Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 121 of 193
Found at i:38366518 original size:17 final size:16
Alignment explanation
Indices: 38366481--38366521 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
38366471 TAACCCAAAT
*
38366481 TTATTTT-ATTTTTAA
1 TTATTTTAATATTTAA
38366496 TT-TTTTAATATTTATA
1 TTATTTTAATATTTA-A
38366512 TTATTTTAAT
1 TTATTTTAAT
38366522 TTAATATTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 4 0.18
15 8 0.36
16 3 0.14
17 7 0.32
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTATTTTAATATTTAA
Found at i:38373037 original size:10 final size:10
Alignment explanation
Indices: 38373022--38373066 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
38373012 AAGTTTCATA
38373022 TATAAAAATG
1 TATAAAAATG
38373032 TATAAAAAATG
1 TAT-AAAAATG
* * *
38373043 TACACAAATA
1 TATAAAAATG
38373053 TATAAAAATG
1 TATAAAAATG
38373063 TATA
1 TATA
38373067 TAACAAATAT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
10 19 0.68
11 9 0.32
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.29
Consensus pattern (10 bp):
TATAAAAATG
Found at i:38377125 original size:2 final size:2
Alignment explanation
Indices: 38377118--38377144 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
38377108 AAAACAAATA
38377118 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
38377145 AACAAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:38378912 original size:30 final size:30
Alignment explanation
Indices: 38378876--38378938 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
38378866 GGGTTTAAGA
38378876 TTTAGGTGGGTAAATGGGGTTTGGGTTTGG
1 TTTAGGTGGGTAAATGGGGTTTGGGTTTGG
38378906 TTTAGGTGGGTAAATGGGGTTTGGGTTTGG
1 TTTAGGTGGGTAAATGGGGTTTGGGTTTGG
38378936 TTT
1 TTT
38378939 TGGCAATTGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.13, C:0.00, G:0.44, T:0.43
Consensus pattern (30 bp):
TTTAGGTGGGTAAATGGGGTTTGGGTTTGG
Found at i:38379652 original size:85 final size:85
Alignment explanation
Indices: 38379510--38379761 Score: 324
Period size: 85 Copynumber: 3.0 Consensus size: 85
38379500 CGCTTCATTG
* * * * *
38379510 ATTTGATCAACTTCTCTGTATCTCATCAGGAAGGTGACCGTCTCATTGTTTTAATCCACTTCTCT
1 ATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTATTTTAATCCACTTCTCT
*
38379575 GTATCTCATCAGGAAGACGG
66 GTATCTCATCAGGAAGACGA
* *
38379595 ATTTGGTCTATTTCTCTGTATCTCATCAGGAAGATGATCGCCTCATTATTTTAATCCACTTCTCT
1 ATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTATTTTAATCCACTTCTCT
38379660 GTATCTCATCAGGAAGACGA
66 GTATCTCATCAGGAAGACGA
* * * * * * * * * * *
38379680 ATTTGGTTTACTTCTCTGCATCTCGTCAGGAATATTACCACTTTATTACTTTGACCCACTTCTCT
1 ATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTATTTTAATCCACTTCTCT
*
38379745 GTATCTCATTAGGAAGA
66 GTATCTCATCAGGAAGA
38379762 TGATCGCCTC
Statistics
Matches: 145, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
85 145 1.00
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (85 bp):
ATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTATTTTAATCCACTTCTCT
GTATCTCATCAGGAAGACGA
Found at i:38379765 original size:133 final size:133
Alignment explanation
Indices: 38379606--38379888 Score: 458
Period size: 133 Copynumber: 2.1 Consensus size: 133
38379596 TTTGGTCTAT
38379606 TTCTCTGTATCTCATCAGGAAGATGATCGCCTCATTATTTTAATCCACTTCTCTGTATCTCATCA
1 TTCTCTGTATCTCATCAGGAAGATGATCGCCTCATTATTTTAATCCACTTCTCTGTATCTCATCA
* * * *
38379671 GGAAGACGAATTTGGTTTACTTCTCTGCATCTCGTCAGGAATATTACCACTTTATTACTTTGACC
66 GGAAGACGAATTTGGTTCACTTCTCTGCATCTCGTCAAGAAGATTACCACTTTATTACTTCGACC
38379736 CAC
131 CAC
* * *
38379739 TTCTCTGTATCTCATTAGGAAGATGATCGCCTCATTGTTTTAATCCACTTCTTTGTATCTCATCA
1 TTCTCTGTATCTCATCAGGAAGATGATCGCCTCATTATTTTAATCCACTTCTCTGTATCTCATCA
* * * * *
38379804 GGAAGACGGATTTTGTTCACTTCTCTGTATCTCGTTAAGAAGATTACCACTTTATTGCTTCGACC
66 GGAAGACGAATTTGGTTCACTTCTCTGCATCTCGTCAAGAAGATTACCACTTTATTACTTCGACC
38379869 CAC
131 CAC
38379872 TTCTCTGTATCTCATCA
1 TTCTCTGTATCTCATCA
38379889 CTCACATTGA
Statistics
Matches: 137, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
133 137 1.00
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.39
Consensus pattern (133 bp):
TTCTCTGTATCTCATCAGGAAGATGATCGCCTCATTATTTTAATCCACTTCTCTGTATCTCATCA
GGAAGACGAATTTGGTTCACTTCTCTGCATCTCGTCAAGAAGATTACCACTTTATTACTTCGACC
CAC
Found at i:38385208 original size:16 final size:16
Alignment explanation
Indices: 38385187--38385221 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
38385177 ATCTTATGAA
38385187 TCCCCTTAACGACAGT
1 TCCCCTTAACGACAGT
*
38385203 TCCCCTTAACGAGAGT
1 TCCCCTTAACGACAGT
38385219 TCC
1 TCC
38385222 GCACGAAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.23, C:0.37, G:0.14, T:0.26
Consensus pattern (16 bp):
TCCCCTTAACGACAGT
Found at i:38386728 original size:7 final size:7
Alignment explanation
Indices: 38386718--38386967 Score: 55
Period size: 7 Copynumber: 37.0 Consensus size: 7
38386708 AACCCTAAGA
38386718 TTAAACC
1 TTAAACC
*
38386725 TTAAATC
1 TTAAACC
38386732 TTAAGA--
1 TTAA-ACC
*
38386738 TTAACCC
1 TTAAACC
38386745 TTAAA-C
1 TTAAACC
*
38386751 TATAAA-G
1 T-TAAACC
38386758 TTAAACC
1 TTAAACC
*
38386765 CTAAACC
1 TTAAACC
*
38386772 TTAAATC
1 TTAAACC
***
38386779 TT-AGGG
1 TTAAACC
38386785 TTAAACC
1 TTAAACC
*
38386792 TTAAATC
1 TTAAACC
**
38386799 TT-AAGG
1 TTAAACC
38386805 TTAAACC
1 TTAAACC
*
38386812 CTAAACC
1 TTAAACC
*
38386819 CTAAACC
1 TTAAACC
38386826 TTAAGA--
1 TTAA-ACC
38386832 TTAAA-C
1 TTAAACC
38386838 TCTAAACC
1 T-TAAACC
38386846 -TAAACC
1 TTAAACC
38386852 TT-AACAC
1 TTAAAC-C
**
38386859 TT-AAGG
1 TTAAACC
*
38386865 TTAAACT
1 TTAAACC
38386872 TTAAACC
1 TTAAACC
* *
38386879 CTAAATC
1 TTAAACC
**
38386886 TT-AAGG
1 TTAAACC
38386892 TTAAATCC
1 TTAAA-CC
**
38386900 -TAAATT
1 TTAAACC
*
38386906 TTAAATC
1 TTAAACC
38386913 TTAAA-C
1 TTAAACC
38386919 TCTAAACC
1 T-TAAACC
*
38386927 ATAAACC
1 TTAAACC
* *
38386934 CTAAAAC
1 TTAAACC
*
38386941 TTAAATC
1 TTAAACC
* *
38386948 ATAAA-G
1 TTAAACC
38386954 TTAAACC
1 TTAAACC
*
38386961 CTAAACC
1 TTAAACC
38386968 CTATGGTTAA
Statistics
Matches: 177, Mismatches: 46, Indels: 40
0.67 0.17 0.15
Matches are distributed among these distances:
5 1 0.01
6 43 0.24
7 129 0.73
8 4 0.02
ACGTcount: A:0.44, C:0.22, G:0.05, T:0.30
Consensus pattern (7 bp):
TTAAACC
Found at i:38386770 original size:47 final size:47
Alignment explanation
Indices: 38386719--38386837 Score: 168
Period size: 47 Copynumber: 2.5 Consensus size: 47
38386709 ACCCTAAGAT
*
38386719 TAAACCTTAAATCTTAAGATTAACCCTTAAA-CTATAAAGTTAAACCC
1 TAAACCTTAAATCTTAAGATTAAACCTTAAATCT-TAAAGTTAAACCC
* * *
38386766 TAAACCTTAAATCTTAGGGTTAAACCTTAAATCTTAAGGTTAAACCC
1 TAAACCTTAAATCTTAAGATTAAACCTTAAATCTTAAAGTTAAACCC
* *
38386813 TAAACCCTAAACCTTAAGATTAAAC
1 TAAACCTTAAATCTTAAGATTAAAC
38386838 TCTAAACCTA
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
47 61 0.97
48 2 0.03
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (47 bp):
TAAACCTTAAATCTTAAGATTAAACCTTAAATCTTAAAGTTAAACCC
Found at i:38386773 original size:27 final size:26
Alignment explanation
Indices: 38386743--38386945 Score: 122
Period size: 27 Copynumber: 7.5 Consensus size: 26
38386733 TAAGATTAAC
38386743 CCTTAAACTATAAAGTTAAACCCTAAA
1 CCTTAAACT-TAAAGTTAAACCCTAAA
** *
38386770 CCTTAAATCTTAGGGTTAAACCTTAAA
1 CCTTAAA-CTTAAAGTTAAACCCTAAA
* ** **
38386797 TCTTAAGGTTAAACCCTAAACCCTAAA
1 CCTTAAACTTAAA-GTTAAACCCTAAA
*
38386824 CCTTAAGA-TTAAACTCTAAA-CCTAAA
1 CCTTAA-ACTTAAAGT-TAAACCCTAAA
* **
38386850 CCTTAACACTTAAGGTTAAACTTTAAA
1 CCTTAA-ACTTAAAGTTAAACCCTAAA
* * *
38386877 CCCTAAATCTTAAGGTTAAATCCTAAA
1 CCTTAAA-CTTAAAGTTAAACCCTAAA
** * *
38386904 TTTTAAATCTTAAACTCTAAACCATAAA
1 CCTTAAA-CTTAAAGT-TAAACCCTAAA
*
38386932 CCCTAAAACTTAAA
1 -CCTTAAACTTAAA
38386946 TCATAAAGTT
Statistics
Matches: 134, Mismatches: 33, Indels: 17
0.73 0.18 0.09
Matches are distributed among these distances:
26 22 0.16
27 91 0.68
28 17 0.13
29 4 0.03
ACGTcount: A:0.43, C:0.22, G:0.05, T:0.30
Consensus pattern (26 bp):
CCTTAAACTTAAAGTTAAACCCTAAA
Found at i:38386776 original size:20 final size:20
Alignment explanation
Indices: 38386694--38386775 Score: 80
Period size: 20 Copynumber: 4.1 Consensus size: 20
38386684 AAAATTTTAG
* *
38386694 AAGAATAAACCCTAAACCCT
1 AAGATTAAACCCTAAACCTT
* *
38386714 AAGATTAAACCTTAAATCTT
1 AAGATTAAACCCTAAACCTT
38386734 AAGATT-AACCCTTAAA-CTAT
1 AAGATTAAACCC-TAAACCT-T
38386754 AA-AGTTAAACCCTAAACCTT
1 AAGA-TTAAACCCTAAACCTT
38386774 AA
1 AA
38386776 ATCTTAGGGT
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
19 7 0.13
20 38 0.73
21 7 0.13
ACGTcount: A:0.48, C:0.22, G:0.05, T:0.26
Consensus pattern (20 bp):
AAGATTAAACCCTAAACCTT
Found at i:38386789 original size:20 final size:20
Alignment explanation
Indices: 38386766--38386816 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
38386756 AGTTAAACCC
*
38386766 TAAACCTTAAATCTTAGGGT
1 TAAACCTTAAATCTTAAGGT
38386786 TAAACCTTAAATCTTAAGGT
1 TAAACCTTAAATCTTAAGGT
*
38386806 TAAACCCTAAA
1 TAAACCTTAAA
38386817 CCCTAAACCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (20 bp):
TAAACCTTAAATCTTAAGGT
Found at i:38386836 original size:60 final size:61
Alignment explanation
Indices: 38386786--38386903 Score: 170
Period size: 60 Copynumber: 2.0 Consensus size: 61
38386776 ATCTTAGGGT
38386786 TAAACCTTAA-ATCTTAAGGTTAAACCCTAAACCCTAAACCTTAAGATTAAA-CTCTAAACC
1 TAAACCTTAACA-CTTAAGGTTAAACCCTAAACCCTAAACCTTAAGATTAAATCTCTAAACC
** * *
38386846 TAAACCTTAACACTTAAGGTTAAACTTTAAACCCTAAATCTTAAGGTTAAATC-CTAAA
1 TAAACCTTAACACTTAAGGTTAAACCCTAAACCCTAAACCTTAAGATTAAATCTCTAAA
38386904 TTTTAAATCT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
60 50 0.96
61 2 0.04
ACGTcount: A:0.43, C:0.22, G:0.06, T:0.29
Consensus pattern (61 bp):
TAAACCTTAACACTTAAGGTTAAACCCTAAACCCTAAACCTTAAGATTAAATCTCTAAACC
Found at i:38386855 original size:20 final size:20
Alignment explanation
Indices: 38386806--38386967 Score: 58
Period size: 20 Copynumber: 8.0 Consensus size: 20
38386796 ATCTTAAGGT
*
38386806 TAAACCCTAAACCCTAAACC
1 TAAACCTTAAACCCTAAACC
* ** *
38386826 TTAAGATTAAACTCTAAACC
1 TAAACCTTAAACCCTAAACC
* ***
38386846 TAAACCTT-AACACTTAAGGT
1 TAAACCTTAAAC-CCTAAACC
* *
38386866 TAAACTTTAAACCCTAAATC
1 TAAACCTTAAACCCTAAACC
* ** * **
38386886 TTAAGGTTAAATCCTAAATTT
1 TAAACCTTAAACCCTAAA-CC
* *
38386907 TAAATCTTAAACTCTAAACC
1 TAAACCTTAAACCCTAAACC
* * * *
38386927 ATAAACCCTAAAACTTAAATCA
1 -TAAACCTTAAACCCTAAA-CC
*
38386949 TAAA-GTTAAACCCTAAACC
1 TAAACCTTAAACCCTAAACC
38386968 CTATGGTTAA
Statistics
Matches: 96, Mismatches: 41, Indels: 11
0.65 0.28 0.07
Matches are distributed among these distances:
19 4 0.04
20 57 0.59
21 34 0.35
22 1 0.01
ACGTcount: A:0.45, C:0.23, G:0.04, T:0.28
Consensus pattern (20 bp):
TAAACCTTAAACCCTAAACC
Found at i:38386862 original size:33 final size:34
Alignment explanation
Indices: 38386806--38386889 Score: 109
