Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007980.1 Hibiscus syriacus cultivar Beakdansim tig00110419_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1499237
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 8
Found at i:7053 original size:21 final size:21
Alignment explanation
Indices: 7027--7081 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
7017 CAACCCTGAA
7027 GTATCGATACTCCTCTTGAGC
1 GTATCGATACTCCTCTTGAGC
7048 GTATCGATACTCCTCTTGAGC
1 GTATCGATACTCCTCTTGAGC
*
7069 GTATCAATACTCC
1 GTATCGATACTCC
7082 CTTTCAACTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.33
Consensus pattern (21 bp):
GTATCGATACTCCTCTTGAGC
Found at i:7889 original size:13 final size:13
Alignment explanation
Indices: 7871--7896 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7861 TGTTGTCCCT
7871 CAACTTTTAAACC
1 CAACTTTTAAACC
7884 CAACTTTTAAACC
1 CAACTTTTAAACC
7897 ACCACTCAAC
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:0.31, G:0.00, T:0.31
Consensus pattern (13 bp):
CAACTTTTAAACC
Found at i:11308 original size:14 final size:15
Alignment explanation
Indices: 11289--11323 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
11279 TCACAATTAC
*
11289 AAGCAAATTGTCC-A
1 AAGCAAACTGTCCAA
11303 AAGCAAACTGTCCAA
1 AAGCAAACTGTCCAA
11318 AAGCAA
1 AAGCAA
11324 CGCTTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.49, C:0.23, G:0.14, T:0.14
Consensus pattern (15 bp):
AAGCAAACTGTCCAA
Found at i:13002 original size:2 final size:2
Alignment explanation
Indices: 12995--13042 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
12985 ATACATGTAC
12995 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13037 AT AT AT
1 AT AT AT
13043 GATGATGATG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16963 original size:23 final size:22
Alignment explanation
Indices: 16937--16992 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
16927 TTAGGGGTTA
** *
16937 TTTTAAAATTTATGTTTTTCTTT
1 TTTTAAAATTTATAATTTT-ATT
* *
16960 TTTTATAATATATAATTTTATT
1 TTTTAAAATTTATAATTTTATT
16982 TTTTAAAATTT
1 TTTTAAAATTT
16993 TATATAAAAT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
22 11 0.42
23 15 0.58
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (22 bp):
TTTTAAAATTTATAATTTTATT
Found at i:22517 original size:13 final size:12
Alignment explanation
Indices: 22502--22536 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
22492 CATATGGTAT
22502 TTTTATTATTTA
1 TTTTATTATTTA
*
22514 TTTTATATATGTA
1 TTTTAT-TATTTA
22527 TTTTATTATT
1 TTTTATTATT
22537 ATTGTGATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (12 bp):
TTTTATTATTTA
Found at i:31686 original size:18 final size:19
Alignment explanation
Indices: 31651--31687 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
31641 CACGAAATGT
31651 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
31671 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
31688 TGATTACTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:34093 original size:3 final size:3
Alignment explanation
Indices: 34085--34113 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
34075 TGTTAAATTA
34085 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
34114 GTGTAAGTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:34594 original size:31 final size:32
Alignment explanation
Indices: 34524--34608 Score: 109
Period size: 32 Copynumber: 2.7 Consensus size: 32
34514 CTAAAAATTT
* * ** *
34524 AGGTACTAAAATCAAACAAAAAGTTAATGGTG
1 AGGTATTAAAATGAAACAAAAAGTTAATCATC
*
34556 AGGTATTAAAATGAAGCAAAAAGTTAA-CATC
1 AGGTATTAAAATGAAACAAAAAGTTAATCATC
34587 AGGTATTAAAATGAAACAAAAA
1 AGGTATTAAAATGAAACAAAAA
34609 TAAATATTAG
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
31 22 0.48
32 24 0.52
ACGTcount: A:0.54, C:0.08, G:0.16, T:0.21
Consensus pattern (32 bp):
AGGTATTAAAATGAAACAAAAAGTTAATCATC
Found at i:37230 original size:199 final size:199
Alignment explanation
Indices: 36885--37269 Score: 682
Period size: 199 Copynumber: 1.9 Consensus size: 199
36875 TAGGTGGAGA
36885 AGATGATCCTCTTCCCCAGAAGCACTTTCCTCATGTGCATCAGGATCTTGATGCTGGTGCTCTCT
1 AGATGATCCTCTTCCCCAGAAGCACTTTCCTCATGTGCATCAGGATCTTGATGCTGGTGCTCTCT
36950 TTTATTGGTAATGCTCAATCCCACGTTGAGTGGGAAATACATTGTGATTGAATATTTAATGTTCA
66 TTTATTGGTAATGCTCAATCCCACGTTGAGTGGGAAATACATTGTGATTGAATATTTAATGTTCA
* *
37015 CATTTTCTACTCCCTTGTTGAGTGATAGAAAATAAGGG-GACTTCTCGCGCGCCACTACTGTTCG
131 CATTCTCTACTCCCTTGTTGAGTGATAGAAAACAAGGGAG-CTTCTCGCGCGCCACTACTGTTCG
37079 GCTCG
195 GCTCG
* * *
37084 AGATGATCCTCTTCCGCAGAAGCACTTTCCTCATGTGGATCAGGATCTTGATGTTGGTGCTCTCT
1 AGATGATCCTCTTCCCCAGAAGCACTTTCCTCATGTGCATCAGGATCTTGATGCTGGTGCTCTCT
* *
37149 TTTATTGGTAATGCTCAATCCCACGTTGAGTGGGAAATACATTGTGATTGGATATTTAATGTTTA
66 TTTATTGGTAATGCTCAATCCCACGTTGAGTGGGAAATACATTGTGATTGAATATTTAATGTTCA
*
37214 CATTCTCTATTCCCTTGTTGAGTGATAGAAAACAAGGGAGCTTCTCGCGCGCCACT
131 CATTCTCTACTCCCTTGTTGAGTGATAGAAAACAAGGGAGCTTCTCGCGCGCCACT
37270 GTCATTCGGC
Statistics
Matches: 177, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
199 176 0.99
200 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.34
Consensus pattern (199 bp):
AGATGATCCTCTTCCCCAGAAGCACTTTCCTCATGTGCATCAGGATCTTGATGCTGGTGCTCTCT
TTTATTGGTAATGCTCAATCCCACGTTGAGTGGGAAATACATTGTGATTGAATATTTAATGTTCA
CATTCTCTACTCCCTTGTTGAGTGATAGAAAACAAGGGAGCTTCTCGCGCGCCACTACTGTTCGG
CTCG
Found at i:39355 original size:14 final size:14
Alignment explanation
Indices: 39336--39364 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
39326 ACTACCAGTT
39336 TTAGTCCATTTTAA
1 TTAGTCCATTTTAA
39350 TTAGTCCATTTTAA
1 TTAGTCCATTTTAA
39364 T
1 T
39365 AGCTAAACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.52
Consensus pattern (14 bp):
TTAGTCCATTTTAA
Found at i:40028 original size:20 final size:19
Alignment explanation
Indices: 40003--40060 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 19
39993 TGAAACTTGC
40003 AATTTTTTTTATAATTTTGA
1 AATTTTTTTTATAATTTT-A
* * *
40023 AATTTTATTTTCTTATTATA
1 AATTTT-TTTTATAATTTTA
* *
40043 AATTTTCTTGATAATTTT
1 AATTTTTTTTATAATTTT
40061 TTATGATTAT
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
19 7 0.24
20 13 0.45
21 9 0.31
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.64
Consensus pattern (19 bp):
AATTTTTTTTATAATTTTA
Found at i:41016 original size:34 final size:33
Alignment explanation
Indices: 40974--41079 Score: 140
Period size: 34 Copynumber: 3.1 Consensus size: 33
40964 TATGAAGCAT
40974 ATATACTGATCGAATAAGAGCGAGCACAAGAAAC
1 ATATACTGA-CGAATAAGAGCGAGCACAAGAAAC
* *
41008 ATATACTGACCAAATAACAGCGAGCACAAGAAAC
1 ATATACTGA-CGAATAAGAGCGAGCACAAGAAAC
* * *
41042 ATATACTGACTGAATAAGAGCAACCACAAGAAAT
1 ATATACTGAC-GAATAAGAGCGAGCACAAGAAAC
41076 ATAT
1 ATAT
41080 GTGGCTCCCC
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 1 0.02
34 62 0.98
ACGTcount: A:0.49, C:0.19, G:0.16, T:0.16
Consensus pattern (33 bp):
ATATACTGACGAATAAGAGCGAGCACAAGAAAC
Found at i:41863 original size:26 final size:26
Alignment explanation
Indices: 41834--41888 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
41824 TTTTCAAAAT
* * * *
41834 TAAAACTATTATTTATTTATTTTGAA
1 TAAAAATATTACTTATTTATATCGAA
41860 TAAAAATATTACTTATTTATATCGAA
1 TAAAAATATTACTTATTTATATCGAA
41886 TAA
1 TAA
41889 CCGAGTTCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (26 bp):
TAAAAATATTACTTATTTATATCGAA
Found at i:44222 original size:21 final size:21
Alignment explanation
Indices: 44196--44239 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
44186 TTGATCCAAT
44196 GTTTGTTCTTTTCTCTAGATG
1 GTTTGTTCTTTTCTCTAGATG
44217 GTTTGTTCTTTTCTCTAGATG
1 GTTTGTTCTTTTCTCTAGATG
44238 GT
1 GT
44240 CGTAGATGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.09, C:0.14, G:0.20, T:0.57
Consensus pattern (21 bp):
GTTTGTTCTTTTCTCTAGATG
Found at i:47365 original size:193 final size:194
Alignment explanation
Indices: 46971--47766 Score: 611
Period size: 194 Copynumber: 4.1 Consensus size: 194
46961 TGTTTCAAAT
* *** * * * * * *
46971 CATTTTCAACATGATTTTTACGTTGCTTACAATGTCTTGTATCTGTCAATACTAGCCTCAATTGA
1 CATTTTCAACGTGATTTTTACCCCGCTTATAATGTC-TCTATGTGCCGATATTAG-CTCAATTGA
* * * * * * *
47036 AACATAAG-TACCAATACAACACATCTAATCTTGTCAATTAC-AAAA-TTTCATATTAACT-TCC
64 AAGATAAGTTA-CAATACTACGCCTCTAATCTTATAAATTACGAAAATTTTTATATTAACTATCC
* * * * * * * * *
47097 TGAAAATACTCCTCGAACATGCTTATCAGCCA--TTAG---CTTCAATCACGCACAAACCAAGTT
128 --AAAAAACT-CTCGAATATGCCTATCAACCATTTTAGTTTTTTC-TTCATGCACAAAACAAGCT
*
47157 TTGGAA
189 TTGAAA
47163 CTATTTTCAACGTGATTTTTACCCCGCTTATAATGTCTC-ATGTGCCGATATTAGCTTCAATTGA
1 C-ATTTTCAACGTGATTTTTACCCCGCTTATAATGTCTCTATGTGCCGATATTAGC-TCAATTGA
* *
47227 AAGAT-AGTTACAATACTAGGCCTCTAATCTTAT-AATTACGAAAATTTTTATATTAACTACCCA
64 AAGATAAGTTACAATACTACGCCTCTAATCTTATAAATTACGAAAATTTTTATATTAACTATCC-
47290 AAAAAAACTCTCGAATATGCCTATCAACCATTTTAGTTTTTTC-TCATGCACAAAACAAG-TTTG
128 -AAAAAACTCTCGAATATGCCTATCAACCATTTTAGTTTTTTCTTCATGCACAAAACAAGCTTTG
47353 AAA
192 AAA
** * * * * * *
47356 CATTTTTCAAC-ACAATTTTACACCGCTTACAATTTC-CGTATGTGCCGATACTAGCCCAATTG-
1 CA-TTTTCAACGTGATTTTTACCCCGCTTATAATGTCTC-TATGTGCCGATATTAGCTCAATTGA
* * * *
47418 AAGCATAAG-TACTAATACTACGTCTCTAATCTTATAAATTACGATAA-TGTTAT-CTAACT-TC
64 AAG-ATAAGTTAC-AATACTACGCCTCTAATCTTATAAATTACGAAAATTTTTATATTAACTATC
* ** * * *
47479 CGAATATGCTCAT-GAATATGCCTATCAAGCCATTTTAGTTTCTTCTTTATGCATAAAACCAAGC
127 C-AAAAAACTC-TCGAATATGCCTATCAA-CCATTTTAGTTTTTTCTTCATGCACAAAA-CAAGC
*
47543 TTTGGAAC
188 TTT-GAAA
* * * * * *
47551 CATTTTCAACGGGACTTTTAACACGC-TATAATGTCTCTATGCGCCGATATTAGCATCAGCTT-A
1 CATTTTCAACGTGATTTTTACCCCGCTTATAATGTCTCTATGTGCCGATATTAGC-TCA-ATTGA
* * * *
47614 AAGATAAGTTAC-ATACTATGCATCTAATCTTATAAATT-CGAATATTTTCATATT-ACTATCCA
64 AAGATAAGTTACAATACTACGCCTCTAATCTTATAAATTACGAAAATTTTTATATTAACTATCCA
* * * ** *
47676 AAAATCCCTCGAATATGCCTATCAAACCATTTTAGCTTTTTCTTCATGCACAAAGTATGCTTTGA
129 AAAAACTCTCGAATATGCCTATC-AACCATTTTAGTTTTTTCTTCATGCACAAAACAAGCTTTGA
47741 AA
193 AA
47743 TCATTTTCAACGTGATTTTTACCC
1 -CATTTTCAACGTGATTTTTACCC
47767 ACTGCAATAA
Statistics
Matches: 482, Mismatches: 86, Indels: 71
0.75 0.13 0.11
Matches are distributed among these distances:
189 6 0.01
190 46 0.10
191 77 0.16
192 60 0.12
193 125 0.26
194 129 0.27
195 28 0.06
196 11 0.02
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.35
Consensus pattern (194 bp):
CATTTTCAACGTGATTTTTACCCCGCTTATAATGTCTCTATGTGCCGATATTAGCTCAATTGAAA
GATAAGTTACAATACTACGCCTCTAATCTTATAAATTACGAAAATTTTTATATTAACTATCCAAA
AAACTCTCGAATATGCCTATCAACCATTTTAGTTTTTTCTTCATGCACAAAACAAGCTTTGAAA
Found at i:48420 original size:2 final size:2
Alignment explanation
Indices: 48413--48440 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
48403 CCTAGCCGAC
48413 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
48441 TAAGTTCCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48908 original size:17 final size:18
Alignment explanation
Indices: 48877--48911 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
48867 TTTTTATCCG
*
48877 AAAAAATCCGGTTTTTTT
1 AAAAAATCCGATTTTTTT
48895 AAAAAA-CCGATTTTTTT
1 AAAAAATCCGATTTTTTT
48912 GCAAACCGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (18 bp):
AAAAAATCCGATTTTTTT
Found at i:50620 original size:22 final size:22
Alignment explanation
Indices: 50595--50639 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
50585 ATCATGTCAT
50595 CCAAATGTACTACCATGCCTTA
1 CCAAATGTACTACCATGCCTTA
*
50617 CCAAATGTACTACCATGCTTTA
1 CCAAATGTACTACCATGCCTTA
50639 C
1 C
50640 AGTTATAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.31, C:0.31, G:0.09, T:0.29
Consensus pattern (22 bp):
CCAAATGTACTACCATGCCTTA
Found at i:58100 original size:65 final size:67
Alignment explanation
Indices: 58019--58151 Score: 243
Period size: 65 Copynumber: 2.0 Consensus size: 67
58009 GGTCAAGAGT
58019 AGATAAAACAATATAGAGAAAAGGAT-GAGTACCAACATG-AAAATACAAGGAGCATCTAGAACC
1 AGATAAAACAATATAGAGAAAAGGATAGAGTACCAACATGAAAAATACAAGGAGCATCTAGAACC
58082 CC
66 CC
58084 AGATAAAACAATATAGAGAAAAGGATGAGAGTACCAACATGAAAAATACAAGGAGCATCTAGAAC
1 AGATAAAACAATATAGAGAAAAGGAT-AGAGTACCAACATGAAAAATACAAGGAGCATCTAGAAC
58149 CCC
65 CCC
58152 GAGCAAGTTT
Statistics
Matches: 65, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
65 26 0.40
67 13 0.20
68 26 0.40
ACGTcount: A:0.51, C:0.17, G:0.19, T:0.14
Consensus pattern (67 bp):
