Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 24 of 208
Found at i:9290066 original size:21 final size:21
Alignment explanation
Indices: 9289976--9290066 Score: 66
Period size: 21 Copynumber: 4.4 Consensus size: 21
9289966 CGGCCTATTT
**
9289976 TTTTAATAAATACCAAAAATTTA
1 TTTTAA-AAATAATAAAAA-TTA
*
9289999 TTTTAAAAATTAA-AAAAAGTA
1 TTTTAAAAA-TAATAAAAATTA
* *
9290020 TTTTAAAAATATTTTAAAATTA
1 TTTTAAAAATA-ATAAAAATTA
9290042 ----AAAAATAATAAAAATTA
1 TTTTAAAAATAATAAAAATTA
9290059 TTTTAAAA
1 TTTTAAAA
9290067 TATTTTAAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 16
0.70 0.09 0.21
Matches are distributed among these distances:
17 8 0.15
18 7 0.13
20 2 0.04
21 15 0.28
22 14 0.26
23 8 0.15
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.38
Consensus pattern (21 bp):
TTTTAAAAATAATAAAAATTA
Found at i:9290076 original size:21 final size:21
Alignment explanation
Indices: 9289990--9290078 Score: 62
Period size: 22 Copynumber: 4.3 Consensus size: 21
9289980 AATAAATACC
*
9289990 AAAAATTTATTTTAAAA-ATTAA
1 AAAAA-TTATTTTAAAATATT-T
*
9290012 AAAAAGTATTTTAAAAATATTT
1 AAAAATTATTTT-AAAATATTT
* * *
9290034 TAAAATTA---AAAAATA-AT
1 AAAAATTATTTTAAAATATTT
9290051 AAAAATTATTTTAAAATATTT
1 AAAAATTATTTTAAAATATTT
*
9290072 TAAAATT
1 AAAAATT
9290079 TAAAAAATTT
Statistics
Matches: 51, Mismatches: 10, Indels: 13
0.69 0.14 0.18
Matches are distributed among these distances:
17 8 0.16
18 6 0.12
20 6 0.12
21 13 0.25
22 15 0.29
23 3 0.06
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (21 bp):
AAAAATTATTTTAAAATATTT
Found at i:9290094 original size:39 final size:40
Alignment explanation
Indices: 9289998--9290095 Score: 139
Period size: 39 Copynumber: 2.5 Consensus size: 40
9289988 CCAAAAATTT
* *
9289998 ATTTTAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAA
1 ATTTAAAAAATTAAAAAAATTATTTTAAAAATATTTTAAA
9290038 A-TTAAAAAA-TAATAAAAATTATTTT-AAAATATTTTAAA
1 ATTTAAAAAATTAA-AAAAATTATTTTAAAAATATTTTAAA
*
9290076 ATTTAAAAAATTTAAAAAAT
1 ATTTAAAAAATTAAAAAAAT
9290096 AAATATATTT
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
38 17 0.33
39 32 0.62
40 3 0.06
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (40 bp):
ATTTAAAAAATTAAAAAAATTATTTTAAAAATATTTTAAA
Found at i:9290418 original size:24 final size:23
Alignment explanation
Indices: 9290380--9290492 Score: 64
Period size: 24 Copynumber: 5.2 Consensus size: 23
9290370 TTAATATATG
* *
9290380 AAATATAAATTTTAAATATTTTT
1 AAATATAAATATTAAATATTTAT
*
9290403 AAATAATAAATATTAATTATTTAT
1 AAAT-ATAAATATTAAATATTTAT
**
9290427 AAA-ATTTA-ATTAGAATA--TAT
1 AAATATAAATATTA-AATATTTAT
*
9290447 AAACTAT--ATTTTAAATA-TT-T
1 AAA-TATAAATATTAAATATTTAT
**
9290467 AAATATAACCATTAAATATTTA-
1 AAATATAAATATTAAATATTTAT
9290489 AAAT
1 AAAT
9290493 TAGTATTTTA
Statistics
Matches: 70, Mismatches: 10, Indels: 21
0.69 0.10 0.21
Matches are distributed among these distances:
19 3 0.04
20 15 0.21
21 15 0.21
22 14 0.20
23 4 0.06
24 19 0.27
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (23 bp):
AAATATAAATATTAAATATTTAT
Found at i:9293408 original size:22 final size:23
Alignment explanation
Indices: 9293355--9293408 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 23
9293345 ATCAACAATT
9293355 AATTAATTTTTTACAATTTAAAA
1 AATTAATTTTTTACAATTTAAAA
*
9293378 AATTAAATTTTTTA-ATTTTAAAA
1 AATT-AATTTTTTACAATTTAAAA
9293401 AATTAATT
1 AATTAATT
9293409 AATTACTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 4 0.14
23 16 0.55
24 9 0.31
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
AATTAATTTTTTACAATTTAAAA
Found at i:9307874 original size:60 final size:60
Alignment explanation
Indices: 9307781--9307903 Score: 246
Period size: 60 Copynumber: 2.0 Consensus size: 60
9307771 CCGGCAGTCA
9307781 TGGGATTTAAAGGAGGCACAAAGTTCCGCACCTCCCACCGTGGAACTGCAGCATATCAAC
1 TGGGATTTAAAGGAGGCACAAAGTTCCGCACCTCCCACCGTGGAACTGCAGCATATCAAC
9307841 TGGGATTTAAAGGAGGCACAAAGTTCCGCACCTCCCACCGTGGAACTGCAGCATATCAAC
1 TGGGATTTAAAGGAGGCACAAAGTTCCGCACCTCCCACCGTGGAACTGCAGCATATCAAC
9307901 TGG
1 TGG
9307904 TGTGTTTTAG
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 63 1.00
ACGTcount: A:0.29, C:0.28, G:0.24, T:0.19
Consensus pattern (60 bp):
TGGGATTTAAAGGAGGCACAAAGTTCCGCACCTCCCACCGTGGAACTGCAGCATATCAAC
Found at i:9308095 original size:4 final size:4
Alignment explanation
Indices: 9308086--9308110 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
9308076 TGTGAGTATC
9308086 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
9308111 ATCCGAGTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:9318288 original size:24 final size:24
Alignment explanation
Indices: 9318259--9318314 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
9318249 AGTGTCCAAA
*
9318259 TTTCTTTAACTT-GTTTACCGTCAG
1 TTTCTTTAA-TTCGTTTACCATCAG
*
9318283 TTTCTTCAATTCGTTTACCATCAG
1 TTTCTTTAATTCGTTTACCATCAG
9318307 TTT-TTTAA
1 TTTCTTTAA
9318315 GCACAAAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 6 0.21
24 22 0.79
ACGTcount: A:0.20, C:0.20, G:0.09, T:0.52
Consensus pattern (24 bp):
TTTCTTTAATTCGTTTACCATCAG
Found at i:9327034 original size:120 final size:119
Alignment explanation
Indices: 9326881--9327101 Score: 345
Period size: 120 Copynumber: 1.8 Consensus size: 119
9326871 AGTATGATGA
* * **
9326881 TAAATTATATATTTTTATTAACTTATATTTAATAATAATTATGTT-AAATTATATTTTATAGTAT
1 TAAATCATATATTTTAATTAAAATATATTTAATAATAATTAT-TTCAAATTATATTTTATAGTAT
* *
9326945 TATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTAT
65 CATATATTATGATTTGAG-AAATTCATATAAGAATATTTAATATTAAGAATTTTAT
*
9327001 TAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGTATC
1 TAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTTATAGTATC
*
9327066 ATATATTATGATTTGAGTAATTCATATAAGAATATT
66 ATATATTATGATTTGAGAAATTCATATAAGAATATT
9327102 GATTATTANN
Statistics
Matches: 92, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
119 20 0.22
120 72 0.78
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.50
Consensus pattern (119 bp):
TAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTTATAGTATC
ATATATTATGATTTGAGAAATTCATATAAGAATATTTAATATTAAGAATTTTAT
Found at i:9327067 original size:59 final size:58
Alignment explanation
Indices: 9326887--9327072 Score: 146
Period size: 59 Copynumber: 3.1 Consensus size: 58
9326877 ATGATAAATT
* ** * *
9326887 ATATATTTTTATTAACTTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATT
1 ATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTATATTTTATAGTATC
* * * * * * * *
9326946 ATATATTATGATTTTAGAA-A-A-TTCATATAAGAATATTTAATATTAAGAATTTTATTA-AATC
1 ATATATT-TTA-ATTAAAATATATTTAATATTA-ATTATTTAA-ATT-A-TATTTTA-TAGTATC
9327007 ATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGTATC
1 ATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTATATTTTATAGTATC
9327066 ATATATT
1 ATATATT
9327073 ATGATTTGAG
Statistics
Matches: 94, Mismatches: 21, Indels: 24
0.68 0.15 0.17
Matches are distributed among these distances:
58 12 0.13
59 36 0.38
60 7 0.07
61 28 0.30
62 11 0.12
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (58 bp):
ATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTATATTTTATAGTATC
Found at i:9341539 original size:21 final size:22
Alignment explanation
Indices: 9341515--9341555 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
9341505 AAGATAAATC
*
9341515 ACAAAAAAT-AAGAAAAAATAA
1 ACAAAAAATGAAAAAAAAATAA
9341536 ACAAAAAATGAAAAAAAAAT
1 ACAAAAAATGAAAAAAAAAT
9341556 TCAGAAGTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.80, C:0.05, G:0.05, T:0.10
Consensus pattern (22 bp):
ACAAAAAATGAAAAAAAAATAA
Found at i:9341541 original size:11 final size:11
Alignment explanation
Indices: 9341515--9341555 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
9341505 AAGATAAATC
9341515 ACAAAAAAT-A
1 ACAAAAAATAA
*
9341525 AGAAAAAATAA
1 ACAAAAAATAA
9341536 ACAAAAAATGAA
1 ACAAAAAAT-AA
9341548 A-AAAAAAT
1 ACAAAAAAT
9341556 TCAGAAGTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
10 8 0.30
11 16 0.59
12 3 0.11
ACGTcount: A:0.80, C:0.05, G:0.05, T:0.10
Consensus pattern (11 bp):
ACAAAAAATAA
Found at i:9345055 original size:13 final size:13
Alignment explanation
Indices: 9345037--9345064 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
9345027 TAAGCAACAA
9345037 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
9345050 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
9345063 AA
1 AA
9345065 GAGAATGCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:9345069 original size:18 final size:16
Alignment explanation
Indices: 9345035--9345066 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9345025 GTTAAGCAAC
9345035 AAAAAAAAAAAAAAGA
1 AAAAAAAAAAAAAAGA
*
9345051 AAAAAAAAAAAGAAGA
1 AAAAAAAAAAAAAAGA
9345067 GAATGCAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAAAGA
Found at i:9356361 original size:2 final size:2
Alignment explanation
Indices: 9356356--9356384 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9356346 TATATATATG
9356356 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
9356385 CGCAATGCCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:9357969 original size:147 final size:148
Alignment explanation
Indices: 9357685--9357962 Score: 470
Period size: 147 Copynumber: 1.9 Consensus size: 148
9357675 GTTTTGTCAG
* *
9357685 CAAAAGCACAACTTCATTGACAAAACGTCGTAAAACTGAATTAACAAATGCACCAGCCGGGAATC
1 CAAAACCACAACTTCATTGACAAAACATCGTAAAACTGAATTAACAAATGCACCAGCCGGGAATC
*
9357750 GAACCCGGGTCTGTACCGTGGCAGGGTACTATTCTACCACTAGACCACTGGTGCTAGTTGTTCCG
66 GAACCCGGGTCTGTACCGTGGCAGGGTACTATTCTACCACTAGACCACTGGTGCTAGTTGTTCCC
9357815 AAAAACTATGTTTATCAA
131 AAAAACTATGTTTATCAA
* * * *
9357833 CAAAACCACAAC-TCATTGTCGAAATATCGTAAAATTGAATTAACAAATGCACCAGCCGGGAATC
1 CAAAACCACAACTTCATTGACAAAACATCGTAAAACTGAATTAACAAATGCACCAGCCGGGAATC
9357897 GAACCCGGGTCTGTACCGTGGCAGGGTACTATTCTACCACTAGACCACTGGTGCTTA-TTGTTCC
66 GAACCCGGGTCTGTACCGTGGCAGGGTACTATTCTACCACTAGACCACTGGTGC-TAGTTGTTCC
9357961 CA
130 CA
9357963 GGAACTAAAA
Statistics
Matches: 122, Mismatches: 7, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
147 109 0.89
148 13 0.11
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.23
Consensus pattern (148 bp):
CAAAACCACAACTTCATTGACAAAACATCGTAAAACTGAATTAACAAATGCACCAGCCGGGAATC
GAACCCGGGTCTGTACCGTGGCAGGGTACTATTCTACCACTAGACCACTGGTGCTAGTTGTTCCC
AAAAACTATGTTTATCAA
Found at i:9372004 original size:47 final size:45
Alignment explanation
Indices: 9371935--9372131 Score: 208
Period size: 47 Copynumber: 4.4 Consensus size: 45
9371925 AGCTTAAGAT
9371935 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAA--GTGTATATGTGATAAGGC
* * *
9371982 CGAATGGCAAATGTGATGAATGTGAAAGTGCATACATGTGATAAGGT
1 CGAATGGCCAATGTGATGAATGTGAAAGTG--TATATGTGATAAGGC
** *
9372029 CGAATGGTTAATGTGAT-ATATGTGTAAGTG-ATATGTGATAAGGC
1 CGAATGGCCAATGTGATGA-ATGTGAAAGTGTATATGTGATAAGGC
* *
9372073 CGAATGACCAAT-TG-TGAAATGT--AAGTGAATATGTGATAAGGC
1 CGAATGGCCAATGTGATG-AATGTGAAAGTGTATATGTGATAAGGC
*
9372115 CGAATGACCAATTGTGA
1 CGAATGGCCAA-TGTGA
9372132 AAAGTGTGCA
Statistics
