGTGATGA
*
47174844 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
47174870 TCCCGAAGGG
Statistics
Matches: 245, Mismatches: 15, Indels: 29
0.85 0.05 0.10
Matches are distributed among these distances:
46 2 0.01
47 139 0.57
48 2 0.01
49 49 0.20
50 3 0.01
51 1 0.00
52 1 0.00
53 6 0.02
54 1 0.00
55 1 0.00
57 3 0.01
58 1 0.00
59 36 0.15
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:47174623 original size:61 final size:60
Alignment explanation
Indices: 47174560--47174727 Score: 236
Period size: 59 Copynumber: 3.0 Consensus size: 60
47174550 GTGAATGTAT
47174560 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATA
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATA
47174619 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--G-------TGT-AT-
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATA
*
47174668 ATATATGTGATAAGGCCTAATGGCCGATGTAATGAATGTGAAAGTG-TATATATGTGATA
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATA
47174727 A
1 A
47174728 GGCCTAATAG
Statistics
Matches: 98, Mismatches: 1, Indels: 20
0.82 0.01 0.17
Matches are distributed among these distances:
49 42 0.43
50 2 0.02
51 4 0.04
57 4 0.04
58 2 0.02
59 44 0.45
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.32
Consensus pattern (60 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATA
Found at i:47174624 original size:12 final size:12
Alignment explanation
Indices: 47174607--47174631 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47174597 GTGAAAGTGT
47174607 ATATATGTGATA
1 ATATATGTGATA
47174619 ATATATGTGATA
1 ATATATGTGATA
47174631 A
1 A
47174632 GGCCTAATGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (12 bp):
ATATATGTGATA
Found at i:47183356 original size:20 final size:22
Alignment explanation
Indices: 47183321--47183367 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
47183311 AGAACAACTA
**
47183321 AAGAAAATGATGC-AAAA-GAG
1 AAGAAAATGAAACAAAAATGAG
47183341 AAGAAAATGAAACAAAAATGAG
1 AAGAAAATGAAACAAAAATGAG
47183363 AAGAA
1 AAGAA
47183368 TTCTGCCTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 11 0.48
21 4 0.17
22 8 0.35
ACGTcount: A:0.66, C:0.04, G:0.21, T:0.09
Consensus pattern (22 bp):
AAGAAAATGAAACAAAAATGAG
Found at i:47185518 original size:16 final size:16
Alignment explanation
Indices: 47185497--47185530 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
47185487 AGGTGGTCCA
47185497 AAACTATCTAAAAACT
1 AAACTATCTAAAAACT
47185513 AAACTATCTAAAAACT
1 AAACTATCTAAAAACT
47185529 AA
1 AA
47185531 GTAAATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.59, C:0.18, G:0.00, T:0.24
Consensus pattern (16 bp):
AAACTATCTAAAAACT
Found at i:47189907 original size:49 final size:50
Alignment explanation
Indices: 47189844--47189977 Score: 171
Period size: 51 Copynumber: 2.7 Consensus size: 50
47189834 ATCTAGTACG
*
47189844 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAA-TTATCTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAAGTTATCGGATACA
* * * * * * *
47189893 CGTAGTAGCTTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAAGTTATCGGATACA
*
47189944 CATAGTAGCCTACACTTAGTACTACACATGCGAC
1 CATAGTAGCCTGCACTTAGTACTACACATGCGAC
47189978 TTGTAACACC
Statistics
Matches: 70, Mismatches: 13, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
49 29 0.41
50 4 0.06
51 37 0.53
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACATGCGACCAAGTTATCGGATACA
Found at i:47195239 original size:47 final size:47
Alignment explanation
Indices: 47195185--47195523 Score: 210
Period size: 47 Copynumber: 7.1 Consensus size: 47
47195175 TTAGGATTTT
* * *
47195185 ATGTGATGAATGTGAATGTGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAATATGCATATATGTGATAAAGCCGAATGGCCA
* * * * * *
47195232 ATGTGATGAATATTAACATGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAATATGCATATATGTGATAAAGCCGAATGGCCA
** * * * *
47195279 ATGTGAAAAATGTATGAGAAATG--TATATGTGGTAAATCCGAATGGCTA
1 ATGTGATGAATG--TGA-ATATGCATATATGTGATAAAGCCGAATGGCCA
* * * * *
47195327 ATGTGA-AATATGTATGAGATATGC--ATATGTGGTAAAGCTGAACGGTCA
1 ATGTGATGA-ATG--TGA-ATATGCATATATGTGATAAAGCCGAATGGCCA
* * *
47195375 ATGTGAAATATATATATGAGATATGC--ATATGTGATAAGGCCGAATGGCCA
1 ATGTG--AT-GA-ATGTGA-ATATGCATATATGTGATAAAGCCGAATGGCCA
** * *
47195425 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAATATGCATATATGTGATAAAGCCGAATGGCCA
* * * * *
47195472 ATGTGGTGAATATGAGATATGC--ATATGTGGTACAGCCGAATGGTCA
1 ATGTGATGAATGTGA-ATATGCATATATGTGATAAAGCCGAATGGCCA
47195518 ATGTGA
1 ATGTGA
47195524 AATATATATA
Statistics
Matches: 237, Mismatches: 43, Indels: 25
0.78 0.14 0.08
Matches are distributed among these distances:
45 4 0.02
46 29 0.12
47 86 0.36
48 73 0.31
49 2 0.01
50 39 0.16
52 4 0.02
ACGTcount: A:0.35, C:0.09, G:0.27, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAATATGCATATATGTGATAAAGCCGAATGGCCA
Found at i:47195320 original size:48 final size:48
Alignment explanation
Indices: 47195255--47195581 Score: 317
Period size: 48 Copynumber: 6.8 Consensus size: 48
47195245 TAACATGTAT
* *
47195255 ATATGTGGTAAAGCCGAATGGCTAATGTGAAAAATGTATGAGAAATGT
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAAAATGTATGAGATATGC
* *
47195303 ATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAGATATGC
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAAAATGTATGAGATATGC
* * *
47195351 ATATGTGGTAAAGCTGAACGG-TCAATGTGAAATATATATATGAGATATGC
1 ATATGTGGTAAAGCCGAATGGCT-AATGTGAAA-A-ATGTATGAGATATGC
* * * ** *
47195401 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATG--TGAG-CATGC
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAAAATGTATGAGATATGC
* * ***
47195446 ATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAA--TATGAGATATGC
1 ATATGTG-G-TAAAGCCGAATGGCTAATGTGAAAAATGTATGAGATATGC
* * *
47195494 ATATGTGGTACAGCCGAATGG-TCAATGTGAAATATATATATGAGATATGT
1 ATATGTGGTAAAGCCGAATGGCT-AATGTGAAA-A-ATGTATGAGATATGC
* * *
47195544 ATATGTGGTAAAGCTGAATGGCTAGTGTGAAATATGTA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAAAATGTA
47195582 GGCGATGTGC
Statistics
Matches: 231, Mismatches: 33, Indels: 30
0.79 0.11 0.10
Matches are distributed among these distances:
45 11 0.05
46 21 0.09
47 32 0.14
48 89 0.39
49 1 0.00
50 76 0.33
51 1 0.00
ACGTcount: A:0.35, C:0.09, G:0.27, T:0.29
Consensus pattern (48 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAAAATGTATGAGATATGC
Found at i:47195379 original size:143 final size:141
Alignment explanation
Indices: 47195185--47195581 Score: 324
Period size: 143 Copynumber: 2.8 Consensus size: 141
47195175 TTAGGATTTT
* * * * * *
47195185 ATGTGATGAATGTGA-ATGTGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATATTAAC
1 ATGTGATGAATATGAGATATGCATATGTG-G-TAAAGCCGAACGGTCAATGTGAT-AATATTAAC
*
47195249 ATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAAAATGTATGAGAAATGTATATGTG-G-T
63 ATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAAAATGTATGAG-AATGCATATGTGTGAT
* *
47195312 AAATCCGAATGGCTA
127 AAAGCCGAATGGCCA
* *
47195327 ATGTGAAAT-ATGTATGAGATATGCATATGTGGTAAAGCTGAACGGTCAATGTGA-AATA-TATA
1 ATGTG--ATGA-ATATGAGATATGCATATGTGGTAAAGCCGAACGGTCAATGTGATAATATTA-A
* * * * ** *
47195389 TATGAGATATGCATATGTGATAAGGCCGAATGGCCAATGTGATGAATG--TGAGCATGCATATGT
62 CAT--G-TAT--ATATGTGGTAAAGCCGAATGGCTAATGTGAAAAATGTATGAGAATGCATATGT
*
47195452 GTGATAAGGCCGAATGGCCA
122 GTGATAAAGCCGAATGGCCA
* * * *
47195472 ATGTGGTGAATATGAGATATGCATATGTGGTACAGCCGAATGGTCAATGTGAAATATATATATGA
1 ATGTGATGAATATGAGATATGCATATGTGGTAAAGCCGAACGGTCAATGTG--ATA-ATAT-TAA
* * * * * *
47195537 GATATGTATATGTGGTAAAGCTGAATGGCTAGTGTGAAATATGTA
