Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 30 of 343
Found at i:10163821 original size:12 final size:12
Alignment explanation
Indices: 10163777--10163821 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
10163767 GTTAGTGGGG
*
10163777 TGGTTTAGTGAT
1 TGGTTTAGTGGT
10163789 TGGTTTAGTGG-
1 TGGTTTAGTGGT
10163800 -GGTTTAGTGGT
1 TGGTTTAGTGGT
10163811 TGGTTTAGTGG
1 TGGTTTAGTGG
10163822 GGCGTTACTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 10 0.33
12 20 0.67
ACGTcount: A:0.11, C:0.00, G:0.42, T:0.47
Consensus pattern (12 bp):
TGGTTTAGTGGT
Found at i:10177927 original size:23 final size:23
Alignment explanation
Indices: 10177894--10177953 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 23
10177884 AAAGTATAAT
*
10177894 GAAATTAAATAAATA-AAT-AAGTT
1 GAAATT-AATAAA-ACAATGAAGTC
10177917 GAAAATTAATAAAACAATGAAGTC
1 G-AAATTAATAAAACAATGAAGTC
10177941 GAAATTAATAAAA
1 GAAATTAATAAAA
10177954 ATGAACCAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 1 0.03
23 22 0.67
24 10 0.30
ACGTcount: A:0.62, C:0.03, G:0.10, T:0.25
Consensus pattern (23 bp):
GAAATTAATAAAACAATGAAGTC
Found at i:10177966 original size:19 final size:20
Alignment explanation
Indices: 10177919--10177974 Score: 60
Period size: 19 Copynumber: 2.7 Consensus size: 20
10177909 AATAAGTTGA
*
10177919 AAATTAATAAAACAATGAAGTCG
1 AAATTAAT-AAA-AATGAAG-CC
10177942 AAATTAATAAAAATGAA-CC
1 AAATTAATAAAAATGAAGCC
*
10177961 AAATTAATCAAAAT
1 AAATTAATAAAAAT
10177975 TTCAGCCTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 14 0.45
21 6 0.19
22 3 0.10
23 8 0.26
ACGTcount: A:0.61, C:0.09, G:0.07, T:0.23
Consensus pattern (20 bp):
AAATTAATAAAAATGAAGCC
Found at i:10180670 original size:11 final size:11
Alignment explanation
Indices: 10180654--10180678 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10180644 TTTCGTTTAG
10180654 TAAGCTAGTAT
1 TAAGCTAGTAT
10180665 TAAGCTAGTAT
1 TAAGCTAGTAT
10180676 TAA
1 TAA
10180679 AGTTTCGTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (11 bp):
TAAGCTAGTAT
Found at i:10181895 original size:53 final size:51
Alignment explanation
Indices: 10181786--10181921 Score: 159
Period size: 53 Copynumber: 2.6 Consensus size: 51
10181776 CCATAGCAAC
* * *
10181786 AAGTGATAAGTGATATCCGTATAAGACCATAGCTGGGCTATGGCTTCAGATTA
1 AAGTGATAAGTGATCT-CGTATAAGACCATAGCTGGGCTATGGATTAAGA-TA
10181839 AAGTGATACAAGTGATCT-GTATAAGACCATAGCTGGGCTATGGAATTAAAGA-A
1 AAGTGAT--AAGTGATCTCGTATAAGACCATAGCTGGGCTATGG-ATT-AAGATA
* *
10181892 AAGTGATAAGTGCTCTCGTGTAAGACCATA
1 AAGTGATAAGTGATCTCGTATAAGACCATA
10181922 TCCGGGATAT
Statistics
Matches: 73, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
51 8 0.11
52 12 0.16
53 40 0.55
54 2 0.03
55 11 0.15
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.26
Consensus pattern (51 bp):
AAGTGATAAGTGATCTCGTATAAGACCATAGCTGGGCTATGGATTAAGATA
Found at i:10184961 original size:30 final size:31
Alignment explanation
Indices: 10184898--10184961 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
10184888 ACTTAACAAG
*
10184898 CAAATGCCTCTAAAATAATAAAAAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAAATGAA
* *
10184929 CAAATGCCTTTAAAATAAT-AACAAAATGAA
1 CAAATGCCTCTAAAATAATAAAAAAAATGAA
10184959 CAA
1 CAA
10184962 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 12 0.40
31 18 0.60
ACGTcount: A:0.59, C:0.14, G:0.05, T:0.22
Consensus pattern (31 bp):
CAAATGCCTCTAAAATAATAAAAAAAATGAA
Found at i:10185766 original size:13 final size:13
Alignment explanation
Indices: 10185750--10185774 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10185740 AATATAATAT
10185750 ATATACACACAAC
1 ATATACACACAAC
10185763 ATATACACACAA
1 ATATACACACAA
10185775 TTATATAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.28, G:0.00, T:0.16
Consensus pattern (13 bp):
ATATACACACAAC
Found at i:10194816 original size:11 final size:11
Alignment explanation
Indices: 10194800--10194860 Score: 76
Period size: 11 Copynumber: 5.8 Consensus size: 11
10194790 TTCAAAAATT
10194800 ATTATTTTATA
1 ATTATTTTATA
10194811 ATTATTTTATA
1 ATTATTTTATA
10194822 ATTATTTTAT-
1 ATTATTTTATA
*
10194832 ATATATTTTTTA
1 AT-TATTTTATA
10194844 A-T-TTTTATA
1 ATTATTTTATA
10194853 ATT-TTTTA
1 ATTATTTTA
10194861 AAAATATGAA
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
9 7 0.16
10 9 0.20
11 28 0.62
12 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
ATTATTTTATA
Found at i:10197888 original size:26 final size:26
Alignment explanation
Indices: 10197849--10197898 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
10197839 AGCTCATTGG
* *
10197849 ATTTTTTTATGGTTAGGATTTTTTTA
1 ATTTTGTTAGGGTTAGGATTTTTTTA
*
10197875 ATTTTGTTAGGGTTAGGGTTTTTT
1 ATTTTGTTAGGGTTAGGATTTTTT
10197899 AAGAATTAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.16, C:0.00, G:0.22, T:0.62
Consensus pattern (26 bp):
ATTTTGTTAGGGTTAGGATTTTTTTA
Found at i:10202007 original size:21 final size:22
Alignment explanation
Indices: 10201981--10202044 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 22
10201971 CTATTTTGAG
*
10201981 CTTCTGTTTAACCCTTATGGGT
1 CTTCTGTTCAACCCTTATGGGT
* * *
10202003 C-TCTGTTCAGCTCTTATGAG-
1 CTTCTGTTCAACCCTTATGGGT
*
10202023 CTTCCGTTCAACCCTTATGGGT
1 CTTCTGTTCAACCCTTATGGGT
10202045 TTTCGTTAAG
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.14, C:0.27, G:0.19, T:0.41
Consensus pattern (22 bp):
CTTCTGTTCAACCCTTATGGGT
Found at i:10202051 original size:21 final size:20
Alignment explanation
Indices: 10201990--10202051 Score: 52
Period size: 21 Copynumber: 3.0 Consensus size: 20
10201980 GCTTCTGTTT
*
10201990 AACCCTTATGGGTCTCTGTTC
1 AACCCTTATGGGTTTC-GTTC
* * * *
10202011 AGCTCTTATGAGCTTCCGTTC
1 AACCCTTATG-GGTTTCGTTC
10202032 AACCCTTATGGGTTTTCGTT
1 AACCCTTATGGG-TTTCGTT
10202052 AAGCACTTAT
Statistics
Matches: 30, Mismatches: 9, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
20 1 0.03
21 26 0.87
22 3 0.10
ACGTcount: A:0.15, C:0.26, G:0.19, T:0.40
Consensus pattern (20 bp):
AACCCTTATGGGTTTCGTTC
Found at i:10202061 original size:42 final size:42
Alignment explanation
Indices: 10201977--10202074 Score: 126
Period size: 42 Copynumber: 2.3 Consensus size: 42
10201967 TTAGCTATTT
* * * *
10201977 TGAGCTTCTGTTTAACCCTTATGGGTCTCTGTTCAGCTCTTA
1 TGAGCTTCCGTTCAACCCTTATGGGTCTCTGTTAAGCACTTA
*
10202019 TGAGCTTCCGTTCAACCCTTATGGGT-TTTCGTTAAGCACTTA
1 TGAGCTTCCGTTCAACCCTTATGGGTCTCT-GTTAAGCACTTA
*
10202061 TGTGCTTCCGTTCA
1 TGAGCTTCCGTTCA
10202075 GCCTTCGGGC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
41 2 0.04
42 47 0.96
ACGTcount: A:0.15, C:0.24, G:0.19, T:0.41
Consensus pattern (42 bp):
TGAGCTTCCGTTCAACCCTTATGGGTCTCTGTTAAGCACTTA
Found at i:10202072 original size:21 final size:21
Alignment explanation
Indices: 10202015--10202074 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
10202005 CTGTTCAGCT
*
10202015 CTTATGAGCTTCCGTTCAACC
1 CTTATGAGCTTCCGTTCAACA
* * *
10202036 CTTATGGGTTTTCGTT-AAGCA
1 CTTATGAGCTTCCGTTCAA-CA
*
10202057 CTTATGTGCTTCCGTTCA
1 CTTATGAGCTTCCGTTCA
10202075 GCCTTCGGGC
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
20 2 0.07
21 27 0.90
22 1 0.03
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (21 bp):
CTTATGAGCTTCCGTTCAACA
Found at i:10228780 original size:14 final size:14
Alignment explanation
Indices: 10228761--10228787 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10228751 GAAAGAAAAA
10228761 TTTGGGAAAATTCT
1 TTTGGGAAAATTCT
10228775 TTTGGGAAAATTC
1 TTTGGGAAAATTC
10228788 GATTGATTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (14 bp):
TTTGGGAAAATTCT
Found at i:10229919 original size:40 final size:39
Alignment explanation
Indices: 10229890--10229968 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 39
10229880 CATTTAAGGT
10229890 AAGCATACACAATACATCCAAAGCAATTTAGCCAATAGCA
1 AAGCATACACAATACATCCAAAGCAATTTA-CCAATAGCA
*
10229930 AAGCTTACACAATACATCCAAAGCAATTTAGCCAATAGC
1 AAGCATACACAATACATCCAAAGCAATTTA-CCAATAGC
10229969 CTAAACACAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.46, C:0.25, G:0.10, T:0.19
Consensus pattern (39 bp):
AAGCATACACAATACATCCAAAGCAATTTACCAATAGCA
Found at i:10230348 original size:25 final size:25
Alignment explanation
Indices: 10230273--10230348 Score: 73
Period size: 25 Copynumber: 3.0 Consensus size: 25
10230263 CTCATGCATA
**
10230273 CATGTAAACGGGAAGCTTTTTCGAGC
1 CATGT-AACGGGAAGCTCATTCGAGC
** * *
10230299 CATAAAACGGGAAGGTCACGT-GAGC
1 CATGTAACGGGAAGCTCA-TTCGAGC
10230324 CATGTAACGGGAAGCTCATTCGAGC
1 CATGTAACGGGAAGCTCATTCGAGC
10230349 TGTATAATGA
Statistics
Matches: 38, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
24 1 0.03
25 33 0.87
26 4 0.11
ACGTcount: A:0.30, C:0.21, G:0.29, T:0.20
Consensus pattern (25 bp):
CATGTAACGGGAAGCTCATTCGAGC
Found at i:10232106 original size:96 final size:98
Alignment explanation
Indices: 10231938--10232218 Score: 359
Period size: 96 Copynumber: 2.9 Consensus size: 98
10231928 GGTTATGTGT
* *
10231938 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGTTATGAGAGCTAGTGTATGACCA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGTTATGAGAGCCAGTGTAAGACCA
* * ** *
