Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009625.1 Hibiscus syriacus cultivar Beakdansim tig00117017_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 6938204
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 21 of 25
Found at i:5886352 original size:26 final size:28
Alignment explanation
Indices: 5886318--5886379 Score: 101
Period size: 26 Copynumber: 2.3 Consensus size: 28
5886308 ATATATATAT
5886318 ATATATATGCAAAAAAATAAT-ATAAAA
1 ATATATATGCAAAAAAATAATAATAAAA
*
5886345 ATA-ATATGCAAAAAAATAATAATATAA
1 ATATATATGCAAAAAAATAATAATAAAA
5886372 ATATATAT
1 ATATATAT
5886380 ATATATATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 17 0.53
27 11 0.34
28 4 0.12
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (28 bp):
ATATATATGCAAAAAAATAATAATAAAA
Found at i:5886359 original size:15 final size:15
Alignment explanation
Indices: 5886322--5886365 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
5886312 ATATATATAT
5886322 ATATGCAAAAAAATA
1 ATATGCAAAAAAATA
5886337 ATAT----AAAAATA
1 ATATGCAAAAAAATA
5886348 ATATGCAAAAAAATA
1 ATATGCAAAAAAATA
5886363 ATA
1 ATA
5886366 ATATAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
11 11 0.44
15 14 0.56
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23
Consensus pattern (15 bp):
ATATGCAAAAAAATA
Found at i:5886377 original size:2 final size:2
Alignment explanation
Indices: 5886366--5886414 Score: 73
Period size: 2 Copynumber: 24.5 Consensus size: 2
5886356 AAAAATAATA
*
5886366 AT AT AA AT AT AT AT AT AT AT AT AT AT AT -T CAT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT
5886408 AT AT AT A
1 AT AT AT A
5886415 GTACAAATAT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
1 1 0.02
2 41 0.95
3 1 0.02
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:5886570 original size:2 final size:2
Alignment explanation
Indices: 5886563--5886608 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
5886553 ATGGAAAACT
5886563 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5886605 TA TA
1 TA TA
5886609 AAGGGGTACA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5888033 original size:12 final size:14
Alignment explanation
Indices: 5888009--5888041 Score: 52
Period size: 12 Copynumber: 2.5 Consensus size: 14
5887999 ACTTGATTAG
5888009 AGAAAGAGAAAGAA
1 AGAAAGAGAAAGAA
5888023 A-AAAG-GAAAGAA
1 AGAAAGAGAAAGAA
5888035 AGAAAGA
1 AGAAAGA
5888042 AACTTGATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 4
0.81 0.00 0.19
Matches are distributed among these distances:
12 8 0.47
13 8 0.47
14 1 0.06
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (14 bp):
AGAAAGAGAAAGAA
Found at i:5892053 original size:32 final size:32
Alignment explanation
Indices: 5892012--5892074 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
5892002 CTCATGTTTT
*
5892012 CAAAGAATAGTTAACCAAGAAAATAATTCTTA
1 CAAAGAATAGTCAACCAAGAAAATAATTCTTA
5892044 CAAAGAATAGTCAACCAAGAAAATAATTCTT
1 CAAAGAATAGTCAACCAAGAAAATAATTCTT
5892075 TTTTATTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.52, C:0.14, G:0.10, T:0.24
Consensus pattern (32 bp):
CAAAGAATAGTCAACCAAGAAAATAATTCTTA
Found at i:5893332 original size:79 final size:79
Alignment explanation
Indices: 5893190--5893338 Score: 178
Period size: 78 Copynumber: 1.9 Consensus size: 79
5893180 AATAAAAATA
** *
5893190 TTATTTAATTAATTCAAATTAAATATATCCATTAAAGACTTATAATCTGAATTATAATCTTTAAG
1 TTATTTAATTAATTCAAATTAAATATATCCATTAAAGACTTATAATCAAAATTACAATCTTTAAG
5893255 GTTTATTTAAACTC
66 GTTTATTTAAACTC
* * * *
5893269 TTATTTAATT-ATTCCAAA-TAAA-ATATCGATTAAAAGAGTTGTAATCAAAATTACATTCTTTT
1 TTATTTAATTAATT-CAAATTAAATATATCCATT-AAAGACTTATAATCAAAATTACAATC-TTT
*
5893331 AATGTTTA
63 AAGGTTTA
5893339 CTTATAATAT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
77 8 0.14
78 27 0.46
79 24 0.41
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (79 bp):
TTATTTAATTAATTCAAATTAAATATATCCATTAAAGACTTATAATCAAAATTACAATCTTTAAG
GTTTATTTAAACTC
Found at i:5901710 original size:17 final size:17
Alignment explanation
Indices: 5901690--5901724 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
5901680 CTTATGGTAT
5901690 TCCACCACTTTGGGTTC
1 TCCACCACTTTGGGTTC
5901707 TCCACCACTTTGGGTTC
1 TCCACCACTTTGGGTTC
5901724 T
1 T
5901725 TTTGTTTCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.11, C:0.34, G:0.17, T:0.37
Consensus pattern (17 bp):
TCCACCACTTTGGGTTC
Found at i:5905241 original size:17 final size:17
Alignment explanation
Indices: 5905216--5905249 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
5905206 AATGAGATGA
*
5905216 AAATTAAATAAAAAAAT
1 AAATAAAATAAAAAAAT
*
5905233 AAATAAAATAAATAAAT
1 AAATAAAATAAAAAAAT
5905250 TGGGATAAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
AAATAAAATAAAAAAAT
Found at i:5905242 original size:9 final size:9
Alignment explanation
Indices: 5905216--5905248 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
5905206 AATGAGATGA
*
5905216 AAATTAAAT
1 AAATAAAAT
5905225 AAA-AAAAT
1 AAATAAAAT
5905233 AAATAAAAT
1 AAATAAAAT
5905242 AAATAAA
1 AAATAAA
5905249 TTGGGATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AAATAAAAT
Found at i:5905919 original size:12 final size:13
Alignment explanation
Indices: 5905901--5905930 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
5905891 ATACCTAAAA
5905901 CTAAAATAATATT
1 CTAAAATAATATT
5905914 -TAAAATAATATT
1 CTAAAATAATATT
5905926 CTAAA
1 CTAAA
5905931 TACTAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (13 bp):
CTAAAATAATATT
Found at i:5907252 original size:21 final size:22
Alignment explanation
Indices: 5907207--5907258 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
5907197 GTGGATATAT
5907207 AAACGGGTAGGATTTTTGGGAA
1 AAACGGGTAGGATTTTTGGGAA
5907229 AAACGGGTAGGATTTTTGGGAA
1 AAACGGGTAGGATTTTTGGGAA
*
5907251 AAATGGGT
1 AAACGGGT
5907259 TTATCCTAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.33, C:0.04, G:0.37, T:0.27
Consensus pattern (22 bp):
AAACGGGTAGGATTTTTGGGAA
Found at i:5913227 original size:8 final size:8
Alignment explanation
Indices: 5913216--5913274 Score: 54
Period size: 8 Copynumber: 7.6 Consensus size: 8
5913206 TTGAAAAGGT
5913216 ATAATAAA
1 ATAATAAA
*
5913224 ATAA-ATA
1 ATAATAAA
*
5913231 ATTAT-AA
1 ATAATAAA
5913238 ATAATAAA
1 ATAATAAA
5913246 A-AGGA-AAA
1 ATA--ATAAA
5913254 ATAATAAA
1 ATAATAAA
5913262 ATAATAAA
1 ATAATAAA
5913270 ATAAT
1 ATAAT
5913275 GAATTAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
7 12 0.29
8 27 0.66
9 2 0.05
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.25
Consensus pattern (8 bp):
ATAATAAA
Found at i:5913861 original size:18 final size:18
Alignment explanation
Indices: 5913838--5913882 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
5913828 AATATAAAAG
5913838 AAAATAGAGGAGTATGCA
1 AAAATAGAGGAGTATGCA
*
5913856 AAAATAGAGGAGTATGCG
1 AAAATAGAGGAGTATGCA
5913874 AAAATAGAG
1 AAAATAGAG
5913883 AAAAAACTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.51, C:0.04, G:0.29, T:0.16
Consensus pattern (18 bp):
AAAATAGAGGAGTATGCA
Found at i:5914093 original size:63 final size:62
Alignment explanation
Indices: 5913997--5914117 Score: 181
Period size: 63 Copynumber: 1.9 Consensus size: 62
5913987 CTAAAACATC
* *
5913997 TTAAATCCTAATTAAAACACTTAAACTATTTAAACTAAAATACCTAAAACAAAAATAATATT
1 TTAAATCCAAATTAAAACACTTAAACTATTTAAACCAAAATACCTAAAACAAAAATAATATT
* *
5914059 TTAAATCCAAATTAAAATAC-TAAAGCCTATTTAAACCAAAATACCTAAAACAAAGATAA
1 TTAAATCCAAATTAAAACACTTAAA--CTATTTAAACCAAAATACCTAAAACAAAAATAA
5914118 AATATAAAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
61 4 0.08
62 18 0.34
63 31 0.58
ACGTcount: A:0.55, C:0.16, G:0.02, T:0.27
Consensus pattern (62 bp):
TTAAATCCAAATTAAAACACTTAAACTATTTAAACCAAAATACCTAAAACAAAAATAATATT
Found at i:5916814 original size:21 final size:21
Alignment explanation
Indices: 5916789--5916841 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
5916779 TTACAAAGGT
5916789 AGTACCGATACTCCCGGTAGG
1 AGTACCGATACTCCCGGTAGG
5916810 AGTACCGATACTCCCGGTAGG
1 AGTACCGATACTCCCGGTAGG
5916831 AGTACCGATAC
1 AGTACCGATAC
5916842 CCTCTATTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.19
Consensus pattern (21 bp):
AGTACCGATACTCCCGGTAGG
Found at i:5918627 original size:19 final size:20
Alignment explanation
Indices: 5918603--5918640 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
5918593 TGAAAATGAT
5918603 TTGATTTTG-AAAACAAAAG
1 TTGATTTTGAAAAACAAAAG
5918622 TTGATTTTGAAAAACAAAA
1 TTGATTTTGAAAAACAAAA
5918641 TGAAACTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.50, C:0.05, G:0.13, T:0.32
Consensus pattern (20 bp):
TTGATTTTGAAAAACAAAAG
Found at i:5924711 original size:22 final size:22
Alignment explanation
Indices: 5924686--5924731 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
5924676 TCATGCCCAT
*
5924686 TTTCACCGTGCTTAACCTTAAA
1 TTTCACCGTACTTAACCTTAAA
* *
5924708 TTTCACCGTATTTAACTTTAAA
1 TTTCACCGTACTTAACCTTAAA
5924730 TT
1 TT
5924732 AGGCTGTCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.22, G:0.07, T:0.43
Consensus pattern (22 bp):
TTTCACCGTACTTAACCTTAAA
Found at i:5929792 original size:22 final size:22
Alignment explanation
Indices: 5929764--5929865 Score: 98
Period size: 22 Copynumber: 4.6 Consensus size: 22
5929754 TCCCCAACAA
*
5929764 TGCTAAGGCACTTTAGTGTCAC
1 TGCTAAGGCACTTTAGTATCAC
*
5929786 TGCTAAGGCACTTTAGTATCAG
1 TGCTAAGGCACTTTAGTATCAC
* * *
5929808 TGCTAATGCACTTCT-GTATTAT
1 TGCTAAGGCACTT-TAGTATCAC
* * * *
5929830 TGTTGAGGCACTTTAGTACCAA
1 TGCTAAGGCACTTTAGTATCAC
*
5929852 TGCTCAGGCACTTT
1 TGCTAAGGCACTTT
5929866 CGTTAATCGA
Statistics
Matches: 65, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
21 1 0.02
22 63 0.97
23 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.35
Consensus pattern (22 bp):
TGCTAAGGCACTTTAGTATCAC
Found at i:5929895 original size:2 final size:2
Alignment explanation
Indices: 5929888--5929960 Score: 146
Period size: 2 Copynumber: 36.5 Consensus size: 2
5929878 ACAATGCCAC
5929888 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5929930 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5929961 CGATGTTTTG
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 71 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5931147 original size:13 final size:13
Alignment explanation
Indices: 5931129--5931170 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
5931119 CCGAGGGTAA
5931129 ACTAGAATGTGAC
1 ACTAGAATGTGAC
** *
5931142 ACTAGAGGGT-AA
1 ACTAGAATGTGAC
5931154 ACTAGAATGTGAC
1 ACTAGAATGTGAC
5931167 ACTA
1 ACTA
5931171 CGTTGCTTAA
Statistics
Matches: 22, Mismatches: 6, Indels: 2
0.73 0.20 0.07
Matches are distributed among these distances:
12 9 0.41
13 13 0.59
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.21
Consensus pattern (13 bp):
ACTAGAATGTGAC
Found at i:5931149 original size:25 final size:25
Alignment explanation
Indices: 5931121--5931170 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
5931111 TCCTATCTCC
5931121 GAGGGTAAACTAGAATGTGACACTA
1 GAGGGTAAACTAGAATGTGACACTA
5931146 GAGGGTAAACTAGAATGTGACACTA
1 GAGGGTAAACTAGAATGTGACACTA
5931171 CGTTGCTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.12, G:0.28, T:0.20
Consensus pattern (25 bp):
GAGGGTAAACTAGAATGTGACACTA
Found at i:5942065 original size:47 final size:47
Alignment explanation
Indices: 5941991--5942376 Score: 621
Period size: 47 Copynumber: 8.2 Consensus size: 47
5941981 TAAACCAAAT
* *
5941991 CCATAACTAAAAATGCATGAAAGGATGCATTAAGGAATGAAAGGATG
1 CCATAACTAAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATG
5942038 CCATAACTAAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATG
1 CCATAACTAAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATG
**
5942085 CCATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATG
1 CCATAACTAAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATG
*