Period size: 33 Copynumber: 2.5 Consensus size: 34
38386796 ATCTTAAGGT
*
38386806 TAAACCCTAAACCCTAAACCTTAAGATTAAACTC
1 TAAACCCTAAACCTTAAACCTTAAGATTAAACTC
* *
38386840 TAAA-CCTAAACCTT-AACACTTAAGGTTAAACTT
1 TAAACCCTAAACCTTAAAC-CTTAAGATTAAACTC
*
38386873 TAAACCCTAAATCTTAA
1 TAAACCCTAAACCTTAA
38386890 GGTTAAATCC
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
32 3 0.07
33 26 0.60
34 13 0.30
35 1 0.02
ACGTcount: A:0.44, C:0.25, G:0.04, T:0.27
Consensus pattern (34 bp):
TAAACCCTAAACCTTAAACCTTAAGATTAAACTC
Found at i:38386931 original size:21 final size:20
Alignment explanation
Indices: 38386907--38386987 Score: 56
Period size: 20 Copynumber: 4.0 Consensus size: 20
38386897 TCCTAAATTT
38386907 TAAATCTTAAACTCTAAACCA
1 TAAA-CTTAAACTCTAAACCA
* *
38386928 TAAACCCTAAAACT-TAAATCA
1 TAAA--CTTAAACTCTAAACCA
* * *
38386949 TAAAGTTAAACCCTAAACCC
1 TAAACTTAAACTCTAAACCA
***
38386969 TATGGTTAAACTCTAAACC
1 TAAACTTAAACTCTAAACC
38386988 CTAGAGTTAA
Statistics
Matches: 47, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
19 5 0.11
20 21 0.45
21 14 0.30
22 7 0.15
ACGTcount: A:0.46, C:0.25, G:0.04, T:0.26
Consensus pattern (20 bp):
TAAACTTAAACTCTAAACCA
Found at i:38386976 original size:20 final size:20
Alignment explanation
Indices: 38386952--38387006 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
38386942 TAAATCATAA
38386952 AGTTAAACCCTAAACCCTATG
1 AGTTAAACCCTAAACCCTA-G
*
38386973 -GTTAAACTCTAAACCCTAG
1 AGTTAAACCCTAAACCCTAG
*
38386992 AGTTAAACCTTAAAC
1 AGTTAAACCCTAAAC
38387007 TAATAAGCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 1 0.03
20 29 0.97
ACGTcount: A:0.40, C:0.25, G:0.09, T:0.25
Consensus pattern (20 bp):
AGTTAAACCCTAAACCCTAG
Found at i:38390886 original size:39 final size:39
Alignment explanation
Indices: 38390841--38390915 Score: 150
Period size: 39 Copynumber: 1.9 Consensus size: 39
38390831 TAAAATAAGG
38390841 AAAGTAGGAATTGTGGATTCAATTATTTCATTAAAAAGC
1 AAAGTAGGAATTGTGGATTCAATTATTTCATTAAAAAGC
38390880 AAAGTAGGAATTGTGGATTCAATTATTTCATTAAAA
1 AAAGTAGGAATTGTGGATTCAATTATTTCATTAAAA
38390916 TAATGTAACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.35
Consensus pattern (39 bp):
AAAGTAGGAATTGTGGATTCAATTATTTCATTAAAAAGC
Found at i:38394228 original size:16 final size:17
Alignment explanation
Indices: 38394207--38394238 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
38394197 TTTATTTTTT
38394207 TTAAAAAATA-ATAAAC
1 TTAAAAAATATATAAAC
38394223 TTAAAAAATATATAAA
1 TTAAAAAATATATAAA
38394239 ATATTTACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (17 bp):
TTAAAAAATATATAAAC
Found at i:38402009 original size:29 final size:29
Alignment explanation
Indices: 38401977--38402095 Score: 107
Period size: 29 Copynumber: 4.0 Consensus size: 29
38401967 TGGGGCTTTT
*
38401977 GAGGATCAAAATTGAATTTTGGAAAGTTC
1 GAGGGTCAAAATTGAATTTTGGAAAGTTC
* * *
38402006 GAGGGTTAAAATTAAATTTTGGAGAGTTC
1 GAGGGTCAAAATTGAATTTTGGAAAGTTC
* *
38402035 GAGGGGTC-AAATCGAAATTTTGGAAAGTTT
1 GA-GGGTCAAAATTG-AATTTTGGAAAGTTC
* * *
38402065 GAGCGTTAAAA-TGAGATGTTTGGGAAGTTC
1 GAGGGTCAAAATTGA-AT-TTTGGAAAGTTC
38402095 G
1 G
38402096 GAGGCTAAAA
Statistics
Matches: 71, Mismatches: 14, Indels: 9
0.76 0.15 0.10
Matches are distributed among these distances:
28 1 0.01
29 37 0.52
30 33 0.46
ACGTcount: A:0.34, C:0.06, G:0.29, T:0.31
Consensus pattern (29 bp):
GAGGGTCAAAATTGAATTTTGGAAAGTTC
Found at i:38402055 original size:30 final size:29
Alignment explanation
Indices: 38401991--38402095 Score: 111
Period size: 30 Copynumber: 3.6 Consensus size: 29
38401981 ATCAAAATTG
* *
38401991 AATTTTGGAAAGTTCGAGGGTTAAAATTA
1 AATTTTGGAAAGTTCGAGGGGTAAAATGA
* *
38402020 AATTTTGGAGAGTTCGAGGGGTCAAATCGA
1 AATTTTGGAAAGTTCGAGGGGTAAAAT-GA
* * *
38402050 AATTTTGGAAAGTTTGAGCGTTAAAATGA
1 AATTTTGGAAAGTTCGAGGGGTAAAATGA
* *
38402079 GATGTTTGGGAAGTTCG
1 AAT-TTTGGAAAGTTCG
38402096 GAGGCTAAAA
Statistics
Matches: 62, Mismatches: 12, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
29 28 0.45
30 34 0.55
ACGTcount: A:0.32, C:0.06, G:0.30, T:0.32
Consensus pattern (29 bp):
AATTTTGGAAAGTTCGAGGGGTAAAATGA
Found at i:38402173 original size:29 final size:28
Alignment explanation
Indices: 38402141--38402242 Score: 87
Period size: 29 Copynumber: 3.4 Consensus size: 28
38402131 AAATTCAAAA
* *
38402141 TTTTGAAAGTTTAGGGGTTAAAATGTAAT
1 TTTTGAAAGTTTA-GGGTCAAAATATAAT
* *
38402170 TTTTAGAAAATTTAGGGTCAAAATATCAT
1 TTTT-GAAAGTTTAGGGTCAAAATATAAT
* * *
38402199 TTTGGTAAGTTTAAGGGTCAAAATCAAAAAT
1 TTTTGAAAGTTT-AGGGTCAAAAT--ATAAT
38402230 TTTTGGAAAGTTT
1 TTTT-GAAAGTTT
38402243 GGGGCCTCTT
Statistics
Matches: 57, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
28 6 0.11
29 30 0.53
30 8 0.14
31 6 0.11
32 7 0.12
ACGTcount: A:0.37, C:0.04, G:0.20, T:0.39
Consensus pattern (28 bp):
TTTTGAAAGTTTAGGGTCAAAATATAAT
Found at i:38413791 original size:38 final size:38
Alignment explanation
Indices: 38413746--38413839 Score: 102
Period size: 38 Copynumber: 2.4 Consensus size: 38
38413736 ATAATTATAA
* * *
38413746 ATAAAATTTATAAGAATTATTAA-CTTTTAATAAAAA-T
1 ATAAAAATTATAAAAATTA-GAATCTTTTAATAAAAATT
* *
38413783 ATAAAAATTATTAAAAATTAGAATTTTTTTATAAAAATT
1 ATAAAAATTA-TAAAAATTAGAATCTTTTAATAAAAATT
38413822 ATAAAAAATTATAAAAAT
1 AT-AAAAATTATAAAAAT
38413840 GCATAAAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
37 11 0.23
38 19 0.40
39 10 0.21
40 8 0.17
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.39
Consensus pattern (38 bp):
ATAAAAATTATAAAAATTAGAATCTTTTAATAAAAATT
Found at i:38413799 original size:10 final size:9
Alignment explanation
Indices: 38413775--38413839 Score: 51
Period size: 10 Copynumber: 6.9 Consensus size: 9
38413765 TTAACTTTTA
38413775 ATAAAAA-T
1 ATAAAAATT
38413783 ATAAAAATT
1 ATAAAAATT
38413792 ATTAAAAATT
1 A-TAAAAATT
* ***
38413802 AGAATTTTTTT
1 ATAA--AAATT
38413813 ATAAAAATT
1 ATAAAAATT
38413822 ATAAAAAATT
1 AT-AAAAATT
38413832 ATAAAAAT
1 ATAAAAAT
38413840 GCATAAAAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
8 7 0.16
9 14 0.32
10 18 0.41
11 5 0.11
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (9 bp):
ATAAAAATT
Found at i:38413833 original size:19 final size:20
Alignment explanation
Indices: 38413811--38413849 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
38413801 TAGAATTTTT
*
38413811 TTATAAAAAT-TATAAAAAA
1 TTATAAAAATGCATAAAAAA
38413830 TTATAAAAATGCATAAAAAA
1 TTATAAAAATGCATAAAAAA
38413850 GCCCATTACC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (20 bp):
TTATAAAAATGCATAAAAAA
Found at i:38414030 original size:20 final size:18
Alignment explanation
Indices: 38414012--38414047 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
38414002 TTATTACGAT
38414012 AAATTTATATTTTTTACG
1 AAATTTATATTTTTTACG
*
38414030 AATTTTATATTTCTTTAC
1 AAATTTATATTT-TTTAC
38414048 ATTTTTCTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.31, C:0.08, G:0.03, T:0.58
Consensus pattern (18 bp):
AAATTTATATTTTTTACG
Found at i:38414178 original size:27 final size:27
Alignment explanation
Indices: 38414138--38414206 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
38414128 TTTTATAATT
* *
38414138 TTTTTTCTAATTTTTAATAAAATTTAA
1 TTTTTTATAGTTTTTAATAAAATTTAA
* *
38414165 TTTTTTATAGTTTTTATTAAACTTTAA
1 TTTTTTATAGTTTTTAATAAAATTTAA
*
38414192 TAATTTTTATTGTTT
1 T--TTTTTATAGTTT
38414207 CTTATTTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
27 24 0.69
29 11 0.31
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (27 bp):
TTTTTTATAGTTTTTAATAAAATTTAA
Found at i:38414179 original size:48 final size:47
Alignment explanation
Indices: 38414081--38414181 Score: 109
Period size: 48 Copynumber: 2.1 Consensus size: 47
38414071 ATTTATAAAA
* * *
38414081 TTTTATAATTTTTTCTATATTTCTATATATTTATAATTTTTTACGAT
1 TTTTATAATTTTTTCTATATTTCTATAAAATTATAATTTTTTAAGAT
*
38414128 TTTTATAATTTTTTTTCTA-ATTTTTAATAAAATT-TAATTTTTTATAG-T
1 TTTTATAA--TTTTTTCTATATTTCT-ATAAAATTATAATTTTTTA-AGAT
38414176 TTTTAT
1 TTTTAT
38414182 TAAACTTTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
47 8 0.17
48 22 0.48
49 16 0.35
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (47 bp):
TTTTATAATTTTTTCTATATTTCTATAAAATTATAATTTTTTAAGAT
Found at i:38414460 original size:89 final size:89
Alignment explanation
Indices: 38414267--38414522 Score: 268
Period size: 90 Copynumber: 2.8 Consensus size: 89
38414257 GTTAGGAGTG
* ** *
38414267 GTTCAAGTACTCAATTGAGTGCAAACAAAAT-CAGGGGCTTAATTATTTTTTTTTAAATGTTTGA
1 GTTCAAGTACTCAATTGAGTGCAAA-AAAATGCAGGGGCTTAATTGTTTTTTTCAAAAAGTTTGA
** *
38414331 GGGCCTTTTTTTTATGCATTTTGAAA
65 AAGCCTTTTTATTAT-CATTTTGAAA
* * *
38414357 GTTCAAGTACTCAATTTAGTGCAAAAAAATGTAGGGGCTTAATTGTTTTTCTTGAAAAAGTTTGA
1 GTTCAAGTACTCAATTGAGTGCAAAAAAATGCAGGGGCTTAATTGTTTTT-TTCAAAAAGTTTGA
*
38414422 AAGCCTTTTTGATT-T-ATTTTGATA
65 AAGCCTTTTT-ATTATCATTTTGAAA
* * * * *
38414446 GTTTAAGTACTCAATTGAGTGTAAAAAAAAAGCATGGGCTTAATTGCTTCTTTTTCAAAAAGTTA
1 GTTCAAGTACTCAATTGAGTG-CAAAAAAATGCAGGGGCTTAATTG-TT-TTTTTCAAAAAGTTT
*
38414511 GAGAG-CTTTTTA
63 GAAAGCCTTTTTA
38414523 CGCTCTTAAA
Statistics
Matches: 141, Mismatches: 19, Indels: 13
0.82 0.11 0.08
Matches are distributed among these distances:
89 33 0.23
90 67 0.48
91 36 0.26
92 5 0.04
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (89 bp):
GTTCAAGTACTCAATTGAGTGCAAAAAAATGCAGGGGCTTAATTGTTTTTTTCAAAAAGTTTGAA
AGCCTTTTTATTATCATTTTGAAA
Found at i:38414676 original size:40 final size:40
Alignment explanation
Indices: 38414630--38414708 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
38414620 AAAGAGTCTA
38414630 ATTTTTAATATCTACCGGATAAACATCATCCTCGATTCTC
1 ATTTTTAATATCTACCGGATAAACATCATCCTCGATTCTC
38414670 ATTTTTAATATCTACCGGATAAACATCATCCTCGATTCT
1 ATTTTTAATATCTACCGGATAAACATCATCCTCGATTCT
38414709 TAGAATATCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.38
Consensus pattern (40 bp):
ATTTTTAATATCTACCGGATAAACATCATCCTCGATTCTC
Found at i:38414959 original size:18 final size:18
Alignment explanation
Indices: 38414936--38414986 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
38414926 ATATTAAAAA
38414936 ATAAAAATAAAAATAAGC
1 ATAAAAATAAAAATAAGC
*
38414954 ATAAAAGAT--AAATAAGT
1 ATAAAA-ATAAAAATAAGC
* *
38414971 ACAAAAACAAAAATAA
1 ATAAAAATAAAAATAA
38414987 ATAATAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
16 1 0.04
17 12 0.44
18 12 0.44
19 2 0.07
ACGTcount: A:0.73, C:0.06, G:0.06, T:0.16
Consensus pattern (18 bp):
ATAAAAATAAAAATAAGC
Found at i:38420969 original size:88 final size:88
Alignment explanation
Indices: 38420806--38420969 Score: 240
Period size: 88 Copynumber: 1.9 Consensus size: 88
38420796 TTATACCAAC
* * *
38420806 TTGGGTACTTGAATTTTTATAATGCATCAAAAAGATCTTCAAATTTTTTCAAAAAAGTAATTAAG
1 TTGGGTACTTGAACTTTCATAATGCATCAAAAAGATCTTCAAATTTTTTCAAAAAAGAAATTAAG
** *
38420871 CTTTTGTTTTTGTTCCCACACAA
66 CCCTTATTTTTGTTCCCACACAA
* *
38420894 TTGGGTACTTGAACTTTCATAATGCATCAAAATGATCTTCAAACTTTTTT-AAAGAAGAAATTAA
