Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 17 of 214
Found at i:4676352 original size:19 final size:17
Alignment explanation
Indices: 4676330--4676365 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
4676320 TTCATATTTC
4676330 TTCTTTTCTTTTCTTTTTG
1 TTCTTTT-TTTT-TTTTTG
4676349 TTCTTTTTTTTTTTTTG
1 TTCTTTTTTTTTTTTTG
4676366 CACAACATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 4 0.24
19 7 0.41
ACGTcount: A:0.00, C:0.11, G:0.06, T:0.83
Consensus pattern (17 bp):
TTCTTTTTTTTTTTTTG
Found at i:4680729 original size:26 final size:24
Alignment explanation
Indices: 4680683--4680747 Score: 67
Period size: 26 Copynumber: 2.6 Consensus size: 24
4680673 TTTTTTCTAA
* *
4680683 TCGAGTCAAGTTAAATGAAATTCGAG
1 TCGAGTCAAATTAAATAAAATT-G-G
* *
4680709 TCGAGTCAAATTAAGTAAAATTGT
1 TCGAGTCAAATTAAATAAAATTGG
*
4680733 TCGAGTTAAATTAAA
1 TCGAGTCAAATTAAA
4680748 AAATTAAACA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
24 13 0.39
25 1 0.03
26 19 0.58
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (24 bp):
TCGAGTCAAATTAAATAAAATTGG
Found at i:4680988 original size:23 final size:23
Alignment explanation
Indices: 4680952--4680997 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
4680942 TTTTTTTGAA
*
4680952 AATTTTATATTTTTTAAAAATAT
1 AATTTTATAATTTTTAAAAATAT
* *
4680975 AATTTTTTAATTTTTATAAATAT
1 AATTTTATAATTTTTAAAAATAT
4680998 TTTGAATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
AATTTTATAATTTTTAAAAATAT
Found at i:4681036 original size:20 final size:19
Alignment explanation
Indices: 4680975--4681047 Score: 91
Period size: 20 Copynumber: 3.9 Consensus size: 19
4680965 TTAAAAATAT
4680975 AATT-TTTT-AATTTTTATA
1 AATTATTTTGAATTTTTA-A
4680993 AA-TATTTTGAA-TTTTAA
1 AATTATTTTGAATTTTTAA
4681010 AATTTATTTTGAATTTTTGAA
1 AA-TTATTTTGAATTTTT-AA
4681031 AATTATTTTGAATTTTT
1 AATTATTTTGAATTTTT
4681048 TGTAATTTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
17 4 0.08
18 11 0.22
19 11 0.22
20 19 0.39
21 4 0.08
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.60
Consensus pattern (19 bp):
AATTATTTTGAATTTTTAA
Found at i:4681233 original size:14 final size:14
Alignment explanation
Indices: 4681214--4681243 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4681204 TAACTCGAAT
4681214 AATTTGAATAACTC
1 AATTTGAATAACTC
*
4681228 AATTTGATTAACTC
1 AATTTGAATAACTC
4681242 AA
1 AA
4681244 AATTTAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (14 bp):
AATTTGAATAACTC
Found at i:4687966 original size:34 final size:34
Alignment explanation
Indices: 4687923--4687991 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
4687913 TGCATGTAAG
*
4687923 TCCATTCTAAACCCATTTTTAGTAATTTTTATGT
1 TCCATTCTAAACCCATTTTTAGTAATTTTCATGT
* ***
4687957 TCCATTCTAAGCTTGTTTTTAGTAATTTTCATGT
1 TCCATTCTAAACCCATTTTTAGTAATTTTCATGT
4687991 T
1 T
4687992 TTTGAGATCG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.23, C:0.16, G:0.09, T:0.52
Consensus pattern (34 bp):
TCCATTCTAAACCCATTTTTAGTAATTTTCATGT
Found at i:4692786 original size:25 final size:25
Alignment explanation
Indices: 4692758--4692816 Score: 102
Period size: 25 Copynumber: 2.4 Consensus size: 25
4692748 ACTCCCAACG
4692758 CCGCGTGCTCTGTCAGGCACCTCCT
1 CCGCGTGCTCTGTCAGGCACCTCCT
4692783 CCGCGTGCTCTGTCAGGCACCTCCT
1 CCGCGTGCTCTGTCAGGCACCTCCT
*
4692808 -CGCATGCTC
1 CCGCGTGCTC
4692817 GCCGCCACCG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 8 0.24
25 25 0.76
ACGTcount: A:0.08, C:0.44, G:0.24, T:0.24
Consensus pattern (25 bp):
CCGCGTGCTCTGTCAGGCACCTCCT
Found at i:4693921 original size:17 final size:17
Alignment explanation
Indices: 4693899--4693955 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
4693889 TTTAAAGATG
*
4693899 TTTTATACTAAATTTAT
1 TTTTATACTATATTTAT
*
4693916 TTTTATTCT-TATTT-T
1 TTTTATACTATATTTAT
4693931 TTTTATA-TATATATTAT
1 TTTTATACTATAT-TTAT
4693948 TTCTTATA
1 TT-TTATA
4693956 AACTTATATG
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
14 1 0.03
15 10 0.30
16 6 0.18
17 11 0.33
18 5 0.15
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTATACTATATTTAT
Found at i:4694032 original size:16 final size:19
Alignment explanation
Indices: 4694013--4694048 Score: 51
Period size: 16 Copynumber: 2.1 Consensus size: 19
4694003 ATTTTTAAAG
4694013 TGTTTT-ATT-TT-TTTTT
1 TGTTTTCATTGTTATTTTT
4694029 TGTTTTCATTGTTATTTTT
1 TGTTTTCATTGTTATTTTT
4694048 T
1 T
4694049 ATATATATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
16 6 0.35
17 3 0.18
18 2 0.12
19 6 0.35
ACGTcount: A:0.08, C:0.03, G:0.08, T:0.81
Consensus pattern (19 bp):
TGTTTTCATTGTTATTTTT
Found at i:4696908 original size:3 final size:3
Alignment explanation
Indices: 4696900--4696929 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
4696890 AAAATAATCC
4696900 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4696930 CCTTCCCTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:4718842 original size:19 final size:18
Alignment explanation
Indices: 4718814--4718849 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
4718804 ACCTTGTCAC
4718814 CTTGCTTTCTCACACTTT
1 CTTGCTTTCTCACACTTT
*
4718832 CTTGACTTTCTCTCACTT
1 CTTG-CTTTCTCACACTT
4718850 CCAACTATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.11, C:0.33, G:0.06, T:0.50
Consensus pattern (18 bp):
CTTGCTTTCTCACACTTT
Found at i:4736017 original size:2 final size:2
Alignment explanation
Indices: 4736010--4736112 Score: 206
Period size: 2 Copynumber: 51.5 Consensus size: 2
4736000 AAAACAAACA
4736010 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
4736052 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
4736094 TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC T
4736113 GTTAGATTTT
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 101 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:4744585 original size:21 final size:21
Alignment explanation
Indices: 4744559--4744634 Score: 120
Period size: 21 Copynumber: 3.7 Consensus size: 21
4744549 AATCATATCT
4744559 TCTAAGATTGTATATATCATA
1 TCTAAGATTGTATATATCATA
*
4744580 TCTAAGATTGCATATATCATA
1 TCTAAGATTGTATATATCATA
*
4744601 TCTAAGATTG--CATATCATA
1 TCTAAGATTGTATATATCATA
4744620 TCTAAGATTGTATAT
1 TCTAAGATTGTATAT
4744635 CCTTAAAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 18 0.36
21 32 0.64
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.41
Consensus pattern (21 bp):
TCTAAGATTGTATATATCATA
Found at i:4744594 original size:19 final size:19
Alignment explanation
Indices: 4744572--4744635 Score: 101
Period size: 19 Copynumber: 3.3 Consensus size: 19
4744562 AAGATTGTAT
4744572 ATATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGC
4744591 ATATATCATATCTAAGATTGC
1 --ATATCATATCTAAGATTGC
*
4744612 ATATCATATCTAAGATTGT
1 ATATCATATCTAAGATTGC
4744631 ATATC
1 ATATC
4744636 CTTAAAAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
19 23 0.55
21 19 0.45
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (19 bp):
ATATCATATCTAAGATTGC
Found at i:4746594 original size:6 final size:6
Alignment explanation
Indices: 4746583--4746617 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
4746573 ATATATTTTA
4746583 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTC
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTC
4746618 AAAGTTTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTCT
Found at i:4751353 original size:287 final size:287
Alignment explanation
Indices: 4750835--4751410 Score: 922
Period size: 287 Copynumber: 2.0 Consensus size: 287
4750825 ATCGTGGTCT
* *
4750835 TCATCGACGATATTCTGGTTTACTTTAAGACCGAGGATGAGCATGATGAATAACTAAGAGTAGTG
1 TCATCGACAATATTCTGGTTTACTTTAAGACCGAGGATGAGCATGATGAACAACTAAGAGTAGTG
* * *
4750900 CTTCAGATACTCCAAGAGAAGCAGCTCTATGCTAAGTTGAGCAAGTGTGAGTTCTGATTGCGTGA
66 CTTCAGATACTCCAAGAGAAGCAGCTCTACGCTAAGTTGAGCAAGTGTGAGCTATGATTGCGTGA
* *
4750965 GGTAACTTTTCTGGGTCATGTGGTTTCTACTGAGGGGATTCAAGTTGATCCAAAGAAGATTGAAG
131 CGTAACTTTTCTGGGTCATATGGTTTCTACTGAGGGGATTCAAGTTGATCCAAAGAAGATTGAAG
** * **
4751030 TTGCGTTTGATTGGAAGTAACCTAAGAATATATCTGAGATTCGTAGTTTTCTGGGTCTTGCGGGG
196 TTGCACTTGATTGGAAGCAACCTAAGAATATATCTGAGATTCACAGTTTTCTGGGTCTTGCGGGG
4751095 TATTATCGGTGTTTTGTTGAGGGGTTC
261 TATTATCGGTGTTTTGTTGAGGGGTTC
4751122 TCATCGACAATATTCTGGTTTACTTTAAGACCGAGGATGAGCATGATGAACAACTAAGAGTAGTG
1 TCATCGACAATATTCTGGTTTACTTTAAGACCGAGGATGAGCATGATGAACAACTAAGAGTAGTG
* * * *
4751187 CTTCAGATACTCCGAGGGAAGCAGCTCTACGTTAAGTTGAGCAAGTGTGAGCTATGGTTGCGTGA
66 CTTCAGATACTCCAAGAGAAGCAGCTCTACGCTAAGTTGAGCAAGTGTGAGCTATGATTGCGTGA
* * * **
4751252 CGTAACTTTTCTGGGTCATATGTTTTCTGCTGAGGGGATTCGAGTTGATCTGAAGAAGATTG-AG
131 CGTAACTTTTCTGGGTCATATGGTTTCTACTGAGGGGATTCAAGTTGATCCAAAGAAGATTGAAG
*
4751316 ATTGCACTTGATTGGAAGCAGA-CTAAGAATGTATCTGAGATTCACAGTTTTCTGGGTCTTGCGG
196 -TTGCACTTGATTGGAAGCA-ACCTAAGAATATATCTGAGATTCACAGTTTTCTGGGTCTTGCGG
4751380 GGTATTATCGGTGTTTTGTTGAGGGGTTC
259 GGTATTATCGGTGTTTTGTTGAGGGGTTC
4751409 TC
1 TC
4751411 TTTGATTGCA
Statistics
Matches: 265, Mismatches: 22, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
286 2 0.01
287 262 0.99
288 1 0.00
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (287 bp):
TCATCGACAATATTCTGGTTTACTTTAAGACCGAGGATGAGCATGATGAACAACTAAGAGTAGTG
CTTCAGATACTCCAAGAGAAGCAGCTCTACGCTAAGTTGAGCAAGTGTGAGCTATGATTGCGTGA
CGTAACTTTTCTGGGTCATATGGTTTCTACTGAGGGGATTCAAGTTGATCCAAAGAAGATTGAAG
TTGCACTTGATTGGAAGCAACCTAAGAATATATCTGAGATTCACAGTTTTCTGGGTCTTGCGGGG
TATTATCGGTGTTTTGTTGAGGGGTTC
Found at i:4755068 original size:26 final size:24
Alignment explanation
Indices: 4755033--4755081 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
4755023 TTTTATGAAC
* *
4755033 TTTTTATATTCTTTTTATTTTTTAT
1 TTTTTATATT-TTTATAATTTTTAT
4755058 TTTTGTATATTTTTATAATTTTTA
1 TTTT-TATATTTTTATAATTTTTA
4755082 AATTATTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (24 bp):
TTTTTATATTTTTATAATTTTTAT
Found at i:4755716 original size:31 final size:29
Alignment explanation
Indices: 4755654--4755717 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 29
4755644 AAATCAAATT
*
4755654 TTCATGTATAAAATTGCACAAAATTAAAG
1 TTCATGTATAAAATTGCACAAAACTAAAG
* *
4755683 TTCATGTATAACATTGCACATTGAACTAAAG
1 TTCATGTATAAAATTGCACA--AAACTAAAG
4755714 TTCA
1 TTCA