10232003 TGACTGGGACATGGCATCGGCTTC-A-ATATGC
66 TGTCTGGGACATGACATCGGCACCGATATATGA
* * * * *
10232034 GAGCCAGTGTAAGACGATGTTTGAAACATGGCATTGACATTGTTATGTGAGCCAGTGTAAGACCG
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGTTATGAGAGCCAGTGTAAGACCA
* *
10232099 TGTCTGGGATATGACATCGGCACCGATGTATGA
66 TGTCTGGGACATGACATCGGCACCGATATATGA
* * * *
10232132 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATATATGAGAGCCAGTGTAAGAC
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTG-T-TATGAGAGCCAGTGTAAGAC
*
10232197 CATGTCCGGGACATGACATCGG
64 CATGTCTGGGACATGACATCGG
10232219 AATTTTACCC
Statistics
Matches: 156, Mismatches: 25, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
96 77 0.49
97 1 0.01
98 39 0.25
99 1 0.01
100 38 0.24
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (98 bp):
GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGTTATGAGAGCCAGTGTAAGACCA
TGTCTGGGACATGACATCGGCACCGATATATGA
Found at i:10232157 original size:50 final size:49
Alignment explanation
Indices: 10231938--10232218 Score: 307
Period size: 48 Copynumber: 5.8 Consensus size: 49
10231928 GGTTATGTGT
* * *
10231938 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTG-TTATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATTATGA
* * * * * *
10231986 GAGCTAGTGTATGACCATGACTGGGACATGGCATCGGC-TTCAATATGC
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATTATGA
* * ** * * *
10232034 GAGCCAGTGTAAGACGATGTTTGAAACATGGCATTGACATTG-TTATGT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATTATGA
* * * **
10232082 GAGCCAGTGTAAGACCGTGTCTGGGATATGACATCGGCACCGATGTATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAT-TATGA
*
10232132 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATATATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAT-TATGA
* *
10232182 GAGCCAGTGTAAGACCATGTCCGGGACATGACATCGG
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG
10232219 AATTTTACCC
Statistics
Matches: 189, Mismatches: 40, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
47 2 0.01
48 100 0.53
49 3 0.02
50 84 0.44
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (49 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATTATGA
Found at i:10234195 original size:18 final size:18
Alignment explanation
Indices: 10234164--10234210 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
10234154 GTCAAGTAAT
* *
10234164 GCCTCGTACCCTGTCCTG
1 GCCTCGGACTCTGTCCTG
*
10234182 GTCTCGGACTCTGTCCTG
1 GCCTCGGACTCTGTCCTG
10234200 GCCTCGGACTC
1 GCCTCGGACTC
10234211 GGGCAAGGGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.06, C:0.40, G:0.26, T:0.28
Consensus pattern (18 bp):
GCCTCGGACTCTGTCCTG
Found at i:10234359 original size:24 final size:23
Alignment explanation
Indices: 10234326--10234409 Score: 62
Period size: 24 Copynumber: 3.5 Consensus size: 23
10234316 CACAACCAAT
*
10234326 CGGGATGCTCTGAAGAGCTATCAA
1 CGGGAAGCTCTGAAGAGCTAT-AA
** *
10234350 CGGGAAGCTCACAAGAACCATATAA
1 CGGGAAGCTCTGAAG-AGC-TATAA
10234375 CGGGAAGCTCCTG-AGAGCTAATAA
1 CGGGAAGCT-CTGAAGAGCT-ATAA
* *
10234399 TGGGACGCTCT
1 CGGGAAGCTCT
10234410 TTTGAGCTGT
Statistics
Matches: 47, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
23 3 0.06
24 25 0.53
25 15 0.32
26 4 0.09
ACGTcount: A:0.32, C:0.23, G:0.27, T:0.18
Consensus pattern (23 bp):
CGGGAAGCTCTGAAGAGCTATAA
Found at i:10238803 original size:15 final size:15
Alignment explanation
Indices: 10238783--10238812 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10238773 AAGTAATACC
10238783 GAACCTAACCCAAGG
1 GAACCTAACCCAAGG
*
10238798 GAACCTAATCCAAGG
1 GAACCTAACCCAAGG
10238813 TAACTGTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.30, G:0.20, T:0.10
Consensus pattern (15 bp):
GAACCTAACCCAAGG
Found at i:10270819 original size:22 final size:22
Alignment explanation
Indices: 10270793--10270848 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
10270783 TTAGCATGTT
10270793 AGTGCTCTCTG-ATTAGCACATC
1 AGTGCTCTCTGTA-TAGCACATC
* * *
10270815 TGTGCTCTTTGTATAGCACTTC
1 AGTGCTCTCTGTATAGCACATC
10270837 AGTGCTCTCTGT
1 AGTGCTCTCTGT
10270849 TCATTAGTGC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
22 27 0.96
23 1 0.04
ACGTcount: A:0.16, C:0.25, G:0.20, T:0.39
Consensus pattern (22 bp):
AGTGCTCTCTGTATAGCACATC
Found at i:10273540 original size:13 final size:13
Alignment explanation
Indices: 10273522--10273548 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10273512 CTATCTCCTT
10273522 TAGGTATTCTATA
1 TAGGTATTCTATA
10273535 TAGGTATTCTATA
1 TAGGTATTCTATA
10273548 T
1 T
10273549 GTTCTTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (13 bp):
TAGGTATTCTATA
Found at i:10277270 original size:40 final size:40
Alignment explanation
Indices: 10277215--10277398 Score: 244
Period size: 40 Copynumber: 4.5 Consensus size: 40
10277205 TATTCGGATG
10277215 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
10277255 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* ** * *
10277298 ATACCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
10277338 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
10277378 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
10277399 ATACTTGGGT
Statistics
Matches: 125, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
39 13 0.10
40 76 0.61
41 1 0.01
43 35 0.28
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:10277358 original size:83 final size:80
Alignment explanation
Indices: 10277219--10277398 Score: 263
Period size: 83 Copynumber: 2.2 Consensus size: 80
10277209 CGGATGATAT
** * *
10277219 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTCATGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTG
10277284 TGCGAGTAGTTGCTATAC
66 TGC--G-AGTTGCTATAC
*
10277302 CCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTCATGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTG
*
10277367 TGCGAGTTGCTATAT
66 TGCGAGTTGCTATAC
*
10277382 CC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAG
10277399 ATACTTGGGT
Statistics
Matches: 90, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
79 14 0.16
80 12 0.13
81 1 0.01
83 63 0.70
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCATGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTG
TGCGAGTTGCTATAC
Found at i:10278994 original size:5 final size:5
Alignment explanation
Indices: 10278975--10279017 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
10278965 ATAAATAAGA
*
10278975 ATATT AT-TAT ATATT ATATT ATACT ATATT ATA-T ATATT ATAT
1 ATATT ATAT-T ATATT ATATT ATATT ATATT ATATT ATATT ATAT
10279018 AAATAGGTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
4 5 0.15
5 27 0.82
6 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (5 bp):
ATATT
Found at i:10280390 original size:10 final size:10
Alignment explanation
Indices: 10280377--10280420 Score: 63
Period size: 10 Copynumber: 4.3 Consensus size: 10
10280367 ATAAATAAGA
10280377 ATATTATTAT
1 ATATTATTAT
10280387 ATATTATTAT
1 ATATTATTAT
10280397 ATATTA-TAT
1 ATATTATTAT
10280406 ATTATATATTAT
1 A-TAT-TATTAT
10280418 ATA
1 ATA
10280421 AATAGGTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
9 4 0.13
10 19 0.61
11 4 0.13
12 4 0.13
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
ATATTATTAT
Found at i:10280393 original size:7 final size:7
Alignment explanation
Indices: 10280377--10280420 Score: 65
Period size: 7 Copynumber: 6.4 Consensus size: 7
10280367 ATAAATAAGA
10280377 ATATTAT
1 ATATTAT
10280384 -TA-TAT
1 ATATTAT
10280389 ATTATTAT
1 A-TATTAT
10280397 ATATTAT
1 ATATTAT
10280404 ATATTAT
1 ATATTAT
10280411 ATATTAT
1 ATATTAT
10280418 ATA
1 ATA
10280421 AATAGGTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 3 0.09
6 2 0.06
7 25 0.74
8 4 0.12
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
ATATTAT
Found at i:10280949 original size:25 final size:25
Alignment explanation
Indices: 10280921--10280987 Score: 116
Period size: 25 Copynumber: 2.7 Consensus size: 25
10280911 TTAAGGAACC
* *
10280921 TTAGCGCTCTCTGATTATTAGCATG
1 TTAGTGCTCTCTGATTATTAGCACG
10280946 TTAGTGCTCTCTGATTATTAGCACG
1 TTAGTGCTCTCTGATTATTAGCACG
10280971 TTAGTGCTCTCTGATTA
1 TTAGTGCTCTCTGATTA
10280988 GCACATCTGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (25 bp):
TTAGTGCTCTCTGATTATTAGCACG
Found at i:10280990 original size:22 final size:23
Alignment explanation
Indices: 10280921--10281012 Score: 82
Period size: 25 Copynumber: 3.9 Consensus size: 23
10280911 TTAAGGAACC
* *
10280921 TTAGCGCTCTCTGATTATTAGCATG
1 TTAGTGCTCTCTG--TATTAGCACG
10280946 TTAGTGCTCTCTGATTATTAGCACG
1 TTAGTGCTCTCTG--TATTAGCACG
*
10280971 TTAGTGCTCTCTG-ATTAGCACA
1 TTAGTGCTCTCTGTATTAGCACG
*
10280993 TCT-GTGCTCTATGTA-TAGCA
1 T-TAGTGCTCTCTGTATTAGCA
10281013 TTTCAGTGTT
Statistics
Matches: 61, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
22 23 0.38
23 2 0.03
25 36 0.59
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.39
Consensus pattern (23 bp):
TTAGTGCTCTCTGTATTAGCACG
Found at i:10288144 original size:31 final size:31
Alignment explanation
Indices: 10288101--10288161 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
10288091 AGTAAGACAA