5942132 CCATAACTAAAAATGCATGAAAAGATGCATTAAGGCATGAAAGGATG
1 CCATAACTAAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATG
*
5942179 CCATAACTAAAAATGCATG-AATGGATACATTAAGGCATGAAAGGATG
1 CCATAACTAAAAATGCATGAAAT-GATGCATTAAGGCATGAAAGGATG
* * * *
5942226 CCATAACTAAAAATGCTTGAAAGGATGCATTAAGGTATGAAAGGATT
1 CCATAACTAAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATG
* *
5942273 CCATAACTAAAAATGCATGAACTGATGCATTAGGGCATGAAAGGATG
1 CCATAACTAAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATG
* *
5942320 CCATAACTAAAAATGTATGAAATGATGCATTACGGCATGAAAGGATG
1 CCATAACTAAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATG
*
5942367 CCATGACTAA
1 CCATAACTAA
5942377 CAAGAAAGAA
Statistics
Matches: 314, Mismatches: 23, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
46 2 0.01
47 310 0.99
48 2 0.01
ACGTcount: A:0.44, C:0.13, G:0.22, T:0.21
Consensus pattern (47 bp):
CCATAACTAAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATG
Found at i:5943712 original size:54 final size:54
Alignment explanation
Indices: 5943630--5944166 Score: 777
Period size: 54 Copynumber: 10.1 Consensus size: 54
5943620 TACCGAATGT
* ** *
5943630 GCACTATGTGTGCAATTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTG
1 GCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTG
* *
5943684 GCACTGTCTGTGGAACCTAAGAAATTCATAATAAGTTTATG-ATTTTCCGTATTG
1 GCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTT-CGTATTG
*
5943738 GCACTGTGTGTGCAACCTAAGAAATTCATTATAAGTTTATG-A-------ATTG
1 GCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTG
* * *
5943784 CCAATGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTG
1 GCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTG
* *
5943838 GCACTGTGTGTCCAACCTAAGAAATTCATAATAAGTTTATGAATTTTTGTATTG
1 GCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTG
* * *
5943892 GCACTGAGTGTCCAACCTAAGAAATTCATAATAAGTTTATGAATTTTTGTATTG
1 GCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTG
* * * * *
5943946 GCATTGTATGTGCAACTTAAGAAATTCATAATAAGATTATGAATTTTCGTATCG
1 GCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTG
5944000 GCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTG
1 GCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTG
* *
5944054 GCATTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTG
1 GCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTG
* * *
5944108 GCACTGTATGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTTCGTAATG
1 GCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTG
5944162 GCACT
1 GCACT
5944167 AGGTATGTAT
Statistics
Matches: 438, Mismatches: 36, Indels: 18
0.89 0.07 0.04
Matches are distributed among these distances:
46 42 0.10
47 1 0.00
53 4 0.01
54 391 0.89
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.37
Consensus pattern (54 bp):
GCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTG
Found at i:5949951 original size:54 final size:54
Alignment explanation
Indices: 5949863--5950516 Score: 993
Period size: 54 Copynumber: 12.1 Consensus size: 54
5949853 TTACCGAATG
* * * *
5949863 GGCACTATATGTGCAACTTAAGAAATTCAAAATAAGTTTATGAATTTCCGTATT
1 GGCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
* * **
5949917 GGCACTGTGTATGCAACCTAAGAAATTAATAATAAGTTTATGAATTTTTGTATT
1 GGCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
* *
5949971 GACACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTGTGAATTTCCGTATT
1 GGCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
* * *
5950025 GACACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCATATT
1 GGCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
* *
5950079 GGCACTGTGTGCGCAACCTATGAAATTCATAATAAGTTTATGAATTTCCGTATT
1 GGCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
* * *
5950133 GGCACTGTGTGTGCAACCTAAGAAATTCATTATAAGTTTATGAATTTTCATATT
1 GGCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
*
5950187 GGCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATT
1 GGCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
* * * *
5950241 AGCAATGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATAAATTTTCGTATT
1 GGCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
* * *
5950295 GGAACTATGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
1 GGCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
* *
5950349 GGCACTGTGTGTGCAACCTAATAAATTCATAATAAGTTTATGAATTTCTGTATT
1 GGCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
* * *
5950403 GGCATTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCTGTATT
1 GGCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
* * * *
5950457 GGCACTGTATGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTACGTATT
1 GGCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
5950511 GGCACT
1 GGCACT
5950517 AGGTATGCAT
Statistics
Matches: 548, Mismatches: 52, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 548 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (54 bp):
GGCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
Found at i:5953040 original size:14 final size:15
Alignment explanation
Indices: 5953023--5953053 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
5953013 AATATCATAC
5953023 ATAAATAAT-AGAGA
1 ATAAATAATAAGAGA
5953037 ATAAATAATAAGAGA
1 ATAAATAATAAGAGA
5953052 AT
1 AT
5953054 GAATGAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.65, C:0.00, G:0.13, T:0.23
Consensus pattern (15 bp):
ATAAATAATAAGAGA
Found at i:5967469 original size:104 final size:104
Alignment explanation
Indices: 5967337--5967640 Score: 432
Period size: 104 Copynumber: 2.9 Consensus size: 104
5967327 GAGTGTGATG
* * * *
5967337 GTTATCGATCGATTTTGTTTGATACATATGTTGCATTTTCAG-ATTAGTGCCTTTGTGTACTTTC
1 GTTATCGATCGATTTTGTTTAATGCATATGTTGCATTTTC-GCATCAGTACCTTTGTGTACTTTC
5967401 AGCACTATGTGTGCATTGATGGTGTTCATAATAAGCACCT
65 AGCACTATGTGTGCATTGATGGTGTTCATAATAAGCACCT
* * * *
5967441 GTTATCGATCGATTTTGTTTAATGCATATGTTGTATTTTCGTAACAGTACCTTTGTGTACTTTTA
1 GTTATCGATCGATTTTGTTTAATGCATATGTTGCATTTTCGCATCAGTACCTTTGTGTACTTTCA
* *
5967506 GCACTATGTGTGCATTGATGGTGTTCATAATGAGCACTT
66 GCACTATGTGTGCATTGATGGTGTTCATAATAAGCACCT
* * * *
5967545 CTTATAGATCGATTTTGTTTAATGCATATGTTGCATTTTTGCATCGGTACCTTTGTGTACTTTCA
1 GTTATCGATCGATTTTGTTTAATGCATATGTTGCATTTTCGCATCAGTACCTTTGTGTACTTTCA
* *
5967610 ACACTATGTGTGCA-TGTATGGTATTCATAAT
66 GCACTATGTGTGCATTG-ATGGTGTTCATAAT
5967641 GAGTTTGTGA
Statistics
Matches: 179, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
103 3 0.02
104 176 0.98
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.44
Consensus pattern (104 bp):
GTTATCGATCGATTTTGTTTAATGCATATGTTGCATTTTCGCATCAGTACCTTTGTGTACTTTCA
GCACTATGTGTGCATTGATGGTGTTCATAATAAGCACCT
Found at i:5971089 original size:19 final size:19
Alignment explanation
Indices: 5971065--5971105 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
5971055 AATGGATTAA
*
5971065 AGCTGATCATCTGCTATAT
1 AGCTGATCATATGCTATAT
*
5971084 AGCTGATCATATGCTATGT
1 AGCTGATCATATGCTATAT
5971103 AGC
1 AGC
5971106 CAATCATCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (19 bp):
AGCTGATCATATGCTATAT
Found at i:5971111 original size:19 final size:19
Alignment explanation
Indices: 5971070--5971112 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
5971060 ATTAAAGCTG
* **
5971070 ATCATCTGCTATATAGCTG
1 ATCATATGCTATATAGCCA
*
5971089 ATCATATGCTATGTAGCCA
1 ATCATATGCTATATAGCCA
5971108 ATCAT
1 ATCAT
5971113 CTTTTTGTAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (19 bp):
ATCATATGCTATATAGCCA
Found at i:5979817 original size:21 final size:21
Alignment explanation
Indices: 5979793--5979840 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
5979783 ATAATTCCTG
*
5979793 TTGGCTTTGTAATAATGGTCA
1 TTGGCTTTATAATAATGGTCA
5979814 TTGGCTTTATAATAATGGTCA
1 TTGGCTTTATAATAATGGTCA
5979835 TTGGCT
1 TTGGCT
5979841 CTTCATAGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.23, C:0.10, G:0.23, T:0.44
Consensus pattern (21 bp):
TTGGCTTTATAATAATGGTCA
Found at i:5981159 original size:24 final size:24
Alignment explanation
Indices: 5981117--5981169 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
5981107 AAAATGGTAA
*
5981117 ACAAAAATAACAAATAAAT-ATGT
1 ACAAAAAGAACAAATAAATAATGT
*
5981140 ACAAAAAGAAGAAATAAAATAATGT
1 ACAAAAAGAACAAAT-AAATAATGT
5981165 A-AAAA
1 ACAAAA
5981170 CTAAACTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 13 0.50
24 8 0.31
25 5 0.19
ACGTcount: A:0.70, C:0.06, G:0.08, T:0.17
Consensus pattern (24 bp):
ACAAAAAGAACAAATAAATAATGT
Found at i:5986836 original size:2 final size:2
Alignment explanation
Indices: 5986831--5986858 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
5986821 ATTAAGATTA
5986831 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5986859 GTGATTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5986836 original size:19 final size:18
Alignment explanation
Indices: 5986804--5986839 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
5986794 TTTATTGTAC
5986804 TTAAATTAAAATATATAA
1 TTAAATTAAAATATATAA
*
5986822 TTAAGATTAATATATATA
1 TTAA-ATTAAAATATATA
5986840 TATATATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (18 bp):
TTAAATTAAAATATATAA
Found at i:5988182 original size:38 final size:38
Alignment explanation
Indices: 5988119--5988203 Score: 125
Period size: 38 Copynumber: 2.2 Consensus size: 38
5988109 ATGCTAATAA
* *
5988119 ATTGATGAGATTAATAAGAGACTAATTTTAAAATGAAC
1 ATTGATGAGATCAATAAGAGACTAATATTAAAATGAAC
* * *
5988157 ATTGATGAGATCAATATGGGCCTAATATTAAAATGAAC
1 ATTGATGAGATCAATAAGAGACTAATATTAAAATGAAC
5988195 ATTGATGAG
1 ATTGATGAG
5988204 GTAATTATGA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.44, C:0.07, G:0.19, T:0.31
Consensus pattern (38 bp):
ATTGATGAGATCAATAAGAGACTAATATTAAAATGAAC
Found at i:5988968 original size:30 final size:30
Alignment explanation
Indices: 5988875--5988972 Score: 108
Period size: 30 Copynumber: 3.3 Consensus size: 30
5988865 AACGAGGTCT
* ** *
5988875 CATGTAGAATCAAGACAAG-AACAAAATCC
1 CATGTAGAACCAAGACGGGAAACAAAGTCC
* * * *
5988904 CATGCAAAATCAAGACGGGGAACAAAGTCC
1 CATGTAGAACCAAGACGGGAAACAAAGTCC
*
5988934 CATGTAGAACCAGGACGGGAAACAAAGTCC
1 CATGTAGAACCAAGACGGGAAACAAAGTCC
5988964 CATGTAGAA
1 CATGTAGAA
5988973 TCATAAATGC
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
29 15 0.26
30 43 0.74
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.12
Consensus pattern (30 bp):
CATGTAGAACCAAGACGGGAAACAAAGTCC
Found at i:5989592 original size:17 final size:17
Alignment explanation
Indices: 5989572--5989617 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
5989562 GGTCTATCAG
5989572 CGGATCAGGTTAATTAA
1 CGGATCAGGTTAATTAA
*
5989589 CGGATCAGGTCAATTAA
1 CGGATCAGGTTAATTAA
* *
5989606 TGGGTCAGGTTA
1 CGGATCAGGTTA
5989618 GGCAGTACGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.28
Consensus pattern (17 bp):
CGGATCAGGTTAATTAA
Found at i:5993927 original size:23 final size:23
Alignment explanation
Indices: 5993900--5993945 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
5993890 ATTAACAAAT
*
5993900 CTTATGTTTATGAGATTCATATG
1 CTTATGTGTATGAGATTCATATG
5993923 CTTATGTGTATGAGATTCATATG
1 CTTATGTGTATGAGATTCATATG
5993946 ATGCTCTAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.09, G:0.20, T:0.46
Consensus pattern (23 bp):
CTTATGTGTATGAGATTCATATG
Found at i:5998206 original size:24 final size:23
Alignment explanation
Indices: 5998177--5998221 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
5998167 TAATCTCACC
*
5998177 TTTATTTTTATATTTTTATTTCTA
1 TTTATTTTTA-ATTTTAATTTCTA
5998201 TTTATTTTTAATTTTAATTTC
1 TTTATTTTTAATTTTAATTTC
5998222 ATCCCTATCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.73
Consensus pattern (23 bp):
TTTATTTTTAATTTTAATTTCTA
Found at i:6000807 original size:235 final size:235
Alignment explanation
Indices: 6000396--6000870 Score: 950
Period size: 235 Copynumber: 2.0 Consensus size: 235
6000386 ATAACACAAT