Matches: 130, Mismatches: 11, Indels: 20
0.81 0.07 0.12
Matches are distributed among these distances:
41 5 0.04
42 26 0.20
43 7 0.05
44 24 0.18
45 3 0.02
46 1 0.01
47 64 0.49
ACGTcount: A:0.35, C:0.09, G:0.29, T:0.28
Consensus pattern (45 bp):
CGAATGGCCAATGTGATGAATGTGAAAGTGTATATGTGATAAGGC
Found at i:9372115 original size:42 final size:41
Alignment explanation
Indices: 9372051--9372133 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 41
9372041 GTGATATATG
9372051 TGTAAGTGATATGTGATAAGGCCGAATGACCAATTGTGAAA
1 TGTAAGTGATATGTGATAAGGCCGAATGACCAATTGTGAAA
9372092 TGTAAGTGAATATGTGATAAGGCCGAATGACCAATTGTGAAA
1 TGTAAGTG-ATATGTGATAAGGCCGAATGACCAATTGTGAAA
9372134 AGTGTGCAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 8 0.20
42 33 0.80
ACGTcount: A:0.37, C:0.10, G:0.27, T:0.27
Consensus pattern (41 bp):
TGTAAGTGATATGTGATAAGGCCGAATGACCAATTGTGAAA
Found at i:9372256 original size:39 final size:40
Alignment explanation
Indices: 9372202--9372286 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 40
9372192 AAATGAATTG
* * * *
9372202 TGCTGAGATTGTATCCGGG-TTAGAGACCCGCTGGCTTCA
1 TGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTAA
*
9372241 TGCTGGGATTGTATCCGGGTTTAAAGTCCCGCAGGCTTAA
1 TGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTAA
9372281 TGCTGG
1 TGCTGG
9372287 TGAATTAACT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 18 0.45
40 22 0.55
ACGTcount: A:0.18, C:0.21, G:0.32, T:0.29
Consensus pattern (40 bp):
TGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTAA
Found at i:9389932 original size:12 final size:12
Alignment explanation
Indices: 9389903--9389932 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
9389893 AAAAATTTAC
*
9389903 TTAAACAATATT
1 TTAAATAATATT
9389915 TTAAATAATATT
1 TTAAATAATATT
9389927 TTAAAT
1 TTAAAT
9389933 TAAACTATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (12 bp):
TTAAATAATATT
Found at i:9393136 original size:33 final size:33
Alignment explanation
Indices: 9393094--9393160 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
9393084 GCGGCCTGTG
9393094 AGTTCACTTACATCTCTGGTTACAAATTACCAT
1 AGTTCACTTACATCTCTGGTTACAAATTACCAT
9393127 AGTTCACTTACATCTCTGGTTACAAATTACCAT
1 AGTTCACTTACATCTCTGGTTACAAATTACCAT
9393160 A
1 A
9393161 CTTTCATGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.36
Consensus pattern (33 bp):
AGTTCACTTACATCTCTGGTTACAAATTACCAT
Found at i:9394995 original size:9 final size:9
Alignment explanation
Indices: 9394961--9395001 Score: 55
Period size: 9 Copynumber: 4.3 Consensus size: 9
9394951 TATTTAAACG
*
9394961 ATTAATTGA
1 ATTAATTAA
9394970 ATTGAATTAA
1 ATT-AATTAA
9394980 TATTAATTAA
1 -ATTAATTAA
9394990 ATTAATTAA
1 ATTAATTAA
9394999 ATT
1 ATT
9395002 TTTTAATCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 15 0.52
10 11 0.38
11 3 0.10
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (9 bp):
ATTAATTAA
Found at i:9402497 original size:8 final size:8
Alignment explanation
Indices: 9402486--9402512 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
9402476 TTTATTCATT
9402486 TTTATATA
1 TTTATATA
9402494 TTTATATA
1 TTTATATA
9402502 TTTATATA
1 TTTATATA
9402510 TTT
1 TTT
9402513 CTTTAAACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (8 bp):
TTTATATA
Found at i:9404861 original size:6 final size:6
Alignment explanation
Indices: 9404852--9404890 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
9404842 AAAGGAAGAC
9404852 AAGGCA AAGGCA AAGGCA AAGGCA AAGGCA AAGGCA AAG
1 AAGGCA AAGGCA AAGGCA AAGGCA AAGGCA AAGGCA AAG
9404891 ACGGTTTTCG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.51, C:0.15, G:0.33, T:0.00
Consensus pattern (6 bp):
AAGGCA
Found at i:9412668 original size:32 final size:32
Alignment explanation
Indices: 9412626--9412687 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
9412616 CCGGTTATGC
* *
9412626 TTTTTGAAATAGATAA-ATATAGATAATTTTAG
1 TTTTTGAAATA-AAAATATATAAATAATTTTAG
*
9412658 TTTTTTAAATAAAAATATATAAATAATTTT
1 TTTTTGAAATAAAAATATATAAATAATTTT
9412688 TTGTAAGCAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 3 0.12
32 23 0.88
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (32 bp):
TTTTTGAAATAAAAATATATAAATAATTTTAG
Found at i:9419125 original size:3 final size:3
Alignment explanation
Indices: 9419117--9419146 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
9419107 GCATAGGAAT
*
9419117 TAA TAA TAA TAA TAA TAA TAA CAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
9419147 ACCTATTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:9424384 original size:25 final size:24
Alignment explanation
Indices: 9424343--9424407 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 24
9424333 CACTTTTTAA
* *
9424343 TTTTATAAAAAAATTATTTAATAAT
1 TTTTAT-AAAAATTTATATAATAAT
*
9424368 TTGTTATAAAAATTTATATAATTAT
1 TT-TTATAAAAATTTATATAATAAT
*
9424393 TTTTACCAAAAATTT
1 TTTTA-TAAAAATTT
9424408 CTTGAAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
24 3 0.09
25 27 0.79
26 4 0.12
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (24 bp):
TTTTATAAAAATTTATATAATAAT
Found at i:9424573 original size:19 final size:19
Alignment explanation
Indices: 9424545--9424596 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 19
9424535 TTAGGTGAGT
9424545 AAAA-TTTGATTTAATTTA
1 AAAATTTTGATTTAATTTA
** *
9424563 AAAATTTTGATAAAATTTT
1 AAAATTTTGATTTAATTTA
* *
9424582 TAAATTTTGAATTAA
1 AAAATTTTGATTTAA
9424597 ATAGTTTAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (19 bp):
AAAATTTTGATTTAATTTA
Found at i:9424604 original size:21 final size:19
Alignment explanation
Indices: 9424564--9424608 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
9424554 TTTAATTTAA
*
9424564 AAATTTTGATAAAATTTTT
1 AAATTTTGATAAAATGTTT
*
9424583 AAATTTTGAATTAAATAGTTT
1 AAATTTTG-ATAAAAT-GTTT
9424604 AAATT
1 AAATT
9424609 ATTTGAGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 8 0.36
20 6 0.27
21 8 0.36
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (19 bp):
AAATTTTGATAAAATGTTT
Found at i:9426744 original size:23 final size:22
Alignment explanation
Indices: 9426705--9426747 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
9426695 GACATTCGAG
9426705 TTTTTGAAAATTCTAAATTTAA
1 TTTTTGAAAATTCTAAATTTAA
* *
9426727 TTTTTTAAAATTTTTAAATTT
1 TTTTTGAAAA-TTCTAAATTT
9426748 TAAAATTCGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (22 bp):
TTTTTGAAAATTCTAAATTTAA
Found at i:9427897 original size:106 final size:105
Alignment explanation
Indices: 9427786--9427997 Score: 352
Period size: 106 Copynumber: 2.0 Consensus size: 105
9427776 CAACTCTTAA
* **
9427786 ATTTTTTTTAATTTAACCCTTAATTATAAGTATTAATTAATTTACCGATATTTATCAGACCAAGC
1 ATTTTTTTTAATTTAACCCTCAATTATAAACATTAATTAATTTACCGATATTTATCAGACCAAGC
9427851 GAAAACGTATATAATAATTTCAAGTACAATTTTTTTATTTT
66 GAAAACGTATATAATAATTTCAAGTACAA-TTTTTTATTTT
* * * *
9427892 ATTTTTTTTAATTTTACCCTCATTTATAAACATTAATTAATTTACCGATATTTATCGGACCCAGC
1 ATTTTTTTTAATTTAACCCTCAATTATAAACATTAATTAATTTACCGATATTTATCAGACCAAGC
9427957 GAAAACGTATATAATAATTTCAAGTACAATTTTTTATTTT
66 GAAAACGTATATAATAATTTCAAGTACAATTTTTTATTTT
9427997 A
1 A
9427998 AATCTTATAA
Statistics
Matches: 99, Mismatches: 7, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
105 12 0.12
106 87 0.88
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.45
Consensus pattern (105 bp):
ATTTTTTTTAATTTAACCCTCAATTATAAACATTAATTAATTTACCGATATTTATCAGACCAAGC
GAAAACGTATATAATAATTTCAAGTACAATTTTTTATTTT
Found at i:9429328 original size:16 final size:17
Alignment explanation
Indices: 9429307--9429352 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
9429297 TATTATCTAA
9429307 GAAAAATATAAAAAT-T
1 GAAAAATATAAAAATGT
*
9429323 GAAAAATTATGAAAATGT
1 GAAAAA-TATAAAAATGT
*
9429341 G-AGAATATAAAA
1 GAAAAATATAAAA
9429353 GTAACATTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
16 12 0.48
17 11 0.44
18 2 0.08
ACGTcount: A:0.63, C:0.00, G:0.13, T:0.24
Consensus pattern (17 bp):
GAAAAATATAAAAATGT
Found at i:9434349 original size:21 final size:21
Alignment explanation
Indices: 9434323--9434391 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
9434313 GGGTGTTACA
9434323 CGTTCAACCCTAATGGGTTTC
1 CGTTCAACCCTAATGGGTTTC
* * * *
9434344 CGTTCAACTC-ATTTGAGCTTC
1 CGTTCAACCCTA-ATGGGTTTC
* * *
9434365 AGTTTAACCCTTATGGGTTTC
1 CGTTCAACCCTAATGGGTTTC
9434386 CGTTCA
1 CGTTCA
9434392 GCTCTTATGA
Statistics
Matches: 33, Mismatches: 13, Indels: 4
0.66 0.26 0.08
Matches are distributed among these distances:
20 1 0.03
21 32 0.97
ACGTcount: A:0.19, C:0.26, G:0.17, T:0.38
Consensus pattern (21 bp):
CGTTCAACCCTAATGGGTTTC
Found at i:9434418 original size:42 final size:42
Alignment explanation
Indices: 9434323--9434442 Score: 145
Period size: 42 Copynumber: 2.9 Consensus size: 42
9434313 GGGTGTTACA
* * *
9434323 CGTTCAACCCTAATGGGTTTCCGTTCAACTCATT-TGAGCTTC
1 CGTTTAACCCTTATGGGTTTCCGTTCAGCTC-TTATGAGCTTC
*
9434365 AGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTATGAGCTTC
1 CGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTATGAGCTTC
* * *
9434407 CGTTTAACCCTT-TCGGGTTTCTGTTTAGCACTTATG
1 CGTTTAACCCTTAT-GGGTTTCCGTTCAGCTCTTATG
9434443 GCCTTTTGTT
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
41 3 0.04
42 65 0.96
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (42 bp):
CGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTATGAGCTTC
Found at i:9435455 original size:12 final size:12
Alignment explanation
Indices: 9435438--9435463 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9435428 TATTTGTTGC
9435438 TTGTTTTAATAT
1 TTGTTTTAATAT
9435450 TTGTTTTAATAT
1 TTGTTTTAATAT
9435462 TT
1 TT
9435464 TTAAATGTAT
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:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (12 bp):
TTGTTTTAATAT
Found at i:9435476 original size:24 final size:25
Alignment explanation
Indices: 9435447--9435507 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 25
9435437 CTTGTTTTAA
*
9435447 TATTTGTTTTAATAT-TTTTAAATG
1 TATTTGATTTAATATATTTTAAATG
*
9435471 TATTTGATTTATTATATTTTAAAT-
1 TATTTGATTTAATATATTTTAAATG
* *
9435495 TTTTTTATTTAAT
1 TATTTGATTTAAT
9435508 GAAATAAGCT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 23 0.74
25 8 0.26
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.66
Consensus pattern (25 bp):
TATTTGATTTAATATATTTTAAATG
Found at i:9439729 original size:23 final size:21
Alignment explanation
Indices: 9439694--9439741 Score: 51
Period size: 23 Copynumber: 2.2 Consensus size: 21
9439684 ATAGTATTAC
*
9439694 TATATTATAATTATGTACTAGTG
1 TATATTATAATTACGTAC--GTG
* *
9439717 TATATTTTTATTACGTACGTG
1 TATATTATAATTACGTACGTG
9439738 TATA
1 TATA
9439742 CACATATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 7 0.32
23 15 0.68
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.50
Consensus pattern (21 bp):
TATATTATAATTACGTACGTG
Found at i:9439837 original size:3 final size:3
Alignment explanation
Indices: 9439829--9439864 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
9439819 TATTCCAATG