4755718 GTTATAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 19 0.63
31 11 0.37
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.33
Consensus pattern (29 bp):
TTCATGTATAAAATTGCACAAAACTAAAG
Found at i:4756345 original size:83 final size:82
Alignment explanation
Indices: 4756191--4756346 Score: 208
Period size: 83 Copynumber: 1.9 Consensus size: 82
4756181 TTGAACTTAC
*
4756191 ATCAATATTAATAATAAACGAATTAATTCGATTATATTTTAAGTAGAAATAGAATATCATTTTAA
1 ATCAATATTAATAATAAACGAATTAATTCGATTATATTTTAAGTAGAAATAGAATAT-ATTTAAA
*
4756256 GAAAAAAAAGTCAACTTT
65 AAAAAAAAAGTCAACTTT
* * * * *
4756274 ATCAATATTACTAATAAACGAATTATTTCTATTAT-TTTTAAGTAGAAATCGAATAT-TTTCCAA
1 ATCAATATTAATAATAAACGAATTAATTCGATTATATTTTAAGTAGAAATAGAATATATTT-AAA
*
4756337 AAATAAAAAG
65 AAAAAAAAAG
4756347 CTTCACGATT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
80 3 0.05
81 10 0.15
82 20 0.31
83 32 0.49
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (82 bp):
ATCAATATTAATAATAAACGAATTAATTCGATTATATTTTAAGTAGAAATAGAATATATTTAAAA
AAAAAAAAGTCAACTTT
Found at i:4756783 original size:18 final size:18
Alignment explanation
Indices: 4756752--4756790 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
4756742 TTTAGAATTT
* * *
4756752 TTTTTGAAATTTTTAGAA
1 TTTTTAAAAATTTTAAAA
4756770 TTTTTAAAAATTTTAAAA
1 TTTTTAAAAATTTTAAAA
4756788 TTT
1 TTT
4756791 GAAATTTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (18 bp):
TTTTTAAAAATTTTAAAA
Found at i:4756804 original size:27 final size:26
Alignment explanation
Indices: 4756770--4756824 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
4756760 ATTTTTAGAA
4756770 TTTTTAAAAATTTTAAAATTTGAAAT
1 TTTTTAAAAATTTTAAAATTTGAAAT
* * *
4756796 TTTTATAAATATTTTGAATTTTGAAAT
1 TTTT-TAAAAATTTTAAAATTTGAAAT
4756823 TT
1 TT
4756825 ATTTTGATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (26 bp):
TTTTTAAAAATTTTAAAATTTGAAAT
Found at i:4762078 original size:21 final size:21
Alignment explanation
Indices: 4762054--4762096 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
4762044 GGGGGAAAGT
*
4762054 GGGAAGAAGT-AAAAGTTTTGA
1 GGGAA-AAGTAAAAAGGTTTGA
4762075 GGGAAAAGTAAAAAGGTTTGA
1 GGGAAAAGTAAAAAGGTTTGA
4762096 G
1 G
4762097 AGTTTAGGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.44, C:0.00, G:0.35, T:0.21
Consensus pattern (21 bp):
GGGAAAAGTAAAAAGGTTTGA
Found at i:4762146 original size:9 final size:9
Alignment explanation
Indices: 4762132--4762168 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
4762122 TATAGTTTGA
4762132 TATTCGAAT
1 TATTCGAAT
4762141 TATTCGAAT
1 TATTCGAAT
*
4762150 TATTCGAGT
1 TATTCGAAT
4762159 TATTCGAAT
1 TATTCGAAT
4762168 T
1 T
4762169 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:4768920 original size:21 final size:21
Alignment explanation
Indices: 4768896--4768941 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
4768886 GTTTAACTTA
* *
4768896 TATGAG-TCTCCGTTCAGCTCT
1 TATGAGCT-TCCGTTCAACCCT
4768917 TATGAGCTTCCGTTCAACCCT
1 TATGAGCTTCCGTTCAACCCT
4768938 TATG
1 TATG
4768942 GGTTTCTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.17, C:0.28, G:0.17, T:0.37
Consensus pattern (21 bp):
TATGAGCTTCCGTTCAACCCT
Found at i:4790890 original size:21 final size:23
Alignment explanation
Indices: 4790864--4790906 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
4790854 AAAAACACAC
*
4790864 AAAACCCTTAA-TTTG-GTTCTG
1 AAAACCATTAACTTTGTGTTCTG
4790885 AAAACCATTAACTTTGTGTTCT
1 AAAACCATTAACTTTGTGTTCT
4790907 AAATCTTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 4 0.21
23 5 0.26
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.40
Consensus pattern (23 bp):
AAAACCATTAACTTTGTGTTCTG
Found at i:4792321 original size:27 final size:26
Alignment explanation
Indices: 4792242--4792326 Score: 84
Period size: 28 Copynumber: 3.2 Consensus size: 26
4792232 ATCTATTTTC
*
4792242 CTTATTT-TCTTTTTTATTGTTTTAAT
1 CTTATTTATCTATTTTATTGTTTT-AT
* *
4792268 CTTTGATTTAT-TATTCTATTTTATTTAT
1 C-TT-ATTTATCTATTTTATTGT-TTTAT
4792296 CTTATTTATCTATTTTAATTGTTTTAT
1 CTTATTTATCTATTTT-ATTGTTTTAT
4792323 CTTA
1 CTTA
4792327 CTTGGATTCG
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
26 7 0.15
27 18 0.38
28 19 0.40
29 4 0.08
ACGTcount: A:0.20, C:0.08, G:0.04, T:0.68
Consensus pattern (26 bp):
CTTATTTATCTATTTTATTGTTTTAT
Found at i:4792322 original size:22 final size:23
Alignment explanation
Indices: 4792274--4792322 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
4792264 TAATCTTTGA
*
4792274 TTTA-TTATTCTATTTTATTTAT
1 TTTATTTATTCTATTTTAATTAT
* *
4792296 CTTATTTA-TCTATTTTAATTGT
1 TTTATTTATTCTATTTTAATTAT
4792318 TTTAT
1 TTTAT
4792323 CTTACTTGGA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.69
Consensus pattern (23 bp):
TTTATTTATTCTATTTTAATTAT
Found at i:4792911 original size:17 final size:18
Alignment explanation
Indices: 4792881--4792914 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4792871 TAGCCTTAGG
*
4792881 TTTTTATTATTTCTTTTC
1 TTTTTATTAGTTCTTTTC
4792899 TTTTTATT-GTTCTTTT
1 TTTTTATTAGTTCTTTT
4792915 ATGCATTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.09, C:0.09, G:0.03, T:0.79
Consensus pattern (18 bp):
TTTTTATTAGTTCTTTTC
Found at i:4799982 original size:2 final size:2
Alignment explanation
Indices: 4799975--4800004 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
4799965 TTGCATCTAC
*
4799975 TA TA TA TA TA TA TA TT TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4800005 AAAGCTTTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:4800491 original size:17 final size:17
Alignment explanation
Indices: 4800451--4800492 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
4800441 CCCTATATAC
*
4800451 AATTATATTGTTATAAT
1 AATTATATTTTTATAAT
*
4800468 -A-TATATTTTTATATT
1 AATTATATTTTTATAAT
4800483 AATTATATTT
1 AATTATATTT
4800493 AAGCTTAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
15 12 0.57
16 2 0.10
17 7 0.33
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (17 bp):
AATTATATTTTTATAAT
Found at i:4800656 original size:32 final size:32
Alignment explanation
Indices: 4800614--4800674 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
4800604 TTTTTTGAAA
4800614 AATAATTATAACTATTTAAAT-AAT-ATTATTTG
1 AATAATTATAA-TA-TTAAATGAATAATTATTTG
*
4800646 AATAGTTATAATATTAAATGAATAATTAT
1 AATAATTATAATATTAAATGAATAATTAT
4800675 GTGTTTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 6 0.23
31 5 0.19
32 15 0.58
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (32 bp):
AATAATTATAATATTAAATGAATAATTATTTG
Found at i:4800667 original size:20 final size:20
Alignment explanation
Indices: 4800633--4800674 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
4800623 AACTATTTAA
** *
4800633 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
4800653 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
4800673 AT
1 AT
4800675 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:4802264 original size:15 final size:15
Alignment explanation
Indices: 4802244--4802276 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
4802234 ATGTACCAAA
4802244 AGTTAGAAAGAATTT
1 AGTTAGAAAGAATTT
4802259 AGTTAGAAAGAATTT
1 AGTTAGAAAGAATTT
4802274 AGT
1 AGT
4802277 GTCTGGAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.33
Consensus pattern (15 bp):
AGTTAGAAAGAATTT
Found at i:4802779 original size:15 final size:16
Alignment explanation
Indices: 4802754--4802787 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
4802744 AAGATGAAGC
*
4802754 GTTTGATAAATTTAAA
1 GTTTGATAAATCTAAA
4802770 GTTT-ATAAATCTAAA
1 GTTTGATAAATCTAAA
4802785 GTT
1 GTT
4802788 GAACTTCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.44
Consensus pattern (16 bp):
GTTTGATAAATCTAAA
Found at i:4806598 original size:26 final size:26
Alignment explanation
Indices: 4806533--4806603 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 26
4806523 AGTCATATCG
* *
4806533 GGAAACTCTTG-AGAGCCATTAATCA
1 GGAAGCTCTTGAAGAGCCATTAAACA
*** *
4806558 GGAAGCTCACAAAGAGCCTTTAAACA
1 GGAAGCTCTTGAAGAGCCATTAAACA
4806584 GGAAGCTCTTGAAGAGCCAT
1 GGAAGCTCTTGAAGAGCCAT
4806604 ATAACGATAC
Statistics
Matches: 35, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
25 7 0.20
26 28 0.80
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.20
Consensus pattern (26 bp):
GGAAGCTCTTGAAGAGCCATTAAACA
Found at i:4808821 original size:20 final size:20
Alignment explanation
Indices: 4808787--4808828 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
4808777 AACTGTTTAA
** *
4808787 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
4808807 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
4808827 AT
1 AT
4808829 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:4811752 original size:21 final size:21
Alignment explanation
Indices: 4811728--4811789 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
4811718 ATAAGTGCTA
4811728 AACAGAAACCCATAAGGGTTG
1 AACAGAAACCCATAAGGGTTG
* * *
4811749 AACA-AAAGCTCATAAGAGCTG
1 AACAGAAA-CCCATAAGGGTTG
*
4811770 AAC-GAAAACCCAAAAGGGTT
1 AACAG-AAACCCATAAGGGTT
4811790 AAATTGAAGC
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
20 3 0.10
21 25 0.81
22 3 0.10
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.13
Consensus pattern (21 bp):
AACAGAAACCCATAAGGGTTG
Found at i:4811779 original size:42 final size:41
Alignment explanation
Indices: 4811732--4811886 Score: 168
Period size: 42 Copynumber: 3.7 Consensus size: 41
4811722 GTGCTAAACA
* **
4811732 GAAACCCATAAGGGTTGAACAAAAGCTCATAAGAGCTGAAC-
1 GAAACCCATAAGGGTTAAACTGAAGCTCA-AAGAGCTGAACT
* * * *
4811773 GAAAACCCAAAAGGGTTAAATTGAAGCTTAAAATAGCTGAACT
1 G-AAACCCATAAGGGTTAAACTGAAGC-TCAAAGAGCTGAACT
* *
4811816 GAAACACATTAGGGTTAAACTGAAGCTCGAAAGAGCTGAACT
1 GAAACCCATAAGGGTTAAACTGAAGCTC-AAAGAGCTGAACT
* *
4811858 GAAACCCATTAGGGTTAAACTGAAACTCA
1 GAAACCCATAAGGGTTAAACTGAAGCTCA
4811887 TATGAGTTAA
Statistics
Matches: 95, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
41 3 0.03
42 89 0.94
43 3 0.03
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.19
Consensus pattern (41 bp):
GAAACCCATAAGGGTTAAACTGAAGCTCAAAGAGCTGAACT
Found at i:4811836 original size:21 final size:21
Alignment explanation
Indices: 4811812--4811883 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