AGATAAAACAATATAGAGAAAAGGATAGAGTACCAACATGAAAAATACAAGGAGCATCTAGAACC
CC
Found at i:60572 original size:19 final size:19
Alignment explanation
Indices: 60548--60591 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
60538 GGTTGACTTA
60548 GTTGGACTTCCATTACTAT
1 GTTGGACTTCCATTACTAT
60567 GTTGGACTTCCATTACTAT
1 GTTGGACTTCCATTACTAT
60586 GTTGGA
1 GTTGGA
60592 ATGTCTCCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.41
Consensus pattern (19 bp):
GTTGGACTTCCATTACTAT
Found at i:68370 original size:19 final size:19
Alignment explanation
Indices: 68346--68385 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
68336 AGAACATTAA
* *
68346 ATTTATTTTTATTCAATAT
1 ATTTATTTTAATTCAAGAT
68365 ATTTATTTTAATTCAAGAT
1 ATTTATTTTAATTCAAGAT
68384 AT
1 AT
68386 ATATATTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (19 bp):
ATTTATTTTAATTCAAGAT
Found at i:69498 original size:19 final size:19
Alignment explanation
Indices: 69470--69511 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
69460 TTATAAGTGA
*
69470 TATTATTTATTTTAAATAT
1 TATTAATTATTTTAAATAT
*
69489 TATTAATTATTTTAAGTAT
1 TATTAATTATTTTAAATAT
69508 TATT
1 TATT
69512 GAAAATTAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
TATTAATTATTTTAAATAT
Found at i:72632 original size:18 final size:19
Alignment explanation
Indices: 72606--72647 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
72596 ATGTAATTTC
*
72606 GGTACCGATACCC-ATATT
1 GGTACCGATACCCTATAGT
*
72624 GGTATCGATACCCTATAGT
1 GGTACCGATACCCTATAGT
72643 GGTAC
1 GGTAC
72648 TGATTCATCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (19 bp):
GGTACCGATACCCTATAGT
Found at i:72959 original size:18 final size:18
Alignment explanation
Indices: 72936--72984 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
72926 GAATATAGGC
72936 ATGTGTTGATATG-ATTGT
1 ATGTGTT-ATATGTATTGT
72954 ATGTGTTATATGTATTGGT
1 ATGTGTTATATGTATT-GT
* *
72973 ATATGATATATG
1 ATGTGTTATATG
72985 ACATGAATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 5 0.19
18 10 0.37
19 12 0.44
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (18 bp):
ATGTGTTATATGTATTGT
Found at i:73308 original size:18 final size:18
Alignment explanation
Indices: 73285--73319 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
73275 AGAGTTCTAC
*
73285 GTGGTCCTTCGGGACATA
1 GTGGTCCTTCGAGACATA
73303 GTGGTCCTTCGAGACAT
1 GTGGTCCTTCGAGACAT
73320 TTCATAGTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.23, G:0.31, T:0.29
Consensus pattern (18 bp):
GTGGTCCTTCGAGACATA
Found at i:73346 original size:23 final size:23
Alignment explanation
Indices: 73299--73348 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
73289 TCCTTCGGGA
* *
73299 CATAGTGGTCCTTCGAGACATTT
1 CATAGTGGTCATTCGAGACAATT
* *
73322 CATAGTGGTCATTCGGGATAATT
1 CATAGTGGTCATTCGAGACAATT
73345 CATA
1 CATA
73349 TGCCCCTAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (23 bp):
CATAGTGGTCATTCGAGACAATT
Found at i:75997 original size:23 final size:24
Alignment explanation
Indices: 75959--76020 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
75949 GAAAAAAACA
* *
75959 GAAAAAGAAAATAAAAATAG-AAAG
1 GAAAAAGGAAA-AAAAAGAGAAAAG
*
75983 GAAAAAGGAAAAAAAGGAGAAAAG
1 GAAAAAGGAAAAAAAAGAGAAAAG
*
76007 GAGAAA-GAAAAAAA
1 GAAAAAGGAAAAAAA
76021 CCAAAAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 14 0.42
24 19 0.58
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.03
Consensus pattern (24 bp):
GAAAAAGGAAAAAAAAGAGAAAAG
Found at i:87083 original size:31 final size:31
Alignment explanation
Indices: 87048--87121 Score: 105
Period size: 31 Copynumber: 2.4 Consensus size: 31
87038 TGACCGGTCA
*
87048 TGACCCGACCCGACCCGTTTA-CCTGACCCGT
1 TGACCCGACCCGACCCGTTGATCC-GACCCGT
* *
87079 TGACCCAACCCGACCTGTTGATCCGACCCGT
1 TGACCCGACCCGACCCGTTGATCCGACCCGT
87110 TGACCCGACCCG
1 TGACCCGACCCG
87122 TTGACCGTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
31 36 0.95
32 2 0.05
ACGTcount: A:0.18, C:0.45, G:0.20, T:0.18
Consensus pattern (31 bp):
TGACCCGACCCGACCCGTTGATCCGACCCGT
Found at i:87089 original size:13 final size:13
Alignment explanation
Indices: 87054--87127 Score: 67
Period size: 13 Copynumber: 5.3 Consensus size: 13
87044 GTCATGACCC
87054 GACCCGACCCGTT
1 GACCCGACCCGTT
* *
87067 TACCTGACCCGTT
1 GACCCGACCCGTT
*
87080 GACCCAACCCGACCTGTT
1 G-----ACCCGACCCGTT
*
87098 GATCCGACCCGTT
1 GACCCGACCCGTT
87111 GACCCGACCCGTT
1 GACCCGACCCGTT
87124 GACC
1 GACC
87128 GTTGACCACT
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
13 37 0.77
18 11 0.23
ACGTcount: A:0.18, C:0.43, G:0.20, T:0.19
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:89059 original size:20 final size:20
Alignment explanation
Indices: 89034--89079 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
89024 GACGAACACA
89034 CATTCAAGTAATATCTATGG
1 CATTCAAGTAATATCTATGG
*
89054 CATTCAAGTAATATCTATGT
1 CATTCAAGTAATATCTATGG
89074 CATTCA
1 CATTCA
89080 GGTATTGACA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (20 bp):
CATTCAAGTAATATCTATGG
Found at i:90782 original size:15 final size:15
Alignment explanation
Indices: 90762--90798 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
90752 GTTAACGCCA
*
90762 GTCAACGGTCAATGG
1 GTCAACGGTCAACGG
*
90777 GTCAACAGTCAACGG
1 GTCAACGGTCAACGG
90792 GTCAACG
1 GTCAACG
90799 ACTCGGGTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.30, C:0.24, G:0.30, T:0.16
Consensus pattern (15 bp):
GTCAACGGTCAACGG
Found at i:90807 original size:13 final size:13
Alignment explanation
Indices: 90789--90823 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
90779 CAACAGTCAA
90789 CGGGTCAACGACT
1 CGGGTCAACGACT
**
90802 CGGGTCAACGGGT
1 CGGGTCAACGACT
90815 CGGGTCAAC
1 CGGGTCAAC
90824 AGGTCGGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.20, C:0.29, G:0.37, T:0.14
Consensus pattern (13 bp):
CGGGTCAACGACT
Found at i:90828 original size:13 final size:13
Alignment explanation
Indices: 90801--90832 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
90791 GGTCAACGAC
*
90801 TCGGGTCAACGGG
1 TCGGGTCAACAGG
90814 TCGGGTCAACAGG
1 TCGGGTCAACAGG
90827 TCGGGT
1 TCGGGT
90833 TGGGTCAACG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.16, C:0.22, G:0.44, T:0.19
Consensus pattern (13 bp):
TCGGGTCAACAGG
Found at i:90837 original size:18 final size:18
Alignment explanation
Indices: 90810--90846 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
90800 CTCGGGTCAA
90810 CGGGTCGGGTCAACAGGT
1 CGGGTCGGGTCAACAGGT
* *
90828 CGGGTTGGGTCAACGGGT
1 CGGGTCGGGTCAACAGGT
90846 C
1 C
90847 AGGTAAACGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.22, G:0.46, T:0.19
Consensus pattern (18 bp):
CGGGTCGGGTCAACAGGT
Found at i:90869 original size:31 final size:31
Alignment explanation
Indices: 90801--90869 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
90791 GGTCAACGAC
* * *
90801 TCGGGTCAACGGGTCGGGTCAACAGGTCGGG
1 TCGGGTCAACGGGTCAGGTAAACAGGTCGGA
*
90832 TTGGGTCAACGGGTCAGGTAAAC-GAGTCGGA
1 TCGGGTCAACGGGTCAGGTAAACAG-GTCGGA
90863 TCGGGTC
1 TCGGGTC
90870 GGGTCATGAC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 1 0.03
31 31 0.97
ACGTcount: A:0.19, C:0.20, G:0.42, T:0.19
Consensus pattern (31 bp):
TCGGGTCAACGGGTCAGGTAAACAGGTCGGA
Found at i:100316 original size:20 final size:22
Alignment explanation
Indices: 100271--100328 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 22
100261 TGCATGGTAG
100271 TGCATCGATGCACCTGTTAAAGAA
1 TGCATCGATGCA-CTGTT-AAGAA
100295 TGCATCGATGCACTG-T-AGAA
1 TGCATCGATGCACTGTTAAGAA
*
100315 TGCACCGATGCACT
1 TGCATCGATGCACT
100329 TCAATGAGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 17 0.52
22 1 0.03
23 3 0.09
24 12 0.36
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.24
Consensus pattern (22 bp):
TGCATCGATGCACTGTTAAGAA
Found at i:100410 original size:2 final size:2
Alignment explanation
Indices: 100403--100427 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
100393 ATACTGATAG
100403 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
100428 GATTGTGTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:101277 original size:89 final size:88
Alignment explanation
Indices: 101127--101305 Score: 349
Period size: 89 Copynumber: 2.0 Consensus size: 88
101117 AAAAGAATTA
101127 CTCTAGGAAATAGAGTTTTAAATTTTCTATGGTTTCTTTTATAAAAGTATGTGCTTTGACTAATC
1 CTCTAGGAAATAGAGTTTTAAATTTTCTATGGTTTCTTTTATAAAAGTATGTGCTTTGACTAATC
101192 AATGTGACACTTCAGATTTGTAT
66 AATGTGACACTTCAGATTTGTAT
101215 CTCTAGGAAATAGAAGTTTTAAATTTTCTATGGTTTCTTTTATAAAAGTATGTGCTTTGACTAAT
1 CTCTAGGAAATAG-AGTTTTAAATTTTCTATGGTTTCTTTTATAAAAGTATGTGCTTTGACTAAT
101280 CAATGTGACACTTCAGATTTGTAT
65 CAATGTGACACTTCAGATTTGTAT
101304 CT
1 CT
101306 GGTTCGGATA
Statistics
Matches: 90, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
88 13 0.14
89 77 0.86
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.43
Consensus pattern (88 bp):
CTCTAGGAAATAGAGTTTTAAATTTTCTATGGTTTCTTTTATAAAAGTATGTGCTTTGACTAATC
AATGTGACACTTCAGATTTGTAT
Found at i:103743 original size:20 final size:20
Alignment explanation
Indices: 103718--103755 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
103708 CACCTGTTAA
**
103718 AGAATGCATTGATGCACTGT
1 AGAATGCACCGATGCACTGT
103738 AGAATGCACCGATGCACT
1 AGAATGCACCGATGCACT
103756 TCAATGGGTA
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:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (20 bp):
AGAATGCACCGATGCACTGT
Found at i:103838 original size:2 final size:2
Alignment explanation
Indices: 103831--103885 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
103821 ATACTGATAG
103831 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
103873 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
103886 GATTGTGTAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:104221 original size:21 final size:21
Alignment explanation
Indices: 104197--104244 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
104187 GGTCATGTGA
*
104197 TCATGAGATATTGATAATAAG
1 TCATAAGATATTGATAATAAG
104218 TCATAAGATATTGATAATAAG
1 TCATAAGATATTGATAATAAG
104239 TCATAA
1 TCATAA
104245 TAGGTCATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.46, C:0.06, G:0.15, T:0.33
Consensus pattern (21 bp):
TCATAAGATATTGATAATAAG
Found at i:105602 original size:16 final size:17
Alignment explanation
Indices: 105574--105607 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
105564 CGTATCGTCG
105574 ACAAAATTTTACTATTC
1 ACAAAATTTTACTATTC
105591 ACAAAA-TTTACTATTC
1 ACAAAATTTTACTATTC
105607 A
1 A
105608 TATGAATAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (17 bp):
ACAAAATTTTACTATTC
Found at i:108010 original size:2 final size:2
Alignment explanation
Indices: 108003--108056 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
107993 ACGTCCCGAA
108003 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
108045 AT AT AT AT AT AT
1 AT AT AT AT AT AT
108057 TTTTAGGGTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:109263 original size:15 final size:16
Alignment explanation
Indices: 109224--109259 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 16
109214 ACAAATGAAG
109224 AAAATAATAAACAGTA
1 AAAATAATAAACAGTA
109240 AAAAT-ATAAA-AG-A
1 AAAATAATAAACAGTA
109253 AAAATAA
1 AAAATAA
109260 ATAATAAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 6 0.32
14 3 0.16
15 5 0.26
16 5 0.26
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.17
Consensus pattern (16 bp):
AAAATAATAAACAGTA
Found at i:110473 original size:30 final size:29
Alignment explanation
Indices: 110409--110483 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 29
110399 TGATTTTCTC
* * **
110409 GAAAATAATTTACGTAAAATGGATTATTT
1 GAAAATTATTTACGTAAAATGAATTACAT
*
110438 TAAAATTATTTGACGTAAAATGAATTACAT
1 GAAAATTATTT-ACGTAAAATGAATTACAT
*
110468 GAAAATTGTTTTACGT
1 GAAAATT-ATTTACGT
110484 GAATTACCTA
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
29 9 0.24
30 25 0.68
31 3 0.08
ACGTcount: A:0.43, C:0.05, G:0.13, T:0.39
Consensus pattern (29 bp):
GAAAATTATTTACGTAAAATGAATTACAT
Found at i:110501 original size:24 final size:24
Alignment explanation
Indices: 110458--110506 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
110448 TGACGTAAAA
*
110458 TGAATTACATGAAAATTGTTTTACG
1 TGAATTACATGAAAAATG-TTTACG
*
110483 TGAATTACCT-AAAAATGTTTACG
