Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 77 of 203
Found at i:24413913 original size:4 final size:4
Alignment explanation
Indices: 24413897--24413952 Score: 59
Period size: 4 Copynumber: 14.8 Consensus size: 4
24413887 AAAAAACAAG
24413897 AAAC AAA- AAAC AAAC AAAAC AAA- AAAC AAAC AAAC AAA- AAAC AAGA-
1 AAAC AAAC AAAC AAAC -AAAC AAAC AAAC AAAC AAAC AAAC AAAC AA-AC
24413943 AAA- AAAC AAA
1 AAAC AAAC AAA
24413953 AAAAAAGAAG
Statistics
Matches: 46, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
3 13 0.28
4 28 0.61
5 5 0.11
ACGTcount: A:0.82, C:0.16, G:0.02, T:0.00
Consensus pattern (4 bp):
AAAC
Found at i:24413913 original size:11 final size:10
Alignment explanation
Indices: 24413887--24413969 Score: 78
Period size: 11 Copynumber: 7.9 Consensus size: 10
24413877 TATTATGCCT
* *
24413887 AAAAAACAAG
1 AAAAAAAAAC
24413897 AAACAAAAAAC
1 AAA-AAAAAAC
*
24413908 -AAACAAAAC
1 AAAAAAAAAC
24413917 AAAAAACAAAC
1 AAAAAA-AAAC
24413928 AAACAAAAAAC
1 AAA-AAAAAAC
24413939 AAGAAAAAAAC
1 AA-AAAAAAAC
*
24413950 AAAAAAAAAG
1 AAAAAAAAAC
24413960 AAGAAAAAAA
1 AA-AAAAAAA
24413970 TCAAGATGAA
Statistics
Matches: 62, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
9 6 0.10
10 18 0.29
11 34 0.55
12 4 0.06
ACGTcount: A:0.83, C:0.12, G:0.05, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:24413916 original size:16 final size:16
Alignment explanation
Indices: 24413897--24413955 Score: 84
Period size: 16 Copynumber: 3.6 Consensus size: 16
24413887 AAAAAACAAG
24413897 AAACAAAAAACAAACA
1 AAACAAAAAACAAACA
24413913 AAACAAAAAACAAAC-
1 AAACAAAAAACAAACA
*
24413928 AAACAAAAAACAAGAAAA
1 AAACAAAAAAC-A-AACA
24413946 AAACAAAAAA
1 AAACAAAAAA
24413956 AAAGAAGAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
15 11 0.28
16 16 0.41
17 2 0.05
18 10 0.26
ACGTcount: A:0.83, C:0.15, G:0.02, T:0.00
Consensus pattern (16 bp):
AAACAAAAAACAAACA
Found at i:24413937 original size:15 final size:15
Alignment explanation
Indices: 24413887--24413940 Score: 83
Period size: 15 Copynumber: 3.6 Consensus size: 15
24413877 TATTATGCCT
*
24413887 AAAAAAC-AAGAAAC
1 AAAAAACAAACAAAC
24413901 AAAAAACAAACAAAAC
1 AAAAAACAAAC-AAAC
24413917 AAAAAACAAACAAAC
1 AAAAAACAAACAAAC
24413932 AAAAAACAA
1 AAAAAACAA
24413941 GAAAAAAACA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
14 7 0.19
15 15 0.41
16 15 0.41
ACGTcount: A:0.81, C:0.17, G:0.02, T:0.00
Consensus pattern (15 bp):
AAAAAACAAACAAAC
Found at i:24413982 original size:33 final size:33
Alignment explanation
Indices: 24413887--24413955 Score: 99
Period size: 31 Copynumber: 2.2 Consensus size: 33
24413877 TATTATGCCT
* *
24413887 AAAAAAC-AAGAAACAAAAAAC-A-AACAAAAC
1 AAAAAACAAACAAACAAAAAACAAGAAAAAAAC
24413917 AAAAAACAAACAAACAAAAAACAAGAAAAAAAC
1 AAAAAACAAACAAACAAAAAACAAGAAAAAAAC
24413950 AAAAAA
1 AAAAAA
24413956 AAAGAAGAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
30 7 0.21
31 13 0.38
32 1 0.03
33 13 0.38
ACGTcount: A:0.83, C:0.14, G:0.03, T:0.00
Consensus pattern (33 bp):
AAAAAACAAACAAACAAAAAACAAGAAAAAAAC
Found at i:24414966 original size:74 final size:74
Alignment explanation
Indices: 24414845--24415673 Score: 1036
Period size: 74 Copynumber: 10.9 Consensus size: 74
24414835 TCACTTTCTA
*
24414845 TTTTTTTCAAATATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCATGCTGAGGTATTT
1 TTTTTTT-AAA-ATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTT
**
24414910 TTAATTTCGGTC
63 TTAATTTATGTC
24414922 TTTTTTTAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTA
1 TTTTTTTAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTA
24414987 ATTTATGTC
66 ATTTATGTC
* *
24414996 TTTTTTTAAAATCAACTCATAATACAGAGGTGAGTTAAGCCTCGAGTCACGCTGAGGTATTTTTA
1 TTTTTTTAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTA
24415061 ATTTATGTC
66 ATTTATGTC
* * *
24415070 TTTTTTAAAAAAAATCAACTCATAATATAGAGGTGAGTTGAGCCTCGAGTCACGCTGAGGTATTT
1 TTTTTT---TAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTT
** *
24415135 TTAATTTCGGTT
63 TTAATTTATGTC
* *
24415147 TTTTTTTAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTTGGGTCATGCTGAGGTATTTTTA
1 TTTTTTTAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTA
24415212 ATTTATGTC
66 ATTTATGTC
24415221 TTTTTTTTTAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTT
1 --TTTTTTTAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTT
24415286 TAATTTATGTC
64 TAATTTATGTC
* *
24415297 TTTTTTTAAAAAAAATAAACTTATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATT
1 TTTTTTT----AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATT
*
24415362 TTTAATTTATGTA
62 TTTAATTTATGTC
*
24415375 TTTTTTTAAAAATCAACTCATAATACAGAGGTGAGTTGAGCATCGGGTCACGCTGAGGTATTTTT
1 TTTTTTT-AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
* *
24415440 AATTTCTATC
65 AATTTATGTC
*
24415450 TTTTTTT-AAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGAGTCACGCTGAGGTATTTCA
1 TTTTTTTAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA-TT--
*
24415514 TTTAAATTTCTGT-
62 TTT-AATTTATGTC
* * * ** * * *
24415527 TTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGGGGTATT
1 TTTTTT---TAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA--
*
24415592 TCTTTTAAATTTCTG--
60 T-TTTT-AATTTATGTC
** * * * *
24415607 TTTTTCAAAAATCAACTCATATTGCTAAGAGGTGAGTTGAGCCTCGGGCCACACGCCGAGGTATT
1 TTTTTTTAAAATCAACTCATAATAC--AGAGGTGAGTTGAGCCTCGGG--TCACGCTGAGGTATT
24415672 TT
62 TT
24415674 CAGTTTCTAT
Statistics
Matches: 681, Mismatches: 48, Indels: 46
0.88 0.06 0.06
Matches are distributed among these distances:
73 17 0.02
74 223 0.33
75 86 0.13
76 75 0.11
77 106 0.16
78 100 0.15
80 15 0.02
81 56 0.08
82 2 0.00
83 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (74 bp):
TTTTTTTAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTA
ATTTATGTC
Found at i:24415122 original size:151 final size:149
Alignment explanation
Indices: 24414845--24415673 Score: 1047
Period size: 151 Copynumber: 5.4 Consensus size: 149
24414835 TCACTTTCTA
*
24414845 TTTTTTTCAAATATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCATGCTGAGGTATTT
1 TTTTTTT-AAA-ATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTT
** *
24414910 TTAATTTCGGTCTTTTTT-TAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGC
63 TTAATTTATGTCTTTTTTAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGC
24414974 TGAGGTATTTTTAATTTATGTC
128 TGAGGTATTTTTAATTTATGTC
* *
24414996 TTTTTTTAAAATCAACTCATAATACAGAGGTGAGTTAAGCCTCGAGTCACGCTGAGGTATTTTTA
1 TTTTTTTAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTA
* *
24415061 ATTTATGTCTTTTTTAAAAAAAATCAACTCATAATATAGAGGTGAGTTGAGCCTCGAGTCACGCT
66 ATTTATGTCTTTTTT--AAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCT
** *
24415126 GAGGTATTTTTAATTTCGGTT
129 GAGGTATTTTTAATTTATGTC
* *
24415147 TTTTTTTAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTTGGGTCATGCTGAGGTATTTTTA
1 TTTTTTTAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTA
**
24415212 ATTTATGTCTTTTTTTTTAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTG
66 ATTTATGTC-TTTTTTAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTG
24415277 AGGTATTTTTAATTTATGTC
130 AGGTATTTTTAATTTATGTC
* *
24415297 TTTTTTTAAAAAAAATAAACTTATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATT
1 TTTTTTT----AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATT
* * *
24415362 TTTAATTTATGTATTTTTTTAAAAATCAACTCATAATACAGAGGTGAGTTGAGCATCGGGTCACG
62 TTTAATTTATGTCTTTTTTAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACG
* *
24415427 CTGAGGTATTTTTAATTTCTATC
127 CTGAGGTATTTTTAATTTATGTC
*
24415450 TTTTTTT-AAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGAGTCACGCTGAGGTATTTCA
1 TTTTTTTAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA-TT--
* * * **
24415514 TTTAAATTTCTGT-TTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAC
62 TTT-AATTTATGTCTTTTTT--AAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGT
* * * *
24415578 CATGCCGGGGTATTTCTTTTAAATTTCTG--
123 CACGCTGAGGTA--T-TTTT-AATTTATGTC
** * * * *
24415607 TTTTTCAAAAATCAACTCATATTGCTAAGAGGTGAGTTGAGCCTCGGGCCACACGCCGAGGTATT
1 TTTTTTTAAAATCAACTCATAATAC--AGAGGTGAGTTGAGCCTCGGG--TCACGCTGAGGTATT
24415672 TT
62 TT
24415674 CAGTTTCTAT
Statistics
Matches: 601, Mismatches: 53, Indels: 41
0.86 0.08 0.06
Matches are distributed among these distances:
148 65 0.11
149 48 0.08
150 74 0.12
151 139 0.23
152 15 0.02
153 86 0.14
154 79 0.13
155 28 0.05
157 6 0.01
158 21 0.03
159 27 0.04
160 2 0.00
161 11 0.02
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (149 bp):
TTTTTTTAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTA
ATTTATGTCTTTTTTAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGA
GGTATTTTTAATTTATGTC
Found at i:24416020 original size:29 final size:29
Alignment explanation
Indices: 24415957--24416117 Score: 87
Period size: 30 Copynumber: 5.4 Consensus size: 29
24415947 ACAAAAAATA
* *
24415957 TAAATTACATTTTGGCCCCCAAAC-TTTTC
1 TAAATTACATTTT-GACCCCTAACTTTTTC
* *
24415986 AAAAATTATATTTTGACCCCTAACTTTTTC
1 -TAAATTACATTTTGACCCCTAACTTTTTC
* * *
24416016 TAAATTTACATATTAACCCCTAA-TATTTTG
1 TAAA-TTACATTTTGACCCCTAACT-TTTTC
* * * * *
24416046 TAAATTACAATTGGGCCCCTAAACTTTCTA
1 TAAATTACATTTTGACCCCT-AACTTTTTC
* * *
24416076 GAAATTACACTTT-AGCCCTATA-TTTTTC
1 TAAATTACATTTTGACCCCTA-ACTTTTTC
*
24416104 TAAAATTGCATTTT
1 T-AAATTACATTTT
24416118 TGCCCTAGAA
Statistics
Matches: 98, Mismatches: 26, Indels: 15
0.71 0.19 0.11
Matches are distributed among these distances:
28 5 0.05
29 38 0.39
30 54 0.55
31 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.06, T:0.41
Consensus pattern (29 bp):
TAAATTACATTTTGACCCCTAACTTTTTC
Found at i:24416387 original size:9 final size:9
Alignment explanation
Indices: 24416373--24416415 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
24416363 AGCAAAGCCT
24416373 CCACCACAA
1 CCACCACAA
*
24416382 CCACCACCA
1 CCACCACAA
*
24416391 CCACTACAA
1 CCACCACAA
24416400 CCACCA-AA
1 CCACCACAA
24416408 GCCACCAC
1 -CCACCAC
24416416 CTAAAAACCC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
8 2 0.07
9 26 0.93
ACGTcount: A:0.40, C:0.56, G:0.02, T:0.02
Consensus pattern (9 bp):
CCACCACAA
Found at i:24416655 original size:21 final size:21
Alignment explanation
Indices: 24416625--24416676 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
24416615 AGGGGAGAAA
24416625 GAAA-GAGAGAAAGGAAAA-AG
1 GAAAGGAGAGAAA-GAAAAGAG
24416645 GAAAGGAGAGAAAGAAAAGAG
1 GAAAGGAGAGAAAGAAAAGAG
* *
24416666 AAAAGAAGAGA
1 GAAAGGAGAGA
24416677 GGAGATACCG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 9 0.32
21 19 0.68
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (21 bp):
GAAAGGAGAGAAAGAAAAGAG
Found at i:24416790 original size:15 final size:14
Alignment explanation
Indices: 24416770--24416854 Score: 66
Period size: 15 Copynumber: 5.9 Consensus size: 14
24416760 GAAGAAGGGG
24416770 AAGAAAGAAAATAAA
1 AAGAAA-AAAATAAA
*
24416785 AAGAAAAAAAGAAA
1 AAGAAAAAAATAAA
24416799 AAGAAAGAAAA-AGAA
1 AAGAAA-AAAATA-AA
* * *
24416814 AA-AATAGAAGAAA
1 AAGAAAAAAATAAA
24416827 AAGAAAAAAAATAAA
1 AAG-AAAAAAATAAA
*
24416842 GAATAAAAAAATA
1 -AAGAAAAAAATA
24416855 GCAACAGCAG
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
13 7 0.12
14 17 0.30
15 31 0.54
16 2 0.04
ACGTcount: A:0.81, C:0.00, G:0.13, T:0.06
Consensus pattern (14 bp):
AAGAAAAAAATAAA
Found at i:24416797 original size:19 final size:19
Alignment explanation
Indices: 24416777--24416852 Score: 70
Period size: 20 Copynumber: 4.0 Consensus size: 19
24416767 GGGAAGAAAG
24416777 AAAATAAA-AAG-AAAAAA
1 AAAATAAAGAAGAAAAAAA
*
24416794 AGAA-AAAGAAAGAAAAAGAA
1 AAAATAAAG-AAGAAAAA-AA
24416814 AAAATAGAAGAA-AAAGAAAA
1 AAAATA-AAGAAGAAA-AAAA
*
24416834 AAAATAAAGAATAAAAAAA
1 AAAATAAAGAAGAAAAAAA
24416853 TAGCAACAGC
Statistics
Matches: 49, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
16 3 0.06
17 3 0.06
18 3 0.06
19 13 0.27
20 19 0.39
21 5 0.10
22 3 0.06
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.05
Consensus pattern (19 bp):
AAAATAAAGAAGAAAAAAA
Found at i:24416807 original size:18 final size:19
Alignment explanation
Indices: 24416773--24416850 Score: 74
Period size: 18 Copynumber: 4.2 Consensus size: 19
24416763 GAAGGGGAAG
*
24416773 AAAGAAAATAAAAAGAAAA
1 AAAGAAAATAGAAAGAAAA
24416792 AAAGAAAA-AGAAAGAAAA
1 AAAGAAAATAGAAAGAAAA
24416810 AGAA-AAAATAG-AAGAAAA
1 A-AAGAAAATAGAAAGAAAA
* *
24416828 AGAA-AAAAAATAAAGAATAA
1 A-AAGAAAATAGAAAGAA-AA
24416848 AAA