4811802 AAAATAGCTG
4811812 AACTGAAACACATTAGGGTTA
1 AACTGAAACACATTAGGGTTA
* * * * * *
4811833 AACTGAAGCTCGA-AAGAGCTG
1 AACTGAAACAC-ATTAGGGTTA
*
4811854 AACTGAAACCCATTAGGGTTA
1 AACTGAAACACATTAGGGTTA
4811875 AACTGAAAC
1 AACTGAAAC
4811884 TCATATGAGT
Statistics
Matches: 37, Mismatches: 12, Indels: 4
0.70 0.23 0.08
Matches are distributed among these distances:
20 1 0.03
21 35 0.95
22 1 0.03
ACGTcount: A:0.42, C:0.18, G:0.21, T:0.19
Consensus pattern (21 bp):
AACTGAAACACATTAGGGTTA
Found at i:4811895 original size:21 final size:21
Alignment explanation
Indices: 4811854--4811923 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
4811844 GAAAGAGCTG
* *
4811854 AACTGAAACCCAT-TAGGGTTA
1 AACTGAAACTCATAT-GAGTTA
4811875 AACTGAAACTCATATGAGTT-
1 AACTGAAACTCATATGAGTTA
* * *
4811895 AACTGAAGCTCATAAGAGCTA
1 AACTGAAACTCATATGAGTTA
*
4811916 AATTGAAA
1 AACTGAAA
4811924 GCAAACACGG
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
20 17 0.43
21 22 0.55
22 1 0.03
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.24
Consensus pattern (21 bp):
AACTGAAACTCATATGAGTTA
Found at i:4822040 original size:27 final size:26
Alignment explanation
Indices: 4822005--4822055 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
4821995 CAGTTATTAT
*
4822005 AAAATTATAAAAATACATATTTAAATA
1 AAAATTAT-AAAATACAAATTTAAATA
*
4822032 AAAATTATAAATTACAAATTTAAA
1 AAAATTATAAAATACAAATTTAAA
4822056 CATTAAACAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (26 bp):
AAAATTATAAAATACAAATTTAAATA
Found at i:4827412 original size:3 final size:3
Alignment explanation
Indices: 4827404--4827438 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
4827394 CCATTAACTT
*
4827404 TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
4827439 GAATATAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:4827439 original size:12 final size:12
Alignment explanation
Indices: 4827404--4827443 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
4827394 CCATTAACTT
*
4827404 TAATAATAATAA
1 TAATAATAATAG
4827416 TAATAATAATAG
1 TAATAATAATAG
4827428 TAATAATAATAG
1 TAATAATAATAG
4827440 -AATA
1 TAATA
4827444 TAAATATTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
11 4 0.15
12 23 0.85
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (12 bp):
TAATAATAATAG
Found at i:4829031 original size:22 final size:22
Alignment explanation
Indices: 4828984--4829033 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
4828974 AATCCAAAAG
* *
4828984 CATTTCTAAACATTCATTTAAC
1 CATTTCTAAACATCCATCTAAC
4829006 CATTTCTAAACATCCATCCTAA-
1 CATTTCTAAACATCCAT-CTAAC
4829028 CATTTC
1 CATTTC
4829034 CACAATTTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 22 0.88
23 3 0.12
ACGTcount: A:0.34, C:0.28, G:0.00, T:0.38
Consensus pattern (22 bp):
CATTTCTAAACATCCATCTAAC
Found at i:4829872 original size:20 final size:20
Alignment explanation
Indices: 4829849--4829890 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
4829839 GTGGTGTTGT
*
4829849 ACAAAGGCACCAAAGTGCAA
1 ACAAAGGAACCAAAGTGCAA
*
4829869 ACAAAGGAACCGAAGTGCAA
1 ACAAAGGAACCAAAGTGCAA
4829889 AC
1 AC
4829891 CTATACAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.24, G:0.21, T:0.05
Consensus pattern (20 bp):
ACAAAGGAACCAAAGTGCAA
Found at i:4831231 original size:22 final size:23
Alignment explanation
Indices: 4831179--4831232 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 23
4831169 GCATAATTTA
*
4831179 TAATTAAATTAACCTAAATATGAT
1 TAATT-AATTAACCTAAAAATGAT
4831203 TAA-TAATTAA-CTAAAAAT-ACT
1 TAATTAATTAACCTAAAAATGA-T
4831224 TAATTAATT
1 TAATTAATT
4831233 TAATTAGCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 1 0.04
21 11 0.41
22 11 0.41
23 1 0.04
24 3 0.11
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (23 bp):
TAATTAATTAACCTAAAAATGAT
Found at i:4832324 original size:43 final size:42
Alignment explanation
Indices: 4832227--4832327 Score: 103
Period size: 43 Copynumber: 2.4 Consensus size: 42
4832217 TACACTTCAT
* * * * *
4832227 TTTATCTGATGGTGCACTTATGTGCCAGTATATTTGCTTTGG
1 TTTATCCGATGATGCACTTATGTGCCAGTATATCTGCTTCGA
* * * * *
4832269 CTTGTCCAATGATGCACTTTGTGTGCCATTATATCTGCTTCGA
1 TTTATCCGATGATGCAC-TTATGTGCCAGTATATCTGCTTCGA
4832312 TTTATCCGATGATGCA
1 TTTATCCGATGATGCA
4832328 ATGCGATGCT
Statistics
Matches: 45, Mismatches: 13, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
42 12 0.27
43 33 0.73
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.42
Consensus pattern (42 bp):
TTTATCCGATGATGCACTTATGTGCCAGTATATCTGCTTCGA
Found at i:4837891 original size:18 final size:17
Alignment explanation
Indices: 4837866--4837908 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
4837856 AAGTGCTTTA
*
4837866 ATTT-TTTTACTTGTTT
1 ATTTCTTTTACTTGTTG
*
4837882 ATTTACTTTTATTTGTTG
1 ATTT-CTTTTACTTGTTG
4837900 ATTTCTTTT
1 ATTTCTTTT
4837909 CATTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 4 0.17
17 5 0.22
18 14 0.61
ACGTcount: A:0.14, C:0.07, G:0.07, T:0.72
Consensus pattern (17 bp):
ATTTCTTTTACTTGTTG
Found at i:4838220 original size:109 final size:109
Alignment explanation
Indices: 4838016--4838545 Score: 807
Period size: 110 Copynumber: 4.9 Consensus size: 109
4838006 ATCAAAAACG
* * *
4838016 AAAAATTTTTCAAATAAGGCAATGTTTTGCATTTGGAAATTTGAGAAAACATGCCCTAAGGTGCT
1 AAAAA-TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
4838081 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
65 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
* *
4838126 AAAAATTTTAAGATAAGGTAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
*
4838191 GGTGTCGATTTTTCTCGTTCAACCAAATGGTTTAATATCCTTTT
66 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
* * *
4838235 AAAATTTTTAAAATAAAGCAATGTTTTGCGTTTGGGAAATTTGAGAAAACATGCCCTAAGGTGCT
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTT-GGAAATTCGAGAAAACATGCCCTAAGGTGCT
*
4838300 GGGTGTCGATTTCTCTCGTTCAACCAAATGGCTTAATATCCTTTT
65 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
*
4838345 AAAAATTTTAAAATAAGGAAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
* * * *
4838410 GGTGTCGATTTTTTCTCATTCAACCAAATAGC-TATATAGCCTTTC
66 GGTGTCGA-TTTTTCTCGTTCAACCAAATGGCTTA-ATATCCTTTT
* * *
4838455 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGTGAAATTCTAG-GAACATGCCCTAAGGTGCT
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTG-GAAATTCGAGAAAACATGCCCTAAGGTGCT
* *
4838519 GGGTTTCGA--TTTCTCGTTTAACCAAAT
65 GGGTGTCGATTTTTCTCGTTCAACCAAAT
4838546 TGCCAAATAT
Statistics
Matches: 387, Mismatches: 29, Indels: 11
0.91 0.07 0.03
Matches are distributed among these distances:
107 16 0.04
109 168 0.43
110 194 0.50
111 9 0.02
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (109 bp):
AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
Found at i:4838507 original size:219 final size:217
Alignment explanation
Indices: 4838023--4838545 Score: 822
Period size: 219 Copynumber: 2.4 Consensus size: 217
4838013 ACGAAAAATT
*
4838023 TTTC-AAATAAGGCAATGTTTTGCATTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTGT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTGT
* *
4838087 CGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAGATAAGGTAATGTTT
66 CGA-TTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATAAGGAAATGTTT
*
4838152 TGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAA
130 TGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAA
* * * * *
4838217 ATGGTTTAATATCCTTTTAAAAT
195 ATGCTATAATAGCCTTTCAAAAA
* *
4838240 TTTTAAAATAAAGCAATGTTTTGCGTTTGGGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTG
1 TTTCAAAATAAGGCAATGTTTTGCGTTT-GGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTG
4838305 TCGATTTCTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATAAGGAAATGTT
65 TCGATTT-TCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATAAGGAAATGTT
4838370 TTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTTCTCATTCAACC
129 TTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGA-TTTTTCTCATTCAACC
4838435 AAATAGCTAT-ATAGCCTTTCAAAAA
193 AAAT-GCTATAATAGCCTTTCAAAAA
*
4838460 TTTCAAAATAAGGCAATGTTTTGCGTTTGTGAAATTCT-AG-GAACATGCCCTAAGGTGCTGGGT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTG-GAAATT-TGAGAAAACATGCCCTAAGGTGCTGGGT
* *
4838523 TTCGA-TTTCTCGTTTAACCAAAT
64 GTCGATTTTCTCGTTCAACCAAAT
4838546 TGCCAAATAT
Statistics
Matches: 283, Mismatches: 16, Indels: 14
0.90 0.05 0.04
Matches are distributed among these distances:
217 18 0.06
218 26 0.09
219 170 0.60
220 65 0.23
221 4 0.01
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.35
Consensus pattern (217 bp):
TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTGT
CGATTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATAAGGAAATGTTTT
GCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAA
TGCTATAATAGCCTTTCAAAAA
Found at i:4841928 original size:7 final size:7
Alignment explanation
Indices: 4841918--4841989 Score: 67
Period size: 7 Copynumber: 9.9 Consensus size: 7
4841908 AGAAAAATAA
4841918 AAAAAAC
1 AAAAAAC
4841925 AAAAAA-
1 AAAAAAC
*
4841931 ATTAAAA-
1 A-AAAAAC
4841938 AAAAAAC
1 AAAAAAC
4841945 AAAAAAC
1 AAAAAAC
4841952 AAAAAAAAC
1 --AAAAAAC
4841961 AAAAAATC
1 AAAAAA-C
4841969 AAAAAATC
1 AAAAAA-C
*
4841977 AAAAAAT
1 AAAAAAC
4841984 AAAAAA
1 AAAAAA
4841990 AAATCAATGT
Statistics
Matches: 57, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
6 5 0.09
7 30 0.53
8 15 0.26
9 7 0.12
ACGTcount: A:0.85, C:0.08, G:0.00, T:0.07
Consensus pattern (7 bp):
AAAAAAC
Found at i:4841937 original size:16 final size:16
Alignment explanation
Indices: 4841918--4841990 Score: 68
Period size: 16 Copynumber: 4.9 Consensus size: 16
4841908 AGAAAAATAA
4841918 AAAAAACAAAAAAAT-
1 AAAAAACAAAAAAATC
*
4841933 --TAAA-AAAAAAA-C
1 AAAAAACAAAAAAATC
*
4841945 AAAAAACAAAAAAAAC
1 AAAAAACAAAAAAATC
4841961 AAAAAATC-AAAAAATC
1 AAAAAA-CAAAAAAATC
*
4841977 AAAAAATAAAAAAA
1 AAAAAACAAAAAAA
4841991 AATCAATGTC
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
12 7 0.15
13 3 0.06
14 3 0.06
15 7 0.15
16 26 0.55
17 1 0.02
ACGTcount: A:0.85, C:0.08, G:0.00, T:0.07
Consensus pattern (16 bp):
AAAAAACAAAAAAATC
Found at i:4842005 original size:1 final size:1
Alignment explanation
Indices: 4841910--4841992 Score: 58