1 TGAATTACATGAAAAATGTTTACG
110506 T
1 T
110507 AAACTGAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 7 0.32
24 6 0.27
25 9 0.41
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (24 bp):
TGAATTACATGAAAAATGTTTACG
Found at i:113038 original size:61 final size:62
Alignment explanation
Indices: 112892--113051 Score: 162
Period size: 61 Copynumber: 2.6 Consensus size: 62
112882 TTTCAAGTAG
* ** * * * **
112892 GGGTTTCAAAACCAACTTTAGGGGTTTCGAAACCTCAACATGCATTTTTGCAATCTTGCCAGG
1 GGGTTTCGAAACCAACCATAGGGGTTTCGAAACCTC-ACATGAATTTTTACAATCTTGACAAA
** * *
112955 GGGTTTCGAAACCTCCCCTAGGGGTTTCGAAACCTC-CATGAATTTTTAC-ATTTTGGACAAA
1 GGGTTTCGAAACCAACCATAGGGGTTTCGAAACCTCACATGAATTTTTACAATCTT-GACAAA
* *
113016 TGGTTTCGAAACCAACCATAGGGGTTTTGAAACCTC
1 GGGTTTCGAAACCAACCATAGGGGTTTCGAAACCTC
113052 TACTGCAAAT
Statistics
Matches: 80, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
60 4 0.05
61 45 0.56
63 31 0.39
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.30
Consensus pattern (62 bp):
GGGTTTCGAAACCAACCATAGGGGTTTCGAAACCTCACATGAATTTTTACAATCTTGACAAA
Found at i:119563 original size:201 final size:196
Alignment explanation
Indices: 118968--119864 Score: 956
Period size: 201 Copynumber: 4.5 Consensus size: 196
118958 ATAAGTAAAT
* * ** * * *
118968 CGGTATATTTATACCGGTAATATTACAAATTTACCTATTACATTATAATTATCAGTTTTGAT-GT
1 CGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATATT
* * *
119032 TTTTAGATCGATACAATTTT--AAATGTATCGACACTTTATGCGTGCA-CCTCGTTGGATATTCA
66 TTTTGGATCGATAC--TTTTAAAAATGTATCGACACTTTATGCGTGCACCCT-TTTGG-CATTCA
* * * * *
119094 TTCTGGA-AACAAGTATCGACATAAATTTAA-AGAGTGTCGATATATTATTTAGACTTAATTTTT
127 TTCTGGACAAAAAGTATCGACACAAATTTAACA-AGTGTCGATACATTATTT-CACCT-ATTTTT
*
119157 CATAAAAT
189 CATAAAAC
* ** * * * * * *
119165 CGGTATATTTCTATTGGGTACATTGTAAATTTACTTATCACATTGTAATTATTGGTTTCGATGTT
1 CGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATATT
* * * *
119230 TTTGGGATCGATAGTTTTAATAAATGTATCGACACTTTATGCGTGCACCCGTTTGGCATTCATTA
66 TTTTGGATCGATACTTTTAA-AAATGTATCGACACTTTATGCGTGCACCCTTTTGGCATTCATTC
* * * * *
119295 TGGACAAAATGTATCGACACAAATTTAATAAGTGTAGATACTTTATTATGACCTATTTTATCATA
130 TGGACAAAAAGTATCGACACAAATTTAACAAGTGTCGATACATTATT-TCACCTATTTT-TCATA
119360 AAAC
193 AAAC
*
119364 CGGTATATTTATACCGGTTACATTGTAAATTTACATATTACATTATAATTATCGGTTTCGATATT
1 CGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATATT
119429 TTTTGGATCGATACTTTTTAAAACATGTATCGACACTTTATGCGTGCAACCCTTTTGGCATTCAT
66 TTTTGGATCGATAC-TTTTAAAA-ATGTATCGACACTTTATGCGTGC-ACCCTTTTGGCATTCAT
* * *
119494 TTTGGACAAAAAGTATCGACACAAATATAA-AACGTGTCGATACATTATGTTCACCTATTTTAAC
128 TCTGGACAAAAAGTATCGACACAAATTTAACAA-GTGTCGATACATTAT-TTCACCTATTTT-TC
119558 ATAAAAC
190 ATAAAAC
* *
119565 CAGTATATTTATACCGGTTACATTGTAAATTTACCTATTGCATTATAATTATCGGTTTC-A-ATT
1 CGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATATT
* * * *
119628 TTATTGGGATCGATACTTTTAATAATTGTATCAACACTTTATGCGTGCACCTCGTTTGGGCATTT
66 TT-TT-GGATCGATACTTTTAA-AAATGTATCGACACTTTATGCGTGCACC-C-TTTTGGCATTC
* * *
119693 ACTCTGGACAATAAGTATCGACACAAA-TTACACAAGTGTCGATACATTATGTCGA-C-ATGTTT
126 ATTCTGGACAAAAAGTATCGACACAAATTTA-ACAAGTGTCGATACATTATTTC-ACCTAT-TTT
*
119755 TC-TAATTAAT
188 TCATAA--AAC
* ** * * * *
119765 CGGTATATTTATACCGATTACATTGTTTATTTACCTCTTACATTATAATTATTGGTTTAGATGTT
1 CGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATATT
*
119830 TTTTGGGTCGATACTTTTAGAAAATGTATCGACAC
66 TTTTGGATCGATACTTTTA-AAAATGTATCGACAC
119865 ATATTTAGGT
Statistics
Matches: 597, Mismatches: 75, Indels: 53
0.82 0.10 0.07
Matches are distributed among these distances:
196 4 0.01
197 48 0.08
198 31 0.05
199 157 0.26
200 153 0.26
201 197 0.33
202 7 0.01
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (196 bp):
CGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATATT
TTTTGGATCGATACTTTTAAAAATGTATCGACACTTTATGCGTGCACCCTTTTGGCATTCATTCT
GGACAAAAAGTATCGACACAAATTTAACAAGTGTCGATACATTATTTCACCTATTTTTCATAAAA
C
Found at i:119859 original size:400 final size:398
Alignment explanation
Indices: 118952--119864 Score: 1064
Period size: 400 Copynumber: 2.3 Consensus size: 398
118942 TATATTGACC
* * * * **
118952 TATTTTATAAGT-AAATCGGTATATTTATACCGGTAATATTACAAATTTACCTATTACATTATAA
1 TATTTTATAA-TAAAACCGGTATATTTATACCGATTACATTGTAAATTTACCTATTACATTATAA
* * *
119016 TTATCAGTTTTGATG-TTTTTAGATCGATACAATTTT--AAATGTATCGACACTTTATGCGTGCA
65 TTATCGGTTTAGATGTTTTTTGGATCGATAC-ATTTTAAAAATGTATCGACACTTTATGCGTGCA
* * * * *
119078 CCTCGTTGGATATTCATTCTGGAAACAAGTATCGACATAAATTTAAAGAGTGTCGATATATTATT
129 CCTCGTTGGACATTCATTCTGGAAAAAAGTATCGACACAAATATAAAGAGTGTCGATACATTATT
* * * * * * ** *
119143 TAGACTTAATTTTTCATAAAATCGGTATATTTCTATTGGGTACATTGTAAATTTACTTATCACAT
194 TACACCTAATTTTACATAAAACCAGTATATTTATACCGGGTACATTGTAAATTTACCTATCACAT
* * * * *
119208 TGTAATTATTGGTTTCGATGTTTTTGGGATCGATAGTTTTAATAAATGTATCGACACTTTATGCG
259 TATAATTATCGGTTTCAATGTTTTTGGGATCGATACTTTTAATAAATGTATCAACACTTTATGCG
* * *
119273 TGCACCCGTTTGGCATTCATTATGGACAAAATGTATCGACACAAATTTAATAAGTGTAGATACTT
324 TGCACCCGTTTGGCATTCACTATGGACAAAATGTATCGACACAAATTTAACAAGTGTAGATACAT
* *
119338 TATTATGACC
389 TATTACGACA
* * *
119348 TATTTTATCATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACATATTACATTATAAT
1 TATTTTATAATAAAACCGGTATATTTATACCGATTACATTGTAAATTTACCTATTACATTATAAT
* * *
119413 TATCGGTTTCGATATTTTTTGGATCGATACTTTTTAAAACATGTATCGACACTTTATGCGTGCAA
66 TATCGGTTTAGATGTTTTTTGGATCGATACATTTTAAAA-ATGTATCGACACTTTATGCGTGC-A
* *
119478 CC-CTTTTGG-CATTCATTTTGGACAAAAAGTATCGACACAAATATAAA-ACGTGTCGATACATT
129 CCTC-GTTGGACATTCATTCTGGA-AAAAAGTATCGACACAAATATAAAGA-GTGTCGATACATT
*
119540 ATGTT-CACCT-ATTTTAACATAAAACCAGTATATTTATACCGGTTACATTGTAAATTTACCTAT
191 AT-TTACACCTAATTTT-ACATAAAACCAGTATATTTATACCGGGTACATTGTAAATTTACCTAT
** *
119603 TGCATTATAATTATCGGTTTCAAT-TTTATTGGGATCGATACTTTTAATAATTGTATCAACACTT
254 CACATTATAATTATCGGTTTCAATGTTT-TTGGGATCGATACTTTTAATAAATGTATCAACACTT
* *
119667 TATGCGTGCACCTCGTTTGGGCATTTACTCTGGACAATAA-GTATCGACACAAA-TTACACAAGT
318 TATGCGTGCACC-CGTTT-GGCATTCACTATGGACAA-AATGTATCGACACAAATTTA-ACAAGT
*
119730 GTCGATACATTATGT-CGACA
379 GTAGATACATTAT-TACGACA
* * * * ** *
119750 TGTTTTCTAAT-TAATCGGTATATTTATACCGATTACATTGTTTATTTACCTCTTACATTATAAT
1 TATTTTATAATAAAACCGGTATATTTATACCGATTACATTGTAAATTTACCTATTACATTATAAT
* *
119814 TATTGGTTTAGATGTTTTTTGGGTCGATAC-TTTTAGAAAATGTATCGACAC
66 TATCGGTTTAGATGTTTTTTGGATCGATACATTTTA-AAAATGTATCGACAC
119865 ATATTTAGGT
Statistics
Matches: 440, Mismatches: 59, Indels: 32
0.83 0.11 0.06
Matches are distributed among these distances:
395 1 0.00
396 71 0.16
397 14 0.03
398 2 0.00
399 44 0.10
400 165 0.38
401 85 0.19
402 55 0.12
403 3 0.01
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.40
Consensus pattern (398 bp):
TATTTTATAATAAAACCGGTATATTTATACCGATTACATTGTAAATTTACCTATTACATTATAAT
TATCGGTTTAGATGTTTTTTGGATCGATACATTTTAAAAATGTATCGACACTTTATGCGTGCACC
TCGTTGGACATTCATTCTGGAAAAAAGTATCGACACAAATATAAAGAGTGTCGATACATTATTTA
CACCTAATTTTACATAAAACCAGTATATTTATACCGGGTACATTGTAAATTTACCTATCACATTA
TAATTATCGGTTTCAATGTTTTTGGGATCGATACTTTTAATAAATGTATCAACACTTTATGCGTG
CACCCGTTTGGCATTCACTATGGACAAAATGTATCGACACAAATTTAACAAGTGTAGATACATTA
TTACGACA
Found at i:123718 original size:201 final size:198
Alignment explanation
Indices: 123373--124736 Score: 1589
Period size: 201 Copynumber: 6.8 Consensus size: 198
123363 ATTTATAAGC
* * *
123373 ATCGACACAAATCTAAAACGTGTCGATACATTATGTTCACCTATTTTCTCATAAAATCAGTATAT
1 ATCGACACAAAT-TCAAACGTGTCGATACATTATGTTCACCTATTTTCTCATAAAACCGGTATAT
* * *
123438 TTATATCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCAATGTTTTTTGGAT
65 TTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGAT
123503 CGATACTTTTTAAAACATGTATCGACACTTTATGCGTGCAACCCTTTTGGCATTCATTTTGGACA
130 CGATACTTTTTAAAA-ATGTATCGACACTTTATGCGTGC-ACCCTTTTGGCATTCATTTTGGACA
123568 AAAAGT
193 AAAAGT
123574 ATCGACACAAATCTCAAACGTGTCGATACATTATGTTCACCTATTTTCTCATAAAACCGGTATAT
1 ATCGACACAAAT-TCAAACGTGTCGATACATTATGTTCACCTATTTTCTCATAAAACCGGTATAT
* *
123639 TTATACCGGTTAAATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTTGGAT
65 TTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGAT
* *
123704 CGATACTTTTTAAAACATGTATCGACACTTTATACGTGCAACCCTTTTGGTATTCATTTTGGACA
130 CGATACTTTTTAAAA-ATGTATCGACACTTTATGCGTGC-ACCCTTTTGGCATTCATTTTGGACA
*
123769 AAAAAT
193 AAAAGT
* ** * *
123775 ATCGACACAAATCTAAAACGTGTCGATACATTATGTTCACCTATTTTAACATAAATCTGGTATAT
1 ATCGACACAAAT-TCAAACGTGTCGATACATTATGTTCACCTATTTTCTCATAAAACCGGTATAT
* *
123840 TTA-ACCGGTTACATTATAAATTTACATATTACATTATAATTATCGGTTTCGATGTTTTTGGGAT
65 TTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGAT
* * *
123904 CGATACTTTTT-AAAATGTATCGACACTTTATGTGTTCACCCTTTTGAGCATTCATTCTGGACAA
130 CGATACTTTTTAAAAATGTATCGACACTTTATGCGTGCACCCTTTTG-GCATTCATTTTGGACAA
*
123968 TAAGT
194 AAAGT
* * * ** * ** *
123973 ATCGACACATCATTCAATCGTGTCGACACATTATGTAGACCTATTCTGACATAAAACCGATATAT
1 ATCGACACA-AATTCAAACGTGTCGATACATTATGTTCACCTATTTTCTCATAAAACCGGTATAT
* ** * * * *
124038 TTATACCGGTTATATTACAAAATTACCTATTACATTATATTTATGGGTTTCGATGTTTTAGGGAT
65 TTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGAT
* * * *
124103 CGATACTGTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTTGG-ATTTTCCTTGTGGAC
130 CGATACTTTTTAAAAATGTATCGACACTTTATGCGTGCACCC-TTTTGGCA--TTCATTTTGGAC
*
124167 CAAAAGT
192 AAAAAGT
* * * * ** *
124174 ATAGAAACAAATTCTATAA-GTGTCGATACATTATGTAT-ATCTATTTTCT-AAAAAAATGGTTT
1 ATCGACACAAATTC-A-AACGTGTCGATACATTATGT-TCACCTATTTTCTCATAAAACCGGTAT
* *
124236 ATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGATTTCGACGTTTTTGGG
63 ATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGG
* * * * *
124301 ATCGATACTTTTTATATATGTATCGACACTTTATGCGTTCACCCTTTTGGGCATTCATTCTGTAC
128 ATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTGCACCCTTTT-GGCATTCATTTTGGAC
124366 AAAAAGT
192 AAAAAGT
* * * * * * *
124373 ATCGACACAATATTAAAATGTATCG--ACATAATGTGTAGACCTATTCTCACATAAAACCGGTAT
1 ATCGACACAA-ATTCAAACGTGTCGATACATTATGT-T-CACCTATTTTCTCATAAAACCGGTAT
* * * * *
124436 ATTTATACCGGTTATATTATAAAATTACCTATTACATTATCATTATTGGTTTCGATGTTTTTGGG
63 ATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGG
* * * * * * * *
124501 ATCGATACGTTTTAAAAATGTTTTGACATTTTATGAGTG-ATTCCTTTATGGGCATTCCTTTTAG
128 ATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTGCA-CCCTTT-T-GGCATTCATTTTGG
* *
124565 AGAAAGAGT
190 ACAAAAAGT
* * ** * * * *
124574 ATCGACACAAATTCCAGAA-GTGTCGATAAATTTTGTAGACCTATTCTCTCATAAAATCAGTTTA
1 ATCGACACAAATT-CA-AACGTGTCGATACATTATGTTCACCTATTTTCTCATAAAACCGGTATA
* * * * *
124638 GTTATACCGATTATATTGTAAATTTACCTATTACATTATATTTAT-GGATTTCGATGTTTCTGGG
64 TTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGG-TTTCGATGTTTTTGGG
*
124702 ATCGATACTTTTTAAAACTGTATCGACACTTTATG
128 ATCGATACTTTTTAAAAATGTATCGACACTTTATG
124737 GGAAACTTTA
Statistics
Matches: 999, Mismatches: 140, Indels: 48
0.84 0.12 0.04
Matches are distributed among these distances:
197 18 0.02
198 94 0.09
199 112 0.11
200 317 0.32
201 449 0.45
202 3 0.00
203 6 0.01
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (198 bp):
ATCGACACAAATTCAAACGTGTCGATACATTATGTTCACCTATTTTCTCATAAAACCGGTATATT
TATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATC
GATACTTTTTAAAAATGTATCGACACTTTATGCGTGCACCCTTTTGGCATTCATTTTGGACAAAA
AGT
Found at i:124117 original size:399 final size:395
Alignment explanation
Indices: 123373--124736 Score: 1692
Period size: 399 Copynumber: 3.4 Consensus size: 395
123363 ATTTATAAGC
**
123373 ATCGACACAAA-TCTAAAACGTGTCGATACATTATGTTCACCTATTTTCTCATAAAATCAGTATA
1 ATCGACACAAATTCTAAAA-GTGTCGATACATTATGTTCACCTATTTTAACATAAAATCAGTATA
* * *
123437 TTTATATCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCAATGTTTTTTGGA
65 TTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGA
* *
123502 TCGATACTTTTTAAAACATGTATCGACACTTTATGCGTGCAACCCTTTTGGCATTCATTTTGGAC
130 TCGATACTTTTT-AAA-ATGTATCGACACTTTATGCGTTC-ACCCTTTTGGCATTCATTCTGGAC
* * * ** * *
123567 AAAAAGTATCGACACAAATCTCAAACGTGTCGATACATTATGTTCACCTATTTTCTCATAAAACC
192 AAAAAGTATCGACACATAT-TCAATCGTGTCGACACATTATGTAGACCTATTCTCACATAAAACC
* * *
123632 GGTATATTTATACCGGTTAAATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
256 GGTATATTTATACCGGTTATATTATAAAATTACCTATTACATTAT-ATTATCGGTTTCGATGTTT
* * *
123697 TTTGGATCGATACTTTTTAAAACATGTATCGACACTTTATACGTGCAACCCTTTTGGTATTCATT
320 TTGGGATCGATACTGTTTAAAA-ATGTATCGACACTTTATA-GTGCAACCCTTTTGGTATTCCTT