1 AAA
24416851 AATAGCAACA
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
18 30 0.58
19 19 0.37
20 3 0.06
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (19 bp):
AAAGAAAATAGAAAGAAAA
Found at i:24416851 original size:18 final size:17
Alignment explanation
Indices: 24416784--24416852 Score: 75
Period size: 18 Copynumber: 3.8 Consensus size: 17
24416774 AAGAAAATAA
*
24416784 AAAGAAAAAAAGAAAAAG
1 AAAGAAAAAAA-AAAAAT
*
24416802 AAAGAAAAAGAAAAAAT
1 AAAGAAAAAAAAAAAAT
24416819 AGAAGAAAAAGAAAAAAAAT
1 A-AAG-AAAA-AAAAAAAAT
24416839 AAAGAATAAAAAAA
1 AAAGAA-AAAAAAA
24416853 TAGCAACAGC
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
17 6 0.14
18 20 0.45
19 9 0.20
20 9 0.20
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.04
Consensus pattern (17 bp):
AAAGAAAAAAAAAAAAT
Found at i:24417084 original size:28 final size:26
Alignment explanation
Indices: 24417037--24417102 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 26
24417027 CCCAATTTGC
*
24417037 AAAAAAAAAGGGAAAAAGAAAAGAAA
1 AAAAAAAAAGGAAAAAAGAAAAGAAA
24417063 AAGAAAAAAAGGAAAAAGAGAAAAGAAA
1 AA-AAAAAAAGGAAAAA-AGAAAAGAAA
24417091 AAAACAAAAAGG
1 AAAA-AAAAAGG
24417103 CCCGAATTGC
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
26 2 0.06
27 15 0.42
28 19 0.53
ACGTcount: A:0.79, C:0.02, G:0.20, T:0.00
Consensus pattern (26 bp):
AAAAAAAAAGGAAAAAAGAAAAGAAA
Found at i:24417099 original size:21 final size:21
Alignment explanation
Indices: 24417055--24417101 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
24417045 AGGGAAAAAG
*
24417055 AAAAGAAAAAGAAAAAAAGGA
1 AAAAGAAAAAGAAAAAAAGCA
24417076 AAAAGAGAAAAGAAAAAAA-CA
1 AAAAGA-AAAAGAAAAAAAGCA
24417097 AAAAG
1 AAAAG
24417102 GCCCGAATTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (21 bp):
AAAAGAAAAAGAAAAAAAGCA
Found at i:24417100 original size:22 final size:21
Alignment explanation
Indices: 24417055--24417100 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
24417045 AGGGAAAAAG
**
24417055 AAAAGAAAAAGAAAAAAAGGA
1 AAAAGAAAAAGAAAAAAACAA
24417076 AAAAGAGAAAAGAAAAAAACAA
1 AAAAGA-AAAAGAAAAAAACAA
24417098 AAA
1 AAA
24417101 GGCCCGAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (21 bp):
AAAAGAAAAAGAAAAAAACAA
Found at i:24422304 original size:23 final size:22
Alignment explanation
Indices: 24422256--24422298 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
24422246 AACTAAATAA
24422256 AAACCAAATAAAAATCGAAAAC
1 AAACCAAATAAAAATCGAAAAC
*
24422278 AAACTAAACTAAAAAT-GAAAA
1 AAACCAAA-TAAAAATCGAAAA
24422299 ATAAACATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.70, C:0.14, G:0.05, T:0.12
Consensus pattern (22 bp):
AAACCAAATAAAAATCGAAAAC
Found at i:24428036 original size:72 final size:75
Alignment explanation
Indices: 24427862--24428047 Score: 216
Period size: 77 Copynumber: 2.5 Consensus size: 75
24427852 CCATTTTTGG
* * * *
24427862 GTAAATTGTAAATAAGTATATTATTTATGTTAAAATACAATATAATCCAATATAAAAAATTGTTT
1 GTAAATTGTAAATAAGTATATTATTGATGTAAAAATACAATACAATACAATAT--AAAATTGTTT
* *
24427927 CCATTTTTTTTT
64 CCATTTTTCTTC
* * * * * *
24427939 GTAAATTTTGAATAAGTATATTATTGATGTAAAAATACAATGCAATACAA-AT-AATTTTTTTTC
1 GTAAATTGTAAATAAGTATATTATTGATGTAAAAATACAATACAATACAATATAAAATTGTTTCC
24428002 A-TTTTCTTC
66 ATTTTTCTTC
*
24428011 GTAAATTGTAAATAAGTATAATATTGATGTAAAAATA
1 GTAAATTGTAAATAAGTATATTATTGATGTAAAAATA
24428048 ATAAACAAAT
Statistics
Matches: 94, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
72 40 0.43
73 9 0.10
76 2 0.02
77 43 0.46
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.43
Consensus pattern (75 bp):
GTAAATTGTAAATAAGTATATTATTGATGTAAAAATACAATACAATACAATATAAAATTGTTTCC
ATTTTTCTTC
Found at i:24430159 original size:17 final size:17
Alignment explanation
Indices: 24430134--24430166 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
24430124 CATATAAAAT
24430134 TTAAAAAATTAATAATA
1 TTAAAAAATTAATAATA
*
24430151 TTAACAAATTAATAAT
1 TTAAAAAATTAATAAT
24430167 TATATTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
TTAAAAAATTAATAATA
Found at i:24434669 original size:84 final size:84
Alignment explanation
Indices: 24434528--24434699 Score: 326
Period size: 84 Copynumber: 2.0 Consensus size: 84
24434518 AGACTGAAAT
*
24434528 AGTTGTTATGTTTTGTAAGTTGCTGGAGGTTCGGGTAGCAAGGGAAAAATCTAAGAAGAAGGTTT
1 AGTTGTCATGTTTTGTAAGTTGCTGGAGGTTCGGGTAGCAAGGGAAAAATCTAAGAAGAAGGTTT
24434593 TGGCGTCAACTTCCAAGTG
66 TGGCGTCAACTTCCAAGTG
*
24434612 AGTTGTCATGTTTTGTAAGTTGTTGGAGGTTCGGGTAGCAAGGGAAAAATCTAAGAAGAAGGTTT
1 AGTTGTCATGTTTTGTAAGTTGCTGGAGGTTCGGGTAGCAAGGGAAAAATCTAAGAAGAAGGTTT
24434677 TGGCGTCAACTTCCAAGTG
66 TGGCGTCAACTTCCAAGTG
24434696 AGTT
1 AGTT
24434700 CTAGAACTTA
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 86 1.00
ACGTcount: A:0.27, C:0.10, G:0.31, T:0.31
Consensus pattern (84 bp):
AGTTGTCATGTTTTGTAAGTTGCTGGAGGTTCGGGTAGCAAGGGAAAAATCTAAGAAGAAGGTTT
TGGCGTCAACTTCCAAGTG
Found at i:24435906 original size:76 final size:75
Alignment explanation
Indices: 24435771--24435912 Score: 185
Period size: 76 Copynumber: 1.9 Consensus size: 75
24435761 TTTTTAGATC
* * *
24435771 ACTTGCCACTGAGGCTGCCCAAATAATACGTCACATAAGCTTTTCAGATAAATCACCACAAAGGC
1 ACTTGCCACTAAGGCTGCCCAAATAATACGCCACATAAGATTTTCAGATAAATCACCACAAAGGC
24435836 TTCCCAAATA
66 TTCCCAAATA
* * * * * * *
24435846 ACTTCGCCACTAAGGCTTCCTAAGTAATACGCCACATAGGATTTTCAGATGATTCGCCACAAAGG
1 ACTT-GCCACTAAGGCTGCCCAAATAATACGCCACATAAGATTTTCAGATAAATCACCACAAAGG
24435911 CT
65 CT
24435913 CGGCTTGGTT
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
75 4 0.07
76 52 0.93
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.24
Consensus pattern (75 bp):
ACTTGCCACTAAGGCTGCCCAAATAATACGCCACATAAGATTTTCAGATAAATCACCACAAAGGC
TTCCCAAATA
Found at i:24442083 original size:15 final size:15
Alignment explanation
Indices: 24442046--24442084 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
24442036 GAAAGGCAAA
24442046 AATCATTTTAAGAAC
1 AATCATTTTAAGAAC
*
24442061 AAT-ATTTTTAGAAC
1 AATCATTTTAAGAAC
*
24442075 AATCTTTTTA
1 AATCATTTTA
24442085 CCCGGTTTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (15 bp):
AATCATTTTAAGAAC
Found at i:24445267 original size:6 final size:6
Alignment explanation
Indices: 24445256--24445285 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
24445246 AATTAGTGCG
24445256 TTCAAT TTCAAT TTCAAT TTCAAT TTCAAT
1 TTCAAT TTCAAT TTCAAT TTCAAT TTCAAT
24445286 GGAACTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (6 bp):
TTCAAT
Found at i:24450157 original size:33 final size:33
Alignment explanation
Indices: 24450102--24450172 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
24450092 TATTTGTGTG
* * *
24450102 ATTAATTTTAAAACCGGCCTAAAGGCTTAATTA
1 ATTAATTTTAAAACCAGCCTAAAGCCGTAATTA
* * *
24450135 ATTAATTTTAAAATCAGTCTAAAGCCGTATTTA
1 ATTAATTTTAAAACCAGCCTAAAGCCGTAATTA
24450168 ATTAA
1 ATTAA
24450173 AAATACAACT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.37
Consensus pattern (33 bp):
ATTAATTTTAAAACCAGCCTAAAGCCGTAATTA
Found at i:24451149 original size:2 final size:2
Alignment explanation
Indices: 24451142--24451166 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24451132 ACAAGGTTTA
24451142 GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT G
24451167 CGCGTATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.52, T:0.48
Consensus pattern (2 bp):
GT
Found at i:24459388 original size:21 final size:21
Alignment explanation
Indices: 24459364--24459420 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
24459354 TACTCTGAAT
24459364 GTCAA-TCCTATGAACAGTGGA
1 GTCAAGTCC-ATGAACAGTGGA
24459385 GTCAAGTCCATGAACAGTGGA
1 GTCAAGTCCATGAACAGTGGA
*
24459406 GTCAAAT-CATGAACA
1 GTCAAGTCCATGAACA
24459421 ACAACAATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 8 0.24
21 23 0.68
22 3 0.09
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (21 bp):
GTCAAGTCCATGAACAGTGGA
Found at i:24463996 original size:59 final size:60
Alignment explanation
Indices: 24463882--24463997 Score: 139
Period size: 59 Copynumber: 1.9 Consensus size: 60
24463872 GGGGCGAAAT
* * * *
24463882 TAAATAAAGGATTAAATCAGAATTAAAATGAAATTAAGAGCTTAAATTGTAATATAAGAA
1 TAAATAAAGGACTAAATCAAAATTAAAATGAAATTAAGAGCATAAATTATAATATAAGAA
* *
24463942 TAAAT-AAGGACTAAATCAAAATTCAAATGAAATTTAATG-GGATAAATTAT-ATATAA
1 TAAATAAAGGACTAAATCAAAATTAAAATGAAA-TTAA-GAGCATAAATTATAATATAA
24463998 AAAAAGTAGA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
59 30 0.62
60 17 0.35
61 1 0.02
ACGTcount: A:0.54, C:0.04, G:0.12, T:0.29
Consensus pattern (60 bp):
TAAATAAAGGACTAAATCAAAATTAAAATGAAATTAAGAGCATAAATTATAATATAAGAA
Found at i:24468141 original size:210 final size:210
Alignment explanation
Indices: 24467760--24468707 Score: 901
Period size: 210 Copynumber: 4.5 Consensus size: 210
24467750 TAATATGATC
* *
24467760 CCTCTCAAAAAAGTTAGTGCGAGCTCAAGGTCCCAGCTGTAATCTTAAGGCTCGTAGGTTCAATA
1 CCTC-CAAAATAGTTAGTGCGAGCTCAAGATCCCAGCTGTAATCTTAAGGCTCGTAGGTTCAATA
* * * * * * * * **
24467825 TAGCCGCCTCAAAAACAATTAACGCGAGCTCAAGCTCCTAGCTAAAATATTAAGGCTTACAGGTT
65 TCGCAGCCTCCAAAATAGTTAACTCGAGCTTAAGCTCCTAACTTGAATATTAAGGCTTACAGGTT
* * * * * *
24467890 TAGTATCGTAGCCTCCAAAATAGTTAGCGTGAGCTCAAGCTCCAAGCTAAAGTCTTAAGGCTCGT
130 CAATATCGCAGCCTCCAAAACAGTTAGCGCGAGCTCAAGCTCCAAGCTAAAATCTTAAGGCTCGT
*
24467955 AGGTTCAAAACTGCAG
195 AGGTTCAATACTGCAG
* * * *
24467971 CCTCCAAAATAGTTAGAT-CGAGCTCAAGCTCCCAACTAG-AATCTTAAGGCTTGCAGGTTCAAT
1 CCTCCAAAATAGTTAG-TGCGAGCTCAAGATCCCAGCT-GTAATCTTAAGGCTCGTAGGTTCAAT
* * * *
24468034 ATTGCAGCCTCTAAAATAGTTAGCTCGAGCTTAAGCTCCTAAC-TGTAATATTAAGGCTCACAGG
64 ATCGCAGCCTCCAAAATAGTTAACTCGAGCTTAAGCTCCTAACTTG-AATATTAAGGCTTACAGG
* * * * * *
24468098 TTCAATATAGCAGCCTCAAAAAAAATTAACTCGAGCTCAAGCTCTCAA-CTAAAATCTTAAGGCT
128 TTCAATATCGCAGCCTCCAAAACAGTTAGCGCGAGCTCAAGCTC-CAAGCTAAAATCTTAAGGCT
* *
24468162 CGTAGGTTCAATACCGTAG
192 CGTAGGTTCAATACTGCAG
* * * * *
24468181 CCTCTAAAACTA-TTAGTGTGAGCTTAAGATCCCAGCTGTAGTCTTAAGGCTCGTAGATTCAATA
1 CCTCCAAAA-TAGTTAGTGCGAGCTCAAGATCCCAGCTGTAATCTTAAGGCTCGTAGGTTCAATA
* * * * * **
24468245 TCACAACCTCCAAAATAGTTAGCAT-GAGCTCAAGCT-CTAAGCTTGAATCTTAAGGCTTGTAGG
65 TCGCAGCCTCCAAAATAGTTAAC-TCGAGCTTAAGCTCCTAA-CTTGAATATTAAGGCTTACAGG
* * * * *
24468308 TTTAATGTCGCAGCCTCCAAAACAGTTTGCGCGAGTTCAAGCTCCTAGCTAAAATCTTAAGGCAT
128 TTCAATATCGCAGCCTCCAAAACAGTTAGCGCGAGCTCAAGCTCCAAGCTAAAATCTTAAGGC-T
*
24468373 -GTAGGTTTAATA-TCGCAG
192 CGTAGGTTCAATACT-GCAG
* * * * * * *
24468391 CCTCTAAAATTGTTAGTGTGAGCTTAAGATCCCAGCTGTAATCTTAAGTCTCATAGATTCAATAT
1 CCTCCAAAATAGTTAGTGCGAGCTCAAGATCCCAGCTGTAATCTTAAGGCTCGTAGGTTCAATAT
* * * **
24468456 CGCAACCTCCAAAATTGTTAACGT-GAGCTTAAGCT-CTAAGCTTGAATTTTAAGGCTTGTAGGT
66 CGCAGCCTCCAAAATAGTTAAC-TCGAGCTTAAGCTCCTAA-CTTGAATATTAAGGCTTACAGGT
* * * * * * *
24468519 TCAATGTCCCAGCCTTCAAAACAGTTAGCGCGAGTTCAAGCTCCCACCTAAATTCTTAAGGCTCG
129 TCAATATCGCAGCCTCCAAAACAGTTAGCGCGAGCTCAAGCTCCAAGCTAAAATCTTAAGGCTCG
* *
24468584 CAGGTTCAGTACTGCAG
194 TAGGTTCAATACTGCAG
* ** *** * * * * *
24468601 CCTTCAAAGCAGTTAACACGAGGTCAAGCTCCCAGCTGTAATCTCAAGGCTCGCAGGTTTAATAT
1 CCTCCAAAATAGTTAGTGCGAGCTCAAGATCCCAGCTGTAATCTTAAGGCTCGTAGGTTCAATAT
* * * * *
24468666 CACAGCCTCCAAAGTAGTTAACACGAGCCTATGCTCCTAACT
66 CGCAGCCTCCAAAATAGTTAACTCGAGCTTAAGCTCCTAACT
24468708 AGTATTATAA
Statistics
Matches: 611, Mismatches: 108, Indels: 37
0.81 0.14 0.05
Matches are distributed among these distances:
209 10 0.02
210 581 0.95
211 20 0.03
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (210 bp):
CCTCCAAAATAGTTAGTGCGAGCTCAAGATCCCAGCTGTAATCTTAAGGCTCGTAGGTTCAATAT
CGCAGCCTCCAAAATAGTTAACTCGAGCTTAAGCTCCTAACTTGAATATTAAGGCTTACAGGTTC
AATATCGCAGCCTCCAAAACAGTTAGCGCGAGCTCAAGCTCCAAGCTAAAATCTTAAGGCTCGTA
GGTTCAATACTGCAG
Found at i:24468692 original size:70 final size:70
Alignment explanation
Indices: 24467760--24468685 Score: 709
Period size: 70 Copynumber: 13.2 Consensus size: 70
24467750 TAATATGATC
* * *
24467760 CCTCTCAAAAAAGTTAGTGCGAGCTCAAGGTCCCAGCTGTAATCTTAAGGCTCGTAGGTTCAATA
1 CCTC-CAAAATAGTTAGCGCGAGCTCAAGCTCCCAGCTGTAATCTTAAGGCTCGTAGGTTCAATA
* *
24467825 TAGCCG
65 TCGCAG
* * * * * ** * *** * *
24467831 CCTCAAAAACAATTAACGCGAGCTCAAGCTCCTAGCTAAAATATTAAGGCTTACAGGTTTAGTAT
1 CCTCCAAAATAGTTAGCGCGAGCTCAAGCTCCCAGCTGTAATCTTAAGGCTCGTAGGTTCAATAT
*
24467896 CGTAG
66 CGCAG
* * *
24467901 CCTCCAAAATAGTTAGCGTGAGCTCAAGCTCCAAGCT-AAAGTCTTAAGGCTCGTAGGTTCAA-A
1 CCTCCAAAATAGTTAGCGCGAGCTCAAGCTCCCAGCTGTAA-TCTTAAGGCTCGTAGGTTCAATA
*
24467964 ACTGCAG
65 TC-GCAG