1 TTGGGTACTTGAACTTTCATAATGCATCAAAAAGATCTTCAAA-TTTTTTCAAAAAAGAAATTAA
38420958 GCCCTTATTTTT
65 GCCCTTATTTTT
38420970 TTACTCAATT
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
88 61 0.91
89 6 0.09
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (88 bp):
TTGGGTACTTGAACTTTCATAATGCATCAAAAAGATCTTCAAATTTTTTCAAAAAAGAAATTAAG
CCCTTATTTTTGTTCCCACACAA
Found at i:38421086 original size:19 final size:19
Alignment explanation
Indices: 38421062--38421120 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
38421052 AATGATAAAA
38421062 AAATTTAATAAAAATTATT
1 AAATTTAATAAAAATTATT
*
38421081 AAATTTTAATAAAAA-TATA
1 AAA-TTTAATAAAAATTATT
38421100 AAATATT--TAAAAATTATT
1 AAAT-TTAATAAAAATTATT
38421118 AAA
1 AAA
38421121 AATTAGAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
17 6 0.17
18 7 0.20
19 11 0.31
20 11 0.31
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AAATTTAATAAAAATTATT
Found at i:38421090 original size:20 final size:20
Alignment explanation
Indices: 38421065--38421120 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
38421055 GATAAAAAAA
38421065 TTTAATAAAAATTATTAAAT
1 TTTAATAAAAATTATTAAAT
*
38421085 TTTAATAAAAA-TATAAAAT
1 TTTAATAAAAATTATTAAAT
*
38421104 ATT--TAAAAATTATTAAA
1 TTTAATAAAAATTATTAAA
38421121 AATTAGAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 6 0.19
18 6 0.19
19 9 0.28
20 11 0.34
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TTTAATAAAAATTATTAAAT
Found at i:38421171 original size:19 final size:19
Alignment explanation
Indices: 38421147--38421185 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
38421137 ATAAAATCAT
**
38421147 AATTGTAAAATTTTATAAA
1 AATTGTAAAAAATTATAAA
38421166 AATTGTAAAAAATTATAAA
1 AATTGTAAAAAATTATAAA
38421185 A
1 A
38421186 TGTATAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (19 bp):
AATTGTAAAAAATTATAAA
Found at i:38421358 original size:10 final size:10
Alignment explanation
Indices: 38421325--38421358 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
38421315 ATTCTATAAC
*
38421325 TTTTATTGAT
1 TTTTATTGTT
*
38421335 TTTTATTTTT
1 TTTTATTGTT
38421345 TTTTATTGTT
1 TTTTATTGTT
38421355 TTTT
1 TTTT
38421359 GTCATATGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.82
Consensus pattern (10 bp):
TTTTATTGTT
Found at i:38421512 original size:20 final size:20
Alignment explanation
Indices: 38421489--38421573 Score: 61
Period size: 20 Copynumber: 4.2 Consensus size: 20
38421479 TTTTATAAAA
38421489 TTTTACAATATATTATAATTT
1 TTTTACAAT-TATTATAATTT
* *
38421510 TTTTACGATTTTTATAATTT
1 TTTTACAATTATTATAATTT
38421530 TATTCTA-AATT-TTGATAATTT
1 T-TT-TACAATTATT-ATAATTT
*
38421551 TTATTA-AAGTT-TAATAATTT
1 TT-TTACAA-TTATTATAATTT
38421571 TTT
1 TTT
38421574 AACTTTTATT
Statistics
Matches: 55, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
19 1 0.02
20 27 0.49
21 25 0.45
22 2 0.04
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.60
Consensus pattern (20 bp):
TTTTACAATTATTATAATTT
Found at i:38422710 original size:16 final size:14
Alignment explanation
Indices: 38422689--38422722 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 14
38422679 AGTGACAATT
38422689 AAATAAAATGCAAAAA
1 AAATAAAAT--AAAAA
38422705 AAATAAAATAAAAA
1 AAATAAAATAAAAA
38422719 AAAT
1 AAAT
38422723 CAAACCAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.50
16 9 0.50
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (14 bp):
AAATAAAATAAAAA
Found at i:38422759 original size:23 final size:22
Alignment explanation
Indices: 38422702--38422762 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 22
38422692 TAAAATGCAA
*
38422702 AAAAAATAAAATAAAAAAAATC
1 AAAAAATAAAATAAAAAAAACC
* *
38422724 AAACCAATGAAATACAAAAAAACC
1 AAA-AAATAAAATA-AAAAAAACC
38422748 TAAAAAAT-AAATAAA
1 -AAAAAATAAAATAAA
38422763 GGTGAGAACA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
22 5 0.16
23 13 0.41
24 11 0.34
25 3 0.09
ACGTcount: A:0.75, C:0.10, G:0.02, T:0.13
Consensus pattern (22 bp):
AAAAAATAAAATAAAAAAAACC
Found at i:38422811 original size:14 final size:15
Alignment explanation
Indices: 38422792--38422830 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
38422782 TATATGAATG
*
38422792 AATAAAAAATA-ACA
1 AATAAAAAATACAAA
38422806 AATAAAATAATACAAA
1 AATAAAA-AATACAAA
38422822 AATAAAAAA
1 AATAAAAAA
38422831 ATCAAATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 7 0.32
15 6 0.27
16 9 0.41
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.15
Consensus pattern (15 bp):
AATAAAAAATACAAA
Found at i:38422825 original size:8 final size:7
Alignment explanation
Indices: 38422792--38422830 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
38422782 TATATGAATG
38422792 AATAAAA
1 AATAAAA
*
38422799 AATAACA
1 AATAAAA
38422806 AATAAAA
1 AATAAAA
38422813 TAATACAAA
1 -AATA-AAA
38422822 AATAAAA
1 AATAAAA
38422829 AA
1 AA
38422831 ATCAAATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 17 0.61
8 8 0.29
9 3 0.11
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.15
Consensus pattern (7 bp):
AATAAAA
Found at i:38422832 original size:24 final size:24
Alignment explanation
Indices: 38422792--38422853 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 24
38422782 TATATGAATG
*
38422792 AATA-AAAAATAACAAAT-AAAAT
1 AATACAAAAATAAAAAATCAAAAT
*
38422814 AATACAAAAATAAAAAAATCAAATT
1 AATACAAAAAT-AAAAAATCAAAAT
*
38422839 AA-ACAAAAATGAAAA
1 AATACAAAAATAAAAA
38422854 TAGTGGGGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
22 4 0.12
23 10 0.29
24 14 0.41
25 6 0.18
ACGTcount: A:0.76, C:0.06, G:0.02, T:0.16
Consensus pattern (24 bp):
AATACAAAAATAAAAAATCAAAAT
Found at i:38422836 original size:15 final size:15
Alignment explanation
Indices: 38422795--38422836 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
38422785 ATGAATGAAT
38422795 AAAAAAT-AACAAATA
1 AAAAAATCAA-AAATA
*
38422810 AAATAATACAAAAATA
1 AAAAAAT-CAAAAATA
38422826 AAAAAATCAAA
1 AAAAAATCAAA
38422837 TTAAACAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 10 0.43
16 11 0.48
17 2 0.09
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (15 bp):
AAAAAATCAAAAATA
Found at i:38422892 original size:31 final size:31
Alignment explanation
Indices: 38422857--38422924 Score: 118
Period size: 31 Copynumber: 2.2 Consensus size: 31
38422847 ATGAAAATAG
38422857 TGGGGTTTATTTTGTGAAAACATACACTAAA
1 TGGGGTTTATTTTGTGAAAACATACACTAAA
* *
38422888 TGGGGTTTATTTTGTGAAAACATTCACTAAG
1 TGGGGTTTATTTTGTGAAAACATACACTAAA
38422919 TGGGGT
1 TGGGGT
38422925 GAGATTAAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.29, C:0.09, G:0.25, T:0.37
Consensus pattern (31 bp):
TGGGGTTTATTTTGTGAAAACATACACTAAA
Found at i:38426684 original size:51 final size:51
Alignment explanation
Indices: 38426629--38426747 Score: 195
Period size: 51 Copynumber: 2.3 Consensus size: 51
38426619 TATTGAGTTT
* *
38426629 AATAAATTTTGGGTTTTATTTAATTTATTATTTATTTATAAATAAATAATA
1 AATAAATTTTGGGTTTTATTTAATTCATTATTTATTTATAAATAAATAAAA
*
38426680 AATAAATTTTGGGTTTTATTTTATTCATTATTTATTTATAAATAAATAAAA
1 AATAAATTTTGGGTTTTATTTAATTCATTATTTATTTATAAATAAATAAAA
38426731 AATAGAA-TTTGGGTTTT
1 AATA-AATTTTGGGTTTT
38426748 TCTAAAGGCC
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
51 62 0.97
52 2 0.03
ACGTcount: A:0.39, C:0.01, G:0.08, T:0.51
Consensus pattern (51 bp):
AATAAATTTTGGGTTTTATTTAATTCATTATTTATTTATAAATAAATAAAA
Found at i:38435450 original size:24 final size:24
Alignment explanation
Indices: 38435422--38435496 Score: 105
Period size: 24 Copynumber: 3.1 Consensus size: 24
38435412 AGAAATAATC
* *
38435422 TTTCAGTTAAACTCTGTTTAATTG
1 TTTCAATTAAACTCTGTTTATTTG
* * *
38435446 TTTCAATTAAATTTTATTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
38435470 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
38435494 TTT
1 TTT
38435497 TGAGTTAAAC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.25, C:0.09, G:0.08, T:0.57
Consensus pattern (24 bp):
TTTCAATTAAACTCTGTTTATTTG
Found at i:38448567 original size:18 final size:19
Alignment explanation
Indices: 38448528--38448567 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
38448518 ATTATTTGGA
*
38448528 TATTGTATAATTTTTATTT
1 TATTGTATAATTTTTATAT
*
38448547 TATTGT-TAATTTTTCTAT
1 TATTGTATAATTTTTATAT
38448565 TAT
1 TAT
38448568 CTTAGAGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.68
Consensus pattern (19 bp):
TATTGTATAATTTTTATAT
Found at i:38449604 original size:14 final size:13
Alignment explanation
Indices: 38449585--38449614 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
38449575 ACCATTTTTA
38449585 TTAAGTGAGATATT
1 TTAAGTGAGAT-TT
38449599 TTAAGTGAGATTT
1 TTAAGTGAGATTT
38449612 TTA
1 TTA
38449615 GAGAATTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (13 bp):
TTAAGTGAGATTT
Found at i:38450963 original size:23 final size:23
Alignment explanation
Indices: 38450933--38451024 Score: 121
Period size: 23 Copynumber: 4.0 Consensus size: 23
38450923 TGCTCTTGTT
*
38450933 ATTAGCACTGTGTGTGCTCTCTG
1 ATTAGCACTGTGTGTACTCTCTG
* *
38450956 ATTAGCACTTTGTGTACTCTCTA
1 ATTAGCACTGTGTGTACTCTCTG
* *
38450979 ATTAGTACTTTGTGTACTCTCTG
1 ATTAGCACTGTGTGTACTCTCTG
* *
38451002 TTTAGCACTGTGTGTGCTCTCTG
1 ATTAGCACTGTGTGTACTCTCTG
38451025 TTACCCAGCA
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 60 1.00
ACGTcount: A:0.15, C:0.21, G:0.21, T:0.43
Consensus pattern (23 bp):
ATTAGCACTGTGTGTACTCTCTG
Found at i:38451015 original size:69 final size:66
Alignment explanation
Indices: 38450934--38451073 Score: 185
Period size: 69 Copynumber: 2.0 Consensus size: 66
38450924 GCTCTTGTTA
38450934 TTAGCACTGTGTGTGCTCTCTGATT-AGCACTT-TGTGTACTCTCTAATTAGTACTTTGTGTACT
1 TTAGCACTGTGTGTGCTCTCTG-TTCAGCACTTATGTG--CTCTCT-ATTAGTACTTTG-GTACT
38450997 CTCTGT
61 CTCTGT
*
38451003 TTAGCACTGTGTGTGCTCTCTGTTACCCAGCACTTATGTGCTCTCTGTTAGTACTTTGGTACTCT
1 TTAGCACTGTGTGTGCTCTCTGTT---CAGCACTTATGTGCTCTCTATTAGTACTTTGGTACTCT
38451068 CTGT
63 CTGT
38451072 TT
1 TT
38451074 GTTCCGTATA
Statistics
Matches: 65, Mismatches: 1, Indels: 10
0.86 0.01 0.13
Matches are distributed among these distances:
68 2 0.03
69 35 0.54
70 11 0.17
71 6 0.09
72 7 0.11
73 4 0.06
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.44
Consensus pattern (66 bp):
TTAGCACTGTGTGTGCTCTCTGTTCAGCACTTATGTGCTCTCTATTAGTACTTTGGTACTCTCTG
T
Found at i:38451025 original size:23 final size:23
Alignment explanation
Indices: 38450900--38451073 Score: 115
Period size: 23 Copynumber: 7.5 Consensus size: 23
38450890 ACACTAGCGA
* *
38450900 GCTCTCTGTTTAAGCAC-GTCTCTT
1 GCTCTCTGTTT-AGCACTGTGT-GT
38450924 GCTCT-TGTTATTAGCACTGTGTGT
1 GCTCTCTG-T-TTAGCACTGTGTGT
* *
38450948 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
* ** * *
38450971 ACTCTCTAATTAGTACTTTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
*
38450994 ACTCTCTGTTTAGCACTGTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