62 CATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAAAATGTA
47195582 GGCGATGTGC
Statistics
Matches: 198, Mismatches: 36, Indels: 39
0.73 0.13 0.14
Matches are distributed among these distances:
140 2 0.01
141 7 0.04
142 5 0.03
143 97 0.49
144 16 0.08
145 32 0.16
146 32 0.16
147 3 0.02
148 3 0.02
149 1 0.01
ACGTcount: A:0.35, C:0.09, G:0.27, T:0.29
Consensus pattern (141 bp):
ATGTGATGAATATGAGATATGCATATGTGGTAAAGCCGAACGGTCAATGTGATAATATTAACATG
TATATATGTGGTAAAGCCGAATGGCTAATGTGAAAAATGTATGAGAATGCATATGTGTGATAAAG
CCGAATGGCCA
Found at i:47195466 original size:193 final size:193
Alignment explanation
Indices: 47195208--47195578 Score: 498
Period size: 193 Copynumber: 1.9 Consensus size: 193
47195198 GAATGTGCAT
* * *
47195208 ATATGAGATAAGGCCGAATGGCCAATGTGATGAATATTAACATGTATATATGTGGTAAAGCCGAA
1 ATATGAGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGCATATATGTGATAAAGCCGAA
* * *
47195273 TGGCTAATGTGAAAAATGTATGAGAAATGTATATGTGGTAAATCCGAATGG-CTAATGTG-AA-A
66 TGGCCAATGTGAAAAA--TATGAGAAATGCATATGTGGTAAAGCCGAATGGTC-AATGTGAAATA
*
47195335 TATGTATGAGATATGCATATGTGGTAAAGCTGAACGG-TCAATGTGAAATATATATATGAGATAT
128 TATATATGAGATATGCATATGTGGTAAAGCTGAACGGCT-AATGTGAAATATATATATGAGATAT
47195399 GC
192 GC
* * * * *
47195401 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAA
1 ATATGAGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGCATATATGTGATAAAGCCGAA
*** * *
47195466 TGGCCAATGTGGTGAATATGAGATATGCATATGTGGTACAGCCGAATGGTCAATGTGAAATATAT
66 TGGCCAATGTGAAAAATATGAGAAATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
* * *
47195531 ATATGAGATATGTATATGTGGTAAAGCTGAATGGCTAGTGTGAAATAT
131 ATATGAGATATGCATATGTGGTAAAGCTGAACGGCTAATGTGAAATAT
47195579 GTAGGCGATG
Statistics
Matches: 154, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
191 35 0.23
192 3 0.02
193 115 0.75
194 1 0.01
ACGTcount: A:0.36, C:0.09, G:0.27, T:0.29
Consensus pattern (193 bp):
ATATGAGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGCATATATGTGATAAAGCCGAA
TGGCCAATGTGAAAAATATGAGAAATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
ATATGAGATATGCATATGTGGTAAAGCTGAACGGCTAATGTGAAATATATATATGAGATATGC
Found at i:47195480 original size:25 final size:25
Alignment explanation
Indices: 47195405--47195480 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
47195395 ATATGCATAT
47195405 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
47195430 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
47195452 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
47195477 GTGA
1 GTGA
47195481 ATATGAGATA
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:47195873 original size:37 final size:37
Alignment explanation
Indices: 47195728--47195872 Score: 227
Period size: 37 Copynumber: 3.9 Consensus size: 37
47195718 GGAAATATAT
*
47195728 TCCGGGTAAGACCCGATGACTACGCGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
47195765 TCCGGGTAAGACCCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
47195802 TTCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
47195839 TCCGGGTAAGACCCGATAACTTCGTGTGGTGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
47195873 TCGTCTGAGC
Statistics
Matches: 99, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 99 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:47205584 original size:50 final size:49
Alignment explanation
Indices: 47205462--47205648 Score: 189
Period size: 50 Copynumber: 3.8 Consensus size: 49
47205452 TGAGGTCGCA
* ** * *
47205462 TGTGTAGTACTAAGTGCAGGCTACTATGCCTACCCGAAAACTGT-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTGTAGGTCACG
**
47205513 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GT-AGGTCACG
* * * * *
47205563 TATGTAGTACTAAGTGTAGGCTACTACGTGTACCAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