10288101 ATTGAAATGTTGAATATCTAGTTTTTAGGCG
1 ATTGAAATGTTGAATATCTAGTTTTTAGGCG
* *
10288132 ATTGCAATGTTGAATATCTCGTTTTTAGGC
1 ATTGAAATGTTGAATATCTAGTTTTTAGGC
10288162 CTTGGAGTGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.26, C:0.10, G:0.21, T:0.43
Consensus pattern (31 bp):
ATTGAAATGTTGAATATCTAGTTTTTAGGCG
Found at i:10309708 original size:18 final size:18
Alignment explanation
Indices: 10309685--10309720 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
10309675 TAATGAAAAT
10309685 TAACACTACGACTTCTAA
1 TAACACTACGACTTCTAA
10309703 TAACACTACGACTTCTAA
1 TAACACTACGACTTCTAA
10309721 CTTTATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.28, G:0.06, T:0.28
Consensus pattern (18 bp):
TAACACTACGACTTCTAA
Found at i:10310337 original size:16 final size:17
Alignment explanation
Indices: 10310302--10310336 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
10310292 GAGGCAGGGG
*
10310302 TTATAATAGCCTGTTTT
1 TTATAACAGCCTGTTTT
10310319 TTATAACAGCCTGTTTT
1 TTATAACAGCCTGTTTT
10310336 T
1 T
10310337 AATAGTCTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.23, C:0.14, G:0.11, T:0.51
Consensus pattern (17 bp):
TTATAACAGCCTGTTTT
Found at i:10317667 original size:20 final size:20
Alignment explanation
Indices: 10317639--10317696 Score: 79
Period size: 20 Copynumber: 3.1 Consensus size: 20
10317629 AAAAAAAAGA
*
10317639 AAAAGAGTAAATTATGTGTT
1 AAAATAGTAAATTATGTGTT
10317659 AAAATAGTAAATTA----TT
1 AAAATAGTAAATTATGTGTT
10317675 AAAATAGTAAATTATGTGTT
1 AAAATAGTAAATTATGTGTT
10317695 AA
1 AA
10317697 TATGATATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
16 16 0.48
20 17 0.52
ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (20 bp):
AAAATAGTAAATTATGTGTT
Found at i:10317678 original size:16 final size:16
Alignment explanation
Indices: 10317657--10317689 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
10317647 AAATTATGTG
10317657 TTAAAATAGTAAATTA
1 TTAAAATAGTAAATTA
10317673 TTAAAATAGTAAATTA
1 TTAAAATAGTAAATTA
10317689 T
1 T
10317690 GTGTTAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (16 bp):
TTAAAATAGTAAATTA
Found at i:10317684 original size:138 final size:137
Alignment explanation
Indices: 10317535--10317783 Score: 428
Period size: 138 Copynumber: 1.8 Consensus size: 137
10317525 ATTAAAAGGG
*
10317535 TTAAAATAGTAAATTATGTGTTAATATGATATTAAATAAAATAAAACATAAAAACATGGTTACGT
1 TTAAAATAGTAAATTATGTGTTAATATGATATTAAATAAAATAAAACATAAAAACATGGTCACGT
* *
10317600 TCATGTTTGTTA-CTGAAAATTGAAAGAAGAAAAAAAAGAAAAAGAGTAAATTATGTGTTAAAAT
66 TCATGTTTGTTACCAG-AAATTGAAAGAA-AAAAAAAACAAAAAGAGTAAATTATGTGTTAAAAT
10317664 AGTAAATTA
129 AGTAAATTA
*
10317673 TTAAAATAGTAAATTATGTGTTAATATGATATTAAATAAAATAAAACATAAAAACATGGTCATGT
1 TTAAAATAGTAAATTATGTGTTAATATGATATTAAATAAAATAAAACATAAAAACATGGTCACGT
*
10317738 TCATGTTTGTTACCAGAAATTGAAAGAAAAAGAAAACAAAAAGAGT
66 TCATGTTTGTTACCAGAAATTGAAAGAAAAAAAAAACAAAAAGAGT
10317784 TCCTAGGGTT
Statistics
Matches: 105, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
137 16 0.15
138 87 0.83
139 2 0.02
ACGTcount: A:0.51, C:0.05, G:0.14, T:0.30
Consensus pattern (137 bp):
TTAAAATAGTAAATTATGTGTTAATATGATATTAAATAAAATAAAACATAAAAACATGGTCACGT
TCATGTTTGTTACCAGAAATTGAAAGAAAAAAAAAACAAAAAGAGTAAATTATGTGTTAAAATAG
TAAATTA
Found at i:10329615 original size:17 final size:17
Alignment explanation
Indices: 10329593--10329625 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
10329583 TTTAGGATAA
10329593 ATTTTGATTGATTTATG
1 ATTTTGATTGATTTATG
10329610 ATTTTGATTGATTTAT
1 ATTTTGATTGATTTAT
10329626 CTTGAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.15, T:0.61
Consensus pattern (17 bp):
ATTTTGATTGATTTATG
Found at i:10350098 original size:67 final size:67
Alignment explanation
Indices: 10349990--10350120 Score: 235
Period size: 67 Copynumber: 2.0 Consensus size: 67
10349980 GACTCATCCT
* *
10349990 TCCATTGTCGTGAGCTTATGAGCTCAATCCTACTAATAATGCAACAAGTACTATAGAATCAGTTC
1 TCCATTGTCCTGAGCTTATGAGCTCAACCCTACTAATAATGCAACAAGTACTATAGAATCAGTTC
10350055 CC
66 CC
*
10350057 TCCATTGTCCTGAGCTTATGAGCTCAACCCTATTAATAATGCAACAAGTACTATAGAATCAGTT
1 TCCATTGTCCTGAGCTTATGAGCTCAACCCTACTAATAATGCAACAAGTACTATAGAATCAGTT
10350121 GAAAATTTCT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 61 1.00
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.31
Consensus pattern (67 bp):
TCCATTGTCCTGAGCTTATGAGCTCAACCCTACTAATAATGCAACAAGTACTATAGAATCAGTTC
CC
Found at i:10357543 original size:28 final size:28
Alignment explanation
Indices: 10357512--10357567 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
10357502 TCAAAATATC
10357512 ATTATTGTATCAATTAAGTCCTTTAATG
1 ATTATTGTATCAATTAAGTCCTTTAATG
10357540 ATTATTGTATCAATTAAGTCCTTTAATG
1 ATTATTGTATCAATTAAGTCCTTTAATG
10357568 CTTAGCAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (28 bp):
ATTATTGTATCAATTAAGTCCTTTAATG
Found at i:10358343 original size:2 final size:2
Alignment explanation
Indices: 10358336--10358360 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10358326 TTTTAATAAT
10358336 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
10358361 TTGGATGCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10361227 original size:33 final size:33
Alignment explanation
Indices: 10361163--10361228 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
10361153 ATGGAGGACC
* **
10361163 TAGTCATGTGAAATGCAAAAGCTAGGTAACCAG
1 TAGTCATGCGAAATGCAAAAGCTAGCCAACCAG
* * *
10361196 TAGTGATGCGAAATGTAAAATCTAGCCAACCAG
1 TAGTCATGCGAAATGCAAAAGCTAGCCAACCAG
10361229 CCAGTCAGAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.39, C:0.17, G:0.23, T:0.21
Consensus pattern (33 bp):
TAGTCATGCGAAATGCAAAAGCTAGCCAACCAG
Found at i:10362904 original size:33 final size:33
Alignment explanation
Indices: 10362835--10362932 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
10362825 CTATACCCAT
* * *
10362835 CTATGCCGAATGCATAGATACATACACTTATTTTCAC
1 CTATGCCGAATGCAT--ACACATA-A-ATATATTCAC
10362872 CTATGCCGAATGCATACACATAAATATATTCAC
1 CTATGCCGAATGCATACACATAAATATATTCAC
* *
10362905 CTATGCCGAATGCA-ACATATATATATAT
1 CTATGCCGAATGCATACACATAAATATAT
10362933 ACATATCTAT
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.21
33 22 0.39
34 1 0.02
35 6 0.11
37 15 0.27
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (33 bp):
CTATGCCGAATGCATACACATAAATATATTCAC
Found at i:10363192 original size:41 final size:41
Alignment explanation
Indices: 10363147--10363302 Score: 226
Period size: 41 Copynumber: 3.8 Consensus size: 41
10363137 ACCGGCTCTT
*
10363147 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
10363188 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
*
10363229 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGTATTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
10363270 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
10363303 TAACGATAAA
Statistics
Matches: 106, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
39 2 0.02
40 2 0.02
41 97 0.92
42 2 0.02
43 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:10363805 original size:21 final size:23
Alignment explanation
Indices: 10363781--10363828 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
10363771 ATAATATATA
10363781 TATTTC-AC-TCATACTTTTAAT
1 TATTTCAACATCATACTTTTAAT
*
10363802 TATTTCAACTATCATATTTTTAAT
1 TATTTCAAC-ATCATACTTTTAAT
10363826 TAT
1 TAT
10363829 ATTTCATCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 6 0.26
22 2 0.09
24 15 0.65
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (23 bp):
TATTTCAACATCATACTTTTAAT
Found at i:10370540 original size:33 final size:33
Alignment explanation
Indices: 10370471--10370568 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
10370461 CTATACCCAT
* * *
10370471 CTATGCCGAATGCATAGATACATACACTTATTTTCAC
1 CTATGCCGAATGCAT--ACACATA-A-ATATATTCAC
10370508 CTATGCCGAATGCATACACATAAATATATTCAC
1 CTATGCCGAATGCATACACATAAATATATTCAC
* *
10370541 CTATGCCGAATGCA-ACATATATATATAT
1 CTATGCCGAATGCATACACATAAATATAT
10370569 ACATATCTAT
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.21
33 22 0.39
34 1 0.02
35 6 0.11
37 15 0.27
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (33 bp):
CTATGCCGAATGCATACACATAAATATATTCAC
Found at i:10370828 original size:41 final size:41
Alignment explanation
Indices: 10370783--10370938 Score: 235
Period size: 41 Copynumber: 3.8 Consensus size: 41
10370773 ACCGGCTCTT
*
10370783 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
10370824 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
10370865 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
10370906 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
10370939 TAACGATAAA
Statistics
Matches: 107, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
39 2 0.02
40 2 0.02
41 98 0.92
42 2 0.02
43 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:10371441 original size:21 final size:22
Alignment explanation
Indices: 10371417--10371469 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 22
10371407 ATAATATATA
10371417 TATTTCAC-TCATACTTTTAAT
1 TATTTCACATCATACTTTTAAT
*
10371438 TATTTCAACTATCATATTTTTAAT
1 TATTTC-AC-ATCATACTTTTAAT
10371462 TATATTCA
