Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 134 of 276
Found at i:43392284 original size:30 final size:30
Alignment explanation
Indices: 43392250--43392310 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
43392240 TTCCCGAGCC
43392250 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
43392280 TAGGGGCAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
43392310 T
1 T
43392311 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:43393126 original size:64 final size:64
Alignment explanation
Indices: 43393045--43393228 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
43393035 AGACATTATG
* * *
43393045 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
43393109 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGATAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
43393174 AA
63 AA
* * * *
43393176 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCATCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
43393229 CGAACTATAT
Statistics
Matches: 96, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
62 1 0.01
63 17 0.18
64 25 0.26
66 21 0.22
67 30 0.31
68 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:43396995 original size:7 final size:7
Alignment explanation
Indices: 43396983--43397030 Score: 60
Period size: 7 Copynumber: 6.9 Consensus size: 7
43396973 ATCATTCGTA
43396983 ATCATCC
1 ATCATCC
43396990 ATCATCC
1 ATCATCC
43396997 ATCATCC
1 ATCATCC
43397004 ATCATCC
1 ATCATCC
* *
43397011 CTCGTCC
1 ATCATCC
*
43397018 CTCATCC
1 ATCATCC
*
43397025 CTCATC
1 ATCATC
43397031 ATTCTCTCTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.21, C:0.48, G:0.02, T:0.29
Consensus pattern (7 bp):
ATCATCC
Found at i:43403824 original size:39 final size:39
Alignment explanation
Indices: 43403781--43404044 Score: 287
Period size: 39 Copynumber: 6.8 Consensus size: 39
43403771 AGAAATAAGA
* * * **
43403781 TGATTATTCAGGCTAAGTGGCTAGCAGGCTATGTGCTGG
1 TGATTATTCGGGCTAAGTGCCTAGCAGGCTTTGTGCCAG
* * * *
43403820 TGATTATTCGGGCTATGTGCCTAGCAGGCTATGTTCTAG
1 TGATTATTCGGGCTAAGTGCCTAGCAGGCTTTGTGCCAG
* * *
43403859 TGATTATTTGGACTAAGTGCCTAGCAAGCTTTGTGCCAG
1 TGATTATTCGGGCTAAGTGCCTAGCAGGCTTTGTGCCAG
* * *
43403898 TGATTATTTGGGCTAAGTGCTTAGCAGGCTTTGTGCCGG
1 TGATTATTCGGGCTAAGTGCCTAGCAGGCTTTGTGCCAG
* *
43403937 TGATTATTCGGGCTATGTGCCTAGCAGGATTTGTGCCAG
1 TGATTATTCGGGCTAAGTGCCTAGCAGGCTTTGTGCCAG
** * * *
43403976 TGATTATTCGGGCTTTGTGCCTATCAGGCTTTGTGCTGAA
1 TGATTATTCGGGCTAAGTGCCTAGCAGGCTTTGTGC-CAG
** *
43404016 T-ATTATTCGGGCTTTGTGCCTAGTAGGCT
1 TGATTATTCGGGCTAAGTGCCTAGCAGGCT
43404045 GTGTACCGGT
Statistics
Matches: 196, Mismatches: 28, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
39 194 0.99
40 2 0.01
ACGTcount: A:0.18, C:0.17, G:0.30, T:0.36
Consensus pattern (39 bp):
TGATTATTCGGGCTAAGTGCCTAGCAGGCTTTGTGCCAG
Found at i:43404021 original size:117 final size:116
Alignment explanation
Indices: 43403780--43404055 Score: 320
Period size: 117 Copynumber: 2.4 Consensus size: 116
43403770 TAGAAATAAG
* *
43403780 ATGATTATTCAGGCTAAGTGGCTAGCAGGCTATGTGCTGGTGATTATTCGGGCTATGTGCCTAGC
1 ATGATTATTCGGGCTAAGT-GCTAGCAGGCTATGTGCCGGTGATTATTCGGGCTATGTGCCTAGC
* * * *
43403845 AGGCTATGTTCTAGTGATTATTTGGACTAAGTGCCTAGCAAGCTTTGTGCCA
65 AGGATATGTGCCAGTGATTATTCGGACTAAGTGCCTAGCAAGCTTTGTGCCA
* * *
43403897 GTGATTATTTGGGCTAAGTGCTTAGCAGGCTTTGTGCCGGTGATTATTCGGGCTATGTGCCTAGC
1 ATGATTATTCGGGCTAAGTGC-TAGCAGGCTATGTGCCGGTGATTATTCGGGCTATGTGCCTAGC
* * ** * * *
43403962 AGGATTTGTGCCAGTGATTATTCGGGCTTTGTGCCTATCAGGCTTTGTGCTGA
65 AGGATATGTGCCAGTGATTATTCGGACTAAGTGCCTAGCAAGCTTTGTGC-CA
** * * *
43404015 AT-ATTATTCGGGCTTTGTGCCTAGTAGGCTGTGTACCGGTG
1 ATGATTATTCGGGCTAAGTG-CTAGCAGGCTATGTGCCGGTG
43404056 TATTGGAAGT
Statistics
Matches: 133, Mismatches: 23, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
116 2 0.02
117 128 0.96
118 3 0.02
ACGTcount: A:0.18, C:0.17, G:0.30, T:0.35
Consensus pattern (116 bp):
ATGATTATTCGGGCTAAGTGCTAGCAGGCTATGTGCCGGTGATTATTCGGGCTATGTGCCTAGCA
GGATATGTGCCAGTGATTATTCGGACTAAGTGCCTAGCAAGCTTTGTGCCA
Found at i:43407790 original size:26 final size:26
Alignment explanation
Indices: 43407754--43407812 Score: 118
Period size: 26 Copynumber: 2.3 Consensus size: 26
43407744 TCATTTTATG
43407754 GTAATGGATTTTAGAAGGGGCTTCTA
1 GTAATGGATTTTAGAAGGGGCTTCTA
43407780 GTAATGGATTTTAGAAGGGGCTTCTA
1 GTAATGGATTTTAGAAGGGGCTTCTA
43407806 GTAATGG
1 GTAATGG
43407813 GTTTATTGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.27, C:0.07, G:0.32, T:0.34
Consensus pattern (26 bp):
GTAATGGATTTTAGAAGGGGCTTCTA
Found at i:43413770 original size:40 final size:40
Alignment explanation
Indices: 43413726--43413987 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
43413716 GCTCCTCGTT
* *
43413726 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
43413766 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
43413806 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
43413845 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
43413884 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
43413923 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
43413964 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
43413988 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:43428623 original size:29 final size:29
Alignment explanation
Indices: 43428581--43428640 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
43428571 CGGCCATATC
*
43428581 GCACGGCTGTGTCGCCGCCCGTGGTATGA
1 GCACGGCTATGTCGCCGCCCGTGGTATGA
*
43428610 GCACGGCTATGTCGCTGCCCGTGGTATGA
1 GCACGGCTATGTCGCCGCCCGTGGTATGA
43428639 GC
1 GC
43428641 TAAAATAAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.12, C:0.30, G:0.37, T:0.22
Consensus pattern (29 bp):
GCACGGCTATGTCGCCGCCCGTGGTATGA
Found at i:43432800 original size:48 final size:49
Alignment explanation
Indices: 43432688--43432801 Score: 135
Period size: 48 Copynumber: 2.3 Consensus size: 49
43432678 GGCTCGACAG
* *
43432688 AGACAC-ACCTGTGTGAG-GTGGCTTAGGCCGTGTTTAGAGTCTGCTAAAT
1 AGACACGACC-GTGTG-GTGTGGCTTAGGCCGTGTTTACAATCTGCTAAAT
* *
43432737 AGACACGACCGTGTGGTGTGGCTTAGGTCGTG-TTACAATCTGTTAAAT
1 AGACACGACCGTGTGGTGTGGCTTAGGCCGTGTTTACAATCTGCTAAAT
**
43432785 AGACACGGGCGTGTGGT
1 AGACACGACCGTGTGGT
43432802 CTACCCGTGT
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
48 29 0.51
49 25 0.44
50 3 0.05
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (49 bp):
AGACACGACCGTGTGGTGTGGCTTAGGCCGTGTTTACAATCTGCTAAAT
Found at i:43436745 original size:46 final size:46
Alignment explanation
Indices: 43436695--43436867 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
43436685 TGGTTGAGCA
43436695 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
43436741 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
*
43436786 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
*
43436834 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTA
43436868 GGGGCGGGTT
Statistics
Matches: 109, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
43 6 0.06
45 8 0.07
46 57 0.52
47 29 0.27
48 4 0.04
50 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:43436851 original size:93 final size:93
Alignment explanation
Indices: 43436692--43436862 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
43436682 GGATGGTTGA
*
43436692 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCCAACTCGTTGAGT
43436757 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
43436785 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-CCCAAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCCAA-CTCGTTGAG
43436849 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
43436863 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 4 0.05
93 71 0.95
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCCAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:43437941 original size:53 final size:53
Alignment explanation
Indices: 43437877--43437981 Score: 201
Period size: 53 Copynumber: 2.0 Consensus size: 53
43437867 CGTAATACAT
43437877 AGAGTTCAGAGCAGTCAAACCCTGAAACAGGGGAGACTTTAACTAATAACTGC
1 AGAGTTCAGAGCAGTCAAACCCTGAAACAGGGGAGACTTTAACTAATAACTGC
*
43437930 AGAGTTTAGAGCAGTCAAACCCTGAAACAGGGGAGACTTTAACTAATAACTG
1 AGAGTTCAGAGCAGTCAAACCCTGAAACAGGGGAGACTTTAACTAATAACTG
43437982 TACTAATTGG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.20
Consensus pattern (53 bp):
AGAGTTCAGAGCAGTCAAACCCTGAAACAGGGGAGACTTTAACTAATAACTGC
Found at i:43441788 original size:44 final size:44
Alignment explanation
Indices: 43441725--43441811 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 44
43441715 AAATGATGAG
43441725 TTGATTCAAAAGATTTTGCATGAAGCACATAATGGTTGTTTGGT
1 TTGATTCAAAAGATTTTGCATGAAGCACATAATGGTTGTTTGGT
** *
43441769 TTGATTCAAACTATTTTGCATGAAGCACATAATGTTTGTTTGG
1 TTGATTCAAAAGATTTTGCATGAAGCACATAATGGTTGTTTGG
43441812 CGGTTCATCC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (44 bp):
TTGATTCAAAAGATTTTGCATGAAGCACATAATGGTTGTTTGGT
Found at i:43444428 original size:46 final size:46
Alignment explanation
Indices: 43444378--43444583 Score: 224
Period size: 46 Copynumber: 4.5 Consensus size: 46
43444368 TGGTTGAGCA
*
43444378 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
43444424 TCCGAACTCGTTGAGTTGAG-CCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
43444470 TCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
43444516 ACCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTAGGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
43444562 -CCTAAGCTCGTTGAGTTGAGTC
1 TCCGAA-CTCGTTGAGTTGAGTC
43444584 GGCACTTATG
Statistics
Matches: 134, Mismatches: 17, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
42 6 0.04
44 3 0.02
45 11 0.08
46 98 0.73
47 8 0.06
48 3 0.02
50 5 0.04
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:43444532 original size:92 final size:93
Alignment explanation
Indices: 43444375--43444544 Score: 288
Period size: 92 Copynumber: 1.8 Consensus size: 93
43444365 GGATGGTTGA
* * *
43444375 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCAAACGACCGAACTCGTTGAGT
43444440 TGAG-CCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
43444467 GCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAACGACCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCAAACGACCGAACTCGTTGAGT
43444532 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
43444545 ACTTAGGGAT
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 64 0.89
93 8 0.11