*
123762 TTGGACAAAAAAT
383 TTGGACAAAAAGT
*
123775 ATCGACACAAA-TCTAAAACGTGTCGATACATTATGTTCACCTATTTTAACAT-AAATCTGGTAT
1 ATCGACACAAATTCTAAAA-GTGTCGATACATTATGTTCACCTATTTTAACATAAAATC-AGTAT
* *
123838 ATTTA-ACCGGTTACATTATAAATTTACATATTACATTATAATTATCGGTTTCGATGTTTTTGGG
64 ATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGG
*
123902 ATCGATACTTTTTAAAATGTATCGACACTTTATGTGTTCACCCTTTTGAGCATTCATTCTGGACA
129 ATCGATACTTTTTAAAATGTATCGACACTTTATGCGTTCACCCTTTTG-GCATTCATTCTGGACA
* *
123967 ATAAGTATCGACACATCATTCAATCGTGTCGACACATTATGTAGACCTATTCTGACATAAAACCG
193 AAAAGTATCGACACAT-ATTCAATCGTGTCGACACATTATGTAGACCTATTCTCACATAAAACCG
* * *
124032 ATATATTTATACCGGTTATATTACAAAATTACCTATTACATTATATTTATGGGTTTCGATGTTTT
257 GTATATTTATACCGGTTATATTATAAAATTACCTATTACATTATA-TTATCGGTTTCGATGTTTT
* * *
124097 AGGGATCGATACTGTTTAAAAATGTATCGACACTTTATGGGTGC-ACCCTTTTTGGATTTTCCTT
321 TGGGATCGATACTGTTTAAAAATGTATCGACACTTTAT-AGTGCAACCC-TTTTGG-TATTCCTT
* *
124161 GTGGACCAAAAGT
383 TTGGACAAAAAGT
* * * * * *
124174 ATAGAAACAAATTCTATAAGTGTCGATACATTATGTAT-ATCTATTTTCTAA-A-AAAAT-GGTT
1 ATCGACACAAATTCTAAAAGTGTCGATACATTATGT-TCACCTA-TTT-TAACATAAAATCAGTA
* *
124235 TATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGATTTCGACGTTTTTGG
63 TATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGG
* *
124300 GATCGATACTTTTTATATATGTATCGACACTTTATGCGTTCACCCTTTTGGGCATTCATTCTGTA
128 GATCGATACTTTTTA-AAATGTATCGACACTTTATGCGTTCACCCTTTT-GGCATTCATTCTGGA
* * * * *
124365 CAAAAAGTATCGACACAATATTAAAAT-GTATCGACATAATGTGTAGACCTATTCTCACATAAAA
191 CAAAAAGTATCGACAC-ATATT-CAATCGTGTCGACACATTATGTAGACCTATTCTCACATAAAA
*
124429 CCGGTATATTTATACCGGTTATATTATAAAATTACCTATTACATTATCATTATTGGTTTCGATGT
254 CCGGTATATTTATACCGGTTATATTATAAAATTACCTATTACATTAT-ATTATCGGTTTCGATGT
* * * ** *
124494 TTTTGGGATCGATAC-GTTTTAAAAATGTTTTGACATTTTATGAGTG-ATTCCTTTATGGGCATT
318 TTTTGGGATCGATACTG-TTTAAAAATGTATCGACACTTTAT-AGTGCAACCCTTT-T-GGTATT
* * *
124557 CCTTTTAGAGAAAGAGT
379 CCTTTTGGACAAAAAGT
* * * * ** * ** * *
124574 ATCGACACAAATTCCAGAAGTGTCGATAAATTTTGTAGACCTATTCTCTCATAAAATCAGTTTAG
1 ATCGACACAAATTCTAAAAGTGTCGATACATTATGTTCACCTATTTTAACATAAAATCAGTATAT
* * * *
124639 TTATACCGATTATATTGTAAATTTACCTATTACATTATATTTAT-GGATTTCGATGTTTCTGGGA
66 TTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGG-TTTCGATGTTTTTGGGA
124703 TCGATACTTTTTAAAACTGTATCGACACTTTATG
130 TCGATACTTTTTAAAA-TGTATCGACACTTTATG
124737 GGAAACTTTA
Statistics
Matches: 843, Mismatches: 91, Indels: 57
0.85 0.09 0.06
Matches are distributed among these distances:
397 4 0.00
398 47 0.06
399 286 0.34
400 272 0.32
401 175 0.21
402 59 0.07
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (395 bp):
ATCGACACAAATTCTAAAAGTGTCGATACATTATGTTCACCTATTTTAACATAAAATCAGTATAT
TTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGAT
CGATACTTTTTAAAATGTATCGACACTTTATGCGTTCACCCTTTTGGCATTCATTCTGGACAAAA
AGTATCGACACATATTCAATCGTGTCGACACATTATGTAGACCTATTCTCACATAAAACCGGTAT
ATTTATACCGGTTATATTATAAAATTACCTATTACATTATATTATCGGTTTCGATGTTTTTGGGA
TCGATACTGTTTAAAAATGTATCGACACTTTATAGTGCAACCCTTTTGGTATTCCTTTTGGACAA
AAAGT
Found at i:125062 original size:25 final size:25
Alignment explanation
Indices: 125033--125085 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
125023 GTACACAAGA
*
125033 AATTTATATATAACAATGTTAAAAT
1 AATTTATACATAACAATGTTAAAAT
*
125058 AATTTATACATAACAATGTTCAAAT
1 AATTTATACATAACAATGTTAAAAT
125083 AAT
1 AAT
125086 GTACCCACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.51, C:0.08, G:0.04, T:0.38
Consensus pattern (25 bp):
AATTTATACATAACAATGTTAAAAT
Found at i:128042 original size:200 final size:200
Alignment explanation
Indices: 127601--128537 Score: 1044
Period size: 200 Copynumber: 4.7 Consensus size: 200
127591 ATTTAAAATG
* * * * * * *
127601 GTATCGGCACAAATTTA-ACAATTGTCGATACTTTATG-ATGACTTATTTTCTCATAAAACTGGT
1 GTATCGACACAAA-ATACACAAGTGTCGATACATTATGTA-GACCTATTCTCTCATAAAACCGGT
* * * * * *
127664 ATATTTATAACGGTTACATTG-AAATTTATCTATTACATTATAATTATCGATTTCGAT-ATTCTT
64 ATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTC-T
* * *
127727 GGGATCGACACTTTTTA-AAAAAGTATCGACACTTTA-TGCATGCAACCC-TTT-GGCATTCATT
128 GGGATCGACACTTTTTATAAATA-TATCGACAC-TTAGTG-GTGCACCCCTTTTGGGCATTCATT
*
127788 CTGGACAAAAA
190 CTGGACCAAAA
* * * *
127799 GTATCGACACCAATTCCACAAGTGTCGATACATGT-TGTAGACCTATTCTCTCATAAAATCGGTA
1 GTATCGACACAAAATACACAAGTGTCGATACAT-TATGTAGACCTATTCTCTCATAAAACCGGTA
* * * * * *
127863 TAATTATACCGGTTACATTGTAAATTTACATATTACATTATATTTAAGGGTTTCGATGTTTCTGG
65 TATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGG
* * * * * * *
127928 TATTGACACTTTTTATAAATATATCGATACTTTA-TGTGTTCA-TCATTTTGGGCATTCATTCTA
130 GATCGACACTTTTTATAAATATATCGACAC-TTAGTG-GTGCACCCCTTTTGGGCATTCATTCTG
127991 GA-CAAAA
193 GACCAAAA
* * * * *
127998 CGTATCGACACAAAATAAAAAAGTGTCGATACATTATATAGACCTATTATCACATAAAACCGGTA
1 -GTATCGACACAAAATACACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGGTA
* * * * * *
128063 TATTTATACCGGTTATATT-ACAAAATTACCTATTACAGTATAATTATGAGTTTCGATATTTTTA
65 TATTTATACCGGTTACATTGA-AAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTG
* * * *
128127 GGATCGACACTTTGTATAAATGTATCGACACTTAGTGGTGCACCCTTTTTGGGCATTCCTTCTGG
129 GGATCGACACTTTTTATAAATATATCGACACTTAGTGGTGCACCCCTTTTGGGCATTCATTCTGG
128192 ACCAAAA
194 ACCAAAA
* * * *
128199 GTATCGGCACAAATTACACAAGTGTCAATACA-TATTGTACACCTATTCTCTCATAAAACCGGTA
1 GTATCGACACAAAATACACAAGTGTCGATACATTA-TGTAGACCTATTCTCTCATAAAACCGGTA
** * *
128263 TAAGTATACCGGTTACATTGAAAAATTACCTATTATATTATAATTATGGATTTCGATGTTTCTGG
65 TATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGG
* * * *
128328 GATCGACACTTATTATAAATGTATCGACACTTAGTGGTGCACCCCTTTTGGACATTCCTTCTGGA
130 GATCGACACTTTTTATAAATATATCGACACTTAGTGGTGCACCCCTTTTGGGCATTCATTCTGGA
128393 CCAAAA
195 CCAAAA
* * *
128399 GTATCGACACAAAATACACAAGTGTCGATACA-TATTGTACACCTATTTTCTCATAAAACCTGTA
1 GTATCGACACAAAATACACAAGTGTCGATACATTA-TGTAGACCTATTCTCTCATAAAACCGGTA
128463 T-TTGTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTAT-GGTTTCGATGTTTCTG
65 TATT-TATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTG
*
128526 GGATCGATACTT
129 GGATCGACACTT
128538 CGACACAAAT
Statistics
Matches: 629, Mismatches: 93, Indels: 33
0.83 0.12 0.04
Matches are distributed among these distances:
197 2 0.00
198 67 0.11
199 108 0.17
200 446 0.71
201 6 0.01
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.36
Consensus pattern (200 bp):
GTATCGACACAAAATACACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGGTAT
ATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGG
ATCGACACTTTTTATAAATATATCGACACTTAGTGGTGCACCCCTTTTGGGCATTCATTCTGGAC
CAAAA
Found at i:128628 original size:135 final size:135
Alignment explanation
Indices: 128402--128673 Score: 440
Period size: 135 Copynumber: 2.0 Consensus size: 135
128392 ACCAAAAGTA
* *
128402 TCGACACAAAATACACAAGTGTCGATACATATTGTACACCTATTTTCTCATAAAACCTGTATTTG
1 TCGACACAAAATACACAAGTGTCGATACATATTGTACACCTATTCTCTCATAAAACCTGTA-TAG
*
128467 TATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGG-TTTCGATGTTTCTGGGATC
65 TATACCAGTTACATTGAAAAATTACCTATTACATTATAATTATGGATTTCGATGTTTCTGGGATC
*
128531 GATACT
130 GACACT
* *
128537 TCGACACAAATTACACAAGTGTCGATTCATATTGTACACCTATTCTCTCATAAAACCGATGTA-A
1 TCGACACAAAATACACAAGTGTCGATACATATTGTACACCTATTCTCTCATAAAACC--TGTATA
*
128601 GTATACCAGTTACATTGAAAAATTACCTATTATATTATAATTATGGATTTCGATGTTTCTGGGAT
64 GTATACCAGTTACATTGAAAAATTACCTATTACATTATAATTATGGATTTCGATGTTTCTGGGAT
128666 CGACACT
129 CGACACT
128673 T
1 T
128674 ATTATAAATG
Statistics
Matches: 127, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
135 98 0.77
136 25 0.20
137 4 0.03
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (135 bp):
TCGACACAAAATACACAAGTGTCGATACATATTGTACACCTATTCTCTCATAAAACCTGTATAGT
ATACCAGTTACATTGAAAAATTACCTATTACATTATAATTATGGATTTCGATGTTTCTGGGATCG
ACACT
Found at i:128816 original size:335 final size:335
Alignment explanation
Indices: 128206--128872 Score: 1253
Period size: 335 Copynumber: 2.0 Consensus size: 335
128196 AAAGTATCGG
*
128206 CACAAATTACACAAGTGTCAATACATATTGTACACCTATTCTCTCATAAAACCGGTATAAGTATA
1 CACAAATTACACAAGTGTCAATACATATTGTACACCTATTCTCTCATAAAACCGATATAAGTATA
*
128271 CCGGTTACATTGAAAAATTACCTATTATATTATAATTATGGATTTCGATGTTTCTGGGATCGACA
66 CCAGTTACATTGAAAAATTACCTATTATATTATAATTATGGATTTCGATGTTTCTGGGATCGACA
128336 CTTATTATAAATGTATCGACACTTAGTGGTGCACCCCTTTTGGACATTCCTTCTGGACCAAAAGT
131 CTTATTATAAATGTATCGACACTTAGTGGTGCACCCCTTTTGGACATTCCTTCTGGACCAAAAGT
* *
128401 ATCGACACAAAATACACAAGTGTCGATACATATTGTACACCTATTTTCTCATAAAACCTGTATTT
196 ATCGACACAAAATACACAAGTGTCGATACATATTGTACACCTATTCTCTCATAAAACCGGTATTT
128466 GTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGTTTCGATGTTTCTGGGATC
261 GTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGTTTCGATGTTTCTGGGATC
128531 GATACTTCGA
326 GATACTTCGA
* * *
128541 CACAAATTACACAAGTGTCGATTCATATTGTACACCTATTCTCTCATAAAACCGATGTAAGTATA
1 CACAAATTACACAAGTGTCAATACATATTGTACACCTATTCTCTCATAAAACCGATATAAGTATA
128606 CCAGTTACATTGAAAAATTACCTATTATATTATAATTATGGATTTCGATGTTTCTGGGATCGACA
66 CCAGTTACATTGAAAAATTACCTATTATATTATAATTATGGATTTCGATGTTTCTGGGATCGACA
128671 CTTATTATAAATGTATCGACACTTAGTGGTGCACCCCTTTTGGACATTCCTTCTGGACCAAAAGT
131 CTTATTATAAATGTATCGACACTTAGTGGTGCACCCCTTTTGGACATTCCTTCTGGACCAAAAGT
*
128736 ATCGACACAAATTACACAAGTGTCGATACATATTGTACACCTATTCTCTCATAAAACCGGTATTT
196 ATCGACACAAAATACACAAGTGTCGATACATATTGTACACCTATTCTCTCATAAAACCGGTATTT
*
128801 GTATACCGGTTACATTGAAAAATTACTTATTACATTATAATTATGGTTTCGATGTTTCTGGGATC
261 GTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGTTTCGATGTTTCTGGGATC
128866 GATACTT
326 GATACTT
128873 GTTTATAAAT
Statistics
Matches: 323, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
335 323 1.00
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (335 bp):
CACAAATTACACAAGTGTCAATACATATTGTACACCTATTCTCTCATAAAACCGATATAAGTATA
CCAGTTACATTGAAAAATTACCTATTATATTATAATTATGGATTTCGATGTTTCTGGGATCGACA
CTTATTATAAATGTATCGACACTTAGTGGTGCACCCCTTTTGGACATTCCTTCTGGACCAAAAGT
ATCGACACAAAATACACAAGTGTCGATACATATTGTACACCTATTCTCTCATAAAACCGGTATTT
GTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGTTTCGATGTTTCTGGGATC
GATACTTCGA
Found at i:128881 original size:200 final size:199
Alignment explanation
Indices: 128537--129292 Score: 909
Period size: 200 Copynumber: 3.8 Consensus size: 199
128527 GATCGATACT
* * * *
128537 TCGACACAAATTACACAAGTGTCGATTCA-TATTGTACACCTATTCTCTCATAAAACCGATGTAA
1 TCGACACAAATTACACAAGTGTCGATACATTA-TGTACACCTATTCTCTCATAAAACCGGTATTA
*
128601 GTATACCAGTTACATTGAAAAATTACCTATTATATTATAATTAT-GGATTTCGATGTTTCTGGGA
65 GTATACCAGTTACATTGAAAAATTACCTATTACATTATAATTATAGG-TTTCGATGTTTCTGGGA
* * * *
128665 TCGACACTTATTATAAATGTATCGACACTTAGTGGTGCACCCCTTTTGGACATTCCTTCTGGACC
129 TCGACACTTTTTATAAATGTATCGACACTTAATGGTGCA-CCCTTTTGGGCATTCCTTCTGGACA
128730 AAAAGTA
193 AAAAGTA
*
128737 TCGACACAAATTACACAAGTGTCGATACA-TATTGTACACCTATTCTCTCATAAAACCGGTATTT
1 TCGACACAAATTACACAAGTGTCGATACATTA-TGTACACCTATTCTCTCATAAAACCGGTATTA
* *
128801 GTATACCGGTTACATTGAAAAATTACTTATTACATTATAATTAT-GGTTTCGATGTTTCTGGGAT
65 GTATACCAGTTACATTGAAAAATTACCTATTACATTATAATTATAGGTTTCGATGTTTCTGGGAT
* ** * * *
128865 CGATACTTGTTTATAAATGTATCGACACTTTTTACGTGCACCCTTTTGGGGATTCCTTCTGGAGA
130 CGACACTT-TTTATAAATGTATCGACACTTAAT-GGTGCACCCTTTTGGGCATTCCTTCTGGACA
*
128930 AACAGTA
193 AAAAGTA
* * * * * *
128937 TCAACACAAATTTCAGAAGTGTCGATACATTATGTAGATCTATTCTCTCATAAAATCGGT-TTAG
1 TCGACACAAATTACACAAGTGTCGATACATTATGTACACCTATTCTCTCATAAAACCGGTATTAG
* * *
129001 TTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTATGGGAT
66 -TATACCAGTTACATTGAAAAATTACCTATTACATTATAATTATAGGTTTCGATGTTTCTGGGAT
* * * * * *
129066 CGACA-TTTTCAATAAATGTATCGACACATAATGCGTTCATCATTTTGGGCATTCATTCTGGACA
130 CGACACTTTT-TATAAATGTATCGACACTTAATG-GTGCACCCTTTTGGGCATTCCTTCTGGACA
129130 AAAAGTA
193 AAAAGTA
* * * * * * *
129137 TCGACACGTAATGA-AAAAATGTCGATACATTATGTAGACCTATTCTCACATAAAACTGGTA-TA
1 TCGACAC-AAATTACACAAGTGTCGATACATTATGTACACCTATTCTCTCATAAAACCGGTATTA
* * * *
129200 TTTATACCAGTTATATT-ACAAAATTACCTATTACATTATAATTATAGGTTTTGATGTTTTTGGG
65 -GTATACCAGTTACATTGA-AAAATTACCTATTACATTATAATTATAGGTTTCGATGTTTCTGGG
* * *
129264 ATTGACACTTTTTATAAACGTTTCGACAC
128 ATCGACACTTTTTATAAATGTATCGACAC
129293 ATATGTTTAC
Statistics
Matches: 484, Mismatches: 60, Indels: 24
0.85 0.11 0.04
Matches are distributed among these distances:
199 31 0.06
200 416 0.86
201 37 0.08
