Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 27 of 199
Found at i:8696153 original size:108 final size:108
Alignment explanation
Indices: 8695953--8696159 Score: 290
Period size: 108 Copynumber: 1.9 Consensus size: 108
8695943 AAATGCTTGA
* *
8695953 AAAAGATTATCAAAATGGACAAAATGAAATTTTGTTGAGAGCAAAGCTCTAAACAAACAAATCAA
1 AAAAGATTATCAAAATGGACAAAATGAAAATTTGTTGAGAGCAAAACTCTAAACAAACAAATCAA
*
8696018 TCAAGATAGCAAATTTTGCTGAGATACAAGATGAATAAGATGG
66 TCAAGATAGCAAATTTTGCTGAGATACAAAATGAATAAGATGG
* * * * ** * *
8696061 AAAATATTATCACAATGGATAAGATGAAAATTTGTTGAGAGCAAAACTCTAAATGAACACATTAA
1 AAAAGATTATCAAAATGGACAAAATGAAAATTTGTTGAGAGCAAAACTCTAAACAAACAAATCAA
*
8696126 TCAGGATAGCAAATTTTGCT-AGAATACAAAATGA
66 TCAAGATAGCAAATTTTGCTGAG-ATACAAAATGA
8696160 GAATAAATTA
Statistics
Matches: 86, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
107 2 0.02
108 84 0.98
ACGTcount: A:0.48, C:0.11, G:0.16, T:0.25
Consensus pattern (108 bp):
AAAAGATTATCAAAATGGACAAAATGAAAATTTGTTGAGAGCAAAACTCTAAACAAACAAATCAA
TCAAGATAGCAAATTTTGCTGAGATACAAAATGAATAAGATGG
Found at i:8696506 original size:5 final size:6
Alignment explanation
Indices: 8696481--8696542 Score: 58
Period size: 6 Copynumber: 10.2 Consensus size: 6
8696471 TTGGCCTCTC
8696481 CTTTTT CTTTTT CTTTCTT C-TTTT CTTTTT CATTTTTT CATTTTT C-TTTT
1 CTTTTT CTTTTT CTTT-TT CTTTTT CTTTTT C--TTTTT C-TTTTT CTTTTT
*
8696531 CGTTTT -TTTTT C
1 CTTTTT CTTTTT C
8696543 AAGTGAAGTA
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
5 12 0.25
6 21 0.44
7 9 0.19
8 6 0.12
ACGTcount: A:0.03, C:0.18, G:0.02, T:0.77
Consensus pattern (6 bp):
CTTTTT
Found at i:8696517 original size:26 final size:24
Alignment explanation
Indices: 8696481--8696543 Score: 76
Period size: 26 Copynumber: 2.6 Consensus size: 24
8696471 TTGGCCTCTC
8696481 CTTTTTCTTTTTC-TTTCTTCTTTT
1 CTTTTTCTTTTTCATTT-TTCTTTT
8696505 CTTTTTCATTTTTTCATTTTTCTTTT
1 CTTTTTC--TTTTTCATTTTTCTTTT
*
8696531 CGTTTT-TTTTTCA
1 CTTTTTCTTTTTCA
8696544 AGTGAAGTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
23 7 0.20
24 7 0.20
26 18 0.51
27 3 0.09
ACGTcount: A:0.05, C:0.17, G:0.02, T:0.76
Consensus pattern (24 bp):
CTTTTTCTTTTTCATTTTTCTTTT
Found at i:8696976 original size:15 final size:14
Alignment explanation
Indices: 8696966--8697025 Score: 51
Period size: 14 Copynumber: 4.7 Consensus size: 14
8696956 TCTTTTATTT
8696966 GTTTTTTTTTTCTC
1 GTTTTTTTTTTCTC
*
8696980 GTTTTTTTTTAC-C
1 GTTTTTTTTTTCTC
*
8696993 --TTTTTTTTTGTC
1 GTTTTTTTTTTCTC
*
8697005 -TTTTTTTTGTC-C
1 GTTTTTTTTTTCTC
8697017 -TTTTTTTTT
1 GTTTTTTTTT
8697026 GCCTCCACTG
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
11 8 0.21
12 10 0.26
13 9 0.24
14 11 0.29
ACGTcount: A:0.02, C:0.12, G:0.07, T:0.80
Consensus pattern (14 bp):
GTTTTTTTTTTCTC
Found at i:8696984 original size:12 final size:11
Alignment explanation
Indices: 8696952--8697024 Score: 60
Period size: 11 Copynumber: 6.4 Consensus size: 11
8696942 CCAGTAGAGG
8696952 TTTT-TCTTTT
1 TTTTGTCTTTT
* *
8696962 ATTTGTTTTTT
1 TTTTGTCTTTT
*
8696973 TTTTCTCGTTTT
1 TTTTGTC-TTTT
8696985 TTTT-TACCTTTTT
1 TTTTGT--C-TTTT
8696998 TTTTGTCTTTT
1 TTTTGTCTTTT
8697009 TTTTGTCCTTTT
1 TTTTGT-CTTTT
8697021 TTTT
1 TTTT
8697025 TGCCTCCACT
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
10 3 0.06
11 20 0.39
12 18 0.35
13 9 0.18
14 1 0.02
ACGTcount: A:0.03, C:0.11, G:0.05, T:0.81
Consensus pattern (11 bp):
TTTTGTCTTTT
Found at i:8696985 original size:24 final size:22
Alignment explanation
Indices: 8696952--8697025 Score: 62
Period size: 24 Copynumber: 3.2 Consensus size: 22
8696942 CCAGTAGAGG
*
8696952 TTTT-TCTTTTATTTGTTTTTT
1 TTTTCTCTTTTTTTTGTTTTTT
8696973 TTTTCTCGTTTTTTTT-TACCTTTTT
1 TTTTCTC-TTTTTTTTGT---TTTTT
*
8696998 TTTTGTCTTTTTTTTGTCCTTTTT
1 TTTTCTCTTTTTTTTGT--TTTTT
8697022 TTTT
1 TTTT
8697026 GCCTCCACTG
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
21 4 0.09
22 3 0.07
23 7 0.16
24 19 0.42
25 12 0.27
ACGTcount: A:0.03, C:0.11, G:0.05, T:0.81
Consensus pattern (22 bp):
TTTTCTCTTTTTTTTGTTTTTT
Found at i:8698359 original size:62 final size:62
Alignment explanation
Indices: 8698255--8698438 Score: 332
Period size: 62 Copynumber: 3.0 Consensus size: 62
8698245 CTAAACTCGA
* *
8698255 CGTACTTTTGGATTTTAGGAAATTTATTGTATGCAATGAAATGTAATGTTAATGCATGAACG
1 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAACG
*
8698317 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATAAAATGTAATGTTAATGCATGAACG
1 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAACG
*
8698379 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGAATGAA
1 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAA
8698439 GAGATACGTG
Statistics
Matches: 117, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 117 1.00
ACGTcount: A:0.34, C:0.05, G:0.20, T:0.41
Consensus pattern (62 bp):
CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAACG
Found at i:8702456 original size:17 final size:16
Alignment explanation
Indices: 8702423--8702465 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
8702413 TTTACTCAAA
*
8702423 CTTATTTTTTAAGTCT
1 CTTATTTTTTAACTCT
8702439 CATT-TTTTTTAATCTCT
1 C-TTATTTTTTAA-CTCT
8702456 CTTATTTTTT
1 CTTATTTTTT
8702466 GAATGAGCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.16, C:0.14, G:0.02, T:0.67
Consensus pattern (16 bp):
CTTATTTTTTAACTCT
Found at i:8720157 original size:5 final size:5
Alignment explanation
Indices: 8720147--8720185 Score: 55
Period size: 5 Copynumber: 8.2 Consensus size: 5
8720137 CTTTTTTCCC
*
8720147 CTTCT CTTCT CTTCT CTTCT CTTCT -TTTT C-TCT CTTCT C
1 CTTCT CTTCT CTTCT CTTCT CTTCT CTTCT CTTCT CTTCT C
8720186 CTTTCATAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
4 6 0.20
5 24 0.80
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (5 bp):
CTTCT
Found at i:8720172 original size:18 final size:18
Alignment explanation
Indices: 8720147--8720185 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
8720137 CTTTTTTCCC
8720147 CTTCTCTTCTCTTCTCTTCT
1 CTTCT-TTCTC-TCTCTTCT
*
8720167 CTTCTTTTTCTCTCTTCT
1 CTTCTTTCTCTCTCTTCT
8720185 C
1 C
8720186 CTTTCATAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 4 0.22
20 5 0.28
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (18 bp):
CTTCTTTCTCTCTCTTCT
Found at i:8738226 original size:18 final size:18
Alignment explanation
Indices: 8738203--8738295 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
8738193 CCCAACTACT
*
8738203 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
8738221 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
* *
8738239 ATATACGTAAATAGTACC
1 GTATACGTGAATAGTACC
*
8738257 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
8738275 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
8738293 GTA
1 GTA
8738296 AACGGTCGTA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:8739116 original size:9 final size:9
Alignment explanation
Indices: 8739102--8739135 Score: 59
Period size: 9 Copynumber: 3.7 Consensus size: 9
8739092 AGTACTCTAA
8739102 ATTTTTTTT
1 ATTTTTTTT
8739111 ATTTTTTTT
1 ATTTTTTTT
8739120 ATTTTATTTT
1 ATTTT-TTTT
8739130 ATTTTT
1 ATTTTT
8739136 ACAAAATTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 15 0.62
10 9 0.38
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:8739124 original size:5 final size:5
Alignment explanation
Indices: 8739102--8739134 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
8739092 AGTACTCTAA
8739102 ATTTT -TTTT ATTTT -TTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
8739135 TACAAAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 8 0.31
5 18 0.69
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (5 bp):
ATTTT
Found at i:8739860 original size:6 final size:6
Alignment explanation
Indices: 8739823--8739871 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
8739813 CCAAACACAC
* * *
8739823 CAGTAAA CAGTAA TCAGTAA CGGTAG CAGTAA CAGTAA TAGTAA CAGTA
1 CAGT-AA CAGTAA -CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
8739872 TTCAACACAC
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
6 25 0.71
7 10 0.29
ACGTcount: A:0.45, C:0.14, G:0.20, T:0.20
Consensus pattern (6 bp):
CAGTAA
Found at i:8739902 original size:39 final size:38
Alignment explanation
Indices: 8739853--8740027 Score: 136
Period size: 45 Copynumber: 4.2 Consensus size: 38
8739843 CGGTAGCAGT
* *
8739853 AACAGTAATAGTAACAGTATTCAACACACAAAGTGCTG
1 AACAGTAACAGTAACAGTATTCGACACACAAAGTGCTG
*
8739891 AACATGTAATAGTAACGGTAACAGTATTCGACACACAAAGTGTCGAGTCG
1 AAC-------AGTAACAGTAACAGTATTCGACACACAAAGTG-C---T-G
*
8739941 ATAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
1 --AACAGTAACAGTAACAGTATTCGACACACAAAGTGCTG
* *
8739981 AATCAGTAACAGTAACAGTAGTCGACACA-TAAGTGCCTG
1 AA-CAGTAACAGTAACAGTATTCGACACACAAAGTG-CTG
*
8740020 ATCAGTAA
1 AACAGTAA
8740028 GCCGGCAAAT
Statistics
Matches: 112, Mismatches: 9, Indels: 32
0.73 0.06 0.21
Matches are distributed among these distances:
38 16 0.14
39 28 0.25
40 1 0.01
44 1 0.01
45 60 0.54
46 1 0.01
49 1 0.01
50 1 0.01
52 3 0.03
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (38 bp):
AACAGTAACAGTAACAGTATTCGACACACAAAGTGCTG
Found at i:8739912 original size:45 final size:45
Alignment explanation
Indices: 8739851--8740000 Score: 182
Period size: 45 Copynumber: 3.3 Consensus size: 45
8739841 AACGGTAGCA
* *
8739851 GTAACAGTAATAGTAACAGTATTCAACACACAAAGTGCTGAACAT
1 GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCTGAACAT
* * *
8739896 GTAATAGTAACGGTAACAGTATTCGACACACAAAGTG-TCG-A-GT
1 GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCT-GAACAT
*
8739939 CGATAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCA-
1 -G-TAACAGTAACAGTAACAGTATTCGACACACAAAGTGCTGAA-CAT
8739986 GTAACAGTAACAGTA
1 GTAACAGTAACAGTA
8740001 GTCGACACAT
Statistics
Matches: 89, Mismatches: 9, Indels: 14
0.79 0.08 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 83 0.93
46 2 0.02
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.21
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCTGAACAT
Found at i:8740967 original size:9 final size:9
Alignment explanation
Indices: 8740953--8741002 Score: 52
Period size: 9 Copynumber: 5.6 Consensus size: 9
8740943 CATTTGAATA
8740953 AATAATTAT
1 AATAATTAT
8740962 AATAATTAT
1 AATAATTAT
8740971 -ATACA-TAT
1 AATA-ATTAT
8740979 AATAATTAT
1 AATAATTAT
8740988 ATATAACTTA-
1 A-ATAA-TTAT
8740998 AATAA
1 AATAA
8741003 AATCTTGAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
8 7 0.19
9 21 0.58
10 5 0.14
11 3 0.08
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (9 bp):
AATAATTAT
Found at i:8747010 original size:14 final size:14
Alignment explanation
Indices: 8746993--8747019 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8746983 TAGATAACAA
8746993 TAATAATAGTAATG
1 TAATAATAGTAATG
8747007 TAATAATAGTAAT
1 TAATAATAGTAAT
8747020 AATAATATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (14 bp):
TAATAATAGTAATG
Found at i:8747039 original size:20 final size:21
Alignment explanation
Indices: 8746985--8747063 Score: 62
Period size: 20 Copynumber: 4.0 Consensus size: 21
8746975 TAAATAAATA
*
8746985 GATAACAATAA-TAATAGTAAT
1 GATAA-AATAACTAATAATAAT
*
8747006 G-TAATAAT-AGTAATAATAAT
1 GATAA-AATAACTAATAATAAT
* *
8747026 -ATTAAATAACTAAT-TTAAT
1 GATAAAATAACTAATAATAAT
8747045 GATAAAATAACTAA-AATAA
1 GATAAAATAACTAATAATAA
8747064 CAAATAAGGG
Statistics
Matches: 46, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
19 8 0.17
20 37 0.80
21 1 0.02
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.32
Consensus pattern (21 bp):
GATAAAATAACTAATAATAAT
Found at i:8748893 original size:17 final size:18
Alignment explanation
Indices: 8748868--8748913 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
8748858 TATAAGAATA
*
8748868 ATTATATTA-AGAATTTT
1 ATTAAATTATAGAATTTT
* *
8748885 ATTAAATTATATATTTTT
1 ATTAAATTATAGAATTTT
8748903 ATTAAATTATA
1 ATTAAATTATA
8748914 TTTAATAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
ATTAAATTATAGAATTTT
Found at i:8748928 original size:24 final size:24
Alignment explanation
Indices: 8748901--8748980 Score: 60
Period size: 26 Copynumber: 3.3 Consensus size: 24
8748891 TTATATATTT
8748901 TTATTAAATTATATTTAATAATAA
1 TTATTAAATTATATTTAATAATAA
* *
8748925 TTATGTTAAAATATGA-TTAA-AATAT
1 TTA--TTAAATTAT-ATTTAATAATAA
* *
8748950 TATATTATATTAT-TTTAATAAT-C
1 T-TATTAAATTATATTTAATAATAA
8748973 TTATTAAA
1 TTATTAAA
8748981 ATTTATAACA
Statistics
Matches: 44, Mismatches: 6, Indels: 14
0.69 0.09 0.22
Matches are distributed among these distances:
22 6 0.14
23 5 0.11
24 13 0.30
25 5 0.11
26 14 0.32
27 1 0.02
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (24 bp):
TTATTAAATTATATTTAATAATAA
Found at i:8749176 original size:45 final size:41
Alignment explanation
Indices: 8749058--8749179 Score: 124
Period size: 45 Copynumber: 2.9 Consensus size: 41
8749048 TTTTTCCCTT
* *
8749058 ATACTATTACACCTCTATTCCATT-CAACCAAGC--ACAAGA
1 ATACTATTACGCCTCTATTCCATTACAA-CAACCAAACAAGA
* *
8749097 ATACTATTACGCATCTATTCCATTACATTCAACCAAACAATTGA
1 ATACTATTACGCCTCTATTCCATTACA-ACAACCAAACAA--GA
*
8749141 ATTGCTATTACGCCTCTATTCCATTACAACGAACCAAAC
1 A-TACTATTACGCCTCTATTCCATTACAAC-AACCAAAC
8749180 GTGCCGTTAT
Statistics
Matches: 68, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
39 22 0.32
40 6 0.09
42 4 0.06
44 4 0.06
45 32 0.47
ACGTcount: A:0.37, C:0.29, G:0.06, T:0.29
Consensus pattern (41 bp):
ATACTATTACGCCTCTATTCCATTACAACAACCAAACAAGA
Found at i:8755317 original size:37 final size:37
Alignment explanation
Indices: 8755263--8755345 Score: 105
Period size: 37 Copynumber: 2.2 Consensus size: 37
8755253 AGTAATAAAA
* * *
8755263 CACACCGAAATGCTATGCCCGAAGGCTAAATCAATAT
1 CACACCGAAATGATATGCCCAAAGGCTAAAACAATAT
*
8755300 CACACC-AAAGTGATATGCCCAAAGGCTAAAACAGTAT
1 CACACCGAAA-TGATATGCCCAAAGGCTAAAACAATAT
*
8755337 CACATCGAA
1 CACACCGAA
8755346 GTGTTACGCC
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
36 3 0.08
37 34 0.87
38 2 0.05
ACGTcount: A:0.41, C:0.27, G:0.16, T:0.17
Consensus pattern (37 bp):
CACACCGAAATGATATGCCCAAAGGCTAAAACAATAT
Found at i:8779040 original size:12 final size:13
Alignment explanation
Indices: 8779017--8779045 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
8779007 TTTGGCAAAT
8779017 TTTCTCTTCTTTC
1 TTTCTCTTCTTTC
8779030 TTTCT-TTCTTTC
1 TTTCTCTTCTTTC
8779042 TTTC
1 TTTC
8779046 AATGTGAGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTCTCTTCTTTC
Found at i:8783770 original size:104 final size:103
Alignment explanation
Indices: 8783402--8783758 Score: 608
Period size: 103 Copynumber: 3.4 Consensus size: 103
8783392 AACCGTTATT
* * *
8783402 GGTGGATCTCGCACTTAGCAACACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
8783467 ATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATAC
66 ATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATAC
*
8783505 GGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
8783570 ATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATAC
66 ATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATAC
*
8783608 GGTGGATATCGCACTTAGTACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 GGTGGATATCGCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
* *
8783673 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAT
65 AATCAGCACATAGCAACCCCCTTT-TCATTTCAAAGATAC
*
8783713 GGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCAC
1 GGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCAC
8783759 ACAGTAACCC
Statistics
Matches: 241, Mismatches: 10, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
103 127 0.53
104 75 0.31
105 38 0.16
106 1 0.00
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (103 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATAC
Found at i:8784134 original size:30 final size:29
Alignment explanation
Indices: 8784100--8784164 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
8784090 TAATCCACCA
8784100 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
8784130 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
8784160 CCCAA
1 CCCAA
8784165 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:8784138 original size:31 final size:30
Alignment explanation
Indices: 8784107--8784164 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
8784097 CCACCCAACT
8784107 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
8784137 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
8784165 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:8789976 original size:93 final size:92
Alignment explanation
Indices: 8789850--8790062 Score: 273
Period size: 93 Copynumber: 2.3 Consensus size: 92
8789840 ACCTTTCGAG
* * ** * **
8789850 GTGTCTGTTTTATAACTTGTGAGTTTTGCTAAACGCCTTAAGTGGCTAGTAGTTCATCTGCTATT
1 GTGTCTGATTTATAACTTGTGAATTTTGCTAAACGCCTTAAAAGGCTAGCAGTTCATCTGCTAGC
*
8789915 AAACATAGTGAGTAGTTTATCTCTCGGA
66 AAACATAGTGAGTAGTTTACCTCT-GGA
* *
8789943 GTGTCTGCTTTATAACTTGTGAATTTTGCTAAACGTCTTAAAAGGCTAGCAGTTCATCTGCTAGC
1 GTGTCTGATTTATAACTTGTGAATTTTGCTAAACGCCTTAAAAGGCTAGCAGTTCATCTGCTAGC
* *
8790008 AAACTTAGTGAGTAGTTTACCTCTTGA
66 AAACATAGTGAGTAGTTTACCTCTGGA
* * *
8790035 GATGTTTGATTTATAAGTTATGAATTTT
1 G-TGTCTGATTTATAACTTGTGAATTTT
8790063 TCTATAAGTT
Statistics
Matches: 104, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
92 3 0.03
93 101 0.97
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.40
Consensus pattern (92 bp):
GTGTCTGATTTATAACTTGTGAATTTTGCTAAACGCCTTAAAAGGCTAGCAGTTCATCTGCTAGC
AAACATAGTGAGTAGTTTACCTCTGGA
Found at i:8790070 original size:19 final size:19
Alignment explanation
Indices: 8790046--8790085 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
8790036 ATGTTTGATT
8790046 TATAAGTTATGAATTTTTC
1 TATAAGTTATGAATTTTTC
8790065 TATAAGTTATGAATTTTTC
1 TATAAGTTATGAATTTTTC
8790084 TA
1 TA
8790086 AGTGCTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.53
Consensus pattern (19 bp):
TATAAGTTATGAATTTTTC
Found at i:8792241 original size:59 final size:59
Alignment explanation
Indices: 8792110--8792243 Score: 207
Period size: 59 Copynumber: 2.3 Consensus size: 59
8792100 AAGTTGTGGA
8792110 TTTAGTCCTTATACTTAATTTGATCAATTGTAGCCCTTGGACTTTTAAAATTGGTCAAT
1 TTTAGTCCTTATACTTAATTTGATCAATTGTAGCCCTTGGACTTTTAAAATTGGTCAAT
* * * *
8792169 TTTAATCAC-TATACTTAATTTGGTCAATTTTGGCCCTTGGACTTTTAAAATTGGTCAAT
1 TTTAGTC-CTTATACTTAATTTGATCAATTGTAGCCCTTGGACTTTTAAAATTGGTCAAT
*
8792228 TTTTGTCCTTATACTT
1 TTTAGTCCTTATACTT
8792244 TTCAAATTTT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
58 1 0.01
59 65 0.97
60 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.46
Consensus pattern (59 bp):
TTTAGTCCTTATACTTAATTTGATCAATTGTAGCCCTTGGACTTTTAAAATTGGTCAAT
Found at i:8792244 original size:31 final size:31
Alignment explanation
Indices: 8792110--8792251 Score: 100
Period size: 31 Copynumber: 4.8 Consensus size: 31
8792100 AAGTTGTGGA
* *
8792110 TTTAGTCCTTATAC--TT-AATTTGATCAAT
1 TTTAGTCCTTATACTTTTAAAATTGGTCAAT
* * **
8792138 TGTAGCCCTTGGACTTTTAAAATTGGTCAAT
1 TTTAGTCCTTATACTTTTAAAATTGGTCAAT
* *
8792169 TTTAATCAC-TATAC--TT-AATTTGGTCAAT
1 TTTAGTC-CTTATACTTTTAAAATTGGTCAAT
* * **
8792197 TTTGGCCCTTGGACTTTTAAAATTGGTCAAT
1 TTTAGTCCTTATACTTTTAAAATTGGTCAAT
* *
8792228 TTTTGTCCTTATACTTTTCAAATT
1 TTTAGTCCTTATACTTTTAAAATT
8792252 TTAAAATTTT
Statistics
Matches: 83, Mismatches: 23, Indels: 13
0.70 0.19 0.11
Matches are distributed among these distances:
27 1 0.01
28 28 0.34
29 2 0.02
30 4 0.05
31 47 0.57
32 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.12, T:0.46
Consensus pattern (31 bp):
TTTAGTCCTTATACTTTTAAAATTGGTCAAT
Found at i:8796077 original size:3 final size:3
Alignment explanation
Indices: 8796071--8796099 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
8796061 ACCACCACCA
8796071 CCT CCT CCT CCT CCT CCT CCT CCT CCT CC
1 CCT CCT CCT CCT CCT CCT CCT CCT CCT CC
8796100 GTATGAAGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.69, G:0.00, T:0.31
Consensus pattern (3 bp):
CCT
Found at i:8796196 original size:3 final size:3
Alignment explanation