* *
38451017 GCTCTCTGTTACCCAGCACT-TATGT
1 GCTCTCTGTT---TAGCACTGTGTGT
* *
38451042 GCTCTCTG-TTAGTACTTTG-GT
1 GCTCTCTGTTTAGCACTGTGTGT
*
38451063 ACTCTCTGTTT
1 GCTCTCTGTTT
38451074 GTTCCGTATA
Statistics
Matches: 123, Mismatches: 18, Indels: 20
0.76 0.11 0.12
Matches are distributed among these distances:
21 14 0.11
22 3 0.02
23 63 0.51
24 18 0.15
25 19 0.15
26 6 0.05
ACGTcount: A:0.14, C:0.23, G:0.19, T:0.44
Consensus pattern (23 bp):
GCTCTCTGTTTAGCACTGTGTGT
Found at i:38465006 original size:13 final size:13
Alignment explanation
Indices: 38464988--38465013 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
38464978 TTTTAGGTAA
38464988 AGAAACACTAATT
1 AGAAACACTAATT
38465001 AGAAACACTAATT
1 AGAAACACTAATT
38465014 TATGTACCTG
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:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (13 bp):
AGAAACACTAATT
Found at i:38468754 original size:7 final size:8
Alignment explanation
Indices: 38468727--38468761 Score: 52
Period size: 8 Copynumber: 4.1 Consensus size: 8
38468717 ACATATTAAT
38468727 AAATAAAA
1 AAATAAAA
38468735 AAGTATAAAA
1 AA--ATAAAA
38468745 AAATAAAA
1 AAATAAAA
38468753 AAATAAAA
1 AAATAAAA
38468761 A
1 A
38468762 CAGTAACCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 17 0.68
10 8 0.32
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (8 bp):
AAATAAAA
Found at i:38469895 original size:20 final size:19
Alignment explanation
Indices: 38469870--38469910 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
38469860 GAAAAATAAC
38469870 AATAATA-AAACATAAAAATA
1 AATAATAGAAA-AT-AAAATA
38469890 AATAATAGAAAATAAAATA
1 AATAATAGAAAATAAAATA
38469909 AA
1 AA
38469911 AACAAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 8 0.40
20 9 0.45
21 3 0.15
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (19 bp):
AATAATAGAAAATAAAATA
Found at i:38469923 original size:2 final size:2
Alignment explanation
Indices: 38469916--38469944 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
38469906 ATAAAAACAA
38469916 AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
38469945 TAACAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:38470362 original size:17 final size:17
Alignment explanation
Indices: 38470340--38470375 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
38470330 GTAATGTGTT
*
38470340 AAATAAACTTTAAATTA
1 AAATAAAATTTAAATTA
*
38470357 AAATAAAATTTAATTTA
1 AAATAAAATTTAAATTA
38470374 AA
1 AA
38470376 TCTTTATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATAAAATTTAAATTA
Found at i:38470840 original size:49 final size:49
Alignment explanation
Indices: 38470712--38470840 Score: 177
Period size: 49 Copynumber: 2.6 Consensus size: 49
38470702 ATAACTTCGA
* * * *
38470712 GGTATAAGATTCGCCATTACGACTTTAATATGCTCCTCTTCAACTTTTG
1 GGTATAAGATTCGCCATTGCGACTTTAATCTGCTCCTATTCAACTTTAG
* *
38470761 GGTATAAGATTCGTCATTGTGACTTTAATCTGCTCCTATTCAACTTTAG
1 GGTATAAGATTCGCCATTGCGACTTTAATCTGCTCCTATTCAACTTTAG
* * *
38470810 GGTATAAGATTTGCCATTGCGGCTTCAATCT
1 GGTATAAGATTCGCCATTGCGACTTTAATCT
38470841 TTTTCGTCAT
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 69 1.00
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (49 bp):
GGTATAAGATTCGCCATTGCGACTTTAATCTGCTCCTATTCAACTTTAG
Found at i:38470927 original size:49 final size:49
Alignment explanation
Indices: 38470861--38471828 Score: 589
Period size: 49 Copynumber: 19.7 Consensus size: 49
38470851 GTTTTCTTAA
*
38470861 GGTACCGGGTTCGCCGTTGCAGCCTCAATCTTTCCCTTCATATCTTCAT
1 GGTACCGGATTCGCCGTTGCAGCCTCAATCTTTCCCTTCATATCTTCAT
* * * *
38470910 GGTAACGGATTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCGT
1 GGTACCGGATTCGCCGTTGCAGCCTCAATCTTTCCCTTCATATCTTCAT
* * * *
38470959 GGTACCGGATTCGTCGTTGCAGCCTCAATCTTTCCCATCACATCTTCTAA
1 GGTACCGGATTCGCCGTTGCAGCCTCAATCTTTCCCTTCATATCTTC-AT
* * *** * * ** * *
38471009 GGTATCGGGTTCATTGTTGCGGCCTCAACCTTTCTTTTCATATTTTTAT
1 GGTACCGGATTCGCCGTTGCAGCCTCAATCTTTCCCTTCATATCTTCAT
* * * * * * *
38471058 GGTACTGGATTCGCCGTTGCGGCCTTAATCCTT-CCTATCACATCTTTTAA
1 GGTACCGGATTCGCCGTTGCAGCCTCAATCTTTCCCT-TCATATC-TTCAT
* ** ** * **
38471108 GGTACCGGGTTCATCGTTGTGGCCTCAATCTTTCCCTTAATATCTTTGT
1 GGTACCGGATTCGCCGTTGCAGCCTCAATCTTTCCCTTCATATCTTCAT
* * * * * * *
38471157 GGAACCGAATTCGCCGTTG-TGACCTCAATCCTTCCCATCACATCTTCTAA
1 GGTACCGGATTCGCCGTTGCAG-CCTCAATCTTTCCCTTCATATCTTC-AT
* * *** * * *
38471207 GGTATCGGGTTCGCCGTTATGGCCTCAACCTTTCCTTTCATATCTTTAT
1 GGTACCGGATTCGCCGTTGCAGCCTCAATCTTTCCCTTCATATCTTCAT
* * * * *
38471256 GGTATCGGATTCGTCGTTGC-GACCTCAAT-TCTTCCCATCACATCTTCTAA
1 GGTACCGGATTCGCCGTTGCAG-CCTCAATCT-TTCCCTTCATATCTTC-AT
* * * * *
38471306 GGTACCGGGTTCGTCGTTACAGCCTCAACCTTTCCCTTCATATCTTTAT
1 GGTACCGGATTCGCCGTTGCAGCCTCAATCTTTCCCTTCATATCTTCAT
* * * * * *
38471355 GGTACCGGGTTCACCGTTGCGGCCTCAACCTTTCCCATCACATCTTCAT
1 GGTACCGGATTCGCCGTTGCAGCCTCAATCTTTCCCTTCATATCTTCAT
* * *
38471404 GGTACCGGGTTCGCAGTTG-TGACCTC-ATCCTTTCCCTTCATATCTTCAT
1 GGTACCGGATTCGCCGTTGCAG-CCTCAAT-CTTTCCCTTCATATCTTCAT
** * * * * * * *
38471453 CATATCGGGTTCCCCGTT--ATGACCTCAACCTTTCCCATCACATTTTCAT
1 GGTACCGGATTCGCCGTTGCA-G-CCTCAATCTTTCCCTTCATATCTTCAT
* ** * * * *
38471502 GGTA-CTGAGTTCATCGTTGCAGCCTCAACCTTTCCCATCACATCTTCTAA
1 GGTACCGGA-TTCGCCGTTGCAGCCTCAATCTTTCCCTTCATATCTTC-AT
* * * *
38471552 GGTACC-GAGTTCGTCGTTGCGGCCTCAA-CATTTCCTTTCATATCTTTAT
1 GGTACCGGA-TTCGCCGTTGCAGCCTCAATC-TTTCCCTTCATATCTTCAT
* * ** * * *
38471601 GGTACCGGATTCGTCGTTGCAGCCTCAATCTTTGCAATCACATCTTTTAG
1 GGTACCGGATTCGCCGTTGCAGCCTCAATCTTTCCCTTCATATC-TTCAT
* *
38471651 GGTACC-GAGTTCGCCGTTG-TGACCTCAA-CTTTTCCTTCATATCTTCAT
1 GGTACCGGA-TTCGCCGTTGCAG-CCTCAATCTTTCCCTTCATATCTTCAT
* * * *** *
38471699 GGTACCGGGTTCACTGTTATGGCCTCAACCTTTCCCTTCATATCTTCAT
1 GGTACCGGATTCGCCGTTGCAGCCTCAATCTTTCCCTTCATATCTTCAT
* * * * ** * * *
38471748 AGTACCGGGTTCACCGTTACAGGTTCAAACTTTCTCTTCATATC-TCTAG
1 GGTACCGGATTCGCCGTTGCAGCCTCAATCTTTCCCTTCATATCTTC-AT
* * * *
38471797 GGTATCAGATTTGTCGTTGCAGCCTCAATCTT
1 GGTACCGGATTCGCCGTTGCAGCCTCAATCTT
38471829 CTCTTTCAAA
Statistics
Matches: 715, Mismatches: 173, Indels: 62
0.75 0.18 0.07
Matches are distributed among these distances:
48 32 0.04
49 467 0.65
50 208 0.29
51 8 0.01
ACGTcount: A:0.18, C:0.29, G:0.17, T:0.36
Consensus pattern (49 bp):
GGTACCGGATTCGCCGTTGCAGCCTCAATCTTTCCCTTCATATCTTCAT
Found at i:38471068 original size:99 final size:99
Alignment explanation
Indices: 38470861--38471765 Score: 764
Period size: 99 Copynumber: 9.2 Consensus size: 99
38470851 GTTTTCTTAA
* * * * * * *
38470861 GGTACCGGGTTCGCCGTTGCAGCCTCAATCTTTCCCTTCATATCTTC-ATGGTAACGGATTCGCC
1 GGTACCGGATTCGCCGTTGCAGCCTCAATCTTTCCCATCACATCTTCTAAGGTACCGGGTTCGTC
**
38470925 GTTGCGGCCTCAACCTTTCCCTTCATATCTTCGT
66 GTTGCGGCCTCAACCTTTCCCTTCATATCTTTAT
* * * *
38470959 GGTACCGGATTCGTCGTTGCAGCCTCAATCTTTCCCATCACATCTTCTAAGGTATCGGGTTCATT
1 GGTACCGGATTCGCCGTTGCAGCCTCAATCTTTCCCATCACATCTTCTAAGGTACCGGGTTCGTC
** *
38471024 GTTGCGGCCTCAACCTTTCTTTTCATATTTTTAT
66 GTTGCGGCCTCAACCTTTCCCTTCATATCTTTAT
* * * * * * *
38471058 GGTACTGGATTCGCCGTTGCGGCCTTAATCCTTCCTATCACATCTTTTAAGGTACCGGGTTCATC
1 GGTACCGGATTCGCCGTTGCAGCCTCAATCTTTCCCATCACATCTTCTAAGGTACCGGGTTCGTC
* * * *
38471123 GTTGTGGCCTCAATCTTTCCCTTAATATCTTTGT
66 GTTGCGGCCTCAACCTTTCCCTTCATATCTTTAT
* * * * * *
38471157 GGAACCGAATTCGCCGTTG-TGACCTCAATCCTTCCCATCACATCTTCTAAGGTATCGGGTTCGC
1 GGTACCGGATTCGCCGTTGCAG-CCTCAATCTTTCCCATCACATCTTCTAAGGTACCGGGTTCGT
** *
38471221 CGTTATGGCCTCAACCTTTCCTTTCATATCTTTAT
65 CGTTGCGGCCTCAACCTTTCCCTTCATATCTTTAT
* *
38471256 GGTATCGGATTCGTCGTTGC-GACCTCAAT-TCTTCCCATCACATCTTCTAAGGTACCGGGTTCG
1 GGTACCGGATTCGCCGTTGCAG-CCTCAATCT-TTCCCATCACATCTTCTAAGGTACCGGGTTCG
* *
38471319 TCGTTACAGCCTCAACCTTTCCCTTCATATCTTTAT
64 TCGTTGCGGCCTCAACCTTTCCCTTCATATCTTTAT
* * * * *
38471355 GGTACCGGGTTCACCGTTGCGGCCTCAACCTTTCCCATCACATCTTC-ATGGTACCGGGTTCG-C
1 GGTACCGGATTCGCCGTTGCAGCCTCAATCTTTCCCATCACATCTTCTAAGGTACCGGGTTCGTC
* * * *
38471418 AGTTGTGACCTCATCCTTTCCCTTCATATCTTCAT
66 -GTTGCGGCCTCAACCTTTCCCTTCATATCTTTAT
** * * * * * * * * *
38471453 CATATCGGGTTCCCCGTT--ATGACCTCAACCTTTCCCATCACATTTTC-ATGGTACTGAGTTCA
1 GGTACCGGATTCGCCGTTGCA-G-CCTCAATCTTTCCCATCACATCTTCTAAGGTACCGGGTTCG
* * * *
38471515 TCGTTGCAGCCTCAACCTTTCCCATCACATCTTCTAA
64 TCGTTGCGGCCTCAACCTTTCCCTTCATATCTT-TAT
* * ** * * *
38471552 GGTACC-GAGTTCGTCGTTGCGGCCTCAA-CATTTCCTTTCATATCTT-TATGGTACCGGATTCG
1 GGTACCGGA-TTCGCCGTTGCAGCCTCAATC-TTTCCCATCACATCTTCTAAGGTACCGGGTTCG
* * * ** * *
38471614 TCGTTGCAGCCTCAATCTTTGCAATCACATCTTTTAG
64 TCGTTGCGGCCTCAACCTTTCCCTTCATATC-TTTAT
* * * * *
38471651 GGTACC-GAGTTCGCCGTTG-TGACCTCAA-CTTTTCCTTCATATCTTC-ATGGTACCGGGTTC-
1 GGTACCGGA-TTCGCCGTTGCAG-CCTCAATCTTTCCCATCACATCTTCTAAGGTACCGGGTTCG
* ** *
38471711 ACTGTTATGGCCTCAACCTTTCCCTTCATATCTTCAT
64 TC-GTTGCGGCCTCAACCTTTCCCTTCATATCTTTAT
* * *
38471748 AGTACCGGGTTCACCGTT
1 GGTACCGGATTCGCCGTT
38471766 ACAGGTTCAA
Statistics
Matches: 663, Mismatches: 123, Indels: 43
0.80 0.15 0.05
Matches are distributed among these distances:
97 19 0.03
98 213 0.32
99 426 0.64
100 5 0.01
ACGTcount: A:0.17, C:0.30, G:0.17, T:0.35
Consensus pattern (99 bp):
GGTACCGGATTCGCCGTTGCAGCCTCAATCTTTCCCATCACATCTTCTAAGGTACCGGGTTCGTC
GTTGCGGCCTCAACCTTTCCCTTCATATCTTTAT
Found at i:38480897 original size:20 final size:19
Alignment explanation
Indices: 38480872--38480912 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
38480862 GAAAAATAAC
38480872 AATAATA-AAACATAAAAATA
1 AATAATAGAAA-AT-AAAATA
38480892 AATAATAGAAAATAAAATA
1 AATAATAGAAAATAAAATA
38480911 AA
1 AA
38480913 ACAAAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 8 0.40
20 9 0.45
21 3 0.15
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (19 bp):
AATAATAGAAAATAAAATA
Found at i:38480942 original size:18 final size:18
Alignment explanation
Indices: 38480921--38480964 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
38480911 AAACAAAAAA
* * *
38480921 ATATATGTATTTGTTTGT
1 ATATATATATATGTATGT
38480939 ATATATATATATGTATGT
1 ATATATATATATGTATGT
38480957 ATATATAT
1 ATATATAT
38480965 TAACAAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (18 bp):
ATATATATATATGTATGT
Found at i:38482827 original size:18 final size:19
Alignment explanation
Indices: 38482792--38482834 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
38482782 TTTAAGTTTA
*
38482792 TAATATTTATATTATTATG
1 TAATTTTTATATTATTATG
*
38482811 TTATTTTTATA-TATTATG
1 TAATTTTTATATTATTATG
38482829 TAATTT
1 TAATTT
38482835 AGAACAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.63
Consensus pattern (19 bp):
TAATTTTTATATTATTATG
Found at i:38485073 original size:30 final size:29
Alignment explanation
Indices: 38485038--38485368 Score: 310
Period size: 30 Copynumber: 11.2 Consensus size: 29
38485028 AGAAAAAGGA
* * *
38485038 AAAGTTTGCGGGTAAAAATGTAATTATGGG
1 AAAGTTTG-GGGTCAAAATGTGATTTTGGG
*
38485068 AAAGTTTGAGGGTCAAAATGTGATTTTGGC