9439829 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9439865 GTTTATGCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:9442691 original size:52 final size:50
Alignment explanation
Indices: 9442632--9442944 Score: 370
Period size: 52 Copynumber: 6.5 Consensus size: 50
9442622 TAGCTACATA
*
9442632 CTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTAT
1 CTGATCAAGTGAC-AGT-GAAAGTGATAAGTGATAGCTTCGGCTATACTTAT
*
9442684 CTGATCAAGTGAC----AAAGTGATAAGTGATAGCTTCGGCTACACTTAT
1 CTGATCAAGTGACAGTGAAAGTGATAAGTGATAGCTTCGGCTATACTTAT
*
9442730 CTGATCAAGTGACAGTGAAAGTGATAAGTAATAGCTTCGGCTATACTTAT
1 CTGATCAAGTGACAGTGAAAGTGATAAGTGATAGCTTCGGCTATACTTAT
*
9442780 CTGATCAAGTGAC-----AAGT-ATAAGTGATAGCTTCGGCTACACTTAT
1 CTGATCAAGTGACAGTGAAAGTGATAAGTGATAGCTTCGGCTATACTTAT
9442824 CTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTAT
1 CTGATCAAGTGAC-AGTG-AAAGTGATAAGTGATAGCTTCGGCTATACTTAT
* * ** *
9442876 CTAATCAAGAGAC-----AAGTGATAAGTGATAGCTTTAGCTACACTTAT
1 CTGATCAAGTGACAGTGAAAGTGATAAGTGATAGCTTCGGCTATACTTAT
*
9442921 C-GATCAAGAGACAAGTGATAAGTG
1 CTGATCAAGTGAC-AGTGA-AAGTG
9442945 GCTACACTTA
Statistics
Matches: 229, Mismatches: 13, Indels: 39
0.81 0.05 0.14
Matches are distributed among these distances:
44 48 0.21
45 34 0.15
46 44 0.19
50 44 0.19
51 9 0.04
52 50 0.22
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (50 bp):
CTGATCAAGTGACAGTGAAAGTGATAAGTGATAGCTTCGGCTATACTTAT
Found at i:9442769 original size:96 final size:96
Alignment explanation
Indices: 9442632--9442944 Score: 515
Period size: 96 Copynumber: 3.2 Consensus size: 96
9442622 TAGCTACATA
9442632 CTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC
1 CTGATCAAGTGACAAGT-GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC
9442697 AAAGTGATAAGTGATAGCTTCGGCTACACTTAT
65 -AAGTGATAAGTGATAGCTTCGGCTACACTTAT
9442730 CTGATCAAGTGAC-AGTGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACA
1 CTGATCAAGTGACAAGTGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACA
9442794 AGT-ATAAGTGATAGCTTCGGCTACACTTAT
66 AGTGATAAGTGATAGCTTCGGCTACACTTAT
* * *
9442824 CTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTAATCAAGAGAC
1 CTGATCAAGTGACAAGTG-AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC
**
9442889 AAGTGATAAGTGATAGCTTTAGCTACACTTAT
65 AAGTGATAAGTGATAGCTTCGGCTACACTTAT
*
9442921 C-GATCAAGAGACAAGTGATAAGTG
1 CTGATCAAGTGACAAGTGA-AAGTG
9442945 GCTACACTTA
Statistics
Matches: 205, Mismatches: 6, Indels: 10
0.93 0.03 0.05
Matches are distributed among these distances:
94 40 0.20
95 9 0.04
96 114 0.56
97 29 0.14
98 13 0.06
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (96 bp):
CTGATCAAGTGACAAGTGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACA
AGTGATAAGTGATAGCTTCGGCTACACTTAT
Found at i:9442808 original size:44 final size:45
Alignment explanation
Indices: 9442644--9442944 Score: 365
Period size: 44 Copynumber: 6.4 Consensus size: 45
9442634 GATCAAGTGA
* *
9442644 CAAGTGGA-AAGTGATAAGTAATAGCTTCGGCTATACTTATCTGAT
1 CAAGT-GACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGAT
9442689 CAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGAT
1 CAAGTGAC-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGAT
* *
9442735 CAAGTGACAGTGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGAT
1 CAAGTGAC-----AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGAT
9442785 CAAGTGACAAGT-ATAAGTGATAGCTTCGGCTACACTTATCTGAT
1 CAAGTGACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGAT
* *
9442829 CAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTAAT
1 CAAGTGAC-------AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGAT
* **
9442881 CAAGAGACAAGTGATAAGTGATAGCTTTAGCTACACTTATC-GAT
1 CAAGTGACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGAT
*
9442925 CAAGAGACAAGTGATAAGTG
1 CAAGTGACAAGTGATAAGTG
9442945 GCTACACTTA
Statistics
Matches: 229, Mismatches: 13, Indels: 29
0.85 0.05 0.11
Matches are distributed among these distances:
44 62 0.27
45 39 0.17
46 43 0.19
50 44 0.19
51 4 0.02
52 37 0.16
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (45 bp):
CAAGTGACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGAT
Found at i:9442952 original size:35 final size:35
Alignment explanation
Indices: 9442910--9443046 Score: 194
Period size: 35 Copynumber: 4.0 Consensus size: 35
9442900 GATAGCTTTA
9442910 GCTACACTTATC-GATCAAGAGACAAGTGATAAGTG
1 GCTACACTTATCTGATC-AGAGACAAGTGATAAGTG
*
9442945 GCTACACTTATCTGATCAAGAAACAAGTGATAAGT-
1 GCTACACTTATCTGATC-AGAGACAAGTGATAAGTG
*
9442980 GCTACACTTATC-GATCAGA-ACAAGTGATAGGTG
1 GCTACACTTATCTGATCAGAGACAAGTGATAAGTG
*
9443013 GCTACACTTATCTGATCAGGGAC-AGTGATAAGTG
1 GCTACACTTATCTGATCAGAGACAAGTGATAAGTG
9443047 ATCATACGTA
Statistics
Matches: 94, Mismatches: 4, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
32 12 0.13
33 15 0.16
34 20 0.21
35 26 0.28
36 21 0.22
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.25
Consensus pattern (35 bp):
GCTACACTTATCTGATCAGAGACAAGTGATAAGTG
Found at i:9443016 original size:68 final size:68
Alignment explanation
Indices: 9442910--9443046 Score: 215
Period size: 68 Copynumber: 2.0 Consensus size: 68
9442900 GATAGCTTTA
9442910 GCTACACTTATCGATCAAGAGACAAGTGATAAGTGGCTACACTTATCTGATCAAGAAACAAGTGA
1 GCTACACTTATCGATCAAGAGACAAGTGATAAGTGGCTACACTTATCTGATC-AGAAAC-AGTGA
9442975 TAAGT
64 TAAGT
* **
9442980 GCTACACTTATCGATC-AGA-ACAAGTGATAGGTGGCTACACTTATCTGATCAGGGACAGTGATA
1 GCTACACTTATCGATCAAGAGACAAGTGATAAGTGGCTACACTTATCTGATCAGAAACAGTGATA
9443043 AGT
66 AGT
9443046 G
1 G
9443047 ATCATACGTA
Statistics
Matches: 64, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
66 11 0.17
67 4 0.06
68 30 0.47
69 3 0.05
70 16 0.25
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.25
Consensus pattern (68 bp):
GCTACACTTATCGATCAAGAGACAAGTGATAAGTGGCTACACTTATCTGATCAGAAACAGTGATA
AGT
Found at i:9456670 original size:90 final size:90
Alignment explanation
Indices: 9456517--9456697 Score: 362
Period size: 90 Copynumber: 2.0 Consensus size: 90
9456507 AATTATTTTA
9456517 ATATATTGGTTATTTATTTAAGAATTGTTGTAAATCGTTCGATACGTCCGGTAATGCCTCGTAAT
1 ATATATTGGTTATTTATTTAAGAATTGTTGTAAATCGTTCGATACGTCCGGTAATGCCTCGTAAT
9456582 TCTGTTCCGGCGACGGTTCGGGGTT
66 TCTGTTCCGGCGACGGTTCGGGGTT
9456607 ATATATTGGTTATTTATTTAAGAATTGTTGTAAATCGTTCGATACGTCCGGTAATGCCTCGTAAT
1 ATATATTGGTTATTTATTTAAGAATTGTTGTAAATCGTTCGATACGTCCGGTAATGCCTCGTAAT
9456672 TCTGTTCCGGCGACGGTTCGGGGTT
66 TCTGTTCCGGCGACGGTTCGGGGTT
9456697 A
1 A
9456698 AGGGGTGTTA
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 91 1.00
ACGTcount: A:0.22, C:0.15, G:0.24, T:0.39
Consensus pattern (90 bp):
ATATATTGGTTATTTATTTAAGAATTGTTGTAAATCGTTCGATACGTCCGGTAATGCCTCGTAAT
TCTGTTCCGGCGACGGTTCGGGGTT
Found at i:9462735 original size:46 final size:46
Alignment explanation
Indices: 9462661--9462846 Score: 239
Period size: 46 Copynumber: 4.0 Consensus size: 46
9462651 ACAATGATAT
* * * * * * *
9462661 AACTCAGTATAGTTTCCTCCATTAAAATACCATACCTACTTTTCAT
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* * *
9462707 AACTCAGTATGGTTTTCTTTA-TCGAAATACCATACATACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACT-GAAACACCATACCTACTTTTCAC
*
9462753 AACTCAGTATGATTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* *
9462799 AACACAGTATGGTTTTCTTCACTGAAACACCATACCTTCTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
9462845 AA
1 AA
9462847 TTTGCCATGG
Statistics
Matches: 124, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
45 1 0.01
46 122 0.98
47 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:9462844 original size:24 final size:24
Alignment explanation
Indices: 9462770--9462844 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
9462760 TATGATTTTC
*
9462770 TTCACTGAAACACCATACCTACTT
1 TTCACTGAAACACCATACCTTCTT
**
9462794 TTCAC---AACA-CAGTATGGTT-TT
1 TTCACTGAAACACCA-TA-CCTTCTT
9462815 CTTCACTGAAACACCATACCTTCTT
1 -TTCACTGAAACACCATACCTTCTT
9462840 TTCAC
1 TTCAC
9462845 AATTTGCCAT
Statistics
Matches: 38, Mismatches: 5, Indels: 16
0.64 0.08 0.27
Matches are distributed among these distances:
20 2 0.05
21 8 0.21
22 6 0.16
24 12 0.32
25 8 0.21
26 2 0.05
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.33
Consensus pattern (24 bp):
TTCACTGAAACACCATACCTTCTT
Found at i:9464271 original size:26 final size:26
Alignment explanation
Indices: 9464231--9464285 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 26
9464221 GAGCGTCCCG
9464231 TATATGGCTCTTTGTGAGCTTCCCAAT
1 TATATGGCTCTTTGTGAGCTTCCC-AT
*
9464258 TATA-GGCTTTTTGTGAGCTTCCCAT
1 TATATGGCTCTTTGTGAGCTTCCCAT
9464283 TAT
1 TAT
9464286 TGTTCGCTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 5 0.19
26 18 0.67
27 4 0.15
ACGTcount: A:0.18, C:0.20, G:0.18, T:0.44
Consensus pattern (26 bp):
TATATGGCTCTTTGTGAGCTTCCCAT
Found at i:9466517 original size:11 final size:12
Alignment explanation
Indices: 9466490--9466516 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
9466480 TGAATATGGT
9466490 AAAATATTTAAA
1 AAAATATTTAAA
9466502 AAAATATTTAAA
1 AAAATATTTAAA
9466514 AAA
1 AAA
9466517 TTACTAATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
AAAATATTTAAA
Found at i:9473455 original size:61 final size:60
Alignment explanation
Indices: 9473385--9473562 Score: 161
Period size: 61 Copynumber: 3.0 Consensus size: 60
9473375 TTGTTAAATT
*
9473385 ATATTTAATAATAATAATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGA
1 ATATTTAATAATAATAATTTTATA-TATTATATATTATGATTTTAATAAATTCATATAAGA
* * * * * *
9473446 ATATTTAATACTAAGAATTTTATTAAATTATATATT-T--TTGTTAAATTATATTTA-ATAATA
1 ATATTTAATAATAATAATTTTA-TATATTATATATTATGATT-TT-AA-TAAATTCATATAAGA
* * *
9473506 ATTATTTTA-AATTAT-ATTTTATAATATTATATATTATAATTTTAATAAATTCATATA
1 A-TATTTAATAATAATAATTTTAT-ATATTATATATTATGATTTTAATAAATTCATATA
9473563 TTTTATCAAA
Statistics
Matches: 93, Mismatches: 14, Indels: 21
0.73 0.11 0.16
Matches are distributed among these distances:
58 3 0.03
59 25 0.27
60 17 0.18
61 44 0.47
62 4 0.04
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (60 bp):
ATATTTAATAATAATAATTTTATATATTATATATTATGATTTTAATAAATTCATATAAGA
Found at i:9473515 original size:26 final size:25
Alignment explanation
Indices: 9473477--9473535 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
9473467 ATTAAATTAT
*
9473477 ATATTTTTGTTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
9473503 ATAATTATTTTAAATTATATTTTATA
1 AT-ATTATTTTAAATTATATTTAATA
9473529 ATATTAT
1 ATATTAT
9473536 ATATTATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 20 0.67
27 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
ATATTATTTTAAATTATATTTAATA
Found at i:9473534 original size:15 final size:15
Alignment explanation
Indices: 9473490--9473545 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
9473480 TTTTTGTTAA
*
9473490 ATTATATTTAATAAT
1 ATTATATTTTATAAT
*
9473505 AAT-TA-TTT-TAA-
1 ATTATATTTTATAAT
9473516 ATTATATTTTATAAT
1 ATTATATTTTATAAT
*
9473531 ATTATATATTATAAT
1 ATTATATTTTATAAT
9473546 TTTAATAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
11 2 0.06
12 5 0.15
13 5 0.15
14 5 0.15
15 16 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATATTTTATAAT
Found at i:9473561 original size:24 final size:22
Alignment explanation
Indices: 9473516--9473584 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
9473506 ATTATTTTAA
9473516 ATTATATTTTATAATATTATAT
1 ATTATATTTTATAATATTATAT
* *
9473538 ATTATAATTT-TAATA-AAT-T
1 ATTATATTTTATAATATTATAT
9473557 CA-TATATTTTATCAA-ATTATAT
1 -ATTATATTTTAT-AATATTATAT
9473579 ATTATA
1 ATTATA
9473585 AAAAATATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
19 8 0.22
20 5 0.14
21 10 0.27
22 14 0.38
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (22 bp):
ATTATATTTTATAATATTATAT
Found at i:9473580 original size:17 final size:17
Alignment explanation
Indices: 9473462--9473601 Score: 61
Period size: 17 Copynumber: 8.6 Consensus size: 17
9473452 AATACTAAGA
*
9473462 ATTTTATTAAATTATAT
1 ATTTTAATAAATTATAT
**
9473479 ATTTTTGTTAAA-T-TAT
1 A-TTTTAATAAATTATAT
*
9473495 A-TTTAAT-AATAAT-T
1 ATTTTAATAAATTATAT
* *
9473509 ATTTTAAATTATATTTTAT
1 ATTTT-AA-TAAATTATAT
* *
9473528 AATATT-ATATATTATA-
1 -ATTTTAATAAATTATAT
9473544 ATTTTAATAAATTCATAT
1 ATTTTAATAAATT-ATAT
9473562 ATTTT-ATCAAATTATAT
1 ATTTTAAT-AAATTATAT
*
9473579 ATTATAA-AAA--ATAT
1 ATTTTAATAAATTATAT
9473593 A-TTTAATAA
1 ATTTTAATAA
9473602 TAATTATGTT
Statistics
Matches: 95, Mismatches: 13, Indels: 33
0.67 0.09 0.23
Matches are distributed among these distances:
13 6 0.06
14 13 0.14
15 8 0.08
16 15 0.16
17 24 0.25
18 24 0.25
19 1 0.01
20 4 0.04
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (17 bp):
ATTTTAATAAATTATAT
Found at i:9473850 original size:16 final size:16
Alignment explanation
Indices: 9473829--9473880 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
9473819 GATTTGCTAT
9473829 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
* *
9473845 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
9473861 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
9473877 TACA
1 TACA
9473881 GCGAACCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:9477304 original size:366 final size:366
Alignment explanation
Indices: 9476614--9478083 Score: 2154
Period size: 366 Copynumber: 4.0 Consensus size: 366
9476604 GATTATTCTA
* * * *
9476614 TGTATTTATGCATGTTTCGCTTTGGACTTTTATTATCTCTTATTCGTACAGAATACATAAATTCC
1 TGTATTTATGCATGTTTTGCTTTAGACTTTTATTATCTCTTGTTCGTACAGAATACACAAATTCC
* *
9476679 AACTGTAACAACCTGCATTATTGTTGGAACTAAAAAAAGATATATAAATTTAAGAAAGAAAAAAT
66 AACTGTAACAACTTGCATTATTGTTGGAACTAAAAAAAGATATATAAATTTAAGGAAGAAAAAAT
* *
9476744 GATTATCGATAAATGGCACCACATCCTATCACCACCTCTTATCAAAGAGGTTTCAATAATAGCGT
131 GATTATCGACAAATGG-------------CACCACCTCTTACCAAAGAGGTTTCAATAATAGCGT
* * * * *
9476809 AACGCCTAACTAGAATCACGTAAGCTTTTTTTTCCAACGTAAGAATATCTCATGCGTTTTGTGTG
183 AACGCCCAACTAGAATCACGTAAGCTTTTTTTTCCAACGTAAGAATATCTCACGTGCTTCGTGTG
* * * *
9476874 CAGAGATTATGGGAACAAATAAAGGACATCTTACTAGATTCGCCAAACTCCATTGGGAGTTGCAT
248 CAGAGACTATGAGAACAAATAAAGGACATCTTACTAGATTCACCAAACTCCATTGGGTGTTGCAT
* * * *
9476939 CAATGACTGATCACACCCACAAAAAGTTCGTAATTAATGAAATCCGCAAAAGGT
313 CAATGACTGATGACATCTACAAAAAGTTCGTAATTAATGAAATCCGTAAAAGGT
* *
9476993 TGTATTTATGCATGTTTTGCGTTGGACTTTTATTATCTCTTGTTCGTACAGAATACACAAATTCC
1 TGTATTTATGCATGTTTTGCTTTAGACTTTTATTATCTCTTGTTCGTACAGAATACACAAATTCC
*
9477058 AACTGTAACAACTTGCATTATTGCTGGAACT-AAAAAAGATATATAAATTTAAGGAAGAAAAAAA
66 AACTGTAACAACTTGCATTATTGTTGGAACTAAAAAAAGATATATAAATTTAAGGAAG-AAAAAA
* * * *
9477122 TTATTATTGACAAATGGCACCTCCTCTTACCAAAGAGGTTTTAATAATAGCGTAACGCCCAACTA
130 TGATTATCGACAAATGGCACCACCTCTTACCAAAGAGGTTTCAATAATAGCGTAACGCCCAACTA
* *
9477187 GAATCACATAAGCTTTTTTATT-CAACGTAAGAATATCTCACGTGCTTTGTGTGCAGAGACTATG
195 GAATCACGTAAGCTTTTTT-TTCCAACGTAAGAATATCTCACGTGCTTCGTGTGCAGAGACTATG
* * * * *
9477251 AGAACAAATAAATGATATCTTACTAGATTCGCCAAACTCCATTGGGTGTTGCATTAGTGACTGAT
259 AGAACAAATAAAGGACATCTTACTAGATTCACCAAACTCCATTGGGTGTTGCATCAATGACTGAT
**
9477316 GACATCTACAAAAAGTTCGTAATTAATGAAATCTATAAAAGGT
324 GACATCTACAAAAAGTTCGTAATTAATGAAATCCGTAAAAGGT
* *
9477359 TGTATTTATGCATGTTTTGCTTTAGACTTTTATTATCTTTTGTTCGTACAGAATACAAAAATTCC
1 TGTATTTATGCATGTTTTGCTTTAGACTTTTATTATCTCTTGTTCGTACAGAATACACAAATTCC
*
9477424 AACTGTAACAACATGCATTATTGTTGGAACTAAAAAAAAAAGATATATAAATTTAAGGAAGAAAA
66 AACTGTAACAACTTGCATTATTGTTGGAACT---AAAAAAAGATATATAAATTTAAGGAAGAAAA
* * *
9477489 AATGATAATCAACAAATGGCACCACCTCTTACCAAAGAGGTTTCAATAATAGCGTAACGCTCAAC
128 AATGATTATCGACAAATGGCACCACCTCTTACCAAAGAGGTTTCAATAATAGCGTAACGCCCAAC
*
9477554 TAGATTCACGTAAGCTTTTTTTTCCCAACGTAAGAATATCTCACGTGCTTCGTGTGCAGAGACTA
193 TAGAATCACGTAAGCTTTTTTTT-CCAACGTAAGAATATCTCACGTGCTTCGTGTGCAGAGACTA
* * *
9477619 TG-GAAACAAATAAGGGGCATCTTACTAGATTCACCAAACTCCATTGGGTGTTGCATCAATGGCT
257 TGAG-AACAAATAAAGGACATCTTACTAGATTCACCAAACTCCATTGGGTGTTGCATCAATGACT
* * *
9477683 GATGACATATACAAAAAGTTCGTAATTAATTATATCCGTAAAAGGT
321 GATGACATCTACAAAAAGTTCGTAATTAATGAAATCCGTAAAAGGT
*
9477729 TGTATTTATGCATGTTTTGCTTTAGACTTTTATTATCTTTTGTTCGTACAGAATACACAAATTCC
1 TGTATTTATGCATGTTTTGCTTTAGACTTTTATTATCTCTTGTTCGTACAGAATACACAAATTCC
*
9477794 AACTGTAACAACTTGCATTATTGTTGGAACTAAAAAAAGATATATAAATTTAAGGAAGAAAAGAT
66 AACTGTAACAACTTGCATTATTGTTGGAACTAAAAAAAGATATATAAATTTAAGGAAGAAAAAAT
* * * *
9477859 GATTATCGACAAATGGCACCACCTTTTCCCAAAGAGGTTTCAATAATAGCGTAACACTCAACTAG
131 GATTATCGACAAATGGCACCACCTCTTACCAAAGAGGTTTCAATAATAGCGTAACGCCCAACTAG
* * *
9477924 AATCACGTAAACTTTTTTTGCCAACGTAAGAATATCTCACGTGCTTCGTGTGCAGAGACTATGAA
196 AATCACGTAAGCTTTTTTTTCCAACGTAAGAATATCTCACGTGCTTCGTGTGCAGAGACTATGAG
* * * * *
9477989 AACAAATAAATGACATCTTACTAGATTCACCAAAATCCATTGGGTGTTACATCAGTGACTGGTGA
261 AACAAATAAAGGACATCTTACTAGATTCACCAAACTCCATTGGGTGTTGCATCAATGACTGATGA
*
9478054 CATCTACAAAAAGTTCGTAATTAATAAAAT
326 CATCTACAAAAAGTTCGTAATTAATGAAAT
9478084 TCACAAAATG
Statistics
Matches: 998, Mismatches: 83, Indels: 33
0.90 0.07 0.03
Matches are distributed among these distances:
366 413 0.41
367 112 0.11
368 2 0.00
369 82 0.08
370 254 0.25
378 25 0.03
379 110 0.11
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (366 bp):
TGTATTTATGCATGTTTTGCTTTAGACTTTTATTATCTCTTGTTCGTACAGAATACACAAATTCC
AACTGTAACAACTTGCATTATTGTTGGAACTAAAAAAAGATATATAAATTTAAGGAAGAAAAAAT
GATTATCGACAAATGGCACCACCTCTTACCAAAGAGGTTTCAATAATAGCGTAACGCCCAACTAG
AATCACGTAAGCTTTTTTTTCCAACGTAAGAATATCTCACGTGCTTCGTGTGCAGAGACTATGAG
AACAAATAAAGGACATCTTACTAGATTCACCAAACTCCATTGGGTGTTGCATCAATGACTGATGA
CATCTACAAAAAGTTCGTAATTAATGAAATCCGTAAAAGGT
Found at i:9479237 original size:71 final size:71
Alignment explanation
Indices: 9479117--9479395 Score: 397
Period size: 71 Copynumber: 4.0 Consensus size: 71
9479107 TAGACCAAAG
* * * *
9479117 CACAAGATTATTTTCACTCTTTTATTTAAGTTGCTGCCCACGTGCATATACTTTTTTTAAGTTGA
1 CACAAGATTATTTTCACTCTTTTATTTAAGTTGCTACCCACGTACATATACTTTCTTCAAGTTGA
9479182 TTCTCA
66 TTCTCA
* *
9479188 CACTAGATTATTTTCACTTTTTTATTTAAGTTGCTACCCACGTACATATACTTTCTTCAAGTTGA
1 CACAAGATTATTTTCACTCTTTTATTTAAGTTGCTACCCACGTACATATACTTTCTTCAAGTTGA
9479253 TTCTCA
66 TTCTCA
* * * *
9479259 TACGAGATTATTTTCACTCTTTTATTTAAGTTGCTACCTACGTACATATACTTTCTTCAAATTGA
1 CACAAGATTATTTTCACTCTTTTATTTAAGTTGCTACCCACGTACATATACTTTCTTCAAGTTGA
9479324 TTCTCA
66 TTCTCA
* * * *
9479330 CACAAGATTATTTTTACTATTTTATTAAAGTTGCTACCCATGTAC----A-TTTCTTCAAGTTGA
1 CACAAGATTATTTTCACTCTTTTATTTAAGTTGCTACCCACGTACATATACTTTCTTCAAGTTGA
9479390 TTCTCA
66 TTCTCA
9479396 AACTTTAAAA
Statistics
Matches: 189, Mismatches: 19, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
66 19 0.10
67 1 0.01
71 169 0.89
ACGTcount: A:0.26, C:0.20, G:0.09, T:0.45
Consensus pattern (71 bp):
CACAAGATTATTTTCACTCTTTTATTTAAGTTGCTACCCACGTACATATACTTTCTTCAAGTTGA
TTCTCA
Found at i:9479610 original size:7 final size:7
Alignment explanation
Indices: 9479598--9479622 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9479588 TTGTCTTCAA
9479598 AATTTTG
1 AATTTTG
9479605 AATTTTG
1 AATTTTG
9479612 AATTTTG
1 AATTTTG
9479619 AATT
1 AATT
9479623 CAACATTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (7 bp):
AATTTTG
Found at i:9482447 original size:12 final size:12
Alignment explanation
Indices: 9482432--9482456 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9482422 AATCAAGGAG
9482432 AAAAAGAAAGAA
1 AAAAAGAAAGAA
9482444 AAAAAGAAAGAA
1 AAAAAGAAAGAA
9482456 A
1 A
9482457 TGTTTATCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAGAA
Found at i:9484116 original size:368 final size:365
Alignment explanation
Indices: 9483145--9484240 Score: 1689
Period size: 365 Copynumber: 3.0 Consensus size: 365
9483135 GATTATTCTA
* * * * *
9483145 TGTATTTATGAATGTGTTGCTTTGGACTTTTATTATCTCTTATTCGTACAAAATACATAAATTCC
1 TGTATTTATGCATGTTTTGCTTTGGACTTTTATTATCTCTTGTTCGTACAGAATACACAAATTCC
* *
9483210 AACTGTAACAGCCTGCATTATTGTTGGAACTAAAAAAAGATATATAAATTTAAGAAAGAAAAAAT
66 AACTGTAACAACCTGCATTATTGTTGGAACTAAAAAAAGATATATAAATTTAAGGAAGAAAAAAT
9483275 GATTATCGACAAATGGCACCACCTCTTACCAAAGAGGTTTCAATAATAGCGTAACGCCCAACTAG
131 GATTATCGACAAATGGCACCACCTCTTACCAAAGAGGTTTCAATAATAGCGTAACGCCCAACTAG
* * * *
9483340 AATCACGTAAGCTTTTT-TTTCAAACGTAAGAATATCTCACATGTTTTGTGTGCAGAGATTATGA
196 AATCACGTAAG-TTTTTATTTCCAACGTAAGAATATCTCACGTGCTTTGTGTGCAGAGACTATGA
* * * *
9483404 GAACAAATAAAGGACATCTTACTAGATTCGCCAAACTCCATTGGGTGTTGCATCAGTGACTGGTC
260 GAACAAATAAAGGACATCTTACTAGATTCACCAAACTCCATT-GGTGTTGCATTAGTGACTGATG
* *
9483469 ACACCTACAAAAAGTT-TGTAATTAATGAAATCAGCAAAAGGT
324 ACATCTACAAAAAGTTCT-TAATTAATGAAATCCGCAAAAGGT
* *
9483511 TGTATTTATGCATGTTTTGATTTGGACTTTTATTATCTCTTGTTCGCACAGAATACACAAATTCC
1 TGTATTTATGCATGTTTTGCTTTGGACTTTTATTATCTCTTGTTCGTACAGAATACACAAATTCC
*
9483576 AACTGTAACAACCTGCATTATTGTT-GAA-GATAAAAAAGATATATAAATTTAAGGAAGAAAAAA
66 AACTGTAACAACCTGCATTATTGTTGGAACTA-AAAAAAGATATATAAATTTAAGGAAGAAAAAA
* *
9483639 TGATTATCGACAAATGGCACCACCTATTACCAAAGAGGTTTCAATAATAGCGTAATGCCCAACTA
130 TGATTATCGACAAATGGCACCACCTCTTACCAAAGAGGTTTCAATAATAGCGTAACGCCCAACTA
* * ** * *
9483704 AAATCACATAAGCATTTATTTCCAACCTAATAATATCTCACGTGCTTTGTGTGCAGAGACTATGA
195 GAATCACGTAAGTTTTTATTTCCAACGTAAGAATATCTCACGTGCTTTGTGTGCAGAGACTATGA
* *
9483769 TAACAAATAAAGGACATCTTACTAGATTCACCAAACTCCATTAGGTGTTGTATTAGTGACTGATG
260 GAACAAATAAAGGACATCTTACTAGATTCACCAAACTCCATT-GGTGTTGCATTAGTGACTGATG
*
9483834 ACATCTACAAAAAATTCTTAATTAATGAAATCCGCAAAAGGT
324 ACATCTACAAAAAGTTCTTAATTAATGAAATCCGCAAAAGGT
* *
9483876 TGTATTTATATGCTTGTTTTGCTTTGGACTTTTATTATCTCTTGCTCGTACAGAATACACAAATT
1 TGTA-TT-TATGCATGTTTTGCTTTGGACTTTTATTATCTCTTGTTCGTACAGAATACACAAATT
*
9483941 CTAACTGTAACAACCTGCATTATTGTTGGAACTAAAAAAAGATATATAAATTTAAGGAAGAAAAA
64 CCAACTGTAACAACCTGCATTATTGTTGGAACTAAAAAAAGATATATAAATTTAAGGAAGAAAAA
* * *
9484006 ATGATTATTGACAAATGGCACCACCTCTT-CGCAAAGAGGTTTCAATAATAGTGTAACACCCAAC
129 ATGATTATCGACAAATGGCACCACCTCTTAC-CAAAGAGGTTTCAATAATAGCGTAACGCCCAAC
9484070 TAGAATCACGTAAGTTTTTATTTCCAACGTAAGAATATCTCACGTGCTTTTGTGTGCAGAGACTA
193 TAGAATCACGTAAGTTTTTATTTCCAACGTAAGAATATCTCACGTGC-TTTGTGTGCAGAGACTA
* * *
9484135 TGAGAACAAATAAAGAACATCTTACTAGATTCACCAAACTTCATTGGTGTTGCATTTGTGACTGA
257 TGAGAACAAATAAAGGACATCTTACTAGATTCACCAAACTCCATTGGTGTTGCATTAGTGACTGA
* * *
9484200 TGAGATCTACAAAAAGTTCGTAATTAATGAAATTCGCAAAA
322 TGACATCTACAAAAAGTTCTTAATTAATGAAATCCGCAAAA
9484241 TGTTATAAAA