* *
47205612 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
47205649 TTGCTTCGGC
Statistics
Matches: 114, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
47 1 0.01
48 4 0.04
49 38 0.33
50 41 0.36
51 30 0.26
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
Found at i:47211676 original size:25 final size:25
Alignment explanation
Indices: 47211646--47211715 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
47211636 AATCAAAATG
* *
47211646 AGAATCAAAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGGTAAC
* *
47211671 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGGTAAC
47211696 AGAATCAAAATCAGAATCAG
1 AGAATCAAAATCAGAATCAG
47211716 AATCAGTATT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.49, C:0.14, G:0.19, T:0.19
Consensus pattern (25 bp):
AGAATCAAAATCAGAATCAGGTAAC
Found at i:47211681 original size:6 final size:6
Alignment explanation
Indices: 47211625--47211721 Score: 65
Period size: 6 Copynumber: 15.8 Consensus size: 6
47211615 AAGAAATATT
* * * * *
47211625 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAAA ATCAGA ATTAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* *
47211674 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGA ATCAG
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAG
47211722 TATTAGGTGA
Statistics
Matches: 69, Mismatches: 14, Indels: 16
0.70 0.14 0.16
Matches are distributed among these distances:
5 4 0.06
6 57 0.83
7 6 0.09
8 2 0.03
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:47211683 original size:31 final size:31
Alignment explanation
Indices: 47211646--47211746 Score: 100
Period size: 31 Copynumber: 3.3 Consensus size: 31
47211636 AATCAAAATG
*
47211646 AGAATCAAAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATCAGAATTAGGTGACAGAATC
* * * *
47211677 AGAATCAGTATCAGGTAA-CA-G-AATCAAAATC
1 AGAATCAGAATCA-G-AATTAGGTGA-CAGAATC
*
47211708 AGAATCAGAATCAGTATTAGGTGACAGAATC
1 AGAATCAGAATCAGAATTAGGTGACAGAATC
47211739 AGAATCAG
1 AGAATCAG
47211747 TTTTAGGTAA
Statistics
Matches: 54, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
29 1 0.02
30 3 0.06
31 45 0.83
32 3 0.06
33 2 0.04
ACGTcount: A:0.47, C:0.14, G:0.20, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATTAGGTGACAGAATC
Found at i:47211711 original size:37 final size:37
Alignment explanation
Indices: 47211670--47211746 Score: 127
Period size: 37 Copynumber: 2.1 Consensus size: 37
47211660 AATTAGGTGA
47211670 CAGAATCAGAATCAGTATCAGGTAACAGAATCAAAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAATCAAAAT
* * *
47211707 CAGAATCAGAATCAGTATTAGGTGACAGAATCAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAATCAAAAT
47211744 CAG
1 CAG
47211747 TTTTAGGTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.45, C:0.16, G:0.19, T:0.19
Consensus pattern (37 bp):
CAGAATCAGAATCAGTATCAGGTAACAGAATCAAAAT
Found at i:47211731 original size:62 final size:62
Alignment explanation
Indices: 47211634--47211774 Score: 219
Period size: 62 Copynumber: 2.3 Consensus size: 62
47211624 TATCAGAACT
*
47211634 AGAATCAAAATGAGAATCAAAATCAGAATTAGGTGACAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAAAATCAGAATTAGGTGACAGAATCAGAATCAGTATCAGGTAAC
* * * *
47211696 AGAATCAAAATCAGAATCAGAATCAGTATTAGGTGACAGAATCAGAATCAGTTTTAGGTAAC
1 AGAATCAAAATCAGAATCAAAATCAGAATTAGGTGACAGAATCAGAATCAGTATCAGGTAAC
* *
47211758 AAAATCAGAATCAGAAT
1 AGAATCAAAATCAGAAT
47211775 GTGAATGCAA
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 72 1.00
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (62 bp):
AGAATCAAAATCAGAATCAAAATCAGAATTAGGTGACAGAATCAGAATCAGTATCAGGTAAC
Found at i:47211735 original size:25 final size:25
Alignment explanation
Indices: 47211707--47211771 Score: 103
Period size: 25 Copynumber: 2.6 Consensus size: 25
