Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold61
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: 1437555
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
File 2 of 10
Found at i:173899 original size:19 final size:19
Alignment explanation
Indices: 173860--173940 Score: 102
Period size: 19 Copynumber: 4.5 Consensus size: 19
173850 TTTCAACGAT
173860 TTGTATCGATACATAAAGTG
1 TTGTATCGATACAT-AAGTG
173880 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
173899 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
*
173913 -TGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
173931 TTGTATCGAT
1 TTGTATCGAT
173941 TCAATTTAAG
Statistics
Matches: 55, Mismatches: 0, Indels: 13
0.81 0.00 0.19
Matches are distributed among these distances:
13 11 0.20
15 2 0.04
17 2 0.04
19 26 0.47
20 14 0.25
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:173918 original size:13 final size:13
Alignment explanation
Indices: 173900--173924 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
173890 ACATAAGTGT
173900 TGTATCGATACAA
1 TGTATCGATACAA
173913 TGTATCGATACA
1 TGTATCGATACA
173925 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:173922 original size:32 final size:32
Alignment explanation
Indices: 173881--173945 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
173871 CATAAAGTGT
173881 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
173913 TGTATCGATACATAAGTTTTGTATCGATTCAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
173945 T
1 T
173946 TTAAGCTACT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:174004 original size:13 final size:13
Alignment explanation
Indices: 173986--174010 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
173976 ATTACTCAAC
173986 TGTATCGATACAT
1 TGTATCGATACAT
173999 TGTATCGATACA
1 TGTATCGATACA
174011 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:174063 original size:52 final size:50
Alignment explanation
Indices: 173999--174144 Score: 202
Period size: 52 Copynumber: 2.8 Consensus size: 50
173989 ATCGATACAT
*
173999 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTACCCAGA
1 TGTATCGATACACT-AT-TATGTATCGATACATGCAGGCAAATTTACCCAGA
** *
174051 TGTATCGATACACAATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACAC--TATTATGTATCGATACATGCAGGCAAATTTACCCAGA
174103 TGTATCGATACACTATTAAATGTATCGATACATGCAGGCAAA
1 TGTATCGATACACTATT--ATGTATCGATACATGCAGGCAAA
174145 ATTTCATATT
Statistics
Matches: 84, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
50 2 0.02
52 80 0.95
53 1 0.01
54 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (50 bp):
TGTATCGATACACTATTATGTATCGATACATGCAGGCAAATTTACCCAGA
Found at i:188013 original size:11 final size:11
Alignment explanation
Indices: 187999--188081 Score: 75
Period size: 11 Copynumber: 7.6 Consensus size: 11
187989 AAAAAAAACC
*
187999 AAAACGAAAGA
1 AAAACAAAAGA
188010 AAAA-AAAAG-
1 AAAACAAAAGA
*
188019 AAAACAAAAAA
1 AAAACAAAAGA
188030 AAAACAAAAAGA
1 AAAAC-AAAAGA
188042 AAAA-AAAA-A
1 AAAACAAAAGA
188051 CAAAACAAACAGA
1 -AAAACAAA-AGA
* *
188064 CAAACAAAAAA
1 AAAACAAAAGA
188075 AAAACAA
1 AAAACAA
188082 CAACAAAAAG
Statistics
Matches: 59, Mismatches: 6, Indels: 14
0.75 0.08 0.18
Matches are distributed among these distances:
9 5 0.08
10 16 0.27
11 20 0.34
12 17 0.29
13 1 0.02
ACGTcount: A:0.83, C:0.11, G:0.06, T:0.00
Consensus pattern (11 bp):
AAAACAAAAGA
Found at i:188038 original size:22 final size:22
Alignment explanation
Indices: 188009--188081 Score: 105
Period size: 22 Copynumber: 3.3 Consensus size: 22
187999 AAAACGAAAG
188009 AAAA-AAAAAGAAAACAAAAAA
1 AAAACAAAAAGAAAACAAAAAA
188030 AAAACAAAAAGAAAA-AAAAAA
1 AAAACAAAAAGAAAACAAAAAA
*
188051 CAAAACAAACAGACAAACAAAAAA
1 -AAAACAAAAAGA-AAACAAAAAA
188075 AAAACAA
1 AAAACAA
188082 CAACAAAAAG
Statistics
Matches: 47, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
21 10 0.21
22 21 0.45
23 10 0.21
24 6 0.13
ACGTcount: A:0.85, C:0.11, G:0.04, T:0.00
Consensus pattern (22 bp):
AAAACAAAAAGAAAACAAAAAA
Found at i:188083 original size:22 final size:22
Alignment explanation
Indices: 187986--188081 Score: 103
Period size: 20 Copynumber: 4.5 Consensus size: 22
187976 GGCGTCCTCT
* *
187986 AAAAAAAA-AAAC-CAAAACGA
1 AAAAAAAACAAACAGAAAACAA
*
188006 AAGAAAAA-AAA-AGAAAACAA
1 AAAAAAAACAAACAGAAAACAA
*
188026 AAAAAAAACAAAAAGAAAA-AA
1 AAAAAAAACAAACAGAAAACAA
188047 AAAACAAAACAAACAGACAAACAA
1 AAAA-AAAACAAACAGA-AAACAA
188071 AAAAAAAACAA
1 AAAAAAAACAA
188082 CAACAAAAAG
Statistics
Matches: 65, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
20 23 0.35
21 9 0.14
22 17 0.26
23 10 0.15
24 6 0.09
ACGTcount: A:0.83, C:0.11, G:0.05, T:0.00
Consensus pattern (22 bp):
AAAAAAAACAAACAGAAAACAA
Found at i:188086 original size:17 final size:16
Alignment explanation
Indices: 187987--188090 Score: 88
Period size: 17 Copynumber: 6.3 Consensus size: 16
187977 GCGTCCTCTA
187987 AAAAAAAAAACCAAAAC
1 AAAAAAAAAA-CAAAAC
* * *
188004 GAAAGAAAAA-AAAAG