Statistics
Matches: 663, Mismatches: 58, Indels: 16
0.90 0.08 0.02
Matches are distributed among these distances:
364 4 0.01
365 247 0.37
366 85 0.13
367 80 0.12
368 187 0.28
369 60 0.09
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (365 bp):
TGTATTTATGCATGTTTTGCTTTGGACTTTTATTATCTCTTGTTCGTACAGAATACACAAATTCC
AACTGTAACAACCTGCATTATTGTTGGAACTAAAAAAAGATATATAAATTTAAGGAAGAAAAAAT
GATTATCGACAAATGGCACCACCTCTTACCAAAGAGGTTTCAATAATAGCGTAACGCCCAACTAG
AATCACGTAAGTTTTTATTTCCAACGTAAGAATATCTCACGTGCTTTGTGTGCAGAGACTATGAG
AACAAATAAAGGACATCTTACTAGATTCACCAAACTCCATTGGTGTTGCATTAGTGACTGATGAC
ATCTACAAAAAGTTCTTAATTAATGAAATCCGCAAAAGGT
Found at i:9486768 original size:23 final size:23
Alignment explanation
Indices: 9486742--9486787 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
9486732 TTGAAGGACT
9486742 ACCATATATATATATGTATACAA
1 ACCATATATATATATGTATACAA
9486765 ACCATATATATATATGTATACAA
1 ACCATATATATATATGTATACAA
9486788 TGCATCTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.13, G:0.04, T:0.35
Consensus pattern (23 bp):
ACCATATATATATATGTATACAA
Found at i:9489702 original size:18 final size:18
Alignment explanation
Indices: 9489676--9489711 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
9489666 TATATTGCAT
9489676 GCAACTATGTATTAGGAA
1 GCAACTATGTATTAGGAA
* *
9489694 GCAAGTATGTTTTAGGAA
1 GCAACTATGTATTAGGAA
9489712 ACTACTAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.08, G:0.25, T:0.31
Consensus pattern (18 bp):
GCAACTATGTATTAGGAA
Found at i:9490631 original size:47 final size:47
Alignment explanation
Indices: 9490562--9490681 Score: 170
Period size: 47 Copynumber: 2.6 Consensus size: 47
9490552 ATATTCTAAG
* *
9490562 AAAACCTTAAAATGTTTCAAGACAAACAAAGAGATAGTAAATTATTA
1 AAAACCTCAAAATGTTTCAAGACAAACAAAGAGATAATAAATTATTA
* * *
9490609 AAAACCTCAAAATGTTTCAAGACAGATAAAGAGATAATAAATTATTT
1 AAAACCTCAAAATGTTTCAAGACAAACAAAGAGATAATAAATTATTA
* *
9490656 AAAACCTGAAAATATTTCAAGA-AAAC
1 AAAACCTCAAAATGTTTCAAGACAAAC
9490682 CTTAAAATGT
Statistics
Matches: 64, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
46 2 0.03
47 62 0.97
ACGTcount: A:0.53, C:0.12, G:0.10, T:0.25
Consensus pattern (47 bp):
AAAACCTCAAAATGTTTCAAGACAAACAAAGAGATAATAAATTATTA
Found at i:9490640 original size:115 final size:114
Alignment explanation
Indices: 9490484--9490770 Score: 405
Period size: 115 Copynumber: 2.5 Consensus size: 114
9490474 AACTTTAAAA
* * *
9490484 TAAATTATTAAAAACCTCATATTATTCCAAAACAACCAAAGAGATAATAAATTATTAAAAACCTC
1 TAAATTATTAAAAACCTCAAAATATTTCAAAACAA-CAAAGAGATAATAAATTATTAAAAACCTC
*
9490549 ACAATA-TTCTAAGAAAACCTTAAAATGTTTCAAGACAAACAAAGAGATAG
65 AAAATATTTC-AAGAAAACCTTAAAATGTTTCAAGACAAACAAAGAGATAG
* * * * *
9490599 TAAATTATTAAAAACCTCAAAATGTTTCAAGACAGATAAAGAGATAATAAATTATTTAAAACCTG
1 TAAATTATTAAAAACCTCAAAATATTTCAAAACA-ACAAAGAGATAATAAATTATTAAAAACCTC
* *
9490664 AAAATATTTCAAGAAAACCTTAAAATGTTTCAAGACAGACAAAGATATAG
65 AAAATATTTCAAGAAAACCTTAAAATGTTTCAAGACAAACAAAGAGATAG
* * *
9490714 TAAATTATTTAAAACCTCAAAATATTTCAAAACAAACAAAGAGATAGTAAAATATTA
1 TAAATTATTAAAAACCTCAAAATATTTCAAAAC-AACAAAGAGATAATAAATTATTA
9490771 TTCCAAGACA
Statistics
Matches: 151, Mismatches: 18, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
115 146 0.97
116 5 0.03
ACGTcount: A:0.53, C:0.13, G:0.08, T:0.26
Consensus pattern (114 bp):
TAAATTATTAAAAACCTCAAAATATTTCAAAACAACAAAGAGATAATAAATTATTAAAAACCTCA
AAATATTTCAAGAAAACCTTAAAATGTTTCAAGACAAACAAAGAGATAG
Found at i:9490680 original size:21 final size:21
Alignment explanation
Indices: 9490656--9490698 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
9490646 TAAATTATTT
9490656 AAAACCTGAAAATATTTCAAG
1 AAAACCTGAAAATATTTCAAG
* *
9490677 AAAACCTTAAAATGTTTCAAG
1 AAAACCTGAAAATATTTCAAG
9490698 A
1 A
9490699 CAGACAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.51, C:0.14, G:0.09, T:0.26
Consensus pattern (21 bp):
AAAACCTGAAAATATTTCAAG
Found at i:9490681 original size:68 final size:68
Alignment explanation
Indices: 9490609--9490743 Score: 225
Period size: 68 Copynumber: 2.0 Consensus size: 68
9490599 TAAATTATTA
* *
9490609 AAAACCTCAAAATGTTTCAAGACAGATAAAGAGATAATAAATTATTTAAAACCTGAAAATATTTC
1 AAAACCTCAAAATGTTTCAAGACAGACAAAGAGATAATAAATTATTTAAAACCTCAAAATATTTC
9490674 AAG
66 AAG
* * *
9490677 AAAACCTTAAAATGTTTCAAGACAGACAAAGATATAGTAAATTATTTAAAACCTCAAAATATTTC
1 AAAACCTCAAAATGTTTCAAGACAGACAAAGAGATAATAAATTATTTAAAACCTCAAAATATTTC
9490742 AA
66 AA
9490744 AACAAACAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 62 1.00
ACGTcount: A:0.51, C:0.13, G:0.09, T:0.27
Consensus pattern (68 bp):
AAAACCTCAAAATGTTTCAAGACAGACAAAGAGATAATAAATTATTTAAAACCTCAAAATATTTC
AAG
Found at i:9490742 original size:47 final size:47
Alignment explanation
Indices: 9490677--9490769 Score: 132
Period size: 47 Copynumber: 2.0 Consensus size: 47
9490667 ATATTTCAAG
* * * * * *
9490677 AAAACCTTAAAATGTTTCAAGACAGACAAAGATATAGTAAATTATTT
1 AAAACCTCAAAATATTTCAAAACAAACAAAGAGATAGTAAAATATTT
9490724 AAAACCTCAAAATATTTCAAAACAAACAAAGAGATAGTAAAATATT
1 AAAACCTCAAAATATTTCAAAACAAACAAAGAGATAGTAAAATATT
9490770 ATTCCAAGAC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.54, C:0.12, G:0.09, T:0.26
Consensus pattern (47 bp):
AAAACCTCAAAATATTTCAAAACAAACAAAGAGATAGTAAAATATTT
Found at i:9490794 original size:33 final size:33
Alignment explanation
Indices: 9490736--9490803 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 33
9490726 AACCTCAAAA
*
9490736 TATTTCAAAACAAACAAAGAGATAGTAAAATAT
1 TATTCCAAAACAAACAAAGAGATAGTAAAATAT
* * * *
9490769 TATTCCAAGACAACCAAAGATATAGTAAATTAT
1 TATTCCAAAACAAACAAAGAGATAGTAAAATAT
9490802 TA
1 TA
9490804 AAAACCTCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.53, C:0.12, G:0.09, T:0.26
Consensus pattern (33 bp):
TATTCCAAAACAAACAAAGAGATAGTAAAATAT
Found at i:9490833 original size:80 final size:80
Alignment explanation
Indices: 9490694--9490850 Score: 235
Period size: 80 Copynumber: 2.0 Consensus size: 80
9490684 TAAAATGTTT
* *
9490694 CAAGACAGACAAAGATATAGTAAATTATTTAAAACCTCAAAATATTTCAAAACAAACAAAGAGAT
1 CAAGACAGACAAAGATATAGTAAATTATTAAAAACCTCAAAATATTTCAAAACAAACAAAGACAT
9490759 AGTAAAATATTATTC
66 AGTAAAATATTATTC
* * * *
9490774 CAAGACA-ACCAAAGATATAGTAAATTATTAAAAACCTCAAAATGTTTCAAGAGAGACAAAGACA
1 CAAGACAGA-CAAAGATATAGTAAATTATTAAAAACCTCAAAATATTTCAAAACAAACAAAGACA
*
9490838 TAGTAAATTATTA
65 TAGTAAAATATTA
9490851 AAAAAAACCC
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
79 1 0.01
80 68 0.99
ACGTcount: A:0.53, C:0.13, G:0.10, T:0.24
Consensus pattern (80 bp):
CAAGACAGACAAAGATATAGTAAATTATTAAAAACCTCAAAATATTTCAAAACAAACAAAGACAT
AGTAAAATATTATTC
Found at i:9490867 original size:51 final size:47
Alignment explanation
Indices: 9490783--9490876 Score: 134
Period size: 47 Copynumber: 1.9 Consensus size: 47
9490773 CCAAGACAAC
* *
9490783 CAAAGATATAGTAAATTATTAAAAACCTCAAAATGTTTCAAGAGAGA
1 CAAAGACATAGTAAATTATTAAAAACCTCAAAATATTTCAAGAGAGA
9490830 CAAAGACATAGTAAATTATTAAAAAAAACCCTCAAAATATTTCAAGA
1 CAAAGACATAGTAAATTATT---AAAAA-CCTCAAAATATTTCAAGA
9490877 AAACCTTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
47 19 0.46
50 5 0.12
51 17 0.41
ACGTcount: A:0.53, C:0.13, G:0.10, T:0.24
Consensus pattern (47 bp):
CAAAGACATAGTAAATTATTAAAAACCTCAAAATATTTCAAGAGAGA
Found at i:9490923 original size:199 final size:195
Alignment explanation
Indices: 9490579--9490952 Score: 554
Period size: 199 Copynumber: 1.9 Consensus size: 195
9490569 TAAAATGTTT
* *
9490579 CAAGACAAACAAAGAGATAGTAAATTATTAAAAACCTCAAAATGTTTCAAGACAGATAAAGAGAT
1 CAAGACAAACAAAGAGATAGTAAATTATTAAAAACCTCAAAATGTTTCAAGACAGACAAAGACAT
* *
9490644 AATAAATTATTTAAAACCTGAAAATATTTCAAGAAAACCTTAAAATGTTTCAAGACAGACAAAGA
66 AATAAATTATTAAAAACCTCAAAATATTTCAAGAAAACCTTAAAATGTTTCAAGACAGACAAAGA
*
9490709 TATAGTAAATTATTTAAAACCTCAAAATATTTCAAAACAAACAAAGAGATAGTAAAATATTATTC
131 GATAGTAAATTATTTAAAACCTCAAAATATTTCAAAACAAACAAAGAGATAGTAAAATATTATTC
* * *
9490774 CAAGACAACCAAAGATATAGTAAATTATTAAAAACCTCAAAATGTTTCAAGAGAGACAAAGACAT
1 CAAGACAAACAAAGAGATAGTAAATTATTAAAAACCTCAAAATGTTTCAAGACAGACAAAGACAT
* *
9490839 AGTAAATTATTAAAAAAAACCCTCAAAATATTTCAAGAAAACCTTAAAATGTTTCGAA-CCTA-A
66 AATAAATTATT---AAAAA-CCTCAAAATATTTCAAGAAAACCTTAAAATGTTTC-AAGAC-AGA
* * * *
9490902 CAAAGAGATAGTAAATTATTTAAAATCTTAAAATGTTTCAAGACAAACAAA
125 CAAAGAGATAGTAAATTATTTAAAACCTCAAAATATTTCAAAACAAACAAA
9490953 TTAGAGAGAG
Statistics
Matches: 159, Mismatches: 14, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
195 70 0.44
198 4 0.03
199 82 0.52
200 3 0.02
ACGTcount: A:0.52, C:0.13, G:0.10, T:0.25
Consensus pattern (195 bp):
CAAGACAAACAAAGAGATAGTAAATTATTAAAAACCTCAAAATGTTTCAAGACAGACAAAGACAT
AATAAATTATTAAAAACCTCAAAATATTTCAAGAAAACCTTAAAATGTTTCAAGACAGACAAAGA
GATAGTAAATTATTTAAAACCTCAAAATATTTCAAAACAAACAAAGAGATAGTAAAATATTATTC
Found at i:9490982 original size:50 final size:49
Alignment explanation
Indices: 9490876--9491050 Score: 185
Period size: 53 Copynumber: 3.5 Consensus size: 49
9490866 ATATTTCAAG
* * *
9490876 AAAACCTTAAAATGTTTCGAA-CCTAAC-AA-AGAGATAGTAAATTATTT
1 AAAACCTTAAAATGTTTC-AAGACAAACAAATAGAGATAGTAAATTATTA
* *
9490923 AAAATCTTAAAATGTTTCAAGACAAACAAATTAGAGAGAGTAAATTATTA
1 AAAACCTTAAAATGTTTCAAGACAAACAAA-TAGAGATAGTAAATTATTA
* *
9490973 AAAACCTTAAAATGTCTCAAGACAATCAAAGAGATAGAGATAGTAAATTATTA
1 AAAACCTTAAAATGTTTCAAGACAA--ACA-A-ATAGAGATAGTAAATTATTA
* * *
9491026 AAAATCTTAGAATGTTTTAAGACAA
1 AAAACCTTAAAATGTTTCAAGACAA
9491051 TAAAGAGATA
Statistics
Matches: 107, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
46 2 0.02
47 21 0.20
48 2 0.02
50 39 0.36
52 2 0.02
53 40 0.37
54 1 0.01
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.28
Consensus pattern (49 bp):
AAAACCTTAAAATGTTTCAAGACAAACAAATAGAGATAGTAAATTATTA
Found at i:9491026 original size:53 final size:53
Alignment explanation
Indices: 9490905--9491060 Score: 212
Period size: 50 Copynumber: 3.0 Consensus size: 53
9490895 AACCTAACAA
* * *
9490905 AGAGATAGTAAATTATTTAAAATCTTAAAATGTTTCAAGACAAAC-AA-A-TT
1 AGAGATAGTAAATTATTAAAAATCTTAAAATGTTTCAAGACAATCAAAGAGAT
* * *
9490955 AGAGAGAGTAAATTATTAAAAACCTTAAAATGTCTCAAGACAATCAAAGAGAT
1 AGAGATAGTAAATTATTAAAAATCTTAAAATGTTTCAAGACAATCAAAGAGAT
* *
9491008 AGAGATAGTAAATTATTAAAAATCTTAGAATGTTTTAAGACAAT-AAAGAGAT
1 AGAGATAGTAAATTATTAAAAATCTTAAAATGTTTCAAGACAATCAAAGAGAT
9491060 A
1 A
9491061 ATAATTTATT
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
50 40 0.43
51 2 0.02
52 10 0.11
53 40 0.43
ACGTcount: A:0.51, C:0.08, G:0.13, T:0.28
Consensus pattern (53 bp):
AGAGATAGTAAATTATTAAAAATCTTAAAATGTTTCAAGACAATCAAAGAGAT
Found at i:9491618 original size:18 final size:17
Alignment explanation
Indices: 9491576--9491627 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
9491566 TTTTTATTAC
*
9491576 TTTTTTTAAATATTTTTA
1 TTTTTTTTAA-ATTTTTA
* *
9491594 TAATTTTTGAAATTTTTA
1 T-TTTTTTTAAATTTTTA
9491612 TTTTTTTATAAATTTT
1 TTTTTTT-TAAATTTT
9491628 ATAAAATTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 5 0.18
18 16 0.57
19 7 0.25
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (17 bp):
TTTTTTTTAAATTTTTA
Found at i:9491699 original size:17 final size:17
Alignment explanation