6000396 TACTTCCCAAGATGAAATACTCGGGCTGATAAAACTTTGATCAACCAACTCTTATAATTGAGCCC
1 TACTTCCCAAGATGAAATACTCGGGCTGATAAAACTTTGATCAACCAACTCTTATAATTGAGCCC
6000461 CTAATTCTCTTGACTCACTTAAATCATTAAATATTAAATCCTAGAAACATGTTCAATACCTTAAT
66 CTAATTCTCTTGACTCACTTAAATCATTAAATATTAAATCCTAGAAACATGTTCAATACCTTAAT
6000526 AACCCTTAACCTTAAATTTTCACCTCTTGATCTAGAGGTGACCCCAAGAATTTATCTGAAAAGAC
131 AACCCTTAACCTTAAATTTTCACCTCTTGATCTAGAGGTGACCCCAAGAATTTATCTGAAAAGAC
6000591 ATCTATAAATTCCTAATTTTGTGAAATTAACAGATAATTG
196 ATCTATAAATTCCTAATTTTGTGAAATTAACAGATAATTG
6000631 TACTTCCCAAGATGAAATACTCGGGCTGATAAAACTTTGATCAACCAACTCTTATAATTGAGCCC
1 TACTTCCCAAGATGAAATACTCGGGCTGATAAAACTTTGATCAACCAACTCTTATAATTGAGCCC
6000696 CTAATTCTCTTGACTCACTTAAATCATTAAATATTAAATCCTAGAAACATGTTCAATACCTTAAT
66 CTAATTCTCTTGACTCACTTAAATCATTAAATATTAAATCCTAGAAACATGTTCAATACCTTAAT
6000761 AACCCTTAACCTTAAATTTTCACCTCTTGATCTAGAGGTGACCCCAAGAATTTATCTGAAAAGAC
131 AACCCTTAACCTTAAATTTTCACCTCTTGATCTAGAGGTGACCCCAAGAATTTATCTGAAAAGAC
6000826 ATCTATAAATTCCTAATTTTGTGAAATTAACAGATAATTG
196 ATCTATAAATTCCTAATTTTGTGAAATTAACAGATAATTG
6000866 TACTT
1 TACTT
6000871 TAATTAATTA
Statistics
Matches: 240, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
235 240 1.00
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (235 bp):
TACTTCCCAAGATGAAATACTCGGGCTGATAAAACTTTGATCAACCAACTCTTATAATTGAGCCC
CTAATTCTCTTGACTCACTTAAATCATTAAATATTAAATCCTAGAAACATGTTCAATACCTTAAT
AACCCTTAACCTTAAATTTTCACCTCTTGATCTAGAGGTGACCCCAAGAATTTATCTGAAAAGAC
ATCTATAAATTCCTAATTTTGTGAAATTAACAGATAATTG
Found at i:6009011 original size:23 final size:23
Alignment explanation
Indices: 6008931--6009013 Score: 84
Period size: 23 Copynumber: 3.7 Consensus size: 23
6008921 ACACTAGCTA
*
6008931 GTGCATCGATGCA-TCCCTTGAAT
1 GTGCATCGATGCACT-TCTTGAAT
* *
6008954 GTGCATCGAT--ACATCATGAA-
1 GTGCATCGATGCACTTCTTGAAT
*
6008974 GATGCACCGATGCACTTCTTGAAT
1 G-TGCATCGATGCACTTCTTGAAT
6008998 GTGCATCGATGCACTT
1 GTGCATCGATGCACTT
6009014 TGCTATGCAT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
20 1 0.02
21 14 0.29
23 32 0.67
24 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (23 bp):
GTGCATCGATGCACTTCTTGAAT
Found at i:6013412 original size:21 final size:21
Alignment explanation
Indices: 6013388--6013434 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
6013378 AATTTCATAA
*
6013388 GAAAAGATGGTTACATACCAG
1 GAAAAGATAGTTACATACCAG
* * *
6013409 GAAAAGCTAGTTGCATCCCAG
1 GAAAAGATAGTTACATACCAG
6013430 GAAAA
1 GAAAA
6013435 ATTCCAAACC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (21 bp):
GAAAAGATAGTTACATACCAG
Found at i:6016964 original size:21 final size:21
Alignment explanation
Indices: 6016940--6016986 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
6016930 AATTTCATAA
*
6016940 GAAAAGATGGTTACATCCCAG
1 GAAAAGATAGTTACATCCCAG
* *
6016961 GAAAAGCTAGTTGCATCCCAG
1 GAAAAGATAGTTACATCCCAG
6016982 GAAAA
1 GAAAA
6016987 ATTCCAAACC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.17
Consensus pattern (21 bp):
GAAAAGATAGTTACATCCCAG
Found at i:6023402 original size:25 final size:25
Alignment explanation
Indices: 6023374--6023447 Score: 64
Period size: 24 Copynumber: 3.0 Consensus size: 25
6023364 TTAAATATTA
*
6023374 TATTTTATCTTATCTTTATTTTTAG
1 TATTTTATCTTATCATTATTTTTAG
* *
6023399 TATTTTAGT-TTA--AATAGTTTTAAG
1 TATTTTA-TCTTATCATTA-TTTTTAG
* *
6023423 TATTTTATCTTATCGTTGTTTTTAG
1 TATTTTATCTTATCATTATTTTTAG
6023448 GATATTATTT
Statistics
Matches: 37, Mismatches: 7, Indels: 10
0.69 0.13 0.19
Matches are distributed among these distances:
23 3 0.08
24 16 0.43
25 16 0.43
26 2 0.05
ACGTcount: A:0.23, C:0.05, G:0.09, T:0.62
Consensus pattern (25 bp):
TATTTTATCTTATCATTATTTTTAG
Found at i:6023412 original size:44 final size:44
Alignment explanation
Indices: 6023349--6023477 Score: 168
Period size: 49 Copynumber: 2.8 Consensus size: 44
6023339 TAAACTCATG
*
6023349 TTTTAGGATATTATTTTAAATATTATATTTTATCTTATCTTTAT
1 TTTTAGGATATTATTTTAAATATTATATTTTATCTTATCGTTAT
* * * *
6023393 TTTTAGTATTTTAGTTTAAATAGTTTTAAGTATTTTATCTTATCGTTGT
1 TTTTAGGATATTATTTTAAATA---TT-A-TATTTTATCTTATCGTTAT
6023442 TTTTAGGATATTATTTTAAATATTATATTTTATCTT
1 TTTTAGGATATTATTTTAAATATTATATTTTATCTT
6023478 TATTTTAGGA
Statistics
Matches: 72, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
44 30 0.42
45 1 0.01
46 2 0.03
47 2 0.03
48 1 0.01
49 36 0.50
ACGTcount: A:0.28, C:0.04, G:0.08, T:0.60
Consensus pattern (44 bp):
TTTTAGGATATTATTTTAAATATTATATTTTATCTTATCGTTAT
Found at i:6023460 original size:39 final size:38
Alignment explanation
Indices: 6023416--6023490 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 38
6023406 GTTTAAATAG
* *
6023416 TTTTAAGTATTTTATCTTATCGTTGT-TTTTAGGATATTA
1 TTTTAAATATTATATCTTATC-TT-TATTTTAGGATATTA
*
6023455 TTTTAAATATTATATTTTATCTTTATTTTAGGATAT
1 TTTTAAATATTATATCTTATCTTTATTTTAGGATAT
6023491 CTCTCTCTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 1 0.03
38 13 0.41
39 18 0.56
ACGTcount: A:0.27, C:0.04, G:0.09, T:0.60
Consensus pattern (38 bp):
TTTTAAATATTATATCTTATCTTTATTTTAGGATATTA
Found at i:6025829 original size:2 final size:2
Alignment explanation
Indices: 6025822--6025854 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6025812 TAAATATGGC
6025822 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6025855 AAAAATTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6027932 original size:16 final size:16
Alignment explanation
Indices: 6027911--6027949 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
6027901 AGTGTGAATG
6027911 TAAAACATTAAAAAGT
1 TAAAACATTAAAAAGT
* *
6027927 TAAAACGTTAAAATGT
1 TAAAACATTAAAAAGT
*
6027943 TTAAACA
1 TAAAACA
6027950 ATTCCTTTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (16 bp):
TAAAACATTAAAAAGT
Found at i:6028315 original size:41 final size:41
Alignment explanation
Indices: 6028262--6028714 Score: 439
Period size: 41 Copynumber: 10.9 Consensus size: 41
6028252 GTTCATCGAA
* *
6028262 AGTGGCGTTTTT-TCAACAAACGCCGCAAAAGAGTAGTACTTT
1 AGTGGCGTTTTTAT--ACAAACGCCGCTAAAGACTAGTACTTT
* *
6028304 AGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTAATTT
1 AGTGGCGTTTTTATACAAACGCCGCTAAAGACTAGTACTTT
* * * *
6028345 AGTGACATTTTTATACAAACGCCGCTAAAGACTCGTAATTT
1 AGTGGCGTTTTTATACAAACGCCGCTAAAGACTAGTACTTT
* * *
6028386 AGTGGCATTTTTATACAAACGCCGCTATAA-AATTGTACTTT
1 AGTGGCGTTTTTATACAAACGCCGCTA-AAGACTAGTACTTT
* * * * * *
6028427 AGTGGCATTTTTATACAAACGTCGTTATACAC-ATGTACTAT
1 AGTGGCGTTTTTATACAAACGCCGCTAAAGACTA-GTACTTT
*
6028468 AGTGGCGTTTTTATTTACAAACGCCGCTAAAGACTCA-TAATTT
1 AGTGGCGTTTTTA--TACAAACGCCGCTAAAGACT-AGTACTTT
*
6028511 AGTGGTGTTTTTATACAAACGCCGCTAAAGACTCA-TACTTT
1 AGTGGCGTTTTTATACAAACGCCGCTAAAGACT-AGTACTTT
* **
6028552 AGTGGCGTTTTTATACAAACTCCGCTAAAGACGCGTACTTT
1 AGTGGCGTTTTTATACAAACGCCGCTAAAGACTAGTACTTT
** * * * * * * *
6028593 AGTGGAATTTTTATTCAAACGTCGTTATACACTTGTACTAT
1 AGTGGCGTTTTTATACAAACGCCGCTAAAGACTAGTACTTT
* * * * *
6028634 AGTGGCGTTTATGTTTACAAACGTCGCTAAAGACTCGAAATTT
1 AGTGGCGTTT-T-TATACAAACGCCGCTAAAGACTAGTACTTT
* *
6028677 AGTGGCATTTTTATACAAACGCCGCTAAAGACTCGTAC
1 AGTGGCGTTTTTATACAAACGCCGCTAAAGACTAGTAC
6028715 AAATGCCTTC
Statistics
Matches: 344, Mismatches: 56, Indels: 23
0.81 0.13 0.05
Matches are distributed among these distances:
40 1 0.00
41 264 0.77
42 16 0.05
43 62 0.18
45 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.33
Consensus pattern (41 bp):
AGTGGCGTTTTTATACAAACGCCGCTAAAGACTAGTACTTT
Found at i:6028513 original size:166 final size:166
Alignment explanation
Indices: 6028297--6028713 Score: 626
Period size: 166 Copynumber: 2.5 Consensus size: 166
6028287 CAAAAGAGTA
* * *
6028297 GTACTTTAGTGGCGTTTTTA--TACAAACGCCGCTAAAGACTCGTAATTTAGTGACATTTTTATA
1 GTACTATAGTGGCGTTTTTATTTACAAACGCCGCTAAAGACTCATAATTTAGTGGCATTTTTATA
**
6028360 CAAACGCCGCTAAAGACTCGTAATTTAGTGGCATTTTTATACAAACGCCGCTATAA-AATTGTAC
66 CAAACGCCGCTAAAGACTCGTAATTTAGTGGCATTTTTATACAAACGCCGCTA-AAGAAGCGTAC
*
6028424 TTTAGTGGCATTTTTATACAAACGTCGTTATACACAT
130 TTTAGTGGAATTTTTATACAAACGTCGTTATACACAT
**
6028461 GTACTATAGTGGCGTTTTTATTTACAAACGCCGCTAAAGACTCATAATTTAGTGGTGTTTTTATA
1 GTACTATAGTGGCGTTTTTATTTACAAACGCCGCTAAAGACTCATAATTTAGTGGCATTTTTATA
* * * * *
6028526 CAAACGCCGCTAAAGACTCATACTTTAGTGGCGTTTTTATACAAACTCCGCTAAAGACGCGTACT
66 CAAACGCCGCTAAAGACTCGTAATTTAGTGGCATTTTTATACAAACGCCGCTAAAGAAGCGTACT
* *
6028591 TTAGTGGAATTTTTATTCAAACGTCGTTATACACTT
131 TTAGTGGAATTTTTATACAAACGTCGTTATACACAT
* * *
6028627 GTACTATAGTGGCGTTTATGTTTACAAACGTCGCTAAAGACTCGA-AATTTAGTGGCATTTTTAT
1 GTACTATAGTGGCGTTTTTATTTACAAACGCCGCTAAAGACTC-ATAATTTAGTGGCATTTTTAT
6028691 ACAAACGCCGCTAAAGACTCGTA
65 ACAAACGCCGCTAAAGACTCGTA
6028714 CAAATGCCTT
Statistics
Matches: 228, Mismatches: 21, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
164 19 0.08
165 2 0.01
166 206 0.90
167 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.34
Consensus pattern (166 bp):
GTACTATAGTGGCGTTTTTATTTACAAACGCCGCTAAAGACTCATAATTTAGTGGCATTTTTATA
CAAACGCCGCTAAAGACTCGTAATTTAGTGGCATTTTTATACAAACGCCGCTAAAGAAGCGTACT
TTAGTGGAATTTTTATACAAACGTCGTTATACACAT
Found at i:6028590 original size:125 final size:124
Alignment explanation
Indices: 6028262--6028714 Score: 497
Period size: 125 Copynumber: 3.6 Consensus size: 124
6028252 GTTCATCGAA
* * *
6028262 AGTGGCGTTTTT-TCAACAAACGCCGCAAAAGAGT-AGTACTTTAGTGGCGTTTTTATACAAACG
1 AGTGGCGTTTTTAT--ACAAACGCCGCTAAAGACTCA-TACTTTAGTGGCATTTTTATACAAACG
* *
6028325 CCGCTAAAGACTCGTAATTTAGTGACATTTTTA-TACAAACGCCGCTAAAGACTCGTAATTT
63 CCGCTAAAGACTCGTACTTTAGTGGCATTTTTATTACAAACGCCGCTAAAGACTCGTAATTT
* * ** *
6028386 AGTGGCATTTTTATACAAACGCCGCTATAA-AATTGTACTTTAGTGGCATTTTTATACAAACGTC
1 AGTGGCGTTTTTATACAAACGCCGCTA-AAGACTCATACTTTAGTGGCATTTTTATACAAACGCC
* * * * * *
6028450 GTTATACACAT-GTACTATAGTGGCGTTTTTATTTACAAACGCCGCTAAAGACTCATAATTT
65 GCTAAAGAC-TCGTACTTTAGTGGCATTTTTA-TTACAAACGCCGCTAAAGACTCGTAATTT
* * *
6028511 AGTGGTGTTTTTATACAAACGCCGCTAAAGACTCATACTTTAGTGGCGTTTTTATACAAACTCCG
1 AGTGGCGTTTTTATACAAACGCCGCTAAAGACTCATACTTTAGTGGCATTTTTATACAAACGCCG
* * * * * * * * *
6028576 CTAAAGACGCGTACTTTAGTGGAATTTTTATT-CAAACGTCGTTATACACTTGTACTAT
66 CTAAAGACTCGTACTTTAGTGGCATTTTTATTACAAACGCCGCTAAAGACTCGTAATTT
* * *
6028634 AGTGGCGTTTATGTTTACAAACGTCGCTAAAGACTCGA-AATTTAGTGGCATTTTTATACAAACG
1 AGTGGCGTTT-T-TATACAAACGCCGCTAAAGACTC-ATACTTTAGTGGCATTTTTATACAAACG
6028698 CCGCTAAAGACTCGTAC
63 CCGCTAAAGACTCGTAC
6028715 AAATGCCTTC
Statistics
Matches: 274, Mismatches: 44, Indels: 21
0.81 0.13 0.06
Matches are distributed among these distances:
123 90 0.33
124 19 0.07
125 164 0.60
126 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.33
Consensus pattern (124 bp):
AGTGGCGTTTTTATACAAACGCCGCTAAAGACTCATACTTTAGTGGCATTTTTATACAAACGCCG
CTAAAGACTCGTACTTTAGTGGCATTTTTATTACAAACGCCGCTAAAGACTCGTAATTT
Found at i:6032423 original size:14 final size:14
Alignment explanation
Indices: 6032380--6032423 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 14
6032370 AGATCAAATC
6032380 AAAGAAAAGAGAAAA
1 AAAGAAAA-AGAAAA
6032395 AAGAGAAGCAAAGAAAA
1 AA-AGAA--AAAGAAAA
6032412 AAAGAAAAAGAA
1 AAAGAAAAAGAA
6032424 GACAAGAAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
14 6 0.23
15 2 0.08
16 8 0.31
17 8 0.31
18 2 0.08
ACGTcount: A:0.77, C:0.02, G:0.20, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAGAAAA
Found at i:6035880 original size:415 final size:413
Alignment explanation
Indices: 6035110--6036217 Score: 1265
Period size: 415 Copynumber: 2.7 Consensus size: 413
6035100 ATTTTCCACT
* * * * *
6035110 GACCAGATCTCCTCAACTCGAAGGAGCAGTGTCATCCTCAGTCAATCAGATTTCCTCATCACGTA
1 GACCAGATCTCCTCAACGCGAAAGAGCAGTGTCATCCTCAGACAATCAGACTTCCTTATCACGTA
*
6035175 GGAACCGTGTTGTCTCCAAATTATCTCTAAAGATGACTAGATGTCCTTATCACGAAGGAACAATT
66 GGAACCGTGTTGTCTCCAAATTATC-CTAAAGATGACTAGATGTCCTTA-CACGAAGGAACAATA
* * * * * *
6035240 TCATCCATCGATCAGATCTCCTCAACGCGAATGAGTATTGTCATCCTCATACAATTAAACTTTCT
129 TCGTCCATCGA-CAGATCTCCTCAACGCGAAGGAGCAGTGTCATCCTCAGACAATTAAACTTCCT