1 TAT-TTCA
10371470 TCCAAAAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 6 0.22
22 2 0.07
24 16 0.59
25 3 0.11
ACGTcount: A:0.32, C:0.15, G:0.00, T:0.53
Consensus pattern (22 bp):
TATTTCACATCATACTTTTAAT
Found at i:10374245 original size:50 final size:50
Alignment explanation
Indices: 10374170--10374264 Score: 190
Period size: 50 Copynumber: 1.9 Consensus size: 50
10374160 AAGAGAGGGA
10374170 ATCGAACTTTGTTAGACATGGTGTAATAGATGTTAAGTTATTCACGTGGC
1 ATCGAACTTTGTTAGACATGGTGTAATAGATGTTAAGTTATTCACGTGGC
10374220 ATCGAACTTTGTTAGACATGGTGTAATAGATGTTAAGTTATTCAC
1 ATCGAACTTTGTTAGACATGGTGTAATAGATGTTAAGTTATTCAC
10374265 AGTTTCTAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.37
Consensus pattern (50 bp):
ATCGAACTTTGTTAGACATGGTGTAATAGATGTTAAGTTATTCACGTGGC
Found at i:10376419 original size:18 final size:19
Alignment explanation
Indices: 10376396--10376441 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
10376386 ATATATTTTT
*
10376396 ATTATATTAAAAT-ATTAA
1 ATTATATTAAAATAAATAA
10376414 ATTATA-TAAAATAAATAA
1 ATTATATTAAAATAAATAA
*
10376432 ATTAAATTAA
1 ATTATATTAA
10376442 GTCAAGACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 6 0.25
18 15 0.62
19 3 0.12
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
ATTATATTAAAATAAATAA
Found at i:10377377 original size:15 final size:16
Alignment explanation
Indices: 10377357--10377389 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10377347 AGAAAGTGGA
*
10377357 AATTGT-ATTAACTTG
1 AATTGTGATTAAATTG
10377372 AATTGTGATTAAATTG
1 AATTGTGATTAAATTG
10377388 AA
1 AA
10377390 AGGTGTGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.42
Consensus pattern (16 bp):
AATTGTGATTAAATTG
Found at i:10377637 original size:27 final size:28
Alignment explanation
Indices: 10377574--10377643 Score: 124
Period size: 28 Copynumber: 2.5 Consensus size: 28
10377564 TTTAATGTCT
10377574 TTCTGGTGTGTTTGGGAGGATTATTTTA
1 TTCTGGTGTGTTTGGGAGGATTATTTTA
*
10377602 TTCTAGTGTGTTTGGGAGGATTA-TTTA
1 TTCTGGTGTGTTTGGGAGGATTATTTTA
10377629 TTCTGGTGTGTTTGG
1 TTCTGGTGTGTTTGG
10377644 TTGAAATCCG
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 18 0.45
28 22 0.55
ACGTcount: A:0.13, C:0.04, G:0.33, T:0.50
Consensus pattern (28 bp):
TTCTGGTGTGTTTGGGAGGATTATTTTA
Found at i:10380386 original size:14 final size:15
Alignment explanation
Indices: 10380360--10380393 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
10380350 TAAAGTTTTC
*
10380360 TAATTATTAATTAAT
1 TAATTATTAATTAAA
10380375 TAATTA-TAATTAAA
1 TAATTATTAATTAAA
10380389 TAATT
1 TAATT
10380394 GAAGTTTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATTAATTAAA
Found at i:10387838 original size:24 final size:24
Alignment explanation
Indices: 10387811--10387865 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
10387801 AGTGCTTAGG
10387811 TGGCTCTAAAGATGCAAAGGACAA
1 TGGCTCTAAAGATGCAAAGGACAA
10387835 TGGCTCTAAAGATGCAAAGGACAA
1 TGGCTCTAAAGATGCAAAGGACAA
*
10387859 TGACTCT
1 TGGCTCT
10387866 TACAGTTTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (24 bp):
TGGCTCTAAAGATGCAAAGGACAA
Found at i:10405634 original size:29 final size:30
Alignment explanation
Indices: 10405600--10405676 Score: 95
Period size: 29 Copynumber: 2.6 Consensus size: 30
10405590 AAAAATATAG
10405600 AAAAAATTATAAAAATTTAT-AAAGTCGTA
1 AAAAAATTATAAAAATTTATAAAAGTCGTA
* * *
10405629 AGAAAATTATAAAGAA-ATATAAAATTCGTA
1 AAAAAATTATAAA-AATTTATAAAAGTCGTA
10405659 AAAAGAATTATAAAAATT
1 AAAA-AATTATAAAAATT
10405677 ATCGTATCAA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
29 15 0.38
30 15 0.38
31 9 0.23
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.29
Consensus pattern (30 bp):
AAAAAATTATAAAAATTTATAAAAGTCGTA
Found at i:10409212 original size:6 final size:6
Alignment explanation
Indices: 10409202--10409394 Score: 75
Period size: 6 Copynumber: 32.2 Consensus size: 6
10409192 CTTCAACTCC
* * * * * *
10409202 CTCCTT TTCCTT CTCC-- -TCCTT TTCCTC CTCTTT CTTCTC CTCCTT
1 CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT
* * * *
10409247 -TCC-T -TCCTC CTCCTT CTCCTT C-CCCT CTTCCTC CTCTTT CTCCTCCT
1 CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT C-TCCTT CTCCTT CTCCT--T
* * * *
10409294 CCTCCTT CTCCTC CTCCTC CT-CTT -T-CTT CTTCTT CTCCTT CTCCTC
1 -CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT
*
10409340 CTCC-T CTTCCTT CTTCTTCTT CTCCTT CTCTATCTT CTCCTC CTCCTT
1 CTCCTT C-TCCTT C-TC--CTT CTCCTT CTC---CTT CTCCTT CTCCTT
10409388 CTCCTT C
1 CTCCTT C
10409395 AACATGGTGG
Statistics
Matches: 142, Mismatches: 26, Indels: 38
0.69 0.13 0.18
Matches are distributed among these distances:
3 3 0.02
4 8 0.06
5 11 0.08
6 93 0.65
7 9 0.06
8 3 0.02
9 15 0.11
ACGTcount: A:0.01, C:0.50, G:0.00, T:0.49
Consensus pattern (6 bp):
CTCCTT
Found at i:10409230 original size:3 final size:3
Alignment explanation
Indices: 10409209--10409350 Score: 81
Period size: 3 Copynumber: 47.3 Consensus size: 3
10409199 TCCCTCCTTT
* ** * * * *
10409209 TCC TTC TCC TCC TTT TCC TCC TCT TTC TTC TCC TCC T-T TCC TTCC
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC -TCC
* * * *
10409254 TCC TCC TTC TCC TTCC -CC TCT TCC TCC TCT TTC TCC TCC TCC TCC
1 TCC TCC TCC TCC -TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC
* * * * * * * *
10409299 TTC TCC TCC TCC TCC TCT TTC TTC TTC TTC TCC TTC TCC TCC TCC TCT
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC
10409347 TCC T
1 TCC T
10409351 TCTTCTTCTT
Statistics
Matches: 105, Mismatches: 30, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
2 3 0.03
3 96 0.91
4 6 0.06
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (3 bp):
TCC
Found at i:10409299 original size:33 final size:33
Alignment explanation
Indices: 10409256--10409394 Score: 77
Period size: 33 Copynumber: 4.2 Consensus size: 33
10409246 TTCCTTCCTC
* *
10409256 CTCCTTCTCCT--TCC-CCTCTTCCTCCTCTTT
1 CTCCTTCTCCTCCTCCTCCTCTTTCTCCTCCTT
* * * * *
10409286 CTCCTCCTCCTCCTTCTCCTCCTCCTCCTCTTT
1 CTCCTTCTCCTCCTCCTCCTCTTTCTCCTCCTT
* * * * * *
10409319 CTTCTTCTTCTCCTTCTCCTCCTCCTCTTCCTT
1 CTCCTTCTCCTCCTCCTCCTCTTTCTCCTCCTT
* * * *
10409352 CTTCTTCTTCTCCTTCTCTATCTTCTCCTCCTCCTT
1 CTCCTTCTCCTCCTCCTC-CTCTT-T-CTCCTCCTT
10409388 CTCCTTC
1 CTCCTTC
10409395 AACATGGTGG
Statistics
Matches: 90, Mismatches: 13, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
30 10 0.11
32 2 0.02
33 61 0.68
34 3 0.03
36 14 0.16
ACGTcount: A:0.01, C:0.51, G:0.00, T:0.48
Consensus pattern (33 bp):
CTCCTTCTCCTCCTCCTCCTCTTTCTCCTCCTT
Found at i:10409313 original size:24 final size:24
Alignment explanation
Indices: 10409209--10409392 Score: 92
Period size: 24 Copynumber: 7.8 Consensus size: 24
10409199 TCCCTCCTTT
* * *
10409209 TCCTTCTCCTCCTTTTCCTCCTCT
1 TCCTCCTCCTCCTTCTCCTCCTCC
* *
10409233 TTCTTCTCCTCCTT-TCCT--TCC
1 TCCTCCTCCTCCTTCTCCTCCTCC
* * *
10409254 TCCTCCTTCTCCTTCCCCTCTTCC
1 TCCTCCTCCTCCTTCTCCTCCTCC
* *
10409278 TCCTCTTTCTCCTCCTCCTCCTTCTCC
1 TCCTC---CTCCTCCTTCTCCTCCTCC
* * * *
10409305 TCCTCCTCCTCTTTCTTCTTCTTC
1 TCCTCCTCCTCCTTCTCCTCCTCC
* * * *
10409329 TCCTTCTCCTCCTCCTCTTCCTTC
1 TCCTCCTCCTCCTTCTCCTCCTCC
* * * *
10409353 TTCTTCTTCTCCTTCT-CT-AT-C
1 TCCTCCTCCTCCTTCTCCTCCTCC
*
10409374 TTCTCCTCCTCCTTCTCCT
1 TCCTCCTCCTCCTTCTCCT
10409393 TCAACATGGT
Statistics
Matches: 125, Mismatches: 28, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
21 28 0.22
22 6 0.05
23 5 0.04
24 67 0.54
27 19 0.15
ACGTcount: A:0.01, C:0.51, G:0.00, T:0.49
Consensus pattern (24 bp):
TCCTCCTCCTCCTTCTCCTCCTCC
Found at i:10409387 original size:21 final size:20
Alignment explanation
Indices: 10409251--10409390 Score: 94
Period size: 18 Copynumber: 7.7 Consensus size: 20
10409241 CTCCTTTCCT
10409251 TCCTCCTCCTTCTC--CTTC
1 TCCTCCTCCTTCTCTTCTTC
* * *
10409269 CCCTCTTCCTCCTC-T-TTC
1 TCCTCCTCCTTCTCTTCTTC
*
10409287 TCCTCCTCC-TC-CTTCTCC
1 TCCTCCTCCTTCTCTTCTTC
10409305 TCCTCCTCC-TCT-TTCTTC
1 TCCTCCTCCTTCTCTTCTTC
* *
10409323 T--T-CTTC-TC-CTTCTCC
1 TCCTCCTCCTTCTCTTCTTC
10409338 TCCTCCT-CTTC-CTTCTTC
1 TCCTCCTCCTTCTCTTCTTC
* *
10409356 TTCTTCTCCTTCTCTATCTTC
1 TCCTCCTCCTTCTCT-TCTTC
10409377 TCCTCCTCCTTCTC
1 TCCTCCTCCTTCTC
10409391 CTTCAACATG
Statistics
Matches: 95, Mismatches: 15, Indels: 21
0.73 0.11 0.16
Matches are distributed among these distances:
15 11 0.12
16 2 0.02
17 4 0.04
18 55 0.58
19 4 0.04
20 2 0.02
21 17 0.18
ACGTcount: A:0.01, C:0.51, G:0.00, T:0.48
Consensus pattern (20 bp):
TCCTCCTCCTTCTCTTCTTC
Found at i:10412378 original size:12 final size:12
Alignment explanation
Indices: 10412367--10412409 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
10412357 GAAAAAAATA
10412367 AATAATAA-AAT
1 AATAATAACAAT
10412378 AAATAATAACAAT
1 -AATAATAACAAT
*
10412391 GATAATAACAAT
1 AATAATAACAAT
10412403 AATAATA
1 AATAATA
10412410 GTGACAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 25 0.89
13 3 0.11
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.26
Consensus pattern (12 bp):
AATAATAACAAT
Found at i:10412397 original size:15 final size:12
Alignment explanation
Indices: 10412361--10412409 Score: 57
Period size: 12 Copynumber: 4.1 Consensus size: 12