Period size: 1 Copynumber: 83.0 Consensus size: 1
4841900 AACTCGAAAG
* * ** * * * **
4841910 AAAAATAAAAAAAACAAAAAAATTAAAAAAAAAACAAAAAACAAAAAAAACAAAAAATCAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
** *
4841975 TCAAAAAATAAAAAAAAA
1 AAAAAAAAAAAAAAAAAA
4841993 TCAATGTCAA
Statistics
Matches: 62, Mismatches: 20, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 62 1.00
ACGTcount: A:0.86, C:0.07, G:0.00, T:0.07
Consensus pattern (1 bp):
A
Found at i:4842047 original size:21 final size:20
Alignment explanation
Indices: 4842010--4842048 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
4842000 CAAAAATAGG
*
4842010 AGAAAAAGAAAGAAGAAGAA
1 AGAAAAAAAAAGAAGAAGAA
*
4842030 AGAAAAGAAAAAGGAGAAG
1 AGAAAA-AAAAAGAAGAAG
4842049 TCAAGGCGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (20 bp):
AGAAAAAAAAAGAAGAAGAA
Found at i:4844233 original size:52 final size:48
Alignment explanation
Indices: 4844214--4844514 Score: 393
Period size: 46 Copynumber: 6.3 Consensus size: 48
4844204 TGACAAGTGG
* *
4844214 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
4844260 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
* *
4844308 GTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 ----AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
4844358 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
4844410 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
4844456 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
4844502 AAAGTGATAAGTG
1 AAAGTGATAAGTG
4844515 GCTACACTTA
Statistics
Matches: 232, Mismatches: 11, Indels: 24
0.87 0.04 0.09
Matches are distributed among these distances:
46 144 0.62
52 88 0.38
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:4844268 original size:98 final size:98
Alignment explanation
Indices: 4844148--4844503 Score: 631
Period size: 98 Copynumber: 3.6 Consensus size: 98
4844138 TTTGAGTACT
* *
4844148 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
4844213 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
*
4844246 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
4844311 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
*
4844344 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
4844409 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* * *
4844442 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAA
4844504 AGTGATAAGT
Statistics
Matches: 249, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 249 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:4844522 original size:37 final size:37
Alignment explanation
Indices: 4844478--4844623 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
4844468 GATAGCTTTA
*
4844478 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
4844515 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
4844552 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
4844589 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
4844624 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:4846345 original size:44 final size:43
Alignment explanation
Indices: 4846247--4846352 Score: 117
Period size: 43 Copynumber: 2.5 Consensus size: 43
4846237 CCCAAAAAGG
*
4846247 GCAGCTCAAATTTTGGAACAAAATGGGGCACAAAGTGATCAGA
1 GCAGCTCAAATTTTGGATCAAAATGGGGCACAAAGTGATCAGA
* * ****
4846290 GC-GACTTAAATTTTGGATCAAATTGGGGCATGGTGGTGATCAGA
1 GCAG-CTCAAATTTTGGATCAAAATGGGGCA-CAAAGTGATCAGA
4846334 GCAGCTCAAATTTT-GATCA
1 GCAGCTCAAATTTTGGATCA
4846353 GATCAAGGCA
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
42 1 0.02
43 30 0.58
44 20 0.38
45 1 0.02
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.25
Consensus pattern (43 bp):
GCAGCTCAAATTTTGGATCAAAATGGGGCACAAAGTGATCAGA
Found at i:4847663 original size:100 final size:100
Alignment explanation
Indices: 4847486--4848826 Score: 1570
Period size: 100 Copynumber: 13.4 Consensus size: 100
4847476 AAAACCATAG
* * * * **
4847486 ATTGCAATTTAAAAGATCGAAGCCACAATGGTGAATCTTATTTCCCAGGC-AGTGCAGTTGAACA
1 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCCAGGCGA-TGCAGCGGAACA
* * * *
4847550 GATTGAAGCTACAACAGCGGATCTTGCTTCCTCGAC
65 GATTGAAGCTACGACAGCGAATCTTACTTCCCCGAC
* * * * **
4847586 ATTACAATTTAAAAGATCGAAGCCACAACGGTGAATCTTATTTCCCAGGC-AGTGCAGTTGAACA
1 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCCAGGCGA-TGCAGCGGAACA
* * * *
4847650 GATTGAAGCTACAACAGCGGATCTTGCTTCCTCGAC
65 GATTGAAGCTACGACAGCGAATCTTACTTCCCCGAC
* * * * *
4847686 ATTGCAATTTAAAAGATCGAAGCCACAATGGTGAATCTTATTTCCCAGGCGATGCAACGGAACAG
1 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
* * * *
4847751 ATTGAAACTACGACGGCGAATCTCACTTCCCAGAC
66 ATTGAAGCTACGACAGCGAATCTTACTTCCCCGAC
* * * * *
4847786 ATTGTAGTTTAAAAGATCAAAGCCACAACGGCGAATCTTATTTCCCAGGCGATGCAGCGGAACAG
1 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
* * * * *
4847851 ATTGAAGTTACAACAGCAAACCTCACTTCCCCGAC
66 ATTGAAGCTACGACAGCGAATCTTACTTCCCCGAC
* *
4847886 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATTTTACTTCCCAGGCGATGCAGTGGAACAG
1 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
* * *
4847951 ATTGAAGCTACGACGGTGAATCTCACTTCCCCGAC
66 ATTGAAGCTACGACAGCGAATCTTACTTCCCCGAC
* * *
4847986 ATTGCAATTCAAAAGATTGAAGCCACAACGGCGAATCTTACTT-CCAGCCAATGCAGCGGAACAG
1 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
* * * *
4848050 ATTAAAGCTACGACGGCGAATCTTGCTTCCTCGAC
66 ATTGAAGCTACGACAGCGAATCTTACTTCCCCGAC
*
4848085 ATTGCAATTCAAAAGATCGAAGCCACAACAGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
1 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
* *
4848150 ATTGAAGCTACAACAGCGAATCTCACTTCCCCGAC
66 ATTGAAGCTACGACAGCGAATCTTACTTCCCCGAC
** *
4848185 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTTTCAGGCGATGCAGCGGAACAA
1 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
* *
4848250 ATTGAAGCTACGAC-GACGAATCTTGCTTCCTCGAC
66 ATTGAAGCTACGACAG-CGAATCTTACTTCCCCGAC
* * * * *
4848285 ATTGCAATTCAACAGATTGAAGCCACAACGGTGAATCTTACTTCCCAAGAGATGCAGCGGAACAG
1 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
4848350 ATTGAAGCTACGACAGCGAATCTTACTTCCCCGAC
66 ATTGAAGCTACGACAGCGAATCTTACTTCCCCGAC
* * *
4848385 ATTGCAATTCAAAAGATCGAAGCCACAATGGCGAATCTTACTTCCCAGGCGATGCAACGGAAAAG
1 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
* *
4848450 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
66 ATTGAAGCTACGACAGCGAATCTTACTTCCCCGAC
* *
4848485 ATTGCAATTCAAAAGATCGAAGCCATAACGGCGAGTCTTACTT-CCAGGCGATGCAGCGGAACAG
1 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
* * * * *
4848549 ATTAAAGCTACGA-TGACAAATCTTGCTTCCTCGAC
66 ATTGAAGCTACGACAG-CGAATCTTACTTCCCCGAC
* * * * ** * * * **
4848584 ATTGCAGTTTAAAATATTGTGGCCACAATGGCGAATCTTACTT-CCAAGCTATATAGCGGAACAG
1 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
* * * * *
4848648 ATTGAAGCCACAACGGTGAATCTTCCTTCCCCGAC
66 ATTGAAGCTACGACAGCGAATCTTACTTCCCCGAC
* * * * * **
4848683 ATTGC-AGTCAAATAGATTGAAGCTACAACAGCGAATCTTA-TCTCCCTGGCGATGCAATGGAAC
1 ATTGCAATTCAAA-AGATCGAAGCCACAACGGCGAATCTTACT-TCCCAGGCGATGCAGCGGAAC
* * * *
4848746 AGATTGAAGCTACGA-TGACGAATTTTCCTTTCCCGAC
64 AGATTGAAGCTACGACAG-CGAATCTTACTTCCCCGAC
* * * * *
4848783 ATTGCAACT-AAAAGATTGAAGCCGCAACAGCGAATCTTATTTCC
1 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCC
4848827 TCGGTGAGAC
Statistics
Matches: 1083, Mismatches: 146, Indels: 25
0.86 0.12 0.02
Matches are distributed among these distances:
98 6 0.01
99 268 0.25
100 805 0.74
101 4 0.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.22
Consensus pattern (100 bp):
ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
ATTGAAGCTACGACAGCGAATCTTACTTCCCCGAC
Found at i:4848516 original size:50 final size:50
Alignment explanation
Indices: 4847486--4848826 Score: 770
Period size: 50 Copynumber: 26.9 Consensus size: 50
4847476 AAAACCATAG
* * * * * *
4847486 ATTGCAATTTAAAAGATCGAAGCCACAATGGTGAATCTTATTTCCCAGGC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
* * * * * * *
4847536 AGTGCAGTTGAACAGATTGAAGCTACAACAGCGGATCTTGCTTCCTC-GAC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCC-CAGAC
* * * * * *
4847586 ATTACAATTTAAAAGATCGAAGCCACAACGGTGAATCTTATTTCCCAGGC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
* * * * * * *
4847636 AGTGCAGTTGAACAGATTGAAGCTACAACAGCGGATCTTGCTTCCTC-GAC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCC-CAGAC
* * * * * *
4847686 ATTGCAATTTAAAAGATCGAAGCCACAATGGTGAATCTTATTTCCCAGGC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
** * * * * *
4847736 GA-TGCAACGGAACAGATTGAAACTACGACGGCGAATCTCACTTCCCAGAC
1 -ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
* * * ** * *
4847786 ATTGTAGTTTAAAAGATCAAAGCCACAACGGCGAATCTTATTTCCCAGGC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
*** * ** * * * * *
4847836 GA-TGCAGCGGAACAGATTGAAGTTACAACAGCAAACCTCACTTCCCCGAC
1 -ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
* * * *
4847886 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATTTTACTTCCCAGGC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
* * * * * * * *
4847936 GA-TGCAGTGGAACAGATTGAAGCTACGACGGTGAATCTCACTTCCCCGAC
1 -ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
* *
4847986 ATTGCAATTCAAAAGATTGAAGCCACAACGGCGAATCTTACTT-CCAGCC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
* *** * * * * *
4848035 AATGCAGCGGAACAGATTAAAGCTACGACGGCGAATCTTGCTTCCTC-GAC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCC-CAGAC
* * * *
4848085 ATTGCAATTCAAAAGATCGAAGCCACAACAGCGAATCTTACTTCCCAGGC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
*** * * * * *
4848135 GA-TGCAGCGGAACAGATTGAAGCTACAACAGCGAATCTCACTTCCCCGAC
1 -ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
* * ** *
4848185 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTTTCAGGC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
*** * * * *
4848235 GA-TGCAGCGGAACAA-ATTGAAGCTACGACGACGAATCTTGCTTCCTC-GAC
1 -ATTGCAATTGAA-AAGATTGAAGCCACAACGGCGAATCTTACTTCC-CAGAC
* * * *
4848285 ATTGCAATTCAACAGATTGAAGCCACAACGGTGAATCTTACTTCCCAAGAG
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCC-AGAC
*** * * * * *
4848336 A-TGCAGCGGAACAGATTGAAGCTACGACAGCGAATCTTACTTCCCCGAC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
* * * *
4848385 ATTGCAATTCAAAAGATCGAAGCCACAATGGCGAATCTTACTTCCCAGGC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