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCAAACGACCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:43446092 original size:46 final size:46
Alignment explanation
Indices: 43446042--43446214 Score: 176
Period size: 46 Copynumber: 3.7 Consensus size: 46
43446032 TGGTTGAGCA
*
43446042 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
43446088 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
43446133 CATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 --TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
43446181 -CCCAAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAA-CTCATTGAGTTGAGTCCGAGTTCACTTA
43446215 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 7 0.07
46 57 0.54
47 27 0.25
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.29
Consensus pattern (46 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:43446198 original size:93 final size:93
Alignment explanation
Indices: 43446039--43446209 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
43446029 GGATGGTTGA
* * * * * *
43446039 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCCCAACTCATTGAGT
43446104 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
43446132 GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG-CCCAAGCTCATTGAG
1 GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCCCAA-CTCATTGAG
43446196 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
43446210 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 4 0.06
93 67 0.94
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCCCAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:43447687 original size:55 final size:53
Alignment explanation
Indices: 43447600--43447854 Score: 254
Period size: 55 Copynumber: 4.8 Consensus size: 53
43447590 ATTAGGGTTT
* *
43447600 AAGGATACCATGTAAGACGATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTTCTAAGGC
* * * * * *
43447655 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAAGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT--TCTAAGGC
* * *
43447710 AAAGG-TCCCATGTAAGACCATGCCAAGACATGGCATTAGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC-TAAGGC
* *
43447763 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTT-TAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGC
* * *
43447812 AAGGATACCACGTAAGACCATGACAAGTCATGGC-TATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAT-TGGTAAG
43447855 GTACCCGTGT
Statistics
Matches: 167, Mismatches: 26, Indels: 20
0.78 0.12 0.09
Matches are distributed among these distances:
49 38 0.23
52 8 0.05
53 41 0.25
54 10 0.06
55 66 0.40
56 4 0.02
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGC
Found at i:43447806 original size:108 final size:110
Alignment explanation
Indices: 43447607--43447807 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
43447597 TTTAAGGATA
* * * *
43447607 CCATGTAAGACGATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGACATGGCAATTAGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
43447672 CCATGTCAAGACATGGCATTGATAAGTTACTATAAAGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAAGCAAAGGTC
* *
43447717 CCATGTAAGACCATGCCAAGACATGGC-ATTAGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGACATGGCAATTAGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
43447779 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
43447808 TTAAAAGGAT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.59
109 6 0.07
110 25 0.30
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGACATGGCAATTAGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAAGCAAAGGTC
Found at i:43447949 original size:23 final size:24
Alignment explanation
Indices: 43447923--43447967 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
43447913 AAGGTAAGGT
*
43447923 AAGGTAAGACGAGTT-ATGCTAAA
1 AAGGTAAGACAAGTTCATGCTAAA
*
43447946 AAGGTAAGGCAAGTTCATGCTA
1 AAGGTAAGACAAGTTCATGCTA
43447968 GAAGAGCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.40, C:0.11, G:0.27, T:0.22
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATGCTAAA
Found at i:43448067 original size:16 final size:16
Alignment explanation
Indices: 43448046--43448076 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
43448036 ATAAATTTGA
43448046 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
43448062 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
43448077 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:43457565 original size:46 final size:46
Alignment explanation
Indices: 43457498--43457714 Score: 310
Period size: 46 Copynumber: 4.7 Consensus size: 46
43457488 TGGCAACCTG
*
43457498 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* *
43457544 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
*
43457590 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* ** *
43457636 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG-AAA
* * * *
43457682 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
43457715 TCACGTCAAA
Statistics
Matches: 157, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 156 0.99
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
Found at i:43457692 original size:138 final size:130
Alignment explanation
Indices: 43457449--43457714 Score: 354
Period size: 138 Copynumber: 2.0 Consensus size: 130
43457439 AGTGTGCTCT
*
43457449 CTGATATGAAATGTGTAAGACCATGGTTAAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTAAAAGATACCATGGCAACCTGTGAGTAAGACCATGGT
* * * * *
43457514 TGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
* * *
43457579 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAG
1 CTGATATGAAATGTGTAAGACCATGGTTAAAAGATACCATGGCAACCTG---TG---AG--TAAG
43457644 ACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACAC
58 ACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAGTAAGACCATAGTTGAAAGACAC
*
43457708 TATGGCA
122 CATGGCA
43457715 TCACGTCAAA
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
130 46 0.39
133 2 0.02
136 1 0.01
137 1 0.01
138 67 0.57
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (130 bp):
CTGATATGAAATGTGTAAGACCATGGTTAAAAGATACCATGGCAACCTGTGAGTAAGACCATGGT
TGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
Found at i:43458020 original size:23 final size:25
Alignment explanation
Indices: 43457975--43458021 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
43457965 AATAAATATA
*
43457975 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
43458000 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
43458022 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:43459521 original size:42 final size:42
Alignment explanation
Indices: 43459449--43459564 Score: 108
Period size: 42 Copynumber: 2.8 Consensus size: 42
43459439 TCGTTTCAAT
** * * * *
43459449 GCCATATCCCTTATATGGTCTTACATGAAAT-ATCATATCGAC
1 GCCATATCCCCGACATGGTCTTATACGAAATCA-CATACCGAC
* *
43459491 GCCATGTCCCCGACATGGTCTTATACGAAATCACATACCGAG
1 GCCATATCCCCGACATGGTCTTATACGAAATCACATACCGAC
** * *
43459533 GCCATATCCTGGATATGGTCTTATACGGAATC
1 GCCATATCCCCGACATGGTCTTATACGAAATC
43459565 TTAATAACCT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 59 0.98
43 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (42 bp):
GCCATATCCCCGACATGGTCTTATACGAAATCACATACCGAC
Found at i:43466937 original size:138 final size:138
Alignment explanation
Indices: 43466689--43466963 Score: 541
Period size: 138 Copynumber: 2.0 Consensus size: 138
43466679 TTAGAATTTG
43466689 TTGATATGATTTCCAAATGAAATCCCATTCCTATTTATAGGAATTTTCATGTCTCTTCATAGAGA
1 TTGATATGATTTCCAAATGAAATCCCATTCCTATTTATAGGAATTTTCATGTCTCTTCATAGAGA
43466754 CATCTTTCAATAGGTCTCTTTATGAATAAATAAATAATAATAATTATTCATTTAATTTTGTAACT
66 CATCTTTCAATAGGTCTCTTTATGAATAAATAAATAATAATAATTATTCATTTAATTTTGTAACT
43466819 ATTCAAAA
131 ATTCAAAA
43466827 TTGATATGATTTCCAAATGAAATCCCATTCCTATTTATAGGAATTTTCATGTCTCTTCATAGAGA
1 TTGATATGATTTCCAAATGAAATCCCATTCCTATTTATAGGAATTTTCATGTCTCTTCATAGAGA
*
43466892 CATCTTTCAATAGGTGTCTTTATGAATAAATAAATAATAATAATTATTCATTTAATTTTGTAACT
66 CATCTTTCAATAGGTCTCTTTATGAATAAATAAATAATAATAATTATTCATTTAATTTTGTAACT
43466957 ATTCAAA
131 ATTCAAA
43466964 TAATATTTTT
Statistics
Matches: 136, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
138 136 1.00
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.41
Consensus pattern (138 bp):
TTGATATGATTTCCAAATGAAATCCCATTCCTATTTATAGGAATTTTCATGTCTCTTCATAGAGA
CATCTTTCAATAGGTCTCTTTATGAATAAATAAATAATAATAATTATTCATTTAATTTTGTAACT
ATTCAAAA
Found at i:43473573 original size:80 final size:80
Alignment explanation
Indices: 43473440--43473647 Score: 303
Period size: 80 Copynumber: 2.6 Consensus size: 80
43473430 TGAATGATAT
* * *
43473440 CCGGGCTAAGTCCCGAAGGCAATCGTGCTAGTGATTTTATCCGGGCCAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
*
43473505 TGCGAGTTGCTATAC
66 TGCGAGTTGATATAC
*
43473520 CCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
*
43473585 TGCGAGTTGATATAT
66 TGCGAGTTGATATAC
* * * *
43473600 CCGGGCTAAGACCCG-AGTGCATTTGTGCTTGTGGTTATATCC-GGCTAA
1 CCGGGCTAAGACCCGAAG-GCAATTGTGCTAGTGATTTTATCCGGGCTAA
43473648 ATTCCGAAGA
Statistics
Matches: 116, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
79 8 0.07
80 108 0.93
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
TGCGAGTTGATATAC
Found at i:43473622 original size:40 final size:40
Alignment explanation
Indices: 43473436--43473647 Score: 234
Period size: 40 Copynumber: 5.3 Consensus size: 40
43473426 CATTTGAATG
* * * *
43473436 ATATCCGGGCTAAGTCCCGAAGGCAATCGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
* * *
43473476 TTATCCGGGCCAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
* * * *
43473516 ATACCCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
*
43473556 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
** *
43473596 ATATCCGGGCTAAGACCCG-AGTGCATTTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAG-GCATTTGTGCGAGTGATT
43473636 ATATCC-GGCTAA
1 ATATCCGGGCTAA
43473648 ATTCCGAAGA
Statistics
Matches: 144, Mismatches: 23, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
39 12 0.08
40 127 0.88
41 5 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
Found at i:43479871 original size:40 final size:40
Alignment explanation
Indices: 43479153--43479857 Score: 1410
Period size: 40 Copynumber: 17.6 Consensus size: 40
43479143 NNNNNNNNNN
43479153 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
43479193 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
43479233 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