1 AAAAAAAAAACAAAAC
188019 AAAACAAAAAA-AAAAC
1 AAAA-AAAAAACAAAAC
*
188035 AAAAAGAAAAAAAAAAC
1 AAAAA-AAAAACAAAAC
*
188052 AAAACAAACAGAC-AAAC
1 AAAA-AAA-AAACAAAAC
188069 AAAAAAAAAACAACAAC
1 AAAAAAAAAACAA-AAC
188086 AAAAA
1 AAAAA
188091 GGGTCCGGAT
Statistics
Matches: 71, Mismatches: 9, Indels: 14
0.76 0.10 0.15
Matches are distributed among these distances:
15 11 0.15
16 22 0.31
17 35 0.49
18 3 0.04
ACGTcount: A:0.83, C:0.12, G:0.05, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAACAAAAC
Found at i:188090 original size:1 final size:1
Alignment explanation
Indices: 187986--188078 Score: 51
Period size: 1 Copynumber: 93.0 Consensus size: 1
187976 GGCGTCCTCT
** ** * * * * *
187986 AAAAAAAAAAACCAAAACGAAAGAAAAAAAAAGAAAACAAAAAAAAAACAAAAAGAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * *
188051 CAAAACAAACAGACAAACAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
188079 CAACAACAAA
Statistics
Matches: 65, Mismatches: 27, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 65 1.00
ACGTcount: A:0.84, C:0.11, G:0.05, T:0.00
Consensus pattern (1 bp):
A
Found at i:189553 original size:29 final size:29
Alignment explanation
Indices: 189518--189837 Score: 238
Period size: 29 Copynumber: 10.7 Consensus size: 29
189508 TCACCCTTTA
189518 AAAGCCCACAAGTCAGTGGCATCTTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
189547 AAAGCCCACAAGTCAGTGGCATCTTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * * *
189576 AAAGTCCACAAGTCAGTGGTAAC--CTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* *
189603 AAAGCCCACAAATCAGTGACATCCTTTTTC
1 AAAGCCCACAAGTCAGTGGCAT-CTTTTTC
* * *
189633 GAAGCCCACAAGTCGGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * *
189662 AAAGTCCACAACTCTGTGGCACTCTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
* * * * *
189692 TTTTGTAAGCTCACAACTCCGTAGCACTCTTTTTCC
1 -----AAAGCCCACAAGTCAGTGGCA-TCTTTTT-C
* * *
189728 TTTTAAA-CCCACAAGTTAGTGGCACCCTTTTC
1 ----AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * *
189760 AAAAGCCCACAAGTCAGTGGCAAC-CTTTA
1 -AAAGCCCACAAGTCAGTGGCATCTTTTTC
*
189789 AAAGCCCACAAGTCAGTGGCAATC--TTTA
1 AAAGCCCACAAGTCAGTGGC-ATCTTTTTC
*
189817 AAAGCCCACAAGTTAGTGGCA
1 AAAGCCCACAAGTCAGTGGCA
189838 ACCTTCAAAA
Statistics
Matches: 238, Mismatches: 41, Indels: 26
0.78 0.13 0.09
Matches are distributed among these distances:
27 21 0.09
28 44 0.18
29 80 0.34
30 45 0.19
32 1 0.00
33 5 0.02
34 12 0.05
35 29 0.12
36 1 0.00
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCATCTTTTTC
Found at i:189800 original size:28 final size:28
Alignment explanation
Indices: 189726--189883 Score: 178
Period size: 28 Copynumber: 5.6 Consensus size: 28
189716 CACTCTTTTT
* * *
189726 CCTTTTAAA-CCCACAAGTTAGTGGCAC
1 CCTTTAAAAGCCCACAAGTCAGTGGCAA
189753 CCTTTTCAAAAGCCCACAAGTCAGTGGCAA
1 CC-TTT-AAAAGCCCACAAGTCAGTGGCAA
189783 CCTTTAAAAGCCCACAAGTCAGTGGCAA
1 CCTTTAAAAGCCCACAAGTCAGTGGCAA
* *
189811 TCTTTAAAAGCCCACAAGTTAGTGGCAA
1 CCTTTAAAAGCCCACAAGTCAGTGGCAA
* * *
189839 CCTTCAAAAGCACACAAGT-TGAT-GCAAA
1 CCTTTAAAAGCCCACAAGTCAG-TGGC-AA
189867 CCTTTCAAAAGCCCACA
1 CCTTT-AAAAGCCCACA
189884 CAAGTTGGTG
Statistics
Matches: 114, Mismatches: 11, Indels: 10
0.84 0.08 0.07
Matches are distributed among these distances:
27 5 0.04
28 75 0.66
29 16 0.14
30 18 0.16
ACGTcount: A:0.35, C:0.28, G:0.15, T:0.21
Consensus pattern (28 bp):
CCTTTAAAAGCCCACAAGTCAGTGGCAA
Found at i:189821 original size:56 final size:58
Alignment explanation
Indices: 189517--189883 Score: 196
Period size: 56 Copynumber: 6.2 Consensus size: 58
189507 CTCACCCTTT
* * * * *
189517 AAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTTC
1 AAAAGCCCACAAGTCAGTGGCAAC-CTTTAAAAGCCCACAAGTCAGTGGCAACCTTTTC
* * * * * *
189576 -AAAGTCCACAAGTCAGTGGTAACC-TTCAAAGCCCACAAATCAGTGACATCCTTTTTC
1 AAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTCAGTGGCAACC-TTTTC
* * * * * * * *
189633 -GAAGCCCACAAGTCGGTGGCATCTTTTCCAAAGTCCACAACTCTGTGGC-ACTCTTTTTC
1 AAAAGCCCACAAGTCAGTGGCAACCTTT-AAAAGCCCACAAGTCAGTGGCAAC-C-TTTTC
** * * * * * * * *
189692 TTTTGTAAGCTCACAACTCCGTAGCACTCTTTTTCCTTTTAAA-CCCACAAGTTAGTGGCACCCT
1 ----AAAAGCCCACAAGTCAGTGGCA-------ACCTTTAAAAGCCCACAAGTCAGTGGCAACCT
189756 TTTC
55 TTTC
*
189760 AAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTCAGTGGCAATC-TTT-
1 AAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTCAGTGGCAACCTTTTC
* * * *
189816 AAAAGCCCACAAGTTAGTGGCAACCTTCAAAAGCACACAAGT-TGAT-GCAAACC-TTTC
1 AAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTCAG-TGGC-AACCTTTTC
189873 AAAAGCCCACA
1 AAAAGCCCACA
189884 CAAGTTGGTG
Statistics
Matches: 241, Mismatches: 46, Indels: 44
0.73 0.14 0.13
Matches are distributed among these distances:
55 3 0.01
56 70 0.29
57 45 0.19
58 40 0.17
59 24 0.10
64 32 0.13
68 5 0.02
69 13 0.05
70 4 0.02
71 5 0.02
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.26
Consensus pattern (58 bp):
AAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTCAGTGGCAACCTTTTC
Found at i:189870 original size:84 final size:85
Alignment explanation
Indices: 189727--189883 Score: 214
Period size: 84 Copynumber: 1.8 Consensus size: 85
189717 ACTCTTTTTC
* * *
189727 CTTTTAAACCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTT-AAA
1 CTTTAAAACCCACAAGTTAGTGGCAACC-TTTCAAAAGCACACAAGTCAGTGGCAACCTTTCAAA
189791 AGCCCACAAGTCAGTGGCAAT
65 AGCCCACAAGTCAGTGGCAAT
*
189812 CTTTAAAAGCCCACAAGTTAGTGGCAACC-TTCAAAAGCACACAAGT-TGAT-GCAAACCTTTCA
1 CTTTAAAA-CCCACAAGTTAGTGGCAACCTTTCAAAAGCACACAAGTCAG-TGGC-AACCTTTCA
189874 AAAGCCCACA
63 AAAGCCCACA
189884 CAAGTTGGTG
Statistics
Matches: 64, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
83 3 0.05
84 24 0.38
85 18 0.28
86 19 0.30
ACGTcount: A:0.36, C:0.28, G:0.15, T:0.21
Consensus pattern (85 bp):
CTTTAAAACCCACAAGTTAGTGGCAACCTTTCAAAAGCACACAAGTCAGTGGCAACCTTTCAAAA
GCCCACAAGTCAGTGGCAAT
Found at i:190022 original size:48 final size:49
Alignment explanation
Indices: 189913--190291 Score: 460
Period size: 48 Copynumber: 7.8 Consensus size: 49
189903 TCTAAGTCTG
* * * * *
189913 ATATCGCTGGCCTTTAATTAGCATATTGGCACCTTCACCTTTAAGCCCA
1 ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCA
189962 ATATAGCTGGCCTTGAATCAGCATATTGGCACCTT-ATCTTTAAGTCCA
1 ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCA
* *
190010 ATGTAGCTGGCCTTGAATCAGCACATTGGCA-CTTCATCTTTAAGTCCA
1 ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCA
* * * *
190058 ATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGCACCTTTAAGTCTA
1 ATATAGCTGGCCTTGAATCAGCATATTGGCACC-TT--CATCTTTAAGTCCA
*
190110 ATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCA
1 ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCA
* * * * * * *
190159 ATGTAGCCGGCCTTGAATTAGCACATTGGTACC-TCACCTTTAAGCCCA
1 ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCA
* * * *
190207 ATATCGCTGGCCTTGAATCAGCATATTGGCATCTT-GTCTTTAAGACCA
1 ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCA
* * * *
190255 ATGTCGCTGGCCTTGAATCAGCACATTGTCACCTTCA
1 ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCA
190292 AGTCTAACTG
Statistics
Matches: 283, Mismatches: 40, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
47 3 0.01
48 160 0.57
49 73 0.26
50 2 0.01
51 2 0.01
52 43 0.15
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (49 bp):
ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCA
Found at i:190249 original size:197 final size:197
Alignment explanation
Indices: 189905--190282 Score: 551
Period size: 197 Copynumber: 1.9 Consensus size: 197
189895 CGTCTTCTTC
* * * *
189905 TAAGTCTGATATCGCTGGCCTTTAATTAGCATATTGGCACCTTCACCTTTAAGCCCAATATAGCT
1 TAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCACCTTTAAGCCCAATATAGCC
* * * * *
189970 GGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACA
66 GGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCACA
* *
190035 TTGGCACTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGCACC
131 TTGGCACTTCATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCGCCTTTGGCACC
190100 TT
196 TT
* * * *
190102 TAAGTCTAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCC
1 TAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCACCTTTAAGCCCAATATAGCC
* * * *
190167 GGCCTTGAATTAGCACATTGGTACCTCACCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATA
66 GGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCACA
* *
190232 TTGGCATCTT-GTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTG
131 TTGGCA-CTTCATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTG
190283 TCACCTTCAA
Statistics
Matches: 159, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
197 156 0.98
198 3 0.02
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (197 bp):
TAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCACCTTTAAGCCCAATATAGCC
GGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCACA
TTGGCACTTCATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCGCCTTTGGCACC
TT
Found at i:191055 original size:13 final size:13
Alignment explanation
Indices: 191037--191093 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
191027 CATAAAGTGT
191037 TGTATCGATACAA
1 TGTATCGATACAA
191050 TGTATCGATACATAA
1 TGTATCGATAC--AA
191065 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
191082 TGTATCGATACA
1 TGTATCGATACA
191094 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:191072 original size:32 final size:32
Alignment explanation
Indices: 191017--191114 Score: 178
Period size: 32 Copynumber: 3.0 Consensus size: 32
191007 TTCAACGATT
191017 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
191050 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
191082 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
191114 T
1 T
191115 TTAAGCTACT
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 51 0.80
33 13 0.20
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:191074 original size:19 final size:18
Alignment explanation