* * * * * *
6035305 TATCACGTAGGAA-CGTGTTATCTCCAAATTATCCCTAAAGACAGGTAAACGTCCCCATCGCGAA
193 CATCACGTAGGAACCGTGTTGTCTCCAAATTATCCCTAAAGACAGCTAGACGTCCTCATCACGAA
* * * * * * *
6035369 GGAATAATGTCATCCACCGACAAGATAGCCTCAACGTGAAAGAGCAGTGTCATCTCATATAGTCA
258 TGAAAAATGTCATCCACCAACAAGATAGCCTCAACGCGAAAGAGCAGTGTCATCTCAGACAATCA
* * * ** * *
6035434 GACTTTCTCATCACGTAGGAACTGTGTTGTCTTTAAATTATCCCTAAAGATGGCTA-ATCATCCT
323 GACTTCCTCATCACGAAGGAACCGTGTTGTCTCCAAATTATCACTAAAGATGGCTAGA-CATCAT
* *
6035498 CAACATGAAA-GAACAATATCATCTACC
387 CAACA-CAAAGGAACAACATCATCTACC
* *
6035525 GACCAGATCTCCTAAACGCGAAAGAGCAGTGTTATCCTCAGACAATCAGACTTCCTTATCACGTA
1 GACCAGATCTCCTCAACGCGAAAGAGCAGTGTCATCCTCAGACAATCAGACTTCCTTATCACGTA
* * * * *
6035590 GGAACCGTGTTATCTCCAAATTATCCATAAGGACGACTAGATGTCCTGA-ACGAAGTAACAATAT
66 GGAACCGTGTTGTCTCCAAATTATCC-TAAAGATGACTAGATGTCCTTACACGAAGGAACAATAT
* * * * *
6035654 CGTCCACCGACAAGATCACCTCAACGCAAAGGAGCAGTGTCATCCTCAGATAATTATACTTCCTC
130 CGTCCATCGAC-AGATCTCCTCAACGCGAAGGAGCAGTGTCATCCTCAGACAATTAAACTTCCTC
* * * *
6035719 ATCACGTAGAAACCGTGTTGTCTCCAAATTATCCCTAAAGACTGCTAGACGACCTCATCATGAAT
194 ATCACGTAGGAACCGTGTTGTCTCCAAATTATCCCTAAAGACAGCTAGACGTCCTCATCACGAAT
* ** * ** **
6035784 GAAAAATTTTGTCTACCAATTAGATCTCCTCAACGCGAATA-AGCAGTGTCATCCTCAGACAATC
259 GAAAAATGTCATCCACCAACAAGATAGCCTCAACGCGAA-AGAGCAGTGTCAT-CTCAGACAATC
* *
6035848 AGACTTCCTCGTCATGAAGGAACCGTGTTGTCTCCAAATTATCACTAAAGATGGCTAGACATCAT
322 AGACTTCCTCATCACGAAGGAACCGTGTTGTCTCCAAATTATCACTAAAGATGGCTAGACATCAT
* * *
6035913 CATCACAAAGGAACAACGTCGTCTACC
387 CAACACAAAGGAACAACATCATCTACC
* * * * * * *
6035940 GACCAGATCTCCTCAATGTGAAAGAGAAGTGTCATCCTCAAATAAACAGACTT-CTTCATCACGA
1 GACCAGATCTCCTCAACGCGAAAGAGCAGTGTCATCCTCAGACAATCAGACTTCCTT-ATCACGT
* * ** *
6036004 AAGAACCGTGTTGTCTCCAAATTATCCCTAAAGATGGCTAGACATCTTTATCACGAAGGAACAAT
65 AGGAACCGTGTTGTCTCCAAATTAT-CCTAAAGATGACTAGATGTCCTTA-CACGAAGGAACAAT
* * * * * *
6036069 GTCGTCCATTGACCATATCTCCTCAACACGAAGGAGCAGTGTCATCCTCAGACAATCAGACTTCC
128 ATCGTCCATCGA-CAGATCTCCTCAACGCGAAGGAGCAGTGTCATCCTCAGACAATTAAACTTCC
* ** * *
6036134 TCAACGTGTAGGAACCGTGTTGTCTCCAAATTATCCCTAAAGACGGCTAGACGTTCTCATCACGA
192 TCATCACGTAGGAACCGTGTTGTCTCCAAATTATCCCTAAAGACAGCTAGACGTCCTCATCACGA
* *
6036199 ATGAACAATGTCGTCCACC
257 ATGAAAAATGTCATCCACC
6036218 GACCATATCT
Statistics
Matches: 577, Mismatches: 104, Indels: 22
0.82 0.15 0.03
Matches are distributed among these distances:
412 1 0.00
413 75 0.13
414 89 0.15
415 271 0.47
416 3 0.01
417 137 0.24
418 1 0.00
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.25
Consensus pattern (413 bp):
GACCAGATCTCCTCAACGCGAAAGAGCAGTGTCATCCTCAGACAATCAGACTTCCTTATCACGTA
GGAACCGTGTTGTCTCCAAATTATCCTAAAGATGACTAGATGTCCTTACACGAAGGAACAATATC
GTCCATCGACAGATCTCCTCAACGCGAAGGAGCAGTGTCATCCTCAGACAATTAAACTTCCTCAT
CACGTAGGAACCGTGTTGTCTCCAAATTATCCCTAAAGACAGCTAGACGTCCTCATCACGAATGA
AAAATGTCATCCACCAACAAGATAGCCTCAACGCGAAAGAGCAGTGTCATCTCAGACAATCAGAC
TTCCTCATCACGAAGGAACCGTGTTGTCTCCAAATTATCACTAAAGATGGCTAGACATCATCAAC
ACAAAGGAACAACATCATCTACC
Found at i:6036242 original size:139 final size:139
Alignment explanation
Indices: 6035104--6036259 Score: 1151
Period size: 139 Copynumber: 8.3 Consensus size: 139
6035094 CATCTAATTT
* * * * *
6035104 TCCACTGACCAGATCTCCTCAACTCGAAGGAGCAGTGTCATCCTCAGTCAATCAGATTTCCTCAT
1 TCCACCGACCAGATCTCCTCAACGCAAAGGAGCAGTGTCATCCTCAGACAATCAGACTTCCTCAT
* * * * *
6035169 CACGTAGGAACCGTGTTGTCTCCAAATTATCTCTAAAGATGACTAGATGTCCTTATCACGAAGGA
66 CACGTAGGAACCGTGTTGTCTCCAAATTATCCCTAAAGACGGCTAGACGTCCTCATCACGAAGGA
* *
6035234 ACAATTTCA
131 ACAATGTCG
* * * * * * * * * * *
6035243 TCCATCGATCAGATCTCCTCAACGCGAATGAGTATTGTCATCCTCATACAATTAAACTTTCTTAT
1 TCCACCGACCAGATCTCCTCAACGCAAAGGAGCAGTGTCATCCTCAGACAATCAGACTTCCTCAT
* * * *
6035308 CACGTAGGAA-CGTGTTATCTCCAAATTATCCCTAAAGACAGG-TAAACGTCCCCATCGCGAAGG
66 CACGTAGGAACCGTGTTGTCTCCAAATTATCCCTAAAGAC-GGCTAGACGTCCTCATCACGAAGG
* *
6035371 AATAATGTCA
130 AACAATGTCG
* ** * * * * *
6035381 TCCACCGACAAGATAGCCTCAACGTGAAA-GAGCAGTGTCAT-CTCATATAGTCAGACTTTCTCA
1 TCCACCGACCAGATCTCCTCAACG-CAAAGGAGCAGTGTCATCCTCAGACAATCAGACTTCCTCA
* ** * * * * *
6035444 TCACGTAGGAACTGTGTTGTCTTTAAATTATCCCTAAAGATGGCTA-ATCATCCTCAACATGAAA
65 TCACGTAGGAACCGTGTTGTCTCCAAATTATCCCTAAAGACGGCTAGA-CGTCCTCATCACGAAG
* *
6035508 GAACAATATCA
129 GAACAATGTCG
* * * *
6035519 TCTACCGACCAGATCTCCTAAACGCGAAA-GAGCAGTGTTATCCTCAGACAATCAGACTTCCTTA
1 TCCACCGACCAGATCTCCTCAACGC-AAAGGAGCAGTGTCATCCTCAGACAATCAGACTTCCTCA
* * * * * * *
6035583 TCACGTAGGAACCGTGTTATCTCCAAATTATCCATAAGGACGACTAGATGTCCTGA--ACGAAGT
65 TCACGTAGGAACCGTGTTGTCTCCAAATTATCCCTAAAGACGGCTAGACGTCCTCATCACGAAGG
*
6035646 AACAATATCG
130 AACAATGTCG
* * * * *
6035656 TCCACCGACAAGATCACCTCAACGCAAAGGAGCAGTGTCATCCTCAGATAATTATACTTCCTCAT
1 TCCACCGACCAGATCTCCTCAACGCAAAGGAGCAGTGTCATCCTCAGACAATCAGACTTCCTCAT
* * * * *
6035721 CACGTAGAAACCGTGTTGTCTCCAAATTATCCCTAAAGACTGCTAGACGACCTCATCATGAATGA
66 CACGTAGGAACCGTGTTGTCTCCAAATTATCCCTAAAGACGGCTAGACGTCCTCATCACGAAGGA
* * *
6035786 AAAATTTTG
131 ACAATGTCG
* * ** * ** *
6035795 TCTACCAATTAGATCTCCTCAACGCGAATAAGCAGTGTCATCCTCAGACAATCAGACTTCCTCGT
1 TCCACCGACCAGATCTCCTCAACGCAAAGGAGCAGTGTCATCCTCAGACAATCAGACTTCCTCAT
* * * * * * *
6035860 CATGAAGGAACCGTGTTGTCTCCAAATTATCACTAAAGATGGCTAGACATCATCATCACAAAGGA
66 CACGTAGGAACCGTGTTGTCTCCAAATTATCCCTAAAGACGGCTAGACGTCCTCATCACGAAGGA
*
6035925 ACAACGTCG
131 ACAATGTCG
* * * * * * * *
6035934 TCTACCGACCAGATCTCCTCAATGTGAAA-GAGAAGTGTCATCCTCAAATAAACAGACTTCTTCA
1 TCCACCGACCAGATCTCCTCAACG-CAAAGGAGCAGTGTCATCCTCAGACAATCAGACTTCCTCA
* * * * * *
6035998 TCACGAAAGAACCGTGTTGTCTCCAAATTATCCCTAAAGATGGCTAGACATCTTTATCACGAAGG
65 TCACGTAGGAACCGTGTTGTCTCCAAATTATCCCTAAAGACGGCTAGACGTCCTCATCACGAAGG
6036063 AACAATGTCG
130 AACAATGTCG
** * * * *
6036073 TCCATTGACCATATCTCCTCAACACGAAGGAGCAGTGTCATCCTCAGACAATCAGACTTCCTCAA
1 TCCACCGACCAGATCTCCTCAACGCAAAGGAGCAGTGTCATCCTCAGACAATCAGACTTCCTCAT
** * *
6036138 CGTGTAGGAACCGTGTTGTCTCCAAATTATCCCTAAAGACGGCTAGACGTTCTCATCACGAATGA
66 CACGTAGGAACCGTGTTGTCTCCAAATTATCCCTAAAGACGGCTAGACGTCCTCATCACGAAGGA
6036203 ACAATGTCG
131 ACAATGTCG
* * ** *
6036212 TCCACCGACCATATCTCCTCAATGCAAAGGAGCAACGTCATCCCCAGA
1 TCCACCGACCAGATCTCCTCAACGCAAAGGAGCAGTGTCATCCTCAGA
6036260 TTGACCTAAC
Statistics
Matches: 821, Mismatches: 183, Indels: 26
0.80 0.18 0.03
Matches are distributed among these distances:
136 3 0.00
137 142 0.17
138 159 0.19
139 514 0.63
140 3 0.00
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.25
Consensus pattern (139 bp):
TCCACCGACCAGATCTCCTCAACGCAAAGGAGCAGTGTCATCCTCAGACAATCAGACTTCCTCAT
CACGTAGGAACCGTGTTGTCTCCAAATTATCCCTAAAGACGGCTAGACGTCCTCATCACGAAGGA
ACAATGTCG
Found at i:6036254 original size:278 final size:278
Alignment explanation
Indices: 6035104--6036254 Score: 1214
Period size: 276 Copynumber: 4.2 Consensus size: 278
6035094 CATCTAATTT
* * * *
6035104 TCCACTGACCAGATCTCCTCAACT-CGAAGGAGCAGTGTCATCCTC-AGTCAATCAGATTTCCTC
1 TCCACCGACCAGATCTCCTCAA-TGCAAAGGAGCAGTGTCATCCTCAAAT-AATCAGACTTCCTC
* * * ** *
6035167 ATCACGTAGGAACCGTGTTGTCTCCAAATTATCTCTAAAGATGACTAGATGTCCTTATCACGAAG
64 ATCACGTAAGAACCGTGTTGTCTCCAAATTATCCCTAAAGATGGCTAGACATCCTCATCACGAAG
* * * * * *
6035232 GAACAATTTCATCCATCGATCAGATCTCCTCAACGCGAATGAGTATTGTCATCCTCATACAATTA
129 GAACAATTTCATCCACCGACCAGATCTCCTCAACGCGAATGAGCAGTGTCATCCTCAGACAATCA
* * * * *
6035297 AACTTTCTTATCACGTAGGAA-CGTGTTATCTCCAAATTATCCCTAAAGACAGG-TAAACGTCCC
194 GACTTCCTCATCACGTAGGAACCGTGTTATCTCCAAATTATCCCTAAAGAC-GGCTAGACGTCCT
* * *
6035360 CATCGCGAAGGAATAATGTCA
258 CATCACGAAGGAACAATGTCG
* ** * * *
6035381 TCCACCGACAAGATAGCCTCAACGTG-AAA-GAGCAGTGTCAT-CTCATATAGTCAGACTTTCTC
1 TCCACCGACCAGATCTCCTCAA--TGCAAAGGAGCAGTGTCATCCTCAAATAATCAGACTTCCTC
* * ** * *
6035443 ATCACGTAGGAACTGTGTTGTCTTTAAATTATCCCTAAAGATGGCTA-ATCATCCTCAACATGAA
64 ATCACGTAAGAACCGTGTTGTCTCCAAATTATCCCTAAAGATGGCTAGA-CATCCTCATCACGAA
* * * * * *
6035507 AGAACAATATCATCTACCGACCAGATCTCCTAAACGCGAAAGAGCAGTGTTATCCTCAGACAATC
128 GGAACAATTTCATCCACCGACCAGATCTCCTCAACGCGAATGAGCAGTGTCATCCTCAGACAATC
* * * * *
6035572 AGACTTCCTTATCACGTAGGAACCGTGTTATCTCCAAATTATCCATAAGGACGACTAGATGTCCT
193 AGACTTCCTCATCACGTAGGAACCGTGTTATCTCCAAATTATCCCTAAAGACGGCTAGACGTCCT
* * *
6035637 GA--ACGAAGTAACAATATCG
258 CATCACGAAGGAACAATGTCG
* * * * * *
6035656 TCCACCGACAAGATCACCTCAACGCAAAGGAGCAGTGTCATCCTCAGATAATTATACTTCCTCAT
1 TCCACCGACCAGATCTCCTCAATGCAAAGGAGCAGTGTCATCCTCAAATAATCAGACTTCCTCAT
*
6035721 CACGT-AGAAACCGTGTTGTCTCCAAATTATCCCTAAAGACT-GCTAGACGA-CCTCATCATGAA
66 CACGTAAG-AACCGTGTTGTCTCCAAATTATCCCTAAAGA-TGGCTAGAC-ATCCTCATCACGAA
* * ** * * ** *
6035783 TGAAAAATTTTGTCTACCAATTAGATCTCCTCAACGCGAATAAGCAGTGTCATCCTCAGACAATC
128 GGAACAATTTCATCCACCGACCAGATCTCCTCAACGCGAATGAGCAGTGTCATCCTCAGACAATC
* * * * * * * *
6035848 AGACTTCCTCGTCATGAAGGAACCGTGTTGTCTCCAAATTATCACTAAAGATGGCTAGACATCAT
193 AGACTTCCTCATCACGTAGGAACCGTGTTATCTCCAAATTATCCCTAAAGACGGCTAGACGTCCT
* *
6035913 CATCACAAAGGAACAACGTCG
258 CATCACGAAGGAACAATGTCG
* * * * *
6035934 TCTACCGACCAGATCTCCTCAATGTGAAA-GAGAAGTGTCATCCTCAAATAAACAGACTTCTTCA
1 TCCACCGACCAGATCTCCTCAATG-CAAAGGAGCAGTGTCATCCTCAAATAATCAGACTTCCTCA
* * *
6035998 TCACGAAAGAACCGTGTTGTCTCCAAATTATCCCTAAAGATGGCTAGACATCTTTATCACGAAGG
65 TCACGTAAGAACCGTGTTGTCTCCAAATTATCCCTAAAGATGGCTAGACATCCTCATCACGAAGG
* * ** * * *
6036063 AACAATGTCGTCCATTGACCATATCTCCTCAACACGAAGGAGCAGTGTCATCCTCAGACAATCAG
130 AACAATTTCATCCACCGACCAGATCTCCTCAACGCGAATGAGCAGTGTCATCCTCAGACAATCAG
* ** * *
6036128 ACTTCCTCAACGTGTAGGAACCGTGTTGTCTCCAAATTATCCCTAAAGACGGCTAGACGTTCTCA
195 ACTTCCTCATCACGTAGGAACCGTGTTATCTCCAAATTATCCCTAAAGACGGCTAGACGTCCTCA
*
6036193 TCACGAATGAACAATGTCG
260 TCACGAAGGAACAATGTCG
* **
6036212 TCCACCGACCATATCTCCTCAATGCAAAGGAGCAACGTCATCC
1 TCCACCGACCAGATCTCCTCAATGCAAAGGAGCAGTGTCATCC
6036255 CCAGATTGAC
Statistics
Matches: 717, Mismatches: 137, Indels: 39
0.80 0.15 0.04
Matches are distributed among these distances:
273 1 0.00
274 3 0.00
275 46 0.06
276 313 0.44
277 74 0.10
278 275 0.38
279 5 0.01
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.25
Consensus pattern (278 bp):
TCCACCGACCAGATCTCCTCAATGCAAAGGAGCAGTGTCATCCTCAAATAATCAGACTTCCTCAT
CACGTAAGAACCGTGTTGTCTCCAAATTATCCCTAAAGATGGCTAGACATCCTCATCACGAAGGA
ACAATTTCATCCACCGACCAGATCTCCTCAACGCGAATGAGCAGTGTCATCCTCAGACAATCAGA
CTTCCTCATCACGTAGGAACCGTGTTATCTCCAAATTATCCCTAAAGACGGCTAGACGTCCTCAT
CACGAAGGAACAATGTCG
Found at i:6036668 original size:56 final size:56
Alignment explanation
Indices: 6036564--6036671 Score: 146
Period size: 56 Copynumber: 1.9 Consensus size: 56
6036554 ATTTTGTCCT
** *
6036564 AAAATTAAAGAGGGAACAAAATGTAAGGACCAAACTTTTAATTGTACCATTTTCTG
1 AAAATTAAAGAGGGAACAAAATGTAAGGACCAAACTAATAATTATACCATTTTCTG
* **
6036620 AAAATTAAAGAGTGAATGAAATGTAAGGACCAAACCTAAT-ATTATACCATTT
1 AAAATTAAAGAGGGAACAAAATGTAAGGACCAAA-CTAATAATTATACCATTT
6036672 GTAATTTGGT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
56 42 0.93
57 3 0.07
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.28
Consensus pattern (56 bp):
AAAATTAAAGAGGGAACAAAATGTAAGGACCAAACTAATAATTATACCATTTTCTG
Found at i:6038460 original size:54 final size:54
Alignment explanation
Indices: 6038323--6038609 Score: 380
Period size: 54 Copynumber: 5.3 Consensus size: 54
6038313 ATTCTACGGT
* * * * * * *
6038323 TTGCACCCGTAGTGCCAATACAGTAATTCACAAACTCATTATGAATTACATGT-GG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTC-T-TAGG
* *
6038378 TTGCACACTTAGTGCCACTACGGAAATTCATAAACTTATTATGAATTTCTTAGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGG
* *
6038432 TTACACACATAGTGGCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGG
* *
6038486 TTGCACACACAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGG
* * * *
6038540 CTGCACACACAGTG-CAATACGAAAATTCATAAACTCATTATGAATTTCTTAGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGG
*
6038593 TTGCACATATAGTGCCA
1 TTGCACACATAGTGCCA
6038610 TTCGGTAATT
Statistics
Matches: 209, Mismatches: 21, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