** * * * *
4848435 GA-TGCAACGGAAAAGATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
1 -ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
* * * * *
4848485 ATTGCAATTCAAAAGATCGAAGCCATAACGGCGAGTCTTACTT-CCAGGC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
*** * * * * * * * *
4848534 GA-TGCAGCGGAACAGATTAAAGCTACGATGACAAATCTTGCTTCCTC-GAC
1 -ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCC-CAGAC
* * * ** * *
4848584 ATTGCAGTTTAAAATATTGTGGCCACAATGGCGAATCTTACTTCCAAG-C
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
* * * * *
4848633 TATATAGC---GGAACAGATTGAAGCCACAACGGTGAATCTTCCTTCCCCGAC
1 -AT-T-GCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
* * * * * *
4848683 ATTGC-AGTCAAATAGATTGAAGCTACAACAGCGAATCTTA-TCTCCCTGGC
1 ATTGCAATTGAAA-AGATTGAAGCCACAACGGCGAATCTTACT-TCCCAGAC
* * * * * * * *
4848733 GA-TGCAATGGAACAGATTGAAGCTACGATGACGAATTTTCCTTTCCC-GAC
1 -ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTAC-TTCCCAGAC
* * * *
4848783 ATTGCAACT-AAAAGATTGAAGCCGCAACAGCGAATCTTATTTCC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCC
4848827 TCGGTGAGAC
Statistics
Matches: 930, Mismatches: 318, Indels: 88
0.70 0.24 0.07
Matches are distributed among these distances:
47 2 0.00
48 5 0.01
49 139 0.15
50 756 0.81
51 25 0.03
52 3 0.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.22
Consensus pattern (50 bp):
ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
Found at i:4850565 original size:29 final size:27
Alignment explanation
Indices: 4850511--4850580 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 27
4850501 TTATTTGGTG
*
4850511 TTAATTTGTTTA-TTTATTTACATGCT
1 TTAATTTTTTTATTTTATTTACATGCT
4850537 CATT-ATTATTTTTATTTTATTTA-AGTGCT
1 --TTAATT-TTTTTATTTTATTTACA-TGCT
4850566 TTAATTTTTTTATTT
1 TTAATTTTTTTATTT
4850581 GTTTATTTAC
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
27 14 0.38
28 11 0.30
29 12 0.32
ACGTcount: A:0.23, C:0.06, G:0.06, T:0.66
Consensus pattern (27 bp):
TTAATTTTTTTATTTTATTTACATGCT
Found at i:4850594 original size:18 final size:17
Alignment explanation
Indices: 4850569--4850611 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
4850559 AAGTGCTTTA
*
4850569 ATTT-TTTTATTTGTTT
1 ATTTCTTTTATTTGTTG
4850585 ATTTACTTTTATTTGTTG
1 ATTT-CTTTTATTTGTTG
4850603 ATTTCTTTT
1 ATTTCTTTT
4850612 CATTATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 4 0.17
17 5 0.21
18 15 0.62
ACGTcount: A:0.14, C:0.05, G:0.07, T:0.74
Consensus pattern (17 bp):
ATTTCTTTTATTTGTTG
Found at i:4851044 original size:110 final size:109
Alignment explanation
Indices: 4850719--4851248 Score: 798
Period size: 110 Copynumber: 4.9 Consensus size: 109
4850709 ATCAAAAACG
* * * *
4850719 AAAAATTTTTCAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAGCATGCCTTAAGGTGCT
1 AAAAA-TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
*
4850784 GGGTATCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
65 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
*
4850829 AAAAATTTTAAAATAAGGTAATGTTTTGCGTTTGGAAATTCGAGAAAACAT-CCCTTAAGGTGCT
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCC-TAAGGTGCT
*
4850893 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTCT
65 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
*
4850938 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTACT
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTT-GGAAATTCGAGAAAACATGCCCTAAGGTGCT
*
4851003 GGGTGTCGATTTCTCTCGTTCAACCAAATGGCTTAATATCCTTTT
65 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
* *
4851048 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTAGAAATTCGAGAAAATATGCCCTAAGGTGCTG
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
* * * * *
4851113 GGTGTCGATTTTTTCTCATTCAACCAAATAGCTAAATAGCCTTTC
66 GGTGTCGA-TTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
* * *
4851158 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAAATTCGAG-GAACGTGCCCTAAGGTGCT
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGG-AAATTCGAGAAAACATGCCCTAAGGTGCT
* *
4851222 GGGTTTCGA--TTTCTCGTTTAACCAAAT
65 GGGTGTCGATTTTTCTCGTTCAACCAAAT
4851249 TGCCAAATAT
Statistics
Matches: 387, Mismatches: 28, Indels: 13
0.90 0.07 0.03
Matches are distributed among these distances:
107 16 0.04
108 2 0.01
109 163 0.42
110 194 0.50
111 12 0.03
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (109 bp):
AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
Found at i:4851109 original size:219 final size:219
Alignment explanation
Indices: 4850719--4851248 Score: 802
Period size: 219 Copynumber: 2.4 Consensus size: 219
4850709 ATCAAAAACG
* * * *
4850719 AAAAATTTTTCAAATAAGGCAATGTTTTGCGTTT-GGAAATTTGAGAAAGCATGCCTTAAGGTGC
1 AAAAA-TTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGC
*
4850783 TGGGTATCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATAAGGT
65 TGGGTATCGA-TTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATAAGGC
* *
4850848 AATGTTTTGCGTTTGGAAATTCGAGAAAACATCCCTTAAGGTGCTGGGTGTCGA-TTTTTCTCGT
129 AATGTTTTGCGTTTAGAAATTCGAGAAAACATCCCTTAAGGTGCTGGGTGTCGATTTTTTCTCAT
* * *
4850912 TCAACCAAATGGCTTAATATCC-TTC
194 TCAACCAAATAGCTAAATAGCCTTTC
*
4850937 TAAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTAC
1 -AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGC
*
4851002 TGGGTGTCGATTTCTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATAAGGC
65 TGGGTATCGATTT-TCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATAAGGC
*
4851067 AATGTTTTGCGTTTAGAAATTCGAGAAAATATGCCC-TAAGGTGCTGGGTGTCGATTTTTTCTCA
129 AATGTTTTGCGTTTAGAAATTCGAGAAAACAT-CCCTTAAGGTGCTGGGTGTCGATTTTTTCTCA
4851131 TTCAACCAAATAGCTAAATAGCCTTTC
193 TTCAACCAAATAGCTAAATAGCCTTTC
* * * *
4851158 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAAATTCGAG-GAACGTGCCCTAAGGTGCT
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCT
* *
4851222 GGGTTTCGA-TTTCTCGTTTAACCAAAT
66 GGGTATCGATTTTCTCGTTCAACCAAAT
4851249 TGCCAAATAT
Statistics
Matches: 286, Mismatches: 20, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
217 15 0.05
218 32 0.11
219 162 0.57
220 74 0.26
221 3 0.01
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (219 bp):
AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCT
GGGTATCGATTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATAAGGCAA
TGTTTTGCGTTTAGAAATTCGAGAAAACATCCCTTAAGGTGCTGGGTGTCGATTTTTTCTCATTC
AACCAAATAGCTAAATAGCCTTTC
Found at i:4852742 original size:137 final size:138
Alignment explanation
Indices: 4852551--4852826 Score: 437
Period size: 137 Copynumber: 2.0 Consensus size: 138
4852541 TAGATAAAAC
*
4852551 TAATATATAAATTTGATTCATACAAAATATTAATTATATATATTTTACCAAATTTATTAATATAA
1 TAATATATAAATATGATTCATACAAAATATTAATTATATATATTTTACCAAATTTATTAATATAA
* * *
4852616 ACAATTATATTAATTAATTTCGGTCAAAATATAAAATATATGGAAATTAATATTCTTTTGGAAAG
66 ACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGAAAAG
4852681 AATATAAT
131 AATATAAT
* * *
4852689 TAATATATGAATATGATTCATACAAAA-ATTAATTGTATATATTTTACCGAATTTATTAATATAA
1 TAATATATAAATATGATTCATACAAAATATTAATTATATATATTTTACCAAATTTATTAATATAA
* * * * *
4852753 ACAGTTCTATTCATTAATTTTGGTTAAAATATAAAAGACATGGAAATTAATATTCTTTTGAAAAG
66 ACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGAAAAG
4852818 AATATAAT
131 AATATAAT
4852826 T
1 T
4852827 CCTTTTTTTT
Statistics
Matches: 126, Mismatches: 12, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
137 101 0.80
138 25 0.20
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.41
Consensus pattern (138 bp):
TAATATATAAATATGATTCATACAAAATATTAATTATATATATTTTACCAAATTTATTAATATAA
ACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGAAAAG
AATATAAT
Found at i:4852941 original size:75 final size:77
Alignment explanation
Indices: 4852802--4852954 Score: 229
Period size: 75 Copynumber: 2.0 Consensus size: 77
4852792 ATGGAAATTA
* *
4852802 ATATTCTTTTGAAAAGAATATAATTCCTTTTTTTTCTAAATTTTCATTTGTCTTCTCTATTAATA
1 ATATTCTTTTGAAAAGAATATAATTCC-TTTTTTTCTAAATTTCCATTTGCCTTCTCTATTAATA
*
4852867 CGAGAATAATCTT
65 AGAGAATAATCTT
* *
4852880 ATATTCTTTTGGAAAGAATATAATT-C-TTTTTTCTAACTTTCCATTTGCCTTCTCTATTAATAA
1 ATATTCTTTTGAAAAGAATATAATTCCTTTTTTTCTAAATTTCCATTTGCCTTCTCTATTAATAA
*
4852943 GGGAATAATCTT
66 GAGAATAATCTT
4852955 GGTTTTCCTT
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
75 44 0.64
77 1 0.01
78 24 0.35
ACGTcount: A:0.30, C:0.14, G:0.08, T:0.48
Consensus pattern (77 bp):
ATATTCTTTTGAAAAGAATATAATTCCTTTTTTTCTAAATTTCCATTTGCCTTCTCTATTAATAA
GAGAATAATCTT
Found at i:4863592 original size:26 final size:25
Alignment explanation
Indices: 4863547--4863686 Score: 85
Period size: 26 Copynumber: 5.5 Consensus size: 25
4863537 TGGAATACAC
*
4863547 ATATTTTTGTTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
4863573 ATAATTATTTTAAATTATATTTTATA
1 AT-ATTATTTTAAATTATATTTAATA
* * * *
4863599 ATATTATATATTATAATTTTAGTAAATTC
1 ATATTAT-T-TTA-AATTATATTTAA-TA
*
4863628 ATA-TATTTT--ATTA-AATT-AT-
1 ATATTATTTTAAATTATATTTAATA
*
4863647 ATATTTTTATTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
4863673 ATAATTATATTAAA
1 AT-ATTATTTTAAA
4863687 ATATGATTAA
Statistics
Matches: 87, Mismatches: 14, Indels: 26
0.69 0.11 0.20
Matches are distributed among these distances:
19 3 0.03
20 4 0.05
21 3 0.03
22 2 0.02
23 7 0.08
24 3 0.03
25 7 0.08
26 30 0.34
27 13 0.15
28 11 0.13
29 4 0.05
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (25 bp):
ATATTATTTTAAATTATATTTAATA
Found at i:4863604 original size:15 final size:15
Alignment explanation
Indices: 4863560--4863615 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
4863550 TTTTTGTTAA
*
4863560 ATTATATTTAATAAT
1 ATTATATTTTATAAT
*
4863575 AAT-TA-TTT-TAA-
1 ATTATATTTTATAAT
4863586 ATTATATTTTATAAT
1 ATTATATTTTATAAT
*
4863601 ATTATATATTATAAT
1 ATTATATTTTATAAT
4863616 TTTAGTAAAT
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:4863637 original size:18 final size:17
Alignment explanation
Indices: 4863608--4863666 Score: 84
Period size: 18 Copynumber: 3.4 Consensus size: 17
4863598 AATATTATAT
*
4863608 ATTATA-ATTTTAGTAA
1 ATTATATATTTTATTAA
4863624 ATTCATATATTTTATTAA
1 ATT-ATATATTTTATTAA
4863642 ATTATATATTTTTATTAA
1 ATTATATA-TTTTATTAA
4863660 ATTATAT
1 ATTATAT