Indices: 191015--191112 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
191005 ATTTCAACGA
191015 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
191034 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
191050 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
191066 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
191082 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
191098 TTTTGTATCGATACA
1 -TTTGTATCGATACA
191113 ATTTAAGCTA
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
15 4 0.06
17 4 0.06
19 24 0.36
20 12 0.18
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:191174 original size:13 final size:13
Alignment explanation
Indices: 191156--191180 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
191146 ATTACTCAAC
191156 TGTATCGATACAT
1 TGTATCGATACAT
191169 TGTATCGATACA
1 TGTATCGATACA
191181 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:191230 original size:52 final size:50
Alignment explanation
Indices: 191169--191314 Score: 193
Period size: 52 Copynumber: 2.8 Consensus size: 50
191159 ATCGATACAT
* *
191169 TGTATCGATACACTGATCTTTGTATCGATAAATGCAGGCAAATTTACCCAGA
1 TGTATCGATACACT-AT-TATGTATCGATACATGCAGGCAAATTTACCCAGA
** *
191221 TGTATCGATACACAATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACAC--TATTATGTATCGATACATGCAGGCAAATTTACCCAGA
191273 TGTATCGATACACTATTAAATGTATCGATACATGCAGGCAAA
1 TGTATCGATACACTATT--ATGTATCGATACATGCAGGCAAA
191315 ATTTCATATT
Statistics
Matches: 83, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
50 2 0.02
52 79 0.95
53 1 0.01
54 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.28
Consensus pattern (50 bp):
TGTATCGATACACTATTATGTATCGATACATGCAGGCAAATTTACCCAGA
Found at i:194934 original size:28 final size:28
Alignment explanation
Indices: 194846--195582 Score: 552
Period size: 28 Copynumber: 25.2 Consensus size: 28
194836 TTTTTAAGAA
*
194846 AAAGG-TGCCACTAACTTATGTGGGCTTTG
1 AAAGGATGCCACTGAC-T-TGTGGGCTTTG
*
194875 AAAAGAGTTGCCACTGACTTGTGTGGGCTTTG
1 -AAAG-GATGCCACTGAC-T-TGTGGGCTTTG
* * *
194907 ATAGGGTGCTACTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
194935 AAAAGGATGCCACT-ATCTTGTGGGCTTTG
1 -AAAGGATGCCACTGA-CTTGTGGGCTTTG
194964 AAAAGGATGCCACTGACTTGTGGGCTTTGG
1 -AAAGGATGCCACTGACTTGTGGGCTTT-G
* *
194994 AAAGGATGCCACTAACTTGTGCGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
195022 AAAAGATGCCACTGTCTTGTGGG-TTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * *
195049 AAAAGATACCACTGACTTATGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
*
195077 AAAAGGTATG-CACTAACTTGTGGGCTTTG
1 -AAAGG-ATGCCACTGACTTGTGGGCTTTG
*
195106 AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * * * *
195134 CAAGGGTGCCATTGACTTGTGGGTTTTA
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * *
195162 AAAGGGTGCCACTGACTTGTGGGATTTAA
1 AAAGGATGCCACTGACTTGTGGGCTTT-G
* *
195191 AAATGG-TGCCACAGACTTGTGAGCTTTG
1 AAA-GGATGCCACTGACTTGTGGGCTTTG
* *
195219 AAATGGGTTGCCA-TCGACTTGTGTGGGCTTTC
1 AAA--GGATGCCACT-GAC-T-TGTGGGCTTTG
* *
195251 AAATGAGTTGCCACCGACTTGTGTGGGCTTTG
1 AAA-G-GATGCCACTGAC-T-TGTGGGCTTTG
* * *
195283 AAATGAGTTGCCA-TCGATTTATGGGCTTTG
1 AAA-G-GATGCCACT-GACTTGTGGGCTTTG
* * * * *
195313 AAATGATGCCATTGACTTGTTGACTTTA
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * *
195341 AAAGGATGCTATTGACTTATGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
195369 AAATGGGTTGCCACCGACTTGTGTAGGCTTTG
1 AAA--GGATGCCACTGACTTGTG--GGCTTTG
* ** *
195401 AAATGGGTTGCCACCAACTTATGTGGGCTTTC
1 AAA--GGATGCCACTGAC-T-TGTGGGCTTTG
*
195433 AAATGAGTTGCCACTGACTTGTGTGGCTTTG
1 AAA-G-GATGCCACTGACTTGTG-GGCTTTG
* * * *
195464 AAATGATTTTCCACCGACTTGTGGGCTTTA
1 AAAGGA--TGCCACTGACTTGTGGGCTTTG
*
195494 AAATGATGCCACTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * * *
195522 AAAAGATTCCATTGACTTATGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * *
195550 AAATGATGCCACTAACTTGTGGGCTTTA
1 AAAGGATGCCACTGACTTGTGGGCTTTG
195578 AAAGG
1 AAAGG
195583 GTGCTGCCAC
Statistics
Matches: 589, Mismatches: 87, Indels: 64
0.80 0.12 0.09
Matches are distributed among these distances:
27 26 0.04
28 220 0.37
29 122 0.21
30 70 0.12
31 31 0.05
32 115 0.20
33 1 0.00
34 4 0.01
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (28 bp):
AAAGGATGCCACTGACTTGTGGGCTTTG
Found at i:195387 original size:150 final size:152
Alignment explanation
Indices: 194851--195524 Score: 449
Period size: 150 Copynumber: 4.5 Consensus size: 152
194841 AAGAAAAAGG
* * * * * * *
194851 TGCCACTAACTTATGTGGGCTTTGAAAAGAGTTGCCACTGACTTGTGTGGGCTTTGATAGGGTGC
1 TGCCACTGACTTATGT-GGCTTTGAAATGA-TTGCCACCGAC-T-TGTGGACTTTAAAAGGATGC
* * * * * * *
194916 TACTGACTTGTGGGCTTTGAAA-AGGATGCCA-CTATCTTGTG--GGCTTTGAAAAG-GATGCCA
62 CACTGACTTGTGGGCTTTGAAATGGGTTGCCACCGA-CTTGTGTAGGCTTTCAAATGAGTTGCCA
** * *
194976 CTGAC-T-TGTGGGCTTTGGAAA-G-GA
126 CCAACTTATGTGGGCTTT-CAAATGAGT
* * * * * *
195000 TGCCACTAAC-T-TGTGCGCTTTGAAAAGA-TGCCACTGTCTTGTGG-GTTTGAAAA-GATACCA