Indices: 8796188--8796219 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
8796178 CAAAGCTTCC
8796188 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CC
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CC
8796220 TCCTGGTCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.69, G:0.00, T:0.00
Consensus pattern (3 bp):
CCA
Found at i:8797794 original size:106 final size:105
Alignment explanation
Indices: 8797609--8797804 Score: 252
Period size: 106 Copynumber: 1.8 Consensus size: 105
8797599 TCATGGAATT
* ** *
8797609 TAGGTAAAAAGATGCCTTTCTGGACATTTATTAAATAATTTGTGTTTATTACCATGTAACTTTAT
1 TAGGTAAAAAGATGCCTTTCTGGAAATTTATTAAATAA-TTGCATTTATTACCATGAAACTTTAT
* *
8797674 AAAACCATCATAATGGTTATTATTTCCCCCCTTCTCCGCTG
65 AAAACCATCATAATGATGATTATTTCCCCCCTTCTCCGCTG
* * *
8797715 TAGGT-AAAGGATGCCTTTCTGGAAATTTATTAAATGA-TGCATTTATTGCCTGTATGAAACTTT
1 TAGGTAAAAAGATGCCTTTCTGGAAATTTATTAAATAATTGCATTTATTACC---ATGAAACTTT
*
8797778 ATAAAATCATCATAATGATGATTATTT
63 ATAAAACCATCATAATGATGATTATTT
8797805 TCCTGTTAAC
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
103 10 0.13
105 29 0.38
106 38 0.49
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.40
Consensus pattern (105 bp):
TAGGTAAAAAGATGCCTTTCTGGAAATTTATTAAATAATTGCATTTATTACCATGAAACTTTATA
AAACCATCATAATGATGATTATTTCCCCCCTTCTCCGCTG
Found at i:8810109 original size:41 final size:41
Alignment explanation
Indices: 8810063--8810177 Score: 135
Period size: 41 Copynumber: 2.8 Consensus size: 41
8810053 CGAATATAAT
**
8810063 AAATTTTTTTATTTTTTTTAA-A-TTTTAAAATACTTTTTTAA
1 AAATTTTTTTA-TTTTTAAAATATTTTTAAAATAC-TTTTTAA
* *
8810104 AAATTTTTGTAATTTTAAAATATTTTTAAAATACTTTTTAA
1 AAATTTTTTTATTTTTAAAATATTTTTAAAATACTTTTTAA
** *
8810145 ATTTTTTTTTAATTTTAAAATATTTTTAAAATA
1 AAATTTTTTTATTTTTAAAATATTTTTAAAATA
8810178 AATTTTTTTA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
40 6 0.09
41 48 0.74
42 11 0.17
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.59
Consensus pattern (41 bp):
AAATTTTTTTATTTTTAAAATATTTTTAAAATACTTTTTAA
Found at i:8810111 original size:30 final size:30
Alignment explanation
Indices: 8810077--8810149 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 30
8810067 TTTTTTATTT
8810077 TTTTTAAATTTTAAAATACTTTTTTAAAA-A-
1 TTTTTAAATTTTAAAATA--TTTTTAAAATAC
*
8810107 TTTTTGTAATTTTAAAATATTTTTAAAATAC
1 TTTTT-AAATTTTAAAATATTTTTAAAATAC
8810138 TTTTTAAATTTT
1 TTTTTAAATTTT
8810150 TTTTTAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
29 9 0.24
30 12 0.32
31 17 0.45
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (30 bp):
TTTTTAAATTTTAAAATATTTTTAAAATAC
Found at i:8810111 original size:31 final size:30
Alignment explanation
Indices: 8810076--8810176 Score: 98
Period size: 30 Copynumber: 3.3 Consensus size: 30
8810066 TTTTTTTATT
8810076 TTTTTTAAATTTTAAAATACTTTTTTAAAA-A
1 TTTTTTAAATTTTAAAATA--TTTTTAAAATA
8810107 TTTTTGT-AATTTTAAAATATTTTTAAAATA
1 TTTTT-TAAATTTTAAAATATTTTTAAAATA
* **** *
8810137 CTTTTTAAATTTTTTTTTAATTTTAAAATA
1 TTTTTTAAATTTTAAAATATTTTTAAAATA
*
8810167 TTTTTAAAAT
1 TTTTTTAAAT
8810177 AAATTTTTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
29 10 0.17
30 31 0.53
31 17 0.29
32 1 0.02
ACGTcount: A:0.39, C:0.02, G:0.01, T:0.58
Consensus pattern (30 bp):
TTTTTTAAATTTTAAAATATTTTTAAAATA
Found at i:8810184 original size:13 final size:11
Alignment explanation
Indices: 8810116--8810177 Score: 60
Period size: 11 Copynumber: 5.9 Consensus size: 11
8810106 ATTTTTGTAA
8810116 TTTTAAAATAT
1 TTTTAAAATAT
8810127 TTTTAAAATACT
1 TTTTAAAATA-T
8810139 TTTT-AAAT-T
1 TTTTAAAATAT
** *
8810148 TTTT--TTTAA
1 TTTTAAAATAT
8810157 TTTTAAAATAT
1 TTTTAAAATAT
8810168 TTTTAAAATA
1 TTTTAAAATA
8810178 AATTTTTTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
8 1 0.02
9 9 0.22
11 26 0.63
12 5 0.12
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:8810213 original size:22 final size:23
Alignment explanation
Indices: 8810164--8810213 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 23
8810154 TAATTTTAAA
*
8810164 ATATTTTTAAAATAAATTTTTTT
1 ATATTTTTAAAATAAATTTTTTG
8810187 A-ATTTTTAAAAT-AATTTTTTG
1 ATATTTTTAAAATAAATTTTTTG
8810208 ATATTT
1 ATATTT
8810214 ATTTAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 9 0.36
22 15 0.60
23 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
ATATTTTTAAAATAAATTTTTTG
Found at i:8810844 original size:14 final size:14
Alignment explanation
Indices: 8810825--8810856 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
8810815 AGGTCATTTA
8810825 GCCCAACCAAACTG
1 GCCCAACCAAACTG
8810839 GCCCAACCAAACTG
1 GCCCAACCAAACTG
8810853 GCCC
1 GCCC
8810857 GGTGATTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:8818276 original size:30 final size:30
Alignment explanation
Indices: 8818202--8818276 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
8818192 ACCATTTTAA
*
8818202 TAAATTATATTTTTATAATTTTTAAAGAAT
1 TAAATTATAATTTTATAATTTTTAAAGAAT
**
8818232 TAAATTA-AATTTT-TATATTTTTAAAAGGGT
1 TAAATTATAATTTTATA-ATTTTT-AAAGAAT
*
8818262 TAAAGTATAATTTTA
1 TAAATTATAATTTTA
8818277 CCTTTACTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
28 2 0.05
29 11 0.30
30 18 0.49
31 6 0.16
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.51
Consensus pattern (30 bp):
TAAATTATAATTTTATAATTTTTAAAGAAT
Found at i:8818509 original size:6 final size:6
Alignment explanation
Indices: 8818498--8818530 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
8818488 AAATTTACAT
8818498 ACATGA ACATGA ACATGA ACATGA ACATGA ACA
1 ACATGA ACATGA ACATGA ACATGA ACATGA ACA
8818531 GTAGTTTCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.52, C:0.18, G:0.15, T:0.15
Consensus pattern (6 bp):
ACATGA
Found at i:8825351 original size:21 final size:22
Alignment explanation
Indices: 8825305--8825354 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
8825295 ACGTCTCAAC
8825305 TTTATTATTTTAACTAAAGACA
1 TTTATTATTTTAACTAAAGACA
* * *
8825327 -TTATTATTTTTA-TAAATATA
1 TTTATTATTTTAACTAAAGACA
8825347 TTTATTAT
1 TTTATTAT
8825355 GTAATTATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (22 bp):
TTTATTATTTTAACTAAAGACA
Found at i:8830593 original size:9 final size:9
Alignment explanation
Indices: 8830576--8830615 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
8830566 ATTTAATTGG
8830576 TAATTAATT
1 TAATTAATT
*
8830585 TAGTTAATT
1 TAATTAATT
8830594 TAATTAATT
1 TAATTAATT
* *
8830603 AAAATAATT
1 TAATTAATT
8830612 TAAT
1 TAAT
8830616 AATATTTATT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (9 bp):
TAATTAATT
Found at i:8836277 original size:29 final size:31
Alignment explanation
Indices: 8836232--8836296 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 31
8836222 ATACTTCAGA
* *
8836232 TATCACATTAAATATTTT-C-AAAATATAAG
1 TATCACATTAAACATTTTACTAAAATACAAG
* *
8836261 TATCACATTAGACATTTTACTAAAGTACAAG
1 TATCACATTAAACATTTTACTAAAATACAAG
8836292 TATCA
1 TATCA
8836297 AATAATATAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 16 0.53
30 1 0.03
31 13 0.43
ACGTcount: A:0.45, C:0.14, G:0.06, T:0.35
Consensus pattern (31 bp):
TATCACATTAAACATTTTACTAAAATACAAG
Found at i:8836323 original size:31 final size:31
Alignment explanation
Indices: 8836288--8836389 Score: 84
Period size: 31 Copynumber: 3.3 Consensus size: 31
8836278 TACTAAAGTA
*
8836288 CAAGTATCAAATAATATACAAATTGATAGTT
1 CAAGTATCAAATAATATACAATTTGATAGTT
* * * * *
8836319 CAAGTA-C-CATATTAGACATTTTATGAAAGTAT
1 CAAGTATCAAATAATATACA-ATT-TGATAGT-T
*
8836351 -AAGTACCAAATAATATACAATTTGATAGTT
1 CAAGTATCAAATAATATACAATTTGATAGTT
*
8836381 CAGGTATCA
1 CAAGTATCA
8836390 TATTAGACAT
Statistics
Matches: 52, Mismatches: 13, Indels: 12
0.68 0.17 0.16
Matches are distributed among these distances:
29 8 0.15
30 3 0.06
31 29 0.56
32 4 0.08
33 8 0.15
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (31 bp):
CAAGTATCAAATAATATACAATTTGATAGTT
Found at i:8836333 original size:62 final size:62
Alignment explanation
Indices: 8836258--8836402 Score: 220
Period size: 62 Copynumber: 2.3 Consensus size: 62
8836248 TTCAAAATAT
* *
8836258 AAGTATCACATTAGACATTTTACT-AAAGTACAAGTATCAAATAATATACAAATTGATAGTTC
1 AAGTATCATATTAGACATTTTA-TGAAAGTACAAGTACCAAATAATATACAAATTGATAGTTC
* * *
8836320 AAGTACCATATTAGACATTTTATGAAAGTATAAGTACCAAATAATATACAATTTGATAGTTC
1 AAGTATCATATTAGACATTTTATGAAAGTACAAGTACCAAATAATATACAAATTGATAGTTC
*
8836382 AGGTATCATATTAGACATTTT
1 AAGTATCATATTAGACATTTT
8836403 CGAAGTATTA
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
61 1 0.01
62 74 0.99
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.34
Consensus pattern (62 bp):
AAGTATCATATTAGACATTTTATGAAAGTACAAGTACCAAATAATATACAAATTGATAGTTC
Found at i:8836738 original size:20 final size:21
Alignment explanation
Indices: 8836705--8836743 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
8836695 AGAATTTTAA
8836705 TAGAAAGAGAAGA-GAGAATC
1 TAGAAAGAGAAGAGGAGAATC
8836725 TAGAAAGATG-AGAGGAGAA
1 TAGAAAGA-GAAGAGGAGAA
8836744 AGAATAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.54, C:0.03, G:0.33, T:0.10
Consensus pattern (21 bp):
TAGAAAGAGAAGAGGAGAATC
Found at i:8862105 original size:16 final size:16
Alignment explanation
Indices: 8862084--8862116 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
8862074 TATGACAAGT
8862084 AAATAAATTTTTCACA
1 AAATAAATTTTTCACA
8862100 AAATAAATTTTTCACA
1 AAATAAATTTTTCACA
8862116 A
1 A
8862117 GATTACATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (16 bp):
AAATAAATTTTTCACA
Found at i:8863022 original size:33 final size:33
Alignment explanation
Indices: 8862975--8863099 Score: 115
Period size: 33 Copynumber: 3.5 Consensus size: 33
8862965 ATACGATGGG
* *
8862975 ATCAGCACTTAGCAACCACCAATGAGTCGGGGA
1 ATCAACACTTAGCAACCACCAATGAATCGGGGA
* *
8863008 ATCAACACTTAGCAACCCCCTTCACATTTAAAATACGGTGGA
1 ATCAACACTTAGCAA-CCAC--CA-A--T-GAAT-CGG-GGA
*
8863050 ATCAACACTTAGCAACCACCAATGATTCGGGGA
1 ATCAACACTTAGCAACCACCAATGAATCGGGGA
*
8863083 ATCAGCACTTAGCAACC
1 ATCAACACTTAGCAACC
8863100 CCTTGGGGGA
Statistics
Matches: 75, Mismatches: 8, Indels: 18