4863667 TTAATAATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
16 3 0.08
17 8 0.21
18 28 0.72
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (17 bp):
ATTATATATTTTATTAA
Found at i:4863887 original size:44 final size:45
Alignment explanation
Indices: 4863824--4863920 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 45
4863814 CTATTACACC
* *
4863824 TCCATTCCATTCAACCAAACACA-AGA-TTACTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACA-ATAGATTTACTATTACACCTCTAT
* *
4863868 TCCATTACATTCAACCAAACAATTGATTTGCTATTACACCTCTAT
1 TCCATTACATTCAACCAAACAATAGATTTACTATTACACCTCTAT
*
4863913 TCTATTAC
1 TCCATTAC
4863921 GCCTCTATTC
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.48
45 23 0.50
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.34
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAATAGATTTACTATTACACCTCTAT
Found at i:4863919 original size:16 final size:16
Alignment explanation
Indices: 4863900--4863964 Score: 103
Period size: 16 Copynumber: 4.1 Consensus size: 16
4863890 TTGATTTGCT
* *
4863900 ATTACACCTCTATTCT
1 ATTACGCCTCTATTCC
4863916 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
4863932 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
4863948 ATTATGCCTCTATTCC
1 ATTACGCCTCTATTCC
4863964 A
1 A
4863965 ATACTGCAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.22, C:0.34, G:0.05, T:0.40
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:4865211 original size:10 final size:9
Alignment explanation
Indices: 4865193--4865305 Score: 68
Period size: 10 Copynumber: 11.7 Consensus size: 9
4865183 GAAATTTATT
*
4865193 TAAATATTA
1 TAAAAATTA
4865202 TAGAAAATTA
1 TA-AAAATTA
*
4865212 CAAAAAAATTA
1 -TA-AAAATTA
*
4865223 TACAGAATTA
1 TA-AAAATTA
4865233 TGAAAAA-TA
1 T-AAAAATTA
4865242 TAACAAATTA
1 TAA-AAATTA
4865252 TAAAAATTA
1 TAAAAATTA
*
4865261 TTTAAAAACTA
1 --TAAAAATTA
*
4865272 TAAATA-TA
1 TAAAAATTA
4865280 TTAAAAATTA
1 -TAAAAATTA
*
4865290 CAAAATATTA
1 TAAAA-ATTA
4865300 TAAAAA
1 TAAAAA
4865306 CAAATTAAAA
Statistics
Matches: 82, Mismatches: 12, Indels: 20
0.72 0.11 0.18
Matches are distributed among these distances:
8 4 0.05
9 29 0.35
10 32 0.39
11 17 0.21
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (9 bp):
TAAAAATTA
Found at i:4865297 original size:17 final size:18
Alignment explanation
Indices: 4865262--4865304 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
4865252 TAAAAATTAT
*
4865262 TTAAAAACTATAAATATA
1 TTAAAAACTACAAATATA
*
4865280 TTAAAAATTACAAA-ATA
1 TTAAAAACTACAAATATA
4865297 TTATAAAA
1 TTA-AAAA
4865305 ACAAATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (18 bp):
TTAAAAACTACAAATATA
Found at i:4865303 original size:19 final size:19
Alignment explanation
Indices: 4865194--4865305 Score: 63
Period size: 19 Copynumber: 5.7 Consensus size: 19
4865184 AAATTTATTT
4865194 AAATATTATAGAAAATTACAA
1 AAATATTATA-AAAATTAC-A
* * *
4865215 AAAAATTATACAGAATTATGA
1 AAATATTATA-AAAATTA-CA
*
4865236 AAA-A-TATAACAAATTATA
1 AAATATTATAA-AAATTACA
* *
4865254 AAA-ATTATTTAAAAACTA-T
1 AAATATTA--TAAAAATTACA
4865273 AAATA-TATTAAAAATTACA
1 AAATATTA-TAAAAATTACA
4865292 AAATATTATAAAAA
1 AAATATTATAAAAA
4865306 CAAATTAAAA
Statistics
Matches: 73, Mismatches: 10, Indels: 18
0.72 0.10 0.18
Matches are distributed among these distances:
18 15 0.21
19 27 0.37
20 9 0.12
21 22 0.30
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.30
Consensus pattern (19 bp):
AAATATTATAAAAATTACA
Found at i:4875607 original size:16 final size:16
Alignment explanation
Indices: 4875582--4875624 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
4875572 TTGAATTTTT
4875582 GTTA-TAAGAATATTG
1 GTTATTAAGAATATTG
4875597 GTTATTAAGAATATTG
1 GTTATTAAGAATATTG
*
4875613 ATTATTAAGAAT
1 GTTATTAAGAAT
4875625 TTTATTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 4 0.15
16 22 0.85
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (16 bp):
GTTATTAAGAATATTG
Found at i:4875651 original size:18 final size:17
Alignment explanation
Indices: 4875623--4875657 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4875613 ATTATTAAGA
*
4875623 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
4875640 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
4875658 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:4875747 original size:38 final size:40
Alignment explanation
Indices: 4875602--4875880 Score: 139
Period size: 38 Copynumber: 7.0 Consensus size: 40
4875592 TATTGGTTAT
*
4875602 TAAGAATATTGAT-TATTAAGAATTTTATTAAATTATATA
1 TAAGAATATTGATATATTAAGAATTTTAGTAAATTATATA
*** ** * * *
4875641 TTTTAAT-TAAAATATATTTAATAATAATTATGTTAAATTATATT
1 TAAGAATAT-TGATATA-TTAAGAAT-TTTA-G-TAAATTATATA
* * * * *
4875685 TTATAGTA-TCATATATTATG-ATTTTAGTAAATT-TATA
1 TAAGAATATTGATATATTAAGAATTTTAGTAAATTATATA
*
4875722 TAAGAATATTGAT-TATTAAGAATTTTATTAAATTATATA
1 TAAGAATATTGATATATTAAGAATTTTAGTAAATTATATA
*** ** * * *
4875761 TTTTAAT-TAAATATATTTAATAATAATTATGTTAAATTATATT
1 TAAGAATATTGATATA-TTAAGAAT-TTTA-G-TAAATTATATA
* * * * *
4875804 TTATAGTA-TCATATATTATG-ATTTTAGTAAATT-TATA
1 TAAGAATATTGATATATTAAGAATTTTAGTAAATTATATA
*
4875841 TAAGAATATTGAT-TATTAAGAATTTTATTAAATTATATA
1 TAAGAATATTGATATATTAAGAATTTTAGTAAATTATATA
4875880 T
1 T
4875881 TTTAATTAAA
Statistics
Matches: 175, Mismatches: 46, Indels: 38
0.68 0.18 0.15
Matches are distributed among these distances:
37 28 0.16
38 46 0.26
39 23 0.13
40 15 0.09
41 14 0.08
42 9 0.05
43 25 0.14
44 15 0.09
ACGTcount: A:0.43, C:0.01, G:0.06, T:0.50
Consensus pattern (40 bp):
TAAGAATATTGATATATTAAGAATTTTAGTAAATTATATA
Found at i:4875763 original size:17 final size:17
Alignment explanation
Indices: 4875743--4875776 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
4875733 ATTATTAAGA
4875743 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA-TATAT
4875760 ATTTTAATTAAATATAT
1 ATTTTAATTAAATATAT
4875777 TTAATAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTTAATTAAATATAT
Found at i:4875818 original size:119 final size:120
Alignment explanation
Indices: 4875598--4875917 Score: 608
Period size: 119 Copynumber: 2.7 Consensus size: 120
4875588 AGAATATTGG
4875598 TTAT-TAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
1 TTATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
4875662 TAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAAT
66 TAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAAT
4875717 TTATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATT-AAATATATTTAA
1 TTATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
4875781 TAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAAT
66 TAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAAT
*
4875836 TTATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATTTTTTA
1 TTATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATA-TATTTA
4875901 ATAATAATTATGTTAAA
65 ATAATAATTATGTTAAA
4875918 ATATGATTAA
Statistics
Matches: 197, Mismatches: 1, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
119 123 0.62
120 52 0.26
121 22 0.11
ACGTcount: A:0.43, C:0.01, G:0.06, T:0.50
Consensus pattern (120 bp):
TTATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
TAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAAT
Found at i:4876675 original size:12 final size:12
Alignment explanation
Indices: 4876660--4876701 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
4876650 GTTCAATTAT
*
4876660 ATGTTCATGAAC
1 ATGTTCGTGAAC
**
4876672 ATGTTCGTTTA-
1 ATGTTCGTGAAC
4876683 ATGTTCGTGAAC
1 ATGTTCGTGAAC
4876695 ATGTTCG
1 ATGTTCG
4876702 ATTAAGTTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.40
Consensus pattern (12 bp):
ATGTTCGTGAAC
Found at i:4876716 original size:23 final size:23
Alignment explanation
Indices: 4876643--4876722 Score: 99
Period size: 23 Copynumber: 3.4 Consensus size: 23
4876633 ACATTGTTTG
*
4876643 TGAACATGTTCAATTATATGTTCA
1 TGAACATGTTCGATTA-ATGTTCA
* *
4876667 TGAACATGTTCGTTTAATGTTCG
1 TGAACATGTTCGATTAATGTTCA
*
4876690 TGAACATGTTCGATTAA-GTTAAA
1 TGAACATGTTCGATTAATGTT-CA
4876713 TGAACATGTT
1 TGAACATGTT
4876723 AGTGAACATT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
22 3 0.06
23 32 0.65
24 14 0.29
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.40
Consensus pattern (23 bp):
TGAACATGTTCGATTAATGTTCA
Found at i:4883854 original size:18 final size:18
Alignment explanation
Indices: 4883833--4883870 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
4883823 AATTTGGATT
*
4883833 TTTTATAAA-TATTTTTAA
1 TTTTA-AAACTATTTTGAA
4883851 TTTTAAAACTATTTTGAA
1 TTTTAAAACTATTTTGAA
4883869 TT
1 TT
4883871 ATTTTGTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.58
Consensus pattern (18 bp):
TTTTAAAACTATTTTGAA
Found at i:4889684 original size:42 final size:42
Alignment explanation
Indices: 4889637--4889716 Score: 119
Period size: 42 Copynumber: 1.9 Consensus size: 42
4889627 ATGACTTAAT
4889637 TAGTATTAGAGTTAT-T-TGCTAATTAAAATTTAACTTTATAAA
1 TAGTATTAGAGTTATATAT-C-AATTAAAATTTAACTTTATAAA
*
4889679 TAGTATTAGAGTTATATATCGATTAAAATTTAACTTTA
1 TAGTATTAGAGTTATATATCAATTAAAATTTAACTTTA
4889717 ACTTAGCATT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
42 32 0.91
43 2 0.06
44 1 0.03
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (42 bp):
TAGTATTAGAGTTATATATCAATTAAAATTTAACTTTATAAA
Found at i:4894852 original size:21 final size:21
Alignment explanation
Indices: 4894826--4894866 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4894816 AGACGAGCAA
* *
4894826 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
4894847 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
4894867 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:4902345 original size:24 final size:25
Alignment explanation
Indices: 4902294--4902350 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
4902284 TAAAATTACA
4902294 ATATATTATTAGCATCATAAATTTTT
1 ATATATTATTAGCAT-ATAAATTTTT
*
4902320 ATATATTATTAGC-T-TAGATTTATT
1 ATATATTATTAGCATATAAATTT-TT
4902344 ATATATT
1 ATATATT
4902351 TATTTTAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 6 0.21
24 9 0.31
25 1 0.03
26 13 0.45
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (25 bp):
ATATATTATTAGCATATAAATTTTT
Found at i:4903591 original size:18 final size:16