** * * *
24467971 CCTCCAAAATAGTTAGATCGAGCTCAAGCTCCCAACTAG-AATCTTAAGGCTTGCAGGTTCAATA
1 CCTCCAAAATAGTTAGCGCGAGCTCAAGCTCCCAGCT-GTAATCTTAAGGCTCGTAGGTTCAATA
*
24468035 TTGCAG
65 TCGCAG
* * * * * * **
24468041 CCTCTAAAATAGTTAGCTCGAGCTTAAGCTCCTAACTGTAATATTAAGGCTCACAGGTTCAATAT
1 CCTCCAAAATAGTTAGCGCGAGCTCAAGCTCCCAGCTGTAATCTTAAGGCTCGTAGGTTCAATAT
*
24468106 AGCAG
66 CGCAG
* * * * * * * ** *
24468111 CCTCAAAAAAAATTAACTCGAGCTCAAGCTCTCAACTAAAATCTTAAGGCTCGTAGGTTCAATAC
1 CCTCCAAAATAGTTAGCGCGAGCTCAAGCTCCCAGCTGTAATCTTAAGGCTCGTAGGTTCAATAT
*
24468176 CGTAG
66 CGCAG
* * * * * * *
24468181 CCTCTAAAACTA-TTAGTGTGAGCTTAAGATCCCAGCTGTAGTCTTAAGGCTCGTAGATTCAATA
1 CCTCCAAAA-TAGTTAGCGCGAGCTCAAGCTCCCAGCTGTAATCTTAAGGCTCGTAGGTTCAATA
* *
24468245 TCACAA
65 TCGCAG
** ** * * *
24468251 CCTCCAAAATAGTTAGCATGAGCTCAAGCTCTAAGCT-TGAATCTTAAGGCTTGTAGGTTTAATG
1 CCTCCAAAATAGTTAGCGCGAGCTCAAGCTCCCAGCTGT-AATCTTAAGGCTCGTAGGTTCAATA
24468315 TCGCAG
65 TCGCAG
* * * * ** *
24468321 CCTCCAAAACAGTTTGCGCGAGTTCAAGCTCCTAGCTAAAATCTTAAGGCAT-GTAGGTTTAATA
1 CCTCCAAAATAGTTAGCGCGAGCTCAAGCTCCCAGCTGTAATCTTAAGGC-TCGTAGGTTCAATA
24468385 TCGCAG
65 TCGCAG
* * * * * * * * *
24468391 CCTCTAAAATTGTTAGTGTGAGCTTAAGATCCCAGCTGTAATCTTAAGTCTCATAGATTCAATAT
1 CCTCCAAAATAGTTAGCGCGAGCTCAAGCTCCCAGCTGTAATCTTAAGGCTCGTAGGTTCAATAT
*
24468456 CGCAA
66 CGCAG
* * * * ** * * *
24468461 CCTCCAAAATTGTTAACGTGAGCTTAAGCTCTAAGCT-TGAATTTTAAGGCTTGTAGGTTCAATG
1 CCTCCAAAATAGTTAGCGCGAGCTCAAGCTCCCAGCTGT-AATCTTAAGGCTCGTAGGTTCAATA
*
24468525 TCCCAG
65 TCGCAG
* * * * * * *
24468531 CCTTCAAAACAGTTAGCGCGAGTTCAAGCTCCCACCT-AAATTCTTAAGGCTCGCAGGTTCAGTA
1 CCTCCAAAATAGTTAGCGCGAGCTCAAGCTCCCAGCTGTAA-TCTTAAGGCTCGTAGGTTCAATA
24468595 -CTGCAG
65 TC-GCAG
* ** * * * * * *
24468601 CCTTCAAAGCAGTTAACACGAGGTCAAGCTCCCAGCTGTAATCTCAAGGCTCGCAGGTTTAATAT
1 CCTCCAAAATAGTTAGCGCGAGCTCAAGCTCCCAGCTGTAATCTTAAGGCTCGTAGGTTCAATAT
*
24468666 CACAG
66 CGCAG
*
24468671 CCTCCAAAGTAGTTA
1 CCTCCAAAATAGTTA
24468686 ACACGAGCCT
Statistics
Matches: 673, Mismatches: 165, Indels: 35
0.77 0.19 0.04
Matches are distributed among these distances:
69 14 0.02
70 647 0.96
71 12 0.02
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (70 bp):
CCTCCAAAATAGTTAGCGCGAGCTCAAGCTCCCAGCTGTAATCTTAAGGCTCGTAGGTTCAATAT
CGCAG
Found at i:24471830 original size:21 final size:20
Alignment explanation
Indices: 24471806--24471855 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
24471796 TGTCAGTCTT
* *
24471806 ATGAATAGTAAGGTCAAGTCC
1 ATGAATAGTAAAGTCAAAT-C
*
24471827 ATGAACAGTAAAGTCAAATC
1 ATGAATAGTAAAGTCAAATC
24471847 ATGAATAGT
1 ATGAATAGT
24471856 GATAATGTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.44, C:0.12, G:0.20, T:0.24
Consensus pattern (20 bp):
ATGAATAGTAAAGTCAAATC
Found at i:24473642 original size:18 final size:17
Alignment explanation
Indices: 24473619--24473653 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
24473609 GTTAGGCTGA
24473619 AATGGGTCGTGTGGGCCC
1 AATGGG-CGTGTGGGCCC
*
24473637 AATGGGCTTGTGGGCCC
1 AATGGGCGTGTGGGCCC
24473654 TACACGGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.11, C:0.23, G:0.43, T:0.23
Consensus pattern (17 bp):
AATGGGCGTGTGGGCCC
Found at i:24478706 original size:26 final size:26
Alignment explanation
Indices: 24478612--24478696 Score: 102
Period size: 25 Copynumber: 3.3 Consensus size: 26
24478602 AAGTAGTTCT
24478612 GAAGAGCCATTAATCGGGAAGCTC-C
1 GAAGAGCCATTAATCGGGAAGCTCAC
* * *
24478637 GGAGGGCCATTAA-CAGGAAGCTCAC
1 GAAGAGCCATTAATCGGGAAGCTCAC
* * *
24478662 AAAAAGCCTTTAATCGGGAAGCTCAC
1 GAAGAGCCATTAATCGGGAAGCTCAC
24478688 GAAGAGCCA
1 GAAGAGCCA
24478697 CATAACGGGA
Statistics
Matches: 46, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
24 9 0.20
25 20 0.43
26 17 0.37
ACGTcount: A:0.35, C:0.24, G:0.27, T:0.14
Consensus pattern (26 bp):
GAAGAGCCATTAATCGGGAAGCTCAC
Found at i:24481865 original size:43 final size:43
Alignment explanation
Indices: 24481804--24481897 Score: 170
Period size: 43 Copynumber: 2.2 Consensus size: 43
24481794 TGTGGTTTGG
* *
24481804 GTTATATTATGCTTTTACTTTATGTTATGCAAATGAATGGTAA
1 GTTATGTTATGCTTTTACTTTATGTTATGCAAATAAATGGTAA
24481847 GTTATGTTATGCTTTTACTTTATGTTATGCAAATAAATGGTAA
1 GTTATGTTATGCTTTTACTTTATGTTATGCAAATAAATGGTAA
24481890 GTTATGTT
1 GTTATGTT
24481898 TTATATTCTA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.29, C:0.06, G:0.17, T:0.48
Consensus pattern (43 bp):
GTTATGTTATGCTTTTACTTTATGTTATGCAAATAAATGGTAA
Found at i:24483520 original size:20 final size:19
Alignment explanation
Indices: 24483489--24483533 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
24483479 TAATTTAACC
*
24483489 ATTTTTTATTTTTATTTTA
1 ATTTTTTATTTTTAATTTA
*
24483508 ATGTTTTTGTTTTTAATTTA
1 AT-TTTTTATTTTTAATTTA
24483528 ATTTTT
1 ATTTTT
24483534 ACATTCTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (19 bp):
ATTTTTTATTTTTAATTTA
Found at i:24484804 original size:41 final size:41
Alignment explanation
Indices: 24484746--24484829 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
24484736 AAGAAAGCCC
24484746 TTTCCTTTATCACATGTCATATGAAGGGTTTAAACATGTCT
1 TTTCCTTTATCACATGTCATATGAAGGGTTTAAACATGTCT
*
24484787 TTTCCTTTATCATATGTCATATGAAGGGTTTAAACATGTCT
1 TTTCCTTTATCACATGTCATATGAAGGGTTTAAACATGTCT
24484828 TT
1 TT
24484830 AATGTGACCA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.44
Consensus pattern (41 bp):
TTTCCTTTATCACATGTCATATGAAGGGTTTAAACATGTCT
Found at i:24486772 original size:64 final size:60
Alignment explanation
Indices: 24486701--24486878 Score: 165
Period size: 61 Copynumber: 3.0 Consensus size: 60
24486691 ATATTAAGAA
*
24486701 TTGTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAATATAT
1 TTGTATTAAATTATATATTTTTATTAAATTATATATAATAATAATTATGTTAAAATATAT
* * * * *
24486761 TT-TA-TAGTATTATATATTATGATT-TTAGAAAATT-TATATAAGAATATTTAATATT--AAGA
1 TTGTATTA-AATTATATATT-T--TTATT---AAATTATATATAATAATAATT-ATGTTAAAATA
24486820 -AT
58 TAT
*
24486822 TT-TATTAAATTATATATTTTTATTAAATTATATACAATAATAATTATGTTAAAATAT
1 TTGTATTAAATTATATATTTTTATTAAATTATATATAATAATAATTATGTTAAAATAT
24486879 GATTAAATTA
Statistics
Matches: 92, Mismatches: 12, Indels: 29
0.69 0.09 0.22
Matches are distributed among these distances:
56 9 0.10
57 12 0.13
58 7 0.08
59 14 0.15
60 4 0.04
61 18 0.20
62 7 0.08
63 12 0.13
64 9 0.10
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (60 bp):
TTGTATTAAATTATATATTTTTATTAAATTATATATAATAATAATTATGTTAAAATATAT
Found at i:24486800 original size:120 final size:120
Alignment explanation
Indices: 24486659--24486878 Score: 386
Period size: 120 Copynumber: 1.8 Consensus size: 120
24486649 TTCTTTTTAC
**
24486659 ATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTGTATTAAATTATATATTTTTA
1 ATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTGTATTAAATTATATATTTTTA
**
24486724 TTAAATTATATTTAATAATAATTATGTTAAAATATATTTTATAGTATTATATATT
66 TTAAATTATATACAATAATAATTATGTTAAAATATATTTTATAGTATTATATATT
* *
24486779 ATGATTTTAGAAAATTTATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTA
1 ATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTGTATTAAATTATATATTTTTA
24486844 TTAAATTATATACAATAATAATTATGTTAAAATAT
66 TTAAATTATATACAATAATAATTATGTTAAAATAT
24486879 GATTAAATTA
Statistics
Matches: 94, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 94 1.00
ACGTcount: A:0.45, C:0.01, G:0.05, T:0.49
Consensus pattern (120 bp):
ATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTGTATTAAATTATATATTTTTA
TTAAATTATATACAATAATAATTATGTTAAAATATATTTTATAGTATTATATATT
Found at i:24486842 original size:18 final size:18
Alignment explanation
Indices: 24486821--24486855 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
24486811 ATATTAAGAA
24486821 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
24486839 TTTTATTAAATTATATA
1 TTTTATTAAATTATATA
24486856 CAATAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTATTAAATTATATAT
Found at i:24487044 original size:39 final size:40
Alignment explanation
Indices: 24487001--24487105 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
24486991 TTCCATTATG
24487001 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
24487040 CTATTACGCCTCTATTTCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTA-TTC----CATTCAACCAAACACAAGATTTA
24487085 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
24487106 ACACCTCTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 13 0.24
40 7 0.13
44 19 0.35
45 15 0.28
ACGTcount: A:0.31, C:0.29, G:0.05, T:0.35
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:24487099 original size:45 final size:44
Alignment explanation
Indices: 24486999--24487108 Score: 122
Period size: 45 Copynumber: 2.6 Consensus size: 44
24486989 TTTTCCATTA
24486999 TGCTATTACACCTCTA-TTC----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTTCATTACATTCAACCAAACACAAGAT
* * ***
24487038 TACTATTACGCCTCTATTTCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTTCATTACATTCAACCAAACACAAGA-T
*
24487083 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTTCATTACA
24487109 CCTCTAATCC
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
39 14 0.25
40 3 0.05
44 16 0.28
45 24 0.42
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (44 bp):
TGCTATTACACCTCTATTTCATTACATTCAACCAAACACAAGAT
Found at i:24487108 original size:16 final size:16
Alignment explanation
Indices: 24487087--24487124 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
24487077 TTGATTTGCT
*
24487087 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
24487103 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
24487119 AATACA
1 ATTACA
24487125 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:24490314 original size:24 final size:25
Alignment explanation
Indices: 24490282--24490332 Score: 77
Period size: 24 Copynumber: 2.0 Consensus size: 25
24490272 CAAAATTAAT
24490282 ATATCACACATGCTTAT-ATAACAG
1 ATATCACACATGCTTATAATAACAG
*
24490306 ATATTACACATGCTTATACATAACAG
1 ATATCACACATGCTTATA-ATAACAG
24490332 A
1 A
24490333 ACAAATCATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 16 0.67
26 8 0.33
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (25 bp):
ATATCACACATGCTTATAATAACAG
Found at i:24496954 original size:17 final size:17
Alignment explanation
Indices: 24496928--24497026 Score: 99
Period size: 17 Copynumber: 5.8 Consensus size: 17
24496918 TAAACTCAAG
* *
24496928 CAAATTTTGAATTTAAT
1 CAAATTTTGAACTTAAA
* *
24496945 CAAATCTTGAACTTAAG
1 CAAATTTTGAACTTAAA
*
24496962 CACATTTTGAACTTAAA
1 CAAATTTTGAACTTAAA
** *
24496979 CAAATTTTGGGCTTAAG
1 CAAATTTTGAACTTAAA
* *
24496996 CAATTTTTGAACTTAAG
1 CAAATTTTGAACTTAAA
*
24497013 CAAATTCTGAACTT
1 CAAATTTTGAACTT
24497027 GAATAGACTT
Statistics
Matches: 67, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 67 1.00
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.37
Consensus pattern (17 bp):
CAAATTTTGAACTTAAA
Found at i:24497378 original size:138 final size:138
Alignment explanation
Indices: 24497142--24497681 Score: 606
Period size: 138 Copynumber: 3.9 Consensus size: 138
24497132 GTAAGTTGGT
* * * *
24497142 AGCGTAGGTCCGCCACCTGTGTTGGAGCTACGAGCTTAACTCTACGAGCTCTCAGAATATCAGCT
1 AGCGTAGGTTCGCTAGCTGTGTTGGAGCTGCGAGCTTAACTCTACGAGCTCTCAGAATATCAGCT
* ** * *
24497207 GGGAGCGTAGGTCCACTAGCTATTTTTAAAGGTTGTAATCATAAATCGACAAACCCTTATAACAT
66 AGGAGCGTAGGTCCACTAGCTATTTTTGGAGGTTGCAATCATAAATCGACAAACCTTTATAACAT
* *
24497272 CAATTGAG
131 CAACTGGG
* * * * **
24497280 AGCATAGGTTCGCTAGCTGTGTTGGAGCTGTGACCTTAAATCTACGAGCTCTTGGAATA-CTAGC
1 AGCGTAGGTTCGCTAGCTGTGTTGGAGCTGCGAGCTTAACTCTACGAGCTCTCAGAATATC-AGC
** * * *
24497344 TAGGAGTATAGGTTCGCTAGCTATTTTTGGAGGTTGTAATCATAAAAT-GACAAACCTTTATAAC
65 TAGGAGCGTAGGTCCACTAGCTATTTTTGGAGGTTGCAATCAT-AAATCGACAAACCTTTATAAC
*
24497408 ATCAGCTGGG
129 ATCAACTGGG
* * * * *
24497418 AGCGTAGGTCCGCTAGTTGTGTTGGAGCTGCGAGGTTAACTTTGCGAGCTCTCAGAATATCAGCT
1 AGCGTAGGTTCGCTAGCTGTGTTGGAGCTGCGAGCTTAACTCTACGAGCTCTCAGAATATCAGCT
* * * *
24497483 GGGAGCGTAAGTCCATTAGTTATTTTTGGAGGTTGCAATCATAAATC-AGCAAACCTTTATAACA
66 AGGAGCGTAGGTCCACTAGCTATTTTTGGAGGTTGCAATCATAAATCGA-CAAACCTTTATAACA
24497547 TCAACTGGG
130 TCAACTGGG
* * * * * **
24497556 AGCGTAGG-TCCCTTAGCTATATTGGAGTTGCAAGCTTAACTCTACGAGCTCTTGGAATATCA--
1 AGCGTAGGTTCGC-TAGCTGTGTTGGAGCTGCGAGCTTAACTCTACGAGCTCTCAGAATATCAGC
* * *
24497618 TATGGAAGCGTAGGTCCACTAGCTATTTTTGGAGGTTGCGATCACAAACCGACAAACCTTTATA
65 TA-GG-AGCGTAGGTCCACTAGCTATTTTTGGAGGTTGCAATCATAAATCGACAAACCTTTATA
24497682 TAATACCAAG
Statistics
Matches: 332, Mismatches: 61, Indels: 18
0.81 0.15 0.04