10412351 ATCAAAGAAA
10412361 AAAATAAATAAT
1 AAAATAAATAAT
10412373 AAAATAAATAAT
1 AAAATAAATAAT
*
10412385 AACAAT-GATAAT
1 AA-AATAAATAAT
10412397 AACAAT-AATAAT
1 AA-AATAAATAAT
10412409 A
1 A
10412410 GTGACAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
12 31 0.91
13 3 0.09
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.24
Consensus pattern (12 bp):
AAAATAAATAAT
Found at i:10416834 original size:23 final size:23
Alignment explanation
Indices: 10416791--10416834 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
10416781 AGTATTAAAT
**
10416791 AATTTTCTAGAATCTTTTTATTA
1 AATTTTCTAGAATCTAATTATTA
10416814 AATTTTCTTAGAAT-TAATTAT
1 AATTTTC-TAGAATCTAATTAT
10416835 AGTCAACTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 12 0.67
24 6 0.33
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.55
Consensus pattern (23 bp):
AATTTTCTAGAATCTAATTATTA
Found at i:10416980 original size:31 final size:31
Alignment explanation
Indices: 10416942--10417020 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
10416932 TTAATATAAC
* *
10416942 ATTTGGTATTTGAACTTAACACTTTTTATTA
1 ATTTGGTACTTAAACTTAACACTTTTTATTA
** *
10416973 ATTTGGTACTTAAACTTGTCACTTTTTCTTA
1 ATTTGGTACTTAAACTTAACACTTTTTATTA
*
10417004 AGTTGGTACTTAAACTT
1 ATTTGGTACTTAAACTT
10417021 TTTGAGGTCC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.27, C:0.13, G:0.11, T:0.49
Consensus pattern (31 bp):
ATTTGGTACTTAAACTTAACACTTTTTATTA
Found at i:10419654 original size:43 final size:43
Alignment explanation
Indices: 10419606--10419768 Score: 170
Period size: 43 Copynumber: 3.8 Consensus size: 43
10419596 ACCGAGATGT
*
10419606 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
* * * *
10419649 GATTACGTGTAAGACCATGTCTAGGACATTGGCATCGTTAAT-C
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TATTGA
* * * * *
10419692 GATTTCATGTAAGACCCTGTTTGGGACAGTGGCATCG-ATATGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT-TGA
* * *
10419735 GATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCAT
10419769 TGTACGAGCT
Statistics
Matches: 98, Mismatches: 19, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
41 1 0.01
42 7 0.07
43 87 0.89
44 3 0.03
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
Found at i:10429305 original size:26 final size:26
Alignment explanation
Indices: 10429275--10429326 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
10429265 CACCACTGAA
*
10429275 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
10429301 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
10429327 CTTTTTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.23, T:0.13
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:10429510 original size:26 final size:26
Alignment explanation
Indices: 10429481--10429532 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
10429471 ACCAATGAAA
*
10429481 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
10429507 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
10429533 CTTTCACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.23, T:0.13
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:10429555 original size:104 final size:102
Alignment explanation
Indices: 10429243--10429610 Score: 603
Period size: 103 Copynumber: 3.6 Consensus size: 102
10429233 TAGCCGTTAT
** *
10429243 TGGTGGATCCCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
*
10429308 ATCAGCACATAGCAACCCCCTTTTTATTTCAAAGATA
66 ATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
10429345 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTC-GGGG
10429410 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
65 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
10429448 TGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
*
10429513 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 AATCAGCACATAGCAACCCCCTTT-TCATTTCAAAGATA
* * * **
10429552 TGGTGGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
10429611 TTTATATACA
Statistics
Matches: 252, Mismatches: 10, Indels: 7
0.94 0.04 0.03
Matches are distributed among these distances:
102 57 0.23
103 126 0.50
104 68 0.27
105 1 0.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (102 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
ATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
Found at i:10429972 original size:29 final size:29
Alignment explanation
Indices: 10429939--10430002 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
10429929 TAATCCACCA
10429939 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
10429968 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
10429998 CCCAA
1 CCCAA
10430003 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:10429976 original size:30 final size:30
Alignment explanation
Indices: 10429946--10430002 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
10429936 CCACCCAACT
10429946 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
10429975 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
10430003 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:10432835 original size:14 final size:14
Alignment explanation
Indices: 10432812--10432845 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
10432802 TACGATATCC
*
10432812 AAATAATAACAATA
1 AAATAGTAACAATA
10432826 AAATAGTAACAATA
1 AAATAGTAACAATA
*
10432840 TAATAG
1 AAATAG
10432846 CGAAAAGGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.24
Consensus pattern (14 bp):
AAATAGTAACAATA
Found at i:10441142 original size:21 final size:21
Alignment explanation
Indices: 10441104--10441151 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
10441094 ATACTATTAT
*
10441104 TATTTA-TCTATTTATATTTC
1 TATTTATTATATTTATATTTC
*
10441124 TATTTATTATATTTTTATTTC
1 TATTTATTATATTTATATTTC
10441145 TATTTAT
1 TATTTAT
10441152 ATACTAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 6 0.24
21 19 0.76
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (21 bp):
TATTTATTATATTTATATTTC
Found at i:10441177 original size:35 final size:33
Alignment explanation
Indices: 10441098--10441178 Score: 83
Period size: 35 Copynumber: 2.3 Consensus size: 33
10441088 ATTCTAATAC
*
10441098 TATTATTATTTATCTATTTATATTTCTATTTATTA
1 TATTATTA-TT-TCTATTTATATTACTATTTATTA
* *
10441133 TATTTTTATTTCTATTTATA-TACTAATATTATTT
1 TATTATTATTTCTATTTATATTACT-AT-TTATTA
10441167 TCATTATTATTT
1 T-ATTATTATTT
10441179 TTCTTATATA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
32 3 0.08
33 12 0.31
34 8 0.21
35 16 0.41
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.65
Consensus pattern (33 bp):
TATTATTATTTCTATTTATATTACTATTTATTA
Found at i:10441182 original size:58 final size:53
Alignment explanation
Indices: 10441054--10441182 Score: 127
Period size: 58 Copynumber: 2.3 Consensus size: 53
10441044 ATTATTGCTA
* *
10441054 TTATTATTATGTTTCTATTTATATTTATTTTGTTATTCTAATACTATTATTAT
1 TTATTATTATATTTCTATTTATATTTATTTTGTTATTCTAATACTAATATTAT
*
10441107 TTATCTATTTATATTTCTATTTATTATATT-TTTATTTCTATT-TATATACTAATATTATT
1 TTAT-TA-TTATATTTCTATTTA-TAT-TTATTT-TGT-TATTCTA-ATACTAATATTA-T
*
10441166 TTCATTATTATTTTTCT
1 TT-ATTATTATATTTCT
10441183 TATATATGGT
Statistics
Matches: 63, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
53 4 0.06
54 2 0.03
55 14 0.22
56 6 0.10
57 6 0.10
58 24 0.38
59 5 0.08
60 2 0.03
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (53 bp):
TTATTATTATATTTCTATTTATATTTATTTTGTTATTCTAATACTAATATTAT
Found at i:10441342 original size:25 final size:25
Alignment explanation
Indices: 10441283--10441348 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 25
10441273 TAGCGCTCAA
*
10441283 TTCAAATTTTTATACATTATTTACT
1 TTCAAATTTTTATACATTATGTACT
*
10441308 TT-AATATTTTTATATATTATGTA-T
1 TTCAA-ATTTTTATACATTATGTACT
*
10441332 TTCAAACTTTTTTTACA
1 TTCAAA-TTTTTATACA
10441349 CATTATATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
24 6 0.18
25 28 0.82
ACGTcount: A:0.32, C:0.09, G:0.02, T:0.58
Consensus pattern (25 bp):
TTCAAATTTTTATACATTATGTACT
Found at i:10441603 original size:21 final size:21
Alignment explanation
Indices: 10441553--10441603 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
10441543 TTTATTTGTT
10441553 ATTTGTGATTCATGATTATAAC
1 ATTTGTG-TTCATGATTATAAC
* *
10441575 ATTT-TGTTTATGAATTATTAC
1 ATTTGTGTTCATG-ATTATAAC
10441596 -TTTGTGTT
1 ATTTGTGTT
10441604 GTATAGTGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
20 8 0.32
21 13 0.52
22 4 0.16
ACGTcount: A:0.25, C:0.06, G:0.14, T:0.55
Consensus pattern (21 bp):
ATTTGTGTTCATGATTATAAC
Found at i:10442715 original size:39 final size:41
Alignment explanation
Indices: 10442641--10442733 Score: 113
Period size: 39 Copynumber: 2.3 Consensus size: 41
10442631 CATTAAAAAA
*
10442641 TATTTATATTAAAAAACACTAACATAAGTATAATAAATGTT
1 TATTTATATTAAAAAACACTAACATAAATATAATAAATGTT
* *
10442682 TATTGTAT-TTAAAAAATAC-AA-ATAAATATAATAAATATT
1 TATT-TATATTAAAAAACACTAACATAAATATAATAAATGTT
10442721 T-TATTATATTAAA
1 TAT-TTATATTAAA
10442734 TATAATTTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
38 4 0.09
39 23 0.50
40 2 0.04
41 14 0.30
42 3 0.07
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (41 bp):