53 50 0.24
54 118 0.56
55 41 0.20
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (54 bp):
TTGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGG
Found at i:6039094 original size:95 final size:95
Alignment explanation
Indices: 6038951--6039133 Score: 242
Period size: 95 Copynumber: 1.9 Consensus size: 95
6038941 CCCTACCATG
* *
6038951 GTATAGATACTTCTATACTATGGTACCGATACTCCCTTTCAGTATCGATACCATTTCTACATTAT
1 GTATAGATACTTCTATACTATGGTACCGATACTCCATTGCAGTATCGATACCATTTCTACATTAT
*
6039016 GGAATCCATGGTATCGATGCCTTTCTCTTA
66 GGAATCCATGGTATCGATACCTTTCTCTTA
* * ** * * *
6039046 GTATTGATAC-TCATATTCTATGGTATTGATACTCCATTGCAGTATCGATACCATTTCTGCCTTC
1 GTATAGATACTTC-TATACTATGGTACCGATACTCCATTGCAGTATCGATACCATTTCTACATTA
* *
6039110 TGTAATCCATGGTATTGATACCTT
65 TGGAATCCATGGTATCGATACCTT
6039134 CCATATATTA
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
94 2 0.03
95 73 0.97
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (95 bp):
GTATAGATACTTCTATACTATGGTACCGATACTCCATTGCAGTATCGATACCATTTCTACATTAT
GGAATCCATGGTATCGATACCTTTCTCTTA
Found at i:6039690 original size:71 final size:72
Alignment explanation
Indices: 6039574--6039715 Score: 268
Period size: 71 Copynumber: 2.0 Consensus size: 72
6039564 TACTCACTTA
*
6039574 GTTTTAATCATCCTTGAACTTCCCTTAAGCTTCTATATTACTCAGTGTTTCAAGAACAAA-TAAA
1 GTTTTAATCATCCTTGAACTTCCCTTAAGCTTCTATATTACTCAGTGTTTCAAGAACAAACCAAA
6039638 AAAAAAG
66 AAAAAAG
6039645 GTTTTAATCATCCTTGAACTTCCCTTAAGCTTCTATATTACTCAGTGTTTCAAGAACAAACCAAA
1 GTTTTAATCATCCTTGAACTTCCCTTAAGCTTCTATATTACTCAGTGTTTCAAGAACAAACCAAA
6039710 AAAAAA
66 AAAAAA
6039716 AAGGAAAAAC
Statistics
Matches: 69, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
71 60 0.87
72 9 0.13
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (72 bp):
GTTTTAATCATCCTTGAACTTCCCTTAAGCTTCTATATTACTCAGTGTTTCAAGAACAAACCAAA
AAAAAAG
Found at i:6042830 original size:21 final size:22
Alignment explanation
Indices: 6042801--6042858 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 22
6042791 CCGTTACTTA
*
6042801 AAACC-CTAAATTATAAACCAT
1 AAACCTCTAAATCATAAACCAT
* *
6042822 -AACCTCTAAGTCATAAATCAT
1 AAACCTCTAAATCATAAACCAT
*
6042843 AAACCT-TAAACCATAA
1 AAACCTCTAAATCATAA
6042859 CTTAGGGTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
20 4 0.13
21 21 0.70
22 5 0.17
ACGTcount: A:0.50, C:0.24, G:0.02, T:0.24
Consensus pattern (22 bp):
AAACCTCTAAATCATAAACCAT
Found at i:6047324 original size:561 final size:543
Alignment explanation
Indices: 6046251--6047345 Score: 1556
Period size: 561 Copynumber: 2.0 Consensus size: 543
6046241 TCATTTACAT
* * * *
6046251 TTTTGTACTTTAATTTTTTAACATTTTGATTTCAATTCTTTAATTTTCAGCATTTACATTTTAGT
1 TTTTGTACTTTAAATTTTCAACATTTTAATTTCAATTCTTTAATTTTCAGCATTTACATTTTAAT
*
6046316 CCCTTAAATCAAAACATTTAATTTTATACACTTTTAATTTGAACCTTATATTTTGTTTTCTTTCA
66 CCCTTAAATCAAAACATTTAATTTTATACACTTTTAATTTGAACATTATATTTTGTTTTCTTTCA
** ** *
6046381 TTTTAGTCCCTTATTTGATATTTTTAATTTCATCTTTACAATTTAGATCATTTCTAATTTAGTCC
131 TTTTAGTCCCTTATTTGATATTTTTAATTTCAAATTTACAATTTAGATCATTTAGAATTTAATCC
* ** *
6046446 ATAATTTGGTCAATTAATATTTTTATTTAGCCCTTTAAATTTAGGTTTCTTTAAAAATGGTCCCT
196 ATAATATGGTCAATTAATATTTTTATTTAGAACTTTAAATTTAGGTTTCTTTAAAAATAGTCCCT
* *
6046511 CAACTTTTTTAATTAGGAGAATTTTTAATTTGTTTCACGCTTTATGCTCGAGGTTCCATTATAAT
261 CAACTTTTTTAATAAGGAGAATTTTTAATTTGTGTCACGCTTTATGCTCGAGGTTCCATTATAAT
*
6046576 TATTCGATTTCATAATTGATTAAAATTAGCTAGGATTAATAATTAGAGCCTTAATTTTAAGTTTA
326 TATTCGATTTCATAATTGATTAAAATTAGCTAGGATTAATAATTAGAGCCATAATTTTAAGTTTA
* * * * * *
6046641 GTTTCACTTTATTCATGCTTAATTTGGTACTCGCTTTATGCTTGAGGTTCCATTTTGATTATTTG
391 ATTTCACTTTATTAATGCTTAATTTGGTACTCGCATTATGCCTGAGGTTCAATTTTAATTATTTG
* * *
6046706 ATTTCATAATTGGATAAATTTCATTAGGTTTAATGTTAGAGCCTATATGTTTAGGTTTAACCCTT
456 AATGCATAATTGGATAAATTTCATTAGGATTAATGTTAGAGCCTATATGTTTAGGTTTAACCCTT
*
6046771 TAGATTCTTTAAAATTTTCAAAA
521 TAGATTATTTAAAATTTTCAAAA
**
6046794 TTTTGTACTTTAAATTTTCATTTATTTTAATTTCAATTCTTTAATTTTCAGCATTTACATTTTAA
1 TTTTGTACTTTAAATTTTCA-ACATTTTAATTTCAATTCTTTAATTTTCAGCATTTACATTTTAA
* * *
6046859 TCCCTTAAATTC-CAACATTTAATTTTATGCACTTTTTAATTTGAACATTATATTCTAT-TTTTT
65 TCCCTTAAA-TCAAAACATTTAATTTTATACAC-TTTTAATTTGAACATTATATT-T-TGTTTTC
* * *
6046922 TTTCATTTTAGTCTCTTATTTGATATTTTTAATTTCAAATTTACATTTTAGATTATTTAGAATTT
126 TTTCATTTTAGTCCCTTATTTGATATTTTTAATTTCAAATTTACAATTTAGATCATTTAGAATTT
*
6046987 AATCCATAATATGGTCAATTAGTATTTTTGATTTAGAACTTTAAATTTAGGTTTCTTTAAAAATA
191 AATCCATAATATGGTCAATTAATATTTTT-ATTTAGAACTTTAAATTTAGGTTTCTTTAAAAATA
6047052 GTCCCTCAACTTTTTCTAATAAGGAGAATTTTTAATTTG-GTCAACGCTTTATGC-CTGAGGTTC
255 GTCCCTCAACTTTTT-TAATAAGGAGAATTTTTAATTTGTGTC-ACGCTTTATGCTC-GAGGTTC
* *
6047115 CATTATAATTATTCGATTTCATAATTGATTAAAATT-GTTAGGATTAATAATTAGAGCCATACTT
317 CATTATAATTATTCGATTTCATAATTGATTAAAATTAGCTAGGATTAATAATTAGAGCCATAATT
*
6047179 TTAAGTTTAATTTCACTTTAGTCCTTTTAATTGGGGGAATTTTAATTTGGT-CTTCGCATTATGC
382 TTAAGTTTAATTTCACTTTA------TTAA-T----G---CTTAATTTGGTAC-TCGCATTATGC
6047243 CTGAGGTTCAATTTTAATTATTTGAATGCATAATTGGATAGAA-TTCATTAGGATTAATGTTAGA
432 CTGAGGTTCAATTTTAATTATTTGAATGCATAATTGGATA-AATTTCATTAGGATTAATGTTAGA
*
6047307 GCCTATATTTTTAGGTTTAACCCTTTAGATTATTTAAAA
496 GCCTATATGTTTAGGTTTAACCCTTTAGATTATTTAAAA
6047346 ATTATAATTT
Statistics
Matches: 487, Mismatches: 40, Indels: 32
0.87 0.07 0.06
Matches are distributed among these distances:
543 18 0.04
544 67 0.14
545 22 0.05
546 89 0.18
547 95 0.20
548 76 0.16
553 3 0.01
554 1 0.00
558 1 0.00
560 1 0.00
561 112 0.23
562 2 0.00
ACGTcount: A:0.29, C:0.12, G:0.11, T:0.48
Consensus pattern (543 bp):
TTTTGTACTTTAAATTTTCAACATTTTAATTTCAATTCTTTAATTTTCAGCATTTACATTTTAAT
CCCTTAAATCAAAACATTTAATTTTATACACTTTTAATTTGAACATTATATTTTGTTTTCTTTCA
TTTTAGTCCCTTATTTGATATTTTTAATTTCAAATTTACAATTTAGATCATTTAGAATTTAATCC
ATAATATGGTCAATTAATATTTTTATTTAGAACTTTAAATTTAGGTTTCTTTAAAAATAGTCCCT
CAACTTTTTTAATAAGGAGAATTTTTAATTTGTGTCACGCTTTATGCTCGAGGTTCCATTATAAT
TATTCGATTTCATAATTGATTAAAATTAGCTAGGATTAATAATTAGAGCCATAATTTTAAGTTTA
ATTTCACTTTATTAATGCTTAATTTGGTACTCGCATTATGCCTGAGGTTCAATTTTAATTATTTG
AATGCATAATTGGATAAATTTCATTAGGATTAATGTTAGAGCCTATATGTTTAGGTTTAACCCTT
TAGATTATTTAAAATTTTCAAAA
Found at i:6056881 original size:42 final size:41
Alignment explanation
Indices: 6056791--6056899 Score: 138
Period size: 36 Copynumber: 2.8 Consensus size: 41
6056781 CAAGTCTAGC
* * * *
6056791 AATATGTAGATGAAGTCGAATCCTAAGATGTATACAAGCTG
1 AATATGTATATGAAGTAGAAGCCTAAGATGAATACAAGCTG
6056832 -A-A---ATATGAAGTAGAAGCCTAAGATGAATACAAGCTG
1 AATATGTATATGAAGTAGAAGCCTAAGATGAATACAAGCTG
6056868 AAATATGTATATGAAGTAGAAGCCTAAGATGA
1 -AATATGTATATGAAGTAGAAGCCTAAGATGA
6056900 GCATTGTAGA
Statistics
Matches: 58, Mismatches: 4, Indels: 11
0.79 0.05 0.15
Matches are distributed among these distances:
36 30 0.52
38 1 0.02
39 2 0.03
40 1 0.02
42 24 0.41
ACGTcount: A:0.44, C:0.10, G:0.22, T:0.24
Consensus pattern (41 bp):
AATATGTATATGAAGTAGAAGCCTAAGATGAATACAAGCTG
Found at i:6058230 original size:35 final size:36
Alignment explanation
Indices: 6058153--6058232 Score: 117
Period size: 36 Copynumber: 2.2 Consensus size: 36
6058143 GGATGTAACA
* * *
6058153 AAAATTTCATCATAAATATATAAATGTACTGTATCT
1 AAAATTTTATCATAAATATATAAATCTACTCTATCT
*
6058189 AAAATTTTATCATAAATATATGAA-CTACTCTATCT
1 AAAATTTTATCATAAATATATAAATCTACTCTATCT
6058224 AAAATTTTA
1 AAAATTTTA
6058233 AACTAAATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
35 18 0.45
36 22 0.55
ACGTcount: A:0.45, C:0.11, G:0.04, T:0.40
Consensus pattern (36 bp):
AAAATTTTATCATAAATATATAAATCTACTCTATCT
Found at i:6058240 original size:35 final size:36
Alignment explanation
Indices: 6058153--6058241 Score: 101
Period size: 35 Copynumber: 2.5 Consensus size: 36
6058143 GGATGTAACA
* * * *
6058153 AAAATTTCATCATAAATATATAAATGTACTGTATCT
1 AAAATTTTAACATAAATATATAAATCTACTCTATCT
* *
6058189 AAAATTTTATCATAAATATATGAA-CTACTCTATCT
1 AAAATTTTAACATAAATATATAAATCTACTCTATCT
6058224 AAAATTTTAA-ACTAAATA
1 AAAATTTTAACA-TAAATA
6058242 ATAGATGGTT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
34 1 0.02
35 24 0.51
36 22 0.47
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.38
Consensus pattern (36 bp):
AAAATTTTAACATAAATATATAAATCTACTCTATCT
Found at i:6058519 original size:16 final size:18
Alignment explanation
Indices: 6058487--6058520 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
6058477 ACATCAATTC
6058487 ATAAAAATATATCTAAAA
1 ATAAAAATATATCTAAAA
6058505 ATAAAAA-AT-TCTAAAA
1 ATAAAAATATATCTAAAA
6058521 CTGAATATCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 2 0.12
18 7 0.44
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (18 bp):
ATAAAAATATATCTAAAA
Found at i:6066506 original size:13 final size:13
Alignment explanation
Indices: 6066483--6066515 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
6066473 GGTTCTAGGA
6066483 AAAACGTAGTATTT
1 AAAA-GTAGTATTT
6066497 AAAAGTAGTATTT
1 AAAAGTAGTATTT
6066510 AAAAGT
1 AAAAGT
6066516 GCTTATGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.48, C:0.03, G:0.15, T:0.33
Consensus pattern (13 bp):
AAAAGTAGTATTT
Found at i:6072206 original size:104 final size:104
Alignment explanation
Indices: 6072017--6072206 Score: 222
Period size: 104 Copynumber: 1.8 Consensus size: 104
6072007 TTCTAGTATT
* * * * * *
6072017 TTATTTGACCTTGTGGTGACCTGATCTAGGGTATGATCTACATTATTATGGCTCGAACTTTGCTA
1 TTATTCGACCTTGTGGTGACCCGATCTAGGGTATGACCCACATTATTATGGCTCGAACTCTACTA
* * ***
6072082 ACTCCTAACTATTTTTTTTTTATTAAATTGTTTGAATTA
66 ACTCCTAACCACTAACTTTTTATTAAATTGTTTGAATTA
* * *
6072121 TTATTCGACCTTGTGGTGACCCGATCTGGGGTATGACCCGCATTATTATGG-TCCGGACTCTACT
1 TTATTCGACCTTGTGGTGACCCGATCTAGGGTATGACCCACATTATTATGGCT-CGAACTCTACT
6072185 AAC-CACTAACCACTAACTTTTT
65 AACTC-CTAACCACTAACTTTTT
6072207 CTAATAGCTA
Statistics
Matches: 70, Mismatches: 14, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
103 2 0.03
104 68 0.97
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (104 bp):
TTATTCGACCTTGTGGTGACCCGATCTAGGGTATGACCCACATTATTATGGCTCGAACTCTACTA
ACTCCTAACCACTAACTTTTTATTAAATTGTTTGAATTA
Found at i:6072842 original size:53 final size:54
Alignment explanation
Indices: 6072730--6072998 Score: 373
Period size: 54 Copynumber: 5.0 Consensus size: 54
6072720 TTTACACCCG
* * * * * *
6072730 TAGTGCCAATACAGTAATTCACAAACTCATTATGAATTACATGT-GGTTGCACACT
1 TAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTC-T-TAGGTTGCACACA
* * *
6072785 TAGTGCCACTA-GGAAATTAATAAACTTATTATGAATTTATTAGGTTGCACACA
1 TAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACA
6072838 TAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACA
1 TAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACA
* * *
6072892 AAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGGCTGCACACA
1 TAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACA
* *
6072946 CAGTG-CAATACGGAAATTCATAAACTCATTATGAATTTCTTAGGTTGCACACA
1 TAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACA
6072999 CAGTACATAT
Statistics
Matches: 193, Mismatches: 19, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
52 1 0.01
53 66 0.34
54 116 0.60
55 10 0.05
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.32
Consensus pattern (54 bp):
TAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACA
Found at i:6073472 original size:95 final size:95
Alignment explanation
Indices: 6073329--6073529 Score: 264
Period size: 95 Copynumber: 2.1 Consensus size: 95
6073319 CCCTACCATG
* * *
6073329 GTATCGATACTTCTATACTATGGTACCGATACTCCCTTTCAGTATCGATACCATTTCTACATTCT
1 GTATCGATACTTCTATACTATGGTACAGATACTCCATTGCAGTATCGATACCATTTCTACATTCT
*
6073394 GGAATCCATGGTATCGATGCCTTTCTCTAA
66 GGAATCCATGGTATCGATACCTTTCTCTAA
* * * *
6073424 GTATTGATAC-TCATATACTATGGTATAGATACTCCATTGCAGTATCGATACCATTTCTGCCTTC
1 GTATCGATACTTC-TATACTATGGTACAGATACTCCATTGCAGTATCGATACCATTTCTACATTC
* *
6073488 TGTAATCCATGGTATTGATACC-TTC-CATATA
65 TGGAATCCATGGTATCGATACCTTTCTC-TA-A
6073519 GTATCGATACT