47211697 GAATCAAAAT
*
47211707 CAGAATCAGAATCAGTATTAGGTGA
1 CAGAATCAGAATCAGTATTAGGTAA
*
47211732 CAGAATCAGAATCAGTTTTAGGTAA
1 CAGAATCAGAATCAGTATTAGGTAA
*
47211757 CAAAATCAGAATCAG
1 CAGAATCAGAATCAG
47211772 AATGTGAATG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.23
Consensus pattern (25 bp):
CAGAATCAGAATCAGTATTAGGTAA
Found at i:47211954 original size:27 final size:27
Alignment explanation
Indices: 47211909--47211971 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
47211899 AATATTGCGA
* **
47211909 CAGAGTCACCAAATACAGATGTTGTGG
1 CAGAGCCACCAAATACAGATAATGTGG
47211936 CAGAGCCACCAGAAT-CAGATAATGTGG
1 CAGAGCCACCA-AATACAGATAATGTGG
*
47211963 CAAAGCCAC
1 CAGAGCCAC
47211972 TTAACAGAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 28 0.90
28 3 0.10
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.16
Consensus pattern (27 bp):
CAGAGCCACCAAATACAGATAATGTGG
Found at i:47212744 original size:27 final size:27
Alignment explanation
Indices: 47212611--47212745 Score: 146
Period size: 27 Copynumber: 5.0 Consensus size: 27
47212601 AAGGGCAAAA
* * *
47212611 TGGTAAATT-TACCCCACAAGGGTATCT
1 TGGT-AATTCTACCCTACAGGGGTATTT
* *
47212638 CGGTAATTCTACCCTACAGAGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * * *
47212665 CGGTACTTCTACCCTACAAGGGCATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
47212692 TGGTAATTCTACCTTACAGGGTTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
47212719 TAGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
47212746 CAATAATTTT
Statistics
Matches: 89, Mismatches: 18, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
26 4 0.04
27 85 0.96
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
TGGTAATTCTACCCTACAGGGGTATTT
Found at i:47212821 original size:27 final size:26
Alignment explanation
Indices: 47212791--47212996 Score: 180
Period size: 27 Copynumber: 7.7 Consensus size: 26
47212781 TATAAATTAG
*
47212791 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAA-TCGA
*** *
47212818 GGGTATTTCAATAATTTTACAGGTCGA
1 GGGTATTTTGGTAATTTTACA-ATCGA
** *
47212845 GGGTATTTCAGTAATTTCACAAATC-A
1 GGGTATTTTGGTAATTTTAC-AATCGA
* *
47212871 GGGGTATTTTGGTAATTTTACAAACCA
1 -GGGTATTTTGGTAATTTTACAATCGA
* *
47212898 GGGGTATTTTGGTAATTTTACAAACCAA
1 -GGGTATTTTGGTAATTTTAC-AATCGA
* *
47212926 GGGTATTTTGGTAATTTTACAAACTA
1 GGGTATTTTGGTAATTTTACAATCGA
* * *
47212952 GGGGTGTTTTGGTAATTTTTCTAATTGA
1 -GGGTATTTTGGTAATTTTAC-AATCGA
47212980 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
47212997 GGTAAACTAA
Statistics
Matches: 150, Mismatches: 22, Indels: 14
0.81 0.12 0.08
Matches are distributed among these distances:
26 8 0.05
27 134 0.89
28 8 0.05
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAATCGA
Found at i:47212962 original size:54 final size:54
Alignment explanation
Indices: 47212789--47212996 Score: 220
Period size: 54 Copynumber: 3.9 Consensus size: 54
47212779 TCTATAAATT
* * * *** ***
47212789 AGGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAGGTC
1 AGGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACC
** * *
47212843 -GAGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACC
1 AG-GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACC
* *
47212897 AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACC
* * * **
47212951 AGGGGTGTTTTGGTAATTTTTCTAATTGAGGGTATTTTGGTAATTT
1 AGGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTGGTAATTT
47212997 GGTAAACTAA
Statistics
Matches: 127, Mismatches: 25, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
53 1 0.01
54 125 0.98
55 1 0.01
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (54 bp):
AGGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACC
Found at i:47212988 original size:81 final size:79