0.74 0.08 0.18
Matches are distributed among these distances:
33 33 0.44
34 6 0.08
35 2 0.03
36 3 0.04
37 1 0.01
38 1 0.01
39 3 0.04
40 2 0.03
41 6 0.08
42 18 0.24
ACGTcount: A:0.35, C:0.29, G:0.17, T:0.19
Consensus pattern (33 bp):
ATCAACACTTAGCAACCACCAATGAATCGGGGA
Found at i:8863024 original size:75 final size:75
Alignment explanation
Indices: 8862896--8863103 Score: 326
Period size: 75 Copynumber: 2.8 Consensus size: 75
8862886 CTGTTACCGG
* * *
8862896 TGGATTCAGCACTTAGCAACCACCAGTGATTTGGGGAATCAGCACTTAGCAACCCCTTTCACATT
1 TGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTCACATT
*
8862961 TAAGATACGA
66 TAAAATACGA
* * * *
8862971 TGGGATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAACACTTAGCAACCCCCTTCACATT
1 TGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTCACATT
*
8863036 TAAAATACGG
66 TAAAATACGA
*
8863046 TGGAATCAACACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTT
1 TGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTT
8863104 GGGGGAATTA
Statistics
Matches: 119, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
75 119 1.00
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.22
Consensus pattern (75 bp):
TGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTCACATT
TAAAATACGA
Found at i:8866104 original size:17 final size:17
Alignment explanation
Indices: 8866082--8866114 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
8866072 AAATTCTTTT
8866082 TAAATCACAAAATTCAA
1 TAAATCACAAAATTCAA
8866099 TAAATCACAAAATTCA
1 TAAATCACAAAATTCA
8866115 CTAATTCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.58, C:0.18, G:0.00, T:0.24
Consensus pattern (17 bp):
TAAATCACAAAATTCAA
Found at i:8871473 original size:34 final size:34
Alignment explanation
Indices: 8871430--8871501 Score: 135
Period size: 34 Copynumber: 2.1 Consensus size: 34
8871420 CATCACACTA
*
8871430 TCACAATATAATTATGGCATGTATAGATAGACTC
1 TCACAATATAATTATGACATGTATAGATAGACTC
8871464 TCACAATATAATTATGACATGTATAGATAGACTC
1 TCACAATATAATTATGACATGTATAGATAGACTC
8871498 TCAC
1 TCAC
8871502 GCATATTTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (34 bp):
TCACAATATAATTATGACATGTATAGATAGACTC
Found at i:8872913 original size:75 final size:75
Alignment explanation
Indices: 8872784--8872992 Score: 301
Period size: 75 Copynumber: 2.8 Consensus size: 75
8872774 CCGTTATCGG
* * * *
8872784 TGGATTCAGCACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGTAACCCCTTTCACATT
1 TGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCCTTCACATT
*
8872849 TAAGATACGA
66 TAAAATACGA
* * * * *
8872859 TGGGATCAGCACTTAGCAACCACCAATAAGTCGAGGAATCGGCACTTAGCAACCCCCTTCACATT
1 TGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCCTTCACATT
*
8872924 TAAAATACGG
66 TAAAATACGA
* *
8872934 TGGAATCAGCACTTGGCAACCACCAATGATTCGGGGAATCAACACTTAGCAACCCCCTT
1 TGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCCTT
8872993 TATATTCAAT
Statistics
Matches: 116, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
75 116 1.00
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.22
Consensus pattern (75 bp):
TGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCCTTCACATT
TAAAATACGA
Found at i:8877240 original size:40 final size:40
Alignment explanation
Indices: 8877195--8877282 Score: 117
Period size: 40 Copynumber: 2.2 Consensus size: 40
8877185 CGTTAATGAC
8877195 TTTAATATATAAATTT-AATATTTTTTAA-TATTAATATAAA
1 TTTAATATAT-AATTTCAATATTTTTTAACTATT-ATATAAA
* *
8877235 TTTAATATCTAATTTCAATATTTTTTAACTATTATTTAAA
1 TTTAATATATAATTTCAATATTTTTTAACTATTATATAAA
*
8877275 GTTAATAT
1 TTTAATAT
8877283 TATTTTATTA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
39 5 0.12
40 34 0.79
41 4 0.09
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.53
Consensus pattern (40 bp):
TTTAATATATAATTTCAATATTTTTTAACTATTATATAAA
Found at i:8885374 original size:12 final size:12
Alignment explanation
Indices: 8885357--8885389 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
8885347 CAACTCGTCC
8885357 ATATTAATTTTT
1 ATATTAATTTTT
8885369 ATATT-ATTTTT
1 ATATTAATTTTT
8885380 ATA-TAATTTT
1 ATATTAATTTT
8885390 AAAAAATACT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:8885582 original size:22 final size:22
Alignment explanation
Indices: 8885557--8885599 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
8885547 TATCCAAACA
8885557 ATAACAATAAAAT-AGTAGCAAC
1 ATAACAATAAAATGA-TAGCAAC
* *
8885579 ATAATAGTAAAATGATAGCAA
1 ATAACAATAAAATGATAGCAA
8885600 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATGATAGCAAC
Found at i:8899894 original size:73 final size:73
Alignment explanation
Indices: 8899774--8899920 Score: 240
Period size: 73 Copynumber: 2.0 Consensus size: 73
8899764 TAGGATCATT
*
8899774 AGAATAATATGGTTTTCACAAGTTTAAGAAATATCTTATACAAAATTGGAGTTGACCATTAGACA
1 AGAATAATATGATTTTCACAAGTTTAAGAAATATCTTATACAAAATTGGAGTTGACCATTAGACA
8899839 CGACGAAG
66 CGACGAAG
* ** *
8899847 AGAATAATATGATTTTCACAAGTTTAAGAAATATCTTATGCGGAATTGGAGTTGACTATTAGACA
1 AGAATAATATGATTTTCACAAGTTTAAGAAATATCTTATACAAAATTGGAGTTGACCATTAGACA
*
8899912 TGACGAAG
66 CGACGAAG
8899920 A
1 A
8899921 ATGCGAAGAA
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
73 68 1.00
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (73 bp):
AGAATAATATGATTTTCACAAGTTTAAGAAATATCTTATACAAAATTGGAGTTGACCATTAGACA
CGACGAAG
Found at i:8908189 original size:23 final size:23
Alignment explanation
Indices: 8908120--8908189 Score: 54
Period size: 23 Copynumber: 3.0 Consensus size: 23
8908110 GAAATTGTTA
8908120 TTGTTCCTAATCATTATATTTTC
1 TTGTTCCTAATCATTATATTTTC
** * * * *
8908143 -TAATCATTAA-AATTCTTATGTTC
1 TTGTTC-CTAATCATT-ATATTTTC
8908166 TTGTTCCTAATCATTATATTTTC
1 TTGTTCCTAATCATTATATTTTC
8908189 T
1 T
8908190 AGTTTTTTTT
Statistics
Matches: 31, Mismatches: 12, Indels: 8
0.61 0.24 0.16
Matches are distributed among these distances:
22 6 0.19
23 19 0.61
24 6 0.19
ACGTcount: A:0.26, C:0.16, G:0.04, T:0.54
Consensus pattern (23 bp):
TTGTTCCTAATCATTATATTTTC
Found at i:8913483 original size:14 final size:14
Alignment explanation
Indices: 8913464--8913491 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
8913454 TGTTGTCTTC
8913464 TGAGCAAGCAAAGT
1 TGAGCAAGCAAAGT
8913478 TGAGCAAGCAAAGT
1 TGAGCAAGCAAAGT
8913492 ATAGATTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.29, T:0.14
Consensus pattern (14 bp):
TGAGCAAGCAAAGT
Found at i:8930872 original size:24 final size:26
Alignment explanation
Indices: 8930825--8930922 Score: 75
Period size: 24 Copynumber: 4.0 Consensus size: 26
8930815 GATACGAATG
* *
8930825 AGTAAATAATTATAAT-AATAATAA-
1 AGTAAGTAATAATAATAAATAATAAT
8930849 AGTAAGTAATAATAATAAAT-ATAAT
1 AGTAAGTAATAATAATAAATAATAAT
* * * **
8930874 ACT-AGTAATAGTAAT-AGTAATAGC
1 AGTAAGTAATAATAATAAATAATAAT
*
8930898 AGT-AGTAATAAT-ATAAAAAATAAT
1 AGTAAGTAATAATAATAAATAATAAT
8930922 A
1 A
8930923 AATAAAATAG
Statistics
Matches: 57, Mismatches: 13, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
23 4 0.07
24 48 0.84
25 5 0.09
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.31
Consensus pattern (26 bp):
AGTAAGTAATAATAATAAATAATAAT
Found at i:8930873 original size:15 final size:15
Alignment explanation
Indices: 8930829--8930874 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 15
8930819 CGAATGAGTA
*
8930829 AATAATTATAATAAT
1 AATAAATATAATAAT
8930844 AATAAAGTAAGTAATAAT
1 AATAAA-T-A-TAATAAT
8930862 AATAAATATAATA
1 AATAAATATAATA
8930875 CTAGTAATAG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 10 0.37
16 2 0.07
17 2 0.07
18 13 0.48
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (15 bp):
AATAAATATAATAAT
Found at i:8931299 original size:17 final size:18
Alignment explanation
Indices: 8931277--8931313 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
8931267 GATATTAGGG
8931277 TTTAAG-GTTTTAGGGTT
1 TTTAAGAGTTTTAGGGTT
*
8931294 TTTAAGATTTTTAGGGTT
1 TTTAAGAGTTTTAGGGTT
8931312 TT
1 TT
8931314 GGAGAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.19, C:0.00, G:0.24, T:0.57
Consensus pattern (18 bp):
TTTAAGAGTTTTAGGGTT
Found at i:8933826 original size:14 final size:15
Alignment explanation
Indices: 8933802--8933830 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
8933792 TGGGTGCTCG
8933802 AACTCTCTCTTTTCT
1 AACTCTCTCTTTTCT
8933817 AACT-TCTCTTTTCT
1 AACTCTCTCTTTTCT
8933831 TTTTGGTTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.14, C:0.31, G:0.00, T:0.55
Consensus pattern (15 bp):
AACTCTCTCTTTTCT
Found at i:8938872 original size:22 final size:22
Alignment explanation
Indices: 8938831--8938898 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
8938821 TGCACTAATG
**
8938831 AACAGAGAGCACAGGTGTGCTA
1 AACAGAGAGCACAGACGTGCTA
*
8938853 AACAGAGAGCACTGACGTGCTAA
1 AACAGAGAGCACAGACGTGCT-A
*
8938876 AATCATAGAGCACCA-ACGTGCTA
1 AA-CAGAGAGCA-CAGACGTGCTA
8938899 GTAGTTAGAG
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
22 18 0.47
23 4 0.11
24 15 0.39
25 1 0.03
ACGTcount: A:0.38, C:0.22, G:0.25, T:0.15
Consensus pattern (22 bp):
AACAGAGAGCACAGACGTGCTA
Found at i:8938914 original size:25 final size:25
Alignment explanation
Indices: 8938856--8938961 Score: 142
Period size: 25 Copynumber: 4.3 Consensus size: 25
8938846 TGTGCTAAAC
** *
8938856 AGAGAGCACTGACGTGCTAA-AATC
1 AGAGAGCACCAACGTGCTAATAATT
* * *
8938880 ATAGAGCACCAACGTGCTAGTAGTT
1 AGAGAGCACCAACGTGCTAATAATT
*
8938905 AGAGAGCACCAACGTGCTAATAATC
1 AGAGAGCACCAACGTGCTAATAATT
8938930 AGAGAGCACCAACGTGCTAATAATT
1 AGAGAGCACCAACGTGCTAATAATT
8938955 AGAGAGC
1 AGAGAGC
8938962 GCGCTAAAGT
Statistics
Matches: 70, Mismatches: 11, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
24 16 0.23
25 54 0.77
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.18
Consensus pattern (25 bp):
AGAGAGCACCAACGTGCTAATAATT
Found at i:8938944 original size:50 final size:49
Alignment explanation
Indices: 8938856--8938961 Score: 158
Period size: 50 Copynumber: 2.1 Consensus size: 49
8938846 TGTGCTAAAC
** * * *
8938856 AGAGAGCACTGACGTGCTAAAATCATAGAGCACCAACGTGCTAGTAGTT