1 AAAGTTTG-GGGTCAAAATGTGATTTTGGG
* *
38485098 AAAATTTGGGATC-AAATGTGATTTT-GG
1 AAAGTTTGGGGTCAAAATGTGATTTTGGG
* *
38485125 AAAGTTATAGGGGTCAAAATGTGATTTTAGA
1 AAAGTT-T-GGGGTCAAAATGTGATTTTGGG
* * *
38485156 AAAGCTTGAGAGTTAAAAATGTGATTTTGGG
1 AAAGTTTG-G-GGTCAAAATGTGATTTTGGG
* * *
38485187 AAAATTCGGGGTTAAAATGT-AGTTTTGGG
1 AAAGTTTGGGGTCAAAATGTGA-TTTTGGG
* *
38485216 AAAGTTTAGGGTCAAAATGTGATTTTAGG
1 AAAGTTTGGGGTCAAAATGTGATTTTGGG
* * **
38485245 AAAGTTTGGGGTTAAAATGT-AATTTGAA
1 AAAGTTTGGGGTCAAAATGTGATTTTGGG
* * *
38485273 AAATTTTGGGGTCAAAATGTGATTATGGA
1 AAAGTTTGGGGTCAAAATGTGATTTTGGG
* *
38485302 AAAGTTTATGGGTCAAAATGTGATTTTGGA
1 AAAGTTT-GGGGTCAAAATGTGATTTTGGG
* *
38485332 AAAGTTTAGAGGTCAAAATGTGATTTTTGG
1 AAAGTTT-GGGGTCAAAATGTGATTTTGGG
38485362 AAAGTTT
1 AAAGTTT
38485369 AGGGACCTTT
Statistics
Matches: 247, Mismatches: 44, Indels: 20
0.79 0.14 0.06
Matches are distributed among these distances:
27 6 0.02
28 36 0.15
29 77 0.31
30 101 0.41
31 27 0.11
ACGTcount: A:0.35, C:0.03, G:0.27, T:0.34
Consensus pattern (29 bp):
AAAGTTTGGGGTCAAAATGTGATTTTGGG
Found at i:38485139 original size:58 final size:57
Alignment explanation
Indices: 38485035--38485372 Score: 312
Period size: 58 Copynumber: 5.7 Consensus size: 57
38485025 CAAAGAAAAA
* * *
38485035 GGAAAAGTTTGCGGGTAAAAATGTAATTATGGGAAAGTTT-GAGGGTCAAAATGTGATTTT
1 GGAAAAGTTT--GGGTCAAAATGTGATT-TTGGAAAGTTTAG-GGGTCAAAATGTGATTTT
38485095 GGCAAAA-TTTGGGATC-AAATGTGATTTTGGAAAGTTATAGGGGTCAAAATGTGATTTT
1 GG-AAAAGTTTGGG-TCAAAATGTGATTTTGGAAAGTT-TAGGGGTCAAAATGTGATTTT
* * * * * *
38485153 AGAAAAGCTTGAGAGTTAAAAATGTGATTTTGGGAAA-ATTCGGGGTTAAAATGT-AGTTTT
1 GGAAAAGTTTG-G-G-TCAAAATGTGATTTT-GGAAAGTTTAGGGGTCAAAATGTGA-TTTT
* * *
38485213 GGGAAAGTTTAGGGTCAAAATGTGATTTTAGGAAAGTTT-GGGGTTAAAATGT-AATTT
1 GGAAAAGTTT-GGGTCAAAATGTGATTTT-GGAAAGTTTAGGGGTCAAAATGTGATTTT
* * * *
38485270 GAAAAATTTTGGGGTCAAAATGTGATTATGGAAAAGTTTATGGGTCAAAATGTGATTTT
1 GGAAAAGTTT-GGGTCAAAATGTGATTTTGG-AAAGTTTAGGGGTCAAAATGTGATTTT
38485329 GGAAAAGTTTAGAGGTCAAAATGTGATTTTTGGAAAGTTTAGGG
1 GGAAAAGTTT-G-GGTCAAAATGTGA-TTTTGGAAAGTTTAGGG
38485373 ACCTTTTGAG
Statistics
Matches: 231, Mismatches: 30, Indels: 34
0.78 0.10 0.12
Matches are distributed among these distances:
56 2 0.01
57 47 0.20
58 79 0.34
59 20 0.09
60 55 0.24
61 23 0.10
62 5 0.02
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.34
Consensus pattern (57 bp):
GGAAAAGTTTGGGTCAAAATGTGATTTTGGAAAGTTTAGGGGTCAAAATGTGATTTT
Found at i:38490907 original size:56 final size:57
Alignment explanation
Indices: 38490812--38490926 Score: 187
Period size: 56 Copynumber: 2.0 Consensus size: 57
38490802 AAGGAGTTGT
*
38490812 TTATGAGTGTTATTTAGGAATAAAATTATATTTGGGTTTAAAAATATTTGGGTTTAG
1 TTATGAGTGTTATTTAGGAATAAAATTATATTTGAGTTTAAAAATATTTGGGTTTAG
* * *
38490869 TTATGAGTTTTTTTTA-GAATGAAATTATATTTGAGTTTAAAAATATTTGGGTTTAG
1 TTATGAGTGTTATTTAGGAATAAAATTATATTTGAGTTTAAAAATATTTGGGTTTAG
38490925 TT
1 TT
38490927 TGTTGATGGG
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
56 40 0.74
57 14 0.26
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.49
Consensus pattern (57 bp):
TTATGAGTGTTATTTAGGAATAAAATTATATTTGAGTTTAAAAATATTTGGGTTTAG
Found at i:38493536 original size:30 final size:29
Alignment explanation
Indices: 38493499--38493741 Score: 237
Period size: 29 Copynumber: 8.2 Consensus size: 29
38493489 TTTCAGAGAA
** *
38493499 TTTAGGGTCAAAACATAATTTTGGAAAAG
1 TTTAGGGTCAAAATGTGATTTTGGAAAAG
* * *
38493528 TTTAAGGGTAAAAATGTAATTATAGG-AAAG
1 TTT-AGGGTCAAAATGTGATT-TTGGAAAAG
38493558 TTTAAGGGTCAAAATGTGATTTTGGAAAAG
1 TTT-AGGGTCAAAATGTGATTTTGGAAAAG
*
38493588 TTTAGGAGTTAAAAATGTGATTTTGGGAAAA-
1 TTTAGG-G-TCAAAATGTGATTTT-GGAAAAG
* * *
38493619 TTT-GAGGTCAAATTGTGGTTTTATG-AAAG
1 TTTAG-GGTCAAAATGTGATTTT-GGAAAAG
*
38493648 TTTAGAGTCAAAATGTGATTTTGGAAAAG
1 TTTAGGGTCAAAATGTGATTTTGGAAAAG
* *
38493677 TTTAGGGTTAAAATATGATTTTGGAAAAG
1 TTTAGGGTCAAAATGTGATTTTGGAAAAG
38493706 -TTAGGGGTCAAAATGTGATTTTTGG-AAAG
1 TTTA-GGGTCAAAATGTGA-TTTTGGAAAAG
38493735 TTTAGGG
1 TTTAGGG
38493742 ACCTCTTGAG
Statistics
Matches: 179, Mismatches: 22, Indels: 26
0.79 0.10 0.11
Matches are distributed among these distances:
28 7 0.04
29 88 0.49
30 57 0.32
31 21 0.12
32 6 0.03
ACGTcount: A:0.37, C:0.02, G:0.26, T:0.35
Consensus pattern (29 bp):
TTTAGGGTCAAAATGTGATTTTGGAAAAG
Found at i:38494830 original size:23 final size:24
Alignment explanation
Indices: 38494797--38494842 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
38494787 TGAATGCTCT
38494797 TTGTCGTGTATTGATTCCAAAAAC
1 TTGTCGTGTATTGATTCCAAAAAC
* *
38494821 TTGTC-TGTATTGTTTCGAAAAA
1 TTGTCGTGTATTGATTCCAAAAA
38494843 AATCCCCCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.41
Consensus pattern (24 bp):
TTGTCGTGTATTGATTCCAAAAAC
Found at i:38503207 original size:25 final size:25
Alignment explanation
Indices: 38503179--38503227 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
38503169 ATTTTACATC
* * *
38503179 AATAAAATTAGCGCAATTTTTAAAA
1 AATAAAATTAACACAACTTTTAAAA
*
38503204 AATAAATTTAACACAACTTTTAAA
1 AATAAAATTAACACAACTTTTAAA
38503228 GCTAATTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.53, C:0.10, G:0.04, T:0.33
Consensus pattern (25 bp):
AATAAAATTAACACAACTTTTAAAA
Found at i:38504261 original size:18 final size:19
Alignment explanation
Indices: 38504238--38504273 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
38504228 ATAATCGTTC
38504238 ACAAATAT-AAATATTAAT
1 ACAAATATAAAATATTAAT
*
38504256 ACAAATTTAAAATATTAA
1 ACAAATATAAAATATTAA
38504274 GTCCATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (19 bp):
ACAAATATAAAATATTAAT
Found at i:38504270 original size:19 final size:20
Alignment explanation
Indices: 38504246--38504289 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
38504236 TCACAAATAT
38504246 AAATATTAA-TACAAATTTA
1 AAATATTAAGTACAAATTTA
* *
38504265 AAATATTAAGTCCATATTTA
1 AAATATTAAGTACAAATTTA
38504285 AAATA
1 AAATA
38504290 ATATAATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (20 bp):
AAATATTAAGTACAAATTTA
Found at i:38509449 original size:18 final size:19
Alignment explanation
Indices: 38509428--38509463 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
38509418 ATAGTCGTTC
38509428 ACAAATAT-AAATATTAAT
1 ACAAATATAAAATATTAAT
*
38509446 ACAAATTTAAAATATTAA
1 ACAAATATAAAATATTAA
38509464 GTCCATACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (19 bp):
ACAAATATAAAATATTAAT
Found at i:38510668 original size:27 final size:27
Alignment explanation
Indices: 38510625--38510702 Score: 106
Period size: 27 Copynumber: 3.0 Consensus size: 27
38510615 AAGTCAATCG
* *
38510625 GTCAA-AGTCAAAG-TCAACGATCAAA
1 GTCAACAGTCAACGATCAACGGTCAAA
*
38510650 GTTAACAGTCAACGATCAACGGTCAAA
1 GTCAACAGTCAACGATCAACGGTCAAA
*
38510677 GTCAACGGTCAACGATCAACGGTCAA
1 GTCAACAGTCAACGATCAACGGTCAA
38510703 CGGGTAAGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 4 0.09
26 7 0.15
27 35 0.76
ACGTcount: A:0.41, C:0.23, G:0.19, T:0.17
Consensus pattern (27 bp):
GTCAACAGTCAACGATCAACGGTCAAA
Found at i:38510670 original size:7 final size:7
Alignment explanation
Indices: 38510657--38510705 Score: 64
Period size: 7 Copynumber: 7.1 Consensus size: 7
38510647 AAAGTTAACA
38510657 GTCAACG
1 GTCAACG
*
38510664 ATCAACG
1 GTCAACG
*
38510671 GTCAA-A
1 GTCAACG
38510677 GTCAACG
1 GTCAACG
38510684 GTCAACG
1 GTCAACG
*
38510691 ATCAACG
1 GTCAACG
38510698 GTCAACG
1 GTCAACG
38510705 G
1 G
38510706 GTAAGGTTTG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
6 5 0.14
7 30 0.86
ACGTcount: A:0.35, C:0.27, G:0.24, T:0.14
Consensus pattern (7 bp):
GTCAACG
Found at i:38510695 original size:20 final size:19
Alignment explanation
Indices: 38510614--38510688 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
38510604 TTTCCTGAAA
38510614 AAAGTCAATCGGTCAAAGTC
1 AAAGTCAA-CGGTCAAAGTC
* *
38510634 AAAGTCAACGATCAAAGTT
1 AAAGTCAACGGTCAAAGTC
* *
38510653 AACAGTCAACGATCAACGGTC
1 AA-AGTCAACGGTCAA-AGTC
38510674 AAAGTCAACGGTCAA
1 AAAGTCAACGGTCAA
38510689 CGATCAACGG
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 11 0.23
20 33 0.69
21 4 0.08
ACGTcount: A:0.43, C:0.21, G:0.19, T:0.17
Consensus pattern (19 bp):
AAAGTCAACGGTCAAAGTC
Found at i:38510703 original size:14 final size:14
Alignment explanation
Indices: 38510657--38510704 Score: 80
Period size: 14 Copynumber: 3.5 Consensus size: 14
38510647 AAAGTTAACA
38510657 GTCAACGATCAACG
1 GTCAACGATCAACG
*
38510671 GTCAAAG-TCAACG
1 GTCAACGATCAACG
38510684 GTCAACGATCAACG
1 GTCAACGATCAACG
38510698 GTCAACG
1 GTCAACG
38510705 GGTAAGGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
13 12 0.39
14 19 0.61
ACGTcount: A:0.35, C:0.27, G:0.23, T:0.15
Consensus pattern (14 bp):
GTCAACGATCAACG
Found at i:38514375 original size:15 final size:15
Alignment explanation
Indices: 38514337--38514376 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
38514327 GTTTAGAATA
38514337 TATACAATATAACAT
1 TATACAATATAACAT
* *
38514352 TATATAATATAAGAT
1 TATACAATATAACAT
*
38514367 TGTACAATAT
1 TATACAATAT
38514377 CAATAATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.38
Consensus pattern (15 bp):
TATACAATATAACAT
Found at i:38516742 original size:45 final size:42
Alignment explanation
Indices: 38516653--38516742 Score: 99
Period size: 45 Copynumber: 2.1 Consensus size: 42
38516643 ATATATATAC
** * ** *
38516653 AAAATTCGAATATAAAAATTATTAATTCAATTTAAACTTTTT
1 AAAATTCGAATATAAAAATTATTAATAAAAATTAAAAATATT
38516695 AAAATTCGAATATACATAAAATTATTAATAAAAATTAAAAATATT
1 AAAATTCGAATAT--A-AAAATTATTAATAAAAATTAAAAATATT
38516740 AAA
1 AAA
38516743 TTTTCTTTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
42 13 0.33
44 1 0.03
45 25 0.64
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.37
Consensus pattern (42 bp):
AAAATTCGAATATAAAAATTATTAATAAAAATTAAAAATATT
Found at i:38516935 original size:22 final size:20
Alignment explanation
Indices: 38516904--38516952 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 20
38516894 TTTAAAAAAG
*
38516904 TTTTTAAAAATATTTATTAATT
1 TTTTTAAAAA-ATTT-TGAATT
38516926 TTCTTTAAAAAATTTTGAATT
1 TT-TTTAAAAAATTTTGAATT
38516947 TTTTTA
1 TTTTTA
38516953 TTGAATTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 4 0.16
21 7 0.28
22 6 0.24
23 8 0.32
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (20 bp):
TTTTTAAAAAATTTTGAATT
Found at i:38517907 original size:14 final size:15
Alignment explanation
Indices: 38517883--38517911 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
38517873 GTACTAAATT
38517883 ATATCAAAAATTAAA
1 ATATCAAAAATTAAA
38517898 ATAT-AAAAATTAAA
1 ATATCAAAAATTAAA
38517912 TCTCAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (15 bp):
ATATCAAAAATTAAA
Found at i:38518907 original size:29 final size:30
Alignment explanation
Indices: 38518854--38518910 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
38518844 TAATTTGGTC
* *