Alignment explanation
Indices: 47212772--47212996 Score: 234
Period size: 81 Copynumber: 2.8 Consensus size: 79
47212762 CGAGGTAAAA
* * * ***
47212772 CGGTAATTCTATAAATTAGGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTA
1 CGGTAATTTTACAAA-TAGGGGTATTTTGGTAATTTTACAA-TCGAGGGTATTTTGGTAATTTTA
*** *
47212837 CAGGTCGAGGGTATTT
64 CAAACCAAGGGTATTT
* * * *
47212853 CAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTA
1 CGGTAATTTTACAAAT-AGGGGTATTTTGGTAATTTTACAATCGA-GGGTATTTTGGTAATTTTA
47212918 CAAACCAAGGGTATTT
64 CAAACCAAGGGTATTT
* * * *
47212934 TGGTAATTTTACAAACTAGGGGTGTTTTGGTAATTTTTCTAATTGAGGGTATTTTGGTAATTT
1 CGGTAATTTTACAAA-TAGGGGTATTTTGGTAATTTTAC-AATCGAGGGTATTTTGGTAATTT
47212997 GGTAAACTAA
Statistics
Matches: 118, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
80 3 0.03
81 111 0.94
82 4 0.03
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.40
Consensus pattern (79 bp):
CGGTAATTTTACAAATAGGGGTATTTTGGTAATTTTACAATCGAGGGTATTTTGGTAATTTTACA
AACCAAGGGTATTT
Found at i:47223625 original size:46 final size:46
Alignment explanation
Indices: 47223575--47223688 Score: 165
Period size: 46 Copynumber: 2.5 Consensus size: 46
47223565 TGTTTGGGCA
* * *
47223575 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
*
47223621 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* *
47223667 CCCGAGCTCGTTGAGTCTGAGT
1 TCCGAACTCGTTGAGT-TGAGT
47223689 TCACTTATGG
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
46 56 0.92
47 5 0.08
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
Found at i:47226731 original size:14 final size:14
Alignment explanation
Indices: 47226652--47226731 Score: 61
Period size: 15 Copynumber: 5.4 Consensus size: 14
47226642 GTATCTTGGG
*
47226652 TTTCTTTATCCTGGA
1 TTTCTTTATTC-GGA
* *
47226667 TCTCTTTATTCTAGA
1 TTTCTTTATTC-GGA
*
47226682 TTTCTTTATTCCGGG
1 TTTCTTTATT-CGGA
* *
47226697 TTTCTCTATCTTGGA
1 TTTCTTTAT-TCGGA
*
47226712 TTTCTTTATTCGGT
1 TTTCTTTATTCGGA
47226726 TTTCTT
1 TTTCTT
47226732 GTTATCTTTG
Statistics
Matches: 51, Mismatches: 12, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
14 9 0.18
15 40 0.78
16 2 0.04
ACGTcount: A:0.11, C:0.19, G:0.12, T:0.57
Consensus pattern (14 bp):
TTTCTTTATTCGGA
Found at i:47229167 original size:46 final size:46
Alignment explanation
Indices: 47229117--47229245 Score: 213
Period size: 46 Copynumber: 2.8 Consensus size: 46
47229107 TGTTTGGGCA
*
47229117 TCCGAACTCGTTGAGTTGAGTCAGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCAGAGTTCACTTATGGATGCGAACG
*
47229163 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCAGAGTTCACTTATGGATGCGAACG
* * *
47229209 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCAGAGTTCACTTATGG
47229246 GCGGGTTACA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCAGAGTTCACTTATGGATGCGAACG
Found at i:47232212 original size:15 final size:15
Alignment explanation
Indices: 47232192--47232260 Score: 75
Period size: 15 Copynumber: 4.6 Consensus size: 15
47232182 GTATCTTGGG
47232192 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* * *
47232207 TCTCTTTATTCTAGA
1 TTTCTTTATCCTGGA
* *
47232222 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
47232237 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
47232252 TTTCTTTAT
1 TTTCTTTAT
47232261 TCGGTTTTCT
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 43 1.00
ACGTcount: A:0.13, C:0.17, G:0.12, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:47232254 original size:30 final size:30
Alignment explanation
Indices: 47232183--47232270 Score: 90
Period size: 30 Copynumber: 3.0 Consensus size: 30
47232173 CATAGTACCG
* * * *
47232183 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
* *
47232213 TAT-TCTAGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