1 AGAGAGCACCAACGTGCTAAAATCAGAGAGCACCAACGTGCTAATAATT
8938905 AGAGAGCACCAACGTGCTAATAATCAGAGAGCACCAACGTGCTAATAATT
1 AGAGAGCACCAACGTGCTAA-AATCAGAGAGCACCAACGTGCTAATAATT
8938955 AGAGAGC
1 AGAGAGC
8938962 GCGCTAAAGT
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
49 18 0.35
50 33 0.65
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.18
Consensus pattern (49 bp):
AGAGAGCACCAACGTGCTAAAATCAGAGAGCACCAACGTGCTAATAATT
Found at i:8939968 original size:16 final size:16
Alignment explanation
Indices: 8939947--8939983 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
8939937 GTTTTATCTA
8939947 TATAATAATATAATAT
1 TATAATAATATAATAT
8939963 TATAATAATATAATAT
1 TATAATAATATAATAT
*
8939979 AATAA
1 TATAA
8939984 CTTACTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TATAATAATATAATAT
Found at i:8939983 original size:8 final size:8
Alignment explanation
Indices: 8939946--8939977 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
8939936 TGTTTTATCT
8939946 ATATAATA
1 ATATAATA
8939954 ATATAATA
1 ATATAATA
*
8939962 TTATAATA
1 ATATAATA
8939970 ATATAATA
1 ATATAATA
8939978 TAATAACTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
ATATAATA
Found at i:8940905 original size:27 final size:25
Alignment explanation
Indices: 8940845--8940905 Score: 77
Period size: 28 Copynumber: 2.3 Consensus size: 25
8940835 CCCGGCCCAT
* *
8940845 TTTTAAAATAAACATTAAAAAATTA
1 TTTTAAAATAAAAATAAAAAAATTA
8940870 TTTTAAAAATAAAAAAGTAAAAAAATTA
1 TTTT-AAAAT-AAAAA-TAAAAAAATTA
8940898 TTTTAAAA
1 TTTTAAAA
8940906 GTATTTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 4 0.13
26 5 0.16
27 8 0.26
28 14 0.45
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (25 bp):
TTTTAAAATAAAAATAAAAAAATTA
Found at i:8940911 original size:39 final size:40
Alignment explanation
Indices: 8940863--8940940 Score: 115
Period size: 39 Copynumber: 2.0 Consensus size: 40
8940853 TAAACATTAA
*
8940863 AAAATTATTTTAAAAATAAAAAAGTAAAAA-AA-TTATTTT
1 AAAAGTATTTTAAAAATAAAAAA-TAAAAATAATTTATTTT
*
8940902 AAAAGTATTTTAAAATTAAAAAATAAAAATAATTTATTT
1 AAAAGTATTTTAAAAATAAAAAATAAAAATAATTTATTT
8940941 ATTATATTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
38 6 0.17
39 23 0.66
40 6 0.17
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (40 bp):
AAAAGTATTTTAAAAATAAAAAATAAAAATAATTTATTTT
Found at i:8942645 original size:30 final size:30
Alignment explanation
Indices: 8942609--8942692 Score: 116
Period size: 30 Copynumber: 2.8 Consensus size: 30
8942599 GAGAATGTAA
*
8942609 TGCTCACACAAGCTGACAGTATATC-AGGAT
1 TGCTCACACAAGCTGACATTATATCTAGG-T
*
8942639 TGCTCACACAAGCTGACATTATAACTAGGT
1 TGCTCACACAAGCTGACATTATATCTAGGT
* *
8942669 TACTCACACAAGCTGTCATTATAT
1 TGCTCACACAAGCTGACATTATAT
8942693 TGAGGTTACT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 45 0.94
31 3 0.06
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.27
Consensus pattern (30 bp):
TGCTCACACAAGCTGACATTATATCTAGGT
Found at i:8942699 original size:30 final size:28
Alignment explanation
Indices: 8942611--8942702 Score: 103
Period size: 30 Copynumber: 3.1 Consensus size: 28
8942601 GAATGTAATG
* *
8942611 CTCACACAAGCTGACAGTATATCAGGATTG
1 CTCACACAAGCTGACATTATAT-AGG-TTA
8942641 CTCACACAAGCTGACATTATAACTAGGTTA
1 CTCACACAAGCTGACATTAT-A-TAGGTTA
*
8942671 CTCACACAAGCTGTCATTATATTGAGGTTA
1 CTCACACAAGCTGACATTATA-T-AGGTTA
8942701 CT
1 CT
8942703 TGTCCTGACT
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
29 2 0.04
30 48 0.87
31 4 0.07
32 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (28 bp):
CTCACACAAGCTGACATTATATAGGTTA
Found at i:8942916 original size:113 final size:114
Alignment explanation
Indices: 8942718--8942945 Score: 431
Period size: 113 Copynumber: 2.0 Consensus size: 114
8942708 TGACTAAACC
*
8942718 TACAATACATTTAACTTGAGAATCTGCAACAAATGTTGGATCTCATAATAACATGTAAATCCCTG
1 TACAATAAATTTAACTTGAGAATCTGCAACAAATGTTGGATCTCATAATAACATGTAAATCCCTG
8942783 ATCAAATACGAGTATAACCCTAATGACATGCCATA-ATATCCTAACCTT
66 ATCAAATACGAGTATAACCCTAATGACATGCCATACATATCCTAACCTT
8942831 TACAATAAATTTAACTTGAGAATCTGCAACAAATGTTGGATCTCATAATAACATGTAAATCCCTG
1 TACAATAAATTTAACTTGAGAATCTGCAACAAATGTTGGATCTCATAATAACATGTAAATCCCTG
*
8942896 ATCAAATATGAGTATAACCCTAATGACATGCCATACATATCCTAACCTT
66 ATCAAATACGAGTATAACCCTAATGACATGCCATACATATCCTAACCTT
8942945 T
1 T
8942946 TACTAAGCTC
Statistics
Matches: 112, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
113 98 0.88
114 14 0.12
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.30
Consensus pattern (114 bp):
TACAATAAATTTAACTTGAGAATCTGCAACAAATGTTGGATCTCATAATAACATGTAAATCCCTG
ATCAAATACGAGTATAACCCTAATGACATGCCATACATATCCTAACCTT
Found at i:8947193 original size:11 final size:13
Alignment explanation
Indices: 8947174--8947204 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
8947164 TTTATTTAAG
*
8947174 TTATATATAAATA
1 TTATATATAATTA
8947187 TTATATATAATTA
1 TTATATATAATTA
8947200 TTATA
1 TTATA
8947205 ATTATTAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TTATATATAATTA
Found at i:8947211 original size:3 final size:3
Alignment explanation
Indices: 8947185--8947255 Score: 54
Period size: 3 Copynumber: 22.7 Consensus size: 3
8947175 TATATATAAA
* * * * *
8947185 TAT TAT ATAT AAT TAT TAT AAT TAT TAAC CAT TAT TAT GGTCT TA- TAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT --TAT TAT TAT
8947233 TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
8947256 AATAAAGTAA
Statistics
Matches: 53, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
2 2 0.04
3 45 0.85
4 4 0.08
5 2 0.04
ACGTcount: A:0.37, C:0.04, G:0.03, T:0.56
Consensus pattern (3 bp):
TAT
Found at i:8947802 original size:12 final size:12
Alignment explanation
Indices: 8947785--8947815 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
8947775 GAAGCAGGGG
8947785 AGAAAAAGCGAA
1 AGAAAAAGCGAA
*
8947797 AGAAAAAGGGAA
1 AGAAAAAGCGAA
8947809 AGAAAAA
1 AGAAAAA
8947816 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.71, C:0.03, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGCGAA
Found at i:8955795 original size:17 final size:17
Alignment explanation
Indices: 8955753--8955813 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
8955743 TAATTTCAGA
8955753 TTAACTATTTTAA-AAAT
1 TTAA-TATTTTAATAAAT
* *
8955770 ATTATTATTTTAATAGAT
1 -TTAATATTTTAATAAAT
*
8955788 TTAATA-TTAAATTAAAT
1 TTAATATTTTAA-TAAAT
8955805 TTAATATTT
1 TTAATATTT
8955814 ACCTTAATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
16 4 0.11
17 23 0.66
18 8 0.23
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (17 bp):
TTAATATTTTAATAAAT
Found at i:8957971 original size:11 final size:11
Alignment explanation
Indices: 8957957--8957988 Score: 55
Period size: 12 Copynumber: 2.8 Consensus size: 11
8957947 CAAACACAAA
8957957 AAAATAAAAAT
1 AAAATAAAAAT
8957968 AAAATAAAAAAT
1 AAAAT-AAAAAT
8957980 AAAATAAAA
1 AAAATAAAA
8957989 CCCCTAAGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:8957971 original size:12 final size:11
Alignment explanation
Indices: 8957954--8957988 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
8957944 AAACAAACAC
8957954 AAAAAAATAAA
1 AAAAAAATAAA
*
8957965 AATAAAATAAA
1 AAAAAAATAAA
8957976 AAATAAAATAAA
1 AAA-AAAATAAA
8957988 A
1 A
8957989 CCCCTAAGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 12 0.57
12 9 0.43
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (11 bp):
AAAAAAATAAA
Found at i:8957978 original size:18 final size:17
Alignment explanation
Indices: 8957955--8957988 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
8957945 AACAAACACA
8957955 AAAAAATAAAAATAAAAT
1 AAAAAAT-AAAATAAAAT
8957973 AAAAAATAAAATAAAA
1 AAAAAATAAAATAAAA
8957989 CCCCTAAGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (17 bp):
AAAAAATAAAATAAAAT
Found at i:8958880 original size:15 final size:15
Alignment explanation
Indices: 8958860--8958891 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
8958850 TATCAAAACA
8958860 CTAGGCATGCATCTT
1 CTAGGCATGCATCTT
8958875 CTAGGCATGCATCTT
1 CTAGGCATGCATCTT
8958890 CT
1 CT
8958892 CATCAGTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.34
Consensus pattern (15 bp):
CTAGGCATGCATCTT
Found at i:8961719 original size:83 final size:83
Alignment explanation
Indices: 8961580--8961745 Score: 323
Period size: 83 Copynumber: 2.0 Consensus size: 83
8961570 GTCTCTAGTA
*
8961580 GTCTGAAAGTTTGTTTCGTGTTGCTTGTTTTGCAATTTTTCTTTTCTTTTCATCTAAGTGTGTGT
1 GTCTGAAAGTTTGTTTCGTGTTGCTTGTTTTGCAATTTTTCTTTTCTTTTCATCTAAGTGTGCGT
8961645 GTATCTCATTTTAACCTT
66 GTATCTCATTTTAACCTT
8961663 GTCTGAAAGTTTGTTTCGTGTTGCTTGTTTTGCAATTTTTCTTTTCTTTTCATCTAAGTGTGCGT
1 GTCTGAAAGTTTGTTTCGTGTTGCTTGTTTTGCAATTTTTCTTTTCTTTTCATCTAAGTGTGCGT
8961728 GTATCTCATTTTAACCTT
66 GTATCTCATTTTAACCTT
8961746 CTTTTTCTTC
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 82 1.00
ACGTcount: A:0.14, C:0.15, G:0.17, T:0.54
Consensus pattern (83 bp):
GTCTGAAAGTTTGTTTCGTGTTGCTTGTTTTGCAATTTTTCTTTTCTTTTCATCTAAGTGTGCGT
GTATCTCATTTTAACCTT
Found at i:8964194 original size:23 final size:23
Alignment explanation
Indices: 8964163--8964212 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
8964153 TGCGCAGGCT
* *
8964163 TATTGTATT-TATCTATTACAATA
1 TATTATATTGTATCT-TTAAAATA
*
8964186 TATTATATTGTTTCTTTAAAATA
1 TATTATATTGTATCTTTAAAATA
8964209 TATT
1 TATT
8964213 TAAAAAATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (23 bp):
TATTATATTGTATCTTTAAAATA
Found at i:8971502 original size:31 final size:31
Alignment explanation
Indices: 8971464--8971530 Score: 125
Period size: 31 Copynumber: 2.2 Consensus size: 31
8971454 TGGTGAAGTG
8971464 TCTCTCTTTTTAACTATTTTACTGCATTCTT
1 TCTCTCTTTTTAACTATTTTACTGCATTCTT
*
8971495 TCTCTCTTTTTAACTATTTTTCTGCATTCTT
1 TCTCTCTTTTTAACTATTTTACTGCATTCTT
8971526 TCTCT
1 TCTCT
8971531 ATATGGAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.13, C:0.24, G:0.03, T:0.60
Consensus pattern (31 bp):
TCTCTCTTTTTAACTATTTTACTGCATTCTT
Found at i:8974587 original size:19 final size:21
Alignment explanation