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (199 bp):
TCGACACAAATTACACAAGTGTCGATACATTATGTACACCTATTCTCTCATAAAACCGGTATTAG
TATACCAGTTACATTGAAAAATTACCTATTACATTATAATTATAGGTTTCGATGTTTCTGGGATC
GACACTTTTTATAAATGTATCGACACTTAATGGTGCACCCTTTTGGGCATTCCTTCTGGACAAAA
AGTA
Found at i:129011 original size:535 final size:536
Alignment explanation
Indices: 128002--129068 Score: 1569
Period size: 535 Copynumber: 2.0 Consensus size: 536
127992 ACAAAACGTA
* * **
128002 TCGACACAAAATAAAAAAGTGTCGATACATTATATAGACCTATTATCACATAAAACCGGTATATT
1 TCGACACAAAATAAAAAAGTGTCGATACATTATATACACCTATTATCACATAAAACCGATATAAG
* * *
128067 TATACCGGTTATATTACAAAATTACCTATTACAGTATAATTATGAGTTTCGATATTTTTAGGATC
66 TATACCAGTTACATTACAAAATTACCTATTACAGTATAATTATGAGTTTCGATATTTCTAGGATC
* *
128132 GACACTTTGTATAAATGTATCGACACTTAGTGGTGCACCCTTTTTGGGCATTCCTTCTGGACCAA
131 GACACTTTGTATAAATGTATCGACACTTAGTGGTGCACCCCTTTTGGACATTCCTTCTGGACCAA
*
128197 AAGTATCGGCACAAATTACACAAGTGTCAATACATATTGTACACCTATTCTCTCATAAAACCGGT
196 AAGTATCGACACAAATTACACAAGTGTCAATACATATTGTACACCTATTCTCTCATAAAACCGGT
*
128262 ATAAGTATACCGGTTACATTGAAAAATTACCTATTATATTATAATTATGGATTTCGATGTTTCTG
261 ATAAGTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGATTTCGATGTTTCTG
*
128327 GGATCGACACTTATTATAAATGTATCGACACTTAGTGGTGCACCCCTTTTGGACATTCCTTCTGG
326 GGATCGACACTTATTATAAATGTATCGACACTTAGTCGTGCACCCCTTTTGGACATTCCTTCTGG
* *
128392 ACCAAAAGTATCGACACAAAATACACAAGTGTCGATACATATTGTACACCTATTTTCTCATAAAA
391 ACCAAAAGTATCAACACAAAATACACAAGTGTCGATACATATTGTACACCTATTCTCTCATAAAA
* *
128457 CCTGTATTTGTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTAT-GGTTTCGATGT
456 CCGGTATTAGTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGT
*
128521 TTCTGGGATCGATACT
521 TTATGGGATCGATACT
* * * * * * * *
128537 TCGACACAAATTACACAAGTGTCGATTCA-TATTGTACACCTATTCTCTCATAAAACCGATGTAA
1 TCGACACAAAATAAAAAAGTGTCGATACATTA-TATACACCTATTATCACATAAAACCGATATAA
* * * *
128601 GTATACCAGTTACATTGA-AAAATTACCTATTATATTATAATTATG-GATTTCGATGTTTCTGGG
65 GTATACCAGTTACATT-ACAAAATTACCTATTACAGTATAATTATGAG-TTTCGATATTTCTAGG
128664 ATCGACACTTAT-TATAAATGTATCGACACTTAGTGGTGCACCCCTTTTGGACATTCCTTCTGGA
128 ATCGACACTT-TGTATAAATGTATCGACACTTAGTGGTGCACCCCTTTTGGACATTCCTTCTGGA
*
128728 CCAAAAGTATCGACACAAATTACACAAGTGTCGATACATATTGTACACCTATTCTCTCATAAAAC
192 CCAAAAGTATCGACACAAATTACACAAGTGTCAATACATATTGTACACCTATTCTCTCATAAAAC
** *
128793 CGGTATTTGTATACCGGTTACATTGAAAAATTACTTATTACATTATAATTATGG-TTTCGATGTT
257 CGGTATAAGTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGATTTCGATGTT
* * ** **
128857 TCTGGGATCGATACTTGTTTATAAATGTATCGACACTTTTTACGTGCA-CCCTTTTGGGGATTCC
322 TCTGGGATCGACACTT-ATTATAAATGTATCGACACTTAGT-CGTGCACCCCTTTTGGACATTCC
* * * * * *
128921 TTCTGGA-GAAACAGTATCAACACAAATTTCAGAAGTGTCGATACAT-TATGTAGATCTATTCTC
385 TTCTGGACCAAA-AGTATCAACACAAAATACACAAGTGTCGATACATAT-TGTACACCTATTCTC
*
128984 TCATAAAATCGGT-TTAGTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGG
448 TCATAAAACCGGTATTAG-TATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGG
129048 TTTCGATGTTTATGGGATCGA
512 TTTCGATGTTTATGGGATCGA
129069 CATTTTCAAT
Statistics
Matches: 476, Mismatches: 46, Indels: 19
0.88 0.09 0.04
Matches are distributed among these distances:
534 35 0.07
535 412 0.87
536 29 0.06
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (536 bp):
TCGACACAAAATAAAAAAGTGTCGATACATTATATACACCTATTATCACATAAAACCGATATAAG
TATACCAGTTACATTACAAAATTACCTATTACAGTATAATTATGAGTTTCGATATTTCTAGGATC
GACACTTTGTATAAATGTATCGACACTTAGTGGTGCACCCCTTTTGGACATTCCTTCTGGACCAA
AAGTATCGACACAAATTACACAAGTGTCAATACATATTGTACACCTATTCTCTCATAAAACCGGT
ATAAGTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGATTTCGATGTTTCTG
GGATCGACACTTATTATAAATGTATCGACACTTAGTCGTGCACCCCTTTTGGACATTCCTTCTGG
ACCAAAAGTATCAACACAAAATACACAAGTGTCGATACATATTGTACACCTATTCTCTCATAAAA
CCGGTATTAGTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGT
TTATGGGATCGATACT
Found at i:129225 original size:735 final size:736
Alignment explanation
Indices: 127802--129265 Score: 1906
Period size: 735 Copynumber: 2.0 Consensus size: 736
127792 ACAAAAAGTA
* * * * * * *
127802 TCGACACCAATTCCACAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAATCGGTATAAT
1 TCGACACAAATTACACAAGTGTCGATACATATTGTACACCTATTCTCTCATAAAACCGATATAAG
* * * * * * *
127867 TATACCGGTTACATTGTAAATTTACATATTACATTATATTTAAGGGTTTCGATGTTTCTGGTATT
66 TATACCAGTTACATTGAAAAATTACATATTACATTATAATTAAGGATTTCGATGTTTCTGGGATC
* * * * *
127932 GACACTTTTTATAAATATATCGATACTTTATGTGTTCATCATTTTGGGCATTCATTCTAGACAAA
131 GACACTTATTATAAATATATCGACACTTTATGTGTGCACCATTTTGGACATTCATTCTAGACAAA
*
127997 ACGTATCGACACAAAATAAAAAAGTGTCGATACATTATATAGACCTATTATCACATAAAACCGGT
196 ACGTATCGACACAAAATAAAAAAGTGTCGATACATTATATACACCTATTATCACATAAAACCGGT
* *
128062 ATATTTATACCGGTTATATTACAAAATTACCTATTACAGTATAATTATGAGTTTCGATATTTTTA
261 ATATTTATACCGGTTACATTACAAAATTACCTATTACAGTATAATTATGAGTTTCGATATTTCTA
*
128127 GGATCGACACTTTGTATAAATGTATCGACACTTAGTGGTGCACCCTTTTTGGGCATTCCTTCTGG
326 GGATCGACACTTTGTATAAATGTATCGACACTTAGTCGTGCACCCTTTTTGGGCATTCCTTCTGG
**
128192 ACCAAAAGTATCGGCACAAATTACACAAGTGTCAATACATATTGTACACCTATTCTCTCATAAAA
391 ACCAAAAGTATCAACACAAATTACACAAGTGTCAATACATATTGTACACCTATTCTCTCATAAAA
*
128257 CCGGTATAAGTATACCGGTTACATTGAAAAATTACCTATTATATTATAATTATGGATTTCGATGT
456 CCGGTATAAGTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGATTTCGATGT
* * * * *
128322 TTCTGGGATCGACACTTATTATAAATGTATCGACACTTAGTGGTGCACCCCTTTTGGACATTCCT
521 TTATGGGATCGACACTTATTATAAATGTATCGACACATAATGGTGCACCCATTTTGGACATTCAT
* * * * *
128387 TCTGGACCAAAAGTATCGACACAAAATACACAAGTGTCGATACATATTGTACACCTATTTTCTCA
586 TCTGGACAAAAAGTATCGACACAAAATACAAAAATGTCGATACATATTGTACACCTATTCTCACA
*
128452 TAAAACCTGTATTTGTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTAT-GGTTTC
651 TAAAACCTGTATTTGTATACCAGTTACATTGAAAAATTACCTATTACATTATAATTATAGGTTTC
128516 GATGTTTCTGGGATCGATACT
716 GATGTTTCTGGGATCGATACT
* *
128537 TCGACACAAATTACACAAGTGTCGATTCATATTGTACACCTATTCTCTCATAAAACCGATGTAAG
1 TCGACACAAATTACACAAGTGTCGATACATATTGTACACCTATTCTCTCATAAAACCGATATAAG
* * *
128602 TATACCAGTTACATTGAAAAATTACCTATTATATTATAATTATGGATTTCGATGTTTCTGGGATC
66 TATACCAGTTACATTGAAAAATTACATATTACATTATAATTAAGGATTTCGATGTTTCTGGGATC
* * * *
128667 GACACTTATTATAAATGTATCGACAC-TTA-GTGGTGCACCCCTTTTGGACATTCCTTCTGGACC
131 GACACTTATTATAAATATATCGACACTTTATGT-GTGCA-CCATTTTGGACATTCATTCTAGA-C
* * * * * *
128730 AAAA-GTATCGACACAAATTACACAAGTGTCGATACA-TATTGTACACCTATTCTCTCATAAAAC
193 AAAACGTATCGACACAAAATAAAAAAGTGTCGATACATTA-TATACACCTATTATCACATAAAAC
* * *
128793 CGGTAT-TTGTATACCGGTTACATTGA-AAAATTACTTATTACATTATAATTATG-GTTTCGATG
257 CGGTATATT-TATACCGGTTACATT-ACAAAATTACCTATTACAGTATAATTATGAGTTTCGATA
* * * ** *
128855 TTTCTGGGATCGATACTTGTTTATAAATGTATCGACACTTTTTACGTGCACCC-TTTTGGGGATT
320 TTTCTAGGATCGACACTT-TGTATAAATGTATCGACACTTAGT-CGTGCACCCTTTTTGGGCATT
* * * * * *
128919 CCTTCTGGA-GAAACAGTATCAACACAAATTTCAGAAGTGTCGATACAT-TATGTAGATCTATTC
383 CCTTCTGGACCAAA-AGTATCAACACAAATTACACAAGTGTCAATACATAT-TGTACACCTATTC
* *
128982 TCTCATAAAATCGGT-TTAGTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATG
446 TCTCATAAAACCGGTATAAG-TATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATG
* * *
129046 GGTTTCGATGTTTATGGGATCGACA-TT-TTCAATAAATGTATCGACACATAATGCGTTCA-TCA
510 GATTTCGATGTTTATGGGATCGACACTTATT--ATAAATGTATCGACACATAATG-GTGCACCCA
* **
129108 TTTTGGGCATTCATTCTGGACAAAAAGTATCGACACGTAATGA-AAAAATGTCGATACAT-TATG
572 TTTTGGACATTCATTCTGGACAAAAAGTATCGACACAAAAT-ACAAAAATGTCGATACATAT-TG
* *
129171 TAGACCTATTCTCACATAAAA-CTGGTATATT-TATACCAGTTATATT-ACAAAATTACCTATTA
635 TACACCTATTCTCACATAAAACCT-GTAT-TTGTATACCAGTTACATTGA-AAAATTACCTATTA
* *
129233 CATTATAATTATAGGTTTTGATGTTTTTGGGAT
697 CATTATAATTATAGGTTTCGATGTTTCTGGGAT
129266 TGACACTTTT
Statistics
Matches: 630, Mismatches: 79, Indels: 39
0.84 0.11 0.05
Matches are distributed among these distances:
733 4 0.01
734 47 0.07
735 540 0.86
736 39 0.06
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (736 bp):
TCGACACAAATTACACAAGTGTCGATACATATTGTACACCTATTCTCTCATAAAACCGATATAAG
TATACCAGTTACATTGAAAAATTACATATTACATTATAATTAAGGATTTCGATGTTTCTGGGATC
GACACTTATTATAAATATATCGACACTTTATGTGTGCACCATTTTGGACATTCATTCTAGACAAA
ACGTATCGACACAAAATAAAAAAGTGTCGATACATTATATACACCTATTATCACATAAAACCGGT
ATATTTATACCGGTTACATTACAAAATTACCTATTACAGTATAATTATGAGTTTCGATATTTCTA
GGATCGACACTTTGTATAAATGTATCGACACTTAGTCGTGCACCCTTTTTGGGCATTCCTTCTGG
ACCAAAAGTATCAACACAAATTACACAAGTGTCAATACATATTGTACACCTATTCTCTCATAAAA
CCGGTATAAGTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGATTTCGATGT
TTATGGGATCGACACTTATTATAAATGTATCGACACATAATGGTGCACCCATTTTGGACATTCAT
TCTGGACAAAAAGTATCGACACAAAATACAAAAATGTCGATACATATTGTACACCTATTCTCACA
TAAAACCTGTATTTGTATACCAGTTACATTGAAAAATTACCTATTACATTATAATTATAGGTTTC
GATGTTTCTGGGATCGATACT
Found at i:129280 original size:400 final size:400
Alignment explanation
Indices: 128540--129292 Score: 1022
Period size: 400 Copynumber: 1.9 Consensus size: 400
128530 CGATACTTCG
*
128540 ACACAAATTACACAAGTGTCGATTCATATTGTACACCTATTCTCTCATAAAACCGATGTAAGTAT
1 ACACAAATTACACAAGTGTCGATACATATTGTACACCTATTCTCTCATAAAACCGATGTAAGTAT
* *
128605 ACCAGTTACATTGAAAAATTACCTATTATATTATAATTATGGATTTCGATGTTTCTGGGATCGAC
66 ACCAGTTACATTGAAAAATTACCTATTACATTATAATTATGGATTTCGATGTTTATGGGATCGAC
* * * * *
128670 ACTTATTATAAATGTATCGACACTTAGTGGTGCACCCCTTTTGGACATTCCTTCTGGACCAAAAG
131 ACTTATTATAAATGTATCGACACATAATGGTGCACCCATTTTGGACATTCATTCTGGACAAAAAG
* * * *
128735 TATCGACACAAATTACACAAGTGTCGATACATATTGTACACCTATTCTCTCATAAAACCGGTATT
196 TATCGACACAAATGACAAAAATGTCGATACATATTGTACACCTATTCTCACATAAAACCGGTATT
* *
128800 TGTATACCGGTTACATTGAAAAATTACTTATTACATTATAATTATGGTTTCGATGTTTCTGGGAT
261 TGTATACCAGTTACATTGAAAAATTACCTATTACATTATAATTATGGTTTCGATGTTTCTGGGAT
* *
128865 CGATACTTGTTTATAAATGTATCGACACTTTTTACGTGCACCCTTTTGGGGATTCCTTCTGGAGA
326 CGACACTTGTTTATAAACGTATCGACACTTTTTACGTGCACCCTTTTGGGGATTCCTTCTGGAGA
128930 AACAGTATCA
391 AACAGTATCA
* * * * * * *
128940 ACACAAATTTCAGAAGTGTCGATACAT-TATGTAGATCTATTCTCTCATAAAATCGGT-TTAGTT
1 ACACAAATTACACAAGTGTCGATACATAT-TGTACACCTATTCTCTCATAAAACCGATGTAAG-T
* *
129003 ATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTATGGGATCG
64 ATACCAGTTACATTGAAAAATTACCTATTACATTATAATTATGGATTTCGATGTTTATGGGATCG
* * *
129068 ACA-TT-TTCAATAAATGTATCGACACATAATGCGTTCA-TCATTTTGGGCATTCATTCTGGACA
129 ACACTTATT--ATAAATGTATCGACACATAATG-GTGCACCCATTTTGGACATTCATTCTGGACA
* *
129130 AAAAGTATCGACACGTAATGA-AAAAATGTCGATACAT-TATGTAGACCTATTCTCACATAAAAC
191 AAAAGTATCGACAC-AAATGACAAAAATGTCGATACATAT-TGTACACCTATTCTCACATAAAAC
* * *
129193 TGGTATATT-TATACCAGTTATATT-ACAAAATTACCTATTACATTATAATTATAGGTTTTGATG
254 CGGTAT-TTGTATACCAGTTACATTGA-AAAATTACCTATTACATTATAATTAT-GGTTTCGATG
* * *
129256 TTTTTGGGATTGACACTT-TTTATAAACGTTTCGACAC
316 TTTCTGGGATCGACACTTGTTTATAAACGTATCGACAC
129293 ATATGTTTAC
Statistics
Matches: 307, Mismatches: 36, Indels: 20
0.85 0.10 0.06
Matches are distributed among these distances:
398 2 0.01
399 8 0.03
400 263 0.86
401 34 0.11
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (400 bp):
ACACAAATTACACAAGTGTCGATACATATTGTACACCTATTCTCTCATAAAACCGATGTAAGTAT
ACCAGTTACATTGAAAAATTACCTATTACATTATAATTATGGATTTCGATGTTTATGGGATCGAC
ACTTATTATAAATGTATCGACACATAATGGTGCACCCATTTTGGACATTCATTCTGGACAAAAAG
TATCGACACAAATGACAAAAATGTCGATACATATTGTACACCTATTCTCACATAAAACCGGTATT
TGTATACCAGTTACATTGAAAAATTACCTATTACATTATAATTATGGTTTCGATGTTTCTGGGAT
CGACACTTGTTTATAAACGTATCGACACTTTTTACGTGCACCCTTTTGGGGATTCCTTCTGGAGA
AACAGTATCA
Found at i:129670 original size:19 final size:19
Alignment explanation
Indices: 129642--129690 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
129632 TTATATCCAC
*
129642 ATACACAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
129661 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
129680 ATACAAAATTA
1 ATACAAAATTA
129691 ACTCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.53, C:0.12, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:131289 original size:16 final size:17
Alignment explanation
Indices: 131270--131307 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
131260 TATTCCTCCC
*
131270 TTTTTTC-TTCTTCATA
1 TTTTTTCGTTCATCATA
*
131286 TTTTTTCGTTCATCGTA
1 TTTTTTCGTTCATCATA
131303 TTTTT
1 TTTTT
131308 GCTCTACATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.11, C:0.16, G:0.05, T:0.68
Consensus pattern (17 bp):
TTTTTTCGTTCATCATA
Found at i:131441 original size:66 final size:66