Alignment explanation
Indices: 4903559--4903589 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4903549 AAATCAAATC
4903559 AAAATTATATATATAA
1 AAAATTATATATATAA
*
4903575 AAAATTATATTTATA
1 AAAATTATATATATA
4903590 TATAATATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AAAATTATATATATAA
Found at i:4903604 original size:20 final size:20
Alignment explanation
Indices: 4903566--4903605 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
4903556 ATCAAAATTA
*
4903566 TATATATAAAAAATTATATT
1 TATATATAAAAAATAATATT
* *
4903586 TATATATAATATATAATATT
1 TATATATAAAAAATAATATT
4903606 AAATTAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TATATATAAAAAATAATATT
Found at i:4904697 original size:6 final size:6
Alignment explanation
Indices: 4904686--4904732 Score: 85
Period size: 6 Copynumber: 7.8 Consensus size: 6
4904676 TCATCACTCA
*
4904686 AAAACC AAAACC AAAACC AAAACC AAAACC AAAACC AAAACC CAAAC
1 AAAACC AAAACC AAAACC AAAACC AAAACC AAAACC AAAACC AAAAC
4904733 TTAAACTTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.66, C:0.34, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAACC
Found at i:4909737 original size:7 final size:7
Alignment explanation
Indices: 4909725--4909756 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
4909715 ACTGTTCAGT
4909725 TTTTTTC
1 TTTTTTC
4909732 TTTTTTC
1 TTTTTTC
4909739 -TTTTT-
1 TTTTTTC
4909744 TTTTTTC
1 TTTTTTC
4909751 TTTTTT
1 TTTTTT
4909757 AACTGTGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
6 10 0.43
7 13 0.57
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (7 bp):
TTTTTTC
Found at i:4909747 original size:12 final size:12
Alignment explanation
Indices: 4909726--4909756 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
4909716 CTGTTCAGTT
4909726 TTTTTCTTTTTTC
1 TTTTT-TTTTTTC
4909739 TTTTTTTTTTTC
1 TTTTTTTTTTTC
4909751 TTTTTT
1 TTTTTT
4909757 AACTGTGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.72
13 5 0.28
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (12 bp):
TTTTTTTTTTTC
Found at i:4924560 original size:10 final size:10
Alignment explanation
Indices: 4924545--4924569 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
4924535 TTCATTAAAA
4924545 TATTATTTAT
1 TATTATTTAT
4924555 TATTATTTAT
1 TATTATTTAT
4924565 TATTA
1 TATTA
4924570 AAATATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
TATTATTTAT
Found at i:4924698 original size:14 final size:15
Alignment explanation
Indices: 4924673--4924702 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
4924663 ACCTATCTCA
4924673 TTTTTGTAATTATTT
1 TTTTTGTAATTATTT
4924688 TTTTTGT-ATTATTT
1 TTTTTGTAATTATTT
4924702 T
1 T
4924703 GATAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.77
Consensus pattern (15 bp):
TTTTTGTAATTATTT
Found at i:4926520 original size:24 final size:25
Alignment explanation
Indices: 4926493--4926540 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
4926483 AGAAGAAAGT
4926493 TTAAAGAACATAAAA-GAAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAAA
** *
4926517 TTAAATTACTTAAAACGAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAA
4926541 TATGGGGATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.19
Consensus pattern (25 bp):
TTAAAGAACATAAAACGAAAAAAAA
Found at i:4929238 original size:21 final size:20
Alignment explanation
Indices: 4929206--4929249 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 20
4929196 TATGTTAAAT
4929206 TTATTTTTATTATTAT-ATTA
1 TTATTTTTATTA-TATGATTA
4929226 TTATTTTTAATTATATGATTA
1 TTATTTTT-ATTATATGATTA
4929247 TTA
1 TTA
4929250 AGTGAGTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (20 bp):
TTATTTTTATTATATGATTA
Found at i:4929240 original size:18 final size:19
Alignment explanation
Indices: 4929206--4929248 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
4929196 TATGTTAAAT
*
4929206 TTATTTTTATTATTATATTA
1 TTATTTTTA-TATTATATGA
4929226 TTATTTTTA-ATTATATGA
1 TTATTTTTATATTATATGA
4929244 TTATT
1 TTATT
4929249 AAGTGAGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 13 0.59
20 9 0.41
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
TTATTTTTATATTATATGA
Found at i:4930465 original size:19 final size:19
Alignment explanation
Indices: 4930427--4930473 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
4930417 GATAACAAGG
* *
4930427 AAATCTTAGAAATATGGGT
1 AAATCTTAGAAATTTTGGT
*
4930446 AAATTTTAGAAATTTTGGT
1 AAATCTTAGAAATTTTGGT
4930465 ATAATCTTA
1 A-AATCTTA
4930474 AATTTTTTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.40, C:0.04, G:0.15, T:0.40
Consensus pattern (19 bp):
AAATCTTAGAAATTTTGGT
Found at i:4930548 original size:20 final size:20
Alignment explanation
Indices: 4930520--4930557 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4930510 CTTAATTTTT
* *
4930520 TTTTTGTAAATCGTTAAATG
1 TTTTGGTAAATCATTAAATG
4930540 TTTTGGTAAATCATTAAA
1 TTTTGGTAAATCATTAAA
4930558 AAGATTTTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.05, G:0.13, T:0.47
Consensus pattern (20 bp):
TTTTGGTAAATCATTAAATG
Found at i:4936750 original size:18 final size:18
Alignment explanation
Indices: 4936723--4936812 Score: 135
Period size: 18 Copynumber: 5.0 Consensus size: 18
4936713 CCCAACTACT
*
4936723 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
4936741 GTATATGTGAATAGTACC
1 GTATACGTGAATAGTACC
* *
4936759 GTATACGTAAATAGTAAC
1 GTATACGTGAATAGTACC
*
4936777 GTATACATGAATAGTACC
1 GTATACGTGAATAGTACC
4936795 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
4936813 ATAAACGGTC
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:4939117 original size:25 final size:26
Alignment explanation
Indices: 4939072--4939131 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
4939062 AGATTTTAAC
4939072 ATATTTATTTATATTTATTTAT-TGTT
1 ATATTTATTTATATTTATTTATGT-TT
4939098 ATATTT-TTTAATATTT-TTTATGTTT
1 ATATTTATTT-ATATTTATTTATGTTT
4939123 ATATATTAT
1 ATAT-TTAT
4939132 AGGTATTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
25 14 0.47
26 15 0.50
27 1 0.03
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (26 bp):
ATATTTATTTATATTTATTTATGTTT
Found at i:4941541 original size:25 final size:25
Alignment explanation
Indices: 4941507--4941556 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
4941497 GAGAACTATT
4941507 AAATAAGATGC-ATCCAATGCTAAAG
1 AAATAAGATGCGA-CCAATGCTAAAG
4941532 AAATAAGATGCGACCAATGCTAAAG
1 AAATAAGATGCGACCAATGCTAAAG
4941557 TTGACTCTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 23 0.96
26 1 0.04
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (25 bp):
AAATAAGATGCGACCAATGCTAAAG
Found at i:4949082 original size:29 final size:30
Alignment explanation
Indices: 4949034--4949092 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
4949024 TACGTTTTAA
**
4949034 TGTGTAATTCTATATGT-AAACTTTGATTT
1 TGTGTAATTCTATACATAAAACTTTGATTT
* *
4949063 TGTGTAATTTTATACATAAAATTTTGATTT
1 TGTGTAATTCTATACATAAAACTTTGATTT
4949093 AATCCAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.31, C:0.05, G:0.12, T:0.53
Consensus pattern (30 bp):
TGTGTAATTCTATACATAAAACTTTGATTT
Found at i:4959649 original size:40 final size:39
Alignment explanation
Indices: 4959557--4959652 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 39
4959547 ATAACGCAAG
**
4959557 AAAACGCTTCCTCAAGGAAGCGCTTTGTCCACGTGGACA
1 AAAACGCTTCCTTGAGGAAGCGCTTTGTCCACGTGGACA
* * *
4959596 GAAAACACATCCTTGAGGACGCGCTTTGTGTCCACGTGGAC-
1 -AAAACGCTTCCTTGAGGAAGCGC-TT-TGTCCACGTGGACA
*
4959637 AAAGCGCTTCCTTGAG
1 AAAACGCTTCCTTGAG
4959653 TTTGCGTTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
40 31 0.67
41 2 0.04
42 13 0.28
ACGTcount: A:0.26, C:0.27, G:0.25, T:0.22
Consensus pattern (39 bp):
AAAACGCTTCCTTGAGGAAGCGCTTTGTCCACGTGGACA
Found at i:4962213 original size:100 final size:100
Alignment explanation
Indices: 4962036--4962250 Score: 378
Period size: 100 Copynumber: 2.1 Consensus size: 100
4962026 CAGACATTGA
* * *
4962036 TTTT-TATTTTAATATATTTGTACAAATATTTTGAATATTTTTATATTATTTCATGTAATAAAAT
1 TTTTATATTTTAATATATTTGTACAAACATTTTGAATATTTTTATATTATTTAATATAATAAAAT
*
4962100 AGAAGGTTGTTTTGAATAAAGTAATTGTAATTTAC
66 AAAAGGTTGTTTTGAATAAAGTAATTGTAATTTAC
4962135 TTTTATATTTTAATATATTTGTACAAACATTTTGAATATTTTTATATTATTTAATATAATAAAAT
1 TTTTATATTTTAATATATTTGTACAAACATTTTGAATATTTTTATATTATTTAATATAATAAAAT
4962200 AAAAGGTTGTTTTGAATAAAGTAATTGTAATTTAC
66 AAAAGGTTGTTTTGAATAAAGTAATTGTAATTTAC
4962235 TTTTATATTTTTAATA
1 TTTTATA-TTTTAATA
4962251 AAATAGAAAT
Statistics
Matches: 110, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
99 4 0.04
100 98 0.89
101 8 0.07
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (100 bp):
TTTTATATTTTAATATATTTGTACAAACATTTTGAATATTTTTATATTATTTAATATAATAAAAT
AAAAGGTTGTTTTGAATAAAGTAATTGTAATTTAC
Found at i:4964871 original size:126 final size:126
Alignment explanation
Indices: 4964639--4964926 Score: 400
Period size: 126 Copynumber: 2.3 Consensus size: 126
4964629 GCCAAATAGG
* * * * * *
4964639 AACTACTGTAACAAAAGAGCGTCCACGTGGGAGCTTCTTTCAATATTTTTTCTGACATTGCATCC
1 AACTACTGTAGCAAAAGAGCGTCCACGTGAGAGCTTCTTTCAATACTTTTGCTAACAATGCATCC
* *
4964704 TGCTTGAAGCATTTTTTACACTATTTGCTCAGAAACATCTTCTAAAAATTATTTTTTCAAA
66 TGCTTGAAGCATTTTTGACACTATTTGCTCAGAAACATCTTCTAAAAATTATATTTTCAAA
* * *
4964765 AACTTCTGTAGCAAAATAGCGTCCACGTGAGAGCTTCTTTCAGTACTTTTGCTAACAATGCATCC
1 AACTACTGTAGCAAAAGAGCGTCCACGTGAGAGCTTCTTTCAATACTTTTGCTAACAATGCATCC
* * * **
4964830 TGCTT-AAGGCGTTTTTGACACTATTTGCTCAGAAACGTCTTCTCAAAATTATATTTTCAGG
66 TGCTTGAA-GCATTTTTGACACTATTTGCTCAGAAACATCTTCTAAAAATTATATTTTCAAA
4964891 AACTACTGTAGCAAAAGAGCGTCCACGT-AGGAGCTT
1 AACTACTGTAGCAAAAGAGCGTCCACGTGA-GAGCTT
4964927 TTTTAAATTA
Statistics
Matches: 142, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
125 3 0.02
126 139 0.98
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (126 bp):
AACTACTGTAGCAAAAGAGCGTCCACGTGAGAGCTTCTTTCAATACTTTTGCTAACAATGCATCC
TGCTTGAAGCATTTTTGACACTATTTGCTCAGAAACATCTTCTAAAAATTATATTTTCAAA
Found at i:4965250 original size:97 final size:97
Alignment explanation
Indices: 4964965--4965392 Score: 609
Period size: 98 Copynumber: 4.4 Consensus size: 97
4964955 CTTAAACCCC
* *
4964965 AAACCCTAATTTATTTAATTTTTTTATTAAAAGTCCTAAACACTAAACCCTAATCTAATTTTTTT
1 AAACCCTAATTTATTTAATTTTTTTCTTAAAAATCCTAAACACTAAACCCTAATCTAATTTTTTT