43479273 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
43479313 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
43479353 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
43479393 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
43479433 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
43479473 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
43479513 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
43479553 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
43479593 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
43479633 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
43479673 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
43479713 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
43479753 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
43479793 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
43479833 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
43479858 AGCAAGTAGC
Statistics
Matches: 665, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 665 1.00
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:43486525 original size:24 final size:25
Alignment explanation
Indices: 43486476--43486525 Score: 59
Period size: 24 Copynumber: 2.0 Consensus size: 25
43486466 ACCCTTCTCA
*
43486476 TCTCTTCACTTCTCTCTCATTTTTC
1 TCTCTTCACTTCTCTCTCATTGTTC
*
43486501 TCTCTTCA-TTCATTTC-CATTGTTC
1 TCTCTTCACTTC-TCTCTCATTGTTC
43486525 T
1 T
43486526 TCATTTTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.10, C:0.32, G:0.02, T:0.56
Consensus pattern (25 bp):
TCTCTTCACTTCTCTCTCATTGTTC
Found at i:43495194 original size:6 final size:6
Alignment explanation
Indices: 43495178--43495220 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
43495168 CCCAAAAGAA
* *
43495178 AATTTT CATTTT AATTTT AATTTT -ATTTCC AATTTT AATTTT A
1 AATTTT AATTTT AATTTT AATTTT AATTT-T AATTTT AATTTT A
43495221 TTATTTTGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
5 4 0.13
6 23 0.74
7 4 0.13
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (6 bp):
AATTTT
Found at i:43496673 original size:19 final size:19
Alignment explanation
Indices: 43496651--43496690 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
43496641 ATCTTATCTC
43496651 ATTCA-TTCCATTTAGATTA
1 ATTCATTTCCATTTAG-TTA
*
43496670 ATTCATTTGCATTTAGTTA
1 ATTCATTTCCATTTAGTTA
43496689 AT
1 AT
43496691 AATAATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.30, C:0.12, G:0.07, T:0.50
Consensus pattern (19 bp):
ATTCATTTCCATTTAGTTA
Found at i:43500835 original size:23 final size:23
Alignment explanation
Indices: 43500804--43500847 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
43500794 AGTTTAATTA
*
43500804 ATTTTGGGTTAGGGTTTTTTAGG
1 ATTTAGGGTTAGGGTTTTTTAGG
*
43500827 ATTTAGGGTTATGGTTTTTTA
1 ATTTAGGGTTAGGGTTTTTTA
43500848 ATGTTAAGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.30, T:0.55
Consensus pattern (23 bp):
ATTTAGGGTTAGGGTTTTTTAGG
Found at i:43501011 original size:19 final size:19
Alignment explanation
Indices: 43500961--43501050 Score: 114
Period size: 19 Copynumber: 4.8 Consensus size: 19
43500951 AGTTTAGGGT
43500961 ATTAAGGTTAATTGATTAA
1 ATTAAGGTTAATTGATTAA
*
43500980 ATT-AGG--GATTGATTAA
1 ATTAAGGTTAATTGATTAA
*
43500996 ATTAAGGCTAATTGATTAA
1 ATTAAGGTTAATTGATTAA
43501015 ATTTAAGGTTAATTGATTAA
1 A-TTAAGGTTAATTGATTAA
* *
43501035 TTTAGGGTTAATTGAT
1 ATTAAGGTTAATTGAT
43501051 ACATAATGGT
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
16 12 0.19
17 3 0.05
18 3 0.05
19 27 0.44
20 17 0.27
ACGTcount: A:0.38, C:0.01, G:0.19, T:0.42
Consensus pattern (19 bp):
ATTAAGGTTAATTGATTAA
Found at i:43501047 original size:39 final size:35
Alignment explanation
Indices: 43500961--43501050 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 35
43500951 AGTTTAGGGT
*
43500961 ATTAAGGTTAATTGATTAAATTAGGGATTGATTAA
1 ATTAAGGTTAATTGATTAAATTAGGAATTGATTAA
*
43500996 ATTAAGGCTAATTGATTAAATTTAAGGTTAATTGATTAA
1 ATTAAGGTTAATTGATTAAA-TT-AGG--AATTGATTAA
* *
43501035 TTTAGGGTTAATTGAT
1 ATTAAGGTTAATTGAT
43501051 ACATAATGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
35 19 0.41
36 2 0.04
37 3 0.07
39 22 0.48
ACGTcount: A:0.38, C:0.01, G:0.19, T:0.42
Consensus pattern (35 bp):
ATTAAGGTTAATTGATTAAATTAGGAATTGATTAA
Found at i:43501809 original size:126 final size:126
Alignment explanation
Indices: 43501584--43501838 Score: 402
Period size: 126 Copynumber: 2.0 Consensus size: 126
43501574 TTTCTACAAG
* *
43501584 AATAATTTTGAGTAGACGTTTCAGAATAAATAGTGTCGAAAACGCTTCAAACAGGATGCACTATC
1 AATAATTCTGAGTAGACGTTTCAGAACAAATAGTGTCGAAAACGCTTCAAACAGGATGCACTATC
* *
43501649 AGCAAAATTTCTAAAAAAAGCTCCCACGTAGACGCTCTTTTACTACAGTAGTTCGTAGAAA
66 AACAAAATTTCTAAAAAAAGCTCCCACATAGACGCTCTTTTACTACAGTAGTTCGTAGAAA
* * * *
43501710 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTGGAAAACGCTTCAAGCAGGATGCACTGTC
1 AATAATTCTGAGTAGACGTTTCAGAACAAATAGTGTCGAAAACGCTTCAAACAGGATGCACTATC
* * * *
43501775 AACAAAATTTCTGAAAAAAGCTCCCACATTGACGCTCTTTTGCTACAGTGGTTCGTAGAAA
66 AACAAAATTTCTAAAAAAAGCTCCCACATAGACGCTCTTTTACTACAGTAGTTCGTAGAAA
43501836 AAT
1 AAT
43501839 GAGGCTATAA
Statistics
Matches: 117, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
126 117 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.27
Consensus pattern (126 bp):
AATAATTCTGAGTAGACGTTTCAGAACAAATAGTGTCGAAAACGCTTCAAACAGGATGCACTATC
AACAAAATTTCTAAAAAAAGCTCCCACATAGACGCTCTTTTACTACAGTAGTTCGTAGAAA
Found at i:43504938 original size:17 final size:17
Alignment explanation
Indices: 43504916--43504950 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
43504906 AGGAAAAGGA
*
43504916 AACATATAAGGGTTAGG
1 AACATATAAGGGCTAGG
43504933 AACATATAAGGGCTAGG
1 AACATATAAGGGCTAGG
43504950 A
1 A
43504951 TACGCACCTG
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:0.43, C:0.09, G:0.29, T:0.20
Consensus pattern (17 bp):
AACATATAAGGGCTAGG
Found at i:43506629 original size:49 final size:46
Alignment explanation
Indices: 43506532--43506666 Score: 146
Period size: 49 Copynumber: 2.8 Consensus size: 46
43506522 ATGAAAACAT
* **
43506532 CATAAATGAAAAAAAATCAAGCAGTATTGAAATTTTAATTATAATTG
1 CATAAATGAAAAAATATCAAATAGTATTGAAA-TTTAATTATAATTG
*
43506579 CATAAATGAATAAAATATCAAATAGTGTTTGCAAATTTAATTA-AATTTG
1 CATAAATGAA-AAAATATCAAATAGT-ATTG-AAATTTAATTATAA-TTG
* *
43506628 CATAAATTAAAATAATATCGAATAGTATTGAAAATTTAA
1 CATAAATGAAAA-AATATCAAATAGTATTG-AAATTTAA
43506667 AATTATCACT
Statistics
Matches: 75, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
47 10 0.13
48 27 0.36
49 35 0.47
50 3 0.04
ACGTcount: A:0.50, C:0.06, G:0.10, T:0.34
Consensus pattern (46 bp):
CATAAATGAAAAAATATCAAATAGTATTGAAATTTAATTATAATTG
Found at i:43506816 original size:11 final size:11
Alignment explanation
Indices: 43506800--43506886 Score: 77
Period size: 11 Copynumber: 7.9 Consensus size: 11
43506790 ATTTAAACAA
43506800 AGAATTTTGAT
1 AGAATTTTGAT
43506811 AGAATTTTGAT
1 AGAATTTTGAT
*
43506822 AGAATTTTGAG
1 AGAATTTTGAT
* **
43506833 AAAATTTCAAT
1 AGAATTTTGAT
43506844 -GAATTTTGAT
1 AGAATTTTGAT
* *
43506854 AGATTTTTGAAG
1 AGAATTTTG-AT
* *
43506866 AGAATATTGAA
1 AGAATTTTGAT
*
43506877 AGAATATTGA
1 AGAATTTTGA
43506887 GAATTATGAG
Statistics
Matches: 61, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
10 7 0.11
11 46 0.75
12 8 0.13
ACGTcount: A:0.41, C:0.01, G:0.18, T:0.39
Consensus pattern (11 bp):
AGAATTTTGAT
Found at i:43508476 original size:30 final size:32
Alignment explanation
Indices: 43508407--43508472 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 32
43508397 AAGGTTATAA
*
43508407 TAAAATTTAAATTTTGTTATTTTCTGTATATT
1 TAAAATTTAAATTTTGTTATTTTATGTATATT
* *
43508439 TAGAATTT-AATTTT-TTATTTTATTTA-ATT
1 TAAAATTTAAATTTTGTTATTTTATGTATATT
43508468 TAAAA
1 TAAAA
43508473 ATTTCAGTCC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 7 0.23
30 10 0.33
31 6 0.20
32 7 0.23
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.59
Consensus pattern (32 bp):
TAAAATTTAAATTTTGTTATTTTATGTATATT
Found at i:43515313 original size:8 final size:8
Alignment explanation
Indices: 43515280--43515321 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 8
43515270 AAATTTATTA
43515280 AAAATTATT
1 AAAATT-TT
43515289 AAAAATTTT
1 -AAAATTTT
*
43515298 -AGATTTT
1 AAAATTTT
43515305 AAAATTTT
1 AAAATTTT
43515313 AAAATTTT
1 AAAATTTT
43515321 A
1 A
43515322 TATAAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 6 0.21
8 15 0.52
9 2 0.07
10 6 0.21
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (8 bp):
AAAATTTT
Found at i:43516269 original size:36 final size:35
Alignment explanation
Indices: 43516229--43516326 Score: 107
Period size: 30 Copynumber: 2.9 Consensus size: 35
43516219 GAATCTTCCG
* *
43516229 AAGCTCCTGAATGAGATATCAAGTTTTCTCAATCCC
1 AAGCTCCTGAACGAGATATCGAG-TTTCTCAATCCC
* *
43516265 AAGCTCCTAAACGCGATATCGAG--TCT---TCCC
1 AAGCTCCTGAACGAGATATCGAGTTTCTCAATCCC
43516295 AAGCTCCTGAACGAGATATCGAGTCTTCTCAA
1 AAGCTCCTGAACGAGATATCGAGT-TTCTCAA
43516327 GTTCTTGAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
30 25 0.50
33 6 0.12
36 19 0.38
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.27
Consensus pattern (35 bp):
AAGCTCCTGAACGAGATATCGAGTTTCTCAATCCC
Found at i:43516297 original size:30 final size:30
Alignment explanation
Indices: 43516261--43516347 Score: 129
Period size: 30 Copynumber: 2.9 Consensus size: 30
43516251 GTTTTCTCAA
* *
43516261 TCCCAAGCTCCTAAACGCGATATCGAGTCT
1 TCCCAAGCTCCTGAACGAGATATCGAGTCT
43516291 TCCCAAGCTCCTGAACGAGATATCGAGTCT
1 TCCCAAGCTCCTGAACGAGATATCGAGTCT
* * *
43516321 TCTCAAGTTCTTGAACGAGATATCGAG
1 TCCCAAGCTCCTGAACGAGATATCGAG
43516348 AATTATAATG
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (30 bp):
TCCCAAGCTCCTGAACGAGATATCGAGTCT
Found at i:43519913 original size:6 final size:6
Alignment explanation
Indices: 43519902--43519931 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
43519892 TTCAACCTTT
43519902 ATTTTA ATTTTA ATTTTA ATTTTA TATTTT
1 ATTTTA ATTTTA ATTTTA ATTTTA -ATTTT
43519932 TTAGTTGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.78
7 5 0.22
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
ATTTTA
Found at i:43520078 original size:35 final size:35
Alignment explanation
Indices: 43520026--43520105 Score: 108
Period size: 35 Copynumber: 2.3 Consensus size: 35
43520016 GAAAAAAAAT
* *
43520026 TTGCCTTAAATGTGTCTATCCCAA-CCTTTTGAAGG
1 TTGCCTTAGATGGGTCTATCCCAACCCTTTT-AAGG
* *
43520061 TTGCCTTAGATGGGTCTATTCTAACCCTTTTAAGG
1 TTGCCTTAGATGGGTCTATCCCAACCCTTTTAAGG