Alignment explanation
Indices: 131371--131495 Score: 151
Period size: 66 Copynumber: 1.9 Consensus size: 66
131361 AACCACCCCT
* * **
131371 TCACCCCCGTAAGTTCACTCCTCAATTCCACAACCTCCTTCACCACTCCATCAATTTTTTCACCC
1 TCACCACCGTAAGTTCACCCCTCAACACCACAACCTCCTTCACCACTCCATCAATTTTTTCACCC
131436 A
66 A
* * * * * * *
131437 TCACCATCTTAAGTTCACCCCTCAACACCTCAACTTCTTTCACCACTTCATCTATTTTT
1 TCACCACCGTAAGTTCACCCCTCAACACCACAACCTCCTTCACCACTCCATCAATTTTT
131496 CCTTCAACTT
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
66 48 1.00
ACGTcount: A:0.24, C:0.41, G:0.02, T:0.33
Consensus pattern (66 bp):
TCACCACCGTAAGTTCACCCCTCAACACCACAACCTCCTTCACCACTCCATCAATTTTTTCACCC
A
Found at i:131540 original size:21 final size:21
Alignment explanation
Indices: 131516--131560 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
131506 CCCCCTTATG
131516 TCTCTC-AATTGTCTCTTCGAC
1 TCTCTCAAATT-TCTCTTCGAC
*
131537 TCTCTCAAATTTCTCTTTGAC
1 TCTCTCAAATTTCTCTTCGAC
131558 TCT
1 TCT
131561 TGATTGTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.16, C:0.31, G:0.07, T:0.47
Consensus pattern (21 bp):
TCTCTCAAATTTCTCTTCGAC
Found at i:134275 original size:181 final size:182
Alignment explanation
Indices: 133961--134633 Score: 970
Period size: 182 Copynumber: 3.7 Consensus size: 182
133951 TACGCGTACT
* * ** * *
133961 TATTAAAGTATCGACACTTTAAATATATCCGGTAGCGCTTTACCGGTTTTGTCACTTAGAGACCA
1 TATTAAAGTATCGACACTTTCAATATATCCGATAGCGCTTTACCGGTTTTGTCTTTTCGAGACCG
* * * *
134026 ATTTTATCATATTTTTACCTTTTATATCGTTATGGATCGATACATTTTTATAAAGTATCGACACT
66 ATTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
* *
134091 TTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
131 TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
* *
134143 TATTAAATTATCGACACTTTCAATATAT-CGATAGCACTTTACCGGTTTTGTCTTTTCGAGACCG
1 TATTAAAGTATCGACACTTTCAATATATCCGATAGCGCTTTACCGGTTTTGTCTTTTCGAGACCG
* * * * *
134207 ATTTTATCATATTTTAACATGTTATATCGTTGTAGATCGATGCATATTTATAAAGAATCGAAACT
66 ATTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
134272 TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
131 TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
* * * **
134324 TATTAAAGTATCGACACTTTCAATATATCCGATATCTCTTTACCGGTTTTGTCTTCTCCTGACCG
1 TATTAAAGTATCGACACTTTCAATATATCCGATAGCGCTTTACCGGTTTTGTCTTTTCGAGACCG
* *
134389 GTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
66 ATTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
* *
134454 TTATAGGCGCTAAAACTACTTCTCCTTTAAATTCACTATGTGTCGATACTTA
131 TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
* * * * * *
134506 TATTTAAGTATCGACACTTGCAATATATCTGGTAGCGCTTTATCGGTTTTGTCTTTTCGTGACCG
1 TATTAAAGTATCGACACTTTCAATATATCCGATAGCGCTTTACCGGTTTTGTCTTTTCGAGACCG
* * * * * * *
134571 GTTTTATCATATTTTTTCCTATTATATTGATGTGGATCGATACATTTTTATAAAGTATCGACA
66 ATTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACA
134634 TAAACAGACA
Statistics
Matches: 440, Mismatches: 50, Indels: 2
0.89 0.10 0.00
Matches are distributed among these distances:
181 163 0.37
182 277 0.63
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.41
Consensus pattern (182 bp):
TATTAAAGTATCGACACTTTCAATATATCCGATAGCGCTTTACCGGTTTTGTCTTTTCGAGACCG
ATTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
Found at i:140059 original size:16 final size:16
Alignment explanation
Indices: 140033--140070 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
140023 ACAAAAGTCC
140033 TTTAGAAATGAAATAGT
1 TTTA-AAATGAAATAGT
*
140050 TTTAAAATGACATAGT
1 TTTAAAATGAAATAGT
140066 TTTAA
1 TTTAA
140071 CATTTCAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.45, C:0.03, G:0.13, T:0.39
Consensus pattern (16 bp):
TTTAAAATGAAATAGT
Found at i:157048 original size:3 final size:3
Alignment explanation
Indices: 157040--157064 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
157030 TCTTATTAAT
157040 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
157065 AAATAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:159915 original size:58 final size:58
Alignment explanation
Indices: 159812--159929 Score: 141
Period size: 58 Copynumber: 2.0 Consensus size: 58
159802 TTTGGTTTCG
* *
159812 TATTGTTTGGTCATTTAAATTAATACATTTTAAAAATTTTGAGTTTGAATAATAATTT
1 TATTGTTTGGTCATTTAAACTAATACATTTTAAAAATTTTGAGTTTCAATAATAATTT
* ** * *
159870 TATTGTTTGGTCGTTTAAACTAATGTATATTT-AATATTTCT-AGTTTCAATAGTAATTT
1 TATTGTTTGGTCATTTAAACTAATACAT-TTTAAAAATTT-TGAGTTTCAATAATAATTT
159928 TA
1 TA
159930 AGTTAGCATG
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
58 47 0.92
59 4 0.08
ACGTcount: A:0.33, C:0.05, G:0.11, T:0.51
Consensus pattern (58 bp):
TATTGTTTGGTCATTTAAACTAATACATTTTAAAAATTTTGAGTTTCAATAATAATTT
Found at i:166627 original size:6 final size:6
Alignment explanation
Indices: 166616--166678 Score: 90
Period size: 6 Copynumber: 9.8 Consensus size: 6
166606 TAAGTGGGTA
166616 TATATG TATATG TATACATG TATACTTG TATATG TATATG TATATG TATATG
1 TATATG TATATG TAT--ATG TATA--TG TATATG TATATG TATATG TATATG
166668 TATATG TATAT
1 TATATG TATAT
166679 ATGAAGAGAA
Statistics
Matches: 53, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
6 41 0.77
8 12 0.23
ACGTcount: A:0.33, C:0.03, G:0.14, T:0.49
Consensus pattern (6 bp):
TATATG
Found at i:168682 original size:19 final size:18
Alignment explanation
Indices: 168658--168693 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
168648 TTTATTGTTA
*
168658 GTTAGTTTGTTAGCTTGCG
1 GTTAGTTGGTTAG-TTGCG
168677 GTTAGTTGGTTAGTTGC
1 GTTAGTTGGTTAGTTGC
168694 AGCAGGTTAC
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:0.08, G:0.33, T:0.47
Consensus pattern (18 bp):
GTTAGTTGGTTAGTTGCG
Found at i:169625 original size:20 final size:20
Alignment explanation
Indices: 169597--169635 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
169587 GTATAAATAG
169597 TACTGATACTATTTGAACAA
1 TACTGATACTATTTGAACAA
* *
169617 TACTTATACTGTTTGAACA
1 TACTGATACTATTTGAACA
169636 GTGATGAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.38
Consensus pattern (20 bp):
TACTGATACTATTTGAACAA
Found at i:169709 original size:20 final size:20
Alignment explanation
Indices: 169671--169709 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
169661 AATTTCAGAA
**
169671 TGCTACAGGGGTATTGATAC
1 TGCTACAGGGGTACAGATAC
169691 TGCTACAGGGGTACAGATA
1 TGCTACAGGGGTACAGATA
169710 TTGTTACTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (20 bp):
TGCTACAGGGGTACAGATAC
Found at i:173430 original size:34 final size:33
Alignment explanation
Indices: 173392--173462 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 33
173382 TCCTTTAAAG
*
173392 GGGAAAGGTTCTAG-CTAAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGTCTAA-CCCGTG-AAAAACTA
*
173426 GGGAAAGGTTCTAGTTTAACCCGTGAAAAACTA
1 GGGAAAGGTTCTAGTCTAACCCGTGAAAAACTA
173459 GGGA
1 GGGA
173463 GTTGTAAAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 11 0.32
34 20 0.59
35 3 0.09
ACGTcount: A:0.34, C:0.15, G:0.30, T:0.21
Consensus pattern (33 bp):
GGGAAAGGTTCTAGTCTAACCCGTGAAAAACTA
Found at i:179292 original size:14 final size:14
Alignment explanation
Indices: 179273--179317 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
179263 AAAATAAAAT
179273 AAAATAATGATTTA
1 AAAATAATGATTTA
*
179287 AAAATAA--A-ATA
1 AAAATAATGATTTA
179298 AAAATAATGATTTA
1 AAAATAATGATTTA
179312 AAAATA
1 AAAATA
179318 GTAATAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
11 9 0.35
12 1 0.04
13 1 0.04
14 15 0.58
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (14 bp):
AAAATAATGATTTA
Found at i:179299 original size:5 final size:5
Alignment explanation
Indices: 179255--179279 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
179245 GAAAAGATAG
179255 AATAA AATAA AATAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AATAA
179280 TGATTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:179323 original size:26 final size:25
Alignment explanation
Indices: 179263--179330 Score: 111
Period size: 25 Copynumber: 2.7 Consensus size: 25
179253 AGAATAAAAT
179263 AAAATAAAAT-AAAATAATGATTTA
1 AAAATAAAATAAAAATAATGATTTA
179287 AAAATAAAATAAAAATAATGATTTA
1 AAAATAAAATAAAAATAATGATTTA
*
179312 AAAATAGTAATAAAAATAA
1 AAAATA-AAATAAAAATAA
179331 AAAAGGGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
24 10 0.24
25 20 0.49
26 11 0.27
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.26
Consensus pattern (25 bp):
AAAATAAAATAAAAATAATGATTTA
Found at i:183737 original size:12 final size:12
Alignment explanation
Indices: 183698--183739 Score: 75
Period size: 12 Copynumber: 3.5 Consensus size: 12
183688 TATGTTGCAC
183698 GGATGGATACGG
1 GGATGGATACGG
*
183710 GGACGGATACGG
1 GGATGGATACGG
183722 GGATGGATACGG
1 GGATGGATACGG
183734 GGATGG
1 GGATGG
183740 GGACGAGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.24, C:0.10, G:0.52, T:0.14
Consensus pattern (12 bp):
GGATGGATACGG
Found at i:183967 original size:75 final size:75
Alignment explanation
Indices: 183842--184039 Score: 231
Period size: 75 Copynumber: 2.6 Consensus size: 75
183832 AATCATAAAT
* * * * * ** *
183842 AATGTCAAATATCAAGACTCAAACAACAATATTAAGTTTATAGCAGTAAAATCCATAA-ACAAA-
1 AATGTCAAATTTCAAGACTCAAACCATAATATTAAGTCTAGAAAAATAAAATCCATAATA-AAAT
183905 CAACAATATTAA
65 C-ACAATATTAA
* * *
183917 AATGTCAAATTTCAAGATTCAAACCATAATATTAACTCTAGAATAATAAAATCCATAATAAAATC
1 AATGTCAAATTTCAAGACTCAAACCATAATATTAAGTCTAGAAAAATAAAATCCATAATAAAATC
*
183982 ATAATATTAA
66 ACAATATTAA
*
183992 AGTGTCAAATCTT-AAGACTCAAACCATAATATTAAGTCTAGAAAAATA
1 AATGTCAAAT-TTCAAGACTCAAACCATAATATTAAGTCTAGAAAAATA
184040 TTAAACTCAA
Statistics
Matches: 105, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
75 101 0.96
76 4 0.04
ACGTcount: A:0.52, C:0.15, G:0.07, T:0.27
Consensus pattern (75 bp):
AATGTCAAATTTCAAGACTCAAACCATAATATTAAGTCTAGAAAAATAAAATCCATAATAAAATC
ACAATATTAA
Found at i:183986 original size:11 final size:12
Alignment explanation
Indices: 183959--183987 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
183949 TAACTCTAGA
183959 ATAATAAAATCC
1 ATAATAAAATCC
183971 ATAATAAAAT-C
1 ATAATAAAATCC
183982 ATAATA
1 ATAATA
183988 TTAAAGTGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (12 bp):
ATAATAAAATCC
Found at i:186397 original size:45 final size:45
Alignment explanation
Indices: 186347--186438 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
186337 TCATGCATCA
186347 ATTGAATGTAATTGAAAACAAAACATGCAAATATAAAAGGCGAAT
1 ATTGAATGTAATTGAAAACAAAACATGCAAATATAAAAGGCGAAT
186392 ATTGAATGTAATTGAAAACAAAACATGCAAATATAAAAGGCGAAT
1 ATTGAATGTAATTGAAAACAAAACATGCAAATATAAAAGGCGAAT
186437 AT
1 AT
186439 AAAAGGTGAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.53, C:0.09, G:0.15, T:0.23
Consensus pattern (45 bp):
ATTGAATGTAATTGAAAACAAAACATGCAAATATAAAAGGCGAAT
Found at i:187153 original size:112 final size:112
Alignment explanation
Indices: 186956--187293 Score: 649
Period size: 112 Copynumber: 3.0 Consensus size: 112
186946 GAAAACCAAC
* *
186956 ATAGAAAGCAACTAATGTGTATTGAGTAGTCATGTAACCTTGAAGTTATACAAGACATTGCATCA
1 ATAGAAAGCAACTAATATCTATTGAGTAGTCATGTAACCTTGAAGTTATACAAGACATTGCATCA
187021 AAAGTTACAAAAAAAAGAATCTGGATAGTTCCAATACATACACACGT
66 AAAGTTACAAAAAAAAGAATCTGGATAGTTCCAATACATACACACGT
187068 ATAGAAAGCAACTAATATCTATTGAGTAGTCATGTAACCTTGAAGTTATACAAGACATTGCATCA
1 ATAGAAAGCAACTAATATCTATTGAGTAGTCATGTAACCTTGAAGTTATACAAGACATTGCATCA
187133 AAAGTTACAAAAAAAAGAATCTGGATAGTTCCAATACATACACACGT
66 AAAGTTACAAAAAAAAGAATCTGGATAGTTCCAATACATACACACGT
*
187180 ATAGAAAGCAACTAATATCTATTGAGTAGTCATGTAACCTTGAATTTATACAAGACATTGCATCA
1 ATAGAAAGCAACTAATATCTATTGAGTAGTCATGTAACCTTGAAGTTATACAAGACATTGCATCA
187245 AAAGTTACAAAAAAAAGAATCTGGATAGTTCCAATACATACACACGT
66 AAAGTTACAAAAAAAAGAATCTGGATAGTTCCAATACATACACACGT
187292 AT
1 AT
187294 TTATAATTAT
Statistics
Matches: 223, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
112 223 1.00
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.26
Consensus pattern (112 bp):
ATAGAAAGCAACTAATATCTATTGAGTAGTCATGTAACCTTGAAGTTATACAAGACATTGCATCA
AAAGTTACAAAAAAAAGAATCTGGATAGTTCCAATACATACACACGT
Found at i:194975 original size:47 final size:47
Alignment explanation
Indices: 194907--194997 Score: 105
Period size: 47 Copynumber: 1.9 Consensus size: 47
194897 GTCCAAAGAC
* * *
194907 AAAATAAATAAAATAAGAATAA-ATAGAAAATTCAATAATAAAATGAA
1 AAAAAAAACAAAATAAGAATAAGA-AGAAAATTAAATAATAAAATGAA