Indices: 8974565--8974605 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
8974555 TTTACTTGCT
*
8974565 TTTTGTATTT-TTT-ACACAA
1 TTTTATATTTGTTTAACACAA
8974584 TTTTATATTTGTTTAACACAA
1 TTTTATATTTGTTTAACACAA
8974605 T
1 T
8974606 CATTTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 3 0.16
21 7 0.37
ACGTcount: A:0.29, C:0.10, G:0.05, T:0.56
Consensus pattern (21 bp):
TTTTATATTTGTTTAACACAA
Found at i:8991482 original size:15 final size:14
Alignment explanation
Indices: 8991445--8991486 Score: 59
Period size: 13 Copynumber: 3.0 Consensus size: 14
8991435 ATTTAATTGG
8991445 AAAATGAATTAAA-
1 AAAATGAATTAAAT
*
8991458 AATATGAATTAAAT
1 AAAATGAATTAAAT
8991472 AAAAGTGAATTAAAT
1 AAAA-TGAATTAAAT
8991487 TATGATTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 12 0.48
14 3 0.12
15 10 0.40
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.29
Consensus pattern (14 bp):
AAAATGAATTAAAT
Found at i:8997593 original size:37 final size:39
Alignment explanation
Indices: 8997543--8997634 Score: 100
Period size: 39 Copynumber: 2.4 Consensus size: 39
8997533 CGGATAAATT
* * *
8997543 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTACCAACTATTGCTTCGAACTAT-C
* * *
8997580 CGATGAGACACTGGATGCCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTACCAACTATTGCTTCGAACTATC
8997619 CGATGAGGCACTGGGT
1 CGATGAGGCACTGGGT
8997635 GCCATACTGG
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
37 19 0.43
38 2 0.05
39 20 0.45
40 3 0.07
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTACCAACTATTGCTTCGAACTATC
Found at i:9004059 original size:3 final size:3
Alignment explanation
Indices: 9004051--9004076 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
9004041 AACAAATAGG
9004051 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
9004077 GGACTAAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:9006029 original size:46 final size:45
Alignment explanation
Indices: 9005868--9006632 Score: 356
Period size: 44 Copynumber: 16.6 Consensus size: 45
9005858 TTTTAATCCA
* * * * *
9005868 CTCCATTGTAATCTCAGGCAGATAGGAT-TACTATCTTCAATCTA
1 CTCCACTGTAATCTCAGGGAGATAAGATCTAATATCTTCAATCTG
* *
9005912 CTCCGCTGTAATCTCAGGGAGATAAGAT-TACTATCTTCAATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCTAATATCTTCAATCTG
* * **
9005956 CTCCATTGTAATCTCAGGGAGATAAGATCTGAA-ATTTTTCGGTCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCT-AATA-TCTTCAATCTG
* * **
9006002 TTCCACTGTAATCTCAGGGAGATAAGATCT-CTGGCTTCAATCTGATGTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCTAATATCTTCAATC-----TG
* * * *
9006051 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTAT-TTTAATCCG
1 --CT-C-C-ACTGTAATC-TCAGGGAGATAAGAT-CTAATATCTTCAATCTG
* * * * *
9006100 CTCCACTGTAA-CTTCAGAGAGATAGGAT-TACTAGCTTCAATCTA
1 CTCCACTGTAATC-TCAGGGAGATAAGATCTAATATCTTCAATCTG
* * * **
9006144 CTCCGCTGTAATCTCAGAGAGATAAGATCT-CTGGCTTCAATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCTAATATCTTCAATCTG
* * **
9006188 CTCCACTGTAACCTCAGGGAGATAAGATCT-CTGGCTTCAATCTGATGTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCTAATATCTTCAATC-----TG
* * * *
9006237 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTAT-TTTAATCCG
1 --CT-C-C-ACTGTAATC-TCAGGGAGATAAGAT-CTAATATCTTCAATCTG
* * * * *
9006286 CTCCACTGTAA-CTTCAGAGAGATAGGAT-TACTAGCTTCAATCTA
1 CTCCACTGTAATC-TCAGGGAGATAAGATCTAATATCTTCAATCTG
* * * **
9006330 CTCCGCTGTAATCTCAGAGAGATAAGATCT-CTGGCTTCAATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCTAATATCTTCAATCTG
* * **
9006374 CTCCACTGTAACCTCAGGGAGATAAGATCT-CTGGCTTCAATCTGATGTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCTAATATCTTCAATC-----TG
* * * *
9006423 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTAT-TTTAATCCG
1 --CT-C-C-ACTGTAATC-TCAGGGAGATAAGAT-CTAATATCTTCAATCTG
* * * * *
9006472 CTCCACTGTAA-CTTCAGAGAGATAGGAT-TACTAGCTTCAATCTA
1 CTCCACTGTAATC-TCAGGGAGATAAGATCTAATATCTTCAATCTG
* * * **
9006516 CTCCGCTGTAATCTCAGAGAGATAAGATCT-CTGGCTTCAATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCTAATATCTTCAATCTG
* * *
9006560 CTCCACTGTAACCTCAGGGAGATAAGATCTGAA-ATTCTTCGATCTA
1 CTCCACTGTAATCTCAGGGAGATAAGATCT-AATA-TCTTCAATCTG
9006606 CTCCACTGTAATCTCAGGGAGATAAGA
1 CTCCACTGTAATCTCAGGGAGATAAGA
9006633 CCTGTATAAT
Statistics
Matches: 583, Mismatches: 83, Indels: 108
0.75 0.11 0.14
Matches are distributed among these distances:
42 3 0.01
43 6 0.01
44 370 0.63
45 11 0.02
46 74 0.13
47 6 0.01
49 9 0.02
51 5 0.01
52 3 0.01
53 6 0.01
54 81 0.14
55 9 0.02
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.31
Consensus pattern (45 bp):
CTCCACTGTAATCTCAGGGAGATAAGATCTAATATCTTCAATCTG
Found at i:9006184 original size:232 final size:232
Alignment explanation
Indices: 9005759--9006217 Score: 746
Period size: 232 Copynumber: 2.0 Consensus size: 232
9005749 GAAATTTATG
* *
9005759 TTTTCAGTGTGTTCCACTGCAACATCAGGGAGATAAGATCTCTGGCTTCAATCTGATGTGATTTA
1 TTTTCAGTCTGTTCCACTGCAACATCAGGGAGATAAGATCTCTGGCTTCAATCTGATGTGATCTA
*
9005824 CTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCATTGTAATCTCAGGCAG
66 CTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTCAGGCAG
* * *
9005889 ATAGGATTACTATCTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGATTACTATCTTCAATC
131 ATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAGATAAGATTACTAGCTTCAATC
* *
9005954 TGCTCCATTGTAATCTCAGGGAGATAAGATCTGAAAT
196 TGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
* *
9005991 TTTTCGGTCTGTTCCACTGTAATC-TCAGGGAGATAAGATCTCTGGCTTCAATCTGATGTGATCT
1 TTTTCAGTCTGTTCCACTGCAA-CATCAGGGAGATAAGATCTCTGGCTTCAATCTGATGTGATCT
*
9006055 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAA-CTTCAGAG
65 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATC-TCAG-G
*
9006119 -AGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAGATAAGATCT-CTGGCTTC
128 CAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAGATAAGAT-TACTAGCTTC
9006182 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT
192 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT
9006218 CTGGCTTCAA
Statistics
Matches: 211, Mismatches: 12, Indels: 8
0.91 0.05 0.03
Matches are distributed among these distances:
231 1 0.00
232 207 0.98
233 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (232 bp):
TTTTCAGTCTGTTCCACTGCAACATCAGGGAGATAAGATCTCTGGCTTCAATCTGATGTGATCTA
CTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTCAGGCAG
ATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAGATAAGATTACTAGCTTCAATC
TGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
Found at i:9006253 original size:186 final size:186
Alignment explanation
Indices: 9005912--9006589 Score: 1171
Period size: 186 Copynumber: 3.6 Consensus size: 186
9005902 CTTCAATCTA
* * * * * ** *
9005912 CTCCGCTGTAA-TCTCAGGGAGATAAGATTACTATCTTCAATCTGCTCCATTGTAATCTCAGGGA
1 CTCCACTGTAACT-TCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGA
* ** ** * *
9005976 GATAAGATCTGAAAT-TTTTCGGTCTGTTCCACTGTAATCTCAGGGAGATAAGATCTCTGGCTTC
65 GATAAGATCT---CTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTC
9006040 AATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCG
127 AATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCG
9006100 CTCCACTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAG
1 CTCCACTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAG
9006165 ATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTCAATC
66 ATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTCAATC
9006230 TGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCG
131 TGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCG
9006286 CTCCACTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAG
1 CTCCACTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAG
9006351 ATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTCAATC
66 ATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTCAATC
9006416 TGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCG
131 TGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCG
9006472 CTCCACTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAG
1 CTCCACTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAG
9006537 ATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT
66 ATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT
9006590 GAAATTCTTC
Statistics
Matches: 473, Mismatches: 15, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
185 1 0.00
186 407 0.86
188 64 0.14
189 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (186 bp):
CTCCACTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAG
ATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTCAATC
TGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCG
Found at i:9006263 original size:142 final size:141
Alignment explanation
Indices: 9006104--9006373 Score: 357
Period size: 142 Copynumber: 1.9 Consensus size: 141
9006094 AATCCGCTCC
* * *
9006104 ACTGTAACTTCAGAGAGATAGGAT-TACTAGCTTCAATCTACTCCGCTGTAA-TCTCAGAGAGAT
1 ACTGTAACTTCAGAGAGATAAGATCT-CTA-CTTCAATCCACTCCACTGTAACT-TCAGAGAGAT
* * *
9006167 AAGATCT-CTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTCAATCT
63 AAGAT-TACTAGCTTCAATCTACTCCACTGTAACCTCAGAGAGATAAGATCTCTGGCTTCAATCT
9006231 GATGTGATCTACTCT
127 GATGTGATCTACTCT
* * * * *
9006246 ACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGAGAGATAG
1 ACTGTAACTTCAGAGAGATAAGAT-CTCTACTTCAATCCACTCCACTGTAACTTCAGAGAGATAA
* *
9006311 GATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAGATAAGATCTCTGGCTTCAATCTG
65 GATTACTAGCTTCAATCTACTCCACTGTAACCTCAGAGAGATAAGATCTCTGGCTTCAATCTG
9006374 CTCCACTGTA
Statistics
Matches: 111, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
141 1 0.01
142 106 0.95
143 3 0.03
144 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.31
Consensus pattern (141 bp):
ACTGTAACTTCAGAGAGATAAGATCTCTACTTCAATCCACTCCACTGTAACTTCAGAGAGATAAG
ATTACTAGCTTCAATCTACTCCACTGTAACCTCAGAGAGATAAGATCTCTGGCTTCAATCTGATG
TGATCTACTCT
Found at i:9006308 original size:98 final size:98
Alignment explanation
Indices: 9006139--9006328 Score: 233