1 GTATCGATACT
6073530 AATTGCATCA
Statistics
Matches: 91, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
93 1 0.01
94 7 0.08
95 83 0.91
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (95 bp):
GTATCGATACTTCTATACTATGGTACAGATACTCCATTGCAGTATCGATACCATTTCTACATTCT
GGAATCCATGGTATCGATACCTTTCTCTAA
Found at i:6085604 original size:21 final size:22
Alignment explanation
Indices: 6085575--6085626 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
6085565 CCCTTACTTA
*
6085575 AAACC-CTAAATTATAAATCAT
1 AAACCTCTAAATCATAAATCAT
*
6085596 -AACCTCTAAGTCATAAATCAT
1 AAACCTCTAAATCATAAATCAT
6085617 AAACCT-TAAA
1 AAACCTCTAAA
6085627 CTGTAACTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 4 0.15
21 17 0.65
22 5 0.19
ACGTcount: A:0.50, C:0.21, G:0.02, T:0.27
Consensus pattern (22 bp):
AAACCTCTAAATCATAAATCAT
Found at i:6087625 original size:126 final size:125
Alignment explanation
Indices: 6087376--6087634 Score: 473
Period size: 126 Copynumber: 2.0 Consensus size: 125
6087366 CAGGTCGGAT
6087376 TTTTTAATGTGATGTTCGGATCGGGGTTGTGTTTGAGTTTAGGGTAAAAAAACCAGACCCGACCC
1 TTTTTAATGTGATGTTCGGATCGGGGTTGTGTTTGAGTTTAGGGTAAAAAAACCAGACCCGACCC
6087441 GAATATATATATTTACCTTATATATTTAAGATTAATTACAATAATACCCCTCTATATATTA
66 GAATATATATATTTACCTTATATATTTAAGATTAATTACAATAATACCCCTC-ATATATTA
*
6087502 TTTTTAATGTGATGTTCGGGTCGGGGTTGTGTTTGAGTTTAGGGTAAAAAAACCAGACCCGACCC
1 TTTTTAATGTGATGTTCGGATCGGGGTTGTGTTTGAGTTTAGGGTAAAAAAACCAGACCCGACCC
6087567 GAATATATATATATTTACCTTATATATTTAAGATTAATTACAATAATACCCCTCTATATATTA
66 G-A-ATATATATATTTACCTTATATATTTAAGATTAATTACAATAATACCCCTC-ATATATTA
6087630 TTTTT
1 TTTTT
6087635 TTCAATTAAG
Statistics
Matches: 130, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
126 65 0.50
127 1 0.01
128 64 0.49
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.39
Consensus pattern (125 bp):
TTTTTAATGTGATGTTCGGATCGGGGTTGTGTTTGAGTTTAGGGTAAAAAAACCAGACCCGACCC
GAATATATATATTTACCTTATATATTTAAGATTAATTACAATAATACCCCTCATATATTA
Found at i:6087671 original size:22 final size:22
Alignment explanation
Indices: 6087624--6087679 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
6087614 ACCCCTCTAT
* *
6087624 ATATTATTTTT-TTCAATTAAG
1 ATATTATTTTTATTCAATAAAA
* *
6087645 TTATTATTTTTATTGAATAAAA
1 ATATTATTTTTATTCAATAAAA
6087667 ATATT-TTTTTATT
1 ATATTATTTTTATT
6087680 ATTTCGGGTC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
21 18 0.62
22 11 0.38
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.61
Consensus pattern (22 bp):
ATATTATTTTTATTCAATAAAA
Found at i:6099377 original size:42 final size:41
Alignment explanation
Indices: 6099287--6099395 Score: 138
Period size: 36 Copynumber: 2.8 Consensus size: 41
6099277 CAAGTCTAGC
* * * *
6099287 AATATGTAGATGAAGTCGAATCCTAAGATGCATACAAGCTG
1 AATATGTATATGAAGTAGAAGCCTAAGATGAATACAAGCTG
6099328 -A-A---ATATGAAGTAGAAGCCTAAGATGAATACAAGCTG
1 AATATGTATATGAAGTAGAAGCCTAAGATGAATACAAGCTG
6099364 AAATATGTATATGAAGTAGAAGCCTAAGATGA
1 -AATATGTATATGAAGTAGAAGCCTAAGATGA
6099396 GCATTGTAGA
Statistics
Matches: 58, Mismatches: 4, Indels: 11
0.79 0.05 0.15
Matches are distributed among these distances:
36 30 0.52
38 1 0.02
39 2 0.03
40 1 0.02
42 24 0.41
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.23
Consensus pattern (41 bp):
AATATGTATATGAAGTAGAAGCCTAAGATGAATACAAGCTG
Found at i:6100850 original size:35 final size:35
Alignment explanation
Indices: 6100803--6100881 Score: 115
Period size: 35 Copynumber: 2.3 Consensus size: 35
6100793 GGATGTAACA
* * *
6100803 AAAATTTCATCATAAATATAT-AATGTACTGTATCT
1 AAAATTTTATCATAAATATATGAA-CTACTCTATCT
6100838 AAAATTTTATCATAAATATATGAACTACTCTATCT
1 AAAATTTTATCATAAATATATGAACTACTCTATCT
6100873 AAAATTTTA
1 AAAATTTTA
6100882 AACTAAATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
35 38 0.95
36 2 0.05
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.41
Consensus pattern (35 bp):
AAAATTTTATCATAAATATATGAACTACTCTATCT
Found at i:6100889 original size:35 final size:35
Alignment explanation
Indices: 6100803--6100890 Score: 99
Period size: 35 Copynumber: 2.5 Consensus size: 35
6100793 GGATGTAACA
* * * *
6100803 AAAATTTCATCATAAATATATAATGTACTGTATCT
1 AAAATTTTAACATAAATATATAATCTACTCTATCT
*
6100838 AAAATTTTATCATAAATATATGAA-CTACTCTATCT
1 AAAATTTTAACATAAATATAT-AATCTACTCTATCT
6100873 AAAATTTTAA-ACTAAATA
1 AAAATTTTAACA-TAAATA
6100891 ATAGATGGTT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
34 1 0.02
35 44 0.94
36 2 0.04
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.39
Consensus pattern (35 bp):
AAAATTTTAACATAAATATATAATCTACTCTATCT
Found at i:6101168 original size:16 final size:18
Alignment explanation
Indices: 6101136--6101169 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
6101126 ACATCAATTC
6101136 ATAAAAATATATCTAAAA
1 ATAAAAATATATCTAAAA
6101154 ATAAAAA-AT-TCTAAAA
1 ATAAAAATATATCTAAAA
6101170 CTGAATATCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 2 0.12
18 7 0.44
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (18 bp):
ATAAAAATATATCTAAAA
Found at i:6110084 original size:54 final size:54
Alignment explanation
Indices: 6110002--6110272 Score: 368
Period size: 54 Copynumber: 5.0 Consensus size: 54
6109992 GGTTTACACC
* * * * * *
6110002 CATAGTGCCAATACAGTAATTCACAAACTCATTATGAATTACATGT-GGTTTCACA
1 CATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTC-T-TAGGTTGCACA
* * * *
6110057 CTTAGTGCCACTA-GGAAATTAATAAACTTATTATGAATTTATTAGGTTGCACA
1 CATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACA
6110110 CATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACA
1 CATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACA
* * *
6110164 CAAAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGGCTGCACA
1 CATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACA
* *
6110218 CACAGTG-CAATACGGAAATTCATAAACTCATTATGAATTTCTTAGGTTGCACA
1 CATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACA
6110271 CA
1 CA
6110273 CAGTACATAT
Statistics
Matches: 193, Mismatches: 21, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
52 1 0.01
53 65 0.34
54 116 0.60
55 11 0.06
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.32
Consensus pattern (54 bp):
CATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACA
Found at i:6110746 original size:95 final size:95
Alignment explanation
Indices: 6110603--6110803 Score: 264
Period size: 95 Copynumber: 2.1 Consensus size: 95
6110593 CCCTACCATG
* *
6110603 GTATCGATACTTCTATACTATGGTACCGATACTCCCTTTCAGTATCGATACCATTTCTACATTCT
1 GTATCGATACTTCTATACTATGGTACCGATACTCCATTGCAGTATCGATACCATTTCTACATTCT
*
6110668 GGAATCCATGGTATCGATGCCTTTCTCTTA
66 GGAATCCATGGTATCGATACCTTTCTCTTA
* ** * *
6110698 GTATTGATAC-TCATATACTATGGTATTGATACTCCATTGCAGTATCGATACCATTTCTGCCTTC
1 GTATCGATACTTC-TATACTATGGTACCGATACTCCATTGCAGTATCGATACCATTTCTACATTC
* *
6110762 TGTAATCCATGGTATTGATACC-TTC-CATATA
65 TGGAATCCATGGTATCGATACCTTTCTC-T-TA
6110793 GTATCGATACT
1 GTATCGATACT
6110804 AATTGCATCA
Statistics
Matches: 91, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
93 1 0.01
94 6 0.07
95 84 0.92
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (95 bp):
GTATCGATACTTCTATACTATGGTACCGATACTCCATTGCAGTATCGATACCATTTCTACATTCT
GGAATCCATGGTATCGATACCTTTCTCTTA
Found at i:6122929 original size:21 final size:22
Alignment explanation
Indices: 6122900--6122951 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
6122890 CCCTTACCTA
*
6122900 AAACC-CTAAATTATAAATCAT
1 AAACCTCTAAATCATAAATCAT
*
6122921 -AACCTCTAAGTCATAAATCAT
1 AAACCTCTAAATCATAAATCAT
6122942 AAACCT-TAAA
1 AAACCTCTAAA
6122952 CTGTAACTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 4 0.15
21 17 0.65
22 5 0.19
ACGTcount: A:0.50, C:0.21, G:0.02, T:0.27
Consensus pattern (22 bp):
AAACCTCTAAATCATAAATCAT
Found at i:6124869 original size:22 final size:22
Alignment explanation
Indices: 6124822--6124877 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
6124812 ACCCCTCTAT
*
6124822 ATATTATTTTT-TTCAATTAAA
1 ATATTATTTTTATTCAATAAAA
* *
6124843 TTATTATTTTTATTGAATAAAA
1 ATATTATTTTTATTCAATAAAA
6124865 ATATT-TTTTTATT
1 ATATTATTTTTATT
6124878 ATTTCGGGTC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 18 0.60
22 12 0.40
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (22 bp):
ATATTATTTTTATTCAATAAAA
Found at i:6136300 original size:42 final size:41
Alignment explanation
Indices: 6136210--6136318 Score: 138
Period size: 36 Copynumber: 2.8 Consensus size: 41
6136200 CAAGTCTAGC
* * * *
6136210 AATATGTAGATGAAGTCGAATCCTAAGATGTATACAAGCTG
1 AATATGTATATGAAGTAGAAGCCTAAGATGAATACAAGCTG
6136251 -A-A---ATATGAAGTAGAAGCCTAAGATGAATACAAGCTG
1 AATATGTATATGAAGTAGAAGCCTAAGATGAATACAAGCTG
6136287 AAATATGTATATGAAGTAGAAGCCTAAGATGA
1 -AATATGTATATGAAGTAGAAGCCTAAGATGA
6136319 GCATTGTAGA
Statistics
Matches: 58, Mismatches: 4, Indels: 11
0.79 0.05 0.15
Matches are distributed among these distances:
36 30 0.52
38 1 0.02
39 2 0.03
40 1 0.02
42 24 0.41
ACGTcount: A:0.44, C:0.10, G:0.22, T:0.24
Consensus pattern (41 bp):
AATATGTATATGAAGTAGAAGCCTAAGATGAATACAAGCTG
Found at i:6137790 original size:35 final size:36
Alignment explanation
Indices: 6137713--6137792 Score: 117
Period size: 36 Copynumber: 2.2 Consensus size: 36
6137703 GGATGTAACA
* * *
6137713 AAAATTTCATCATAAATATATAAATGTACTGTATCT
1 AAAATTTTATCATAAATATATAAATCTACTCTATCT
*
6137749 AAAATTTTATCATAAATATATGAA-CTACTCTATCT
1 AAAATTTTATCATAAATATATAAATCTACTCTATCT
6137784 AAAATTTTA
1 AAAATTTTA
6137793 AACTAAATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
35 18 0.45
36 22 0.55
ACGTcount: A:0.45, C:0.11, G:0.04, T:0.40
Consensus pattern (36 bp):
AAAATTTTATCATAAATATATAAATCTACTCTATCT
Found at i:6137800 original size:35 final size:36
Alignment explanation
Indices: 6137713--6137801 Score: 101
Period size: 35 Copynumber: 2.5 Consensus size: 36
6137703 GGATGTAACA
* * * *
6137713 AAAATTTCATCATAAATATATAAATGTACTGTATCT
1 AAAATTTTAACATAAATATATAAATCTACTCTATCT
* *
6137749 AAAATTTTATCATAAATATATGAA-CTACTCTATCT
1 AAAATTTTAACATAAATATATAAATCTACTCTATCT
6137784 AAAATTTTAA-ACTAAATA
1 AAAATTTTAACA-TAAATA
6137802 ATAGATGGTT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
34 1 0.02
35 24 0.51
36 22 0.47
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.38
Consensus pattern (36 bp):
AAAATTTTAACATAAATATATAAATCTACTCTATCT
Found at i:6138079 original size:16 final size:18
Alignment explanation
Indices: 6138047--6138080 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
6138037 ACATCAATTC
6138047 ATAAAAATATATCTAAAA
1 ATAAAAATATATCTAAAA
6138065 ATAAAAA-AT-TCTAAAA
1 ATAAAAATATATCTAAAA
6138081 GTATATGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 2 0.12
18 7 0.44
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (18 bp):
ATAAAAATATATCTAAAA
Found at i:6146459 original size:53 final size:54
Alignment explanation
Indices: 6146348--6146619 Score: 361
Period size: 54 Copynumber: 5.1 Consensus size: 54
6146338 TTACACCCGT
* * * * * **
6146348 AGTGCCAATACAGTAATTCACAAACTCATTATGAATTACATGT-GGTTGCACACTT
1 AGTGCCAATACGGAAATTCATAAACTTATTATGAATTTC-T-TAGGTTGCACACAC
* * * *
6146403 AGTGCCACTA-GGAAATTAATAAACTTATTATGAATTTATTAGGTTGCACACAT
1 AGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACAC
6146456 AGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACAC
1 AGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACAC
* * *
6146510 AGTGCCAATACGAAAATTGATAAACTTATTATGAATTTCTTAGGCTGCACACAC
1 AGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACAC
* *
6146564 AATG-CAATACGGAAATTCATAAACTCATTATGAATTTCTTAGGTTGCACACAC
1 AGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACAC
6146617 AGT
1 AGT
6146620 ACATATATTA
Statistics
Matches: 193, Mismatches: 22, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
52 1 0.01
53 68 0.35
54 115 0.60
55 9 0.05
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (54 bp):
AGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACAC
Found at i:6147089 original size:95 final size:95
Alignment explanation
Indices: 6146946--6147146 Score: 257
Period size: 95 Copynumber: 2.1 Consensus size: 95
6146936 CCCTACCATG
* *
6146946 GTATCGATACTTCTATACTATGGTACCGATACTCCCTTTCAGTATCGATACCATTTCTACATTCT
1 GTATCGATACTTCTATACTATGGTACCGATACTCCATTGCAGTATCGATACCATTTCTACATTCT
*
6147011 -TGAATCCATGGTATCGATGCCTTTCTCTTA
66 GT-AATCCATGGTATCGATACCTTTCTCTTA
* ** * *
6147041 GTATTGATAC-TCATATACTATGGTATTGATACTCCATTGCAGTATCGATACCATTTCTGCCTTC
1 GTATCGATACTTC-TATACTATGGTACCGATACTCCATTGCAGTATCGATACCATTTCTACATTC
*
6147105 TGTAATCCATGGTATTGATACC-TTC-CATATA
65 TGTAATCCATGGTATCGATACCTTTCTC-T-TA
6147136 GTATCGATACT
1 GTATCGATACT
6147147 AATTGCATCA
Statistics
Matches: 91, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
93 1 0.01
94 6 0.07
95 83 0.91
96 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.39
Consensus pattern (95 bp):
GTATCGATACTTCTATACTATGGTACCGATACTCCATTGCAGTATCGATACCATTTCTACATTCT
GTAATCCATGGTATCGATACCTTTCTCTTA
Found at i:6151444 original size:21 final size:22
Alignment explanation
Indices: 6151415--6151466 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
6151405 CCCTTACCTA
*
6151415 AAACC-CTAAATTATAAATCAT
1 AAACCTCTAAATCATAAATCAT
*
6151436 -AACCTCTAAGTCATAAATCAT
1 AAACCTCTAAATCATAAATCAT
6151457 AAACCT-TAAA
1 AAACCTCTAAA
6151467 CTGTAACTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 4 0.15
21 17 0.65
22 5 0.19
ACGTcount: A:0.50, C:0.21, G:0.02, T:0.27
Consensus pattern (22 bp):
AAACCTCTAAATCATAAATCAT
Found at i:6153444 original size:128 final size:128
Alignment explanation
Indices: 6153216--6153476 Score: 513
Period size: 128 Copynumber: 2.0 Consensus size: 128
6153206 CAGGTTGGAT
6153216 TTTTTAATGTGATGTTCGGATCGGGGTTGTGTTTGAGTTTAGGGTAAAAAAACCAGACCCGACCC
1 TTTTTAATGTGATGTTCGGATCGGGGTTGTGTTTGAGTTTAGGGTAAAAAAACCAGACCCGACCC
6153281 GAATATATATATATTTACCTTATATATTTAAGATTAATTACAATAATACCCCTCTATATATTA
66 GAATATATATATATTTACCTTATATATTTAAGATTAATTACAATAATACCCCTCTATATATTA
*
6153344 TTTTTAATGTGATGTTCGGGTCGGGGTTGTGTTTGAGTTTAGGGTAAAAAAACCAGACCCGACCC
1 TTTTTAATGTGATGTTCGGATCGGGGTTGTGTTTGAGTTTAGGGTAAAAAAACCAGACCCGACCC
6153409 GAATATATATATATTTACCTTATATATTTAAGATTAATTACAATAATACCCCTCTATATATTA
66 GAATATATATATATTTACCTTATATATTTAAGATTAATTACAATAATACCCCTCTATATATTA
6153472 TTTTT
1 TTTTT
6153477 TTCAATTAAG
Statistics
Matches: 132, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
128 132 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.39
Consensus pattern (128 bp):
TTTTTAATGTGATGTTCGGATCGGGGTTGTGTTTGAGTTTAGGGTAAAAAAACCAGACCCGACCC
GAATATATATATATTTACCTTATATATTTAAGATTAATTACAATAATACCCCTCTATATATTA
Found at i:6153513 original size:22 final size:22
Alignment explanation
Indices: 6153466--6153521 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
6153456 ACCCCTCTAT
* *
6153466 ATATTATTTTT-TTCAATTAAG
1 ATATTATTTTTATTCAATAAAA
* *
6153487 TTATTATTTTTATTGAATAAAA
1 ATATTATTTTTATTCAATAAAA
6153509 ATATT-TTTTTATT
1 ATATTATTTTTATT
6153522 ATTTCGGGTC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
21 18 0.62
22 11 0.38
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.61
Consensus pattern (22 bp):
ATATTATTTTTATTCAATAAAA
Found at i:6164821 original size:36 final size:36
Alignment explanation
Indices: 6164774--6164884 Score: 186
Period size: 36 Copynumber: 3.1 Consensus size: 36
6164764 CAATATGTAG
*
6164774 ATGAAGTCGAATCCTAAGATGCATACAAGCTGAAAT
1 ATGAAGTCGAATCCTAAGATGAATACAAGCTGAAAT
*
6164810 ATGAAGTCGAATCCTAAGATGTATACAAGCTGAAAT
1 ATGAAGTCGAATCCTAAGATGAATACAAGCTGAAAT
* *
6164846 ATGAAGTAGAAGCCTAAGATGAATACAAGCTGAAAT
1 ATGAAGTCGAATCCTAAGATGAATACAAGCTGAAAT
6164882 ATG
1 ATG
6164885 TATATGAAGT
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 71 1.00
ACGTcount: A:0.43, C:0.14, G:0.21, T:0.23
Consensus pattern (36 bp):
ATGAAGTCGAATCCTAAGATGAATACAAGCTGAAAT
Found at i:6166389 original size:35 final size:36
Alignment explanation
Indices: 6166312--6166391 Score: 117
Period size: 36 Copynumber: 2.2 Consensus size: 36
6166302 GGATGTAACA
* * *
6166312 AAAATTTCATCATAAATATATAAATGTACTGTATCT
1 AAAATTTTATCATAAATATATAAATCTACTCTATCT
*
6166348 AAAATTTTATCATAAATATATGAA-CTACTCTATCT
1 AAAATTTTATCATAAATATATAAATCTACTCTATCT
6166383 AAAATTTTA
1 AAAATTTTA
6166392 AACTAAATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
35 18 0.45
36 22 0.55
ACGTcount: A:0.45, C:0.11, G:0.04, T:0.40
Consensus pattern (36 bp):
AAAATTTTATCATAAATATATAAATCTACTCTATCT
Found at i:6166399 original size:35 final size:36
Alignment explanation
Indices: 6166312--6166400 Score: 101
Period size: 35 Copynumber: 2.5 Consensus size: 36
6166302 GGATGTAACA
* * * *
6166312 AAAATTTCATCATAAATATATAAATGTACTGTATCT
1 AAAATTTTAACATAAATATATAAATCTACTCTATCT
* *
6166348 AAAATTTTATCATAAATATATGAA-CTACTCTATCT
1 AAAATTTTAACATAAATATATAAATCTACTCTATCT
6166383 AAAATTTTAA-ACTAAATA
1 AAAATTTTAACA-TAAATA
6166401 ATAGATGGTT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
34 1 0.02
35 24 0.51
36 22 0.47
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.38
Consensus pattern (36 bp):
AAAATTTTAACATAAATATATAAATCTACTCTATCT
Found at i:6166676 original size:15 final size:17
Alignment explanation
Indices: 6166646--6166677 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
6166636 ACATCAATTC
6166646 ATAAAATATATCTAAAA
1 ATAAAATATATCTAAAA
6166663 ATAAAA-AT-TCTAAAA
1 ATAAAATATATCTAAAA
6166678 CTGAATATCC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 2 0.13
17 6 0.40
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (17 bp):
ATAAAATATATCTAAAA
Found at i:6167702 original size:22 final size:21
Alignment explanation
Indices: 6167674--6167716 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
6167664 ACTAAATACT
6167674 AAAGATAATTCCTAAAAGATAA
1 AAAGATAATTCCT-AAAGATAA
*
6167696 AAAGATAATTCCTGAAGATAA
1 AAAGATAATTCCTAAAGATAA
6167717 TTTTAATTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.23
Consensus pattern (21 bp):
AAAGATAATTCCTAAAGATAA
Found at i:6176548 original size:17 final size:17
Alignment explanation
Indices: 6176523--6176556 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6176513 AATGAGATAG
*
6176523 AAATTAAATAAACAAAT
1 AAATAAAATAAACAAAT
*
6176540 AAATAAAATAAATAAAT
1 AAATAAAATAAACAAAT
6176557 TTGGATAAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
AAATAAAATAAACAAAT
Found at i:6177261 original size:42 final size:41
Alignment explanation
Indices: 6177209--6177334 Score: 125
Period size: 42 Copynumber: 3.0 Consensus size: 41
6177199 TTAAAACACT
6177209 TAAAAC-TATTTAAACTAAAATACCTAAAACAAAGATAAAA
1 TAAAACTTATTTAAACTAAAATACCTAAAACAAAGATAAAA
* * * * *
6177249 TAAAA-TAATATTTAAAATAATAT-CCTAAATCCTAATTGA-ATAA
1 TAAAACT--TATTTAAACTAAAATACCTAAA-AC-AA-AGATAAAA
*
6177292 TAAAACTTATTTAAACTAAAATACTTAAAACAAAGATAAAA
1 TAAAACTTATTTAAACTAAAATACCTAAAACAAAGATAAAA
6177333 TA
1 TA
6177335 TAATGTTTAA
Statistics
Matches: 66, Mismatches: 11, Indels: 17
0.70 0.12 0.18
Matches are distributed among these distances:
40 7 0.11
41 13 0.20
42 28 0.42
43 15 0.23
44 3 0.05
ACGTcount: A:0.59, C:0.10, G:0.02, T:0.29
Consensus pattern (41 bp):
TAAAACTTATTTAAACTAAAATACCTAAAACAAAGATAAAA
Found at i:6188777 original size:71 final size:75
Alignment explanation
Indices: 6188696--6188884 Score: 253
Period size: 76 Copynumber: 2.6 Consensus size: 75
6188686 TAAAACATCT
* * *
6188696 TAAATCCTAATTAAAACACTTAAAA-CTATTTAAACTAAAATACCT-AA-AAA-ATAATAT-TTA
1 TAAATCCTAATTAAAATAC-TAAAACCTATTTAAACTAAAATACCTAAACAAAGATAAAATATAA
*
6188756 AAATAATATTC
65 AAATAATATCC
*
6188767 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATATCTAAAACAAAGATAAAATATAA
1 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCT-AAACAAAGATAAAATATAA
6188832 AAATAATATCC
65 AAATAATATCC
* * *
6188843 TAAAACTTAATTAAAATACTAAAACCTATTTAAAATAAAATA
1 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATA
6188885 AAAAGATAAA
Statistics
Matches: 104, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
70 5 0.05
71 37 0.36
73 2 0.02
74 3 0.03
75 6 0.06
76 51 0.49
ACGTcount: A:0.57, C:0.12, G:0.01, T:0.30
Consensus pattern (75 bp):
TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAACAAAGATAAAATATAAA
AATAATATCC
Found at i:6188866 original size:19 final size:19
Alignment explanation
Indices: 6188842--6188879 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
6188832 AAATAATATC
*
6188842 CTAAAACTTAATTAAAATA
1 CTAAAACCTAATTAAAATA
*
6188861 CTAAAACCTATTTAAAATA
1 CTAAAACCTAATTAAAATA
6188880 AAATAAAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (19 bp):
CTAAAACCTAATTAAAATA
Found at i:6188909 original size:76 final size:76
Alignment explanation
Indices: 6188696--6188921 Score: 227
Period size: 76 Copynumber: 3.1 Consensus size: 76
6188686 TAAAACATCT
* * * * *
6188696 TAAATCCTAATTAAAACACTTAAAA-CTATTTAAACT-AAA-AT---ACCTAAAAAATAATATTT
1 TAAAACCTAATTAAAATAC-TAAAACCTATTTAAAATAAAATATAAAACATAAAATATAATATTT
*
6188755 AAAATAATATTC
65 AAAATAATATCC
* * * *
6188767 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATATCTAAAACA-AAGATAAAATA-T
1 TAAAACCTAATTAAAATACTAAAACCTATTTAAAATAAAATA--TAAAACATAAAATATAATATT
*
6188830 AAAAATAATATCC
64 TAAAATAATATCC
* * *
6188843 TAAAACTTAATTAAAATACTAAAACCTATTTAAAATAAAATA-AAAAGATAAAATATAATGTTTA
1 TAAAACCTAATTAAAATACTAAAACCTATTTAAAATAAAATATAAAACATAAAATATAATATTTA
*
6188907 AAATATTATCC
66 AAATAATATCC
6188918 TAAA
1 TAAA
6188922 CTTGAGTTTA
Statistics
Matches: 129, Mismatches: 16, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
70 5 0.04
71 29 0.22
72 3 0.02
73 6 0.05
74 8 0.06
75 17 0.13
76 51 0.40
77 8 0.06
78 2 0.02
ACGTcount: A:0.57, C:0.11, G:0.01, T:0.31
Consensus pattern (76 bp):
TAAAACCTAATTAAAATACTAAAACCTATTTAAAATAAAATATAAAACATAAAATATAATATTTA
AAATAATATCC
Found at i:6190370 original size:18 final size:19
Alignment explanation
Indices: 6190347--6190385 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
6190337 TTTAAGTAGT
*
6190347 AATAAAAACGATTAAA-TA
1 AATAAAAACAATTAAAGTA
*
6190365 AATAAAAGCAATTAAAGTA
1 AATAAAAACAATTAAAGTA
6190384 AA
1 AA
6190386 AAATAAGAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.67, C:0.05, G:0.08, T:0.21
Consensus pattern (19 bp):
AATAAAAACAATTAAAGTA
Found at i:6191069 original size:11 final size:11
Alignment explanation
Indices: 6191053--6191081 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
6191043 GAGAGAAAAG
6191053 AAGAATGTATT
1 AAGAATGTATT
6191064 AAGAATGTATT
1 AAGAATGTATT
6191075 AAGAATG
1 AAGAATG
6191082 ATGAGTTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.21, T:0.31
Consensus pattern (11 bp):
AAGAATGTATT
Found at i:6198008 original size:157 final size:160
Alignment explanation
Indices: 6197805--6198121 Score: 597
Period size: 161 Copynumber: 2.0 Consensus size: 160
6197795 TAAACTTAAT
6197805 TAAAATACTAAAACCTATTTAAACTAAATTCAAAGATAAAATATAATGTTTAAAATATTATCCT-
1 TAAAATACTAAAACCTATTTAAACTAAATTCAAAGATAAAATATAATGTTTAAAATATTATCCTA
6197869 AACTTGAGTTTAATTCAAATA-GAATTCCAGCCAGCTTTGGTTCCG-AAA-AAAAAAAAATCTGC
66 AACTTGAGTTTAATTCAAATATGAATTCCAGCCAGCTTTGGTTCCGAAAATAAAAAAAAATCTGC
6197931 AGAATTGTGTCTTTTTTGTGCAATTTCCAG
131 AGAATTGTGTCTTTTTTGTGCAATTTCCAG
6197961 TAAAATACTAAAACCTATTTAAACTAAAATTCAAAGATAAAATATAATGTTTAAAATATTATCCT
1 TAAAATACTAAAACCTATTTAAACT-AAATTCAAAGATAAAATATAATGTTTAAAATATTATCCT
6198026 AAACTTGAGTTTAATTCAAATATGAATTCCAGCCAGCTTTGGTTCCGAAAATAAAAAAAAATCTG
65 AAACTTGAGTTTAATTCAAATATGAATTCCAGCCAGCTTTGGTTCCGAAAATAAAAAAAAATCTG
6198091 CAGAATTGTGTCTTTTTTGTGCAATTTCCAG
130 CAGAATTGTGTCTTTTTTGTGCAATTTCCAG
6198122 AATCTTACGT
Statistics
Matches: 156, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
156 25 0.16
157 39 0.25
158 21 0.13
159 24 0.15
160 3 0.02
161 44 0.28
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (160 bp):
TAAAATACTAAAACCTATTTAAACTAAATTCAAAGATAAAATATAATGTTTAAAATATTATCCTA
AACTTGAGTTTAATTCAAATATGAATTCCAGCCAGCTTTGGTTCCGAAAATAAAAAAAAATCTGC