TATTTATATTAAAAAACACTAACATAAATATAATAAATGTT
Found at i:10443799 original size:12 final size:12
Alignment explanation
Indices: 10443782--10443809 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
10443772 TAAAAGATAT
10443782 TTATTATAATTA
1 TTATTATAATTA
10443794 TTATTATAATTA
1 TTATTATAATTA
10443806 TTAT
1 TTAT
10443810 CATTATTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TTATTATAATTA
Found at i:10443859 original size:14 final size:15
Alignment explanation
Indices: 10443840--10443870 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
10443830 ATATAAGATA
10443840 CAAAAGAAAGAA-AG
1 CAAAAGAAAGAATAG
10443854 CAAAAGAAAGAATAG
1 CAAAAGAAAGAATAG
10443869 CA
1 CA
10443871 GAAGCCATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.68, C:0.10, G:0.19, T:0.03
Consensus pattern (15 bp):
CAAAAGAAAGAATAG
Found at i:10444300 original size:17 final size:18
Alignment explanation
Indices: 10444278--10444311 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10444268 TAAATGAGTT
10444278 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
10444295 AATTAGGGTATAAATTG
1 AATTAGGATATAAATTG
10444312 AATACAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:10445086 original size:26 final size:25
Alignment explanation
Indices: 10445029--10445087 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
10445019 AAGTATGAGA
* * **
10445029 AAGTGAAATTATGAATTGAAATGTG
1 AAGTGAAATTAAGAATCGAAATAAG
*
10445054 AATTGAAATTAAGATATCGAAATAAG
1 AAGTGAAATTAAGA-ATCGAAATAAG
10445080 AAGTGAAA
1 AAGTGAAA
10445088 ATGGAATGAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
25 12 0.44
26 15 0.56
ACGTcount: A:0.51, C:0.02, G:0.20, T:0.27
Consensus pattern (25 bp):
AAGTGAAATTAAGAATCGAAATAAG
Found at i:10445884 original size:15 final size:16
Alignment explanation
Indices: 10445866--10445899 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
10445856 AGTTAAGTTA
10445866 TTTAGGATTAGGAT-T
1 TTTAGGATTAGGATAT
*
10445881 TTTAGGGTTAGGATAT
1 TTTAGGATTAGGATAT
10445897 TTT
1 TTT
10445900 TAGGTTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (16 bp):
TTTAGGATTAGGATAT
Found at i:10445935 original size:49 final size:47
Alignment explanation
Indices: 10445878--10445972 Score: 113
Period size: 49 Copynumber: 2.0 Consensus size: 47
10445868 TAGGATTAGG
*
10445878 ATTTTTAGGG-TTAGGATATTTTTAGGTTTTGAGA-TTTTATGTTTTTTT
1 ATTTTTAGGGTTTAGG-TA-TTTAAGGTTTTGA-ATTTTTATGTTTTTTT
*
10445926 ATTTGTTAGGGTTTTTGGTATTTAAGGTTTTGAATTTTTATGTTTTT
1 ATTT-TTAGGG-TTTAGGTATTTAAGGTTTTGAATTTTTATGTTTTT
10445973 ATGTTTTAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
48 5 0.12
49 30 0.73
50 2 0.05
51 4 0.10
ACGTcount: A:0.18, C:0.00, G:0.21, T:0.61
Consensus pattern (47 bp):
ATTTTTAGGGTTTAGGTATTTAAGGTTTTGAATTTTTATGTTTTTTT
Found at i:10446783 original size:11 final size:12
Alignment explanation
Indices: 10446767--10446812 Score: 55
Period size: 11 Copynumber: 4.1 Consensus size: 12
10446757 ACATCACAAC
10446767 AAATTATA-AAA
1 AAATTATATAAA
10446778 AAATTATATACAA
1 AAATTATATA-AA
10446791 AAA--ATA-AAA
1 AAATTATATAAA
10446800 AAATTATATAAA
1 AAATTATATAAA
10446812 A
1 A
10446813 CAAACCTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
9 5 0.17
10 1 0.03
11 14 0.47
12 5 0.17
13 5 0.17
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (12 bp):
AAATTATATAAA
Found at i:10446823 original size:22 final size:22
Alignment explanation
Indices: 10446774--10446817 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
10446764 AACAAATTAT
*
10446774 AAAAAAATTATATACAAAAAAT
1 AAAAAAATTATATACAAAAAAC
10446796 AAAAAAATTATATA-AAACAAAC
1 AAAAAAATTATATACAAA-AAAC
10446818 CTAAAATCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (22 bp):
AAAAAAATTATATACAAAAAAC
Found at i:10447410 original size:9 final size:10
Alignment explanation
Indices: 10447386--10447444 Score: 52
Period size: 9 Copynumber: 6.0 Consensus size: 10
10447376 ACACCGGAAG
10447386 AGAGAAAGAAA
1 AGAG-AAGAAA
10447397 AGAG-AGAAA
1 AGAGAAGAAA
*
10447406 GGAGAAGAAA
1 AGAGAAGAAA
*
10447416 A-AGAAGAAG
1 AGAGAAGAAA
*
10447425 A-AGAAGAGA
1 AGAGAAGAAA
10447434 AGCAGAAGAAA
1 AG-AGAAGAAA
10447445 GAAAAAAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 23 0.59
10 5 0.13
11 11 0.28
ACGTcount: A:0.66, C:0.02, G:0.32, T:0.00
Consensus pattern (10 bp):
AGAGAAGAAA
Found at i:10447440 original size:11 final size:11
Alignment explanation
Indices: 10447382--10447447 Score: 52
Period size: 11 Copynumber: 6.3 Consensus size: 11
10447372 CCACACACCG
10447382 GAAG-AGAGAAA
1 GAAGAAGAG-AA
10447393 GAA-AAGAG-A
1 GAAGAAGAGAA
*
10447402 GAA-AGGAGAA
1 GAAGAAGAGAA
*
10447412 GAAAAAGAAGAA
1 GAAGAAG-AGAA
10447424 GAAGAAGAGAA
1 GAAGAAGAGAA
*
10447435 GCAGAAGA-AA
1 GAAGAAGAGAA
10447445 GAA
1 GAA
10447448 AAAAAAAGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
9 8 0.17
10 8 0.17
11 20 0.43
12 10 0.22
ACGTcount: A:0.65, C:0.02, G:0.33, T:0.00
Consensus pattern (11 bp):
GAAGAAGAGAA
Found at i:10447440 original size:14 final size:13
Alignment explanation
Indices: 10447382--10447447 Score: 73
Period size: 13 Copynumber: 5.0 Consensus size: 13
10447372 CCACACACCG
10447382 GAAGAGAGAAAGAA
1 GAAGA-AGAAAGAA
*
10447396 -AAGAGAGAAAGGA
1 GAAGA-AGAAAGAA
10447409 GAAGAA-AAAGAA
1 GAAGAAGAAAGAA
10447421 GAAGAAGAAGAGAA
1 GAAGAAGAA-AGAA
*
10447435 GCAGAAGAAAGAA
1 GAAGAAGAAAGAA
10447448 AAAAAAAGGT
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
12 11 0.24
13 19 0.41
14 16 0.35
ACGTcount: A:0.65, C:0.02, G:0.33, T:0.00
Consensus pattern (13 bp):
GAAGAAGAAAGAA
Found at i:10447659 original size:33 final size:32
Alignment explanation
Indices: 10447616--10447724 Score: 104
Period size: 33 Copynumber: 3.4 Consensus size: 32
10447606 GTTTTTTATA
*
10447616 ATTATTTTAAAATTAATTTGTTAGTAATTTAGG
1 ATTATGTTAAAATTAATTT-TTAGTAATTTAGG
10447649 ATTATGTTAAAATT--TTTTTATGT--TTGTA--
1 ATTATGTTAAAATTAATTTTTA-GTAATT-TAGG
*
10447677 ATTATTTTAAAATTAATTTATTAGTAATTTAGG
1 ATTATGTTAAAATTAATTT-TTAGTAATTTAGG
*
10447710 ATTAAGTTATAAATT
1 ATTATGTTA-AAATT
10447725 GTTGTGTTTA
Statistics
Matches: 62, Mismatches: 4, Indels: 19
0.73 0.05 0.22
Matches are distributed among these distances:
28 13 0.21
29 2 0.03
30 10 0.16
31 10 0.16
32 2 0.03
33 20 0.32
34 5 0.08
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (32 bp):
ATTATGTTAAAATTAATTTTTAGTAATTTAGG
Found at i:10447665 original size:61 final size:62
Alignment explanation
Indices: 10447600--10447733 Score: 191
Period size: 61 Copynumber: 2.2 Consensus size: 62
10447590 ATGAATGTAT
* *
10447600 TTTTTTGTTTTTTATAATTATTTTAAAATTAATTTGTTAGTAATTTAGGATTATGTTA-AAA
1 TTTTTTGTTTTTTATAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAA
* *
10447661 TTTTTT-TATGTTTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAA
1 TTTTTTGT-TTTTTATAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAA
*
10447723 TTGTTGTGTTT
1 TT-TTTTGTTT
10447734 AGTTTAGTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
60 1 0.02
61 52 0.83
62 5 0.08
63 4 0.06
64 1 0.02
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.57
Consensus pattern (62 bp):
TTTTTTGTTTTTTATAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAA
Found at i:10447696 original size:28 final size:29
Alignment explanation
Indices: 10447614--10447707 Score: 75
Period size: 28 Copynumber: 3.1 Consensus size: 29
10447604 TTGTTTTTTA
*
10447614 TAATTATTTTAAAATTAATTTGTTAGTAATT
1 TAATTATTTTAAAATTAATTT-ATAGT-ATT
* **
10447645 TAGGATTATGTTAAAATTTTTTTAT-GT-TT
1 TA--ATTATTTTAAAATTAATTTATAGTATT
10447674 GTAATTATTTTAAAATTAATTTATTAGTAATT
1 -TAATTATTTTAAAATTAATTTA-TAGT-ATT
10447706 TA
1 TA
10447708 GGATTAAGTT
Statistics
Matches: 49, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
28 17 0.35
29 3 0.06
30 4 0.08
31 6 0.12
32 3 0.06
33 16 0.33
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (29 bp):
TAATTATTTTAAAATTAATTTATAGTATT
Found at i:10450814 original size:33 final size:33
Alignment explanation
Indices: 10450777--10450872 Score: 113
Period size: 33 Copynumber: 2.9 Consensus size: 33
10450767 TATCCTGTCT
* * *
10450777 CGTATCCACCTCAGTACTCCGCTCCTTCCGGCC
1 CGTATCCACCGCAGTACTCCACTCCTCCCGGCC
* *
10450810 CGTATCCATCGCCGTACTCCACTCCTCCCGGCC
1 CGTATCCACCGCAGTACTCCACTCCTCCCGGCC
* *
10450843 CGTATCAATCGTC-GTACTCCACTCCTCCCG
1 CGTATCCACCG-CAGTACTCCACTCCTCCCG
10450873 ACTCAAGTTC
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
33 55 0.98
34 1 0.02
ACGTcount: A:0.14, C:0.48, G:0.15, T:0.24
Consensus pattern (33 bp):
CGTATCCACCGCAGTACTCCACTCCTCCCGGCC
Found at i:10454446 original size:18 final size:18
Alignment explanation
Indices: 10454425--10454459 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10454415 ATACAAATAA
* *
10454425 TACAATTAATATTAACAT
1 TACAAATAATATAAACAT
10454443 TACAAATAATATAAACA
1 TACAAATAATATAAACA
10454460 ATAAAAAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.31
Consensus pattern (18 bp):
TACAAATAATATAAACAT
Found at i:10454462 original size:27 final size:27
Alignment explanation
Indices: 10454411--10454462 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
10454401 ATAAGTAACC