Period size: 98 Copynumber: 1.9 Consensus size: 98
9006129 ACTAGCTTCA
* * *
9006139 ATCTACTCCGCTGTAATCTCAGAGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCA
1 ATCTACTCCACTGTAATCTCAGAGAGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACCTCA
* *
9006204 GGGAGATAAGATCT-CTGGCTTCAATCTGATGTG
66 GAGAGATAAGAT-TACTAGCTTCAATCTGATGTG
* * * * *
9006237 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATC-CTTTATTTTAATCCGCTCCACTGTAACTT
1 ATCTACTCCACTGTAATC-TCAGAGAGATAAGATCTC-TGACTTCAATCCGCTCCACTGTAACCT
*
9006300 CAGAGAGATAGGATTACTAGCTTCAATCT
64 CAGAGAGATAAGATTACTAGCTTCAATCT
9006329 ACTCCGCTGT
Statistics
Matches: 78, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
97 3 0.04
98 75 0.96
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (98 bp):
ATCTACTCCACTGTAATCTCAGAGAGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACCTCA
GAGAGATAAGATTACTAGCTTCAATCTGATGTG
Found at i:9006436 original size:142 final size:141
Alignment explanation
Indices: 9006290--9006559 Score: 357
Period size: 142 Copynumber: 1.9 Consensus size: 141
9006280 AATCCGCTCC
* * *
9006290 ACTGTAACTTCAGAGAGATAGGAT-TACTAGCTTCAATCTACTCCGCTGTAA-TCTCAGAGAGAT
1 ACTGTAACTTCAGAGAGATAAGATCT-CTA-CTTCAATCCACTCCACTGTAACT-TCAGAGAGAT
* * *
9006353 AAGATCT-CTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTCAATCT
63 AAGAT-TACTAGCTTCAATCTACTCCACTGTAACCTCAGAGAGATAAGATCTCTGGCTTCAATCT
9006417 GATGTGATCTACTCT
127 GATGTGATCTACTCT
* * * * *
9006432 ACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGAGAGATAG
1 ACTGTAACTTCAGAGAGATAAGAT-CTCTACTTCAATCCACTCCACTGTAACTTCAGAGAGATAA
* *
9006497 GATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAGATAAGATCTCTGGCTTCAATCTG
65 GATTACTAGCTTCAATCTACTCCACTGTAACCTCAGAGAGATAAGATCTCTGGCTTCAATCTG
9006560 CTCCACTGTA
Statistics
Matches: 111, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
141 1 0.01
142 106 0.95
143 3 0.03
144 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.31
Consensus pattern (141 bp):
ACTGTAACTTCAGAGAGATAAGATCTCTACTTCAATCCACTCCACTGTAACTTCAGAGAGATAAG
ATTACTAGCTTCAATCTACTCCACTGTAACCTCAGAGAGATAAGATCTCTGGCTTCAATCTGATG
TGATCTACTCT
Found at i:9006494 original size:98 final size:98
Alignment explanation
Indices: 9006325--9006514 Score: 233
Period size: 98 Copynumber: 1.9 Consensus size: 98
9006315 ACTAGCTTCA
* * *
9006325 ATCTACTCCGCTGTAATCTCAGAGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCA
1 ATCTACTCCACTGTAATCTCAGAGAGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACCTCA
* *
9006390 GGGAGATAAGATCT-CTGGCTTCAATCTGATGTG
66 GAGAGATAAGAT-TACTAGCTTCAATCTGATGTG
* * * * *
9006423 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATC-CTTTATTTTAATCCGCTCCACTGTAACTT
1 ATCTACTCCACTGTAATC-TCAGAGAGATAAGATCTC-TGACTTCAATCCGCTCCACTGTAACCT
*
9006486 CAGAGAGATAGGATTACTAGCTTCAATCT
64 CAGAGAGATAAGATTACTAGCTTCAATCT
9006515 ACTCCGCTGT
Statistics
Matches: 78, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
97 3 0.04
98 75 0.96
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (98 bp):
ATCTACTCCACTGTAATCTCAGAGAGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACCTCA
GAGAGATAAGATTACTAGCTTCAATCTGATGTG
Found at i:9026189 original size:29 final size:29
Alignment explanation
Indices: 9026147--9026208 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
9026137 TCAATGAGTC
9026147 ATTTTGTAGTATTTATAGTAATAAACTCT
1 ATTTTGTAGTATTTATAGTAATAAACTCT
9026176 ATTTTGTAGTATTTATAGTAATAAACTCT
1 ATTTTGTAGTATTTATAGTAATAAACTCT
9026205 ATTT
1 ATTT
9026209 CAAAAGTACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.34, C:0.06, G:0.10, T:0.50
Consensus pattern (29 bp):
ATTTTGTAGTATTTATAGTAATAAACTCT
Found at i:9026838 original size:22 final size:22
Alignment explanation
Indices: 9026810--9026852 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
9026800 TTATTTAATT
*
9026810 ATAATTCAATAAACCTTAAATA
1 ATAATTCAAAAAACCTTAAATA
*
9026832 ATAATTCAAAAAATCTTAAAT
1 ATAATTCAAAAAACCTTAAAT
9026853 TAATTCTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
ATAATTCAAAAAACCTTAAATA
Found at i:9030924 original size:20 final size:20
Alignment explanation
Indices: 9030882--9030932 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
9030872 AAAAAATGAC
* *
9030882 ATTATAATAAATTTAAATTT
1 ATTAAAATAAATTTAAATAT
9030902 ATTAAAATAAATTT-AATAAT
1 ATTAAAATAAATTTAAAT-AT
*
9030922 ATTAGAATAAA
1 ATTAAAATAAA
9030933 AAAATTACTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 3 0.11
20 24 0.89
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (20 bp):
ATTAAAATAAATTTAAATAT
Found at i:9035816 original size:30 final size:30
Alignment explanation
Indices: 9035780--9035859 Score: 126
Period size: 30 Copynumber: 2.7 Consensus size: 30
9035770 GACTTGGTCA
9035780 ACAATCAGCAACTACAATTGGGATATTCTT
1 ACAATCAGCAACTACAATTGGGATATTCTT
* *
9035810 ACAATCAGCAACTACGATTGTGATATTCTT
1 ACAATCAGCAACTACAATTGGGATATTCTT
9035840 AC-ATGCAGCAACTACAATTG
1 ACAAT-CAGCAACTACAATTG
9035860 CAAATGTCTC
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
29 2 0.04
30 44 0.96
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (30 bp):
ACAATCAGCAACTACAATTGGGATATTCTT
Found at i:9039820 original size:27 final size:27
Alignment explanation
Indices: 9039789--9039842 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
9039779 AACCAATAGA
*
9039789 AGGATTTATAGTATATTAATATAGAGT
1 AGGATTTATAGTATATTAATACAGAGT
9039816 AGGATTTATAGTATATTAATACAGAGT
1 AGGATTTATAGTATATTAATACAGAGT
9039843 TAATGTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.41, C:0.02, G:0.19, T:0.39
Consensus pattern (27 bp):
AGGATTTATAGTATATTAATACAGAGT
Found at i:9044639 original size:24 final size:23
Alignment explanation
Indices: 9044587--9044639 Score: 54
Period size: 24 Copynumber: 2.2 Consensus size: 23
9044577 AATTAACTAT
*
9044587 TTAAGAATATATTTATATTGAATA
1 TTAAAAATATATTTATATTG-ATA
*
9044611 ATAAAAATATATTTTATATTTG-TA
1 TTAAAAATATA-TTTATA-TTGATA
9044635 TTAAA
1 TTAAA
9044640 TTATAATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
24 15 0.62
25 6 0.25
26 3 0.12
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (23 bp):
TTAAAAATATATTTATATTGATA
Found at i:9057004 original size:29 final size:29
Alignment explanation
Indices: 9056972--9057050 Score: 77
Period size: 31 Copynumber: 2.7 Consensus size: 29
9056962 TTGTAACTTT
9056972 TTAAAGTTTAGTGACCAAATCAGATTATC
1 TTAAAGTTTAGTGACCAAATCAGATTATC
* * * * *
9057001 TTAAAAATATTAGTGACCAAATTATATTTTT
1 TT-AAAGT-TTAGTGACCAAATCAGATTATC
* *
9057032 TTAAAGTTTAATGATCAAA
1 TTAAAGTTTAGTGACCAAA
9057051 ACAAACCATC
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
29 12 0.30
30 8 0.20
31 20 0.50
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.39
Consensus pattern (29 bp):
TTAAAGTTTAGTGACCAAATCAGATTATC
Found at i:9057036 original size:31 final size:31
Alignment explanation
Indices: 9056939--9057036 Score: 83
Period size: 31 Copynumber: 3.2 Consensus size: 31
9056929 TTAAAAATCA
* ** * **
9056939 TTTTAAAAATATAAGTGATTAAATTGTAACT
1 TTTTAAAAATATTAGTGACCAAATTATATTT
* * * *
9056970 TTTT-AAAGT-TTAGTGACCAAATCAGATTA
1 TTTTAAAAATATTAGTGACCAAATTATATTT
*
9056999 TCTTAAAAATATTAGTGACCAAATTATATTT
1 TTTTAAAAATATTAGTGACCAAATTATATTT
9057030 TTTTAAA
1 TTTTAAA
9057037 GTTTAATGAT
Statistics
Matches: 49, Mismatches: 16, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
29 14 0.29
30 8 0.16
31 27 0.55
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (31 bp):
TTTTAAAAATATTAGTGACCAAATTATATTT
Found at i:9057062 original size:60 final size:60
Alignment explanation
Indices: 9056941--9057072 Score: 147
Period size: 60 Copynumber: 2.2 Consensus size: 60
9056931 AAAAATCATT
* ** * * * * **
9056941 TTAAAAATATAAGTGATTAAATTGTAACTTTTTAAAGTTTAGTGACCAAATCAGATTATC
1 TTAAAAATATTAGTGACCAAATTATAACTTTTTAAAGTTTAATGACCAAAACAAACCATC
** *
9057001 TTAAAAATATTAGTGACCAAATTATATTTTTTTAAAGTTTAATGATCAAAACAAACCATC
1 TTAAAAATATTAGTGACCAAATTATAACTTTTTAAAGTTTAATGACCAAAACAAACCATC
*
9057061 TTGAAAATATTA
1 TTAAAAATATTA
9057073 ACGAAAGCCG
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (60 bp):
TTAAAAATATTAGTGACCAAATTATAACTTTTTAAAGTTTAATGACCAAAACAAACCATC
Found at i:9068314 original size:19 final size:19
Alignment explanation
Indices: 9068302--9068340 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
9068292 AAAAAGAGAA
9068302 CTTAAAAAGAAAATAAAAC
1 CTTAAAAAGAAAATAAAAC
9068321 CTTAAAAAGAAAATAAAAC
1 CTTAAAAAGAAAATAAAAC
9068340 C
1 C
9068341 ACTAGTTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.67, C:0.13, G:0.05, T:0.15
Consensus pattern (19 bp):
CTTAAAAAGAAAATAAAAC
Found at i:9068830 original size:16 final size:16
Alignment explanation
Indices: 9068792--9068832 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
9068782 AAACTCAGGT
*
9068792 TTTTAGGGTTTGGGTCA
1 TTTT-GGGTTTGGGCCA
9068809 -TTTGGGTTTGGGCCA
1 TTTTGGGTTTGGGCCA
9068824 TTTTGGGTT
1 TTTTGGGTT
9068833 CAAATGATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.07, C:0.07, G:0.37, T:0.49
Consensus pattern (16 bp):
TTTTGGGTTTGGGCCA
Found at i:9105113 original size:8 final size:8
Alignment explanation
Indices: 9105101--9105136 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
9105091 TTCTTATAAA
*
9105101 GAGAGAGA
1 GAGAGAGG
9105109 GAGAGAGG
1 GAGAGAGG
9105117 GAGAGAGG
1 GAGAGAGG
9105125 GAGAGAGG
1 GAGAGAGG
9105133 GAGA
1 GAGA
9105137 AGGAGCATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (8 bp):
GAGAGAGG
Found at i:9105673 original size:829 final size:830
Alignment explanation
Indices: 9104305--9105961 Score: 2116
Period size: 829 Copynumber: 2.0 Consensus size: 830
9104295 AAAGACATGT
* * * *
9104305 AGAAGAGCATTAGGAAGATTCTTCTGAAAATTGCCAGCACAGTCACTTACACTCTCATAATATCA
1 AGAAGAGCATTAGGAAGATTCTTCTCAAAATTGCAAGCACAATCACTTACACTCTCATAATACCA
9104370 ACTTACAATTAACTTAAAAAGAAGAGAAAAGTAACAATTTTAAAGTCTTATAAACAAGCAAGACA
66 ACTTACAATTAACTTAAAAAGAAGAGAAAAGTAACAATTTTAAAGTCTTATAAACAAGCAAGACA
* * * *
9104435 TGTTTTAAAATACTTATGCAATTAACTACTACTTCATATTTACTAAACCATTCGGTTTGGTCTTC