Matches are distributed among these distances:
136 1 0.00
137 10 0.03
138 315 0.95
139 6 0.02
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (138 bp):
AGCGTAGGTTCGCTAGCTGTGTTGGAGCTGCGAGCTTAACTCTACGAGCTCTCAGAATATCAGCT
AGGAGCGTAGGTCCACTAGCTATTTTTGGAGGTTGCAATCATAAATCGACAAACCTTTATAACAT
CAACTGGG
Found at i:24497642 original size:276 final size:275
Alignment explanation
Indices: 24497142--24497681 Score: 692
Period size: 276 Copynumber: 2.0 Consensus size: 275
24497132 GTAAGTTGGT
24497142 AGCGTAGGTCCGCCACCTGTGTTGGAGCTACGAGCTTAACTCTACGAGCTCTCAGAATATCAGCT
1 AGCGTAGGTCCGCCACCTGTGTTGGAGCTACGAGCTTAACTCTACGAGCTCTCAGAATATCAGCT
* *
24497207 GGGAGCGTAGGTCCACTAGCTATTTTTAAAGGTTGTAATCATAAATCGACAAACCCTTATAACAT
66 GGGAGCGTAAGTCCACTAGCTATTTTTAAAGGTTGCAATCATAAATCGACAAACCCTTATAACAT
* * * * **
24497272 CAATTGAGAGCATAGGTTCGCTAGCTGTGTTGGAGCTGTGACCTTAAATCTACGAGCTCTTGGAA
131 CAACTGAGAGCATAGGTTCCCTAGCTATATTGGAGCTGCAACCTTAAATCTACGAGCTCTTGGAA
* * * * * *
24497337 TACTAGCTAGGAGTATAGGTTCGCTAGCTATTTTTGGAGGTTGTAATCATAAAATGACAAACCTT
196 TACTA-CTAGGAGCATAGGTCCACTAGCTATTTTTGGAGGTTGCAATCACAAAACGACAAACCTT
24497402 TATAACATCAGCTGGG
260 TATAACATCAGCTGGG
* ** * * * *
24497418 AGCGTAGGTCCGCTAGTTGTGTTGGAGCTGCGAGGTTAACTTTGCGAGCTCTCAGAATATCAGCT
1 AGCGTAGGTCCGCCACCTGTGTTGGAGCTACGAGCTTAACTCTACGAGCTCTCAGAATATCAGCT
* * ** *
24497483 GGGAGCGTAAGTCCATTAGTTATTTTTGGAGGTTGCAATCATAAATC-AGCAAACCTTTATAACA
66 GGGAGCGTAAGTCCACTAGCTATTTTTAAAGGTTGCAATCATAAATCGA-CAAACCCTTATAACA
* * * * *
24497547 TCAACTGGGAGCGTAGG-TCCCTTAGCTATATTGGAGTTGCAAGCTTAACTCTACGAGCTCTTGG
130 TCAACTGAGAGCATAGGTTCCC-TAGCTATATTGGAGCTGCAACCTTAAATCTACGAGCTCTTGG
* * *
24497611 AATA-T-CATATGGAAGCGTAGGTCCACTAGCTATTTTTGGAGGTTGCGATCACAAACCGACAAA
194 AATACTAC-TA-GG-AGCATAGGTCCACTAGCTATTTTTGGAGGTTGCAATCACAAAACGACAAA
24497674 CCTTTATA
256 CCTTTATA
24497682 TAATACCAAG
Statistics
Matches: 225, Mismatches: 34, Indels: 10
0.84 0.13 0.04
Matches are distributed among these distances:
273 1 0.00
274 2 0.01
275 7 0.03
276 215 0.96
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (275 bp):
AGCGTAGGTCCGCCACCTGTGTTGGAGCTACGAGCTTAACTCTACGAGCTCTCAGAATATCAGCT
GGGAGCGTAAGTCCACTAGCTATTTTTAAAGGTTGCAATCATAAATCGACAAACCCTTATAACAT
CAACTGAGAGCATAGGTTCCCTAGCTATATTGGAGCTGCAACCTTAAATCTACGAGCTCTTGGAA
TACTACTAGGAGCATAGGTCCACTAGCTATTTTTGGAGGTTGCAATCACAAAACGACAAACCTTT
ATAACATCAGCTGGG
Found at i:24510119 original size:34 final size:34
Alignment explanation
Indices: 24510080--24510148 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
24510070 CTAAAACTCA
24510080 TTTTCAAAAATTGACTTAATTTCCTAATAGCCAT
1 TTTTCAAAAATTGACTTAATTTCCTAATAGCCAT
24510114 TTTTCAAAAATTGACTTAATTTCCTAATAGCCAT
1 TTTTCAAAAATTGACTTAATTTCCTAATAGCCAT
24510148 T
1 T
24510149 GTCGAAAACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.35, C:0.17, G:0.06, T:0.42
Consensus pattern (34 bp):
TTTTCAAAAATTGACTTAATTTCCTAATAGCCAT
Found at i:24510724 original size:67 final size:67
Alignment explanation
Indices: 24510642--24510777 Score: 263
Period size: 67 Copynumber: 2.0 Consensus size: 67
24510632 AAAATACAAA
*
24510642 GTTGGGTTACGAATCTTGGGATCAAACAAGCAAAATGCAAGTTTATGTCTTGAGATAATGAAGCC
1 GTTGGGTTACCAATCTTGGGATCAAACAAGCAAAATGCAAGTTTATGTCTTGAGATAATGAAGCC
24510707 AT
66 AT
24510709 GTTGGGTTACCAATCTTGGGATCAAACAAGCAAAATGCAAGTTTATGTCTTGAGATAATGAAGCC
1 GTTGGGTTACCAATCTTGGGATCAAACAAGCAAAATGCAAGTTTATGTCTTGAGATAATGAAGCC
24510774 AT
66 AT
24510776 GT
1 GT
24510778 CTCGAGGCAT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.29
Consensus pattern (67 bp):
GTTGGGTTACCAATCTTGGGATCAAACAAGCAAAATGCAAGTTTATGTCTTGAGATAATGAAGCC
AT
Found at i:24518202 original size:29 final size:29
Alignment explanation
Indices: 24518170--24518228 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
24518160 TCGTGGAAGA
* * * * *
24518170 GGTGGAGAACTTGTTTGTTTAGAGTTCGT
1 GGTGAAGAACTTATTCGTTGAGAATTCGT
24518199 GGTGAAGAACTTATTCGTTGAGAATTCGT
1 GGTGAAGAACTTATTCGTTGAGAATTCGT
24518228 G
1 G
24518229 TCAAAGTGGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.22, C:0.08, G:0.32, T:0.37
Consensus pattern (29 bp):
GGTGAAGAACTTATTCGTTGAGAATTCGT
Found at i:24532549 original size:35 final size:35
Alignment explanation
Indices: 24532508--24532702 Score: 159
Period size: 35 Copynumber: 5.7 Consensus size: 35
24532498 ACTATGAACA
* * *
24532508 TAAGACCATGGTTAGACCATGGCAGTATTTATATG
1 TAAGACCATAGCTGGACCATGGCAGTATTTATATG
* * * *
24532543 TAAGACCATAGCTGGACTATAGCA-T-TCT-GATG
1 TAAGACCATAGCTGGACCATGGCAGTATTTATATG
* * * * *
24532575 ATAAGACCATAACTAGG-TCATGGCACTA-TGA-ACG
1 -TAAGACCATAGCT-GGACCATGGCAGTATTTATATG
* * *
24532609 TAAGACCATAGTTGGACCAGGGCAGTGTTTATATG
1 TAAGACCATAGCTGGACCATGGCAGTATTTATATG
* * *
24532644 TAAGACCATAGCTGGGCTATGGCAGTGTTTATATG
1 TAAGACCATAGCTGGACCATGGCAGTATTTATATG
*
24532679 TAAGACCATAGCTGGACTATGGCA
1 TAAGACCATAGCTGGACCATGGCA
24532703 TTCTGATGAT
Statistics
Matches: 125, Mismatches: 27, Indels: 16
0.74 0.16 0.10
Matches are distributed among these distances:
32 5 0.04
33 37 0.30
34 8 0.06
35 75 0.60
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (35 bp):
TAAGACCATAGCTGGACCATGGCAGTATTTATATG
Found at i:24532584 original size:33 final size:32
Alignment explanation
Indices: 24532540--24532721 Score: 141
Period size: 35 Copynumber: 5.4 Consensus size: 32
24532530 CAGTATTTAT
*
24532540 ATGTAAGACCATAGCTGGACTATAGCATTCTG
1 ATGTAAGACCATAGCTGGACTATGGCATTCTG
* * * *
24532572 ATGATAAGACCATAACTAGGTC-ATGGCACTATG
1 ATG-TAAGACCATAGCT-GGACTATGGCATTCTG
* * * * * *
24532605 AACGTAAGACCATAGTTGGACCAGGGCAGTGTTTAT
1 -ATGTAAGACCATAGCTGGACTATGGCA-T-TCT-G
* * *
24532641 ATGTAAGACCATAGCTGGGCTATGGCAGTGTTTAT
1 ATGTAAGACCATAGCTGGACTATGGCA-T-TCT-G
24532676 ATGTAAGACCATAGCTGGACTATGGCATTCTG
1 ATGTAAGACCATAGCTGGACTATGGCATTCTG
24532708 ATGATAAGACCATA
1 ATG-TAAGACCATA
24532722 ATTGGGTTAT
Statistics
Matches: 121, Mismatches: 21, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
32 9 0.07
33 48 0.40
34 6 0.05
35 58 0.48
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (32 bp):
ATGTAAGACCATAGCTGGACTATGGCATTCTG
Found at i:24532648 original size:101 final size:101
Alignment explanation
Indices: 24532473--24532663 Score: 310
Period size: 101 Copynumber: 1.9 Consensus size: 101
24532463 TGAATTAACG
* * * *
24532473 GATAAGACCATAACTGGGTTATGGCACTATGAACATAAGACCATGGTTAGACCATGGCAGTATTT
1 GATAAGACCATAACTAGGTCATGGCACTATGAACATAAGACCATAGTTAGACCAGGGCAGTATTT
24532538 ATATGTAAGACCATAGCTGGACTATAGCATTCTGAT
66 ATATGTAAGACCATAGCTGGACTATAGCATTCTGAT
* * *
24532574 GATAAGACCATAACTAGGTCATGGCACTATGAACGTAAGACCATAGTTGGACCAGGGCAGTGTTT
1 GATAAGACCATAACTAGGTCATGGCACTATGAACATAAGACCATAGTTAGACCAGGGCAGTATTT
*
24532639 ATATGTAAGACCATAGCTGGGCTAT
66 ATATGTAAGACCATAGCTGGACTAT
24532664 GGCAGTGTTT
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 82 1.00
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (101 bp):
GATAAGACCATAACTAGGTCATGGCACTATGAACATAAGACCATAGTTAGACCAGGGCAGTATTT
ATATGTAAGACCATAGCTGGACTATAGCATTCTGAT
Found at i:24537443 original size:7 final size:6
Alignment explanation
Indices: 24537416--24537458 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
24537406 ACGTTCCTTC
* * *
24537416 TTCTTT TTATTT TTATTT TTCTTAT TTCTTT TTCATT TTCTTT
1 TTCTTT TTCTTT TTCTTT TTCTT-T TTCTTT TTCTTT TTCTTT
24537459 ACTTTTGATA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
6 26 0.81
7 6 0.19
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (6 bp):
TTCTTT
Found at i:24540189 original size:63 final size:63
Alignment explanation
Indices: 24540116--24540244 Score: 249
Period size: 63 Copynumber: 2.0 Consensus size: 63
24540106 CTTATCAAGA
24540116 ATACAGGAATTTCAATTTATTTTAACAAAAAATAATAATGTATAAACAAAAATAAAAAGCAGG
1 ATACAGGAATTTCAATTTATTTTAACAAAAAATAATAATGTATAAACAAAAATAAAAAGCAGG
*
24540179 ATACAGGAATTTCAATTTATTTTAACAAAAAATAATAATGTATAAACAAAAATAAAAATCAGG
1 ATACAGGAATTTCAATTTATTTTAACAAAAAATAATAATGTATAAACAAAAATAAAAAGCAGG
24540242 ATA
1 ATA
24540245 TGTCTCTACA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.56, C:0.08, G:0.09, T:0.28
Consensus pattern (63 bp):
ATACAGGAATTTCAATTTATTTTAACAAAAAATAATAATGTATAAACAAAAATAAAAAGCAGG
Found at i:24541856 original size:24 final size:26
Alignment explanation
Indices: 24541824--24541874 Score: 79
Period size: 24 Copynumber: 2.0 Consensus size: 26
24541814 ATATATTAGT
24541824 TTTACACTTAAAATATAATA-AAATA
1 TTTACACTTAAAATATAATACAAATA
*
24541849 TTTA-ACTTAAATTATAATACAAATA
1 TTTACACTTAAAATATAATACAAATA
24541874 T
1 T
24541875 AATAGAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 14 0.58
25 10 0.42
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (26 bp):
TTTACACTTAAAATATAATACAAATA
Found at i:24542175 original size:10 final size:10
Alignment explanation
Indices: 24542150--24542192 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
24542140 CCTCACATCC
24542150 CTTTCCCTT-
1 CTTTCCCTTA
24542159 CTCTTCCCTTA
1 CT-TTCCCTTA
*
24542170 CTTTCCTTTA
1 CTTTCCCTTA
*
24542180 CCTTCCCTTA
1 CTTTCCCTTA
24542190 CTT
1 CTT
24542193 CAATCCAAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
9 2 0.07
10 24 0.86
11 2 0.07
ACGTcount: A:0.07, C:0.42, G:0.00, T:0.51
Consensus pattern (10 bp):
CTTTCCCTTA
Found at i:24542175 original size:20 final size:20
Alignment explanation
Indices: 24542150--24542192 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
24542140 CCTCACATCC
24542150 CTTTCCCTT-CTCTTCCCTTA
1 CTTTCCCTTAC-CTTCCCTTA
*
24542170 CTTTCCTTTACCTTCCCTTA
1 CTTTCCCTTACCTTCCCTTA
24542190 CTT
1 CTT
24542193 CAATCCAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 20 0.95
21 1 0.05
ACGTcount: A:0.07, C:0.42, G:0.00, T:0.51
Consensus pattern (20 bp):
CTTTCCCTTACCTTCCCTTA
Found at i:24546392 original size:21 final size:19
Alignment explanation
Indices: 24546360--24546401 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 19
24546350 GTTTTATATT
24546360 TTTATCAATTA-TATAAATA
1 TTTATCAATTATTA-AAATA
24546379 TTTATCAAATTTATTAAAATA
1 TTTATC-AA-TTATTAAAATA
24546400 TT
1 TT
24546402 AAACACAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 10 0.50
22 2 0.10
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTATCAATTATTAAAATA
Found at i:24553085 original size:23 final size:24
Alignment explanation
Indices: 24553041--24553085 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
24553031 GAAGAATTCT
24553041 TTCAGATATGTCCAATCATTCTGC
1 TTCAGATATGTCCAATCATTCTGC
*
24553065 TTCAG-TATTTCC-ATCAGTTCT
1 TTCAGATATGTCCAATCA-TTCT
24553086 TCATCAAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 10 0.53
24 5 0.26
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.42
Consensus pattern (24 bp):
TTCAGATATGTCCAATCATTCTGC
Found at i:24556172 original size:3 final size:3
Alignment explanation
Indices: 24556164--24556219 Score: 62
Period size: 3 Copynumber: 19.3 Consensus size: 3
24556154 TATTTTCTCC
* * *
24556164 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TAA CTA TTA TT- TAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
24556210 TTA TTT TTA T
1 TTA TTA TTA T
24556220 GTACATACAA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:24556202 original size:11 final size:11
Alignment explanation
Indices: 24556186--24556215 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
24556176 TTATTATTAT
24556186 TATTATTTAAC
1 TATTATTTAAC
*
24556197 TATTATTTAAT
1 TATTATTTAAC
24556208 TATTATTT
1 TATTATTT
24556216 TTATGTACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (11 bp):
TATTATTTAAC
Found at i:24556332 original size:23 final size:23
Alignment explanation
Indices: 24556294--24556337 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
24556284 ATATTTCCCA
*
24556294 CATTTTTATATAATATTTATACG
1 CATTTTTATATAATATGTATACG
24556317 CATTTTTATAGT-ATATGTATA
1 CATTTTTATA-TAATATGTATA
24556338 TTTCTAAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.52
Consensus pattern (23 bp):
CATTTTTATATAATATGTATACG
Found at i:24558416 original size:19 final size:19
Alignment explanation
Indices: 24558392--24558438 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
24558382 AACGTCTCTT
*
24558392 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTACAT-CA
24558411 TTTGCATTACATTACATCA
1 TTTGCATTACATTACATCA
*
24558430 TATGCATTA
1 TTTGCATTA
24558439 AACACCACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTACATCA
Found at i:24560341 original size:18 final size:18
Alignment explanation
Indices: 24560300--24560342 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