43520096 TTGCCTTAGA
1 TTGCCTTAGA
43520106 ACCTATCTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
35 34 0.85
36 6 0.15
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39
Consensus pattern (35 bp):
TTGCCTTAGATGGGTCTATCCCAACCCTTTTAAGG
Found at i:43520125 original size:35 final size:35
Alignment explanation
Indices: 43520040--43520126 Score: 95
Period size: 35 Copynumber: 2.5 Consensus size: 35
43520030 CTTAAATGTG
** *
43520040 TCTATCCCAACCTTTTGAAGGTTGCCTTAGATGGG
1 TCTATCCCAACCTTTTGAAGGTTGCCTTAGACCGA
* * *
43520075 TCTATTCTAACCCTTTT-AAGGTTGCCTTAGAACCTA
1 TCTATCCCAA-CCTTTTGAAGGTTGCCTTAG-ACCGA
43520111 TCTATCCCAACCTTTT
1 TCTATCCCAACCTTTT
43520127 TAACGTCACA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
35 27 0.64
36 15 0.36
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.38
Consensus pattern (35 bp):
TCTATCCCAACCTTTTGAAGGTTGCCTTAGACCGA
Found at i:43521665 original size:18 final size:18
Alignment explanation
Indices: 43521633--43521682 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
43521623 TTCTTTTACA
*
43521633 ATTTTTATGATTTTTTAAT
1 ATTTTTAT-ATTTTTCAAT
*
43521652 ATTTTTACTATTTTTCATT
1 ATTTTTA-TATTTTTCAAT
43521671 ATTTTTATATTT
1 ATTTTTATATTT
43521683 AAAAAATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 5 0.18
19 22 0.79
20 1 0.04
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.70
Consensus pattern (18 bp):
ATTTTTATATTTTTCAAT
Found at i:43521677 original size:28 final size:27
Alignment explanation
Indices: 43521576--43521682 Score: 76
Period size: 28 Copynumber: 3.8 Consensus size: 27
43521566 TTATAATTCA
* *
43521576 ATTTTTAT-ATTTTTATATGTTTATATATT
1 ATTTTTATAATTTTTA-ATATTT-T-TACT
* *
43521605 ATTTTTAATAATTTATAAT-TCTTTTACA
1 ATTTTT-ATAATTTTTAATAT-TTTTACT
*
43521633 ATTTTTATGATTTTTTAATATTTTTACT
1 ATTTTTAT-AATTTTTAATATTTTTACT
*
43521661 ATTTTTCATTATTTTT-ATATTT
1 ATTTTT-ATAATTTTTAATATTT
43521683 AAAAAATATT
Statistics
Matches: 64, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
27 8 0.12
28 33 0.52
29 11 0.17
30 6 0.09
31 6 0.09
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (27 bp):
ATTTTTATAATTTTTAATATTTTTACT
Found at i:43529029 original size:3 final size:3
Alignment explanation
Indices: 43529023--43529057 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
43529013 AATAATAATA
43529023 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
43529058 ATTTTCATCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:43530012 original size:116 final size:116
Alignment explanation
Indices: 43529875--43530307 Score: 449
Period size: 116 Copynumber: 3.8 Consensus size: 116
43529865 GTTCTGTTCA
* *
43529875 TGTTTTCTGTTTCCAGTTCATTGTACATTTTGCATTTTCCATCCATTGAATGGACTGATGTTTTC
1 TGTTTTCTGTTTCCATTTCATTGTACATTTTGCATTTTCCATCCATTGAATGGAGTGA-GTTTTC
*
43529940 GGG-TTTCCATTTCATTTCTTTCAAGTGTCTGGTCTTTATAATG-TCCGATCG
65 GGGTTTTCCATTTCATTGCTTTCAAGTGTCTGGTCTTTATAATGTTCCG-TCG
* * * ** * *** *
43529991 TATCTTCTGTTTCCATTTCATTTTACGCTTTGTATTTTCCATGGGTTGAATGGAGTGACTTTTCC
1 TGTTTTCTGTTTCCATTTCATTGTACATTTTGCATTTTCCATCCATTGAATGGAGTGAGTTTT-C
* * *
43530056 GGG-TTTCCATTTCACTGCTTTCAAGTGTCTGGCCTTTATAA-GTTCCGTTG
65 GGGTTTTCCATTTCATTGCTTTCAAGTGTCTGGTCTTTATAATGTTCCGTCG
* * *
43530106 TTGTTTTCTGTTT-C----CATT-T-CATTTTGCATTTTTCATCCACTAAATGGAGTGAGTTTTT
1 -TGTTTTCTGTTTCCATTTCATTGTACATTTTGCATTTTCCATCCATTGAATGGAGTGAG-TTTT
* * * * * * *
43530164 TGGGTTTTCTAGTTCATTGCTTTCAAATGTCTGCTCTTTGT-ATGTTCTGTTCG
64 CGGGTTTTCCATTTCATTGCTTTCAAGTGTCTGGTCTTTATAATGTTCCG-TCG
* * * *
43530217 TGTTTTCTGATTCCATTTCATTGTACATTTTGCATTTTCTATTCATTGAATGGAGTGAGTTTTTG
1 TGTTTTCTGTTTCCATTTCATTGTACATTTTGCATTTTCCATCCATTGAATGGAGTGAGTTTTCG
*
43530282 GGTTTTCCAATTCATTGCTTTCAAGT
66 GGTTTTCCATTTCATTGCTTTCAAGT
43530308 ACTCTTCATA
Statistics
Matches: 256, Mismatches: 47, Indels: 28
0.77 0.14 0.08
Matches are distributed among these distances:
109 28 0.11
110 50 0.20
111 7 0.03
115 12 0.05
116 130 0.51
117 29 0.11
ACGTcount: A:0.16, C:0.18, G:0.18, T:0.49
Consensus pattern (116 bp):
TGTTTTCTGTTTCCATTTCATTGTACATTTTGCATTTTCCATCCATTGAATGGAGTGAGTTTTCG
GGTTTTCCATTTCATTGCTTTCAAGTGTCTGGTCTTTATAATGTTCCGTCG
Found at i:43530221 original size:110 final size:114
Alignment explanation
Indices: 43530039--43530305 Score: 282
Period size: 110 Copynumber: 2.4 Consensus size: 114
43530029 CCATGGGTTG
* ** * * *
43530039 AATGGAGTGACTTTTCCGGG-TTTCCATTTCACTGCTTTCAAGTGTCTGGCCTTTATAAGTTCCG
1 AATGGAGTGAGTTTTTTGGGTTTTCCAATTCATTGCTTTCAAATGTCTGGCCTTTATAAGTTCCG
43530103 TTGTTGTTTTCTG-T-TTCCATT-T-CATTTTGCATTTT-TCATCCACTA
66 TTGTTGTTTTCTGATCTTCCATTGTACATTTTGCATTTTCT-ATCCACTA
* * * * *
43530148 AATGGAGTGAGTTTTTTGGGTTTTCTAGTTCATTGCTTTCAAATGTCT-GCTCTTTGTATGTTCT
1 AATGGAGTGAGTTTTTTGGGTTTTCCAATTCATTGCTTTCAAATGTCTGGC-CTTTATAAGTTCC
* * * *
43530212 GTTCG-TGTTTTCTGATTCCATTTCATTGTACATTTTGCATTTTCTATTCATTG
65 GTT-GTTGTTTTCTGA-T-C-TTCCATTGTACATTTTGCATTTTCTATCCACTA
43530265 AATGGAGTGAG-TTTTTGGGTTTTCCAATTCATTGCTTTCAA
1 AATGGAGTGAGTTTTTTGGGTTTTCCAATTCATTGCTTTCAA
43530306 GTACTCTTCA
Statistics
Matches: 131, Mismatches: 16, Indels: 15
0.81 0.10 0.09
Matches are distributed among these distances:
109 19 0.15
110 45 0.34
111 1 0.01
112 1 0.01
115 6 0.05
116 29 0.22
117 29 0.22
118 1 0.01
ACGTcount: A:0.16, C:0.17, G:0.18, T:0.49
Consensus pattern (114 bp):
AATGGAGTGAGTTTTTTGGGTTTTCCAATTCATTGCTTTCAAATGTCTGGCCTTTATAAGTTCCG
TTGTTGTTTTCTGATCTTCCATTGTACATTTTGCATTTTCTATCCACTA
Found at i:43530268 original size:226 final size:225
Alignment explanation
Indices: 43529900--43530307 Score: 507
Period size: 226 Copynumber: 1.8 Consensus size: 225
43529890 GTTCATTGTA
* * * * *
43529900 CATTTTGCATTTTCCATCCATTGAATGGACTGATGTTTTCGGGTTTCCATTTCATTTCTTTCAAG
1 CATTTTGCATTTTCCATCCACTAAATGGACTGATGTTTTCGGGTTTCCAGTTCATTGCTTTCAAA
* * * * *
43529965 TGTCTGGTCTTTATAATGTCCGATCGTATCTTCTGTTTCCATTTCATTTTACGCTTTGTATTTTC
66 TGTCTGCTCTTTATAATGTCCGATCGTATCTTCTGATTCCATTTCATTGTACACTTTGCATTTTC
** *
43530030 CATGGGTTGAATGGAGTGACTTTTCCGGG-TTTCCATTTCACTGCTTTCAAGTGTCTGGCCTTTA
131 CATGCATTGAATGGAGTGACTTTT-CGGGTTTTCCAATTCACTGCTTTCAAGTGTCTGGCCTTTA
43530094 TAAGTTCCGTTGTTGTTTTCTGTTTCCATTT
195 TAAGTTCCGTTGTTGTTTTCTGTTTCCATTT
* * * *
43530125 CATTTTGCATTTTTCATCCACTAAATGGAGTGA-GTTTTTTGGGTTTTCTAGTTCATTGCTTTCA
1 CATTTTGCATTTTCCATCCACTAAATGGACTGATG-TTTTCGGG-TTTCCAGTTCATTGCTTTCA
* * * * * *
43530189 AATGTCTGCTCTTTGT-ATGTTCTGTTCGTGTTTTCTGATTCCATTTCATTGTACATTTTGCATT
64 AATGTCTGCTCTTTATAATG-TCCGATCGTATCTTCTGATTCCATTTCATTGTACACTTTGCATT
* * * * *
43530253 TTCTATTCATTGAATGGAGTGAGTTTTTGGGTTTTCCAATTCATTGCTTTCAAGT
128 TTCCATGCATTGAATGGAGTGACTTTTCGGGTTTTCCAATTCACTGCTTTCAAGT
43530308 ACTCTTCATA
Statistics
Matches: 151, Mismatches: 28, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
224 1 0.01
225 42 0.28
226 108 0.72
ACGTcount: A:0.16, C:0.18, G:0.18, T:0.49
Consensus pattern (225 bp):
CATTTTGCATTTTCCATCCACTAAATGGACTGATGTTTTCGGGTTTCCAGTTCATTGCTTTCAAA
TGTCTGCTCTTTATAATGTCCGATCGTATCTTCTGATTCCATTTCATTGTACACTTTGCATTTTC
CATGCATTGAATGGAGTGACTTTTCGGGTTTTCCAATTCACTGCTTTCAAGTGTCTGGCCTTTAT
AAGTTCCGTTGTTGTTTTCTGTTTCCATTT
Found at i:43536264 original size:21 final size:20
Alignment explanation
Indices: 43536226--43536269 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
43536216 ATTTACCTTG
** *
43536226 TTCAGATTGTTGAGGTTCTGT
1 TTCAGATTGCCGAAGTTCT-T
43536247 TTCAGATTGCCGAAGTTCTT
1 TTCAGATTGCCGAAGTTCTT
43536267 TTC
1 TTC
43536270 CAGGATCCTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.16, C:0.16, G:0.23, T:0.45
Consensus pattern (20 bp):
TTCAGATTGCCGAAGTTCTT
Found at i:43539651 original size:21 final size:21
Alignment explanation
Indices: 43539627--43539668 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
43539617 ATGAATTAAA
*
43539627 TTTATTCGTATAGATCCTGTC
1 TTTATTCGTATAGATCATGTC
43539648 TTTATTCGTATAGATCATGTC
1 TTTATTCGTATAGATCATGTC
43539669 AGACCTCATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.48
Consensus pattern (21 bp):
TTTATTCGTATAGATCATGTC
Found at i:43539972 original size:25 final size:24
Alignment explanation
Indices: 43539920--43540007 Score: 72
Period size: 25 Copynumber: 3.6 Consensus size: 24
43539910 TTACCGATTG
* * * *
43539920 CAGCTCTTATAAGCTTACCGTTACT
1 CAGCTCGTATGAGCTTACTGTT-TT
43539945 CAGCTCGTATGAGCTTACTGTTGTT
1 CAGCTCGTATGAGCTTACTGTT-TT
* *
43539970 CAGCTTAG-AGGAGCTTACTGTTTAT
1 CAGC-TCGTATGAGCTTACTGTTT-T
43539995 C-GCTCGTATGAGC
1 CAGCTCGTATGAGC
43540008 ATACATGTAC
Statistics
Matches: 51, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
23 2 0.04
24 8 0.16
25 39 0.76
26 2 0.04
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (24 bp):
CAGCTCGTATGAGCTTACTGTTTT
Found at i:43546376 original size:13 final size:14
Alignment explanation
Indices: 43546343--43546377 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
43546333 ATAATTAAAC
43546343 ATAAAATAAATGAA
1 ATAAAATAAATGAA
*
43546357 ATGAAATAAA-GAA
1 ATAAAATAAATGAA
43546370 ATAAAATA
1 ATAAAATA
43546378 GAAAAAGAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (14 bp):
ATAAAATAAATGAA
Found at i:43550899 original size:35 final size:35
Alignment explanation
Indices: 43550853--43550949 Score: 151
Period size: 35 Copynumber: 2.8 Consensus size: 35
43550843 GATTTTCCTC
*
43550853 ATGGAAAATACCATACCTACGTTTCACAACTCAGT
1 ATGGAAAATACCATACCTACGTTTCACAACTCAAT
* * *
43550888 ATGGAAAATACCATACCTACGTATCATAGCTCAAT
1 ATGGAAAATACCATACCTACGTTTCACAACTCAAT
43550923 ATGG-AAATACCATACCTACGTTTCACA
1 ATGGAAAATACCATACCTACGTTTCACA
43550950 TTTTTCCATG
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
34 21 0.38
35 35 0.62
ACGTcount: A:0.38, C:0.25, G:0.11, T:0.26
Consensus pattern (35 bp):
ATGGAAAATACCATACCTACGTTTCACAACTCAAT
Found at i:43552486 original size:16 final size:16
Alignment explanation
Indices: 43552462--43552496 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
43552452 TGAATTACTG
*
43552462 ATTATAGCTCTATTCC
1 ATTACAGCTCTATTCC
43552478 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
43552494 ATT
1 ATT
43552497 CACCCCAACT
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:0.26, C:0.26, G:0.06, T:0.43
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:43555534 original size:21 final size:21
Alignment explanation
Indices: 43555508--43555551 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
43555498 CATAACATTA
43555508 CCTTTTAAATGTGTACAATAT
1 CCTTTTAAATGTGTACAATAT
43555529 CCTTTTAAATGTGTACAATAT
1 CCTTTTAAATGTGTACAATAT
43555550 CC
1 CC