38518854 AAATCAAAATTTCATGTATAAAATTGCAAA
1 AAATCAAAAGTTCATGCATAAAATTGCAAA
*
38518884 AAATC-AAAGTTCATGCATACAATTGCA
1 AAATCAAAAGTTCATGCATAAAATTGCA
38518911 CATTAAACTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 19 0.79
30 5 0.21
ACGTcount: A:0.49, C:0.14, G:0.09, T:0.28
Consensus pattern (30 bp):
AAATCAAAAGTTCATGCATAAAATTGCAAA
Found at i:38519358 original size:11 final size:11
Alignment explanation
Indices: 38519342--38519374 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
38519332 AAAATTTTCG
38519342 AAATTATGAAA
1 AAATTATGAAA
38519353 AAATTATGAAA
1 AAATTATGAAA
38519364 AAATTAT-AAA
1 AAATTATGAAA
38519374 A
1 A
38519375 GAATCCATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 4 0.18
11 18 0.82
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (11 bp):
AAATTATGAAA
Found at i:38525917 original size:19 final size:19
Alignment explanation
Indices: 38525887--38525937 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
38525877 ATTACACACA
38525887 CACATG-CACTTTTACTTT
1 CACATGTCACTTTTACTTT
38525905 CACATGTCACTTTTACTTT
1 CACATGTCACTTTTACTTT
38525924 CACATGTCACTTTT
1 CACATGTCACTTTT
38525938 GCATATCAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 6 0.19
19 26 0.81
ACGTcount: A:0.22, C:0.27, G:0.06, T:0.45
Consensus pattern (19 bp):
CACATGTCACTTTTACTTT
Found at i:38527036 original size:79 final size:80
Alignment explanation
Indices: 38526948--38527107 Score: 295
Period size: 80 Copynumber: 2.0 Consensus size: 80
38526938 ACCTATCCTC
38526948 TTCACTTTAACTTAACC-TTTTTCTTTTCAATTCAAAGTTTTCCTTTACTTTGATCATCTTTCCT
1 TTCACTTTAACTTAACCTTTTTTCTTTTCAATTCAAAGTTTTCCTTTACTTTGATCATCTTTCCT
*
38527012 TCATTGTTTCCTCTT
66 TAATTGTTTCCTCTT
38527027 TTCACTTTAACTTAACCTTTTTTCTTTTCAATTCAAAGTTTTCCTTTACTTTGATCATCTTTCCT
1 TTCACTTTAACTTAACCTTTTTTCTTTTCAATTCAAAGTTTTCCTTTACTTTGATCATCTTTCCT
*
38527092 TAATTTTTTCCTCTT
66 TAATTGTTTCCTCTT
38527107 T
1 T
38527108 CTCTCCATGC
Statistics
Matches: 78, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
79 17 0.22
80 61 0.78
ACGTcount: A:0.18, C:0.23, G:0.03, T:0.56
Consensus pattern (80 bp):
TTCACTTTAACTTAACCTTTTTTCTTTTCAATTCAAAGTTTTCCTTTACTTTGATCATCTTTCCT
TAATTGTTTCCTCTT
Found at i:38531437 original size:3 final size:3
Alignment explanation
Indices: 38531429--38531489 Score: 52
Period size: 3 Copynumber: 20.0 Consensus size: 3
38531419 CATATAAAAA
* * * **
38531429 ATT ATT ATT AAT ATT TTT ATTT ATT TTT A-T AAA ATAT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT AT-T ATT ATT ATT
38531475 ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT
38531490 CAGAAAGAGT
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
2 2 0.04
3 39 0.85
4 5 0.11
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:38532002 original size:6 final size:6
Alignment explanation
Indices: 38531946--38532061 Score: 89
Period size: 6 Copynumber: 20.0 Consensus size: 6
38531936 ACCGAGCCCC
* * * * * *
38531946 TTTAAA TTT-AT TTTAAA ATTAAA TTT-GA TTTAAA TCTAGA TTT-AT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
38531991 TTTAAA TTTAAA TTTAAA ATTAAA CTTTAAA TTTGAA TTT-AA TTTAAG
1 TTTAAA TTTAAA TTTAAA TTTAAA -TTTAAA TTTAAA TTTAAA TTTAAA
* *
38532039 TCTAAA TTT-AT TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA
38532062 ATTATTATAA
Statistics
Matches: 83, Mismatches: 21, Indels: 12
0.72 0.18 0.10
Matches are distributed among these distances:
5 20 0.24
6 58 0.70
7 5 0.06
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (6 bp):
TTTAAA
Found at i:38532061 original size:17 final size:17
Alignment explanation
Indices: 38531946--38532074 Score: 89
Period size: 17 Copynumber: 8.1 Consensus size: 17
38531936 ACCGAGCCCC
38531946 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
38531963 ATTAAATTTGA-TTTAAA
1 TTTAAATTT-ATTTTAAA
* *
38531980 TCTAGATTTATTTTAAA
1 TTTAAATTTATTTTAAA
38531997 TTTAAATTTA----AAA
1 TTTAAATTTATTTTAAA
*
38532010 -TT-AA---ACTTTAAA
1 TTTAAATTTATTTTAAA
* * *
38532022 TTTGAATTTAATTTAAG
1 TTTAAATTTATTTTAAA
*
38532039 TCTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
* *
38532056 TTTAAAATTATTATAAA
1 TTTAAATTTATTTTAAA
38532073 TT
1 TT
38532075 GGAACCCAAT
Statistics
Matches: 86, Mismatches: 15, Indels: 22
0.70 0.12 0.18
Matches are distributed among these distances:
8 1 0.01
11 2 0.02
12 5 0.06
13 5 0.06
14 2 0.02
16 1 0.01
17 69 0.80
18 1 0.01
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.51
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:38532878 original size:15 final size:17
Alignment explanation
Indices: 38532836--38532884 Score: 66
Period size: 15 Copynumber: 2.9 Consensus size: 17
38532826 TAACCGATAT
*
38532836 TATAATAATAATAATAG
1 TATAATATTAATAATAG
38532853 TATAATCATTAATAATA-
1 TATAAT-ATTAATAATAG
38532870 T-TAATATTAATAATA
1 TATAATATTAATAATA
38532885 AAAGAAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 10 0.33
16 4 0.13
17 7 0.23
18 9 0.30
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (17 bp):
TATAATATTAATAATAG
Found at i:38539762 original size:30 final size:28
Alignment explanation
Indices: 38539694--38539922 Score: 210
Period size: 30 Copynumber: 7.8 Consensus size: 28
38539684 CCCTAAATTA
**
38539694 TCCAAAAATTTTATTTTGACTCCAAAACT
1 TCCAAAAATTACATTTTGAC-CCAAAACT
*
38539723 TCTAAAAATTACATTTTGACACCAAAACTT
1 TCCAAAAATTACATTTTGAC-CCAAAAC-T
* *
38539753 TCAAAAAATTACATTTTTACCACAAAACT
1 TCCAAAAATTACATTTTGACC-CAAAACT
* * *
38539782 TCTAAAAATTATATTTTTGACCCTAAAATT
1 TCCAAAAATTACA-TTTTGACCC-AAAACT
* *
38539812 TTCAAAAATTACATTTTTGAACCTAAAACT
1 TCCAAAAATTACA-TTTTG-ACCCAAAACT
* *
38539842 TCCCAAAATTCCATTTTGACCCCTAAAA-T
1 TCCAAAAATTACATTTTGA-CCC-AAAACT
*
38539871 TCCAAAAATTCCATTTTTGACCCCAAAACT
1 TCCAAAAATTACA-TTTTGA-CCCAAAACT
38539901 TCCAAAAATTACGATTTT-ACCC
1 TCCAAAAATTAC-ATTTTGACCC
38539923 TTGAAATTTT
Statistics
Matches: 169, Mismatches: 21, Indels: 21
0.80 0.10 0.10
Matches are distributed among these distances:
28 4 0.02
29 63 0.37
30 98 0.58
31 4 0.02
ACGTcount: A:0.40, C:0.22, G:0.03, T:0.34
Consensus pattern (28 bp):
TCCAAAAATTACATTTTGACCCAAAACT
Found at i:38539787 original size:59 final size:57
Alignment explanation
Indices: 38539707--38539949 Score: 242
Period size: 59 Copynumber: 4.1 Consensus size: 57
38539697 AAAAATTTTA
*
38539707 TTTTGACTCCAAAACTTCTAAAAATTACATTTTGACACC-AAAACTTTCAAAAAATTACAT
1 TTTTGAC-CCAAAACTTCCAAAAATTACATTTTGAC-CCTAAAA-TTTC-AAAAATTACAT
* *
38539767 TTTT-ACCACAAAACTTCTAAAAATTATATTTTTGACCCTAAAATTTTCAAAAATTACAT
1 TTTTGACC-CAAAACTTCCAAAAATTACA-TTTTGACCCTAAAA-TTTCAAAAATTACAT
* * * * *
38539826 TTTTGAACCTAAAACTTCCCAAAATTCCATTTTGACCCCTAAAATTCCAAAAATTCCAT
1 TTTTG-ACCCAAAACTTCCAAAAATTACATTTTGA-CCCTAAAATTTCAAAAATTACAT
* *
38539885 TTTTGACCCCAAAACTTCCAAAAATTACGATTTT-ACCCTTGAAATTTTTCAAAAA-TCCAT
1 TTTTGA-CCCAAAACTTCCAAAAATTAC-ATTTTGACCC-T-AAA-ATTTCAAAAATTACAT
38539945 TTTTG
1 TTTTG
38539950 GCCTCAAATT
Statistics
Matches: 158, Mismatches: 14, Indels: 22
0.81 0.07 0.11
Matches are distributed among these distances:
58 5 0.03
59 82 0.52
60 60 0.38
61 11 0.07
ACGTcount: A:0.39, C:0.21, G:0.04, T:0.36
Consensus pattern (57 bp):
TTTTGACCCAAAACTTCCAAAAATTACATTTTGACCCTAAAATTTCAAAAATTACAT
Found at i:38540305 original size:96 final size:96
Alignment explanation
Indices: 38540201--38540382 Score: 242
Period size: 96 Copynumber: 1.9 Consensus size: 96
38540191 CAAACTTTAA
* * * * *
38540201 AATCGAGGCAATA-TTCTTTTAT-TTCGAATTTTGAAATTTTGCGCCTTAACTTACTAGGTGCGA
1 AATCGAGGCAATATTTC-CTTATCTTCG-ATTATGAAAATTTGCGCCTTAACTCACTAGGTGCAA
**
38540264 TTTTTCTTCAAATCAAAATAATCGAATGCCCTT
64 CCTTTCTTCAAATCAAAATAATCGAATGCCCTT
*
38540297 AATCGAGGCAATATTTCCTTATCTTCGGTTATGAAAATTTGCGCCTTAACTCACTAGGTGCAACC
1 AATCGAGGCAATATTTCCTTATCTTCGATTATGAAAATTTGCGCCTTAACTCACTAGGTGCAACC
* *
38540362 TTTCTTCAAATCGAGATAATC
66 TTTCTTCAAATCAAAATAATC
38540383 AAATATCCTT
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
96 67 0.91
97 7 0.09
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (96 bp):
AATCGAGGCAATATTTCCTTATCTTCGATTATGAAAATTTGCGCCTTAACTCACTAGGTGCAACC
TTTCTTCAAATCAAAATAATCGAATGCCCTT
Found at i:38541862 original size:28 final size:30
Alignment explanation
Indices: 38541822--38541884 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
38541812 TAGTAATGGT
38541822 AAAATTTATTTTAA-C-TCTAAAAATGATA
1 AAAATTTATTTTAATCTTCTAAAAATGATA
* *
38541850 AAAATTTGA-TTTAATCTTTTAAAAATTATA
1 AAAATTT-ATTTTAATCTTCTAAAAATGATA
38541880 AAAAT
1 AAAAT
38541885 ATAGACCATG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 12 0.40
29 2 0.07
30 16 0.53
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (30 bp):
AAAATTTATTTTAATCTTCTAAAAATGATA
Found at i:38543920 original size:15 final size:15
Alignment explanation
Indices: 38543900--38543940 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
38543890 ATCAACATAG
*
38543900 GATGATTACGATGAC
1 GATGATGACGATGAC
38543915 GATGATGACGATGAC
1 GATGATGACGATGAC
*
38543930 GATGACGACGA
1 GATGATGACGA
38543941 CGAAGAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.34, C:0.15, G:0.32, T:0.20
Consensus pattern (15 bp):
GATGATGACGATGAC
Found at i:38544733 original size:17 final size:18
Alignment explanation
Indices: 38544700--38544733 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38544690 TGAACCCCGA
*
38544700 ATCCTAAACTTCAAACCC
1 ATCCTAAACTCCAAACCC
38544718 ATCCTAAAC-CCAAACC
1 ATCCTAAACTCCAAACC
38544734 TTGAACTCAA
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:0.41, C:0.41, G:0.00, T:0.18
Consensus pattern (18 bp):
ATCCTAAACTCCAAACCC
Found at i:38544852 original size:28 final size:26
Alignment explanation
Indices: 38544779--38544848 Score: 77
Period size: 28 Copynumber: 2.6 Consensus size: 26
38544769 TCGAGATTTA
* *
38544779 AAGTTTAAGGTTAGGATTTAGGGTTT
1 AAGTTTAAGATTTGGATTTAGGGTTT
* *
38544805 AAGATTTATATATTTAGATTTAGGGTTT
1 AAG-TTTA-AGATTTGGATTTAGGGTTT
38544833 AATGTTTAAGATTTGG
1 AA-GTTTAAGATTTGG
38544849 GATTCTAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
26 3 0.09
27 10 0.29
28 21 0.60
29 1 0.03
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.46
Consensus pattern (26 bp):
AAGTTTAAGATTTGGATTTAGGGTTT
Found at i:38547528 original size:17 final size:18
Alignment explanation
Indices: 38547494--38547534 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
38547484 CTTTAGAATT
38547494 TATTTTAAAAAATTTATAA
1 TATTTTAAAAAA-TTATAA
38547513 TATTTTAAAAAA-TATAA
1 TATTTTAAAAAATTATAA
38547530 -ATTTT
1 TATTTT
38547535 TGAAGTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.23
17 5 0.23
19 12 0.55
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TATTTTAAAAAATTATAA
Found at i:38554555 original size:60 final size:60
Alignment explanation
Indices: 38554491--38554667 Score: 230
Period size: 60 Copynumber: 2.9 Consensus size: 60
38554481 GTAATTTTTG
* * *
38554491 AAAGTTTTAGGGTCAAAATGTAATTTTGGAAAAGTTTAGGGGTCAAAATGTAATTTTCAA