24560290 TGAGCAAATT
24560300 TTTTTTCATTCTTTACGA
1 TTTTTTCATTCTTTACGA
* **
24560318 TGTTTTCATTCTTTTGGA
1 TTTTTTCATTCTTTACGA
24560336 TTTTTTC
1 TTTTTTC
24560343 TACCAAACCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.12, C:0.14, G:0.09, T:0.65
Consensus pattern (18 bp):
TTTTTTCATTCTTTACGA
Found at i:24562773 original size:44 final size:44
Alignment explanation
Indices: 24562460--24562765 Score: 465
Period size: 44 Copynumber: 7.0 Consensus size: 44
24562450 AAATATAGCA
* *
24562460 GATCTTATCTTCATGTATTGACGTGAAGTGGATCGAAGATAATG
1 GATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGATAATG
*
24562504 GATCTTGTCTTCATGTATTGACATGAAGTAGATC--AGAT-ATAG
1 GATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGATAAT-G
*
24562546 CAGATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGATATTG
1 --GATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGATAATG
24562592 GATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGATAATG
1 GATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGATAATG
* * * *
24562636 GATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGATAGTA
1 GATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGATAATG
* *
24562680 GATCTTATCTTCATGTGTTGACATGAAGTAGATCGAAGATATTG
1 GATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGATAATG
*
24562724 GATCTTATCTCCATGTATTGACATGAAGTAGATCGAAGATAA
1 GATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGATAA
24562766 CAAATCTTGT
Statistics
Matches: 238, Mismatches: 18, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
41 2 0.01
42 5 0.02
44 225 0.95
46 5 0.02
47 1 0.00
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.34
Consensus pattern (44 bp):
GATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGATAATG
Found at i:24562778 original size:132 final size:132
Alignment explanation
Indices: 24562460--24562765 Score: 549
Period size: 132 Copynumber: 2.3 Consensus size: 132
24562450 AAATATAGCA
* *
24562460 GATCTTATCTTCATGTATTGACGTGAAGTGGATCGAAGATAATGGATCTTGTCTTCATGTATTGA
1 GATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGA
* *
24562525 CATGAAGTAGATCAGATATAGCAGATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGATAT
66 CATGAAGTAGATCAAAGATAGCAGATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGATAT
24562590 TG
131 TG
24562592 GATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGA
1 GATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGA
* *
24562657 CATGAAGTAGATCAAAGATAGTAGATCTTATCTTCATGTGTTGACATGAAGTAGATCGAAGATAT
66 CATGAAGTAGATCAAAGATAGCAGATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGATAT
24562722 TG
131 TG
*
24562724 GATCTTATCTCCATGTATTGACATGAAGTAGATCGAAGATAA
1 GATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGATAA
24562766 CAAATCTTGT
Statistics
Matches: 167, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 167 1.00
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.34
Consensus pattern (132 bp):
GATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGA
CATGAAGTAGATCAAAGATAGCAGATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGATAT
TG
Found at i:24563599 original size:20 final size:20
Alignment explanation
Indices: 24563574--24563612 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
24563564 TAAGGTCGTT
24563574 AAATTTCGGTGTAAAAGAGG
1 AAATTTCGGTGTAAAAGAGG
24563594 AAATTTCGGTGTAAAAGAG
1 AAATTTCGGTGTAAAAGAG
24563613 ACATTGAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.28, T:0.26
Consensus pattern (20 bp):
AAATTTCGGTGTAAAAGAGG
Found at i:24564443 original size:23 final size:23
Alignment explanation
Indices: 24564405--24564448 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
24564395 ATATTTCCCA
*
24564405 CATTTTTATATAATATTTATACG
1 CATTTTTATATAATATGTATACG
24564428 CATTTTTATAGT-ATATGTATA
1 CATTTTTATA-TAATATGTATA
24564449 TTTCTAAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.52
Consensus pattern (23 bp):
CATTTTTATATAATATGTATACG
Found at i:24574069 original size:22 final size:22
Alignment explanation
Indices: 24574029--24574071 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
24574019 ATCTAAATTA
*
24574029 TTCTACATCTGAATTTGATATG
1 TTCTACATCTGAATCTGATATG
24574051 TTCTACATCT-ATATCTGATAT
1 TTCTACATCTGA-ATCTGATAT
24574072 ATTATGTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.28, C:0.16, G:0.09, T:0.47
Consensus pattern (22 bp):
TTCTACATCTGAATCTGATATG
Found at i:24584339 original size:204 final size:203
Alignment explanation
Indices: 24583989--24584395 Score: 778
Period size: 204 Copynumber: 2.0 Consensus size: 203
24583979 TCTTCTATCC
*
24583989 TTTTTTACTTGCAAACCAACTTTACTTTGTTACTGTTACTCATACATGGGGCACTAGTTTCTTTT
1 TTTTTTACTTGCAAACCAACTTTAATTTGTTACTGTTACTCATACATGGGGCACTAGTTTCTTTT
* *
24584054 GTTTTCATTTTAGTGCACTGTTCATTGTCTGTTGCTTTCTCTTGGGTTTGTCGTGTAAATAAACT
66 GTTTTCATTTTAGTGCACTGTTCATTGGCTGTTGCTTTCTCTTGGGTTTGTCGTATAAATAAACT
24584119 GTTCGTTTTTCGACTTTGGGTTTTTTTGTTTGATTAAGGTTGATAACATTTCAGCTTCTGTTTTT
131 GTTCGTTTTTCGACTTT-GGTTTTTTTGTTTGATTAAGGTTGATAACATTTCAGCTTCTGTTTTT
24584184 GCTGTTTAT
195 GCTGTTTAT
24584193 TTTTTTACTTGCAAACCAACTTTAATTTGTTACTGTTACTCATACATGGGGCACTAGTTTCTTTT
1 TTTTTTACTTGCAAACCAACTTTAATTTGTTACTGTTACTCATACATGGGGCACTAGTTTCTTTT
24584258 GTTTTCATTTTAGTGCACTGTTCATTGGCTGTTGCTTTCTCTTGGGTTTGTCGTATAAATAAACT
66 GTTTTCATTTTAGTGCACTGTTCATTGGCTGTTGCTTTCTCTTGGGTTTGTCGTATAAATAAACT
24584323 GTTCGTTTTTCGACTTTGGTTTTTTTGTTTGATTAAGGTTGATAACATTTCAGCTTCTGTTTTTG
131 GTTCGTTTTTCGACTTTGGTTTTTTTGTTTGATTAAGGTTGATAACATTTCAGCTTCTGTTTTTG
24584388 CTGTTTAT
196 CTGTTTAT
24584396 GGAAAAAGCT
Statistics
Matches: 200, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
203 56 0.28
204 144 0.72
ACGTcount: A:0.17, C:0.15, G:0.17, T:0.50
Consensus pattern (203 bp):
TTTTTTACTTGCAAACCAACTTTAATTTGTTACTGTTACTCATACATGGGGCACTAGTTTCTTTT
GTTTTCATTTTAGTGCACTGTTCATTGGCTGTTGCTTTCTCTTGGGTTTGTCGTATAAATAAACT
GTTCGTTTTTCGACTTTGGTTTTTTTGTTTGATTAAGGTTGATAACATTTCAGCTTCTGTTTTTG
CTGTTTAT
Found at i:24591098 original size:7 final size:7
Alignment explanation
Indices: 24591086--24591121 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
24591076 AAGAAAAGAA
24591086 GAAGCTT
1 GAAGCTT
24591093 GAAGCTT
1 GAAGCTT
24591100 GAAGCTT
1 GAAGCTT
24591107 GAAGCTT
1 GAAGCTT
24591114 GAAGCTT
1 GAAGCTT
24591121 G
1 G
24591122 TTAGAAACTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.28
Consensus pattern (7 bp):
GAAGCTT
Found at i:24593077 original size:22 final size:22
Alignment explanation
Indices: 24593036--24593077 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
24593026 TTTTAGATCA
*
24593036 ATCTAAAATCTCTATCATATCG
1 ATCTAAAATATCTATCATATCG
24593058 ATCTAAAATAT-TATCTATAT
1 ATCTAAAATATCTATC-ATAT
24593078 TAATATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.40, C:0.17, G:0.02, T:0.40
Consensus pattern (22 bp):
ATCTAAAATATCTATCATATCG
Found at i:24603120 original size:9 final size:9
Alignment explanation
Indices: 24603102--24603138 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
24603092 GTTTCGCACG
24603102 TTAGGATTT
1 TTAGGATTT
*
24603111 TTAGGGTTT
1 TTAGGATTT
24603120 TTAGGATTT
1 TTAGGATTT
*
24603129 TTAGGGTTT
1 TTAGGATTT
24603138 T
1 T
24603139 GGAGAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.16, C:0.00, G:0.27, T:0.57
Consensus pattern (9 bp):
TTAGGATTT
Found at i:24603125 original size:18 final size:18
Alignment explanation
Indices: 24603102--24603138 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
24603092 GTTTCGCACG
24603102 TTAGGATTTTTAGGGTTT
1 TTAGGATTTTTAGGGTTT
24603120 TTAGGATTTTTAGGGTTT
1 TTAGGATTTTTAGGGTTT
24603138 T
1 T
24603139 GGAGAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.27, T:0.57
Consensus pattern (18 bp):
TTAGGATTTTTAGGGTTT
Found at i:24603502 original size:126 final size:125
Alignment explanation
Indices: 24603254--24603820 Score: 832
Period size: 125 Copynumber: 4.5 Consensus size: 125
24603244 GATAAAATCA
* * * * * * * * *
24603254 AAGCAGTATGATTTATCAGAAGGATTTTTGAAGTCGCGTCCACGTGTACGCGTTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* *
24603319 AGGTACTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAACAACGCTTC
66 AGGTACTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* * *
24603379 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGTTTTTGCCACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * * *
24603444 TGGTCCTGGAAGAAATAATTTGGAGTTGACGTTTCTGAGTAAATAGTTTAAAAAACGCTTC
66 AGGTACTGGAA-AAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
*
24603505 AAACAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * *
24603570 AGGTCCTGAAAAAATAATTTCGAGTTGATGTTTCTGAGCAAATAGTATAAAAAACGCTGC
66 AGGTACTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* *
24603630 AAGAAGGATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
1 AAGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
* *
24603694 TAGGTACTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTAT-AAAATCGCTTC
65 TAGGTACTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* *
24603754 TAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCACTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
24603819 AG
66 AG
24603821 CATGTTTGGG
Statistics
Matches: 400, Mismatches: 39, Indels: 7
0.90 0.09 0.02
Matches are distributed among these distances:
123 2 0.00
124 69 0.17
125 211 0.53
126 118 0.29
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (125 bp):
AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTACTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
Found at i:24607019 original size:21 final size:21
Alignment explanation
Indices: 24606993--24607248 Score: 275
Period size: 21 Copynumber: 12.0 Consensus size: 21
24606983 TCAAATTATA
24606993 TTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
*
24607014 TTTAAGTTAAGTGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* * * *
24607035 TTTTATTTAAGGGTTACGATT
1 TTTAAGTTAAGGGTTAGGGTT
* *
24607056 TTAAAGTTAAAGGTTTAGGGTT
1 TTTAAGTT-AAGGGTTAGGGTT
* *
24607078 TTTAATTTAAAGGTTAGGG-T
1 TTTAAGTTAAGGGTTAGGGTT
*
24607098 TTTAAGTTAAGGGTTAAGGTT
1 TTTAAGTTAAGGGTTAGGGTT
*
24607119 TTTAGGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
*
24607141 TTTAGGTTAAGGGTTTAGGG--
1 TTTAAGTTAAGGG-TTAGGGTT
*
24607161 TTTAATGTTTAGGGTTTAGGGTT
1 TTTAA-GTTAAGGG-TTAGGGTT
* *
24607184 TTTAAGTTAAAGGTTTAGGGGT
1 TTTAAGTT-AAGGGTTAGGGTT
* *
24607206 TTTAATTTAAGGGTTAGGATT
1 TTTAAGTTAAGGGTTAGGGTT
*
24607227 TTAAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
24607248 T
1 T
24607249 GGGTTTTTAG
Statistics
Matches: 195, Mismatches: 33, Indels: 14
0.81 0.14 0.06
Matches are distributed among these distances:
20 21 0.11
21 106 0.54
22 60 0.31
23 8 0.04
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.45
Consensus pattern (21 bp):
TTTAAGTTAAGGGTTAGGGTT
Found at i:24607093 original size:43 final size:42
Alignment explanation
Indices: 24606993--24607248 Score: 277
Period size: 43 Copynumber: 6.0 Consensus size: 42
24606983 TCAAATTATA
*
24606993 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAA-GTGTTAGGGTT
1 TTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGT-TTAGGGTT
* * * *
24607035 TTTTATTTAAGGGTTACGATTTTAAAGTTAAAGGTTTAGGGTT
1 TTTAATTTAAGGGTTAGGGTTTTTAAGTT-AAGGTTTAGGGTT
* * *
24607078 TTTAATTTAAAGGTTAGGG-TTTTAAGTTAAGGGTTAAGGTT
1 TTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGTTTAGGGTT
** *
24607119 TTTAGGTTAAGGGTTTAGGGTTTTTAGGTTAAGGGTTTAGGG--
1 TTTAATTTAAGGG-TTAGGGTTTTTAAGTTAA-GGTTTAGGGTT
* *
24607161 TTTAATGTTTAGGGTTTAGGGTTTTTAAGTTAAAGGTTTAGGGGT
1 TTTAAT-TTAAGGG-TTAGGGTTTTTAAGTT-AAGGTTTAGGGTT
* * *
24607206 TTTAATTTAAGGGTTAGGATTTTAAAGTTAAGGGTTAGGGTT
1 TTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGTTTAGGGTT
24607248 T
1 T
24607249 GGGTTTTTAG
Statistics
Matches: 178, Mismatches: 27, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
41 21 0.12
42 54 0.30
43 80 0.45
44 17 0.10
45 6 0.03
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.45
Consensus pattern (42 bp):
TTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGTTTAGGGTT
Found at i:24607140 original size:14 final size:14
Alignment explanation
Indices: 24607107--24607184 Score: 55
Period size: 14 Copynumber: 6.0 Consensus size: 14
24607097 TTTTAAGTTA
*
24607107 AGGGTTAAGGTTTTT
1 AGGGTTAAGG-GTTT
24607122 A-GGTTAAGGGTTT
1 AGGGTTAAGGGTTT
24607135 AGGGTT-----TTT
1 AGGGTTAAGGGTTT