131 TGTTTTAAAATACTTATACAATTAACCACCACTTCATATTTACTAAACCATTCGGCTTGGTCTTC
* *
9104500 TTGTCTTCATGGAGGAGCCTGCAAAAGATAGCGATGAAACCATCATACACCCCTACCAAAAAAAA
196 TTGTCTTCATGGAGGAGACTGCAAAAGATAGCGATGAAACCATCATACACCCCCACCAAAAAAAA
* * *
9104565 AAACCTAATGCAATCAACCTTACAACATAGATATAATTACTAACCTTGGATGATATTGTGGGGAG
261 AAACCTAATGCAATCAACC-T-CAACATACATATAATTACTAACCTTGAACGATATTGTGGGGAG
9104630 AGATAACCACGATTTTCTTAGAGAGAGAGAGAGAGGACATGTAGAAAAGCATTAGGAGGATTCTT
324 AGATAACCACGATTTTCTTA-AGAGAGAGAGAGAGGACATGTAGAAAAGCATTAGGAGGATTCTT
* * * *
9104695 TTCAAAATTGCCAAGAGAGTCACTTACACTTTCTTAATATTGACTTATAATTAACTTAAAAAGAA
388 CTCAAAATTGCCAAGAGAGTCACTTACACTTTCTTAATAGTGACTTACAATTAACTGAAAAAGAA
* ** *
9104760 GATGCAAATAGCAATTCTGGAGTCTTTTAAACAAGTAAGACGTGTATAAAAACACTTATGCAATC
453 GA-GCAAATAACAATTCTGGAGTCTTAAAAACAAGCAAGACGTGTATAAAAACACTTATGCAATC
* * * *
9104825 AACAACAACTTCGCATTTACTAAACTAATTGGCTTGGTCTT-TTTGTCTTCAT-GGAACTTGCAA
517 AACAACAACTTCACATTTACTAAACCAATTGGCTTGGTCTTCTTT-TCTTCATGGGAACCTACAA
* * *
9104888 AAGAGAGTGATGAACCCATCATACA-CCCT-ACAA-AATGAC-AGATAAAATTACTAACCTTGAA
581 AAGAGAGGGATGAAACCATCATACACCCCTCAAAATAATGACAAGATAAAATTACTAACCTTGAA
* * * * * * *
9104949 TGACATTGCTGGGAGGGGCAGTTACGAACTTAAATATGGACAGTAAAATGAACATGAAAAATACT
646 CGACATTACTGGGAGAGACAGTTACGAACTTAAACATGGACAGTAAAATAAACATGAAAAATACC
*
9105014 AAATATATATAATTACCGATATCTAAACAATCCGGTATGTTGGTAG-TATGAATTTACTGTATGT
711 AAATATATATAATCACCGATATCTAAACAATCCGGTATGTTGGT-GTTATGAATTTACTGTATGT
* *
9105078 CAAAATATATATTTTCTTATAAAGAGAGAGAGAGAGAGGGAGAGAGGGAGAGAGGG
775 CAAAATATATATTTTCTTAGAAAGAGAGAGAGAGAGAGAGAGAGAGGGAGAGAGGG
* * * *
9105134 AGAAGGAGCATTAGGAGGATTCTTCTCAAAACTAT-CAAG-AGAATCACTTATACTTTCATAATA
1 AGAA-GAGCATTAGGAAGATTCTTCTCAAAA-T-TGCAAGCACAATCACTTACACTCTCATAATA
* ** * * **
9105197 CCGACTTACAATTTGCTTAAATAGAAGAGACAAGTAACAATTTTGGAGTCTTATAAACAAGCAAG
63 CCAACTTACAATTAACTTAAAAAGAAGAGAAAAGTAACAATTTTAAAGTCTTATAAACAAGCAAG
* *
9105262 AC-TTTTGTTAAAATGCTTATACAATTAACCACCACGTT-A-ATTTACTAAACCAATT-GGCTTG
128 ACATGTT-TTAAAATACTTATACAATTAACCACCAC-TTCATATTTACTAAACC-ATTCGGCTTG
* * *
9105323 GTCTTCTTGTCTTCATGGAGGA-ACTAGCAAAAGATAAG-GATGAAAGCATCATATACCCCCCCG
190 GTCTTCTTGTCTTCATGGAGGAGACT-GCAAAAGAT-AGCGATGAAACCATCATACACCCCCAC-
* * **
9105386 CAAAAAAAAAAACACACTAATTCAATCAACC-CTATGT-CATATAATTACTAACCTTGAACGATA
252 C-AAAAAAAAAA-AC-CTAATGCAATCAACCTCAACATACATATAATTACTAACCTTGAACGATA
* * * * *
9105449 TTGTGGGGGGGGGGGAGGTAACCACGATCTTT-TT-ATAGAGAGAGAGAGGACATGTGGAAGAGC
314 TTGT-----GGGGAGAGATAACCACGAT-TTTCTTAAGAGAGAGAGAGAGGACATGTAGAAAAGC
*
9105512 ATTAGGAGGATTCTTCTCAAAATTGCCAAG-GCAGTCACTTACATTTTCTTAATAGTGACTTACA
373 ATTAGGAGGATTCTTCTCAAAATTGCCAAGAG-AGTCACTTACACTTTCTTAATAGTGACTTACA
* * *
9105576 ATTAACTGAAAAA-AAGA-CAAATAACAATTCTGGAGTCTTAAAAACAAGCAAGTCGTGTGTTAA
437 ATTAACTGAAAAAGAAGAGCAAATAACAATTCTGGAGTCTTAAAAACAAGCAAGACGTGTATAAA
* * * * * *
9105639 AACGCTTATGCAATTAACCACTACTTCACATTTACTAAACCAATTGGGTTGGTCTTCTTTTTTTC
502 AACACTTATGCAATCAACAACAACTTCACATTTACTAAACCAATTGGCTTGGTCTTCTTTTCTTC
9105704 ATGGAGGAACCTACAAAAGAGAGGGATGAAACCATCATACACCCCTCCCAAAAATAATGACATAG
567 AT-G-GGAACCTACAAAAGAGAGGGATGAAACCATCATACACCCCT--C-AAAATAATGACA-AG
* *
9105769 ATATAATTACTAACCTTGAACGACATTATTGGGAGAGACAGTTACGAACTTAAACATGGACAGTA
626 ATAAAATTACTAACCTTGAACGACATTACTGGGAGAGACAGTTACGAACTTAAACATGGACAGTA
* * * *
9105834 AAATAAACATGAAAAATACCAAATATATATAATCATCGATTTCTAAACAGTCTGGTATGTTGGTG
691 AAATAAACATGAAAAATACCAAATATATATAATCACCGATATCTAAACAATCCGGTATGTTGGTG
* * * * * *
9105899 TTATGAATTTAGTGTATTTCAAGATATATATTTTGTTAGAGAGGGAGAGAGAGAGAGAGAGAG
756 TTATGAATTTACTGTATGTCAAAATATATATTTTCTTAGAAAGAGAGAGAGAGAGAGAGAGAG
9105962 CATAGGAGGA
Statistics
Matches: 711, Mismatches: 85, Indels: 53
0.84 0.10 0.06
Matches are distributed among these distances:
828 2 0.00
829 196 0.28
830 140 0.20
831 21 0.03
832 131 0.18
833 18 0.03
834 19 0.03
835 3 0.00
837 3 0.00
838 6 0.01
839 1 0.00
840 171 0.24
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.28
Consensus pattern (830 bp):
AGAAGAGCATTAGGAAGATTCTTCTCAAAATTGCAAGCACAATCACTTACACTCTCATAATACCA
ACTTACAATTAACTTAAAAAGAAGAGAAAAGTAACAATTTTAAAGTCTTATAAACAAGCAAGACA
TGTTTTAAAATACTTATACAATTAACCACCACTTCATATTTACTAAACCATTCGGCTTGGTCTTC
TTGTCTTCATGGAGGAGACTGCAAAAGATAGCGATGAAACCATCATACACCCCCACCAAAAAAAA
AAACCTAATGCAATCAACCTCAACATACATATAATTACTAACCTTGAACGATATTGTGGGGAGAG
ATAACCACGATTTTCTTAAGAGAGAGAGAGAGGACATGTAGAAAAGCATTAGGAGGATTCTTCTC
AAAATTGCCAAGAGAGTCACTTACACTTTCTTAATAGTGACTTACAATTAACTGAAAAAGAAGAG
CAAATAACAATTCTGGAGTCTTAAAAACAAGCAAGACGTGTATAAAAACACTTATGCAATCAACA
ACAACTTCACATTTACTAAACCAATTGGCTTGGTCTTCTTTTCTTCATGGGAACCTACAAAAGAG
AGGGATGAAACCATCATACACCCCTCAAAATAATGACAAGATAAAATTACTAACCTTGAACGACA
TTACTGGGAGAGACAGTTACGAACTTAAACATGGACAGTAAAATAAACATGAAAAATACCAAATA
TATATAATCACCGATATCTAAACAATCCGGTATGTTGGTGTTATGAATTTACTGTATGTCAAAAT
ATATATTTTCTTAGAAAGAGAGAGAGAGAGAGAGAGAGAGGGAGAGAGGG
Found at i:9109511 original size:19 final size:19
Alignment explanation
Indices: 9109487--9109525 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
9109477 AATCCAAATT
9109487 ATGCAAAACAAATCTTTAC
1 ATGCAAAACAAATCTTTAC
9109506 ATGCAAAACAAATCTTTAC
1 ATGCAAAACAAATCTTTAC
9109525 A
1 A
9109526 ACATTAAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.49, C:0.21, G:0.05, T:0.26
Consensus pattern (19 bp):
ATGCAAAACAAATCTTTAC
Found at i:9111366 original size:3 final size:3
Alignment explanation
Indices: 9111358--9111383 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
9111348 ATCACATGTT
9111358 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
9111384 TGGATGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:9111501 original size:72 final size:72
Alignment explanation
Indices: 9111384--9111567 Score: 359
Period size: 72 Copynumber: 2.6 Consensus size: 72
9111374 TATTATTATT
9111384 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
9111449 TTTTAAG
66 TTTTAAG
9111456 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
9111521 TTTTAAG
66 TTTTAAG
*
9111528 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTT
9111568 GTCAAGTTGT
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 111 1.00
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.42
Consensus pattern (72 bp):
TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
TTTTAAG
Found at i:9115794 original size:3 final size:3
Alignment explanation
Indices: 9115786--9115832 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
9115776 ATCACATGTT
9115786 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
9115833 TGGATGTAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:9121268 original size:8 final size:8
Alignment explanation
Indices: 9121255--9121289 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
9121245 TTTCTTATAA
*
9121255 AGAGAGAG
1 AGAGAGGG
9121263 AGAGAGGG
1 AGAGAGGG
9121271 AGAGAGGG
1 AGAGAGGG
9121279 AGAGAGGG
1 AGAGAGGG
9121287 AGA
1 AGA
9121290 AGGAGCATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (8 bp):
AGAGAGGG
Found at i:9124315 original size:6 final size:6
Alignment explanation
Indices: 9124306--9124379 Score: 121
Period size: 6 Copynumber: 12.3 Consensus size: 6
9124296 TGCGGTTGTG
* *
9124306 GCTCCT GCTCCT GCTCCT GCTCCT GCTTCT GCTCCT GCTTCT GCTCCT
1 GCTCCT GCTCCT GCTCCT GCTCCT GCTCCT GCTCCT GCTCCT GCTCCT
*
9124354 GCTCCT GCTGCT GCTCCT GCTCCT GC
1 GCTCCT GCTCCT GCTCCT GCTCCT GC
9124380 ACCAGCTCCA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 62 1.00
ACGTcount: A:0.00, C:0.46, G:0.19, T:0.35
Consensus pattern (6 bp):
GCTCCT
Found at i:9130396 original size:27 final size:27
Alignment explanation
Indices: 9130366--9130430 Score: 121
Period size: 27 Copynumber: 2.4 Consensus size: 27
9130356 CCTATCAGGT
9130366 AGGCGCCAATGAAGGTGCCTCATAGAG
1 AGGCGCCAATGAAGGTGCCTCATAGAG
*
9130393 AGGCGTCAATGAAGGTGCCTCATAGAG
1 AGGCGCCAATGAAGGTGCCTCATAGAG
9130420 AGGCGCCAATG
1 AGGCGCCAATG
9130431 GTGGCCTTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.29, C:0.22, G:0.34, T:0.15
Consensus pattern (27 bp):
AGGCGCCAATGAAGGTGCCTCATAGAG
Found at i:9130562 original size:14 final size:15
Alignment explanation
Indices: 9130543--9130625 Score: 53
Period size: 14 Copynumber: 5.1 Consensus size: 15
9130533 TGGGCACGGT
9130543 AGAGAAAAAAAAAG-
1 AGAGAAAAAAAAAGA
* *
9130557 AGAGAAAGAAGAAGA
1 AGAGAAAAAAAAAGA
9130572 AGAGAAGGAGAAGAAGAAGA
1 AGAGAA--A-AA-AA-AAGA
*
9130592 AGAAGAAGAAGAAGAAGA
1 AG-AGAA-AA-AAAAAGA
9130610 A-AGAAAAAAAAAGA
1 AGAGAAAAAAAAAGA
9130624 AG
1 AG
9130626 GTAATGTATT
Statistics
Matches: 54, Mismatches: 6, Indels: 17
0.70 0.08 0.22
Matches are distributed among these distances:
14 19 0.35
15 8 0.15
16 4 0.07
17 1 0.02
18 6 0.11
19 3 0.06
20 9 0.17
21 4 0.07
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (15 bp):
AGAGAAAAAAAAAGA
Found at i:9130568 original size:3 final size:3
Alignment explanation
Indices: 9130562--9130610 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
9130552 AAAAGAGAGA
*
9130562 AAG AAG AAG AAG -AG AAG GAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
9130609 AA
1 AA
9130611 AGAAAAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:9130705 original size:12 final size:12
Alignment explanation
Indices: 9130688--9130713 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9130678 TTTGTGAATT
9130688 TTTTAGAAGATA
1 TTTTAGAAGATA
9130700 TTTTAGAAGATA
1 TTTTAGAAGATA
9130712 TT
1 TT
9130714 GTGAGTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (12 bp):
TTTTAGAAGATA
Found at i:9130807 original size:22 final size:22
Alignment explanation
Indices: 9130780--9130846 Score: 95
Period size: 22 Copynumber: 3.2 Consensus size: 22
9130770 TGGATTAGAA
*
9130780 TTTTGTATGAATATTCTAATTT
1 TTTTGTATGAATATTGTAATTT
9130802 TTTTGTATGAATATTGTAA--T
1 TTTTGTATGAATATTGTAATTT
*
9130822 TTTT-TATGAATATTGTAATTA
1 TTTTGTATGAATATTGTAATTT
9130843 TTTT
1 TTTT
9130847 ATAATTAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
19 14 0.34
20 5 0.12
21 4 0.10
22 18 0.44
ACGTcount: A:0.28, C:0.01, G:0.10, T:0.60
Consensus pattern (22 bp):
TTTTGTATGAATATTGTAATTT
Done.