1 AAAGTTTTAGGGTAAAAATATAATTTTGAAAAAGTTTAGGGGTCAAAATGTAATTTTCAA
* * *
38554551 AAAG-TTTAGGGTTAAAATATAATTTTAGAAAAAGTTTAGGGGTCAAAATGTAATTTTTAG
1 AAAGTTTTAGGGTAAAAATATAATTTT-GAAAAAGTTTAGGGGTCAAAATGTAATTTTCAA
* * * * *
38554611 AAAGTTTTGGGGTTAAAAATATAATTTTTAGAAAGTTTTGGGGTCGAAATGTAATTT
1 AAAGTTTTAGGG-TAAAAATATAATTTTGAAAAAGTTTAGGGGTCAAAATGTAATTT
38554668 CTAGATAATT
Statistics
Matches: 103, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
59 20 0.19
60 38 0.37
61 31 0.30
62 14 0.14
ACGTcount: A:0.38, C:0.03, G:0.21, T:0.37
Consensus pattern (60 bp):
AAAGTTTTAGGGTAAAAATATAATTTTGAAAAAGTTTAGGGGTCAAAATGTAATTTTCAA
Found at i:38554605 original size:31 final size:29
Alignment explanation
Indices: 38554471--38554682 Score: 207
Period size: 30 Copynumber: 7.1 Consensus size: 29
38554461 GGGAAGTTGA
*
38554471 GGGT-AAAATGGTAATTTTTGAAAGTTTTA-
1 GGGTCAAAAT-GTAATTTTAGAAAG-TTTAG
*
38554500 GGGTCAAAATGTAATTTTGGAAAAGTTTAG
1 GGGTCAAAATGTAATTTTAG-AAAGTTTAG
*
38554530 GGGTCAAAATGTAATTTTCAAAAAGTTTA-
1 GGGTCAAAATGTAATTTT-AGAAAGTTTAG
* *
38554559 GGGTTAAAATATAATTTTAGAAAAAGTTTAG
1 GGGTCAAAATGTAATTTTAG--AAAGTTTAG
*
38554590 GGGTCAAAATGTAATTTTTAGAAAGTTTTG
1 GGGTCAAAATGTAA-TTTTAGAAAGTTTAG
* * *
38554620 GGGTTAAAAATATAATTTTTAGAAAGTTTTG
1 GGG-TCAAAATGTAA-TTTTAGAAAGTTTAG
*
38554651 GGGTCGAAATGTAATTTCTAGATAA-TTTAG
1 GGGTCAAAATGTAATTT-TAGA-AAGTTTAG
38554681 GG
1 GG
38554683 ACTTACAGAG
Statistics
Matches: 157, Mismatches: 15, Indels: 21
0.81 0.08 0.11
Matches are distributed among these distances:
28 1 0.01
29 36 0.23
30 72 0.46
31 42 0.27
32 6 0.04
ACGTcount: A:0.37, C:0.03, G:0.23, T:0.37
Consensus pattern (29 bp):
GGGTCAAAATGTAATTTTAGAAAGTTTAG
Found at i:38556579 original size:6 final size:6
Alignment explanation
Indices: 38556565--38556646 Score: 82
Period size: 6 Copynumber: 14.0 Consensus size: 6
38556555 AGTGTTTAGT
* *
38556565 ATTTTA ATTTAA ATTTAA A-GTAA ATTTAA ATAATTAA ATTTAA ATTT-A
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA AT--TTAA ATTTAA ATTTAA
* *
38556613 ATTTAA ATTTAA A--TAA ATTTAA AATTAA TTTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
38556647 CTCCAAATTA
Statistics
Matches: 64, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
4 4 0.06
5 9 0.14
6 45 0.70
8 6 0.09
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (6 bp):
ATTTAA
Found at i:38556588 original size:11 final size:10
Alignment explanation
Indices: 38556574--38556635 Score: 65
Period size: 11 Copynumber: 6.0 Consensus size: 10
38556564 TATTTTAATT
38556574 TAAATTTAAA
1 TAAATTTAAA
38556584 GTAAATTTAAA
1 -TAAATTTAAA
38556595 T-AA-TTAAA
1 TAAATTTAAA
*
38556603 TTTAAATTTAATT
1 --TAAATTTAA-A
38556616 TAAATTTAAA
1 TAAATTTAAA
38556626 TAAATTTAAA
1 TAAATTTAAA
38556636 ATTAATTTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
8 5 0.11
9 2 0.05
10 12 0.27
11 21 0.48
12 4 0.09
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (10 bp):
TAAATTTAAA
Found at i:38556605 original size:31 final size:33
Alignment explanation
Indices: 38556565--38556646 Score: 105
Period size: 31 Copynumber: 2.5 Consensus size: 33
38556555 AGTGTTTAGT
*
38556565 ATTTTAATTTAAATTTAAAGTAAATTTAAAT-A
1 ATTTAAATTTAAATTTAAAGTAAATTTAAATAA
**
38556597 A-TTAAATTTAAATTTAATTTAAATTTAAATAA
1 ATTTAAATTTAAATTTAAAGTAAATTTAAATAA
* *
38556629 ATTTAAAATTAATTTTAA
1 ATTTAAATTTAAATTTAA
38556647 CTCCAAATTA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
31 26 0.60
32 3 0.07
33 14 0.33
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (33 bp):
ATTTAAATTTAAATTTAAAGTAAATTTAAATAA
Found at i:38556637 original size:11 final size:11
Alignment explanation
Indices: 38556574--38556643 Score: 58
Period size: 11 Copynumber: 6.6 Consensus size: 11
38556564 TATTTTAATT
*
38556574 TAAATTTAAAG
1 TAAATTTAAAA
38556585 TAAATTT-AAA
1 TAAATTTAAAA
*
38556595 T-AA-TTAAATT
1 TAAATTTAAA-A
**
38556605 TAAATTTAATT
1 TAAATTTAAAA
38556616 TAAATTT-AAA
1 TAAATTTAAAA
38556626 TAAATTTAAAA
1 TAAATTTAAAA
*
38556637 TTAATTT
1 TAAATTT
38556644 TAACTCCAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
8 2 0.04
9 4 0.08
10 12 0.25
11 26 0.54
12 4 0.08
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:38556637 original size:17 final size:15
Alignment explanation
Indices: 38556585--38556640 Score: 69
Period size: 16 Copynumber: 3.6 Consensus size: 15
38556575 AAATTTAAAG
38556585 TAAATTTAAATAA-T
1 TAAATTTAAATAATT
38556599 TAAATTTAAATTTAATT
1 TAAATTTAAA--TAATT
38556616 TAAATTTAAATAAATT
1 TAAATTTAAAT-AATT
*
38556632 TAAAATTAA
1 TAAATTTAA
38556641 TTTTAACTCC
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
14 10 0.27
15 1 0.03
16 15 0.41
17 11 0.30
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TAAATTTAAATAATT
Found at i:38557062 original size:76 final size:76
Alignment explanation
Indices: 38556930--38557622 Score: 797
Period size: 76 Copynumber: 9.5 Consensus size: 76
38556920 GCTTATTTAG
* * * * * * *
38556930 AGAGATAAAGACTTGCTACCCAACTTTACTTCAATTTCAAGAGGATGGGAAGAGATCTTGCTCTT
1 AGAGATAAAGACGTGCTATCCATCTCTACTTCAATTTCAAAAGGATAGGAAAAGATCTTGCTCTT
* *
38556995 TCTTCAGTTTC
66 ACTTCAATTTC
** * *
38557006 AGAGATAAAGACGTAATATCCAGT-TTTACTTTAATTTCAAAAGGATAGGAAAAGATCTTGCTCT
1 AGAGATAAAGACGTGCTATCCA-TCTCTACTTCAATTTCAAAAGGATAGGAAAAGATCTTGCTCT
38557070 TACTTCAATTTC
65 TACTTCAATTTC
38557082 AGAGATAAAGACGTGCTATCCATCTCTACTTCAA-TTC-AAAGGATAGGAAAAGATCTTGCTCTT
1 AGAGATAAAGACGTGCTATCCATCTCTACTTCAATTTCAAAAGGATAGGAAAAGATCTTGCTCTT
*
38557145 ATTTCAATTTC
66 ACTTCAATTTC
38557156 AGAGATAAAGACGTGCTATCCATCTCTACTTCAA-TTCAAAA-GATAGGAAAAGATCTT-CT-TT
1 AGAGATAAAGACGTGCTATCCATCTCTACTTCAATTTCAAAAGGATAGGAAAAGATCTTGCTCTT
38557217 ACTTCAATTTC
66 ACTTCAATTTC
38557228 AGAGATAAAGACGTGCTATCCATCTCTACTTCAATTTCAAAAGGATAGGAAAAGATCTTGCTCTT
1 AGAGATAAAGACGTGCTATCCATCTCTACTTCAATTTCAAAAGGATAGGAAAAGATCTTGCTCTT
*
38557293 ATTTCAATTTC
66 ACTTCAATTTC
* *
38557304 AGAGATAAAGACGTGTTGTCCATCTCTACTTCAATTTCAAAAGGATAGGAAAAGATCTTGCTCTT
1 AGAGATAAAGACGTGCTATCCATCTCTACTTCAATTTCAAAAGGATAGGAAAAGATCTTGCTCTT
38557369 ACTTCAATTTC
66 ACTTCAATTTC
* * * * * *
38557380 AGAGATGAAGGCTTGATATCCAACTCTACTTCAATTTC--AAGG---GG--ATGA-CGTTGCTCT
1 AGAGATAAAGACGTGCTATCCATCTCTACTTCAATTTCAAAAGGATAGGAAAAGATC-TTGCTCT
38557437 TACTTCAATTTC
65 TACTTCAATTTC
* * ** * *
38557449 AGAGATAAAGACTTG--ATCCAACTCTACTTCAATTTCAAGCGGAT--G--ACG---TTACTCTT
1 AGAGATAAAGACGTGCTATCCATCTCTACTTCAATTTCAAAAGGATAGGAAAAGATCTTGCTCTT
38557505 ACTTCAATTTC
66 ACTTCAATTTC
* * * * *
38557516 AGAGATTAAGACGTGTTATCC-GCTCTACTTTAATTTC--AAGG---GG--ATGA-CGTTGCTCT
1 AGAGATAAAGACGTGCTATCCATCTCTACTTCAATTTCAAAAGGATAGGAAAAGATC-TTGCTCT
*
38557572 TACTTCAATTTT
65 TACTTCAATTTC
*
38557584 AGAGATAAAGACGTGTTATCCA-CTCTACTTCAATTTCAA
1 AGAGATAAAGACGTGCTATCCATCTCTACTTCAATTTCAA
38557623 GGGGATGACA
Statistics
Matches: 551, Mismatches: 45, Indels: 48
0.86 0.07 0.07
Matches are distributed among these distances:
65 3 0.01
66 2 0.00
67 52 0.09
68 66 0.12
69 41 0.07
70 3 0.01
71 2 0.00
72 46 0.08
73 9 0.02
74 109 0.20
75 9 0.02
76 209 0.38
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (76 bp):
AGAGATAAAGACGTGCTATCCATCTCTACTTCAATTTCAAAAGGATAGGAAAAGATCTTGCTCTT
ACTTCAATTTC
Found at i:38557358 original size:44 final size:44
Alignment explanation
Indices: 38557234--38557358 Score: 121
Period size: 38 Copynumber: 3.1 Consensus size: 44
38557224 TTTCAGAGAT
* *
38557234 AAAGACGTGCTATCCATCTCTACTTCAATTTCAAAAGGATAGGA
1 AAAGACGTGTTGTCCATCTCTACTTCAATTTCAAAAGGATAGGA
* * *
38557278 AAAGA--TCTTG--C-TCT-TATTTCAATTTC-AGA-GAT----
1 AAAGACGTGTTGTCCATCTCTACTTCAATTTCAAAAGGATAGGA
38557310 AAAGACGTGTTGTCCATCTCTACTTCAATTTCAAAAGGATAGGA
1 AAAGACGTGTTGTCCATCTCTACTTCAATTTCAAAAGGATAGGA
38557354 AAAGA
1 AAAGA
38557359 TCTTGCTCTT
Statistics
Matches: 61, Mismatches: 8, Indels: 24
0.66 0.09 0.26
Matches are distributed among these distances:
32 5 0.08
34 4 0.07
36 4 0.07
37 5 0.08
38 22 0.36
39 5 0.08
40 4 0.07
42 2 0.03
44 10 0.16
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (44 bp):
AAAGACGTGTTGTCCATCTCTACTTCAATTTCAAAAGGATAGGA
Found at i:38557566 original size:68 final size:69
Alignment explanation
Indices: 38557361--38557657 Score: 458
Period size: 68 Copynumber: 4.4 Consensus size: 69
38557351 GGAAAAGATC
* * * *
38557361 TTGCTCTTACTTCAATTTCAGAGATGAAGGCTTGATATCCAACTCTACTTCAATTTCAAGGGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGGGGAT
38557426 GACG
66 GACG
* *
38557430 TTGCTCTTACTTCAATTTCAGAGATAAAGAC-T-TGATCCAACTCTACTTCAATTTCAAGCGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGGGGAT
38557493 GACG
66 GACG
* * * *
38557497 TTACTCTTACTTCAATTTCAGAGATTAAGACGTGTTATCC-GCTCTACTTTAATTTCAAGGGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGGGGAT
38557561 GACG
66 GACG
*
38557565 TTGCTCTTACTTCAATTTTAGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGGGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGGGGAT
*
38557629 GACA
66 GACG
38557633 TTGCTCTTACTTCAATTTCAGAGAT
1 TTGCTCTTACTTCAATTTCAGAGAT
38557658 GACGTTGCTC
Statistics
Matches: 208, Mismatches: 18, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
67 61 0.29
68 113 0.54
69 34 0.16
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.35
Consensus pattern (69 bp):
TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGGGGAT
GACG
Found at i:38557668 original size:29 final size:29
Alignment explanation
Indices: 38557609--38557686 Score: 120
Period size: 29 Copynumber: 2.6 Consensus size: 29
38557599 TTATCCACTC
*
38557609 TACTTCAATTTCAAGGGGATGACATTGCTCT
1 TACTTCAATTTC-A-GAGATGACATTGCTCT
*
38557640 TACTTCAATTTCAGAGATGACGTTGCTCT
1 TACTTCAATTTCAGAGATGACATTGCTCT
38557669 TACTTCAATTTCAGAGAT
1 TACTTCAATTTCAGAGAT
38557687 AAAGACTTGA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
29 32 0.71
30 1 0.02
31 12 0.27
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (29 bp):
TACTTCAATTTCAGAGATGACATTGCTCT
Found at i:38557671 original size:165 final size:164
Alignment explanation
Indices: 38557473--38557790 Score: 514
Period size: 165 Copynumber: 1.9 Consensus size: 164
38557463 GATCCAACTC
* * *
38557473 TACTTCAATTTCAAGCGGATGACGTTACTCTTACTTCAATTTCAGAGATTAAGACGTGTTATCCG
1 TACTTCAATTTCAAGCAGATGACGTTACTCTTACTTCAATTTCAGAGATAAAGACGTGATATCCG
* *
38557538 CTCTACTTTAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTTAGAGATAAAGACGTGTTAT
66 CTCTACTTCAATTTCAAGGGGATGA---TGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTAT
*
38557603 CCACTCTACTTCAATTTCAAGGGGATGACATTGCTCT
128 CCACTCTACTTCAATTTCAAGCGGATGACATTGCTCT
* *
38557640 TACTTCAATTTC-AG-AGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCG
1 TACTTCAATTTCAAGCAGATGACGTTACTCTTACTTCAATTTCAGAGATAAAGACGTGATATCCG
*
38557703 CTCTACTTCAATTTCAAGGGGATGATGCTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCA
66 CTCTACTTCAATTTCAAGGGGATGATGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCA
38557768 CTCTACTTCAATTTCAAGCGGAT
131 CTCTACTTCAATTTCAAGCGGAT
38557791 TGAAATCATC
Statistics
Matches: 142, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
162 60 0.42
165 68 0.48
166 2 0.01
167 12 0.08
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.36
Consensus pattern (164 bp):
TACTTCAATTTCAAGCAGATGACGTTACTCTTACTTCAATTTCAGAGATAAAGACGTGATATCCG
CTCTACTTCAATTTCAAGGGGATGATGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCA
CTCTACTTCAATTTCAAGCGGATGACATTGCTCT
Found at i:38557677 original size:97 final size:94
Alignment explanation
Indices: 38557558--38557751 Score: 325
Period size: 97 Copynumber: 2.0 Consensus size: 94
38557548 ATTTCAAGGG
* *
38557558 GATGACGTTGCTCTTACTTCAATTTTAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAA
1 GATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGATATCCACTCTACTTCAATTTCAA
38557623 GGGGATGACATTGCTCTTACTTCAATTTCAGA
66 GGGGATG--A-TGCTCTTACTTCAATTTCAGA
* *
38557655 GATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCGCTCTACTTCAATTTCAA
1 GATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGATATCCACTCTACTTCAATTTCAA
38557720 GGGGATGATGCTCTTACTTCAATTTCAGA
66 GGGGATGATGCTCTTACTTCAATTTCAGA
38557749 GAT
1 GAT
38557752 AAAGATGTGT
Statistics
Matches: 93, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
94 24 0.26
95 1 0.01
97 68 0.73
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.36
Consensus pattern (94 bp):
GATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGATATCCACTCTACTTCAATTTCAA
GGGGATGATGCTCTTACTTCAATTTCAGA
Found at i:38557740 original size:65 final size:65
Alignment explanation
Indices: 38557635--38557790 Score: 215
Period size: 65 Copynumber: 2.4 Consensus size: 65
38557625 GGATGACATT
* * *
38557635 GCTCTTACTTCAATTTCAGAGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACT-TGATA
1 GCTC-TACTTCAATTTCA-AGAGGATGATGCTCTTACTTCAATTTCAGAGATAAAGA-TGTGATA
38557699 TCC
63 TCC
* *
38557702 GCTCTACTTCAATTTCAAGGGGATGATGCTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCC
1 GCTCTACTTCAATTTCAAGAGGATGATGCTCTTACTTCAATTTCAGAGATAAAGATGTGATATCC
* *
38557767 ACTCTACTTCAATTTCAAGCGGAT
1 GCTCTACTTCAATTTCAAGAGGAT
38557791 TGAAATCATC
Statistics
Matches: 81, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
64 1 0.01
65 63 0.78
66 13 0.16
67 4 0.05
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (65 bp):
GCTCTACTTCAATTTCAAGAGGATGATGCTCTTACTTCAATTTCAGAGATAAAGATGTGATATCC
Found at i:38569676 original size:59 final size:57
Alignment explanation
Indices: 38569475--38569734 Score: 170
Period size: 59 Copynumber: 4.4 Consensus size: 57
38569465 TGGGTTTTTA
*
38569475 GGGGTAAAATGGTAAAATTGTTTTGTGAAATCGGGGGTTAAAAATGGAATTTGGAAAGTTT
1 GGGGTAAAATGGT--AATT-TTTGGTGAAATC-GGGGTTAAAAATGGAATTTGGAAAGTTT
* ** * ** * * *
38569536 GGGGAATAAAATGGTAAATTTTGGCAAAAACATGGTCAAAAATGAAATTTTGGAAAGTTC
1 GGGG--TAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAA-TTTGGAAAGTTT
* * ** * *
38569596 GGAGGCAAAACGGTAGGTTTTGGTGAAATCGGGGTTAAAAATGGGATTTAGGGAAGTTT
1 GG-GGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTT-GGAAAGTTT
* *
38569655 GAGGGTAAAATGGTAA-TTTT--TGAAAGTTTTGGGGTT-AAAATGTAATTTTGGAAAAGTTT
1 G-GGGTAAAATGGTAATTTTTGGTGAAA---TCGGGGTTAAAAATGGAA-TTTGG-AAAGTTT
38569714 AGGGGTTAAAAT-GTAATTTTT
1 -GGGG-TAAAATGGTAATTTTT
38569735 AGAAAGTTTT
Statistics
Matches: 154, Mismatches: 31, Indels: 29
0.72 0.14 0.14
Matches are distributed among these distances:
56 5 0.03
58 16 0.10
59 82 0.53
60 33 0.21
61 9 0.06
63 9 0.06
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.32
Consensus pattern (57 bp):
GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTGGAAAGTTT
Found at i:38569696 original size:30 final size:29
Alignment explanation
Indices: 38569652--38569909 Score: 268
Period size: 30 Copynumber: 8.7 Consensus size: 29
38569642 TTTAGGGAAG
*
38569652 TTTGAGGG-TAAAATGGTAATTTTTGAAAGT
1 TTTG-GGGTTAAAAT-GTAATTTTAGAAAGT
*
38569682 TTTGGGGTTAAAATGTAATTTTGGAAAAGT
1 TTTGGGGTTAAAATGTAATTTTAG-AAAGT
*
38569712 TTAGGGGTTAAAATGTAATTTTTAGAAAGT
1 TTTGGGGTTAAAATGTAA-TTTTAGAAAGT
* * * *
38569742 TTTAGGGTCAAAATATAATTTTGAAAAAGT
1 TTTGGGGTTAAAATGTAATTTT-AGAAAGT
* * *
38569772 TTAGGGGTTAAAATGTAAGTTTCAAAAAGT
1 TTTGGGGTTAAAATGTAA-TTTTAGAAAGT
* * *
38569802 TTTAGGGTTAAAATATAATTTTGGAAAAG-
1 TTTGGGGTTAAAATGTAATTTTAG-AAAGT
*
38569831 TTTAGGGTTAAAATGTAATTTTCAGAAAGT
1 TTTGGGGTTAAAATGTAATTTT-AGAAAGT
*
38569861 TTTGGGGTTAAAATATAATTTTCAGAAAGT
1 TTTGGGGTTAAAATGTAATTTT-AGAAAGT
**
38569891 TTTGGGGTCGAAATGTAAT
1 TTTGGGGTTAAAATGTAAT
38569910 ATCTAGACAA
Statistics
Matches: 194, Mismatches: 26, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
29 44 0.23
30 142 0.73
31 8 0.04
ACGTcount: A:0.37, C:0.02, G:0.23, T:0.38
Consensus pattern (29 bp):
TTTGGGGTTAAAATGTAATTTTAGAAAGT
Found at i:38569768 original size:59 final size:60
Alignment explanation
Indices: 38569660--38569909 Score: 344
Period size: 60 Copynumber: 4.2 Consensus size: 60
38569650 AGTTTGAGGG
* * *
38569660 TAAAATGGTAATTTT-TGAAAGTTTTGGGGTTAAAATGTAATTTTGGAAAAGTTTAGGGGT
1 TAAAAT-GTAATTTTCAGAAAGTTTTAGGGTTAAAATATAATTTTGGAAAAGTTTAGGGGT
* * *
38569720 TAAAATGTAATTTTTAGAAAGTTTTAGGGTCAAAATATAATTTTGAAAAAGTTTAGGGGT
1 TAAAATGTAATTTTCAGAAAGTTTTAGGGTTAAAATATAATTTTGGAAAAGTTTAGGGGT
* *
38569780 TAAAATGTAAGTTTCAAAAAGTTTTAGGGTTAAAATATAATTTTGGAAAAGTTTA-GGGT
1 TAAAATGTAATTTTCAGAAAGTTTTAGGGTTAAAATATAATTTTGGAAAAGTTTAGGGGT
* * *
38569839 TAAAATGTAATTTTCAGAAAGTTTTGGGGTTAAAATATAATTTT-CAGAAAGTTTTGGGGT
1 TAAAATGTAATTTTCAGAAAGTTTTAGGGTTAAAATATAATTTTGGA-AAAGTTTAGGGGT
**
38569899 CGAAATGTAAT
1 TAAAATGTAAT
38569910 ATCTAGACAA
Statistics
Matches: 170, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
58 1 0.01
59 60 0.35
60 109 0.64
ACGTcount: A:0.38, C:0.02, G:0.22, T:0.38
Consensus pattern (60 bp):
TAAAATGTAATTTTCAGAAAGTTTTAGGGTTAAAATATAATTTTGGAAAAGTTTAGGGGT
Found at i:38569924 original size:89 final size:87
Alignment explanation
Indices: 38569649--38569926 Score: 301
Period size: 89 Copynumber: 3.1 Consensus size: 87
38569639 GGATTTAGGG
* *
38569649 AAGTTTGAGGG-TAAAATGGTAATTTTTGAAAGTTTTGGGGTTAAAATGTAATTTT-GGAAAAGT
1 AAGTTT-AGGGTTAAAAT-GTAATTTTAGAAAGTTTTGGGGTTAAAATGTAATTTTCAG-AAAGT
*
38569712 TTAGGGGTTAAAATGTAATTTTTAGA
63 TTTGGGGTTAAAATGTAA-TTTTAGA
* * * * * *
38569738 AAGTTTTAGGGTCAAAATATAATTTTGAAAAAGTTTAGGGGTTAAAATGTAAGTTTCAAAAAGTT
1 AAG-TTTAGGGTTAAAATGTAATTTT-AGAAAGTTTTGGGGTTAAAATGTAATTTTCAGAAAGTT
* * *
38569803 TTAGGGTTAAAATATAATTTTGGAA
64 TTGGGGTTAAAATGTAATTTTAG-A
*
38569828 AAGTTTAGGGTTAAAATGTAATTTTCAGAAAGTTTTGGGGTTAAAATATAATTTTCAGAAAGTTT
1 AAGTTTAGGGTTAAAATGTAATTTT-AGAAAGTTTTGGGGTTAAAATGTAATTTTCAGAAAGTTT
** *
38569893 TGGGGTCGAAATGTAATATCTAGA
65 TGGGGTTAAAATGTAAT-TTTAGA
38569917 CAA-TTTAGGG
1 -AAGTTTAGGG
38569927 ACTTACAGAG
Statistics
Matches: 156, Mismatches: 26, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
89 94 0.60
90 62 0.40
ACGTcount: A:0.37, C:0.03, G:0.23, T:0.37
Consensus pattern (87 bp):
AAGTTTAGGGTTAAAATGTAATTTTAGAAAGTTTTGGGGTTAAAATGTAATTTTCAGAAAGTTTT
GGGGTTAAAATGTAATTTTAGA
Found at i:38570895 original size:23 final size:23
Alignment explanation
Indices: 38570866--38570909 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
38570856 TATTTCCCTT
*
38570866 TTTTTTTTAAAAGC-TTGTTTTA
1 TTTTTTTTAAAACCTTTGTTTTA
38570888 TTTTTTTTAAAACCTTTGTTTT
1 TTTTTTTTAAAACCTTTGTTTT
38570910 TTGGTGTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.66
Consensus pattern (23 bp):
TTTTTTTTAAAACCTTTGTTTTA
Found at i:38571857 original size:11 final size:11
Alignment explanation
Indices: 38571834--38571892 Score: 56
Period size: 11 Copynumber: 5.6 Consensus size: 11
38571824 TTTTAATTTT
38571834 AATTTAAA-T-
1 AATTTAAATTA
38571843 AA-TTAAATTTA
1 AATTTAAA-TTA
*
38571854 AATTTAATTTA
1 AATTTAAATTA
38571865 AATTTAAA-TA
1 AATTTAAATTA
38571875 AATTTAAAATT-
1 AATTT-AAATTA
38571886 AATTTAA
1 AATTTAA
38571893 CTCCAAATTA
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
8 5 0.12
9 2 0.05
10 10 0.24
11 20 0.48
12 5 0.12
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
AATTTAAATTA
Found at i:38571860 original size:31 final size:33
Alignment explanation
Indices: 38571813--38571892 Score: 103
Period size: 31 Copynumber: 2.5 Consensus size: 33
38571803 TGTTTAGTAT
* * *
38571813 TTTAATTTTAATTTTAATTTTAATTTAAAT-AA
1 TTTAAATTTAAATTTAATTTAAATTTAAATAAA
38571845 -TTAAATTTAAATTTAATTTAAATTTAAATAAA
1 TTTAAATTTAAATTTAATTTAAATTTAAATAAA
*
38571877 TTTAAAATT-AATTTAA
1 TTTAAATTTAAATTTAA
38571893 CTCCAAATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
31 26 0.62
32 9 0.21
33 7 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (33 bp):
TTTAAATTTAAATTTAATTTAAATTTAAATAAA
Found at i:38571870 original size:6 final size:6
Alignment explanation
Indices: 38571811--38571892 Score: 73
Period size: 6 Copynumber: 14.0 Consensus size: 6
38571801 AGTGTTTAGT
* * * *
38571811 ATTTTA ATTTTA ATTTTA ATTTTA ATTTAA ATAATTAA ATTTAA ATTT-A
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA AT--TTAA ATTTAA ATTTAA
*
38571860 ATTTAA ATTTAA A--TAA ATTTAA AATT-A ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
38571893 CTCCAAATTA
Statistics
Matches: 67, Mismatches: 3, Indels: 12
0.82 0.04 0.15
Matches are distributed among these distances:
4 4 0.06
5 9 0.13
6 48 0.72
8 6 0.09
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
ATTTAA
Found at i:38571887 original size:27 final size:25
Alignment explanation
Indices: 38571832--38571892 Score: 86
Period size: 27 Copynumber: 2.4 Consensus size: 25
38571822 AATTTTAATT
* *
38571832 TTAATTTAAATAATTAAATTTAAAT
1 TTAATTTAAATAAATAAATTTAAAA
38571857 TTAATTTAAATTTAAATAAATTTAAAA
1 TTAATTTAAA--TAAATAAATTTAAAA
38571884 TTAATTTAA
1 TTAATTTAA
38571893 CTCCAAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 10 0.31
27 22 0.69
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
TTAATTTAAATAAATAAATTTAAAA
Found at i:38571889 original size:21 final size:21
Alignment explanation
Indices: 38571852--38571892 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
38571842 TAATTAAATT
*
38571852 TAAATTTAATTTAAATTTAAA
1 TAAATTTAAATTAAATTTAAA
38571873 TAAATTTAAAATT-AATTTAA
1 TAAATTT-AAATTAAATTTAA
38571893 CTCCAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TAAATTTAAATTAAATTTAAA
Found at i:38571900 original size:27 final size:27
Alignment explanation
Indices: 38571832--38571900 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
38571822 AATTTTAATT
* *
38571832 TTAATTTAAAT--AATTAAATTTAAAT
1 TTAATTTAAATCCAAATAAATTTAAAA
**
38571857 TTAATTTAAATTTAAATAAATTTAAAA
1 TTAATTTAAATCCAAATAAATTTAAAA
*
38571884 TTAATTTAACTCCAAAT
1 TTAATTTAAATCCAAAT
38571901 TAAAACCAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 11 0.30
27 26 0.70
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (27 bp):
TTAATTTAAATCCAAATAAATTTAAAA
Done.