24607144 A-GGTTAAGGGTTT
1 AGGGTTAAGGGTTT
*
24607157 AGGGTTTAA-TGTTT
1 AGGG-TTAAGGGTTT
*
24607171 AGGGTTTAGGGTTT
1 AGGGTTAAGGGTTT
24607185 TTAAGTTAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 19
0.68 0.05 0.26
Matches are distributed among these distances:
8 4 0.08
9 4 0.08
13 11 0.22
14 26 0.52
15 5 0.10
ACGTcount: A:0.19, C:0.00, G:0.36, T:0.45
Consensus pattern (14 bp):
AGGGTTAAGGGTTT
Found at i:24607163 original size:7 final size:7
Alignment explanation
Indices: 24607119--24607184 Score: 64
Period size: 7 Copynumber: 9.4 Consensus size: 7
24607109 GGTTAAGGTT
24607119 TTTA-GG
1 TTTAGGG
*
24607125 TTAAGGG
1 TTTAGGG
24607132 TTTAGGG
1 TTTAGGG
24607139 TTTTTA-GG
1 --TTTAGGG
*
24607147 TTAAGGG
1 TTTAGGG
24607154 TTTAGGG
1 TTTAGGG
**
24607161 TTTAATG
1 TTTAGGG
24607168 TTTAGGG
1 TTTAGGG
24607175 TTTAGGG
1 TTTAGGG
24607182 TTT
1 TTT
24607185 TTAAGTTAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
6 6 0.12
7 36 0.75
8 2 0.04
9 4 0.08
ACGTcount: A:0.18, C:0.00, G:0.35, T:0.47
Consensus pattern (7 bp):
TTTAGGG
Found at i:24607255 original size:27 final size:28
Alignment explanation
Indices: 24607215--24607277 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 28
24607205 TTTTAATTTA
*
24607215 AGGGTTAGGATTTTAAAGTTAAGGG-TT
1 AGGGTTTGGATTTTAAAGTTAAGGGTTT
* * *
24607242 AGGGTTTGGGTTTTTAGGTTAAGGGTTT
1 AGGGTTTGGATTTTAAAGTTAAGGGTTT
*
24607270 AAGGTTTG
1 AGGGTTTG
24607278 TCAACTAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 21 0.70
28 9 0.30
ACGTcount: A:0.22, C:0.00, G:0.37, T:0.41
Consensus pattern (28 bp):
AGGGTTTGGATTTTAAAGTTAAGGGTTT
Found at i:24608646 original size:20 final size:20
Alignment explanation
Indices: 24608609--24608646 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
24608599 TTTATTTTTA
*
24608609 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
24608629 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
24608647 TACCTTGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:24610005 original size:27 final size:26
Alignment explanation
Indices: 24609975--24610031 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 26
24609965 TAATATATAT
24609975 TAAAA-ATATTGAATATTAAATAATAAA
1 TAAAACATATT-AATATTAAA-AATAAA
* *
24610002 TAAAATCATATTTATGTTAAAAATAAA
1 TAAAA-CATATTAATATTAAAAATAAA
24610029 TAA
1 TAA
24610032 TAAAAATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
27 14 0.54
28 7 0.27
29 5 0.19
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (26 bp):
TAAAACATATTAATATTAAAAATAAA
Found at i:24612962 original size:14 final size:14
Alignment explanation
Indices: 24612934--24612972 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
24612924 GCTGTTATTG
*
24612934 TATTATT-TGTTAT
1 TATTATTATATTAT
24612947 TATTATTATATTAT
1 TATTATTATATTAT
24612961 TATTATTATATT
1 TATTATTATATT
24612973 TACATATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 7 0.29
14 17 0.71
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (14 bp):
TATTATTATATTAT
Found at i:24616111 original size:36 final size:33
Alignment explanation
Indices: 24616062--24616167 Score: 196
Period size: 33 Copynumber: 3.2 Consensus size: 33
24616052 TAAACATTTT
24616062 TTATTATTGTATTATTATTAAATATTATAAGTA
1 TTATTATTGTATTATTATTAAATATTATAAGTA
24616095 TTATTATTGTATTATTATTAAATATTATAAGTA
1 TTATTATTGTATTATTATTAAATATTATAAGTA
*
24616128 TTATTATTGTATTATTATTAAAGA-TATAAGTA
1 TTATTATTGTATTATTATTAAATATTATAAGTA
24616160 TTATTATT
1 TTATTATT
24616168 ATTCAACATA
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
32 16 0.22
33 56 0.78
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.55
Consensus pattern (33 bp):
TTATTATTGTATTATTATTAAATATTATAAGTA
Found at i:24616167 original size:3 final size:3
Alignment explanation
Indices: 24616062--24616147 Score: 52
Period size: 3 Copynumber: 29.0 Consensus size: 3
24616052 TAAACATTTT
* * * * *
24616062 TTA TTA TT- GTA TTA TTA TTAA ATA TTA TAA GTA TTA TTA TT- GTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
24616106 TTA TTA TTAA ATA TTA TAA GTA TTA TTA TT- GTA TTA TTA TTA
1 TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
24616148 AAGATATAAG
Statistics
Matches: 60, Mismatches: 18, Indels: 10
0.68 0.20 0.11
Matches are distributed among these distances:
2 3 0.05
3 53 0.88
4 4 0.07
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:24620385 original size:25 final size:25
Alignment explanation
Indices: 24620351--24620400 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
24620341 ATAAGTATTC
24620351 AATAACAAATTAGAGGGCATTATAG
1 AATAACAAATTAGAGGGCATTATAG
*
24620376 AATAACAAATTAGAGGGTATTATAG
1 AATAACAAATTAGAGGGCATTATAG
24620401 CATGCTTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.48, C:0.06, G:0.20, T:0.26
Consensus pattern (25 bp):
AATAACAAATTAGAGGGCATTATAG
Found at i:24626671 original size:20 final size:19
Alignment explanation
Indices: 24626632--24626716 Score: 66
Period size: 20 Copynumber: 4.2 Consensus size: 19
24626622 TCATAAAACT
* *
24626632 TTAAGTTAATATAAACTATA
1 TTAAGTT-ATATATATTATA
24626652 TTAAGTTAATATATATTATAAGTA
1 TTAAGTT-ATATATA-T-T-A-TA
24626676 TTAAG-TATATATATTATA
1 TTAAGTTATATATATTATA
24626694 TTATA-TTATATTATATTATA
1 TTA-AGTTATA-TATATTATA
24626714 TTA
1 TTA
24626717 TATTATATTA
Statistics
Matches: 56, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
18 5 0.09
19 6 0.11
20 27 0.48
21 1 0.02
22 8 0.14
23 2 0.04
24 7 0.12
ACGTcount: A:0.45, C:0.01, G:0.05, T:0.49
Consensus pattern (19 bp):
TTAAGTTATATATATTATA
Found at i:24626685 original size:22 final size:24
Alignment explanation
Indices: 24626650--24626693 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
24626640 ATATAAACTA
24626650 TATTAAGTTAATATATATTATAAG
1 TATTAAGTTAATATATATTATAAG
24626674 TATTAAG-T-ATATATATTATA
1 TATTAAGTTAATATATATTATA
24626694 TTATATTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 12 0.60
23 1 0.05
24 7 0.35
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (24 bp):
TATTAAGTTAATATATATTATAAG
Found at i:24626695 original size:5 final size:5
Alignment explanation
Indices: 24626681--24626733 Score: 90
Period size: 5 Copynumber: 10.8 Consensus size: 5
24626671 AAGTATTAAG
*
24626681 TATA- TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
24626730 TATA
1 TATA
24626734 ATAAAACAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
4 4 0.09
5 43 0.91
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
TATAT
Found at i:24626838 original size:14 final size:14
Alignment explanation
Indices: 24626819--24626846 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
24626809 AACAGAAGGG
24626819 AAAAAGAAAGAAAA
1 AAAAAGAAAGAAAA
24626833 AAAAAGAAAGAAAA
1 AAAAAGAAAGAAAA
24626847 GTTAAGGGTT
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:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAGAAAA
Found at i:24627544 original size:15 final size:15
Alignment explanation
Indices: 24627524--24627573 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 15
24627514 TGATAAATTT
24627524 ATTGAATTTATATTG
1 ATTGAATTTATATTG
24627539 ATTGAATTGGTATATAT-
1 ATTGAATT--TATAT-TG
*
24627556 ATTGAATATATATTG
1 ATTGAATTTATATTG
24627571 ATT
1 ATT
24627574 ATTTGAATTG
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
14 1 0.03
15 16 0.53
17 12 0.40
18 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:24630209 original size:21 final size:20
Alignment explanation
Indices: 24630177--24630215 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
24630167 TTTGCCATGA
*
24630177 TTAGATTCAATTTTTATATG
1 TTAGATTCAATTTGTATATG
*
24630197 TTAGCATTTAATTTGTATA
1 TTAG-ATTCAATTTGTATA
24630216 ATTGTTTCTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.31, C:0.05, G:0.10, T:0.54
Consensus pattern (20 bp):
TTAGATTCAATTTGTATATG
Found at i:24642970 original size:17 final size:17
Alignment explanation
Indices: 24642948--24642983 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
24642938 TCCTCGATCA
24642948 ATCACAATGCCTAAGCC
1 ATCACAATGCCTAAGCC
24642965 ATCACAATGCCTAAGCC
1 ATCACAATGCCTAAGCC
24642982 AT
1 AT
24642984 TTAAGATTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.33, G:0.11, T:0.19
Consensus pattern (17 bp):
ATCACAATGCCTAAGCC
Found at i:24646151 original size:16 final size:16
Alignment explanation
Indices: 24646111--24646152 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
24646101 AATGAGTGAA
*
24646111 ATTAAAGAA-GAACAT
1 ATTAAAGAATGAAAAT
**
24646126 ATTATGGAATGAAAAT
1 ATTAAAGAATGAAAAT
24646142 ATTAAAGAATG
1 ATTAAAGAATG
24646153 TACGTGACAT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.55, C:0.02, G:0.17, T:0.26
Consensus pattern (16 bp):
ATTAAAGAATGAAAAT
Found at i:24650783 original size:9 final size:9
Alignment explanation
Indices: 24650764--24650799 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
24650754 AAATAATTAG
24650764 TAAAT-AAA
1 TAAATAAAA
24650772 TAAATAAAA
1 TAAATAAAA
24650781 TAAATAAAA
1 TAAATAAAA
24650790 TGAAATAAAA
1 T-AAATAAAA
24650800 AGTAATACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 5 0.19
9 13 0.50
10 8 0.31
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (9 bp):
TAAATAAAA
Found at i:24650804 original size:38 final size:39
Alignment explanation
Indices: 24650742--24650821 Score: 92
Period size: 38 Copynumber: 2.1 Consensus size: 39
24650732 AAACCATTTT
** *
24650742 TAAATAAAAAGGAAATAATTAGTAAATAAATAAATA-AAA
1 TAAATAAAAAGGAAATAAAAAGT-AATAAATAAAAATAAA
* *
24650781 TAAAT-AAAATGAAATAAAAAGTAATACATAAAAATAAA
1 TAAATAAAAAGGAAATAAAAAGTAATAAATAAAAATAAA
24650819 TAA
1 TAA
24650822 CCTAGACAGG
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
37 10 0.29
38 20 0.57
39 5 0.14
ACGTcount: A:0.70, C:0.01, G:0.06, T:0.23
Consensus pattern (39 bp):
TAAATAAAAAGGAAATAAAAAGTAATAAATAAAAATAAA
Found at i:24652270 original size:44 final size:44
Alignment explanation
Indices: 24652220--24652321 Score: 150
Period size: 44 Copynumber: 2.3 Consensus size: 44
24652210 TCATTCTAAC
*
24652220 CCACTGCAACTTTTGAGGTATAAGATTTGTTGCTTCAATCCACT
1 CCACTGCAACTTTAGAGGTATAAGATTTGTTGCTTCAATCCACT
* * **
24652264 CCACTGCAACTTTAGAGGTATAGGGTTTGTTGCTTCAATCTGCT
1 CCACTGCAACTTTAGAGGTATAAGATTTGTTGCTTCAATCCACT
*
24652308 CCACTACAACTTTA
1 CCACTGCAACTTTA
24652322 AGGAGATAAG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.35
Consensus pattern (44 bp):
CCACTGCAACTTTAGAGGTATAAGATTTGTTGCTTCAATCCACT
Found at i:24652487 original size:44 final size:44
Alignment explanation
Indices: 24652338--24653143 Score: 468
Period size: 44 Copynumber: 17.6 Consensus size: 44
24652328 TAAGATCCGT
* * * * *
24652338 TCCACTGCAACTTCAGGGAAATAAGATTCGCATCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTATATTTAATCTGC
* * * * *
24652382 TCCATTGTAACTTTAGGGAGATAAGATTTGTAACTTGTACCTTAATCTGT
1 TCCACTGCAACTTCAGGGAGATAAGATTTGT-A----TA-TTTAATCTGC
* * * * * *
24652432 TTCACTACAACTTCAGGGAAATAAAATTCGTATATTTAATCTAC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTATATTTAATCTGC
* *
24652476 TCCACTGCAACTTCAGGGAGATAATG-TTTGTAACTTGTAGCTTTAATATGT
1 TCCACTGCAACTTCAGGGAGATAA-GATTTGT-A----TA--TTTAATCTGC
* * * * *
24652527 TCCACTGCAACTTCAGAGAAATAAGATTGGTATCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTATATTTAATCTGC
* * *
24652571 TCCACTGCAACTTCAGGGAGATAAGATTCAT-TATCTTCAATATGC
1 TCCACTGCAACTTCAGGGAGATAAGATT--TGTATATTTAATCTGC
* * * ** * *
24652616 TTCACTGCAACTTCAGGGAGATAAAATTTATAGCTTCAATCTAC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTATATTTAATCTGC
* * * * ** *
24652660 TCTACTACAATTTCAGAGAGATAAGATTCACTATATTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATT-TGTATATTTAATCTGC
* * * ***
24652705 TCCACTGCAACTTCAAGGAGATAAAATTTATGGCTTTAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTATATTTAATCTGC
*** *
24652749 TCCACTGCAACTTCAGGGAGATAAGATTTGTGGCTTTAATATGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTATATTTAATCTGC
* ** * *
24652793 TTCACTGCAACTTCAAAGAGATAAGATTTGTAGCTTGTCTTCAATCTAC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTA---TAT-TT-AATCTGC
* * * * *
24652842 TCCACTACAATTTCAGGGAGATAAGATTTGTTTATTTTTAACCTAC
1 TCCACTGCAACTTCAGGGAGATAAGATTTG--TATATTTAATCTGC
* * * * * **
24652888 TTCACTACAACTTCAAGGAGATAAGGTTTATAGCTTTAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTATATTTAATCTGC
* * * * * **
24652932 TCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTCTGATCTAA
1 TCCACTGCAACTTCAGGGAGATAAGATTTG-TATATTTAATCTGC
* * * *