AGAATTGTGTCTTTTTTGTGCAATTTCCAG
Found at i:6198290 original size:17 final size:17
Alignment explanation
Indices: 6198265--6198305 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
6198255 CAGGCGTTGG
*
6198265 CTGCTTCAACTCAAGGA
1 CTGCATCAACTCAAGGA
6198282 CTGCATCAACTCAAGGA
1 CTGCATCAACTCAAGGA
6198299 CTGCATC
1 CTGCATC
6198306 CTCCTCCTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (17 bp):
CTGCATCAACTCAAGGA
Found at i:6200367 original size:201 final size:200
Alignment explanation
Indices: 6200012--6200376 Score: 473
Period size: 201 Copynumber: 1.8 Consensus size: 200
6200002 GCAAGTGCTT
* *
6200012 ATAGGCATATTTGAGGGTGTATTTTCGGGTATTTAATCTCAAAATTTTTTAATTTATAAAATTAG
1 ATAGACATATTTGAGGGTGTATTTTCGGGTAGTTAATCTCAAAATTTTTTAATTTATAAAATTAG
* * * * * *
6200077 AAGCGTAGTATTGAAATTTATCTTTTAGTTGAGGCTAATATCGAGACATGCGAGATATCGTAAGC
66 AAGCGTAGTATTGAAATTTATCTTTCAATTGAAGCTAATATCGACACATACGAGACATCGTAAGC
* *
6200142 GAGTTAAAAATTGCGTTGAAAATGGTTCCAAAGCATATTTTGTGCATGAACAAAATGCTAAAATG
131 GAGGTAAAAATTGCGTTCAAAATGGTTCCAAAGCATATTTTGTGCATGAACAAAATGCTAAAATG
6200207 GTTTG
196 GTTTG
* * ** * *
6200212 ATAGACATATTTGAGGGAT-TTTTTTCGGGTAGTTAATCTGAATTTTTTTGTAATTTTTAAGATT
1 ATAGACATATTTGAGGG-TGTATTTTCGGGTAGTTAATCTCAAAATTTTT-TAATTTATAAAATT
* * * *
6200276 AGAGGCGTAGTATTGTAATTTATCTTTCAATTGATAG-TAATATTGACACATACGAGACATTGTA
64 AGAAGCGTAGTATTGAAATTTATCTTTCAATTGA-AGCTAATATCGACACATACGAGACATCGTA
* * **
6200340 AGTGGGGTAAAAATTTTGTTCAAAATGGTTCCAAAGC
128 AGCGAGGTAAAAATTGCGTTCAAAATGGTTCCAAAGC
6200377 TTGGTTTTCT
Statistics
Matches: 138, Mismatches: 24, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
200 41 0.30
201 96 0.70
202 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (200 bp):
ATAGACATATTTGAGGGTGTATTTTCGGGTAGTTAATCTCAAAATTTTTTAATTTATAAAATTAG
AAGCGTAGTATTGAAATTTATCTTTCAATTGAAGCTAATATCGACACATACGAGACATCGTAAGC
GAGGTAAAAATTGCGTTCAAAATGGTTCCAAAGCATATTTTGTGCATGAACAAAATGCTAAAATG
GTTTG
Found at i:6200762 original size:15 final size:15
Alignment explanation
Indices: 6200699--6200763 Score: 60
Period size: 15 Copynumber: 4.3 Consensus size: 15
6200689 CCTAGATACA
*
6200699 AAATTAAAATAACAC
1 AAATTAAAATAACAT
* *
6200714 AAAATAACATAACAAT
1 AAATTAAAATAAC-AT
* * *
6200730 AAA-TATAATACCAA
1 AAATTAAAATAACAT
6200744 AAATTAAAATAACAT
1 AAATTAAAATAACAT
6200759 AAATT
1 AAATT
6200764 TCAATATTAT
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
14 4 0.11
15 30 0.79
16 4 0.11
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.23
Consensus pattern (15 bp):
AAATTAAAATAACAT
Found at i:6205609 original size:4 final size:4
Alignment explanation
Indices: 6205600--6205679 Score: 61
Period size: 4 Copynumber: 19.0 Consensus size: 4
6205590 ATACCATTTC
* * * *
6205600 AAAT AAAT AAAT AAAT AAAT AAAT TATT CGAAAT AAAT ATAT ACAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT --AAAT AAAT AAAT AAAT AAAT
***
6205650 AAAATT TTCT AAAT AAAT AAAT AAAT AAAT
1 -AAA-T AAAT AAAT AAAT AAAT AAAT AAAT
6205680 TATTCAAAAT
Statistics
Matches: 59, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
4 53 0.90
5 3 0.05
6 3 0.05
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.31
Consensus pattern (4 bp):
AAAT
Found at i:6205636 original size:30 final size:29
Alignment explanation
Indices: 6205597--6205701 Score: 128
Period size: 30 Copynumber: 3.7 Consensus size: 29
6205587 TCTATACCAT
6205597 TTCAAATAAATAAATAAATAAATAAATTA
1 TTCAAATAAATAAATAAATAAATAAATTA
* *
6205626 TTCGAAATAAATATATACATAAATAAAATT-
1 TTC-AAATAAATAAATAAATAAAT-AAATTA
6205656 TTC---TAAATAAATAAATAAATAAATTA
1 TTCAAATAAATAAATAAATAAATAAATTA
*
6205682 TTCAAAATATATAAATAAAT
1 TTC-AAATAAATAAATAAAT
6205702 CAAAATTAAA
Statistics
Matches: 64, Mismatches: 5, Indels: 13
0.78 0.06 0.16
Matches are distributed among these distances:
25 5 0.08
26 18 0.28
29 3 0.05
30 33 0.52
31 5 0.08
ACGTcount: A:0.61, C:0.05, G:0.01, T:0.33
Consensus pattern (29 bp):
TTCAAATAAATAAATAAATAAATAAATTA
Found at i:6205647 original size:26 final size:26
Alignment explanation
Indices: 6205604--6205701 Score: 117
Period size: 26 Copynumber: 3.6 Consensus size: 26
6205594 CATTTCAAAT
*
6205604 AAATAAATAAATAAATAAATTATTCG
1 AAATAAATAAATAAATAAATTATTCA
*
6205630 AAATAAATATATACATAAATAAAATT-TTCT
1 AAAT-AA-ATA-A-ATAAAT-AAATTATTCA
6205660 AAATAAATAAATAAATAAATTATTCA
1 AAATAAATAAATAAATAAATTATTCA
*
6205686 AAATATATAAATAAAT
1 AAATAAATAAATAAAT
6205702 CAAAATTAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
25 5 0.08
26 28 0.44
27 3 0.05
28 6 0.10
29 3 0.05
30 13 0.21
31 5 0.08
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.33
Consensus pattern (26 bp):
AAATAAATAAATAAATAAATTATTCA
Found at i:6205689 original size:18 final size:18
Alignment explanation
Indices: 6205659--6205712 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
6205649 TAAAATTTTC
6205659 TAAATAAAT--AAATAAA
1 TAAATAAATCAAAATAAA
* * *
6205675 TAAATTATTCAAAATATA
1 TAAATAAATCAAAATAAA
6205693 TAAATAAATCAAAATTAAA
1 TAAATAAATCAAAA-TAAA
6205712 T
1 T
6205713 TCAAATTTTC
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
16 7 0.24
18 18 0.62
19 4 0.14
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAATAAATCAAAATAAA
Found at i:6205895 original size:32 final size:32
Alignment explanation
Indices: 6205854--6205917 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
6205844 TTTGGGGGTC
6205854 CTATTTATAGGGGTCCTCATACCCCTCGAAGT
1 CTATTTATAGGGGTCCTCATACCCCTCGAAGT
6205886 CTATTTATAGGGGTCCTCATACCCCTCGAAGT
1 CTATTTATAGGGGTCCTCATACCCCTCGAAGT
6205918 GAGGTAAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.31
Consensus pattern (32 bp):
CTATTTATAGGGGTCCTCATACCCCTCGAAGT
Found at i:6210209 original size:31 final size:31
Alignment explanation
Indices: 6210171--6210237 Score: 134
Period size: 31 Copynumber: 2.2 Consensus size: 31
6210161 ATTATAGAAT
6210171 GTTGCTTTGTTGAGTCCATCAACTATTAAAA
1 GTTGCTTTGTTGAGTCCATCAACTATTAAAA
6210202 GTTGCTTTGTTGAGTCCATCAACTATTAAAA
1 GTTGCTTTGTTGAGTCCATCAACTATTAAAA
6210233 GTTGC
1 GTTGC
6210238 AAAATGGTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (31 bp):
GTTGCTTTGTTGAGTCCATCAACTATTAAAA
Found at i:6211862 original size:30 final size:30
Alignment explanation
Indices: 6211826--6211891 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
6211816 ATCCCGACAA
*
6211826 TATTATCCACCTTCAAAACCC-AGGCCGCAG
1 TATTATCCACCTCCAAAACCCGA-GCCGCAG
*
6211856 TATTATCCACCTCCACAACCCGAGCCGCAG
1 TATTATCCACCTCCAAAACCCGAGCCGCAG
6211886 TATTAT
1 TATTAT
6211892 ATGCCTTCAC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 32 0.97
31 1 0.03
ACGTcount: A:0.29, C:0.36, G:0.12, T:0.23
Consensus pattern (30 bp):
TATTATCCACCTCCAAAACCCGAGCCGCAG
Found at i:6211903 original size:30 final size:30
Alignment explanation
Indices: 6211826--6211903 Score: 86
Period size: 30 Copynumber: 2.6 Consensus size: 30
6211816 ATCCCGACAA
* *
6211826 TATTATCCACCTTCAAAACCCAGGCCGCAG
1 TATTATACACCTTCACAACCCAGGCCGCAG
* *
6211856 TATTATCCACCTCCACAACCC-GAGCCGCAG
1 TATTATACACCTTCACAACCCAG-GCCGCAG
**
6211886 TATTATATGCCTTCACAA
1 TATTATACACCTTCACAA
6211904 GATCGTGGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
29 1 0.02
30 40 0.98
ACGTcount: A:0.29, C:0.36, G:0.12, T:0.23
Consensus pattern (30 bp):
TATTATACACCTTCACAACCCAGGCCGCAG
Found at i:6216991 original size:2 final size:2
Alignment explanation
Indices: 6216984--6217024 Score: 73
Period size: 2 Copynumber: 20.0 Consensus size: 2
6216974 CTTGGCGGAC
6216984 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
6217025 GCACCAAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 36 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6218913 original size:13 final size:13
Alignment explanation
Indices: 6218891--6218955 Score: 67
Period size: 13 Copynumber: 5.0 Consensus size: 13
6218881 AATGACACTC
* *
6218891 AATGAACGTCATT
1 AATGAGCGTCATA
6218904 AATGAGCGTCATA
1 AATGAGCGTCATA
* *
6218917 AATGTGTGTCATA
1 AATGAGCGTCATA
* *
6218930 AATGTGTGTCATA
1 AATGAGCGTCATA
*
6218943 AATGCGCGTCATA
1 AATGAGCGTCATA
6218956 GATTTATGAC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 46 1.00
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.31
Consensus pattern (13 bp):
AATGAGCGTCATA
Found at i:6219675 original size:90 final size:88
Alignment explanation
Indices: 6219561--6219730 Score: 304
Period size: 90 Copynumber: 1.9 Consensus size: 88
6219551 TCCTGAATAT
*
6219561 TTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGATTAG
1 TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAA-CCCTAATATGATTAG
6219626 GGTAACTTGGATATAAGACGATTA
65 GGTAACTTGGATATAAGACGATTA
6219650 TTAAATTCTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATTAG
1 TTAAATTC-AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATTAG
*
6219715 GGTAACTTGGCTATAA
65 GGTAACTTGGATATAA
6219731 AAGGGTGTGT
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
89 37 0.47
90 41 0.53
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.38
Consensus pattern (88 bp):
TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATTAGG
GTAACTTGGATATAAGACGATTA
Found at i:6224397 original size:45 final size:45
Alignment explanation
Indices: 6224302--6224400 Score: 146
Period size: 45 Copynumber: 2.2 Consensus size: 45
6224292 CGATGTTTTG
* * *
6224302 AAAAAGCATGAGTGCATCGATGCATGGTCTTGTGCATCGATGCAT
1 AAAATGCATGAGTGCATCGATGCATGGTCATGTGCATCAATGCAT
*
6224347 CAAATGCACTGAGTGCATCGATGCATGGT-ATGTGCATCAATGCAT
1 AAAATGCA-TGAGTGCATCGATGCATGGTCATGTGCATCAATGCAT
6224392 AAAATGCAT
1 AAAATGCAT
6224401 TCGATGTTTG
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
44 1 0.02
45 27 0.56
46 20 0.42
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.26
Consensus pattern (45 bp):
AAAATGCATGAGTGCATCGATGCATGGTCATGTGCATCAATGCAT
Found at i:6233679 original size:17 final size:17
Alignment explanation
Indices: 6233657--6233697 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
6233647 ATGCTTATTC
6233657 AGGTGACTTATCCAACA
1 AGGTGACTTATCCAACA
6233674 AGGTGACTTATCCAACA
1 AGGTGACTTATCCAACA
*
6233691 AAGTGAC
1 AGGTGAC
6233698 ATTAGTTGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.22
Consensus pattern (17 bp):
AGGTGACTTATCCAACA
Found at i:6240761 original size:12 final size:12
Alignment explanation
Indices: 6240744--6240813 Score: 70
Period size: 12 Copynumber: 5.8 Consensus size: 12
6240734 ACGGAGATAT
*
6240744 CAGAAATCAAAA
1 CAGAAATCAGAA
*
6240756 CAGAAATCATAA
1 CAGAAATCAGAA
*
6240768 CAGATATCAGAA
1 CAGAAATCAGAA
* *
6240780 CAG-AATCCATAT
1 CAGAAAT-CAGAA
6240792 CAGAAATCAGAA
1 CAGAAATCAGAA
*
6240804 CAGAATTCAG
1 CAGAAATCAG
6240814 GTCATTTATC
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
11 2 0.04
12 42 0.89
13 3 0.06
ACGTcount: A:0.53, C:0.19, G:0.13, T:0.16
Consensus pattern (12 bp):
CAGAAATCAGAA
Found at i:6240809 original size:24 final size:23
Alignment explanation
Indices: 6240740--6240809 Score: 95
Period size: 24 Copynumber: 3.0 Consensus size: 23
6240730 ATAAACGGAG
*
6240740 ATATCAGAAATCAAAACAGAAATC
1 ATATCAGAAATCAGAACAG-AATC
* *
6240764 ATAACAGATATCAGAACAGAATCC
1 ATATCAGAAATCAGAACAGAAT-C
6240788 ATATCAGAAATCAGAACAGAAT
1 ATATCAGAAATCAGAACAGAAT
6240810 TCAGGTCATT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
23 3 0.08
24 37 0.93
ACGTcount: A:0.54, C:0.17, G:0.11, T:0.17
Consensus pattern (23 bp):
ATATCAGAAATCAGAACAGAATC
Found at i:6241793 original size:16 final size:19
Alignment explanation
Indices: 6241751--6241796 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
6241741 TTCACGGAAT
6241751 GTAAGATTACCAGTGAGAA
1 GTAAGATTACCAGTGAGAA
6241770 TGTAAGATTACCAG-G-GAA
1 -GTAAGATTACCAGTGAGAA
6241788 -TAAGATTAC
1 GTAAGATTAC
6241797 TGAGAATGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 9 0.35
18 3 0.12
19 1 0.04
20 13 0.50
ACGTcount: A:0.41, C:0.11, G:0.24, T:0.24
Consensus pattern (19 bp):
GTAAGATTACCAGTGAGAA
Done.