* *
194954 AAAAAAAACAAAAT-AGAAATAAGAAGAAATTTAAATAGTAAAAT
1 AAAAAAAACAAAATAAG-AATAAGAAGAAAATTAAATAATAAAAT
194998 TTATAATTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
46 2 0.05
47 34 0.92
48 1 0.03
ACGTcount: A:0.70, C:0.02, G:0.08, T:0.20
Consensus pattern (47 bp):
AAAAAAAACAAAATAAGAATAAGAAGAAAATTAAATAATAAAATGAA
Found at i:198738 original size:11 final size:11
Alignment explanation
Indices: 198718--198747 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
198708 GGTTAGATAA
198718 AAAT-AATATT
1 AAATAAATATT
198728 AAATAAATATT
1 AAATAAATATT
198739 AAATAAATA
1 AAATAAATA
198748 ACAATAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.21
11 15 0.79
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAAATATT
Found at i:198808 original size:4 final size:4
Alignment explanation
Indices: 198799--198848 Score: 50
Period size: 4 Copynumber: 12.8 Consensus size: 4
198789 AAGGAGAGGA
* * *
198799 AAAT AAAT AAAT AAAAT AAAA AAAT GAAT AAAT AAA- AAAT -ATT AAAT
1 AAAT AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
198846 AAA
1 AAA
198849 AACGAAAACA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
3 5 0.14
4 28 0.76
5 4 0.11
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:198816 original size:13 final size:13
Alignment explanation
Indices: 198798--198848 Score: 52
Period size: 13 Copynumber: 3.9 Consensus size: 13
198788 AAAGGAGAGG
198798 AAAATAAATAAAT
1 AAAATAAATAAAT
*
198811 AAAATAAAAAAAT
1 AAAATAAATAAAT
*
198824 -GAATAAATAAA-
1 AAAATAAATAAAT
198835 AAATATTAAATAAA
1 AAA-A-TAAATAAA
198849 AACGAAAACA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
12 10 0.32
13 13 0.42
14 8 0.26
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (13 bp):
AAAATAAATAAAT
Found at i:198828 original size:17 final size:16
Alignment explanation
Indices: 198798--198848 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 16
198788 AAAGGAGAGG
198798 AAAATAAATAAATAAAAT
1 AAAA-AAATAAAT-AAAT
*
198816 AAAAAAATGAATAAAT
1 AAAAAAATAAATAAAT
198832 AAAAAATATTAAATAAA
1 AAAAAA-A-TAAATAAA
198849 AACGAAAACA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 10 0.34
17 8 0.28
18 11 0.38
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (16 bp):
AAAAAAATAAATAAAT
Found at i:198928 original size:50 final size:53
Alignment explanation
Indices: 198866--198971 Score: 141
Period size: 50 Copynumber: 2.1 Consensus size: 53
198856 ACAAAAGTGA
198866 AAATAATAAAATAATAATGAAG-GGAAATAAAAT-AAAAAATG-TAAAT-AAAT
1 AAATAATAAAATAATAATGAAGAGGAAA-AAAATAAAAAAATGTTAAATAAAAT
* *
198916 AAATACAT-AAATAATAATGATGATGAAAAAAATAAAAAAATGTTAAATAAAAT
1 AAATA-ATAAAATAATAATGAAGAGGAAAAAAATAAAAAAATGTTAAATAAAAT
198969 AAA
1 AAA
198972 AACAATATGA
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
50 23 0.47
51 14 0.29
52 5 0.10
53 7 0.14
ACGTcount: A:0.68, C:0.01, G:0.08, T:0.23
Consensus pattern (53 bp):
AAATAATAAAATAATAATGAAGAGGAAAAAAATAAAAAAATGTTAAATAAAAT
Found at i:199110 original size:20 final size:22
Alignment explanation
Indices: 199079--199124 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 22
199069 CTAAAATAAC
199079 AAAACAAGAACTTAAAAGG-CT
1 AAAACAAGAACTTAAAAGGCCT
*
199100 AAAAC-AGAACTTTAAAGGCCT
1 AAAACAAGAACTTAAAAGGCCT
199121 AAAA
1 AAAA
199125 AAACAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.57, C:0.15, G:0.13, T:0.15
Consensus pattern (22 bp):
AAAACAAGAACTTAAAAGGCCT
Found at i:200725 original size:84 final size:83
Alignment explanation
Indices: 200569--201549 Score: 557
Period size: 84 Copynumber: 11.9 Consensus size: 83
200559 ATGTGTCATG
* ** * *
200569 GAGCTGA-TCGTAGTCGAACTCGAATGTCTTTG-TAACAGATAACCCTTCTCGCCTTGAGTTATG
1 GAGCTGAGT-GTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
* * *
200632 CTGTAAATGATGCGCCGTT
65 CTGCAAATGATGCGCCCTC
*
200651 GAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCTTTCTCGACTTAAGTTATG
1 GAGCTGAGTGTAGTCGAACTCGAAGGTCTTT-GTTGGCAGATAACCCTTCTCGACTTAAGTTATG
*
200716 CTGCAAATGATGTGCCCTC
65 CTGCAAATGATGCGCCCTC
* ** * *
200735 GAAGCTGAGTGTAATCGAACTCGGGGGTC--T-TTGGCAGATAGCCCTTCTCGACTTAAGCTATG
1 G-AGCTGAGTGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
* ******
200797 CTGGAAATGATTTTTTTATC
65 CTGCAAATGA-TGCGCCCTC
* * * * * * * *
200817 -A-CTGAG-GCA--CGATTAATC-CAGGTCTTCT-TCTGGACTTGAAAACCTCGATTAC-AGCCG
1 GAGCTGAGTGTAGTCGA--ACTCGAAGGTCTT-TGT-TGG-C-AGATAACC-C--TT-CTCGACT
* * * * * *
200874 GACAG-TAGTG-TG--ATTGAGGTGTCATC
56 TA-AGTTA-TGCTGCAAATGATGCGCCCTC
* * * * * * * * * *
200900 GAGCTGATTGCAATCGAACTCGACA-GT-TTTATTGACAGATAGCCCTTCTTGCCTTAAGCTATT
1 GAGCTGAGTGTAGTCGAACTCGA-AGGTCTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
* * **
200963 CTGTAAGCTTGATTTG-CCTC
65 CTGCAA--ATGATGCGCCCTC
* * * * * * * * *
200983 TAAGTTGAATATAATCGAACTCGAAGGTC--T-TTAGCAGATAGCCCTTCTCGACTTATGCTATG
1 -GAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
* * *
201045 CTGCAAATGATGTGCCGTT
65 CTGCAAATGATGCGCCCTC
* * * * * * *
201064 GAGTTGAGCGTAGTAGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTG
1 GAGCTGAGTGTAGTCGAACTCGAAGGTC-TTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
** *
201129 CTGCAAATGATATGCCCTG
65 CTGCAAATGATGCGCCCTC
* * * *
201148 GAGCTGAGCGTAGTCGAACTCG-GGAGTC--T-TTGGCAGATAACCCTTCTCGAATTAAGCTATG
1 GAGCTGAGTGTAGTCGAACTCGAAG-GTCTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
* *
201209 CTGCAAATGATGTGCCCTG
65 CTGCAAATGATGCGCCCTC
* * * ** * * * *
201228 GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATA
1 GAGCTGAGTGTAGTCGAACTCGAAGGTC-TTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
* * *
201293 TTGTAAATGATGTGCCCTC
65 CTGCAAATGATGCGCCCTC
* * * * *
201312 GAAGCTGAGTGTAATCGAACTCG-GGGTC---CTTGGCAGATAGCCCTTCTCGACTTAAGCTATG
1 G-AGCTGAGTGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
* * *
201373 CTGCAAATGATGTGCCTTG
65 CTGCAAATGATGCGCCCTC
* *
201392 GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
1 GAGCTGAGTGTAGTCGAACTCGAAGGTCTTT-GTTGGCAGATAACCCTTCTCGACTTAAGTTATG
*
201457 CTGCAAATGATGTGCCCTC
65 CTGCAAATGATGCGCCCTC
* ** *
201476 GAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGTCGGCAGATAACCCTTCTCGACTTAAGTTAT
1 G-AGCTGAGTGTAGTCGAACTCGAAGGTCTTT-GTTGGCAGATAACCCTTCTCGACTTAAGTTAT
201541 GCTGCAAAT
64 GCTGCAAAT
201550 AGTTTGTTTA
Statistics
Matches: 702, Mismatches: 142, Indels: 107
0.74 0.15 0.11
Matches are distributed among these distances:
76 3 0.00
77 4 0.01
78 5 0.01
79 27 0.04
80 152 0.22
81 45 0.06
82 66 0.09
83 26 0.04
84 230 0.33
85 115 0.16
86 18 0.03
87 7 0.01
88 4 0.01
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (83 bp):
GAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGC
TGCAAATGATGCGCCCTC
Found at i:201276 original size:164 final size:164
Alignment explanation
Indices: 200994--201549 Score: 774
Period size: 164 Copynumber: 3.4 Consensus size: 164
200984 AAGTTGAATA
* * * *
200994 TAATCGAACTCGAAGGTCTTTAGCAGATAGCCCTTCTCGACTTATGCTATGCTGCAAATGATGTG
1 TAATCGAACTCG-GGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
* * * * * *
201059 CCGTTGAGTTGAGCGTAGTAGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAG
65 CCCTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTGGCAGATAACCCTTCTAGACTTAAG
* * * *
201124 TTGTGCTGCAAATGATATGCCCT-GGAGCTGAGCG
130 TTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTG
* *
201158 TAGTCGAACTCGGGAGTCTTTGGCAGATAACCCTTCTCGAATTAAGCTATGCTGCAAATGATGTG
1 TAATCGAACTCGGG-GTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
** * *
201223 CCCTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAG
65 CCCTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTGGCAGATAACCCTTCTAGACTTAAG
** *
201288 TTATATTGTAAATGATGTGCCCTCGAAGCTGAGTG
130 TTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTG
* *
201323 TAATCGAACTCGGGGTCCTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGC
1 TAATCGAACTCGGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGC
* *
201388 CTTGGAGCTGAGCGTAGTCGAACTCAAAGGTC-TTTGGTTGGCAGATAACCCTTCTCGACTTAAG
66 CCTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGG-TGGCAGATAACCCTTCTAGACTTAAG
201452 TTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTG
130 TTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTG
*
201487 TAATCGAACTCGGGGGTCTTTGGTCGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAAT
1 TAATCGAACTC-GGGGTC-TT--T-GGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAAT
201550 AGTTTGTTTA
Statistics
Matches: 345, Mismatches: 39, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
163 6 0.02
164 273 0.79
165 28 0.08
166 1 0.00
168 1 0.00
169 36 0.10
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (164 bp):
TAATCGAACTCGGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGC
CCTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTGGCAGATAACCCTTCTAGACTTAAGT
TATGCTGCAAATGATGTGCCCTCGAAGCTGAGTG
Found at i:201536 original size:85 final size:84
Alignment explanation
Indices: 201343--201549 Score: 315
Period size: 85 Copynumber: 2.5 Consensus size: 84
201333 CGGGGTCCTT
* * * * *
201343 GGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCG
1 GGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTCGAAGCTGAGCGTAATCG
*
201408 AACTCAAAGGTCTTTGGTT
66 AACTCAAAGGTCTTTGGTC
*
201427 GGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATC
1 GGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTCGAAGCTGAGCGTAATC
***
201492 GAACTCGGGGGTCTTTGGTC
65 GAACTCAAAGGTCTTTGGTC
201512 GGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAAT
1 GGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAAT
201550 AGTTTGTTTA
Statistics
Matches: 112, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
84 42 0.38
85 70 0.62
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.29
Consensus pattern (84 bp):
GGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTCGAAGCTGAGCGTAATCG
AACTCAAAGGTCTTTGGTC
Found at i:204985 original size:18 final size:19
Alignment explanation
Indices: 204944--204988 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
204934 AGTTAATGTG
204944 AATGCAAAGAAAATAACAA
1 AATGCAAAGAAAATAACAA
*
204963 AATGCAAAGAAAATAA-GA
1 AATGCAAAGAAAATAACAA
204981 AATGCAAA
1 AATGCAAA
204989 ATGTCTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.67, C:0.09, G:0.13, T:0.11
Consensus pattern (19 bp):
AATGCAAAGAAAATAACAA
Found at i:206691 original size:11 final size:11
Alignment explanation
Indices: 206671--206700 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
206661 GGTTAGATAA
206671 AAAT-AATATT
1 AAATAAATATT
206681 AAATAAATATT
1 AAATAAATATT
206692 AAATAAATA
1 AAATAAATA
206701 ACAATAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.21
11 15 0.79
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAAATATT
Found at i:206761 original size:4 final size:4
Alignment explanation
Indices: 206752--206801 Score: 50
Period size: 4 Copynumber: 12.8 Consensus size: 4
206742 AAGGAGAGGA
* * *
206752 AAAT AAAT AAAT AAAAT AAAA AAAT GAAT AAAT AAA- AAAT -ATT AAAT
1 AAAT AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
206799 AAA
1 AAA
206802 AACGAAAACA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
3 5 0.14
4 28 0.76
5 4 0.11
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:206781 original size:17 final size:16
Alignment explanation
Indices: 206751--206887 Score: 59
Period size: 17 Copynumber: 8.2 Consensus size: 16
206741 AAAGGAGAGG
206751 AAAATAAATAAATAAAAT
1 AAAA-AAATAAAT-AAAT
*
206769 AAAAAAATGAATAAAT
1 AAAAAAATAAATAAAT
*
206785 -AAAAAAT-ATTAAAT
1 AAAAAAATAAATAAAT
206799 AAAAACGAA-AACA-AAAGT
1 AAAAA--AATAA-ATAAA-T
*
206817 GAAAATAATAAA-ATAAT
1 -AAAAAAATAAATA-AAT
***
206834 AATAAAGGGAAATAAAAT
1 AA-AAAAATAAAT-AAAT
*
206852 AAAAAAGGTAAATAAAT
1 AAAAAA-ATAAATAAAT
* *
206869 AAATAAATAAATACAT
1 AAAAAAATAAATAAAT
206885 AAA
1 AAA
206888 TAATAATGAT
Statistics
Matches: 93, Mismatches: 13, Indels: 28
0.69 0.10 0.21
Matches are distributed among these distances:
14 6 0.06
15 11 0.12
16 17 0.18
17 35 0.38
18 19 0.20
19 5 0.05
ACGTcount: A:0.72, C:0.02, G:0.07, T:0.19
Consensus pattern (16 bp):
AAAAAAATAAATAAAT
Found at i:206858 original size:18 final size:17
Alignment explanation
Indices: 206827--206871 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
206817 GAAAATAATA
*