1 TGCCACTGACTTATGTG-GCTTTGAAATGATTGCCACCGACTTGTGGACTTT-AAAAGGATGCCA
* * ** * * *
195060 CTGACTTATGGGCTTTGAAA-AGGTATG-CACTAACTTGTG--GGCTTTGAAA-G-GGTGCCACT
64 CTGACTTGTGGGCTTTGAAATGGGT-TGCCACCGACTTGTGTAGGCTTTCAAATGAGTTGCCACC
* *
195119 GAC-T-TGTGGGCTTTGC-AA-G-GG
128 AACTTATGTGGGCTTT-CAAATGAGT
* * * * ** *
195140 TGCCATTGAC-T-TGTGGGTTTTAAAAGGGTGCCACTGACTTGTGGGA-TTTAAAAATGG-TGCC
1 TGCCACTGACTTATGTGGCTTTGAAATGATTGCCACCGACTTGT-GGACTTT-AAAA-GGATGCC
* * * *
195201 ACAGACTTGTGAGCTTTGAAATGGGTTGCCATCGACTTGTGTGGGCTTTCAAATGAGTTGCCACC
63 ACTGACTTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTAGGCTTTCAAATGAGTTGCCACC
* * *
195266 GACTTGTGTGGGCTTTGAAATGAGT
128 AACTTATGTGGGCTTTCAAATGAGT
* ** * * *
195291 TGCCA-TCGATTTATG-GGCTTTGAAATGA-TGCCATTGACTTGTTGACTTTAAAAGGATGCTAT
1 TGCCACT-GACTTATGTGGCTTTGAAATGATTGCCACCGACTTGTGGACTTTAAAAGGATGCCAC
* * *
195353 TGACTTATGGGCTTTGAAATGGGTTGCCACCGACTTGTGTAGGCTTTGAAATGGGTTGCCACCAA
65 TGACTTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTAGGCTTTCAAATGAGTTGCCACCAA
195418 CTTATGTGGGCTTTCAAATGAGT
130 CTTATGTGGGCTTTCAAATGAGT
* * * *
195441 TGCCACTGACTTGTGTGGCTTTGAAATGATTTTCCACCGACTTGTGGGCTTTAAAATGATGCCAC
1 TGCCACTGACTTATGTGGCTTTGAAATGA-TTGCCACCGACTTGTGGACTTTAAAAGGATGCCAC
195506 TGACTTGTGGGCTTTGAAA
65 TGACTTGTGGGCTTTGAAA
195525 AGATTCCATT
Statistics
Matches: 432, Mismatches: 64, Indels: 54
0.79 0.12 0.10
Matches are distributed among these distances:
139 9 0.02
140 30 0.07
141 33 0.08
142 70 0.16
143 23 0.05
144 1 0.00
145 18 0.04
146 2 0.00
147 25 0.06
148 2 0.00
149 24 0.06
150 101 0.23
151 38 0.09
152 10 0.02
153 46 0.11
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (152 bp):
TGCCACTGACTTATGTGGCTTTGAAATGATTGCCACCGACTTGTGGACTTTAAAAGGATGCCACT
GACTTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTAGGCTTTCAAATGAGTTGCCACCAAC
TTATGTGGGCTTTCAAATGAGT
Found at i:195701 original size:28 final size:28
Alignment explanation
Indices: 195566--195832 Score: 240
Period size: 27 Copynumber: 9.6 Consensus size: 28
195556 TGCCACTAAC
*
195566 TTGTGGGCTTTAAAAGGGTGCTGCCACAGAG
1 TTGTGGACTTTAAAA-GG-G-TGCCACAGAG
* * * * *
195597 TTATGGAC-TTAAAAAGCTACCACAAAG
1 TTGTGGACTTTAAAAGGGTGCCACAGAG
* * *
195624 TTGTGGAC-TTAAAAGGATGTCACAAAG
1 TTGTGGACTTTAAAAGGGTGCCACAGAG
* * *
195651 TTATGGAC-TTAAAAGGGTACCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACAGAG
*
195678 TTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACAGAG
* * *
195706 TTGTGGACTTT-AAAGAGAGACACAGAG
1 TTGTGGACTTTAAAAGGGTGCCACAGAG
* * *
195733 TTATGGACTTT-AATGGGTGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACAGAG
*
195760 TTGGGGACTTTAAAAGGGTGCCACAGAG
1 TTGTGGACTTTAAAAGGGTGCCACAGAG
* **
195788 TTGTGTG-CTTTAAAAGGATGCCATGGAG
1 TTGTG-GACTTTAAAAGGGTGCCACAGAG
195816 TTGTGGACTTTGAAAAG
1 TTGTGGACTTT-AAAAG
195833 AAATGCCACT
Statistics
Matches: 194, Mismatches: 37, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
27 101 0.52
28 74 0.38
29 7 0.04
30 6 0.03
31 6 0.03
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.26
Consensus pattern (28 bp):
TTGTGGACTTTAAAAGGGTGCCACAGAG
Found at i:195714 original size:82 final size:82
Alignment explanation
Indices: 195616--195807 Score: 262
Period size: 82 Copynumber: 2.3 Consensus size: 82
195606 TAAAAAGCTA
* *
195616 CCACAAAGTTGTGGACTTAAAAGGATGTCACAAAGTTATGGACTTAAAAGGGTACCACGGAGTTG
1 CCACAGAGTTGTGGACTTAAAAGGATGACACAAAGTTATGGACTTAAAAGGGTACCACGGAGTTG
*
195681 TGGACTTTAAAAGGGTG
66 GGGACTTTAAAAGGGTG
* * * * * *
195698 CCACGGAGTTGTGGACTTTAAAGAGA-GACACAGAGTTATGGACTTTAATGGGTGCCACGGAGTT
1 CCACAGAGTTGTGGACTTAAAAG-GATGACACAAAGTTATGGACTTAAAAGGGTACCACGGAGTT
195762 GGGGACTTTAAAAGGGTG
65 GGGGACTTTAAAAGGGTG
195780 CCACAGAGTTGTGTG-CTTTAAAAGGATG
1 CCACAGAGTTGTG-GAC-TTAAAAGGATG
195808 CCATGGAGTT
Statistics
Matches: 95, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
82 85 0.89
83 10 0.11
ACGTcount: A:0.31, C:0.14, G:0.31, T:0.25
Consensus pattern (82 bp):
CCACAGAGTTGTGGACTTAAAAGGATGACACAAAGTTATGGACTTAAAAGGGTACCACGGAGTTG
GGGACTTTAAAAGGGTG
Found at i:202101 original size:97 final size:97
Alignment explanation
Indices: 201953--202171 Score: 341
Period size: 97 Copynumber: 2.3 Consensus size: 97
201943 TGAAAAACGA
* * * *
201953 GGTTGGAGTATCCCCTTGGAGGAATGGGGTTGGAGTGTCCTCGATGATGACAATTTAAATGAGCA
1 GGTTGGAGTATCCCCTTGGAGGAATGGGGTTGAAGTGTCCCCAATGATGACAATTTAAATGAGAA
202018 TAAAATTTAAACTTTGATGCGTTTAAAAGCGG
66 TAAAATTTAAACTTTGATGCGTTTAAAAGCGG
* *
202050 GGTTGGAGTAT-CCCTTCGGAGGAATGGGGTTGAAGTGTCCCCAATGGTGACAATTTAAGTGAGA
1 GGTTGGAGTATCCCCTT-GGAGGAATGGGGTTGAAGTGTCCCCAATGATGACAATTTAAATGAGA
* *
202114 ATAAGATTTAAACTTTGATGTGTTTAAAAGCGG
65 ATAAAATTTAAACTTTGATGCGTTTAAAAGCGG
*
202147 GATTGGAGTATCCCCTTGGAGGAAT
1 GGTTGGAGTATCCCCTTGGAGGAAT
202172 AGAGCTGGGG
Statistics
Matches: 111, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
96 5 0.05
97 101 0.91
98 5 0.05
ACGTcount: A:0.28, C:0.12, G:0.30, T:0.30
Consensus pattern (97 bp):
GGTTGGAGTATCCCCTTGGAGGAATGGGGTTGAAGTGTCCCCAATGATGACAATTTAAATGAGAA