**
10454411 AACAATACAAATAATACAATTAATATT
1 AACAATACAAATAATACAAACAATATT
* *
10454438 AACATTACAAATAATATAAACAATA
1 AACAATACAAATAATACAAACAATA
10454463 AAAAAAATGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.27
Consensus pattern (27 bp):
AACAATACAAATAATACAAACAATATT
Found at i:10455202 original size:32 final size:35
Alignment explanation
Indices: 10455166--10455237 Score: 105
Period size: 36 Copynumber: 2.1 Consensus size: 35
10455156 GACTACTAAG
10455166 GTAAAT-CCCTTC-T-TTTTATTTTAAAATTTCAT
1 GTAAATCCCCTTCTTCTTTTATTTTAAAATTTCAT
*
10455198 GTAAATCCCCTTCTTTCTTTTGTTTTAAAATTTCAT
1 GTAAATCCCCTTC-TTCTTTTATTTTAAAATTTCAT
10455234 GTAA
1 GTAA
10455238 TCCTAAAGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
32 6 0.17
33 6 0.17
35 1 0.03
36 22 0.63
ACGTcount: A:0.26, C:0.17, G:0.06, T:0.51
Consensus pattern (35 bp):
GTAAATCCCCTTCTTCTTTTATTTTAAAATTTCAT
Found at i:10457447 original size:27 final size:27
Alignment explanation
Indices: 10457370--10457437 Score: 118
Period size: 27 Copynumber: 2.5 Consensus size: 27
10457360 TGTGGGCCCC
*
10457370 ACCATTTGCGCCTCTGAGATAGGCACA
1 ACCATTTGCGCCTCTGAGATAGGCAAA
10457397 ACCATTTGCGCCTCTGAGATAGGCAAA
1 ACCATTTGCGCCTCTGAGATAGGCAAA
*
10457424 ACCATTTGCACCTC
1 ACCATTTGCGCCTC
10457438 AAAGAAAGGC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (27 bp):
ACCATTTGCGCCTCTGAGATAGGCAAA
Found at i:10458018 original size:30 final size:30
Alignment explanation
Indices: 10457983--10458042 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
10457973 TCATTTTCTA
10457983 AGAAAATAAAAAAGAAAATACCTTCTAATT
1 AGAAAATAAAAAAGAAAATACCTTCTAATT
10458013 AGAAAATAAAAAAGAAAATACCTTCTAATT
1 AGAAAATAAAAAAGAAAATACCTTCTAATT
10458043 CTTAAAACCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.60, C:0.10, G:0.07, T:0.23
Consensus pattern (30 bp):
AGAAAATAAAAAAGAAAATACCTTCTAATT
Found at i:10458593 original size:14 final size:13
Alignment explanation
Indices: 10458576--10458609 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
10458566 TACCATTTTT
10458576 TTATTATATTGTTA
1 TTATT-TATTGTTA
10458590 TTATCTTATTGTTA
1 TTAT-TTATTGTTA
10458604 TTATTT
1 TTATTT
10458610 GGATATTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 2 0.11
14 16 0.84
15 1 0.05
ACGTcount: A:0.24, C:0.03, G:0.06, T:0.68
Consensus pattern (13 bp):
TTATTTATTGTTA
Found at i:10468929 original size:10 final size:10
Alignment explanation
Indices: 10468916--10469061 Score: 50
Period size: 10 Copynumber: 14.3 Consensus size: 10
10468906 AAAAACTCTT
10468916 AAAAATTATA
1 AAAAATTATA
* *
10468926 AAAAATAAGA
1 AAAAATTATA
*
10468936 AAAAATTACA
1 AAAAATTATA
10468946 AAAATATTAAATA
1 AAAA-ATT--ATA
*
10468959 TTAAAAATGATA
1 --AAAAATTATA
** *
10468971 TCAACTTAT-
1 AAAAATTATA
*
10468980 TAAAATTATA
1 AAAAATTATA
*
10468990 ATAATAACTATA
1 A-AA-AATTATA
*
10469002 ATAAAAATATA
1 A-AAAATTATA
* *
10469013 AAAACTTGT-
1 AAAAATTATA
*
10469022 AAATATTAT-
1 AAAAATTATA
*
10469031 AAAAA-TAGA
1 AAAAATTATA
*
10469040 TAAAA-TATA
1 AAAAATTATA
10469049 AAAAATTATA
1 AAAAATTATA
10469059 AAA
1 AAA
10469062 TTAATAAAAC
Statistics
Matches: 100, Mismatches: 26, Indels: 20
0.68 0.18 0.14
Matches are distributed among these distances:
8 2 0.02
9 28 0.28
10 37 0.37
11 12 0.12
12 13 0.13
13 2 0.02
14 2 0.02
15 4 0.04
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.29
Consensus pattern (10 bp):
AAAAATTATA
Found at i:10469088 original size:36 final size:37
Alignment explanation
Indices: 10468999--10469144 Score: 113
Period size: 36 Copynumber: 4.0 Consensus size: 37
10468989 AATAATAACT
* * * *
10468999 ATAATAAAAATATAAAAACTTGTAAATATT-AT-AAAA
1 ATAATTAAAATGTAAAAAATTATAAA-ATTAATAAAAA
* *
10469035 ATAGA-TAAAATATAAAAAATTATAAAATTAATAAAAC
1 ATA-ATTAAAATGTAAAAAATTATAAAATTAATAAAAA
* * **
10469072 AT-ATTTAAAT-TAAAAAATTATTAGAATTCTTAAAAA
1 ATAATTAAAATGTAAAAAATTA-TAAAATTAATAAAAA
**
10469108 ATAATTAAAATGTAAAAAAATTATAAAAAAAATAAAA
1 ATAATTAAAATGT-AAAAAATTATAAAATTAATAAAA
10469145 TTGATGTAAA
Statistics
Matches: 87, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
35 14 0.16
36 41 0.47
37 13 0.15
38 10 0.11
39 9 0.10
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (37 bp):
ATAATTAAAATGTAAAAAATTATAAAATTAATAAAAA
Found at i:10469220 original size:22 final size:23
Alignment explanation
Indices: 10469183--10469226 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
10469173 ATATTATGGC
* *
10469183 AAAAAAACTTATAAAACTTAAAA
1 AAAAAAACATATAAAACCTAAAA
10469206 AAAAAAACATA-AAAACCTAAA
1 AAAAAAACATATAAAACCTAAA
10469227 TTGGACTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.73, C:0.11, G:0.00, T:0.16
Consensus pattern (23 bp):
AAAAAAACATATAAAACCTAAAA
Found at i:10471132 original size:40 final size:40
Alignment explanation
Indices: 10470979--10471132 Score: 116
Period size: 40 Copynumber: 3.7 Consensus size: 40
10470969 ATCTTTAGCT
** *
10470979 GAAGCTATAACGATATCGTACACTAAGTGCCATCACATTAAA-CC
1 GAAGCTATCTCGA-ATCGCACACTAAGTG-C-T-ACA-TAAAGCC
*
10471023 GAAGCTATCTCGGTATCGCACACTTAA-TGCTACATAAAGCC
1 GAAGCTATCTC-GAATCGCACAC-TAAGTGCTACATAAAGCC
* * * ** *
10471064 GAAGCTATTTC-AATTCGCACATTTAGTGCTGTATATAGCC
1 GAAGCTATCTCGAA-TCGCACACTAAGTGCTACATAAAGCC
*
10471104 GAAGCTATCTCGAAACGCACACTAAGTGC
1 GAAGCTATCTCGAATCGCACACTAAGTGC
10471133 CAAACATAGT
Statistics
Matches: 89, Mismatches: 15, Indels: 16
0.74 0.12 0.13
Matches are distributed among these distances:
39 3 0.03
40 44 0.49
41 17 0.19
42 1 0.01
43 1 0.01
44 19 0.21
45 4 0.04
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (40 bp):
GAAGCTATCTCGAATCGCACACTAAGTGCTACATAAAGCC
Found at i:10472555 original size:20 final size:21
Alignment explanation
Indices: 10472509--10472558 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
10472499 TTTTAATTTT
*
10472509 TATGATTTTTATAGAATCTTAA
1 TATG-TTTTTATAAAATCTTAA
*
10472531 TATGTTTTTATAAAATTTTAA
1 TATGTTTTTATAAAATCTTAA
10472552 -ATGTTTT
1 TATGTTTT
10472559 AAATATGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 7 0.27
21 15 0.58
22 4 0.15
ACGTcount: A:0.34, C:0.02, G:0.08, T:0.56
Consensus pattern (21 bp):
TATGTTTTTATAAAATCTTAA
Found at i:10472725 original size:19 final size:20
Alignment explanation
Indices: 10472678--10472726 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
10472668 ATATTTCAAA
10472678 TATTTAATAA-TTTTTATAT
1 TATTTAATAATTTTTTATAT
* *
10472697 TATTTGATAATTTTTTTTAT
1 TATTTAATAATTTTTTATAT
10472717 T-TTTAATAAT
1 TATTTAATAAT
10472727 CCTTTTTGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (20 bp):
TATTTAATAATTTTTTATAT
Found at i:10473098 original size:19 final size:20
Alignment explanation
Indices: 10473070--10473114 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
10473060 GTTTTAAATT
10473070 ATTTTTAAT-ATATT-TATA
1 ATTTTTAATAATATTATATA
*
10473088 ATTTTTAAATAATTTTATATA
1 ATTTTT-AATAATATTATATA
10473109 ATTTTT
1 ATTTTT
10473115 TAGTTATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 6 0.26
19 3 0.13
20 4 0.17
21 10 0.43
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTTTTAATAATATTATATA
Found at i:10475715 original size:123 final size:125
Alignment explanation
Indices: 10475587--10475814 Score: 338
Period size: 124 Copynumber: 1.8 Consensus size: 125
10475577 TGTTAAGGGA
* * * *
10475587 AAAGTGGGAAGGAGTAAAAATTTTGG-GGAAAAGTAAATAGGGGAGTAACTTTTGGGGAA-AAAA
1 AAAGTGAGAAGGAGTAAAAATATTGGAGGAAAAGTAAATAGAGGAGTAAATTTT-GGGAAGAAAA
10475650 -ATTCAAAAAA-AATTGGGGAGAAAATGGGTTTGAGGGTAGAGGAGTAAACAATTTGTGAGG
65 TATTCAAAAAAGAATTGGGGAGAAAATGGGTTTG-GGGTAGAGGAGTAAACAATTTGTGAGG
* *
10475710 AAAGTGATAGGGAGTAAAAATATTGGAGGAAAAGTAAATAGAGGAGTAAATTTTGGGAAGAAAAT
1 AAAGTGAGAAGGAGTAAAAATATTGGAGGAAAAGTAAATAGAGGAGTAAATTTTGGGAAGAAAAT
* *
10475775 ATTCAAAAAAGAATTTGGGAGAAAATTGGTTTGGGGTAGA
66 ATTCAAAAAAGAATTGGGGAGAAAATGGGTTTGGGGTAGA
10475815 AGAGGGGTTA
Statistics
Matches: 93, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
123 27 0.29
124 29 0.31
125 17 0.18
126 20 0.22
ACGTcount: A:0.44, C:0.02, G:0.32, T:0.23
Consensus pattern (125 bp):
AAAGTGAGAAGGAGTAAAAATATTGGAGGAAAAGTAAATAGAGGAGTAAATTTTGGGAAGAAAAT
ATTCAAAAAAGAATTGGGGAGAAAATGGGTTTGGGGTAGAGGAGTAAACAATTTGTGAGG
Found at i:10475726 original size:30 final size:32
Alignment explanation
Indices: 10475686--10475759 Score: 93
Period size: 30 Copynumber: 2.4 Consensus size: 32
10475676 GGTTTGAGGG
*
10475686 TAGAGGAGTAAACAAT-TTGTGAGG-AAAGT-GA
1 TAGAGGAGTAAA-AATATTG-GAGGAAAAGTAAA
10475717 TAG-GGAGTAAAAATATTGGAGGAAAAGTAAA
1 TAGAGGAGTAAAAATATTGGAGGAAAAGTAAA
10475748 TAGAGGAGTAAA
1 TAGAGGAGTAAA
10475760 TTTTGGGAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
29 7 0.18
30 16 0.42
31 7 0.18
32 8 0.21
ACGTcount: A:0.47, C:0.01, G:0.31, T:0.20
Consensus pattern (32 bp):
TAGAGGAGTAAAAATATTGGAGGAAAAGTAAA
Found at i:10477808 original size:21 final size:23
Alignment explanation
Indices: 10477782--10477826 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
10477772 CTTTTCCACT
*
10477782 TAACAAAAT-ATTT-ATATAAAA
1 TAACAAAATAATTTGAAATAAAA
10477803 TAACAAAATAATTTGAAATAAAA
1 TAACAAAATAATTTGAAATAAAA
10477826 T
1 T
10477827 CTTCACTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.43