24652977 TCCACTGTAACTTCAGGGAGATAAGATCTATA-ATTTCAATCTAC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTATATTT-AATCTGC
* * * ** *
24653021 CCCATTACAACTTCAGAAAGATAAGATTTGTAAATTGTTACTTTAATCTGT
1 TCCACTGCAACTTCAGGGAGATAAGATTTGT--A----TA-TTTAATCTGC
* * * *
24653072 TCCACTGCAACTTTAGGGAGATAAGACTTGTA-ACTTCAACCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTATA-TTTAATCTGC
* *
24653116 TCTACTGCAACTTCAGGAAGATAAGATT
1 TCCACTGCAACTTCAGGGAGATAAGATT
24653144 CGCCATAATG
Statistics
Matches: 585, Mismatches: 141, Indels: 72
0.73 0.18 0.09
Matches are distributed among these distances:
43 3 0.01
44 297 0.51
45 110 0.19
46 33 0.06
47 3 0.01
48 4 0.01
49 35 0.06
50 32 0.05
51 65 0.11
52 3 0.01
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (44 bp):
TCCACTGCAACTTCAGGGAGATAAGATTTGTATATTTAATCTGC
Found at i:24652574 original size:95 final size:94
Alignment explanation
Indices: 24652336--24653143 Score: 463
Period size: 89 Copynumber: 8.8 Consensus size: 94
24652326 GATAAGATCC
* * * *
24652336 GTTCCACTGCAACTTCAGGGAAATAAGATTCGCATCTTCAATCTGCTCCATTGTAACTTTAGGGA
1 GTTCCACTGCAACTTCAGGGAAATAAGATTCGTATCTTCAATCTGCTCCACTGCAACTTCAGGGA
*
24652401 GATAAGATTTGTAACTTGTACCTTAATCT
66 GATAAGATTTGTAACTTGTACCTTAATAT
* * * * * *
24652430 GTTTCACTACAACTTCAGGGAAATAAAATTCGTATATTTAATCTACTCCACTGCAACTTCAGGGA
1 GTTCCACTGCAACTTCAGGGAAATAAGATTCGTATCTTCAATCTGCTCCACTGCAACTTCAGGGA
*
24652495 GATAATG-TTTGTAACTTGTAGCTTTAATAT
66 GATAA-GATTTGTAACTTGTA-CCTTAATAT
* *
24652525 GTTCCACTGCAACTTCAGAGAAATAAGATTGGTATCTTCAATCTGCTCCACTGCAACTTCAGGGA
1 GTTCCACTGCAACTTCAGGGAAATAAGATTCGTATCTTCAATCTGCTCCACTGCAACTTCAGGGA
* *
24652590 GATAAGA--T-T--CAT-TATCTTCAATAT
66 GATAAGATTTGTAACTTGTACCTT-AATAT
* * ** * * * * * *
24652614 GCTT-CACTGCAACTTCAGGGAGATAAAATTTATAGCTTCAATCTACTCTACTACAATTTCAGAG
1 G-TTCCACTGCAACTTCAGGGAAATAAGATTCGTATCTTCAATCTGCTCCACTGCAACTTCAGGG
* * *
24652678 AGATAAGA--T-TCAC-TATA--TTCAATCT
65 AGATAAGATTTGTAACTTGTACCTT-AATAT
* * * * *
24652703 GCTCCACTGCAACTTCAAGGAGATAAAATT--TATGGCTTTAATCTGCTCCACTGCAACTTCAGG
1 GTTCCACTGCAACTTCAGGGAAATAAGATTCGTAT--CTTCAATCTGCTCCACTGCAACTTCAGG
* *
24652766 GAGATAAGATTTG-----TG-GCTTTAATAT
64 GAGATAAGATTTGTAACTTGTACCTTAATAT
** * * * * *
24652791 GCTT-CACTGCAACTTCAAAGAGATAAGATTTGTAGCTTGTCTTCAATCTACTCCACTACAATTT
1 G-TTCCACTGCAACTTCAGGGAAATAAGATTCGTA-----TCTTCAATCTGCTCCACTGCAACTT
*
24652855 CAGGGAGATAAGATTTGTTTA-TT-T---TTAACCTA-
60 CAGGGAGATAAGATTTG-TAACTTGTACCTTAA--TAT
* * * * * ** * * * *
24652887 CTT-CACTACAACTTCAAGGAGATAAGGTTTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGA
1 GTTCCACTGCAACTTCAGGGAAATAAGATTCGTATCTTCAATCTGCTCCACTGCAACTTCAGGGA
* *
24652951 GATAAGATTTGCTATCTCTG-ATC-T-A-A-
66 GATAAGATTTG-TAACT-TGTACCTTAATAT
* * * * * * * *
24652977 --TCCACTGTAACTTCAGGGAGATAAGA-TC-TATAATTTCAATCTACCCCATTACAACTTCAGA
1 GTTCCACTGCAACTTCAGGGAAATAAGATTCGTAT--CTTCAATCTGCTCCACTGCAACTTCAGG
* * * *
24653038 AAGATAAGATTTGTAAATTGTTACTTTAATCT
64 GAGATAAGATTTGTAACTTG-TACCTTAATAT
* * * * * *
24653070 GTTCCACTGCAACTTTAGGGAGATAAGACTT-GTAACTTCAACCTGCTCTACTGCAACTTCAGGA
1 GTTCCACTGCAACTTCAGGGAAATAAGA-TTCGTATCTTCAATCTGCTCCACTGCAACTTCAGGG
24653134 AGATAAGATT
65 AGATAAGATT
24653144 CGCCATAATG
Statistics
Matches: 563, Mismatches: 99, Indels: 103
0.74 0.13 0.13
Matches are distributed among these distances:
87 6 0.01
88 38 0.07
89 188 0.33
90 45 0.08
91 6 0.01
92 2 0.00
93 39 0.07
94 75 0.13
95 158 0.28
97 5 0.01
98 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (94 bp):
GTTCCACTGCAACTTCAGGGAAATAAGATTCGTATCTTCAATCTGCTCCACTGCAACTTCAGGGA
GATAAGATTTGTAACTTGTACCTTAATAT
Found at i:24652941 original size:183 final size:177
Alignment explanation
Indices: 24652564--24652961 Score: 510
Period size: 183 Copynumber: 2.2 Consensus size: 177
24652554 TGGTATCTTC
*
24652564 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCAT-TATCTTCAATATGCTTCACTGCAACT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT--TGTAGCTTCAATATGCTTCACTGCAACT
** *
24652628 TCAGGGAGATAAAATTTATAGCTTCAATCTACTCTACTACAATTTCAGAGAGATAAGATTCACTA
64 TCAAAGAGATAAAATTTATAGCTTCAATCTACTCCACTACAATTTCAGAGAGATAAGATTCACTA
* * * *
24652693 TATTCAATCTGCTCCACTGCAACTTCAAGGAGATAAAATTTATGGCTTT
129 TATTCAACCTACTCCACTACAACTTCAAGGAGATAAAATTTATAGCTTT
* *
24652742 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGGCTTTAATATGCTTCACTGCAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATATGCTTCACTGCAACTTC
* * * *
24652807 AAAGAGATAAGATTTGTAGCTTGTCTTCAATCTACTCCACTACAATTTCAGGGAGATAAGATTTG
66 AAAGAGATAA-AATT-TA--TAG-CTTCAATCTACTCCACTACAATTTCAGAGAGATAAGA-TTC
** * * * **
24652872 TTTATTTTTAACCTACTTCACTACAACTTCAAGGAGATAAGGTTTATAGCTTT
125 ACTATATTCAACCTACTCCACTACAACTTCAAGGAGATAAAATTTATAGCTTT
* *
24652925 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
24652962 CTATCTCTGA
Statistics
Matches: 190, Mismatches: 23, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
176 1 0.01
177 33 0.17
178 38 0.20
179 2 0.01
181 2 0.01
182 35 0.18
183 79 0.42
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.33
Consensus pattern (177 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATATGCTTCACTGCAACTTC
AAAGAGATAAAATTTATAGCTTCAATCTACTCCACTACAATTTCAGAGAGATAAGATTCACTATA
TTCAACCTACTCCACTACAACTTCAAGGAGATAAAATTTATAGCTTT
Found at i:24652983 original size:272 final size:268
Alignment explanation
Indices: 24652466--24653000 Score: 639
Period size: 272 Copynumber: 2.0 Consensus size: 268
24652456 AATTCGTATA
24652466 TTTAATCTACTCCACTGCAACTTCAGGGAGATAATGTTTGTAACTTGTAGCTTTAATATGTTCCA
1 TTTAATCTACTCCACTGCAACTTCAGGGAGATAATGTTTG--A--TG-AGCTTTAATATGTTCCA
* * *
24652531 CTGCAACTTCAGAGAAATAAGATTGGTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
61 CTGCAACTTCAAAGAAATAAGATTGGTATCTTCAATCTACTCCACTACAACTTCAGGGAGATAAG
* * * *
24652596 ATTCATTATCTTCAATATGCTTCACTGCAACTTCAGGGAGATAAAATTTATAGCTTCAATCTACT
126 ATTCATTATCTTCAACATACTTCACTACAACTTCAAGGAGATAAAATTTATAGCTTCAATCTACT
* **
24652661 CTACTACAATTTCAGAGAGATAAGATTCACTATATTCAATCTGCTCCACTGCAACTTCAAGGAGA
191 CTACTACAACTTCAGAGAGATAAGATTCACTATATTCAATCTAATCCACTGCAACTTCAAGGAGA
24652726 TAAAATTTATGGC
256 TAAAATTTATGGC
*
24652739 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAA-GATTTG-TG-GCTTTAATATGCTT-CACTG
1 TTTAATCTACTCCACTGCAACTTCAGGGAGATAATG-TTTGATGAGCTTTAATATG-TTCCACTG
* * *
24652800 CAACTTCAAAGAGATAAGATTTGTAGCTTGTCTTCAATCTACTCCACTACAATTTCAGGGAGATA
64 CAACTTCAAAGAAATAAGA-TTG--G--TATCTTCAATCTACTCCACTACAACTTCAGGGAGATA
** * * * ** *
24652865 AGATTTGTTTATTTTTAACCTACTTCACTACAACTTCAAGGAGATAAGGTTTATAGCTTTAATCT
124 AGA-TTCATTATCTTCAACATACTTCACTACAACTTCAAGGAGATAAAATTTATAGCTTCAATCT
* * ** * * * *
24652930 GCTCTACTGCAACTTCAGAGAGATAAGATTTGCTAT-CTCTGATCTAATCCACTGTAACTTCAGG
188 ACTCTACTACAACTTCAGAGAGATAAGATTCACTATATTC-AATCTAATCCACTGCAACTTCAAG
24652994 GAGATAA
252 GAGATAA
24653001 GATCTATAAT
Statistics
Matches: 223, Mismatches: 30, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
266 33 0.15
267 5 0.02
268 2 0.01
269 1 0.00
271 38 0.17
272 107 0.48
273 37 0.17
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (268 bp):
TTTAATCTACTCCACTGCAACTTCAGGGAGATAATGTTTGATGAGCTTTAATATGTTCCACTGCA
ACTTCAAAGAAATAAGATTGGTATCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATTCA
TTATCTTCAACATACTTCACTACAACTTCAAGGAGATAAAATTTATAGCTTCAATCTACTCTACT
ACAACTTCAGAGAGATAAGATTCACTATATTCAATCTAATCCACTGCAACTTCAAGGAGATAAAA
TTTATGGC
Found at i:24653034 original size:272 final size:266
Alignment explanation
Indices: 24652510--24653144 Score: 630
Period size: 272 Copynumber: 2.3 Consensus size: 266
24652500 TGTTTGTAAC
* *
24652510 TTGTAGCTTTAATATGTTCCACTGCAACTTCAGAGAAATAAGATTGGTATCTTCAATCTGCTCCA
1 TTGTAGCTTTAATATGTTCCACTGCAACTTCAAAGAAATAAGATTGGTATCTTCAATCTACTCCA
* * * * *
24652575 CTGCAACTTCAGGGAGATAAGATTCATTATCTTCAATATGCTTCACTGCAACTTCAGGGAGATAA
66 CTACAACTTCAGGGAGATAAGATTCATTATCTTCAACATACTTCACTACAACTTCAAGGAGATAA
* **
24652640 AATTTATAGCTTCAATCTACTCTACTACAATTTCAGAGAGATAAGATTCACTATATTCAATCTGC
131 AATTTATAGCTTCAATCTACTCTACTACAACTTCAGAGAGATAAGATTCACTATATTCAATCTAA
* ** * * * **
24652705 TCCACTGCAACTTCAAGGAGATAAAATTTATGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
196 TCCACTGCAACTTCAAGGAGATAAAATCTATGAATTTAATCTACCCCACTACAACTTCAGAAAGA
24652770 TAAGAT
261 TAAGAT
* * *
24652776 TTGTGGCTTTAATATGCTT-CACTGCAACTTCAAAGAGATAAGATTTGTAGCTTGTCTTCAATCT
1 TTGTAGCTTTAATATG-TTCCACTGCAACTTCAAAGAAATAAGA-TTG--G--TATCTTCAATCT
* ** * * *
24652840 ACTCCACTACAATTTCAGGGAGATAAGATTTGTTTATTTTTAACCTACTTCACTACAACTTCAAG
60 ACTCCACTACAACTTCAGGGAGATAAGA-TTCATTATCTTCAACATACTTCACTACAACTTCAAG
** * * * ** *
24652905 GAGATAAGGTTTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTAT-CTC
124 GAGATAAAATTTATAGCTTCAATCTACTCTACTACAACTTCAGAGAGATAAGATTCACTATATTC
* * * * *
24652969 TGATCTAATCCACTGTAACTTCAGGGAGATAAGATCTAT-AATTTCAATCTACCCCATTACAACT
189 -AATCTAATCCACTGCAACTTCAAGGAGATAAAATCTATGAATTT-AATCTACCCCACTACAACT
24653033 TCAGAAAGATAAGAT
252 TCAGAAAGATAAGAT
* * ** * * *
24653048 TTGTAAATTGTTACTTTAATCTGTTCCACTGCAACTTTAGGGAGATAAGACTT-GTAACTTCAAC
1 TTGT--A--G---CTTTAATATGTTCCACTGCAACTTCAAAGAAATAAGA-TTGGTATCTTCAAT
* * * *
24653112 CTGCTCTACTGCAACTTCAGGAAGATAAGATTC
58 CTACTCCACTACAACTTCAGGGAGATAAGATTC
24653145 GCCATAATGA
Statistics
Matches: 297, Mismatches: 55, Indels: 27
0.78 0.15 0.07
Matches are distributed among these distances:
266 37 0.12
267 5 0.02
269 1 0.00
271 41 0.14
272 143 0.48
273 2 0.01
274 32 0.11
276 2 0.01
278 2 0.01
279 32 0.11
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (266 bp):
TTGTAGCTTTAATATGTTCCACTGCAACTTCAAAGAAATAAGATTGGTATCTTCAATCTACTCCA
CTACAACTTCAGGGAGATAAGATTCATTATCTTCAACATACTTCACTACAACTTCAAGGAGATAA
AATTTATAGCTTCAATCTACTCTACTACAACTTCAGAGAGATAAGATTCACTATATTCAATCTAA
TCCACTGCAACTTCAAGGAGATAAAATCTATGAATTTAATCTACCCCACTACAACTTCAGAAAGA
TAAGAT
Found at i:24656595 original size:30 final size:30
Alignment explanation
Indices: 24656559--24656619 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
24656549 CAAAACTTGT
*
24656559 ACATGCTCCTTTTCTATTCGGGATTTGGCA
1 ACATGCTCCTTTTCTATTCAGGATTTGGCA
24656589 ACATGCTCCTTTTCTATTCAGGATTTGGCA
1 ACATGCTCCTTTTCTATTCAGGATTTGGCA
24656619 A
1 A
24656620 TCATATCGTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (30 bp):
ACATGCTCCTTTTCTATTCAGGATTTGGCA
Found at i:24667895 original size:28 final size:28
Alignment explanation
Indices: 24667855--24667910 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
24667845 ACAAACTTTC
24667855 TTTTTGTAATTATCTCCCTTGTATACAA
1 TTTTTGTAATTATCTCCCTTGTATACAA
24667883 TTTTTGTAATTATCTCCCTTGTATACAA
1 TTTTTGTAATTATCTCCCTTGTATACAA
24667911 ACTCATACTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.18, G:0.07, T:0.50
Consensus pattern (28 bp):
TTTTTGTAATTATCTCCCTTGTATACAA
Found at i:24670626 original size:16 final size:18
Alignment explanation
Indices: 24670567--24670638 Score: 69
Period size: 17 Copynumber: 4.0 Consensus size: 18
24670557 CATATAAGAA
24670567 AAATAATAAATAAATAAT-
1 AAATAATAAATAAA-AATG
**
24670585 AACGATAATAAATGTAAATG
1 AA--ATAATAAATAAAAATG
*
24670605 AAATAA-AGATAAAAAT-
1 AAATAATAAATAAAAATG
24670621 AAATAATAAATAAAAATG
1 AAATAATAAATAAAAATG
24670639 CACAATAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
16 6 0.14
17 16 0.37
18 6 0.14
19 3 0.07
20 12 0.28
ACGTcount: A:0.68, C:0.01, G:0.07, T:0.24
Consensus pattern (18 bp):
AAATAATAAATAAAAATG
Found at i:24670638 original size:34 final size:33
Alignment explanation
Indices: 24670589--24670750 Score: 91
Period size: 34 Copynumber: 4.7 Consensus size: 33
24670579 AATAATAACG
**
24670589 ATAATAAATGTAAATGAAATAAAGATAAAAATAA
1 ATAATAAATAAAAATGAAATAAAGATAAAAA-AA
* *
24670623 ATAATAAATAAAAATGCACAATAAATACAAAAACAA
1 ATAATAAATAAAAATG-A-AATAAAGATAAAAA-AA
* * * *
24670659 ACCAATTTTAAATAAAAAGGAAATAATGAGTAAATAAA
1 A-TAA---TAAATAAAAATGAAATAAAGA-TAAAAAAA
24670697 ATAAATAAAT--AAAT-AAATAAA-ATGAAATAAAA
1 AT-AATAAATAAAAATGAAATAAAGAT-AAA-AAAA
*
24670729 ATTAATACATAAAAAT-AAATAA
1 A-TAATAAATAAAAATGAAATAA
24670751 CCTAGACAGG
Statistics
Matches: 99, Mismatches: 16, Indels: 26
0.70 0.11 0.18
Matches are distributed among these distances:
30 1 0.01
31 4 0.04
32 16 0.16
33 4 0.04
34 24 0.24
35 6 0.06
36 15 0.15
37 2 0.02
38 11 0.11
39 5 0.05
40 11 0.11
ACGTcount: A:0.68, C:0.04, G:0.06, T:0.22
Consensus pattern (33 bp):
ATAATAAATAAAAATGAAATAAAGATAAAAAAA
Found at i:24670730 original size:24 final size:23
Alignment explanation
Indices: 24670689--24670750 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 23
24670679 AAATAATGAG