TAAAATTTAAACTTTGATGCGTTTAAAAGCGG
Found at i:205126 original size:20 final size:19
Alignment explanation
Indices: 205101--205175 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 19
205091 AAACCCTTGT
*
205101 ATGTATCGATACATATCCA
1 ATGTATCGATACATATACA
* *
205120 GATGTATCGATACATTATGCT
1 -ATGTATCGATACA-TATACA
* *
205141 TTGTATCGATACATGTACA
1 ATGTATCGATACATATACA
205160 ATTGTATCGATACATA
1 A-TGTATCGATACATA
205176 AAACTGGCAG
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 3 0.07
20 38 0.84
21 4 0.09
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGTATCGATACATATACA
Found at i:205239 original size:13 final size:13
Alignment explanation
Indices: 205221--205249 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
205211 AATACATGAC
205221 ACATTGTATCGAT
1 ACATTGTATCGAT
205234 ACATTGTATCGAT
1 ACATTGTATCGAT
205247 ACA
1 ACA
205250 CGAAGAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:206031 original size:16 final size:17
Alignment explanation
Indices: 206005--206037 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
205995 ATCCATCCTT
*
206005 GAGCTTACAGGGATGGA
1 GAGCTTACAGGAATGGA
206022 GAGC-TACAGGAATGGA
1 GAGCTTACAGGAATGGA
206038 TTTTGTTGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.33, C:0.12, G:0.39, T:0.15
Consensus pattern (17 bp):
GAGCTTACAGGAATGGA
Found at i:206560 original size:51 final size:50
Alignment explanation
Indices: 206504--206619 Score: 187
Period size: 51 Copynumber: 2.3 Consensus size: 50
206494 AATTAACTAG
*
206504 ATGTATCAATACATGGAAAAATGTATCGATAAATTTAGGTAAAAAAATAAA
1 ATGTATCGATACATGGAAAAATGTATCGATAAATTTAGGT-AAAAAATAAA
* * *
206555 ATGTATCGATACATTGAAAAATGTATCGATACATTTAGGTAAAAAATAGA
1 ATGTATCGATACATGGAAAAATGTATCGATAAATTTAGGTAAAAAATAAA
206605 ATGTATCGATACATG
1 ATGTATCGATACATG
206620 TACTATTCAT
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
50 23 0.38
51 37 0.62
ACGTcount: A:0.47, C:0.08, G:0.16, T:0.29
Consensus pattern (50 bp):
ATGTATCGATACATGGAAAAATGTATCGATAAATTTAGGTAAAAAATAAA
Found at i:206577 original size:20 final size:20
Alignment explanation
Indices: 206552--206589 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
206542 GTAAAAAAAT
206552 AAAATGTATCGATACATTGA
1 AAAATGTATCGATACATTGA
206572 AAAATGTATCGATACATT
1 AAAATGTATCGATACATT
206590 TAGGTAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.32
Consensus pattern (20 bp):
AAAATGTATCGATACATTGA
Found at i:208041 original size:28 final size:28
Alignment explanation
Indices: 207693--208045 Score: 410
Period size: 28 Copynumber: 12.6 Consensus size: 28
207683 GACTTGTCTA
*
207693 GGCTTTG-AAAGGATGCCATTGACTTGTG
1 GGCTTTGAAAAGG-TGCCACTGACTTGTG
* *
207721 GGCTTTGAAAAGATGCCACTAACTTGTG
1 GGCTTTGAAAAGGTGCCACTGACTTGTG
*
207749 GGCTTTG-AAAGGATGCCACTAACTTGTG
1 GGCTTTGAAAAGG-TGCCACTGACTTGTG
* * *
207777 GGCTTTGAGAAGGTGCCACTAACTTATG
1 GGCTTTGAAAAGGTGCCACTGACTTGTG
* * *
207805 GGCTTTGAGAAGGTGCCACTAACTTATG
1 GGCTTTGAAAAGGTGCCACTGACTTGTG
*
207833 GGCTTTGAAAATGTGCCACTGACTTGTG
1 GGCTTTGAAAAGGTGCCACTGACTTGTG
* * *
207861 GGTTTTGAGAAGATGCCACTGACTTGCT-
1 GGCTTTGAAAAGGTGCCACTGACTTG-TG
* *
207889 GGCTTTGAAAAGGTGCTACTAACTTGTG
1 GGCTTTGAAAAGGTGCCACTGACTTGTG
** *
207917 GGCTTTGAAAAGAAGCCACTGACTTATG
1 GGCTTTGAAAAGGTGCCACTGACTTGTG
*
207945 GGCTTTG-AAAGGATGCCATTGACTTGTG
1 GGCTTTGAAAAGG-TGCCACTGACTTGTG
* *
207973 GGCTTTG-AAAGGATTCCATTGACTTGTG
1 GGCTTTGAAAAGG-TGCCACTGACTTGTG
*
208001 GGCTTTGAGAAGGTGCCACTGACTTGTG
1 GGCTTTGAAAAGGTGCCACTGACTTGTG
*
208029 GGCTATGAAAAGGTGCC
1 GGCTTTGAAAAGGTGCC
208046 CACACATCTT
Statistics
Matches: 284, Mismatches: 34, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
27 9 0.03
28 262 0.92
29 13 0.05
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (28 bp):
GGCTTTGAAAAGGTGCCACTGACTTGTG
Found at i:208296 original size:13 final size:13
Alignment explanation
Indices: 208278--208308 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
208268 CCACCTCTTC
208278 TTTTTATTTTTAT
1 TTTTTATTTTTAT
208291 TTTTTATTTTTAT
1 TTTTTATTTTTAT
208304 TTTTT
1 TTTTT
208309 TGTATTTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (13 bp):
TTTTTATTTTTAT
Found at i:208316 original size:7 final size:6
Alignment explanation
Indices: 208278--208307 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
208268 CCACCTCTTC
208278 TTTTTA TTTTTA TTTTTTA TTTTTA TTTTT
1 TTTTTA TTTTTA -TTTTTA TTTTTA TTTTT
208308 TTGTATTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (6 bp):
TTTTTA
Found at i:208894 original size:30 final size:31
Alignment explanation
Indices: 208860--208943 Score: 100
Period size: 32 Copynumber: 2.7 Consensus size: 31
208850 GCCAGTGACA
*
208860 TTGGG-TTTAGAAGGGTTGCCACCAACTTGT
1 TTGGGCTTTAGAAAGGTTGCCACCAACTTGT
* *
208890 TTGGGCTTTAGAAAAAGTTGCCACCGACTTGT
1 TTGGGCTTTAG-AAAGGTTGCCACCAACTTGT
* *
208922 GTGGGCTTT-GAAAGGATGCCAC
1 TTGGGCTTTAGAAAGGTTGCCAC
208944 TGACTTGTGA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
30 15 0.33