Indices: 9491658--9491700 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
9491648 TTTTTATTAA
*
9491658 ATAATTTCTAGTATTTTT
1 ATAATTT-TAGTATATTT
* *
9491676 ATTATTTTATTATATTT
1 ATAATTTTAGTATATTT
9491693 ATAATTTT
1 ATAATTTT
9491701 TTTTAAAAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (17 bp):
ATAATTTTAGTATATTT
Found at i:9502931 original size:131 final size:131
Alignment explanation
Indices: 9502697--9502962 Score: 523
Period size: 131 Copynumber: 2.0 Consensus size: 131
9502687 ATTATACAAC
9502697 TATAATTAAATAAAGCCCATCCTTTTAAGAGATTTTCAATATCCTTAAGTCATATTCTGCTGTAT
1 TATAATTAAATAAAGCCCATCCTTTTAAGAGATTTTCAATATCCTTAAGTCATATTCTGCTGTAT
9502762 GATATAAGCAAACCTTTGCAGGTTATGCTTATAATGGTTGATTGGGCATATTGGAAACTAATGTA
66 GATATAAGCAAACCTTTGCAGGTTATGCTTATAATGGTTGATTGGGCATATTGGAAACTAATGTA
9502827 A
131 A
*
9502828 TATAATTAAATAAAGTCCATCCTTTTAAGAGATTTTCAATATCCTTAAGTCATATTCTGCTGTAT
1 TATAATTAAATAAAGCCCATCCTTTTAAGAGATTTTCAATATCCTTAAGTCATATTCTGCTGTAT
9502893 GATATAAGCAAACCTTTGCAGGTTATGCTTATAATGGTTGATTGGGCATATTGGAAACTAATGTA
66 GATATAAGCAAACCTTTGCAGGTTATGCTTATAATGGTTGATTGGGCATATTGGAAACTAATGTA
9502958 A
131 A
9502959 TATA
1 TATA
9502963 CCTCTTTCTT
Statistics
Matches: 134, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
131 134 1.00
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (131 bp):
TATAATTAAATAAAGCCCATCCTTTTAAGAGATTTTCAATATCCTTAAGTCATATTCTGCTGTAT
GATATAAGCAAACCTTTGCAGGTTATGCTTATAATGGTTGATTGGGCATATTGGAAACTAATGTA
A
Found at i:9503937 original size:23 final size:23
Alignment explanation
Indices: 9503907--9503952 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
9503897 CAAGCTTGAG
9503907 TACAAAATGTAGACCTAACAAAA
1 TACAAAATGTAGACCTAACAAAA
9503930 TACAAAATGTAGACCTAACAAAA
1 TACAAAATGTAGACCTAACAAAA
9503953 CTTGAACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.57, C:0.17, G:0.09, T:0.17
Consensus pattern (23 bp):
TACAAAATGTAGACCTAACAAAA
Found at i:9509217 original size:32 final size:33
Alignment explanation
Indices: 9509181--9509243 Score: 76
Period size: 32 Copynumber: 1.9 Consensus size: 33
9509171 AAAAAATAAA
*
9509181 AAAATGTA-AAAAAAAGTTAAATCTA-AAAAAGT
1 AAAAT-TATAAAAAAAGTTAAAACTATAAAAAGT
* *
9509213 AAAATTATAAAAATATTTAAAACTATAAAAA
1 AAAATTATAAAAAAAGTTAAAACTATAAAAA
9509244 TTTAAAAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
31 2 0.08
32 19 0.73
33 5 0.19
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.25
Consensus pattern (33 bp):
AAAATTATAAAAAAAGTTAAAACTATAAAAAGT
Found at i:9509250 original size:16 final size:16
Alignment explanation
Indices: 9509191--9509250 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 16
9509181 AAAATGTAAA
* *
9509191 AAAAAGTTAAATCTA-
1 AAAAATTTAAAACTAT
* *
9509206 AAAAA-GTAAAATTAT
1 AAAAATTTAAAACTAT
9509221 AAAAATATTTAAAACTAT
1 -AAAA-ATTTAAAACTAT
9509239 AAAAATTTAAAA
1 AAAAATTTAAAA
9509251 GAAATAAAGA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
14 6 0.17
15 5 0.14
16 12 0.33
17 5 0.14
18 8 0.22
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.28
Consensus pattern (16 bp):
AAAAATTTAAAACTAT
Found at i:9530341 original size:13 final size:13
Alignment explanation
Indices: 9530323--9530348 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9530313 ATTATATGAA
9530323 ATTAATATTACTT
1 ATTAATATTACTT
9530336 ATTAATATTACTT
1 ATTAATATTACTT
9530349 TTTACTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTAATATTACTT
Found at i:9536743 original size:30 final size:30
Alignment explanation
Indices: 9536695--9536763 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
9536685 CTTACAAGGA
* * * * *
9536695 CGTTCAGGAACTTGAGAAGGCCCGATTTCT
1 CGTTCAAGAACTTCAGAAGACCCAATATCT
* *
9536725 CGTTCAAGAGCTTCAGAAGACTCAATATCT
1 CGTTCAAGAACTTCAGAAGACCCAATATCT
9536755 CGTTCAAGA
1 CGTTCAAGA
9536764 TCTTGGGATT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (30 bp):
CGTTCAAGAACTTCAGAAGACCCAATATCT
Found at i:9540441 original size:19 final size:20
Alignment explanation
Indices: 9540401--9540444 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
9540391 GTTTCTTTTG
* *
9540401 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
9540420 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
9540439 GCATTA
1 GCATTA
9540445 GACTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:9544701 original size:86 final size:86
Alignment explanation
Indices: 9544556--9544905 Score: 556
Period size: 86 Copynumber: 4.1 Consensus size: 86
9544546 AGTAAAAATT
* * * * * * *
9544556 GAAGATAAACCTTGCCTCTCTCGGTCGTAGCAGAGCTGGTTGAAGTTATCAGATCTTGCCTTTCT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGCAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
9544621 GCATTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
*
9544642 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGCAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
9544707 GCATTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
*
9544728 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGCAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
*
9544793 GCACTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
* * *
9544814 GAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCTTTCCT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGCAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
* *
9544879 GTATTTGGCAGCGAAGCAGATC
66 GCA-TTGACAGCGAAGCAGATC
9544901 GAAGA
1 GAAGA
9544906 TGGCAGATTT
Statistics
Matches: 247, Mismatches: 16, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
86 226 0.91
87 21 0.09
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.27
Consensus pattern (86 bp):
GAAGACAAACCTTGCCACTCTCGTTTGTAGCAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
GCATTGACAGCGAAGCAGATC
Found at i:9544743 original size:42 final size:42
Alignment explanation
Indices: 9544610--9544830 Score: 98
Period size: 42 Copynumber: 5.2 Consensus size: 42
9544600 GTTATCAGAT
*
9544610 CTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
* * * * * * * * *
9544652 CTTGCC-ACTCT-CGTTTG-TAG-TAGAGCTGGTTGAAGATAGCAGAT
1 CTTGCCTTC-CTGC-ATTGACAGCGA-AGCAGATCGAAG--A-CAAAC
9544696 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
* * * * * * * * *
9544738 CTTGCC-ACTCT-CGTTTG-TAG-TAGAGCTGGTTGAAGATAGCAGAT
1 CTTGCCTTC-CTGC-ATTGACAGCGA-AGCAGATCGAAG--A-CAAAC
*
9544782 CTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
9544824 CTTGCCT
1 CTTGCCT
9544831 CTCTCGTTTG
Statistics
Matches: 121, Mismatches: 38, Indels: 40
0.61 0.19 0.20
Matches are distributed among these distances:
40 2 0.02
41 25 0.21
42 35 0.29
43 4 0.03
44 27 0.22
45 26 0.21
46 2 0.02
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.25
Consensus pattern (42 bp):
CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
Found at i:9544990 original size:45 final size:45
Alignment explanation
Indices: 9544931--9545124 Score: 108
Period size: 45 Copynumber: 4.3 Consensus size: 45
9544921 CCCTGACAAT
* * *
9544931 AGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGC
1 AGTGGAATAGATTGAAGCCGATAACTCTACCTCCCTGTATCTGGC
** * * * * *
9544976 AGTGGAATAGATTGAAGATTGCAGATCT-TGCCTTCCTGTATTTGGC
1 AGTGGAATAGATTGAAG-CCG-ATAACTCTACCTCCCTGTATCTGGC
* * * ** ** * * *
9545022 AG-CGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGA-CT-AC
1 AGTGGAA-TAGATTGAAGCCGATA-ACTCTACCTCCCTGT-ATCTGGC
* * *
9545067 AGTGGAGTAGATTGAAGCCGATAACTCTATCTCCCTGTATTTGGC
1 AGTGGAATAGATTGAAGCCGATAACTCTACCTCCCTGTATCTGGC
9545112 AGTGGAATAGATT
1 AGTGGAATAGATT
9545125 AAAGATTGCA
Statistics
Matches: 104, Mismatches: 36, Indels: 18
0.66 0.23 0.11
Matches are distributed among these distances:
43 1 0.01
44 14 0.13
45 47 0.45
46 37 0.36
47 5 0.05
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (45 bp):
AGTGGAATAGATTGAAGCCGATAACTCTACCTCCCTGTATCTGGC
Found at i:9545023 original size:46 final size:46
Alignment explanation
Indices: 9544961--9545140 Score: 145
Period size: 46 Copynumber: 4.0 Consensus size: 46
9544951 ATAACTCTAT
*
9544961 CTCCCTGTATCTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
1 CTCCCTGTATCTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
* * * * * * *
9545007 CTTCCTGTATTTGGCAG-CGAAGCAGATCGAAGATGGCAGATTTTAC
1 CTCCCTGTATCTGGCAGTGGAA-TAGATTGAAGATTGCAGATCTTAC
* * ** * * *
9545053 CTCCCTGTGA-CT-ACAGTGGAGTAGATTGAAG-CCG-ATAACTCTAT
1 CTCCCTGT-ATCTGGCAGTGGAATAGATTGAAGATTGCAGATCT-TAC
* *
9545097 CTCCCTGTATTTGGCAGTGGAATAGATTAAAGATTGCAGATCTT
1 CTCCCTGTATCTGGCAGTGGAATAGATTGAAGATTGCAGATCTT
9545141 GTCTTCCCAT
Statistics
Matches: 97, Mismatches: 29, Indels: 16
0.68 0.20 0.11
Matches are distributed among these distances:
43 4 0.04
44 12 0.12
45 30 0.31
46 46 0.47
47 5 0.05
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.30
Consensus pattern (46 bp):
CTCCCTGTATCTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
Found at i:9545131 original size:136 final size:134
Alignment explanation
Indices: 9544863--9545147 Score: 489
Period size: 136 Copynumber: 2.1 Consensus size: 134
9544853 TTGAAGATAT
*
9544863 CAGATCTTGCTTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAC
1 CAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAC
* *
9544928 AATAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATAGATTGAAG
66 AACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATAGATTAAAG
9544993 ATTG
131 ATTG
9544997 CAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTG
1 CAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCC--TG
* * *
9545062 ACTACAGTGGAGTAGATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTAA
64 ACAACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATAGATTAA
9545127 AGATTG
129 AGATTG
*
9545133 CAGATCTTGTCTTCC
1 CAGATCTTGCCTTCC
9545148 CATATTGGTG
Statistics
Matches: 142, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
134 60 0.42
136 82 0.58
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.30
Consensus pattern (134 bp):
CAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAC
AACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATAGATTAAAG
ATTG
Found at i:9545607 original size:177 final size:177
Alignment explanation
Indices: 9545132--9545996 Score: 1509
Period size: 177 Copynumber: 4.9 Consensus size: 177
9545122 ATTAAAGATT
* *
9545132 GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGTAGAAAGCAGATCTTATCTTCATGTA
1 GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTA
9545197 TTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAG
66 TTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAG
*
9545262 ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGGTCGAAGAAA
131 ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAA
9545309 GCAGATCTTGTCTT-CCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTA
1 GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTA
*
9545373 TTGGCGTGAAGTAGATTGAAGATATCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAG
66 TTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAG
*
9545438 ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGAAGATCGAAGAAA
131 ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAA
9545485 GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTA
1 GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTA
9545550 TTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAG
66 TTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAG
*
9545615 ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGGTCGAAGAAA
131 ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAA
9545662 GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTA
1 GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTA
*
9545727 TTGGCGTGAAGTAGATCAAAGATATCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAG
66 TTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAG
9545792 ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAA
131 ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAA
* *
9545839 GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCAGGCA
1 GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTA
* * * * * * * * *
9545904 TTAGCGTGAAGTAGATCGAAGAT-GCCGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
66 TTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAA
* * *
9545968 GATAGCAGATCATGCCTTCCTATATTGGT
130 GAT-GCAGATCTTGTCTTCCCATATTGGT
9545997 AGGAAGTGGA
Statistics
Matches: 660, Mismatches: 25, Indels: 5
0.96 0.04 0.01
Matches are distributed among these distances:
176 191 0.29
177 447 0.68
178 22 0.03
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (177 bp):
GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTA
TTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAG
ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAA
Found at i:9546003 original size:44 final size:45
Alignment explanation
Indices: 9545126--9545996 Score: 980
Period size: 44 Copynumber: 19.7 Consensus size: 45
9545116 GAATAGATTA
*
9545126 AAGATTGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
* * * *** * *
9545171 TAGAAAGCAGATCTTATCTTCATGTATTGG-CGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
* * * * * *
9545215 AAGATATCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCG
1 AAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
*
9545259 AAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGGTCG
1 AAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
*
9545303 AAGAAAGCAGATCTTGTCTT-CCATATTGGTGGCGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
* *** * * *
9545347 AAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATTG
1 AAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
* * * * * *
9545391 AAGATATCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCG
1 AAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
*
9545435 AAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGAAGATCG
1 AAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
*
9545479 AAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
* *** * *
9545524 AAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
* * * * * *
9545568 AAGATATCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCG
1 AAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
*
9545612 AAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGGTCG
1 AAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
*
9545656 AAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
* *** * * *
9545701 AAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCA
1 AAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
* * * * * *
9545745 AAGATATCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCG
1 AAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
9545789 AAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
*
9545833 AAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
* **** * * *
9545878 AAGAAAGCAGATCTTGTCTTCAGGCATTAG-CGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
* *
9545922 AAGAT-GCCGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
* * *
9545966 AAGATAGCAGATCATGCCTTCCTATATTGGT
1 AAGATAGCAGATCTTGTCTTCCCATATTGGT
9545997 AGGAAGTGGA
Statistics
Matches: 695, Mismatches: 116, Indels: 30
0.83 0.14 0.04
Matches are distributed among these distances:
43 105 0.15
44 329 0.47
45 261 0.38
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (45 bp):
AAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
Found at i:9556031 original size:31 final size:31
Alignment explanation
Indices: 9555996--9556055 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
9555986 ATTACAAAAT
*
9555996 AGTTACTGGACTATTCAAAAATTTGTATTTA
1 AGTTACTGAACTATTCAAAAATTTGTATTTA
* * *
9556027 AGTTACTGAATTATTCAAAAGTTTTTATT
1 AGTTACTGAACTATTCAAAAATTTGTATT
9556056 GAAATCACTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.45
Consensus pattern (31 bp):
AGTTACTGAACTATTCAAAAATTTGTATTTA
Found at i:9566184 original size:16 final size:15
Alignment explanation
Indices: 9566151--9566195 Score: 56
Period size: 14 Copynumber: 2.9 Consensus size: 15
9566141 TATCATTACT
*
9566151 AATTTAAAATTTTATA
1 AATTTAAAAATTT-TA
9566167 AATTATAAAAATTTTA
1 AATT-TAAAAATTTTA
9566183 AA-TTAAAAATTTT
1 AATTTAAAAATTTT
9566196 CTATTTTAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 10 0.37
15 1 0.04
16 8 0.30
17 8 0.30
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AATTTAAAAATTTTA
Found at i:9566856 original size:14 final size:14
Alignment explanation
Indices: 9566837--9566866 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
9566827 CCTCAAAAAA
9566837 AACTTGAGAAACTC
1 AACTTGAGAAACTC
9566851 AACTTGAGAAACTC
1 AACTTGAGAAACTC
9566865 AA
1 AA
9566867 AAAACTAGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.47, C:0.20, G:0.13, T:0.20
Consensus pattern (14 bp):
AACTTGAGAAACTC
Found at i:9576355 original size:27 final size:26
Alignment explanation
Indices: 9576325--9576410 Score: 77
Period size: 29 Copynumber: 3.1 Consensus size: 26
9576315 GTGTTGGTGT
9576325 TATTTTTTAGATTTTAAAATATTTATA
1 TATTTTTTA-ATTTTAAAATATTTATA
9576352 TATTTTATTTAATATTTAATAA-ATTTATA
1 TA-TTT-TTTAAT-TTTAA-AATATTTATA
* *
9576381 TAGTTTTTAATTTATTAAGAT-TTTATA
1 TATTTTTTAA-TT-TTAAAATATTTATA
9576408 TAT
1 TAT
9576411 AAGTATCTTG
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
27 17 0.35
28 12 0.24
29 18 0.37
30 2 0.04
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.59
Consensus pattern (26 bp):
TATTTTTTAATTTTAAAATATTTATA
Found at i:9576378 original size:20 final size:20
Alignment explanation
Indices: 9576342--9576379 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9576332 TAGATTTTAA
*
9576342 AATATTTATATATTTTATTT
1 AATATTTATATAATTTATTT
9576362 AATATTTA-ATAAATTTAT
1 AATATTTATAT-AATTTAT
9576380 ATAGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.12
20 14 0.88
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
AATATTTATATAATTTATTT
Found at i:9577510 original size:23 final size:23
Alignment explanation
Indices: 9577484--9577527 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
9577474 ACGAAAATGA
*
9577484 TAAAATAAAAAATATTTAAAATT
1 TAAAATAAAAAATACTTAAAATT
**
9577507 TAAAATTTAAAATACTTAAAA
1 TAAAATAAAAAATACTTAAAA
9577528 AATATAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (23 bp):
TAAAATAAAAAATACTTAAAATT
Found at i:9577952 original size:10 final size:11
Alignment explanation
Indices: 9577936--9577972 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 11
9577926 AAAGAGTTTT
9577936 TATTTTTTAAA
1 TATTTTTTAAA
9577947 -A-TTTTTAAA
1 TATTTTTTAAA
9577956 TATATTTTTAAA
1 TAT-TTTTTAAA
9577968 TATTT
1 TATTT
9577973 ATGTTCTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
9 8 0.35
10 2 0.09
11 2 0.09
12 11 0.48
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TATTTTTTAAA
Found at i:9581126 original size:21 final size:21
Alignment explanation
Indices: 9581102--9581144 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
9581092 TGTTGTTATC
9581102 TTTATCACCTTTTTAATATTA
1 TTTATCACCTTTTTAATATTA
9581123 TTTATCACCTTTTTAATATTA
1 TTTATCACCTTTTTAATATTA
9581144 T
1 T
9581145 ATGGTTTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.14, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTATCACCTTTTTAATATTA
Found at i:9605038 original size:16 final size:17
Alignment explanation
Indices: 9605017--9605049 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9605007 CTTTTTTTAA
9605017 TTGTAT-TTTTAAATTG
1 TTGTATATTTTAAATTG
*
9605033 TTGTATATTTTAGATTG
1 TTGTATATTTTAAATTG
9605050 GTTTAGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.24, C:0.00, G:0.15, T:0.61
Consensus pattern (17 bp):
TTGTATATTTTAAATTG
Found at i:9605363 original size:30 final size:30
Alignment explanation
Indices: 9605321--9605377 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
9605311 TTAATAGTTT
9605321 TTTATAAAAATTAAATCAAATCAAAATTTAA
1 TTTATAAAAATTAAAT-AAATCAAAATTTAA
* *
9605352 TTTAT-AAAATTACATAAATTAAAATT
1 TTTATAAAAATTAAATAAATCAAAATT
9605378 CATGCATCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 10 0.42
30 9 0.38
31 5 0.21
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (30 bp):
TTTATAAAAATTAAATAAATCAAAATTTAA
Found at i:9607359 original size:18 final size:17
Alignment explanation
Indices: 9607313--9607364 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
9607303 ATTATTTTAA
9607313 ATTTAAAATCATTAAAATT
1 ATTTAAAA--ATTAAAATT
9607332 ATTTAAAAATATAAAATT
1 ATTTAAAAAT-TAAAATT
**
9607350 ATTTTTAAATTAAAA
1 ATTTAAAAATTAAAA
9607365 AATAATTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 7 0.23
18 15 0.50
19 8 0.27
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTTAAAAATTAAAATT
Found at i:9608362 original size:3 final size:3
Alignment explanation
Indices: 9608354--9608405 Score: 54
Period size: 3 Copynumber: 17.0 Consensus size: 3
9608344 TGTTTATTTA
*
9608354 TAT TAT TAT TACT GTAT TAT TAT TAG T-T TAT TAT TA- TAT TAT ATAT
1 TAT TAT TAT TA-T -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
9608400 TAT TAT
1 TAT TAT
9608406 ACTTACTTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
2 3 0.07
3 32 0.76
4 5 0.12
5 2 0.05
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:9608373 original size:14 final size:14
Alignment explanation
Indices: 9608354--9608390 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
9608344 TGTTTATTTA
9608354 TATTATTATTACTG
1 TATTATTATTACTG
* *
9608368 TATTATTATTAGTT
1 TATTATTATTACTG
9608382 TATTATTAT
1 TATTATTAT
9608391 ATTATATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (14 bp):
TATTATTATTACTG
Found at i:9608376 original size:22 final size:22
Alignment explanation
Indices: 9608326--9608405 Score: 76
Period size: 22 Copynumber: 3.7 Consensus size: 22
9608316 TTTTAGTTTT
* *
9608326 TTATTATATTGTTAATACTGT-
1 TTATTATATTATTATTACTGTA
9608347 TTATTTATATTATTATTACTGTA
1 TTA-TTATATTATTATTACTGTA
* * *
9608370 TTATTATTAGT-TTATTATTATA
1 TTATTA-TATTATTATTACTGTA
9608392 TTA-TATATTATTAT
1 TTATTATATTATTAT
9608406 ACTTACTTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
20 3 0.06
21 9 0.18
22 31 0.63
23 6 0.12
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.61