*
4965030 AAAAAATTATAATTAATTTACTCAAGTAACCCT
66 AAAAATTTATAATTAATTTACTCAAGTAA-CCT
* *
4965063 AAACCCTAATTTATTTAATTTTTTTCTTAAAAACCCTAAACCCTAAACCCTAATCTAATTTTTTT
1 AAACCCTAATTTATTTAATTTTTTTCTTAAAAATCCTAAACACTAAACCCTAATCTAATTTTTTT
* *
4965128 TAAAATTTATAATTAATTTACTCAAGCAACTCT
66 AAAAATTTATAATTAATTTACTCAAGTAAC-CT
*
4965161 AAACCCTAATTTATTTGATTTTTTTCTTAAAAATCCTAAACACTAAACCCTAATCTAA-TTTTTT
1 AAACCCTAATTTATTTAATTTTTTTCTTAAAAATCCTAAACACTAAACCCTAATCTAATTTTTTT
4965225 AAAAATTTATAATTAATTTACTCAAGTAACCT
66 AAAAATTTATAATTAATTTACTCAAGTAACCT
* *
4965257 AAACCCTAATTTATTTGA--TTTTCCTTAAAAA-CCATAAACACTAAACCCTAATCTAA-TTTTT
1 AAACCCTAATTTATTTAATTTTTTTCTTAAAAATCC-TAAACACTAAACCCTAATCTAATTTTTT
* * *
4965318 T-AAAATTTATAATTAATTTAATTAAGAAAACCT
65 TAAAAATTTATAATTAATTTACTCAAG-TAACCT
* *
4965351 AAACCCTAAACCCTTATTTAATTTTTTCCTT-AAAATCCTAAA
1 AAACCCT-AA--TTTATTTAATTTTTTTCTTAAAAATCCTAAA
4965393 ATCTAAAAAC
Statistics
Matches: 303, Mismatches: 18, Indels: 18
0.89 0.05 0.05
Matches are distributed among these distances:
93 25 0.08
94 52 0.17
95 2 0.01
96 20 0.07
97 42 0.14
98 152 0.50
99 10 0.03
ACGTcount: A:0.40, C:0.18, G:0.02, T:0.40
Consensus pattern (97 bp):
AAACCCTAATTTATTTAATTTTTTTCTTAAAAATCCTAAACACTAAACCCTAATCTAATTTTTTT
AAAAATTTATAATTAATTTACTCAAGTAACCT
Found at i:4996228 original size:16 final size:16
Alignment explanation
Indices: 4996203--4996245 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
4996193 TTGAATTTTT
4996203 GTTA-TAAGAATATTG
1 GTTATTAAGAATATTG
4996218 GTTATTAAGAATATTG
1 GTTATTAAGAATATTG
*
4996234 ATTATTAAGAAT
1 GTTATTAAGAAT
4996246 TTTATTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 4 0.15
16 22 0.85
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (16 bp):
GTTATTAAGAATATTG
Found at i:4996272 original size:18 final size:17
Alignment explanation
Indices: 4996244--4996278 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4996234 ATTATTAAGA
*
4996244 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
4996261 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
4996279 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:4996392 original size:18 final size:17
Alignment explanation
Indices: 4996364--4996398 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4996354 ATTATTAAGA
*
4996364 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
4996381 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
4996399 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:4996436 original size:120 final size:120
Alignment explanation
Indices: 4996223--4996658 Score: 845
Period size: 120 Copynumber: 3.6 Consensus size: 120
4996213 TATTGGTTAT
4996223 TAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATA
1 TAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATA
* *
4996288 ATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAATAAATTTATA
66 ATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAATTGATA
4996343 TAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATA
1 TAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATA
4996408 ATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAATTGATA
66 ATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAATTGATA
4996463 TAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATA
1 TAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATA
4996528 ATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAATTGATA
66 ATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAATTGATA
*
4996583 TAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATTTTTAATAATA
1 TAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATA
4996648 ATTATGTTAAA
66 ATTATGTTAAA
4996659 ATATGATTAA
Statistics
Matches: 313, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 313 1.00
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.49
Consensus pattern (120 bp):
TAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATA
ATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAATTGATA
Found at i:4996512 original size:18 final size:17
Alignment explanation
Indices: 4996484--4996518 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4996474 ATTATTAAGA
*
4996484 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
4996501 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
4996519 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:4996892 original size:16 final size:16
Alignment explanation
Indices: 4996871--4996919 Score: 89
Period size: 16 Copynumber: 3.1 Consensus size: 16
4996861 TTGAATTGTT
4996871 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
4996887 ATTACGCCTCTATCCC
1 ATTACGCCTCTATTCC
4996903 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
4996919 A
1 A
4996920 ATACAGCGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.20, C:0.39, G:0.06, T:0.35
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:4997935 original size:21 final size:21
Alignment explanation
Indices: 4997911--4997977 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
4997901 AAAAAAACAA
4997911 AACAAAGAAAGATGAAAATGT
1 AACAAAGAAAGATGAAAATGT
** *
4997932 AAC-AA-ATTGAT-AACAT-T
1 AACAAAGAAAGATGAAAATGT
4997949 AATACAAAGAAAGATGAAAATGT
1 -A-ACAAAGAAAGATGAAAATGT
4997972 AACAAA
1 AACAAA
4997978 TTGATAACAT
Statistics
Matches: 34, Mismatches: 6, Indels: 12
0.65 0.12 0.23
Matches are distributed among these distances:
17 1 0.03
18 5 0.15
19 6 0.18
20 4 0.12
21 12 0.35
22 5 0.15
23 1 0.03
ACGTcount: A:0.61, C:0.07, G:0.13, T:0.18
Consensus pattern (21 bp):
AACAAAGAAAGATGAAAATGT
Found at i:4997967 original size:40 final size:40
Alignment explanation
Indices: 4997912--4997991 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
4997902 AAAAAACAAA
4997912 ACAAAGAAAGATGAAAATGTAACAAATTGATAACATTAAT
1 ACAAAGAAAGATGAAAATGTAACAAATTGATAACATTAAT
4997952 ACAAAGAAAGATGAAAATGTAACAAATTGATAACATTAAT
1 ACAAAGAAAGATGAAAATGTAACAAATTGATAACATTAAT
4997992 GACTACTATG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.57, C:0.07, G:0.12, T:0.23
Consensus pattern (40 bp):
ACAAAGAAAGATGAAAATGTAACAAATTGATAACATTAAT
Found at i:4998043 original size:30 final size:31
Alignment explanation
Indices: 4997968--4998044 Score: 84
Period size: 33 Copynumber: 2.5 Consensus size: 31
4997958 AAAGATGAAA
**
4997968 ATGTAACAAATTGATAACATTAATGACTACT
1 ATGTAACATTTTGATAACATTAATGACTACT
* * *
4997999 ATGTAACAAGTTTTGATAACATTAGTTACTATT
1 ATGTAAC-A-TTTTGATAACATTAATGACTACT
4998032 ATGTAAC-TTTTGA
1 ATGTAACATTTTGA
4998045 AAGTTGGGTG
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
30 6 0.15
31 7 0.18
32 1 0.03
33 25 0.64
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (31 bp):
ATGTAACATTTTGATAACATTAATGACTACT
Found at i:5001024 original size:120 final size:118
Alignment explanation
Indices: 5000857--5001100 Score: 298
Period size: 120 Copynumber: 2.1 Consensus size: 118
5000847 TTTCACAGGC
* * * *
5000857 AAGCCTACAAGAAAATTACTAACTGATTCCATCTTTATGTTTCATGTATTAGC-AAATATTTCCT
1 AAGCCTACAAGAAAATTACTAACTGATTCCATCTTTATGGTTCATGTATTAACAAAAAAGTTCCT
*
5000921 TTAATCTTTCACTAATCTTT-TACACCATTTTTTTCTCATTCATTACCTTCAGAAAT
66 TTAATCTTTCACTAATCTTTCGA-ACC---TTTTTCTCATTCATTACCTTCAGAAAT
* * * *
5000977 AAGCCTGCAAGTAAA-TAGCTAATTGGTTCCATCTTTA-GGTTCAATGTATTAACAAAAAAGTTC
1 AAGCCTACAAGAAAATTA-CTAACTGATTCCATCTTTATGGTTC-ATGTATTAACAAAAAAGTTC
* * *
5001040 CTTTAATCTTTCATTAATCTTTCGAACCTTTTTCTCATTCATTACTTTCATAAAT
64 CTTTAATCTTTCACTAATCTTTCGAACCTTTTTCTCATTCATTACCTTCAGAAAT
5001095 AAGCCT
1 AAGCCT
5001101 TACTTCCAAT
Statistics
Matches: 108, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
118 31 0.29
119 6 0.06
120 39 0.36
121 31 0.29
122 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.41
Consensus pattern (118 bp):
AAGCCTACAAGAAAATTACTAACTGATTCCATCTTTATGGTTCATGTATTAACAAAAAAGTTCCT
TTAATCTTTCACTAATCTTTCGAACCTTTTTCTCATTCATTACCTTCAGAAAT
Found at i:5004883 original size:24 final size:24
Alignment explanation
Indices: 5004856--5004901 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
5004846 GAAAGAACAT
* *
5004856 GATAGAGATGAAGATTAAGATGGA
1 GATAGAGATGAAAATGAAGATGGA
*
5004880 GATAGAGGTGAAAATGAAGATG
1 GATAGAGATGAAAATGAAGATG
5004902 ATAAGAGGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.35, T:0.20
Consensus pattern (24 bp):
GATAGAGATGAAAATGAAGATGGA
Found at i:5005490 original size:16 final size:17
Alignment explanation
Indices: 5005469--5005511 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
5005459 TTAATCATTT
5005469 TAATATTAAATT-AATA
1 TAATATTAAATTAAATA
* *
5005485 TAATA-TAGATTAAATT
1 TAATATTAAATTAAATA
5005501 TAATATTAAAT
1 TAATATTAAAT
5005512 CTTATTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 5 0.23
16 13 0.59
17 4 0.18
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
TAATATTAAATTAAATA
Found at i:5005596 original size:11 final size:11
Alignment explanation
Indices: 5005582--5005657 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
5005572 GATAATAACT
5005582 TTAATATTAAA
1 TTAATATTAAA
5005593 TTAATA--AAA
1 TTAATATTAAA
*
5005602 -TACTATTAAGA
1 TTAATATTAA-A
*
5005613 TAAATATTAAA
1 TTAATATTAAA
5005624 TTTAAT-TTAATA
1 -TTAATATTAA-A
5005636 TTAAATTATTAAA
1 TT-AA-TATTAAA
*
5005649 ATAATATTA
1 TTAATATTA
5005658 TTTTTGAAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
8 4 0.08
9 3 0.06
10 2 0.04
11 19 0.37
12 16 0.31
13 3 0.06
14 4 0.08
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:5005597 original size:20 final size:19
Alignment explanation
Indices: 5005550--5005599 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
5005540 CAAAATAAAC
5005550 ATTAAATT-A-AATTTAAT
1 ATTAAATTAATAATTTAAT
5005567 ATTAAGA-TAATAACTTTAAT
1 ATTAA-ATTAATAA-TTTAAT
5005587 ATTAAATTAATAA
1 ATTAAATTAATAA
5005600 AATACTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 6 0.21
18 2 0.07
19 3 0.11
20 17 0.61
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (19 bp):
ATTAAATTAATAATTTAAT
Found at i:5005999 original size:3 final size:3
Alignment explanation
Indices: 5005991--5006028 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
5005981 GATAATCATG
5005991 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
5006029 AATTTATGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Done.