31 6 0.13
32 25 0.54
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.30
Consensus pattern (31 bp):
TTGGGCTTTAGAAAGGTTGCCACCAACTTGT
Found at i:209219 original size:28 final size:28
Alignment explanation
Indices: 208891--209220 Score: 317
Period size: 28 Copynumber: 11.7 Consensus size: 28
208881 CCAACTTGTT
* *
208891 TGGGCTTTAGAAAAAGTTGCCACCGACTTGTG
1 TGGGCTTT-G-AAAAGGTGCCACTGAC-T-TG
208923 TGGGCTTTG-AAAGGATGCCACTGACTTG
1 TGGGCTTTGAAAAGG-TGCCACTGACTTG
* * * *
208951 TGAGCTTT-AAAAGATGCCATTGACTTA
1 TGGGCTTTGAAAAGGTGCCACTGACTTG
*
208978 TGGGCTTTG-AAAGAATGCCACTGACTTG
1 TGGGCTTTGAAAAG-GTGCCACTGACTTG
*
209006 TGGGCTTTGAGAAGGTGCCACTGACTTG
1 TGGGCTTTGAAAAGGTGCCACTGACTTG
* *
209034 TGGGCTTTGAAAATGTGCCACTAACTTG
1 TGGGCTTTGAAAAGGTGCCACTGACTTG
* * * * *
209062 CGAGCTTTGAGAAGGTGTCGCTGACTTG
1 TGGGCTTTGAAAAGGTGCCACTGACTTG
* * *
209090 TGGGCTTTAAAAAGGTGCCACTAAGTTG
1 TGGGCTTTGAAAAGGTGCCACTGACTTG
** **
209118 TGGTTTTTGAAAAGAAGCCACTGACTTG
1 TGGGCTTTGAAAAGGTGCCACTGACTTG
*
209146 TGGGCTTTG-AAAGGATGCCACTGACTTA
1 TGGGCTTTGAAAAGG-TGCCACTGACTTG
* * * *
209174 TGGGTTTTGAGAAGGTGCCACTAACTTT
1 TGGGCTTTGAAAAGGTGCCACTGACTTG
*
209202 TGGGCTTTGAAAATGTGCC
1 TGGGCTTTGAAAAGGTGCC
209221 CACACATCTT
Statistics
Matches: 243, Mismatches: 48, Indels: 18
0.79 0.16 0.06
Matches are distributed among these distances:
27 26 0.11
28 187 0.77
29 12 0.05
30 9 0.04
31 1 0.00
32 8 0.03
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (28 bp):
TGGGCTTTGAAAAGGTGCCACTGACTTG
Found at i:215197 original size:21 final size:20
Alignment explanation
Indices: 215169--215214 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
215159 AAGGTGCTGG
215169 ACATGCTGTAAA-TGCATGAA
1 ACATGCTG-AAAGTGCATGAA
215189 ACATAGCTGAAAGTGCATGAA
1 ACAT-GCTGAAAGTGCATGAA
*
215210 TCATG
1 ACATG
215215 GGCTGTTAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (20 bp):
ACATGCTGAAAGTGCATGAA
Found at i:216147 original size:21 final size:20
Alignment explanation
Indices: 216105--216154 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
216095 GGTAGCTCTA
*
216105 TATCGATAC-AACACTTATG
1 TATCGATACAAACACTAATG
*
216124 TATCGATACAAACAGTAAATG
1 TATCGATACAAACACT-AATG
216145 TATCGATACA
1 TATCGATACA
216155 TTTGGACAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 9 0.33
20 5 0.19
21 13 0.48
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.28
Consensus pattern (20 bp):
TATCGATACAAACACTAATG
Found at i:216915 original size:61 final size:60
Alignment explanation
Indices: 216823--217217 Score: 279
Period size: 61 Copynumber: 6.8 Consensus size: 60
216813 TACAACACTA
* ** * * *
216823 GACTTAAAGATGATAAGGAT-A-AGAAGAGTGCCAATGCGTTGATTCAAAGTCAATGATATTG
1 GACTTAAAGATGA-AAGAATGATA-AAG-GTGCCAATATGCTGATTCAAAGCCAACGATATTG
** * *
216884 GACTTAAAGATGCAAAGAATGATAAAGGTGCCAATATGCTGATTCATGGCTAGCGATATTG
1 GACTTAAAGATG-AAAGAATGATAAAGGTGCCAATATGCTGATTCAAAGCCAACGATATTG
* * * *
216945 GGCTTGAAGATGAGAAGAATGATAAAGGTGCCAATATTCTGATTCAAGGCCAACGATATTG
1 GACTTAAAGATGA-AAGAATGATAAAGGTGCCAATATGCTGATTCAAAGCCAACGATATTG
* * * * * * *
217006 GGCTT-AA-AT------ATGACAAAGGTGCCAATGTGCTGATTCGAAGGCAACGACATTA
1 GACTTAAAGATGAAAGAATGATAAAGGTGCCAATATGCTGATTCAAAGCCAACGATATTG
* * * *
217058 GACTTGAAGATGAGAAGAATGATAAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
1 GACTTAAAGATGA-AAGAATGATAAAGGTGCCAATATGCTGATTCAAAGCCAACGATATTG
* ** * *
217119 GAC-T-----T-AAAG-ATGACAAAGGCACCAATATGCTGGTTCAAGGCCAACGATATTG
1 GACTTAAAGATGAAAGAATGATAAAGGTGCCAATATGCTGATTCAAAGCCAACGATATTG
* * *
217171 GACTTTAAAAATGATAAGAGTGA-AAAGAGTGCCAATGTGCTGATTCA
1 GAC-TTAAAGATGA-AAGAATGATAAAG-GTGCCAATATGCTGATTCA
217218 TGGCCAGTGA
Statistics
Matches: 265, Mismatches: 45, Indels: 47
0.74 0.13 0.13
Matches are distributed among these distances:
52 79 0.30
53 5 0.02
54 4 0.02
55 1 0.00
59 3 0.01
60 5 0.02
61 144 0.54
62 23 0.09
63 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (60 bp):
GACTTAAAGATGAAAGAATGATAAAGGTGCCAATATGCTGATTCAAAGCCAACGATATTG
Found at i:217051 original size:52 final size:52
Alignment explanation
Indices: 216963--217429 Score: 228
Period size: 52 Copynumber: 8.6 Consensus size: 52
216953 GATGAGAAGA
* * *
216963 ATGATAAAGGTGCCAATATTCTGATTCAAGGCCAACGATATTGGGCTTAAAT
1 ATGACAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAT
* * *
217015 ATGACAAAGGTGCCAATGTGCTGATTCGAAGG-CAACGACATTAGACTTGAAGAT
1 ATGACAAAGGTGCCAATATGCTGATTC-AAGGCCAACGATATTGGACTT-AA-AT
* * * *
217069 GAGAAGAATGATAAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1 -------ATGACAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAT
** *
217128 ATGACAAAGGCACCAATATGCTGGTTCAAGGCCAACGATATTGGACTTTAAAAAT
1 ATGACAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGAC-TT--AAAT
* * * ** * * **
217183 GATAAGAGTGAAAAGAGTGCCAATGTGCTGATTCATGGCCAGTGACATTAGA-TTTGAT
1 -AT--GA---CAAAG-GTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAT
* * * * * *
217241 GATGAC-AAGAATGCCAATGTGCCT-ATTCAAGGCCTAGCGACATTGGACTAAAAA