43555552 GACCCAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.41
Consensus pattern (21 bp):
CCTTTTAAATGTGTACAATAT
Found at i:43562318 original size:24 final size:24
Alignment explanation
Indices: 43562290--43562347 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
43562280 GTAAATAGAA
43562290 GAAAGAAAAATGGGAAAGTTGAAG
1 GAAAGAAAAATGGGAAAGTTGAAG
43562314 GAAAGAAAAATGGGAAAGTTGAAG
1 GAAAGAAAAATGGGAAAGTTGAAG
*
43562338 GAAAAAAAAA
1 GAAAGAAAAA
43562348 AGAAGCACAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.60, C:0.00, G:0.29, T:0.10
Consensus pattern (24 bp):
GAAAGAAAAATGGGAAAGTTGAAG
Found at i:43568397 original size:24 final size:26
Alignment explanation
Indices: 43568369--43568427 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
43568359 TAGCTCTATA
*
43568369 AAGCTTACCATTT-TCAACTCAATAG
1 AAGCTTACCATTTATCAACTCAAGAG
***
43568394 -AGCTTATTGTTTATCAACTCAAGAG
1 AAGCTTACCATTTATCAACTCAAGAG
43568419 AAGCTTACC
1 AAGCTTACC
43568428 GACCATGAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
24 9 0.35
25 11 0.42
26 6 0.23
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.32
Consensus pattern (26 bp):
AAGCTTACCATTTATCAACTCAAGAG
Found at i:43570615 original size:41 final size:40
Alignment explanation
Indices: 43570488--43570632 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
43570478 CTCGCACAAG
* * * * *
43570488 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
43570528 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
43570568 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
43570609 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
43570633 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:43571863 original size:38 final size:38
Alignment explanation
Indices: 43571821--43571896 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
43571811 CAAGAACTCC
*
43571821 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTGTCGGCCAAAAGAAATGAA
43571859 TTCCTCCTTCCTTAGAATTGTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTGTCGGCCAAAAGAAATGAA
43571897 AAAGGATGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTGTCGGCCAAAAGAAATGAA
Found at i:43578580 original size:40 final size:40
Alignment explanation
Indices: 43578543--43578675 Score: 223
Period size: 40 Copynumber: 3.3 Consensus size: 40
43578533 GCTACTCGTT
* *
43578543 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
43578583 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
43578623 CAAAGGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
43578663 CAAATGCCTTCGG
1 CAAATGCCTTCGG
43578676 NNNNNNNNNN
Statistics
Matches: 88, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
40 86 0.98
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:43584091 original size:39 final size:40
Alignment explanation
Indices: 43584046--43584213 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
43584036 CGGGGTTTAG
* * *
43584046 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
43584085 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
43584125 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
43584165 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
43584206 CCGGATAT
1 CCGGATAT
43584214 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:43584196 original size:41 final size:40
Alignment explanation
Indices: 43584069--43584213 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
43584059 CTCGCACAAG
* * * * *
43584069 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
43584109 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
43584149 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
43584190 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
43584214 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:43589223 original size:52 final size:53
Alignment explanation
Indices: 43589115--43589253 Score: 190
Period size: 52 Copynumber: 2.6 Consensus size: 53
43589105 CTTAATTTTC
* * * * *
43589115 CCATGTGATGCCATAACCCACCAATTATGGTCTTATACGATATGGTCTTCTTT
1 CCATGTGATGCCATAACCCACCAGTTACGGTCTTATACAATATGATCTTATTT
* *
43589168 CCATGTGATGCCATAA-CCATCAGTTACGGTTTTATACAATATGATCTTATTT
1 CCATGTGATGCCATAACCCACCAGTTACGGTCTTATACAATATGATCTTATTT
* *
43589220 CCATATGATGTCATAACCCACCAGTTACGGTCTT
1 CCATGTGATGCCATAACCCACCAGTTACGGTCTT
43589254 GCACGATATG
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
52 43 0.58
53 31 0.42
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (53 bp):
CCATGTGATGCCATAACCCACCAGTTACGGTCTTATACAATATGATCTTATTT
Found at i:43594331 original size:41 final size:41
Alignment explanation
Indices: 43594183--43594471 Score: 262
Period size: 41 Copynumber: 7.0 Consensus size: 41
43594173 TATCTGATAG
* * ** *
43594183 AATACACCAGCACAAAGCATGCTAGGCTTAAGGCCTG-ATAC
1 AATACACCAGCACTAAGCCTGCTAGGCACAAAGCCTGAAT-C
* ** * * *
43594224 AATACATC-GACAAGAAGCTTGCTAGGCTCAAGGCCTG-ATAC
1 AATACACCAG-CACTAAGCCTGCTAGGCACAAAGCCTGAAT-C
* * * *
43594265 AATATACC-GACACGAAGCCTACTAGGCACAAAGCTTGAATC
1 AATACACCAG-CACTAAGCCTGCTAGGCACAAAGCCTGAATC
* ** *
43594306 AATACACCAGTACTAAGTTTGCTAGGCACAAAACCTGAATC
1 AATACACCAGCACTAAGCCTGCTAGGCACAAAGCCTGAATC
*
43594347 AATAACACCGGCACTAAGCCTGCTAGGCACAAAGCCTGAATC
1 AAT-ACACCAGCACTAAGCCTGCTAGGCACAAAGCCTGAATC
* * * *
43594389 AATGCACCAACACTAAGTCTGCTAGACACAAAGCCTGAATC
1 AATACACCAGCACTAAGCCTGCTAGGCACAAAGCCTGAATC
** *
43594430 AATACACCAGCACTAAGCCTATTAGGCACAAAGCTTGAATC
1 AATACACCAGCACTAAGCCTGCTAGGCACAAAGCCTGAATC
43594471 A
1 A
43594472 TTATTTCCAA
Statistics
Matches: 206, Mismatches: 38, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
40 1 0.00
41 166 0.81
42 39 0.19
ACGTcount: A:0.38, C:0.27, G:0.17, T:0.18
Consensus pattern (41 bp):
AATACACCAGCACTAAGCCTGCTAGGCACAAAGCCTGAATC
Found at i:43594389 original size:83 final size:82
Alignment explanation
Indices: 43594264--43594471 Score: 290
Period size: 83 Copynumber: 2.5 Consensus size: 82
43594254 AGGCCTGATA
* * * ** *
43594264 CAATATACCGACACGAAGCCTACTAGGCACAAAGCTTGAATCAATACACCAGTACTAAGTTTGCT
1 CAATACACCGGCACTAAGCCTACTAGGCACAAAGCTTGAATCAATACACCAACACTAAGTCTGCT
*
43594329 AGGCACAAAACCTGAAT
66 AGACACAAAACCTGAAT
* * *
43594346 CAATAACACCGGCACTAAGCCTGCTAGGCACAAAGCCTGAATCAATGCACCAACACTAAGTCTGC
1 CAAT-ACACCGGCACTAAGCCTACTAGGCACAAAGCTTGAATCAATACACCAACACTAAGTCTGC
*
43594411 TAGACACAAAGCCTGAAT
65 TAGACACAAAACCTGAAT
* *
43594429 CAATACACCAGCACTAAGCCTATTAGGCACAAAGCTTGAATCA
1 CAATACACCGGCACTAAGCCTACTAGGCACAAAGCTTGAATCA
43594472 TTATTTCCAA
Statistics
Matches: 110, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
82 39 0.35
83 71 0.65
ACGTcount: A:0.38, C:0.28, G:0.16, T:0.18
Consensus pattern (82 bp):
CAATACACCGGCACTAAGCCTACTAGGCACAAAGCTTGAATCAATACACCAACACTAAGTCTGCT
AGACACAAAACCTGAAT
Found at i:43596918 original size:43 final size:42
Alignment explanation
Indices: 43596852--43597010 Score: 133
Period size: 43 Copynumber: 3.7 Consensus size: 42
43596842 ATCTCGTACA
* * *
43596852 ATGCCAACGTCCAAGACGTGGTCTTACATGTAATCAAATATTG
1 ATGCCATCGTCCCAGACGTGGTCTTACACGTAATCAAATA-TG
* **
43596895 ATGCCA-CTGTCCTAGACAG-GGTCTTACACAAAATCAAATATG
1 ATGCCATC-GTCCCAGAC-GTGGTCTTACACGTAATCAAATATG
* ***
43596937 ATGTCATCGTCCCAGACGTGGTCTTACACGTAAATCATAAGCCG
1 ATGCCATCGTCCCAGACGTGGTCTTACACGT-AATCA-AATATG
* * * *
43596981 ATGCCAACATCCCAAATGTGGTCTTACACG
1 ATGCCATCGTCCCAGACGTGGTCTTACACG
43597011 AAAACACATA
Statistics
Matches: 94, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
41 1 0.01
42 26 0.28
43 38 0.40
44 29 0.31
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCATCGTCCCAGACGTGGTCTTACACGTAATCAAATATG
Found at i:43598249 original size:21 final size:21
Alignment explanation
Indices: 43598223--43598264 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
43598213 TTCCGACTAG
43598223 GGTCTAAGCCAGACTGTTACA
1 GGTCTAAGCCAGACTGTTACA
*
43598244 GGTCTAAGCCGGACTGTTACA
1 GGTCTAAGCCAGACTGTTACA
43598265 ATAAAAATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (21 bp):
GGTCTAAGCCAGACTGTTACA
Found at i:43600308 original size:15 final size:15
Alignment explanation
Indices: 43600290--43600320 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
43600280 TTATTCATGT
43600290 TAATCTTGACTTGGA
1 TAATCTTGACTTGGA
43600305 TAATCTTGACTTGGA
1 TAATCTTGACTTGGA
43600320 T
1 T
43600321 TGCCCTCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.42
Consensus pattern (15 bp):
TAATCTTGACTTGGA
Found at i:43603001 original size:5 final size:5
Alignment explanation
Indices: 43602991--43603036 Score: 92
Period size: 5 Copynumber: 9.2 Consensus size: 5
43602981 TAAGTTTGAC
43602991 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA A
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA A
43603037 CACGAAAACA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:43606005 original size:117 final size:119
Alignment explanation
Indices: 43605793--43606037 Score: 361
Period size: 117 Copynumber: 2.1 Consensus size: 119
43605783 TTTGGAAACA
* * * * *
43605793 AGGGTCACACGGCTGTATGGTCAGGCTGTGTGACATAGCCCAAACCTTGTGAGCATTCAAAGTAT
1 AGGGTCACACGGCTATATGGCCAGCCTGTGTGACATAGCCCAAACCATGTGAGCATTCAAAGCAT
*
43605858 GGGACACACGGCTGTGTTGCAGCTCGTGTGTCTGCCAATGTGGGTATTCAAAAT
66 GGGACACACAGCTGTGTTGCAGCTCGTGTGTCTGCCAATGTGGGTATTCAAAAT
* *
43605912 TGGGTCACACGGCTATAT-GCCAAGCCT-TGTGACATAGCCCAAACCATGTGAGCATTCGAAGCA
1 AGGGTCACACGGCTATATGGCC-AGCCTGTGTGACATAGCCCAAACCATGTGAGCATTCAAAGCA
* * *
43605975 T-GGACACACAGCTGTGTTGCAGCTCGTGTGTCTGCTAGTGTGGGTATTCGAAAT
65 TGGGACACACAGCTGTGTTGCAGCTCGTGTGTCTGCCAATGTGGGTATTCAAAAT
43606029 AGGGTCACA
1 AGGGTCACA
43606038 TGGTCGTGTC
Statistics
Matches: 113, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
117 57 0.50
118 36 0.32
119 20 0.18
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (119 bp):
AGGGTCACACGGCTATATGGCCAGCCTGTGTGACATAGCCCAAACCATGTGAGCATTCAAAGCAT
GGGACACACAGCTGTGTTGCAGCTCGTGTGTCTGCCAATGTGGGTATTCAAAAT
Found at i:43606699 original size:22 final size:22
Alignment explanation
Indices: 43606644--43606699 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 22
43606634 GTTTTGGACT
* * *
43606644 TAATTTTTATTATATATGAGCTC
1 TAATTATT-TTATTTATCAGCTC
*
43606667 -AA-TATTGTATTTATCAGCTC
1 TAATTATTTTATTTATCAGCTC
43606687 TAATTATTTTATT
1 TAATTATTTTATT
43606700 ATTTTATTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
20 11 0.42
21 5 0.19
22 10 0.38
ACGTcount: A:0.30, C:0.09, G:0.07, T:0.54
Consensus pattern (22 bp):
TAATTATTTTATTTATCAGCTC
Found at i:43618209 original size:28 final size:28
Alignment explanation