47232243 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
47232271 TGTTATCTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
29 8 0.17
30 39 0.81
31 1 0.02
ACGTcount: A:0.11, C:0.17, G:0.15, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:47232271 original size:14 final size:14
Alignment explanation
Indices: 47232192--47232271 Score: 61
Period size: 15 Copynumber: 5.4 Consensus size: 14
47232182 GTATCTTGGG
*
47232192 TTTCTTTATCCTGGA
1 TTTCTTTATTC-GGA
* *
47232207 TCTCTTTATTCTAGA
1 TTTCTTTATTC-GGA
*
47232222 TTTCTTTATTCTGGG
1 TTTCTTTATTC-GGA
* *
47232237 TTTCTCTATCTTGGA
1 TTTCTTTAT-TCGGA
*
47232252 TTTCTTTATTCGGT
1 TTTCTTTATTCGGA
47232266 TTTCTT
1 TTTCTT
47232272 GTTATCTTTG
Statistics
Matches: 52, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
14 9 0.17
15 42 0.81
16 1 0.02
ACGTcount: A:0.11, C:0.17, G:0.12, T:0.59
Consensus pattern (14 bp):
TTTCTTTATTCGGA
Found at i:47235157 original size:39 final size:38
Alignment explanation
Indices: 47235103--47235180 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 38
47235093 TTCATTCCTT
47235103 GTAGTTTTGACAAGCCAGCTCGGAAATCGGGAACGGTCG
1 GTAGTTTTGACAAGCCAGCTCGGAAATCGGG-ACGGTCG
47235142 GTAGTTTTGACAAGCCAGCTCGGAAATCGGGACGGTCG
1 GTAGTTTTGACAAGCCAGCTCGGAAATCGGGACGGTCG
47235180 G
1 G
47235181 AGGCTCGCTC
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
38 8 0.21
39 31 0.79
ACGTcount: A:0.24, C:0.21, G:0.35, T:0.21
Consensus pattern (38 bp):
GTAGTTTTGACAAGCCAGCTCGGAAATCGGGACGGTCG
Found at i:47238439 original size:6 final size:6
Alignment explanation
Indices: 47238428--47238529 Score: 102
Period size: 6 Copynumber: 16.8 Consensus size: 6
47238418 AACCAAAATG
* *
47238428 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC
* * *
47238476 AGTAAT- AGAATC AGAATT AGAATC AGAATT ACGTGA-C AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
47238525 AGAAT
1 AGAAT
47238530 GTGAATGCAA
Statistics
Matches: 80, Mismatches: 9, Indels: 14
0.78 0.09 0.14
Matches are distributed among these distances:
5 6 0.08
6 67 0.84
7 6 0.08
8 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.22
Consensus pattern (6 bp):
AGAATC
Found at i:47238480 original size:30 final size:30
Alignment explanation
Indices: 47238428--47238529 Score: 150
Period size: 30 Copynumber: 3.4 Consensus size: 30
47238418 AACCAAAATG
*
47238428 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
* *
47238458 AGAATCAGAATCAGTATTAGTAATAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
* *
47238488 AGAATTAGAATCAGAATTACGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
47238519 AGAATCAGAAT
1 AGAATCAGAAT
47238530 GTGAATGCAA
Statistics
Matches: 63, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
30 44 0.70
31 19 0.30
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.22
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:47238684 original size:27 final size:26
Alignment explanation
Indices: 47238647--47238712 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
47238637 AGCATGGCTG
*
47238647 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
47238673 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
47238700 CCAGAATCAGATA
1 CCAGAA-CAGATA
47238713 ATGTGGTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:47238727 original size:27 final size:27
Alignment explanation
Indices: 47238671--47238728 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
47238661 GTGACAGAGT
* * *
47238671 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
*
47238698 CACCAGA-ATCAGATAATGTGGTAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
47238725 CACC
1 CACC
47238729 TAACAGAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.17
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Done.