Consensus pattern (22 bp):
TTATTATATTATTATTACTGTA
Found at i:9608384 original size:11 final size:13
Alignment explanation
Indices: 9608354--9608401 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 13
9608344 TGTTTATTTA
9608354 TATTATTATTACTG
1 TATTATTATTAC-G
9608368 TATTATTATTA-G
1 TATTATTATTACG
9608380 T-TTATTATTA--
1 TATTATTATTACG
9608390 TATTATATATTA
1 TATTAT-TATTA
9608402 TTATACTTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
10 1 0.03
11 13 0.41
12 7 0.22
14 11 0.34
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (13 bp):
TATTATTATTACG
Found at i:9608393 original size:8 final size:8
Alignment explanation
Indices: 9608351--9608417 Score: 57
Period size: 8 Copynumber: 7.8 Consensus size: 8
9608341 TACTGTTTAT
9608351 TTATATTA
1 TTATATTA
9608359 TTATTACTGTA
1 TTA-TA-T-TA
9608370 TTATTATTA
1 TTA-TATTA
9608379 GTT-TATTA
1 -TTATATTA
9608387 TTATATTA
1 TTATATTA
9608395 -TATATTA
1 TTATATTA
9608402 TTATACTTA
1 TTATA-TTA
9608411 CTTATAT
1 -TTATAT
9608418 ATGCGTATAT
Statistics
Matches: 51, Mismatches: 0, Indels: 15
0.77 0.00 0.23
Matches are distributed among these distances:
7 9 0.18
8 17 0.33
9 8 0.16
10 9 0.18
11 8 0.16
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (8 bp):
TTATATTA
Found at i:9613872 original size:3 final size:3
Alignment explanation
Indices: 9613864--9613891 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
9613854 AAACCAGTTG
9613864 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
9613892 AGTTAACTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:9623819 original size:37 final size:39
Alignment explanation
Indices: 9623778--9623850 Score: 96
Period size: 37 Copynumber: 1.9 Consensus size: 39
9623768 TATTGATGAG
* *
9623778 TATTTTATATAATCAATT-A-ATATTTTATATTTGAAAT
1 TATTTAATATAATCAATTGATATATTTAATATTTGAAAT
* *
9623815 TATTTAATCTAATCATTTGATATATTTAATATTTGA
1 TATTTAATATAATCAATTGATATATTTAATATTTGA
9623851 TATATTAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 15 0.50
38 1 0.03
39 14 0.47
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.53
Consensus pattern (39 bp):
TATTTAATATAATCAATTGATATATTTAATATTTGAAAT
Found at i:9623850 original size:16 final size:16
Alignment explanation
Indices: 9623824--9623864 Score: 64
Period size: 16 Copynumber: 2.5 Consensus size: 16
9623814 TTATTTAATC
9623824 TAATCATTTGATATATT
1 TAAT-ATTTGATATATT
9623841 TAATATTTGATATATT
1 TAATATTTGATATATT
*
9623857 AAATATTT
1 TAATATTT
9623865 TTCAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 19 0.83
17 4 0.17
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (16 bp):
TAATATTTGATATATT
Found at i:9626999 original size:37 final size:37
Alignment explanation
Indices: 9626958--9627030 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
9626948 CATTTAAACT
9626958 TAGAATTTGAAAATGCTAATTAAATATAATTTTTGTG
1 TAGAATTTGAAAATGCTAATTAAATATAATTTTTGTG
9626995 TAGAATTTGAAAATGCTAATTAAATATAATTTTTGT
1 TAGAATTTGAAAATGCTAATTAAATATAATTTTTGT
9627031 ATTAGATGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.44
Consensus pattern (37 bp):
TAGAATTTGAAAATGCTAATTAAATATAATTTTTGTG
Found at i:9628341 original size:58 final size:58
Alignment explanation
Indices: 9628269--9628494 Score: 372
Period size: 58 Copynumber: 4.0 Consensus size: 58
9628259 TTATGCATAA
*
9628269 CTTCTCTTAGAACTTTACTTATGGGTAATATGATTGTAACTCAAGTTAGAATGTTATC
1 CTTCTCTTAGAACTTTACTTATGGGTAATATGATTGTAACTCAAGTTGGAATGTTATC
* *
9628327 CTTCTCTTACAACTTTACTTATGTGTAATATGATTGTAACTCAAGTTGGAATGTTATC
1 CTTCTCTTAGAACTTTACTTATGGGTAATATGATTGTAACTCAAGTTGGAATGTTATC
9628385 CTTCTCTTAGAACTTTACTTATGGGTAATATGATTGTAACTCAAGTTGGAATGTTAT-
1 CTTCTCTTAGAACTTTACTTATGGGTAATATGATTGTAACTCAAGTTGGAATGTTATC
*
9628442 C--CTCTTAGAACTTTATTTATGGGTAATA--ATATGTAACTCAAGTTGGAATGTTA
1 CTTCTCTTAGAACTTTACTTATGGGTAATATGAT-TGTAACTCAAGTTGGAATGTTA
9628495 CCAGCCAGTG
Statistics
Matches: 161, Mismatches: 6, Indels: 6
0.93 0.03 0.03
Matches are distributed among these distances:
53 2 0.01
54 22 0.14
55 26 0.16
57 1 0.01
58 110 0.68
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (58 bp):
CTTCTCTTAGAACTTTACTTATGGGTAATATGATTGTAACTCAAGTTGGAATGTTATC
Found at i:9651932 original size:82 final size:82
Alignment explanation
Indices: 9651823--9651973 Score: 205
Period size: 82 Copynumber: 1.8 Consensus size: 82
9651813 TTTAACATTT
* *
9651823 TATAAAAGTAGCTAAATTTCAAATTTGGTTC-TTCTAACATGCTTAAAATTGATATTTAATCTTT
1 TATAAAAGTAGCTAAATTTCAAATTTGG-TCATTCTAACATGCTTAAAATTGAGATTTAATCATT
9651887 ATACTTCAATTTCTAACA
65 ATACTTCAATTTCTAACA
* * * ** * *
9651905 TATAAAAGTAGTTAATTTTTAGTTTTGGTCATTTTAATATGCTTAAAATTGAGATTTAATCATTA
1 TATAAAAGTAGCTAAATTTCAAATTTGGTCATTCTAACATGCTTAAAATTGAGATTTAATCATTA
9651970 TACT
66 TACT
9651974 CTGATTTCTA
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
81 2 0.03
82 57 0.97
ACGTcount: A:0.36, C:0.10, G:0.09, T:0.45
Consensus pattern (82 bp):
TATAAAAGTAGCTAAATTTCAAATTTGGTCATTCTAACATGCTTAAAATTGAGATTTAATCATTA
TACTTCAATTTCTAACA
Found at i:9652556 original size:22 final size:20
Alignment explanation
Indices: 9652514--9652556 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
9652504 TTAACTATGT
*
9652514 TATTTAATAATTTAAATATG
1 TATTTAATAATTTAAACATG
*
9652534 TATTTACTATATTATAAACATG
1 TATTTAATA-ATT-TAAACATG
9652556 T
1 T
9652557 TATAATTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 8 0.42
21 3 0.16
22 8 0.42
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.49
Consensus pattern (20 bp):
TATTTAATAATTTAAACATG
Found at i:9652723 original size:6 final size:6
Alignment explanation
Indices: 9652712--9652741 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
9652702 TTTAAACAGT
*
9652712 TTTTAA TTTTAA TTTTAA TTTTAA TCTTAA
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA
9652742 CTGTTATGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (6 bp):
TTTTAA
Found at i:9663802 original size:20 final size:20
Alignment explanation
Indices: 9663779--9663816 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9663769 AATTTTTCAA
9663779 AAAT-TTTAACAATTTTAACT
1 AAATCTTTAA-AATTTTAACT
*
9663799 AAATCTTTTAAATTTTAA
1 AAATCTTTAAAATTTTAA
9663817 AAATTTCTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (20 bp):
AAATCTTTAAAATTTTAACT
Found at i:9665499 original size:13 final size:14
Alignment explanation
Indices: 9665480--9665516 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
9665470 TTCGCGTCTA
9665480 AGTTTAATTTTAAT
1 AGTTTAATTTTAAT
9665494 -GTTTAA-TTTAAT
1 AGTTTAATTTTAAT
*
9665506 ATTTTAATTTT
1 AGTTTAATTTT
9665517 TTTAAAACCC
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
12 6 0.30
13 11 0.55
14 3 0.15
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (14 bp):
AGTTTAATTTTAAT
Found at i:9665684 original size:26 final size:25
Alignment explanation
Indices: 9665613--9665692 Score: 74
Period size: 26 Copynumber: 3.2 Consensus size: 25
9665603 TTAATTTAAG
*
9665613 TATTAAATTAAACATTAAAACTATA
1 TATTAAATTAAATATTAAAACTATA
* **
9665638 T-TTAAGTACTAAATAAAAAAACTCATA
1 TATTAA--ATTAAATATTAAAACT-ATA
*
9665665 TATTAAATTAAATATTAAAATTAT-
1 TATTAAATTAAATATTAAAACTATA
9665689 TATT
1 TATT
9665693 TTTTATTCAG
Statistics
Matches: 43, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
24 8 0.19
25 3 0.07
26 24 0.56
27 4 0.09
28 4 0.09
ACGTcount: A:0.54, C:0.06, G:0.01, T:0.39
Consensus pattern (25 bp):
TATTAAATTAAATATTAAAACTATA
Found at i:9666578 original size:26 final size:25
Alignment explanation
Indices: 9666549--9666633 Score: 75
Period size: 26 Copynumber: 3.3 Consensus size: 25
9666539 TTTATGAAAG
9666549 TATTATTCAACAATTGAAGTTAAATT
1 TATTATTCAA-AATTGAAGTTAAATT
** **
9666575 TATTATT--AAATATGTATTTATAAAAG
1 TATTATTCAAAAT-TG-AAGT-TAAATT
9666601 TATTATTCAATAATTGAAGTTAAATT
1 TATTATTCAA-AATTGAAGTTAAATT
9666627 TATTATT
1 TATTATT
9666634 TTGCTTTTAT
Statistics
Matches: 45, Mismatches: 8, Indels: 12
0.69 0.12 0.18
Matches are distributed among these distances:
23 3 0.07
24 3 0.07
25 2 0.04
26 29 0.64
27 2 0.04
28 3 0.07
29 3 0.07
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (25 bp):
TATTATTCAAAATTGAAGTTAAATT
Found at i:9666645 original size:52 final size:52
Alignment explanation
Indices: 9666526--9666633 Score: 198
Period size: 52 Copynumber: 2.1 Consensus size: 52
9666516 AAAAGAAAAA
*
9666526 TATTAAATATGTATTTATGAAAGTATTATTCAACAATTGAAGTTAAATTTAT
1 TATTAAATATGTATTTATAAAAGTATTATTCAACAATTGAAGTTAAATTTAT
*
9666578 TATTAAATATGTATTTATAAAAGTATTATTCAATAATTGAAGTTAAATTTAT
1 TATTAAATATGTATTTATAAAAGTATTATTCAACAATTGAAGTTAAATTTAT
9666630 TATT
1 TATT
9666634 TTGCTTTTAT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (52 bp):
TATTAAATATGTATTTATAAAAGTATTATTCAACAATTGAAGTTAAATTTAT
Found at i:9669123 original size:45 final size:46
Alignment explanation
Indices: 9669045--9669247 Score: 243
Period size: 45 Copynumber: 4.4 Consensus size: 46
9669035 TAATCAGTAA
* * * *
9669045 CGGTAGCAGTAACAGTAACAGTATTCAATACACAATGTGAT-GAAT
1 CGGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGATCGAAT
* * *
9669090 CTGTAACAGTAACGGTAACAGTATTTGACACACAAAGT-ATCGAAT
1 CGGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGATCGAAT
9669135 CGGTAACAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTG-TCGAAT
1 C-G-----GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGATCGAAT
* *
9669186 CGGTAACAGTAACGGTAACAGTATTCGACACACAAAGTG-CCGAAT
1 CGGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGATCGAAT
9669231 CGGTAACAGTAACAGTA
1 CGGTAACAGTAACAGTA
9669248 GTCGGCACAT
Statistics
Matches: 137, Mismatches: 13, Indels: 16
0.83 0.08 0.10
Matches are distributed among these distances:
44 2 0.01
45 93 0.68
50 1 0.01
51 41 0.30
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.21
Consensus pattern (46 bp):
CGGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGATCGAAT
Found at i:9669148 original size:6 final size:6
Alignment explanation
Indices: 9669137--9669163 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
9669127 TATCGAATCG
9669137 GTAACA GTAACA GTAACA GTAACA GTA
1 GTAACA GTAACA GTAACA GTAACA GTA
9669164 TTCGACACAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:9669148 original size:51 final size:51
Alignment explanation
Indices: 9669092--9669247 Score: 234
Period size: 51 Copynumber: 3.2 Consensus size: 51
9669082 TGATGAATCT
* *
9669092 GTAACAGTAACGGTAACAGTATTTGACACACAAAGTATCGAATCGGTAACA
1 GTAACAGTAACGGTAACAGTATTCGACACACAAAGTGTCGAATCGGTAACA
*
9669143 GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGTCGAATC-G-----
1 GTAACAGTAACGGTAACAGTATTCGACACACAAAGTGTCGAATCGGTAACA
*
9669188 GTAACAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAATCGGTAACA
1 GTAACAGTAACGGTAACAGTATTCGACACACAAAGTGTCGAATCGGTAACA
9669239 GTAACAGTA
1 GTAACAGTA
9669248 GTCGGCACAT
Statistics
Matches: 94, Mismatches: 5, Indels: 12
0.85 0.05 0.11
Matches are distributed among these distances:
45 42 0.45
46 1 0.01
50 1 0.01
51 50 0.53
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.20
Consensus pattern (51 bp):
GTAACAGTAACGGTAACAGTATTCGACACACAAAGTGTCGAATCGGTAACA
Done.