Indices: 43618156--43618213 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
43618146 AAGACAGAAA
*
43618156 AATAATAAGAATAAATAGTAATATAATG
1 AATAATAAGAATAAATAATAATATAATG
*
43618184 AATAATAAGAA-CAATAAT-AT-TAAT-
1 AATAATAAGAATAAATAATAATATAATG
43618208 AATAAT
1 AATAAT
43618214 GTAATAACTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 6 0.21
25 4 0.14
26 2 0.07
27 5 0.18
28 11 0.39
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (28 bp):
AATAATAAGAATAAATAATAATATAATG
Found at i:43622481 original size:14 final size:14
Alignment explanation
Indices: 43622462--43622500 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
43622452 TTAAAGCAAG
*
43622462 AATTAAGAATACAT
1 AATTAAGAACACAT
43622476 AATTAAGAACACAT
1 AATTAAGAACACAT
43622490 AATTAAGAACA
1 AATTAAGAACA
43622501 AGTCAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.59, C:0.10, G:0.08, T:0.23
Consensus pattern (14 bp):
AATTAAGAACACAT
Found at i:43625777 original size:29 final size:29
Alignment explanation
Indices: 43625715--43625777 Score: 67
Period size: 29 Copynumber: 2.1 Consensus size: 29
43625705 TCCCTTCTTT
43625715 TTTTTAATTAAAATTAAAAACTCCAATAG-
1 TTTTTAATTAAAATTAAAAAC-CCAATAGA
* *
43625744 TTTTTTATTAATAATTTAAAA-CCAATCAGA
1 TTTTTAATTAA-AATTAAAAACCCAAT-AGA
43625774 TTTT
1 TTTT
43625778 ACTAATTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
28 5 0.17
29 12 0.41
30 12 0.41
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.44
Consensus pattern (29 bp):
TTTTTAATTAAAATTAAAAACCCAATAGA
Found at i:43627839 original size:46 final size:49
Alignment explanation
Indices: 43627733--43627854 Score: 142
Period size: 50 Copynumber: 2.5 Consensus size: 49
43627723 TGTCTTCGAC
** * *
43627733 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCA-ATATATATATAAT
* * *
43627783 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGTC-ATATA-A-CTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATATAAT
*
43627829 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
43627855 CTGTCCTGTC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 28 0.44
47 1 0.02
48 5 0.08
50 29 0.46
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (49 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATATAAT
Found at i:43649530 original size:6 final size:6
Alignment explanation
Indices: 43649519--43649549 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
43649509 TTATTGACCT
43649519 GTTGTG GTTGTG GTTGTG GTTGTG GTTGTG G
1 GTTGTG GTTGTG GTTGTG GTTGTG GTTGTG G
43649550 GATAATAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.52, T:0.48
Consensus pattern (6 bp):
GTTGTG
Found at i:43651788 original size:26 final size:26
Alignment explanation
Indices: 43651759--43651810 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
43651749 CTTTGGTAAG
*
43651759 TTGCATTCACTCCTCTGGTCTTGGCC
1 TTGCATTCACTCCTCTGGTCGTGGCC
43651785 TTGCATTCACTCCTCTGGTCGTGGCC
1 TTGCATTCACTCCTCTGGTCGTGGCC
43651811 CAGTGTTTCA
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:0.08, C:0.35, G:0.21, T:0.37
Consensus pattern (26 bp):
TTGCATTCACTCCTCTGGTCGTGGCC
Found at i:43653457 original size:15 final size:14
Alignment explanation
Indices: 43653421--43653448 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
43653411 CGTAAAATTA
43653421 GAAAAATATTTTCC
1 GAAAAATATTTTCC
43653435 GAAAAATATTTTCC
1 GAAAAATATTTTCC
43653449 TGGTAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (14 bp):
GAAAAATATTTTCC
Found at i:43653773 original size:15 final size:17
Alignment explanation
Indices: 43653744--43653781 Score: 62
Period size: 15 Copynumber: 2.4 Consensus size: 17
43653734 AAAAAAAATA
43653744 TAAAAAAATTAATATTT
1 TAAAAAAATTAATATTT
43653761 TAAAAAAA-T-ATATTT
1 TAAAAAAATTAATATTT
43653776 TAAAAA
1 TAAAAA
43653782 TTTAAGACGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 12 0.57
16 1 0.05
17 8 0.38
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TAAAAAAATTAATATTT
Found at i:43654152 original size:21 final size:21
Alignment explanation
Indices: 43654126--43654186 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
43654116 AAAAAAATCA
43654126 TTATATGATTTTTATAAAATT
1 TTATATGATTTTTATAAAATT
* * *
43654147 TTATATG-TTTTTGTATCATTT
1 TTATATGATTTTTATA-AAATT
*
43654168 TTATAATTATTTTTATAAA
1 TTAT-ATGATTTTTATAAA
43654187 TATTATCAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
20 7 0.23
21 14 0.45
22 3 0.10
23 7 0.23
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.61
Consensus pattern (21 bp):
TTATATGATTTTTATAAAATT
Found at i:43656492 original size:25 final size:25
Alignment explanation
Indices: 43656464--43656525 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
43656454 TAAGCTATTC
*
43656464 CAAGCTAAATAACAGAAAGCTCATG
1 CAAGCTAAATAACAGAAAACTCATG
** *
43656489 CAAGCTGTATAACGGAAAACTCATG
1 CAAGCTAAATAACAGAAAACTCATG
*
43656514 CGAGCTAAATAA
1 CAAGCTAAATAA
43656526 TGAGAAGATC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.45, C:0.19, G:0.18, T:0.18
Consensus pattern (25 bp):
CAAGCTAAATAACAGAAAACTCATG
Found at i:43657983 original size:18 final size:19
Alignment explanation
Indices: 43657962--43658023 Score: 56
Period size: 18 Copynumber: 3.3 Consensus size: 19
43657952 ATTATTTATA
43657962 TTTTATAATAATTTT-ATT
1 TTTTATAATAATTTTAATT
* * *
43657980 TTTTATTATAAATTTTTGACT
1 TTTTATAAT-AA-TTTTAATT
*
43658001 TTTTATAA-ATTTTTAATT
1 TTTTATAATAATTTTAATT
43658019 TTTTA
1 TTTTA
43658024 GAATGTCAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 19 0.54
19 3 0.09
20 4 0.11
21 9 0.26
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (19 bp):
TTTTATAATAATTTTAATT
Found at i:43657995 original size:19 final size:18
Alignment explanation
Indices: 43657956--43657995 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
43657946 TTTTAAATTA
43657956 TTTATATTTTATAATAAT
1 TTTATATTTTATAATAAT
* *
43657974 TTTATTTTTTATTATAAAT
1 TTTATATTTTATAAT-AAT
43657993 TTT
1 TTT
43657996 TGACTTTTTA
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:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTATATTTTATAATAAT
Found at i:43658070 original size:21 final size:21
Alignment explanation
Indices: 43658029--43658072 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
43658019 TTTTAGAATG
* *
43658029 TCAAAATATTTTTTTTATTTT
1 TCAAAAAATTTTATTTATTTT
*
43658050 TCAAAAAATTTTGATTTTTTTT
1 TCAAAAAATTTT-ATTTATTTT
43658072 T
1 T
43658073 ATTTTTTGCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (21 bp):
TCAAAAAATTTTATTTATTTT
Found at i:43668479 original size:38 final size:38
Alignment explanation
Indices: 43668400--43668537 Score: 170
Period size: 38 Copynumber: 3.6 Consensus size: 38
43668390 AAACCCAAAC
* * * *
43668400 ATAACACCAGCACGAAGCCTACGGGACTTTAAACTCAGAT
1 ATAATACCAGCACGAAGCCTGCGGGA-TTT-AACCCGGAT
* *
43668440 ATAATACTAGCA-GTAGGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACG-AAGCCTGCGGGATTTAACCCGGAT
43668478 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
* *
43668516 ATATTACCACCACGAAGCCTGC
1 ATAATACCAGCACGAAGCCTGC
43668538 TAACCCGGAT
Statistics
Matches: 86, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
38 61 0.71
39 5 0.06
40 20 0.23
ACGTcount: A:0.33, C:0.27, G:0.21, T:0.20
Consensus pattern (38 bp):
ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
Found at i:43668547 original size:32 final size:33
Alignment explanation
Indices: 43668468--43668552 Score: 100
Period size: 38 Copynumber: 2.5 Consensus size: 33
43668458 CTGCGGGATT
*
43668468 TAACCCGGATATAATACCAGCACGAAGCCTGCGGG
1 TAACCCGGATATAATACCACCACGAAGCCTGC--G
*
43668503 ATTTAACCCGGATATATTACCACCACGAAGCCTGC-
1 ---TAACCCGGATATAATACCACCACGAAGCCTGCG
43668538 TAACCCGGATATAAT
1 TAACCCGGATATAAT
43668553 TCCAGCATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
32 14 0.32
38 30 0.68
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (33 bp):
TAACCCGGATATAATACCACCACGAAGCCTGCG
Found at i:43671904 original size:9 final size:9
Alignment explanation
Indices: 43671890--43671965 Score: 107
Period size: 9 Copynumber: 8.4 Consensus size: 9
43671880 ATAAGTATAA
43671890 AATTAACCG
1 AATTAACCG
*
43671899 AATTAATCG
1 AATTAACCG
43671908 AATTAACCG
1 AATTAACCG
*
43671917 AATTACCCG
1 AATTAACCG
* *
43671926 AATTACCCA
1 AATTAACCG
43671935 AATTAACCG
1 AATTAACCG
43671944 AATTAACCG
1 AATTAACCG
*
43671953 AATCAACCG
1 AATTAACCG
43671962 AATT
1 AATT
43671966 TTTTGTATAA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 59 1.00
ACGTcount: A:0.43, C:0.24, G:0.09, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:43672984 original size:40 final size:40
Alignment explanation
Indices: 43672937--43673258 Score: 346
Period size: 40 Copynumber: 8.1 Consensus size: 40
43672927 ACACACTAGG
* * *
43672937 CAGAAGCTCATAAGAGCTAATCCAGCCAAAACACACCAAA
1 CAGAAGCTCATAAGAGCTGATCCAACCAAAACACGCCAAA
* * * *
43672977 CAAAAGCTCATAAGAGTTTATCCAACCGAAAA-ACGCAAAA
1 CAGAAGCTCATAAGAGCTGATCCAACC-AAAACACGCCAAA
* *
43673017 CAGAAGCTCATAAGAGCCGATCCAA-TAGAAACACGCCAAA
1 CAGAAGCTCATAAGAGCTGATCCAACCA-AAACACGCCAAA
* * * *
43673057 CAGAAGCTCATAAGAGCCGATCCAATCGAAACATGCCAAA
1 CAGAAGCTCATAAGAGCTGATCCAACCAAAACACGCCAAA
* * * * * *
43673097 AAGAAGCTCATAAGAGCTGATCCAGCCGAAACTCACTAAA
1 CAGAAGCTCATAAGAGCTGATCCAACCAAAACACGCCAAA
* * *
43673137 CAGAAGCTCATAAGAGTTGATCCAACCGAAACACGCTAAA
1 CAGAAGCTCATAAGAGCTGATCCAACCAAAACACGCCAAA
*
43673177 CAGAAGCTCATAAGAGCTTG-TCTAA-CAGAAACACGCCAAA
1 CAGAAGCTCATAAGAGC-TGATCCAACCA-AAACACGCCAAA
* * *
43673217 CAGAAGCTCATAAGAGTTGATCCAACCGAAACATGCCAAA
1 CAGAAGCTCATAAGAGCTGATCCAACCAAAACACGCCAAA
43673257 CA
1 CA
43673259 AAGAGTATAA
Statistics
Matches: 238, Mismatches: 36, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
38 1 0.00
39 6 0.03
40 224 0.94
41 7 0.03
ACGTcount: A:0.44, C:0.26, G:0.16, T:0.13
Consensus pattern (40 bp):
CAGAAGCTCATAAGAGCTGATCCAACCAAAACACGCCAAA
Found at i:43673040 original size:80 final size:80
Alignment explanation
Indices: 43672937--43673258 Score: 407
Period size: 80 Copynumber: 4.0 Consensus size: 80
43672927 ACACACTAGG
* * * *
43672937 CAGAAGCTCATAAGAGCTAATCCAGCCA-AAACACACCAAACAAAAGCTCATAAGAGTTTATCCA
1 CAGAAGCTCATAAGAGCTGATCCA-ACAGAAACACACCAAACAGAAGCTCATAAGAGTTGATCCA
*
43673001 ACCGAAAAACGCAAAA
65 ACCGAAACACGCAAAA
* * * **
43673017 CAGAAGCTCATAAGAGCCGATCCAATAGAAACACGCCAAACAGAAGCTCATAAGAGCCGATCCAA
1 CAGAAGCTCATAAGAGCTGATCCAACAGAAACACACCAAACAGAAGCTCATAAGAGTTGATCCAA
* *
43673082 TCGAAACATGCCAAAA
66 CCGAAACACG-CAAAA
* * * *
43673098 -AGAAGCTCATAAGAGCTGATCCAGCCGAAACTCACTAAACAGAAGCTCATAAGAGTTGATCCAA