24670689 TAAATAAAATAAAT--AAATAAA
1 TAAATAAAATAAATAAAAATAAA
*
24670710 TAAATAAAATGAAATAAAAATTAA
1 TAAATAAAAT-AAATAAAAATAAA
*
24670734 TACATAAAAATAAATAA
1 TAAAT-AAAATAAATAA
24670751 CCTAGACAGG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 10 0.29
22 4 0.11
24 16 0.46
25 5 0.14
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (23 bp):
TAAATAAAATAAATAAAAATAAA
Found at i:24670740 original size:14 final size:14
Alignment explanation
Indices: 24670699--24670749 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
24670689 TAAATAAAAT
*
24670699 AAATAAATAAATAA
1 AAATAAATACATAA
* *
24670713 ATA-AAATGAAATAA
1 AAATAAAT-ACATAA
*
24670727 AAATTAATACATAA
1 AAATAAATACATAA
24670741 AAATAAATA
1 AAATAAATA
24670750 ACCTAGACAG
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
13 4 0.13
14 23 0.77
15 3 0.10
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (14 bp):
AAATAAATACATAA
Found at i:24670750 original size:4 final size:4
Alignment explanation
Indices: 24670689--24670727 Score: 51
Period size: 4 Copynumber: 9.0 Consensus size: 4
24670679 AAATAATGAG
24670689 TAAA TAAAA TAAA TAAA TAAA TAAA TAAAA TGAAA TAAA
1 TAAA T-AAA TAAA TAAA TAAA TAAA T-AAA T-AAA TAAA
24670728 AATTAATACA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
4 20 0.62
5 12 0.38
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
TAAA
Found at i:24679838 original size:23 final size:24
Alignment explanation
Indices: 24679812--24679858 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
24679802 AAGATAACAT
24679812 AACAAGA-AGAAGAAAAAAGCAAA
1 AACAAGATAGAAGAAAAAAGCAAA
*
24679835 AACAAGATAGAAGACAAAAGCAAA
1 AACAAGATAGAAGAAAAAAGCAAA
24679859 CCCAGAAGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.70, C:0.11, G:0.17, T:0.02
Consensus pattern (24 bp):
AACAAGATAGAAGAAAAAAGCAAA
Found at i:24683194 original size:9 final size:9
Alignment explanation
Indices: 24683180--24683210 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
24683170 GTTAAACGAA
24683180 TCGAGTTAT
1 TCGAGTTAT
*
24683189 TCGAGTTAA
1 TCGAGTTAT
24683198 TCGAGTTAT
1 TCGAGTTAT
24683207 TCGA
1 TCGA
24683211 ATAAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:24683281 original size:9 final size:9
Alignment explanation
Indices: 24683264--24683300 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
24683254 TGAGTTTTCG
24683264 AATTCGAAT
1 AATTCGAAT
*
24683273 AACTCGAAT
1 AATTCGAAT
24683282 AATTCGAAT
1 AATTCGAAT
24683291 AATTCGAAT
1 AATTCGAAT
24683300 A
1 A
24683301 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:24683393 original size:30 final size:31
Alignment explanation
Indices: 24683349--24683409 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
24683339 AAACCTTTTT
* *
24683349 ACTTTTCCCTCAAAACTTTTACT-CCCTCCC
1 ACTTTCCCCCCAAAACTTTTACTCCCCTCCC
24683379 ACTTTCCCCCCAAAACTTTTACTCCCCTCCC
1 ACTTTCCCCCCAAAACTTTTACTCCCCTCCC
24683410 CTCCCAACCC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 21 0.75
31 7 0.25
ACGTcount: A:0.20, C:0.48, G:0.00, T:0.33
Consensus pattern (31 bp):
ACTTTCCCCCCAAAACTTTTACTCCCCTCCC
Found at i:24689936 original size:32 final size:32
Alignment explanation
Indices: 24689900--24689962 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
24689890 GAAAAAGAAA
24689900 AGAAACAGA-AGACGCAAATCGGCAGAAACTGG
1 AGAAACAGAGAGA-GCAAATCGGCAGAAACTGG
* *
24689932 AGAAACGGAGGGAGCAAATCGGCAGAAACTG
1 AGAAACAGAGAGAGCAAATCGGCAGAAACTG
24689963 AGCAAATCGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 26 0.93
33 2 0.07
ACGTcount: A:0.44, C:0.17, G:0.32, T:0.06
Consensus pattern (32 bp):
AGAAACAGAGAGAGCAAATCGGCAGAAACTGG
Found at i:24690860 original size:950 final size:950
Alignment explanation
Indices: 24689022--24690921 Score: 3782
Period size: 950 Copynumber: 2.0 Consensus size: 950
24689012 TATCAAAAAC
24689022 AACAGTATCATCTGTTAAGCCTAATTCGACTATTGTTTTCAAAGGATTGTCGGTCCTATGCTGAT
1 AACAGTATCATCTGTTAAGCCTAATTCGACTATTGTTTTCAAAGGATTGTCGGTCCTATGCTGAT
24689087 GAATAAAGACATACATGCATAATTTTCCCTTAATTACACTACAATTCAATAGCCCCATCCATCCA
66 GAATAAAGACATACATGCATAATTTTCCCTTAATTACACTACAATTCAATAGCCCCATCCATCCA
24689152 TATTAAAGCAAGCAACACTATCAACAAACAACAGTTATCATTTCTTAAGCCTAACCAACAACACA
131 TATTAAAGCAAGCAACACTATCAACAAACAACAGTTATCATTTCTTAAGCCTAACCAACAACACA
24689217 AAACACATAATTTCCACTTAATTACACTACAACTGGATATATAAATCCATCTATATAAGCCAAGG
196 AAACACATAATTTCCACTTAATTACACTACAACTGGATATATAAATCCATCTATATAAGCCAAGG
24689282 CACCTTATCAACAAACAACAGTTATCAATTCTTAAGCCTAATCCAAAAATTGTTTCTCCGGAACG
261 CACCTTATCAACAAACAACAGTTATCAATTCTTAAGCCTAATCCAAAAATTGTTTCTCCGGAACG
24689347 GAATGCTGTCCTATGCAGAAGAGTATACATGAAATGCATAATTAGCCCTTAACTAGAGTAGGATT
326 GAATGCTGTCCTATGCAGAAGAGTATACATGAAATGCATAATTAGCCCTTAACTAGAGTAGGATT
*
24689412 CAATATACAAATCCCGTCCATATTAATAAACAGCAATAGAAACATGCAATCGGGGAAAACTAAAC
391 CAATATACAAATCCCGTCCATATTAAGAAACAGCAATAGAAACATGCAATCGGGGAAAACTAAAC
*
24689477 ATTTCAATCGGACATGCAATACAAACAAAATACCTATGGAAAACTAACCTGTAATGAGCAAATCG
456 ATTTCAATCGGACATGCAATACAAACAAAATACCTATGGAAAACTAACATGTAATGAGCAAATCG
24689542 GGGCAGAGTGCGATGAAGAAGAACCTGTAATGAGAAAAGGGGAAACCAATTAAGTGAACAGTGCA
521 GGGCAGAGTGCGATGAAGAAGAACCTGTAATGAGAAAAGGGGAAACCAATTAAGTGAACAGTGCA
24689607 ATAATCGATGAAGAAGTCAATGCACTAACAAGGTAGTGATTCGAATCTGCTTACATGCAGAAAAA
586 ATAATCGATGAAGAAGTCAATGCACTAACAAGGTAGTGATTCGAATCTGCTTACATGCAGAAAAA
24689672 ACAAAAGACACTAACAAGGTAGCCAATGAAACTCATTACAGAAAGAAAAAGAGAGTTAGAAACAT
651 ACAAAAGACACTAACAAGGTAGCCAATGAAACTCATTACAGAAAGAAAAAGAGAGTTAGAAACAT
24689737 TAAAGGAGTTTGAGAGCAAAAGAGAGTTAGAAACCTTTACCTTTCAGTTGCAGTAACTTGGAAAC
716 TAAAGGAGTTTGAGAGCAAAAGAGAGTTAGAAACCTTTACCTTTCAGTTGCAGTAACTTGGAAAC
24689802 CCACCAACTGAGAGCAATCGAAAGAGTGACAGAGAGAAAAGAAAAGAAAAGGTTGTCTGGTTGAG
781 CCACCAACTGAGAGCAATCGAAAGAGTGACAGAGAGAAAAGAAAAGAAAAGGTTGTCTGGTTGAG
24689867 AAGGCCAAGCGTAATGTTGTAAAGAAAAAGAAAAGAAACAGAAGACGCAAATCGGCAGAAACTGG
846 AAGGCCAAGCGTAATGTTGTAAAGAAAAAGAAAAGAAACAGAAGACGCAAATCGGCAGAAACTGG
24689932 AGAAACGGAGGGAGCAAATCGGCAGAAACTGAGCAAATCG
911 AGAAACGGAGGGAGCAAATCGGCAGAAACTGAGCAAATCG
24689972 AACAGTATCATCTGTTAAGCCTAATTCGACTATTGTTTTCAAAGGATTGTCGGTCCTATGCTGAT
1 AACAGTATCATCTGTTAAGCCTAATTCGACTATTGTTTTCAAAGGATTGTCGGTCCTATGCTGAT
24690037 GAATAAAGACATACATGCATAATTTTCCCTTAATTACACTACAATTCAATAGCCCCATCCATCCA
66 GAATAAAGACATACATGCATAATTTTCCCTTAATTACACTACAATTCAATAGCCCCATCCATCCA
24690102 TATTAAAGCAAGCAACACTATCAACAAACAACAGTTATCATTTCTTAAGCCTAACCAACAACACA
131 TATTAAAGCAAGCAACACTATCAACAAACAACAGTTATCATTTCTTAAGCCTAACCAACAACACA
24690167 AAACACATAATTTCCACTTAATTACACTACAACTGGATATATAAATCCATCTATATAAGCCAAGG
196 AAACACATAATTTCCACTTAATTACACTACAACTGGATATATAAATCCATCTATATAAGCCAAGG
24690232 CACCTTATCAACAAACAACAGTTATCAATTCTTAAGCCTAATCCAAAAATTGTTTCTCCGGAACG
261 CACCTTATCAACAAACAACAGTTATCAATTCTTAAGCCTAATCCAAAAATTGTTTCTCCGGAACG
24690297 GAATGCTGTCCTATGCAGAAGAGTATACATGAAATGCATAATTAGCCCTTAACTAGAGTAGGATT
326 GAATGCTGTCCTATGCAGAAGAGTATACATGAAATGCATAATTAGCCCTTAACTAGAGTAGGATT
24690362 CAATATACAAATCCCGTCCATATTAAGAAACAGCAATAGAAACATGCAATCGGGGAAAACTAAAC
391 CAATATACAAATCCCGTCCATATTAAGAAACAGCAATAGAAACATGCAATCGGGGAAAACTAAAC
24690427 ATTTCAATCGGACATGCAATACAAACAAAATACCTATGGAAAACTAACATGTAATGAGCAAATCG
456 ATTTCAATCGGACATGCAATACAAACAAAATACCTATGGAAAACTAACATGTAATGAGCAAATCG
24690492 GGGCAGAGTGCGATGAAGAAGAACCTGTAATGAGAAAAGGGGAAACCAATTAAGTGAACAGTGCA
521 GGGCAGAGTGCGATGAAGAAGAACCTGTAATGAGAAAAGGGGAAACCAATTAAGTGAACAGTGCA
24690557 ATAATCGATGAAGAAGTCAATGCACTAACAAGGTAGTGATTCGAATCTGCTTACATGCAGAAAAA
586 ATAATCGATGAAGAAGTCAATGCACTAACAAGGTAGTGATTCGAATCTGCTTACATGCAGAAAAA
24690622 ACAAAAGACACTAACAAGGTAGCCAATGAAACTCATTACAGAAAGAAAAAGAGAGTTAGAAACAT
651 ACAAAAGACACTAACAAGGTAGCCAATGAAACTCATTACAGAAAGAAAAAGAGAGTTAGAAACAT
24690687 TAAAGGAGTTTGAGAGCAAAAGAGAGTTAGAAACCTTTACCTTTCAGTTGCAGTAACTTGGAAAC
716 TAAAGGAGTTTGAGAGCAAAAGAGAGTTAGAAACCTTTACCTTTCAGTTGCAGTAACTTGGAAAC
24690752 CCACCAACTGAGAGCAATCGAAAGAGTGACAGAGAGAAAAGAAAAGAAAAGGTTGTCTGGTTGAG
781 CCACCAACTGAGAGCAATCGAAAGAGTGACAGAGAGAAAAGAAAAGAAAAGGTTGTCTGGTTGAG
24690817 AAGGCCAAGCGTAATGTTGTAAAGAAAAAGAAAAGAAACAGAAGACGCAAATCGGCAGAAACTGG
846 AAGGCCAAGCGTAATGTTGTAAAGAAAAAGAAAAGAAACAGAAGACGCAAATCGGCAGAAACTGG
24690882 AGAAACGGAGGGAGCAAATCGGCAGAAACTGAGCAAATCG
911 AGAAACGGAGGGAGCAAATCGGCAGAAACTGAGCAAATCG
24690922 GCAGAAGCTA
Statistics
Matches: 948, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
950 948 1.00
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.22
Consensus pattern (950 bp):
AACAGTATCATCTGTTAAGCCTAATTCGACTATTGTTTTCAAAGGATTGTCGGTCCTATGCTGAT
GAATAAAGACATACATGCATAATTTTCCCTTAATTACACTACAATTCAATAGCCCCATCCATCCA
TATTAAAGCAAGCAACACTATCAACAAACAACAGTTATCATTTCTTAAGCCTAACCAACAACACA
AAACACATAATTTCCACTTAATTACACTACAACTGGATATATAAATCCATCTATATAAGCCAAGG
CACCTTATCAACAAACAACAGTTATCAATTCTTAAGCCTAATCCAAAAATTGTTTCTCCGGAACG
GAATGCTGTCCTATGCAGAAGAGTATACATGAAATGCATAATTAGCCCTTAACTAGAGTAGGATT
CAATATACAAATCCCGTCCATATTAAGAAACAGCAATAGAAACATGCAATCGGGGAAAACTAAAC
ATTTCAATCGGACATGCAATACAAACAAAATACCTATGGAAAACTAACATGTAATGAGCAAATCG
GGGCAGAGTGCGATGAAGAAGAACCTGTAATGAGAAAAGGGGAAACCAATTAAGTGAACAGTGCA
ATAATCGATGAAGAAGTCAATGCACTAACAAGGTAGTGATTCGAATCTGCTTACATGCAGAAAAA
ACAAAAGACACTAACAAGGTAGCCAATGAAACTCATTACAGAAAGAAAAAGAGAGTTAGAAACAT
TAAAGGAGTTTGAGAGCAAAAGAGAGTTAGAAACCTTTACCTTTCAGTTGCAGTAACTTGGAAAC
CCACCAACTGAGAGCAATCGAAAGAGTGACAGAGAGAAAAGAAAAGAAAAGGTTGTCTGGTTGAG
AAGGCCAAGCGTAATGTTGTAAAGAAAAAGAAAAGAAACAGAAGACGCAAATCGGCAGAAACTGG
AGAAACGGAGGGAGCAAATCGGCAGAAACTGAGCAAATCG
Found at i:24690886 original size:32 final size:32
Alignment explanation
Indices: 24690850--24690912 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
24690840 GAAAAAGAAA
24690850 AGAAACAGA-AGACGCAAATCGGCAGAAACTGG
1 AGAAACAGAGAGA-GCAAATCGGCAGAAACTGG
* *
24690882 AGAAACGGAGGGAGCAAATCGGCAGAAACTG
1 AGAAACAGAGAGAGCAAATCGGCAGAAACTG
24690913 AGCAAATCGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 26 0.93
33 2 0.07
ACGTcount: A:0.44, C:0.17, G:0.32, T:0.06
Consensus pattern (32 bp):
AGAAACAGAGAGAGCAAATCGGCAGAAACTGG
Found at i:24694380 original size:41 final size:41
Alignment explanation
Indices: 24694326--24694422 Score: 115
Period size: 41 Copynumber: 2.3 Consensus size: 41
24694316 ATATTTGGTC
* *
24694326 TTAGCCGGCGTTTTTATG-TAAGCGACGCTAAAGTTAAGATTT
1 TTAG-CGGCGTTTTTATGATAAACGACGCTAAAGTTAAG-GTT
* * *
24694368 TTAGCGGTGTTTTTATGATAAACGCCGCTAATGTTAAGGTT
1 TTAGCGGCGTTTTTATGATAAACGACGCTAAAGTTAAGGTT
*
24694409 TTAGCGGCATTTTT
1 TTAGCGGCGTTTTT
24694423 GTTGAAGCGC
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
41 26 0.55
42 21 0.45
ACGTcount: A:0.24, C:0.13, G:0.24, T:0.39
Consensus pattern (41 bp):
TTAGCGGCGTTTTTATGATAAACGACGCTAAAGTTAAGGTT
Found at i:24695477 original size:15 final size:15
Alignment explanation
Indices: 24695459--24695549 Score: 80
Period size: 15 Copynumber: 6.1 Consensus size: 15
24695449 TAAGGGTTAT
24695459 GGGTTAGGGATTTAG
1 GGGTTAGGGATTTAG
* *
24695474 GGGTTA-GGAGTTAA
1 GGGTTAGGGATTTAG
*
24695488 GGGTTAGGAATTTAG
1 GGGTTAGGGATTTAG
**
24695503 GGACTAGGAGATTTAG
1 GGGTTAGG-GATTTAG
*
24695519 GGGTTAGGG-GTTAG
1 GGGTTAGGGATTTAG
*
24695533 GGATTTAGGG-TTTAG
1 GG-GTTAGGGATTTAG
24695548 GG
1 GG
24695550 TGTCAATTAA
Statistics
Matches: 60, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
14 18 0.30
15 30 0.50
16 12 0.20
ACGTcount: A:0.23, C:0.01, G:0.45, T:0.31
Consensus pattern (15 bp):
GGGTTAGGGATTTAG
Found at i:24695486 original size:29 final size:29
Alignment explanation
Indices: 24695454--24695535 Score: 85
Period size: 29 Copynumber: 2.8 Consensus size: 29
24695444 AGGTTTAAGG
* **
24695454 GTTATGGGTTAGGGATTTAGGGGTTAGGA
1 GTTAAGGGTTAGGGATTTAGGGACTAGGA
*
24695483 GTTAAGGGTTAGGAATTTAGGGACTAGGA
1 GTTAAGGGTTAGGGATTTAGGGACTAGGA
* *
24695512 GATTTAGGGGTTAGGG-GTTAGGGA
1 G--TTAAGGGTTAGGGATTTAGGGA
24695536 TTTAGGGTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 26 0.59
30 7 0.16
31 11 0.25
ACGTcount: A:0.24, C:0.01, G:0.44, T:0.30
Consensus pattern (29 bp):
GTTAAGGGTTAGGGATTTAGGGACTAGGA
Found at i:24695549 original size:22 final size:23
Alignment explanation
Indices: 24695498--24695549 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
24695488 GGGTTAGGAA
24695498 TTTAGGGACTAGGAGATTTAGGG
1 TTTAGGGACTAGGAGATTTAGGG
* **
24695521 GTTAGGGGTTAGG-GATTTAGGG
1 TTTAGGGACTAGGAGATTTAGGG
24695543 TTTAGGG
1 TTTAGGG
24695550 TGTCAATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 15 0.60
23 10 0.40
ACGTcount: A:0.21, C:0.02, G:0.44, T:0.33
Consensus pattern (23 bp):
TTTAGGGACTAGGAGATTTAGGG
Done.