206827 AAAT-AATAATAAAGGG
1 AAATAAATAAAAAAGGG
*
206843 AAATAAAATAAAAAAGGT
1 AAAT-AAATAAAAAAGGG
206861 AAATAAATAAA
1 AAATAAATAAA
206872 TAAATAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 4 0.16
17 7 0.28
18 14 0.56
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.18
Consensus pattern (17 bp):
AAATAAATAAAAAAGGG
Found at i:206869 original size:4 final size:4
Alignment explanation
Indices: 206860--206890 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
206850 ATAAAAAAGG
*
206860 TAAA TAAA TAAA TAAA TAAA TACA TAAA TAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAA
206891 TAATGATGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:206950 original size:21 final size:20
Alignment explanation
Indices: 206899--206950 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
206889 AATAATGATG
206899 ATGAAAAAAATAAAAAAAAT
1 ATGAAAAAAATAAAAAAAAT
* * *
206919 GTTAAATAAAATAAAAACAAT
1 ATGAAA-AAAATAAAAAAAAT
206940 ATGAAGAAAAA
1 ATGAA-AAAAA
206951 ATTAAAAATT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 4 0.16
21 20 0.80
22 1 0.04
ACGTcount: A:0.73, C:0.02, G:0.08, T:0.17
Consensus pattern (20 bp):
ATGAAAAAAATAAAAAAAAT
Found at i:207072 original size:20 final size:22
Alignment explanation
Indices: 207041--207086 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 22
207031 CTAAAATAAC
207041 AAAACAAGAACTTAAAAGG-CT
1 AAAACAAGAACTTAAAAGGCCT
*
207062 AAAAC-AGAACTTTAAAGGCCT
1 AAAACAAGAACTTAAAAGGCCT
207083 AAAA
1 AAAA
207087 AAACAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.57, C:0.15, G:0.13, T:0.15
Consensus pattern (22 bp):
AAAACAAGAACTTAAAAGGCCT
Found at i:209126 original size:2 final size:2
Alignment explanation
Indices: 209078--209106 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
209068 TTTTCATAAC
209078 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
209107 TTCATGTGCG
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:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:213543 original size:10 final size:11
Alignment explanation
Indices: 213524--213555 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
213514 TAACCTTTTT
213524 TTTATTATTTA
1 TTTATTATTTA
213535 TTT-TTATTTA
1 TTTATTATTTA
213545 TTTATT-TTTA
1 TTTATTATTTA
213555 T
1 T
213556 AAATGTATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 15 0.75
11 5 0.25
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTATTATTTA
Found at i:213545 original size:14 final size:14
Alignment explanation
Indices: 213522--213555 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
213512 TCTAACCTTT
213522 TTTTTA-TTATTTA
1 TTTTTATTTATTTA
213535 TTTTTATTTATTTA
1 TTTTTATTTATTTA
213549 TTTTTAT
1 TTTTTAT
213556 AAATGTATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.30
14 14 0.70
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTTATTTATTTA
Found at i:214904 original size:20 final size:22
Alignment explanation
Indices: 214875--214914 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
214865 CGCAGCATCT
214875 ATCCACCCAT-TA-ATATATCC
1 ATCCACCCATATATATATATCC
*
214895 ATCCATCCATATATATATAT
1 ATCCACCCATATATATATAT
214915 ATATATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 2 0.12
22 6 0.35
ACGTcount: A:0.38, C:0.28, G:0.00, T:0.35
Consensus pattern (22 bp):
ATCCACCCATATATATATATCC
Found at i:214908 original size:2 final size:2
Alignment explanation
Indices: 214903--214944 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
214893 CCATCCATCC
214903 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
214945 TAAAAAAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:217383 original size:17 final size:18
Alignment explanation
Indices: 217355--217392 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
217345 TTTAGCCAAT
217355 TCTTGGCATAAACCAAAG
1 TCTTGGCATAAACCAAAG
*
217373 TCTTGGC-TAAACCATAG
1 TCTTGGCATAAACCAAAG
217390 TCT
1 TCT
217393 ATAGAGTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.29
Consensus pattern (18 bp):
TCTTGGCATAAACCAAAG
Found at i:223637 original size:23 final size:23
Alignment explanation
Indices: 223569--223629 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
223559 CAATCTTATA
*
223569 TGGCACTACGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
* *
223592 CGACACTTCGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
223615 TGGCACTTCGGTGCA
1 TGGCACTTCGGTGCA
223630 TTTATACGAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.20, C:0.28, G:0.26, T:0.26
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:227466 original size:17 final size:17
Alignment explanation
Indices: 227417--227466 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
227407 TTGTTCATGT
227417 TTTGGTTTCTATGAATG
1 TTTGGTTTCTATGAATG
*
227434 TTTGAG----TATCAATG
1 TTTG-GTTTCTATGAATG
227448 TTTGGTTTCTATGAATG
1 TTTGGTTTCTATGAATG
227465 TT
1 TT
227467 AGAAGAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 10
0.68 0.05 0.26
Matches are distributed among these distances:
13 1 0.04
14 11 0.42
17 13 0.50
18 1 0.04
ACGTcount: A:0.20, C:0.06, G:0.22, T:0.52
Consensus pattern (17 bp):
TTTGGTTTCTATGAATG
Found at i:233109 original size:7 final size:7
Alignment explanation
Indices: 233100--233142 Score: 77
Period size: 7 Copynumber: 6.1 Consensus size: 7
233090 ATACATTTTC
*
233100 ATTCTTC
1 ATTCTTT
233107 ATTCTTT
1 ATTCTTT
233114 ATTCTTT
1 ATTCTTT
233121 ATTCTTT
1 ATTCTTT
233128 ATTCTTT
1 ATTCTTT
233135 ATTCTTT
1 ATTCTTT
233142 A
1 A
233143 CATTCATTTC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.67
Consensus pattern (7 bp):
ATTCTTT
Found at i:236710 original size:6 final size:6
Alignment explanation
Indices: 236696--236751 Score: 55
Period size: 6 Copynumber: 9.7 Consensus size: 6
236686 AAAGAATGAA
* **
236696 AAAATG AAAACG AAAATG AAAATG AAAA-- AAAATG AAATAAA AAAATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAA-ATG AAAATG
236743 AAAA-G AAAA
1 AAAATG AAAA
236752 AGAGGGTTCG
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
4 4 0.10
5 5 0.12
6 28 0.68
7 4 0.10
ACGTcount: A:0.75, C:0.02, G:0.12, T:0.11
Consensus pattern (6 bp):
AAAATG
Found at i:236711 original size:40 final size:40
Alignment explanation
Indices: 236667--236751 Score: 120
Period size: 40 Copynumber: 2.1 Consensus size: 40
236657 ATGAAAAAGT
*
236667 GAAAAGGAAAATTGAAAAAAAA-G-AATGAAAAAATGAAAA
1 GAAAAGGAAAA-TGAAAAAAAATGAAATAAAAAAATGAAAA
*
236706 CGAAAATGAAAATGAAAAAAAATGAAATAAAAAAATGAAAA
1 -GAAAAGGAAAATGAAAAAAAATGAAATAAAAAAATGAAAA
236747 GAAAA
1 GAAAA
236752 AGAGGGTTCG
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
39 10 0.24
40 16 0.39
41 15 0.37
ACGTcount: A:0.73, C:0.01, G:0.15, T:0.11
Consensus pattern (40 bp):
GAAAAGGAAAATGAAAAAAAATGAAATAAAAAAATGAAAA
Found at i:236725 original size:28 final size:28
Alignment explanation
Indices: 236685--236752 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
236675 AAATTGAAAA
**
236685 AAAAGAATGAAAAAATGAAA-ACGAAAATG
1 AAAAGAA--AAAAAATGAAATAAAAAAATG
236714 AAAATGAAAAAAAATGAAATAAAAAAATG
1 AAAA-GAAAAAAAATGAAATAAAAAAATG
236743 AAAAGAAAAA
1 AAAAGAAAAA
236753 GAGGGTTCGA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
28 17 0.49
29 15 0.43
30 3 0.09
ACGTcount: A:0.75, C:0.01, G:0.13, T:0.10
Consensus pattern (28 bp):
AAAAGAAAAAAAATGAAATAAAAAAATG
Found at i:236737 original size:13 final size:13
Alignment explanation
Indices: 236681--236745 Score: 53
Period size: 13 Copynumber: 4.9 Consensus size: 13
236671 AGGAAAATTG
*
236681 AAAAAAAAG-AAT
1 AAAAAAATGAAAT
*
236693 GAAAAAATGAAA-
1 AAAAAAATGAAAT
**
236705 ACGAAAATGAAAAT
1 AAAAAAATG-AAAT
236719 GAAAAAAAATGAAAT
1 --AAAAAAATGAAAT
236734 AAAAAAATGAAA
1 AAAAAAATGAAA
236746 AGAAAAAGAG
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
12 13 0.32
13 17 0.41
15 4 0.10
16 7 0.17
ACGTcount: A:0.75, C:0.02, G:0.12, T:0.11
Consensus pattern (13 bp):
AAAAAAATGAAAT
Found at i:237830 original size:105 final size:105
Alignment explanation
Indices: 237642--238015 Score: 581
Period size: 105 Copynumber: 3.6 Consensus size: 105
237632 CAAAAACTAT
* * * *
237642 AATTCA-CCCAG-AAGAAGATGAATCAACATTTCCAAAAGAGTTTATAATAAGAATAACTCGTCC
1 AATTCACCCCAGAAAG-AGGTGAATCAACATTTCCAAAAGAGTTCATAATGAGAAGAACTCGTCC
*
237705 TAAAGGAGAAGGTTCGTAATGAGAAGAGCTTGTTCCTTTCA
65 TAAAGGAGAAGGTTCGTAATGAGAAGAGCATGTTCCTTTCA
237746 AATTCACCCCAGAAAGAGGTGAATCAACATTTCCAAAAGAGTTCATAATGAGAAGAACTCGTCCT
1 AATTCACCCCAGAAAGAGGTGAATCAACATTTCCAAAAGAGTTCATAATGAGAAGAACTCGTCCT
* *
237811 AAAGGAGAAGGTTTGTAATGAGAAGAGCGTGTTCCTTTCA
66 AAAGGAGAAGGTTCGTAATGAGAAGAGCATGTTCCTTTCA
* *
237851 AATTCACCCCAGAAAGAGGTGAATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCCT
1 AATTCACCCCAGAAAGAGGTGAATCAACATTTCCAAAAGAGTTCATAATGAGAAGAACTCGTCCT
* *
237916 AAAGGAGAAGGTTCGTAATGAGAAGAGCATGTTCTTTTGA
66 AAAGGAGAAGGTTCGTAATGAGAAGAGCATGTTCCTTTCA
* * * * *
237956 AATTCACCCCAGAATGAGGTGAATCAAAATTTCTAGAAGATTTCATAATGAGAAGAACTC
1 AATTCACCCCAGAAAGAGGTGAATCAACATTTCCAAAAGAGTTCATAATGAGAAGAACTC
238016 ATCCAACAAA
Statistics
Matches: 252, Mismatches: 16, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
104 6 0.02
105 243 0.96
106 3 0.01
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.25
Consensus pattern (105 bp):
AATTCACCCCAGAAAGAGGTGAATCAACATTTCCAAAAGAGTTCATAATGAGAAGAACTCGTCCT
AAAGGAGAAGGTTCGTAATGAGAAGAGCATGTTCCTTTCA
Found at i:241448 original size:15 final size:17
Alignment explanation
Indices: 241410--241448 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 17
241400 CATCTCAAAA
241410 CCTAAAATTCTCAAATC
1 CCTAAAATTCTCAAATC
241427 CCT-AAATT-TC-AATC
1 CCTAAAATTCTCAAATC
241441 CCTAAAAT
1 CCTAAAAT
241449 CCCAAATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 7 0.33
15 6 0.29
16 5 0.24
17 3 0.14
ACGTcount: A:0.41, C:0.28, G:0.00, T:0.31
Consensus pattern (17 bp):
CCTAAAATTCTCAAATC
Found at i:241460 original size:23 final size:23
Alignment explanation
Indices: 241422--241471 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
241412 TAAAATTCTC
241422 AAATCCCTAAATTTCAATCCCTA
1 AAATCCCTAAATTTCAATCCCTA
*
241445 AAATCCC-AAATATTCAATCCCTT
1 AAATCCCTAAAT-TTCAATCCCTA
241468 AAAT
1 AAAT
241472 TCATTTGATC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 4 0.16
23 21 0.84
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (23 bp):
AAATCCCTAAATTTCAATCCCTA
Found at i:243052 original size:2 final size:2
Alignment explanation
Indices: 243045--243096 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
243035 TCATGTAGCA
243045 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
243087 AT AT AT AT AT
1 AT AT AT AT AT
243097 TTATTATAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:245468 original size:17 final size:18
Alignment explanation
Indices: 245435--245468 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
245425 CCGCTACTAG
245435 TGAACCGGTCAGAACCGC
1 TGAACCGGTCAGAACCGC
*
245453 TGAACCGTTC-GAACCG
1 TGAACCGGTCAGAACCG
245469 GACCGGCTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.26, C:0.32, G:0.26, T:0.15
Consensus pattern (18 bp):
TGAACCGGTCAGAACCGC
Found at i:245493 original size:10 final size:10
Alignment explanation
Indices: 245478--245507 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
245468 GGACCGGCTG
245478 AAAACCGGAA
1 AAAACCGGAA
245488 AAAACCGG-A
1 AAAACCGGAA
245497 AAAACCGGAA
1 AAAACCGGAA
245507 A
1 A
245508 TTTTGTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.60, C:0.20, G:0.20, T:0.00
Consensus pattern (10 bp):
AAAACCGGAA
Found at i:245499 original size:9 final size:9
Alignment explanation
Indices: 245478--245507 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
245468 GGACCGGCTG
245478 AAAACCGGAA
1 AAAACCGG-A
245488 AAAACCGGA
1 AAAACCGGA
245497 AAAACCGGA
1 AAAACCGGA
245506 AA
1 AA
245508 TTTTGTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.60
10 8 0.40
ACGTcount: A:0.60, C:0.20, G:0.20, T:0.00
Consensus pattern (9 bp):
AAAACCGGA
Found at i:246206 original size:22 final size:22
Alignment explanation
Indices: 246163--246203 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
246153 AAAAAATTAT
246163 TTTTTATTAAATATTTTTAATA
1 TTTTTATTAAATATTTTTAATA
*
246185 TTTTTATTTAAT-TTTTTAA
1 TTTTTATTAAATATTTTTAA
246204 ATAATTATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (22 bp):
TTTTTATTAAATATTTTTAATA
Done.