1 CAGAAGCTCATAAGAGCTGATCCAACAGAAACACACCAAACAGAAGCTCATAAGAGTTGATCCAA
*
43673162 CCGAAACACGCTAAA
66 CCGAAACACGCAAAA
* *
43673177 CAGAAGCTCATAAGAGCTTG-TCTAACAGAAACACGCCAAACAGAAGCTCATAAGAGTTGATCCA
1 CAGAAGCTCATAAGAGC-TGATCCAACAGAAACACACCAAACAGAAGCTCATAAGAGTTGATCCA
* *
43673241 ACCGAAACATGCCAAA
65 ACCGAAACACGCAAAA
43673257 CA
1 CA
43673259 AAGAGTATAA
Statistics
Matches: 206, Mismatches: 32, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
79 5 0.02
80 194 0.94
81 7 0.03
ACGTcount: A:0.44, C:0.26, G:0.16, T:0.13
Consensus pattern (80 bp):
CAGAAGCTCATAAGAGCTGATCCAACAGAAACACACCAAACAGAAGCTCATAAGAGTTGATCCAA
CCGAAACACGCAAAA
Found at i:43673139 original size:120 final size:119
Alignment explanation
Indices: 43672937--43673249 Score: 387
Period size: 120 Copynumber: 2.6 Consensus size: 119
43672927 ACACACTAGG
* * * * *
43672937 CAGAAGCTCATAAGAGCTAATCCAGCCAAAACACACCAAACAA-AAGCTCATAAGAGTTTATCCA
1 CAGAAGCTCATAAGAGCTGATCCA-ACGAAACACGCCAAA-AAGAAGCTCATAAGAGTTGATCCA
* * *
43673001 ACCGAAAAACGCAAAACAGAAGCTCATAAGAGCCGATCCAATAGAAACACGCCAAA
64 ACCGAAACACACAAAACAGAAGCTCATAAGAGCCGATCCAACAGAAACACGCCAAA
* * * *
43673057 CAGAAGCTCATAAGAGCCGATCCAATCGAAACATGCCAAAAAGAAGCTCATAAGAGCTGATCCAG
1 CAGAAGCTCATAAGAGCTGATCCAA-CGAAACACGCCAAAAAGAAGCTCATAAGAGTTGATCCAA
* * ** * *
43673122 CCGAAACTCACTAAACAGAAGCTCATAAGAGTTGATCCAACCGAAACACGCTAAA
65 CCGAAACACACAAAACAGAAGCTCATAAGAGCCGATCCAACAGAAACACGCCAAA
* *
43673177 CAGAAGCTCATAAGAGCTTG-TCTAACAGAAACACGCCAAACAGAAGCTCATAAGAGTTGATCCA
1 CAGAAGCTCATAAGAGC-TGATCCAAC-GAAACACGCCAAAAAGAAGCTCATAAGAGTTGATCCA
43673241 ACCGAAACA
64 ACCGAAACA
43673250 TGCCAAACAA
Statistics
Matches: 164, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
119 3 0.02
120 160 0.98
121 1 0.01
ACGTcount: A:0.44, C:0.26, G:0.16, T:0.13
Consensus pattern (119 bp):
CAGAAGCTCATAAGAGCTGATCCAACGAAACACGCCAAAAAGAAGCTCATAAGAGTTGATCCAAC
CGAAACACACAAAACAGAAGCTCATAAGAGCCGATCCAACAGAAACACGCCAAA
Found at i:43688385 original size:19 final size:19
Alignment explanation
Indices: 43688361--43688399 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
43688351 AGCTTAGAGG
43688361 ACCACAGTTGGATAAGGGA
1 ACCACAGTTGGATAAGGGA
43688380 ACCACAGTTGGATAAGGGA
1 ACCACAGTTGGATAAGGGA
43688399 A
1 A
43688400 AGGAAAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.15, G:0.31, T:0.15
Consensus pattern (19 bp):
ACCACAGTTGGATAAGGGA
Found at i:43688784 original size:79 final size:79
Alignment explanation
Indices: 43688695--43688865 Score: 204
Period size: 79 Copynumber: 2.2 Consensus size: 79
43688685 ATATCCGGAC
* * * **
43688695 TAAGATCCGAAGGCATTTGTGTGAGTTACTA-ATTCCAGGCTAAG-CCCGAAGGCATTGGTGCGA
1 TAAGTTCCGAAGGCATTTGTGCGAGTTACTATA-ACCAGGCTAAGTCCCGAAGGCATTGGAACGA
43688758 GTTA-CTAAATCCGGGT
65 G-TAGCTAAATCC-GGT
* * *
43688774 TAAGTTCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 TAAGTTCCGAAGGCATTTGTGCGAGTTACTATAACCAGGCTAAGTCCCGAAGGCATTGGAACGAG
*
43688839 TAGCTATATCCGGT
66 TAGCTAAATCCGGT
*
43688853 TAAATTCCGAAGG
1 TAAGTTCCGAAGG
43688866 TACGTGATTC
Statistics
Matches: 79, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
79 54 0.68
80 25 0.32
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (79 bp):
TAAGTTCCGAAGGCATTTGTGCGAGTTACTATAACCAGGCTAAGTCCCGAAGGCATTGGAACGAG
TAGCTAAATCCGGT
Found at i:43688839 original size:40 final size:40
Alignment explanation
Indices: 43688648--43688832 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
43688638 TCGAATGATG
* * * *
43688648 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
43688688 TCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
43688728 TCCAGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
43688767 TCCGGGTTAAGTTCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
43688808 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
43688833 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
39 33 0.27
40 79 0.65
41 9 0.07
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:43699118 original size:22 final size:22
Alignment explanation
Indices: 43699092--43699148 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
43699082 GAATTATTAG
43699092 GTTTAATTCGGTAAGTCTTATT
1 GTTTAATTCGGTAAGTCTTATT
*
43699114 GTTTAATTCTGTAAGTCTTATT
1 GTTTAATTCGGTAAGTCTTATT
*
43699136 GTTTAATTTGGTA
1 GTTTAATTCGGTA
43699149 GACTTTGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.23, C:0.07, G:0.18, T:0.53
Consensus pattern (22 bp):
GTTTAATTCGGTAAGTCTTATT
Found at i:43700858 original size:32 final size:33
Alignment explanation
Indices: 43700817--43700878 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
43700807 TTAATTATGC
* *
43700817 TAATGTTGTTAATAAAAATGACT-TGAATGATT
1 TAATATTGTTAATAAAAATGAATATGAATGATT
43700849 TAATATTGTTAATAAAAATGAATATGAATG
1 TAATATTGTTAATAAAAATGAATATGAATG
43700879 TGTAGAGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 21 0.78
33 6 0.22
ACGTcount: A:0.45, C:0.02, G:0.15, T:0.39
Consensus pattern (33 bp):
TAATATTGTTAATAAAAATGAATATGAATGATT
Found at i:43702291 original size:12 final size:12
Alignment explanation
Indices: 43702274--43702303 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
43702264 GCAAATGAAT
*
43702274 CATTTTCGTTTC
1 CATTTTCATTTC
43702286 CATTTTCATTTC
1 CATTTTCATTTC
43702298 CATTTT
1 CATTTT
43702304 TGGAAACCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.60
Consensus pattern (12 bp):
CATTTTCATTTC
Found at i:43706332 original size:178 final size:178
Alignment explanation
Indices: 43706033--43706389 Score: 714
Period size: 178 Copynumber: 2.0 Consensus size: 178
43706023 ACGAGTTCGG
43706033 ATGCCCAAATATCCTAGTGACATGTCACTTGTATCCTAATCTATTCCTAAGGTTCAAACGGGCAT
1 ATGCCCAAATATCCTAGTGACATGTCACTTGTATCCTAATCTATTCCTAAGGTTCAAACGGGCAT
43706098 TTTCCTCGATCACACATCTTTGCCATCTTCCACGGAATATCGAAATTGATACTTCGGTGATAGTT
66 TTTCCTCGATCACACATCTTTGCCATCTTCCACGGAATATCGAAATTGATACTTCGGTGATAGTT
43706163 CATACTCATAAAGTAATTCACATAATTACATATTATTCAACAATAACC
131 CATACTCATAAAGTAATTCACATAATTACATATTATTCAACAATAACC
43706211 ATGCCCAAATATCCTAGTGACATGTCACTTGTATCCTAATCTATTCCTAAGGTTCAAACGGGCAT
1 ATGCCCAAATATCCTAGTGACATGTCACTTGTATCCTAATCTATTCCTAAGGTTCAAACGGGCAT
43706276 TTTCCTCGATCACACATCTTTGCCATCTTCCACGGAATATCGAAATTGATACTTCGGTGATAGTT
66 TTTCCTCGATCACACATCTTTGCCATCTTCCACGGAATATCGAAATTGATACTTCGGTGATAGTT
43706341 CATACTCATAAAGTAATTCACATAATTACATATTATTCAACAATAACC
131 CATACTCATAAAGTAATTCACATAATTACATATTATTCAACAATAACC
43706389 A
1 A
43706390 CAAAGCATAA
Statistics
Matches: 179, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
178 179 1.00
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (178 bp):
ATGCCCAAATATCCTAGTGACATGTCACTTGTATCCTAATCTATTCCTAAGGTTCAAACGGGCAT
TTTCCTCGATCACACATCTTTGCCATCTTCCACGGAATATCGAAATTGATACTTCGGTGATAGTT
CATACTCATAAAGTAATTCACATAATTACATATTATTCAACAATAACC
Found at i:43710158 original size:42 final size:43
Alignment explanation
Indices: 43710089--43710201 Score: 149
Period size: 43 Copynumber: 2.7 Consensus size: 43
43710079 TGTGTTATCA
43710089 TGTAAGACCATGTCTAGGACGTTGGCATC-ATATTTGATTTCG
1 TGTAAGACCATGTCTAGGACGTTGGCATCGATATTTGATTTCG
* * * * *
43710131 TGTATGACCCTGTCTGGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTAGGAC-GTTGGCATCGATATTTGATTTCG
*
43710174 TGTAAGACCACGTCTAGGACGTTGGCAT
1 TGTAAGACCATGTCTAGGACGTTGGCAT
43710202 TGTATGAGCT
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
42 25 0.42
43 34 0.58
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATGTCTAGGACGTTGGCATCGATATTTGATTTCG
Found at i:43711000 original size:24 final size:23
Alignment explanation
Indices: 43710956--43711000 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
43710946 TTATGGAATG
*
43710956 ACATGAATTGGTATGTGTTATGA
1 ACATGAATTGGTATGTATTATGA
43710979 ACATGAGATTGGT-TGATATTAT
1 ACATGA-ATTGGTATG-TATTAT
43711001 CATAGTAGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.31, C:0.04, G:0.24, T:0.40
Consensus pattern (23 bp):
ACATGAATTGGTATGTATTATGA
Found at i:43714878 original size:25 final size:25
Alignment explanation
Indices: 43714849--43714899 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
43714839 AAAGTAATTG
43714849 TGTTTTAAATGCTTTATTATTACAT
1 TGTTTTAAATGCTTTATTATTACAT
43714874 TGTTTTAAATGCTTTATTATTACAT
1 TGTTTTAAATGCTTTATTATTACAT
43714899 T
1 T
43714900 CTTGATGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.57
Consensus pattern (25 bp):
TGTTTTAAATGCTTTATTATTACAT
Found at i:43716136 original size:15 final size:16
Alignment explanation
Indices: 43716118--43716155 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
43716108 TCAGCAGTGT
*
43716118 GTGACAT-ACGGCCAG
1 GTGACATAACAGCCAG
43716133 GTGACATACACAGCCAG
1 GTGACATA-ACAGCCAG
43716150 GTGACA
1 GTGACA
43716156 CGGCCGTGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 7 0.35
17 13 0.65
ACGTcount: A:0.32, C:0.26, G:0.29, T:0.13
Consensus pattern (16 bp):
GTGACATAACAGCCAG
Found at i:43718252 original size:27 final size:26
Alignment explanation
Indices: 43718222--43718398 Score: 158
Period size: 27 Copynumber: 6.5 Consensus size: 26
43718212 AAATTGTACA
* *
43718222 GCACTAAGGGTGCGATTCGACTATGTT
1 GCACTAAGTGTGCGATT-GACTATGTG
* *
43718249 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCG-ATTGACTATG-TG
* *
43718276 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTG
43718303 GCACTAAGTGTGCGAGTTTGACTATGTG
1 GCACTAAGTGTGCGA--TTGACTATGTG
* * *
43718331 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGA-TTGACTATGTG
* * *
43718358 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGA-TTGACTATGTG
*
43718385 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
43718399 GGCTCAATAA
Statistics
Matches: 129, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
26 1 0.01
27 101 0.78
28 27 0.21
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTG
Found at i:43718336 original size:82 final size:81
Alignment explanation
Indices: 43718222--43718377 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
43718212 AAATTGTACA
* *
43718222 GCACTAAGGGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGGGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
43718286 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* * ** *
43718303 GCACTAAGTGTGCGAGTTTGACTATGTGGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGGGTGCGA-TTCGACTATGTGGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
43718368 TGCGAGTTGA
65 TGCGAATTGA
43718378 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 14 0.22
82 50 0.77