22 4 0.19
23 8 0.38
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (23 bp):
TAACAAAATAATTTGAAATAAAA
Found at i:10480032 original size:24 final size:24
Alignment explanation
Indices: 10480003--10480048 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
10479993 GTACATCATT
*
10480003 ATTAAAAATTG-TAAATAAATTCTA
1 ATTAAAAA-TGATAAAAAAATTCTA
10480027 ATTAAAAATGATAAAAAAATTC
1 ATTAAAAATGATAAAAAAATTC
10480049 AGAACTCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (24 bp):
ATTAAAAATGATAAAAAAATTCTA
Found at i:10480479 original size:19 final size:20
Alignment explanation
Indices: 10480455--10480494 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
10480445 TTAAATTTCG
10480455 ATTTTCAAAATATAT-CATT
1 ATTTTCAAAATATATGCATT
* *
10480474 ATTTTCGAAATGTATGCATT
1 ATTTTCAAAATATATGCATT
10480494 A
1 A
10480495 GTGATGATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (20 bp):
ATTTTCAAAATATATGCATT
Found at i:10487629 original size:20 final size:20
Alignment explanation
Indices: 10487590--10487629 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
10487580 GAATAAAGGT
** *
10487590 CATTTGTTCAAGTTTGGTAC
1 CATTTGTTCAAGGATAGTAC
10487610 CATTTGTTCAAGGATAGTAC
1 CATTTGTTCAAGGATAGTAC
10487630 ATCAACATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (20 bp):
CATTTGTTCAAGGATAGTAC
Found at i:10487979 original size:37 final size:37
Alignment explanation
Indices: 10487929--10488002 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
10487919 ATTTGGTTGT
*
10487929 TGCTTTTCTCCAATATCGCTTTATTGGTTGAAGTAAC
1 TGCTTTTCTCCAATATCGCTTTATTGATTGAAGTAAC
*
10487966 TGCTTTTCTCCAATATTGCTTTATTGATTGAAGTAAC
1 TGCTTTTCTCCAATATCGCTTTATTGATTGAAGTAAC
10488003 ACCATTTCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.23, C:0.18, G:0.15, T:0.45
Consensus pattern (37 bp):
TGCTTTTCTCCAATATCGCTTTATTGATTGAAGTAAC
Found at i:10493983 original size:33 final size:33
Alignment explanation
Indices: 10493896--10494081 Score: 248
Period size: 33 Copynumber: 5.6 Consensus size: 33
10493886 TAAATGGTGC
10493896 ACTTG-AAAGGTTATGTACACTTTGTGTGTACA
1 ACTTGAAAAGGTTATGTACACTTTGTGTGTACA
* * *
10493928 ATTTGAAAAGGGCTATGTACACTTTGTATGTACA
1 ACTTGAAAA-GGTTATGTACACTTTGTGTGTACA
10493962 ACTTGAAAAGGTTATGTACACTTTGTGTGTACA
1 ACTTGAAAAGGTTATGTACACTTTGTGTGTACA
**
10493995 ACTTGAAAAGGTTATGTACACTTTAAGTGTACA
1 ACTTGAAAAGGTTATGTACACTTTGTGTGTACA
* * * *
10494028 ATTTGAAAAGGATATGTAAACTTTGTGTGTACC
1 ACTTGAAAAGGTTATGTACACTTTGTGTGTACA
* **
10494061 ACTTAAAAAGGGAATGTACAC
1 ACTTGAAAAGGTTATGTACAC
10494082 CTCAAGTGTA
Statistics
Matches: 133, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
32 4 0.03
33 99 0.74
34 30 0.23
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (33 bp):
ACTTGAAAAGGTTATGTACACTTTGTGTGTACA
Found at i:10494026 original size:66 final size:66
Alignment explanation
Indices: 10493896--10494107 Score: 266
Period size: 66 Copynumber: 3.2 Consensus size: 66
10493886 TAAATGGTGC
* *
10493896 ACTTG-AAAGGTTATGTACACTTTGTGTGTACAATTTGAAAAGGGCTATGTACACTTTGTA-TGT
1 ACTTGAAAAGGTTATGTACACTTTGTGTGTACAACTTGAAAA-GGCTATGTACACTTT-AAGTGT
10493959 ACA
64 ACA
*
10493962 ACTTGAAAAGGTTATGTACACTTTGTGTGTACAACTTGAAAAGGTTATGTACACTTTAAGTGTAC
1 ACTTGAAAAGGTTATGTACACTTTGTGTGTACAACTTGAAAAGGCTATGTACACTTTAAGTGTAC
10494027 A
66 A
* * * * * ** * *
10494028 ATTTGAAAAGGATATGTAAACTTTGTGTGTACCACTTAAAAAGGGAATGTACACCTCAAGTGTAC
1 ACTTGAAAAGGTTATGTACACTTTGTGTGTACAACTTGAAAAGGCTATGTACACTTTAAGTGTAC
*
10494093 G
66 A
*
10494094 ACTAGAAAAGGTTA
1 ACTTGAAAAGGTTA
10494108 CGTCCAATGG
Statistics
Matches: 128, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
65 1 0.01
66 92 0.72
67 35 0.27
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (66 bp):
ACTTGAAAAGGTTATGTACACTTTGTGTGTACAACTTGAAAAGGCTATGTACACTTTAAGTGTAC
A
Found at i:10494091 original size:99 final size:100
Alignment explanation
Indices: 10493896--10494107 Score: 275
Period size: 99 Copynumber: 2.1 Consensus size: 100
10493886 TAAATGGTGC
** * *
10493896 ACTTG-AAAGGTTATGTACACTTTGTGTGTACAATTTGAAAAGGGCTATGTACACTTTGTATGTA
1 ACTTGAAAAGGTTATGTACACTTTAAGTGTACAATTTGAAAAGGGATATGTAAACTTTGTATGTA
* ** * ***
10493960 CAACTTGAAAAGGTTATGTACACTTTGTGTGTACA
66 CAACTTAAAAAGGGAATGTACACCTCAAGTGTACA
*
10493995 ACTTGAAAAGGTTATGTACACTTTAAGTGTACAATTTGAAAA-GGATATGTAAACTTTGTGTGTA
1 ACTTGAAAAGGTTATGTACACTTTAAGTGTACAATTTGAAAAGGGATATGTAAACTTTGTATGTA
* *
10494059 CCACTTAAAAAGGGAATGTACACCTCAAGTGTACG
66 CAACTTAAAAAGGGAATGTACACCTCAAGTGTACA
*
10494094 ACTAGAAAAGGTTA
1 ACTTGAAAAGGTTA
10494108 CGTCCAATGG
Statistics
Matches: 97, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 63 0.65
100 34 0.35
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (100 bp):
ACTTGAAAAGGTTATGTACACTTTAAGTGTACAATTTGAAAAGGGATATGTAAACTTTGTATGTA
CAACTTAAAAAGGGAATGTACACCTCAAGTGTACA
Found at i:10500198 original size:63 final size:65
Alignment explanation
Indices: 10500109--10500252 Score: 177
Period size: 63 Copynumber: 2.2 Consensus size: 65
10500099 GTGTACATTC
* * * * * * *
10500109 CCTTTTCAAGTGGTACACTCAAAGTGTACGTATCCTTTTCAAGTTCTACACACAAA-GT-CATAG
1 CCTTTTCAAATTGTACACACAAAGTGTACATAACCTTTTCAAATTCTACACACAAAGGTACATAA
* *
10500172 CCTTTTCAAATTGTACGCACAAAGTGTACATAACCTTTTCAAATTGTACACACAAAGTGTACATA
1 CCTTTTCAAATTGTACACACAAAGTGTACATAACCTTTTCAAATTCTACACACAAAG-GTACATA
10500237 A
65 A
10500238 CCTTTTCAAA-TGTAC
1 CCTTTTCAAATTGTAC
10500253 CATTTAGGTA
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
63 48 0.70
65 7 0.10
66 14 0.20
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.32
Consensus pattern (65 bp):
CCTTTTCAAATTGTACACACAAAGTGTACATAACCTTTTCAAATTCTACACACAAAGGTACATAA
Found at i:10500247 original size:33 final size:33
Alignment explanation
Indices: 10500073--10500252 Score: 188
Period size: 33 Copynumber: 5.6 Consensus size: 33
10500063 TCGAAGGACG
* * * * *
10500073 TAACCTTTTCCAATCGTACACTCGAGGTGTACA
1 TAACCTTTTCAAATTGTACACACAAAGTGTACA
** * * * *
10500106 TTCCCTTTTCAAGTGGTACACTCAAAGTGTACG
1 TAACCTTTTCAAATTGTACACACAAAGTGTACA
* * *
10500139 TATCCTTTTCAAGTTCTACACACAAA--GT-CA
1 TAACCTTTTCAAATTGTACACACAAAGTGTACA
* *
10500169 TAGCCTTTTCAAATTGTACGCACAAAGTGTACA
1 TAACCTTTTCAAATTGTACACACAAAGTGTACA
10500202 TAACCTTTTCAAATTGTACACACAAAGTGTACA
1 TAACCTTTTCAAATTGTACACACAAAGTGTACA
10500235 TAACCTTTTCAAA-TGTAC
1 TAACCTTTTCAAATTGTAC
10500253 CATTTAGGTA
Statistics
Matches: 124, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
30 23 0.19
31 2 0.02
32 7 0.06
33 92 0.74
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (33 bp):
TAACCTTTTCAAATTGTACACACAAAGTGTACA
Found at i:10501401 original size:13 final size:13
Alignment explanation
Indices: 10501383--10501407 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10501373 ATAATCGATA
10501383 AAAAATTTTCATT
1 AAAAATTTTCATT
10501396 AAAAATTTTCAT
1 AAAAATTTTCAT
10501408 GCAATTTTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
AAAAATTTTCATT
Found at i:10501647 original size:27 final size:27
Alignment explanation
Indices: 10501591--10501647 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
10501581 TGTTTCCAAT
* *
10501591 AATAAAGTCCTTAATAGAGTTCTTGGC
1 AATAAAGTCCTTAACAGAGTTCATGGC
* * *
10501618 AATAAGGTTCTTAACAGAGTTCATGTC
1 AATAAAGTCCTTAACAGAGTTCATGGC
10501645 AAT
1 AAT
10501648 CACAGTTCAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (27 bp):
AATAAAGTCCTTAACAGAGTTCATGGC
Found at i:10503576 original size:38 final size:38
Alignment explanation
Indices: 10503532--10503726 Score: 219
Period size: 38 Copynumber: 5.1 Consensus size: 38
10503522 ATGTATATTA
*
10503532 GGGTTAAATCCTGCAGGCTTCGTGCTGGTATTATATCC
1 GGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCC
* *
10503570 GGGTTAAATCCCGCAGGCTTTGTGCTGGCATTATATCC
1 GGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCC
* * ** *
10503608 GGGCTTAAAGACCCACAGGCTTCGTGCTGGTAAAATATCT
1 GGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTATTATATCC
* *
10503648 AGGTTAAATCCCGCAGGCTTCGTGCTAGTATTATATCC
1 GGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCC
* * * * * * *
10503686 AGGATAAATCCTGCAGGCCTAGTACTGGTATTATATTC
1 GGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCC
10503724 GGG
1 GGG
10503727 CCTTCGTGCC
Statistics
Matches: 130, Mismatches: 25, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
38 95 0.73
39 10 0.08
40 25 0.19
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (38 bp):
GGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCC
Found at i:10503767 original size:43 final size:43
Alignment explanation
Indices: 10503719--10503830 Score: 181
Period size: 43 Copynumber: 2.6 Consensus size: 43
10503709 ACTGGTATTA
* *
10503719 TATTCGGGCCTTCGTGCCTCGCAGGCTTCGTGCTTA-TGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC-CAGTGATGTG
*
10503762 TATTCGGGCCTTCGTGCCTAGCAGGTTTCGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTG
10503805 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
10503831 GTAATGCCGG
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
42 1 0.02
43 63 0.98
ACGTcount: A:0.11, C:0.26, G:0.31, T:0.32
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTG
Done.