83 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGGGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:43718389 original size:82 final size:81
Alignment explanation
Indices: 43718218--43718398 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
43718208 GATTAAATTG
* * *
43718218 TACAGCACTAAGGGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATACGATGCACTAA
43718283 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
43718299 TGCGGCACTAAGTGTGCGAGTTTGACTATGTGGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTGGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
43718363 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
43718381 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
43718399 GGCTCAATAA
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 17 0.21
82 65 0.79
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:43719170 original size:46 final size:46
Alignment explanation
Indices: 43719108--43719199 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 46
43719098 GTTACTTTCG
* *
43719108 TAACAGATGCTGGCAGCAGCAGTGTCATGAGATTGAAAAATCACTA
1 TAACAGATGCTCGCAGCAGCAGTGTCATGAGAATGAAAAATCACTA
*
43719154 TAACAGGTGCTCGCAGCAGCAGTGTCATGAGAATGAAAAATCACTA
1 TAACAGATGCTCGCAGCAGCAGTGTCATGAGAATGAAAAATCACTA
43719200 AAAATAGTAG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (46 bp):
TAACAGATGCTCGCAGCAGCAGTGTCATGAGAATGAAAAATCACTA
Found at i:43730854 original size:14 final size:14
Alignment explanation
Indices: 43730835--43730861 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
43730825 GATTTTGAAT
43730835 AATGTAAGTAATGG
1 AATGTAAGTAATGG
43730849 AATGTAAGTAATG
1 AATGTAAGTAATG
43730862 TTATGCATAG
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:0.44, C:0.00, G:0.26, T:0.30
Consensus pattern (14 bp):
AATGTAAGTAATGG
Found at i:43732347 original size:38 final size:37
Alignment explanation
Indices: 43732305--43732403 Score: 135
Period size: 38 Copynumber: 2.6 Consensus size: 37
43732295 AAAGGTCGGC
*
43732305 CAGGCTATATGCTGGAATTATATCCGGGTTAAATCCCG
1 CAGGCT-TATGCTGGTATTATATCCGGGTTAAATCCCG
* *
43732343 CAGGCTTCGTGCTGGTATTATATCCTGGTTAAATCCCG
1 CAGGCTT-ATGCTGGTATTATATCCGGGTTAAATCCCG
*
43732381 CAAGCTTAGTGCTGGTATTATAT
1 CAGGCTTA-TGCTGGTATTATAT
43732404 TCGAGCTTAA
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
37 1 0.02
38 53 0.98
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.33
Consensus pattern (37 bp):
CAGGCTTATGCTGGTATTATATCCGGGTTAAATCCCG
Found at i:43734716 original size:53 final size:53
Alignment explanation
Indices: 43734636--43734741 Score: 185
Period size: 53 Copynumber: 2.0 Consensus size: 53
43734626 GTATTATATG
43734636 ATTTCTCGTACGAATATTTACAAGTTTTCAACTCAATATTATGCCGTCACAGA
1 ATTTCTCGTACGAATATTTACAAGTTTTCAACTCAATATTATGCCGTCACAGA
* * *
43734689 ATTTCTCGTACGAATATTTACGAGTTTTCAACTCAATATTGTGTCGTCACAGA
1 ATTTCTCGTACGAATATTTACAAGTTTTCAACTCAATATTATGCCGTCACAGA
43734742 CGCCCTTCGG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (53 bp):
ATTTCTCGTACGAATATTTACAAGTTTTCAACTCAATATTATGCCGTCACAGA
Found at i:43734834 original size:41 final size:41
Alignment explanation
Indices: 43734781--43734968 Score: 281
Period size: 41 Copynumber: 4.6 Consensus size: 41
43734771 CGCTGACTCA
*
43734781 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGC-C
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
* * * * * *
43734821 TGAAGGCCCTTCGAAACTAGGTTCGG-TTATGACACTGGCTC
1 -AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
*
43734862 AAAAGCCCTTCGAGACCAAGCTCAGATTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
43734903 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
43734944 AAAAGCCCTTCGAGACCAAGCTCGG
1 AAAAGCCCTTCGAGACCAAGCTCGG
43734969 TTTTAAACCC
Statistics
Matches: 130, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
40 30 0.23
41 100 0.77
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
Found at i:43734880 original size:81 final size:82
Alignment explanation
Indices: 43734781--43734968 Score: 281
Period size: 81 Copynumber: 2.3 Consensus size: 82
43734771 CGCTGACTCA
* * * * * *
43734781 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGC-CTGAAGGCCCTTCGAAACTAGGTTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC-AAAAGCCCTTCGAAACCAAGCTC
43734845 GG-TTATGACACTGGCTC
65 GGATTATGACACTGGCTC
* *
43734862 AAAAGCCCTTCGAGACCAAGCTCAGATTATGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCG
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTCAAAAGCCCTTCGAAACCAAGCTCG
43734927 GATTATGACACTGGCTC
66 GATTATGACACTGGCTC
43734944 AAAAGCCCTTCGAGACCAAGCTCGG
1 AAAAGCCCTTCGAGACCAAGCTCGG
43734969 TTTTAAACCC
Statistics
Matches: 96, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
81 56 0.58
82 40 0.42
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (82 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTCAAAAGCCCTTCGAAACCAAGCTCG
GATTATGACACTGGCTC
Found at i:43736281 original size:72 final size:72
Alignment explanation
Indices: 43736192--43736335 Score: 279
Period size: 72 Copynumber: 2.0 Consensus size: 72
43736182 AAGAAACATG
43736192 GATGAAGACTTTGTTTCTTTCACCCATTTCCTTCCTTTAATTATTATTTCTTTATTTTATTACAT
1 GATGAAGACTTTGTTTCTTTCACCCATTTCCTTCCTTTAATTATTATTTCTTTATTTTATTACAT
43736257 TCATCCA
66 TCATCCA
*
43736264 GATGGAGACTTTGTTTCTTTCACCCATTTCCTTCCTTTAATTATTATTTCTTTATTTTATTACAT
1 GATGAAGACTTTGTTTCTTTCACCCATTTCCTTCCTTTAATTATTATTTCTTTATTTTATTACAT
43736329 TCATCCA
66 TCATCCA
43736336 TGATAATATG
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.22, C:0.21, G:0.06, T:0.51
Consensus pattern (72 bp):
GATGAAGACTTTGTTTCTTTCACCCATTTCCTTCCTTTAATTATTATTTCTTTATTTTATTACAT
TCATCCA
Found at i:43743219 original size:40 final size:41
Alignment explanation
Indices: 43743130--43743279 Score: 214
Period size: 41 Copynumber: 3.7 Consensus size: 41
43743120 CGCTGACTCA
*
43743130 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGC-C
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
* * * * * *
43743170 TGAAGGCCCTTCGAAACTAGGTTCGG-TTATGACACTGGCTC
1 -AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
43743211 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
43743252 AAAAGCCCTTCGAGACCAAGCTCGGATT
1 AAAAGCCCTTCGAGACCAAGCTCGGATT
43743280 TAAACCCCGA
Statistics
Matches: 94, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
40 31 0.33
41 63 0.67
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.21
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
Found at i:43749934 original size:27 final size:27
Alignment explanation
Indices: 43749903--43749967 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
43749893 GGGTAAAACA
* *
43749903 ATCATTTTACCCTACAGGGGTATGTCG
1 ATCATTTTACACTACAAGGGTATGTCG
* *
43749930 GTCATTTTACACTACAAGGGTATTTCG
1 ATCATTTTACACTACAAGGGTATGTCG
*
43749957 ATAATTTTACA
1 ATCATTTTACA
43749968 AATCGGGGGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (27 bp):
ATCATTTTACACTACAAGGGTATGTCG
Found at i:43749977 original size:27 final size:27
Alignment explanation
Indices: 43749946--43750230 Score: 284
Period size: 27 Copynumber: 10.7 Consensus size: 27
43749936 TTACACTACA
43749946 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * * *
43749973 GGGGTGTTTCGATAATTTCAC-AATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
43749999 AGGGTATTTTGGTAATTTTACAAAATAG
1 AGGGTATTTCGATAATTTTAC-AAATCG
*
43750027 -GGGTATTTC-AGTAATTTTACAAATCA
1 AGGGTATTTCGA-TAATTTTACAAATCG
*
43750053 AGGGTATTTCGATAATTTTACAAAACG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
43750080 AGGGTATTT-TAGTAATTTCAC-AATCG
1 AGGGTATTTCGA-TAATTTTACAAATCG
43750106 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
43750133 -GAGGTATTTC-AGTAATTTCAC-AATCG
1 AG-GGTATTTCGA-TAATTTTACAAATCG
*
43750159 AGGGTATTT-TAGTAATTTTACAAATCG
1 AGGGTATTTCGA-TAATTTTACAAATCG
* * *
43750186 AGGGTATTTCGGTAATTTTATAAATCA
1 AGGGTATTTCGATAATTTTACAAATCG
*
43750213 AAGGTATTTC-AGTAATTT
1 AGGGTATTTCGA-TAATTT
43750231 CTCTTTATTA
Statistics
Matches: 214, Mismatches: 29, Indels: 30
0.78 0.11 0.11
Matches are distributed among these distances:
26 70 0.33
27 139 0.65
28 5 0.02
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATCG
Found at i:43750015 original size:53 final size:53
Alignment explanation
Indices: 43749946--43750203 Score: 333
Period size: 53 Copynumber: 4.8 Consensus size: 53
43749936 TTACACTACA
* *
43749946 AGGGTATTTCGATAATTTTACAAATCGGGGGTGTTTC-GATAATTTCACAATTG
1 AGGGTATTTCGATAATTTTACAAATCGGGGGTATTTCAG-TAATTTCACAATCG
* * * * *
43749999 AGGGTATTTTGGTAATTTTACAAAAT-AGGGGTATTTCAGTAATTTTACAAATCA
1 AGGGTATTTCGATAATTTTAC-AAATCGGGGGTATTTCAGTAATTTCAC-AATCG
* * *
43750053 AGGGTATTTCGATAATTTTACAAAACGAGGGTATTTTAGTAATTTCACAATCG
1 AGGGTATTTCGATAATTTTACAAATCGGGGGTATTTCAGTAATTTCACAATCG
*
43750106 AGGGTATTTCGATAATTTTACAAATCGGAGGTATTTCAGTAATTTCACAATCG
1 AGGGTATTTCGATAATTTTACAAATCGGGGGTATTTCAGTAATTTCACAATCG
* * *
43750159 AGGGTATTT-TAGTAATTTTACAAATCGAGGGTATTTCGGTAATTT
1 AGGGTATTTCGA-TAATTTTACAAATCGGGGGTATTTCAGTAATTT
43750204 TATAAATCAA
Statistics
Matches: 177, Mismatches: 23, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
52 1 0.01
53 131 0.74
54 45 0.25
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (53 bp):
AGGGTATTTCGATAATTTTACAAATCGGGGGTATTTCAGTAATTTCACAATCG
Found at i:43750218 original size:80 final size:80
Alignment explanation
Indices: 43749946--43750231 Score: 357
Period size: 80 Copynumber: 3.6 Consensus size: 80
43749936 TTACACTACA
*** * * *
43749946 AGGGTATTTCGATAATTTTACAAATCGGGGGTGTTTCGATAATTTCACAATTGAGGGTATTTTGG
1 AGGGTATTTCGATAATTTTACAAATCAAAGGTATTTCGATAATTTCACAATCGAGGGTATTTTAG
*
43750011 TAATTTTACAAAATAG
66 TAATTTTAC-AAATCG
* * *
43750027 -GGGTATTTC-AGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAAACGAGGGTATTTT
1 AGGGTATTTCGA-TAATTTTACAAATCAAAGGTATTTCGATAATTTCAC-AATCGAGGGTATTTT
*
43750090 AGTAATTTCAC-AATCG
64 AGTAATTTTACAAATCG
**
43750106 AGGGTATTTCGATAATTTTACAAATCGGAGGTATTTC-AGTAATTTCACAATCGAGGGTATTTTA
1 AGGGTATTTCGATAATTTTACAAATCAAAGGTATTTCGA-TAATTTCACAATCGAGGGTATTTTA
43750170 GTAATTTTACAAATCG
65 GTAATTTTACAAATCG
* *
43750186 AGGGTATTTCGGTAATTTTATAAATCAAAGGTATTTC-AGTAATTTC
1 AGGGTATTTCGATAATTTTACAAATCAAAGGTATTTCGA-TAATTTC
43750232 TCTTTATTAT
Statistics
Matches: 180, Mismatches: 19, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
79 30 0.17
80 127 0.71
81 23 0.13
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (80 bp):
AGGGTATTTCGATAATTTTACAAATCAAAGGTATTTCGATAATTTCACAATCGAGGGTATTTTAG
TAATTTTACAAATCG
Done.