1 -ATGACAAAG-GTGCCAATATG-CTGATTCAAGGCC-AACGATATTGGACTTAAAT
* * * * * * * ** * *
217295 ATTA-GAAGAATTCCAAGTGTGCTAATTCAAGGCTAGTGACATTGGGCTTAGGAAT
1 ATGACAAAG-GTGCCAA-TATGCTGATTCAAGGCCAACGATATTGGACTTA--AAT
* * * * * *
217350 A--ATAAAGATTCCAATATGCTGATTCAAGGCCAGCGATATCGAACTTAAAT
1 ATGACAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAT
217400 ATGACAAAGGTGCCAATATGCTGATTCAAG
1 ATGACAAAGGTGCCAATATGCTGATTCAAG
217430 ATCAACGGCA
Statistics
Matches: 323, Mismatches: 60, Indels: 64
0.72 0.13 0.14
Matches are distributed among these distances:
50 4 0.01
52 149 0.46
53 56 0.17
54 20 0.06
55 6 0.02
56 4 0.01
58 7 0.02
59 1 0.00
60 8 0.02
61 41 0.13
62 27 0.08
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (52 bp):
ATGACAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAT
Found at i:217072 original size:113 final size:112
Alignment explanation
Indices: 216897--217223 Score: 404
Period size: 113 Copynumber: 2.9 Consensus size: 112
216887 TTAAAGATGC
* * * *
216897 AAAGAATGATAAAGGTGCCAATATGCTGATTCATGGCTAGCGATATTGGGCTTGAAGATGAGAAG
1 AAAG-ATGACAAAGGTGCCAATATGCTGATTCAAGGC-AACGATATTGGACTTGAAGATGAGAAG
* *
216962 AATGATAAAGGTGCCAATATTCTGATTCAAGGCCAACGATATTGGGCTT
64 AATGATAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTT
* * * *
217011 AAATATGACAAAGGTGCCAATGTGCTGATTCGAAGGCAACGACATTAGACTTGAAGATGAGAAGA
1 AAAGATGACAAAGGTGCCAATATGCTGATTC-AAGGCAACGATATTGGACTTGAAGATGAGAAGA
* *
217076 ATGATAAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
65 ATGATAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTT
** * * * *
217124 AAAGATGACAAAGGCACCAATATGCTGGTTCAAGGCCAACGATATTGGACTTTAAAAATGATAAG
1 AAAGATGACAAAGGTGCCAATATGCTGATTCAAGG-CAACGATATTGGAC-TTGAAGATGAGAAG
* * *
217189 AGTGA-AAAGAGTGCCAATGTGCTGATTCATGGCCA
64 AATGATAAAG-GTGCCAATATGCTGATTCAAGGCCA
217224 GTGACATTAG
Statistics
Matches: 183, Mismatches: 26, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
112 4 0.02
113 134 0.73
114 45 0.25
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (112 bp):
AAAGATGACAAAGGTGCCAATATGCTGATTCAAGGCAACGATATTGGACTTGAAGATGAGAAGAA
TGATAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTT
Found at i:217258 original size:114 final size:112
Alignment explanation
Indices: 216912--217305 Score: 341
Period size: 113 Copynumber: 3.5 Consensus size: 112
216902 ATGATAAAGG
* * * * * * * * *
216912 TGCCAATATGCTGATTCATGGCTAGCGATATTGGGC-TTGAAGATGAGAAGAATGATAAAGGTGC
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTTAAAAATGAGAAGAATGATAAAAGTGC
* * * * * *
216976 CAATATTCTGATTCAAGGCCAACGATATTGGGCTTAAATATGACAAA
66 CAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGACAAA
* * *
217023 GGTGCCAATGTGCTGATTCGAAGG-CAACGACATTAGAC-TTGAAGATGAGAAGAATGATAAAAG
1 --TGCCAATGTGCTGATTC-AAGGCCAACGACATTGGACTTTAAAAATGAGAAGAATGATAAAAG
* *
217086 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAA
63 TGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGACAAA
* * * * * *
217136 GGCACCAATATGCTGGTTCAAGGCCAACGATATTGGACTTTAAAAATGATAAGAGTGA-AAAGAG
1 TG--CCAATGTGCTGATTCAAGGCCAACGACATTGGACTTTAAAAATGAGAAGAATGATAAA-AG
* * * * * *
217200 TGCCAATGTGCTGATTCATGGCCAGTGACATTAGATTTGATGATGACAAGAA
63 TGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAC-A-AA
* * *
217252 TGCCAATGTGCCT-ATTCAAGGCCTAGCGACATTGGAC-TAAAAAATTAGAAGAAT
1 TGCCAATGTG-CTGATTCAAGGCC-AACGACATTGGACTTTAAAAATGAGAAGAAT
217306 TCCAAGTGTG
Statistics
Matches: 233, Mismatches: 38, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
111 1 0.00
112 4 0.02
113 123 0.53
114 88 0.38
115 14 0.06
116 3 0.01
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (112 bp):
TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTTAAAAATGAGAAGAATGATAAAAGTGC
CAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGACAAA
Found at i:220192 original size:21 final size:20
Alignment explanation
Indices: 220164--220209 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
220154 AAGGTGCTGG
220164 ACATGCTGTAAA-TGCATGAA
1 ACATGCTG-AAAGTGCATGAA
220184 ACATAGCTGAAAGTGCATGAA
1 ACAT-GCTGAAAGTGCATGAA
*
220205 TCATG
1 ACATG
220210 GGCTGTTAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (20 bp):
ACATGCTGAAAGTGCATGAA
Found at i:221161 original size:21 final size:20
Alignment explanation
Indices: 221117--221168 Score: 70
Period size: 21 Copynumber: 2.6 Consensus size: 20
221107 AGGGTAGCTC
*
221117 TGTATCGATAC-AACACTTA
1 TGTATCGATACAAACACTAA
*
221136 TGTATCGATACAAACAGTAAA
1 TGTATCGATACAAACACT-AA
221157 TGTATCGATACA
1 TGTATCGATACA
221169 TTTGGACAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 11 0.38
20 5 0.17
21 13 0.45
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.29
Consensus pattern (20 bp):
TGTATCGATACAAACACTAA
Found at i:221941 original size:61 final size:61
Alignment explanation
Indices: 221876--222150 Score: 239
Period size: 61 Copynumber: 4.6 Consensus size: 61
221866 GCCAATGCGT
* *
221876 TGATTCAAAGTCAATGATATTGGACTTAAAGATGCAAAGAATGATAAAGGTGCCAATATGC
1 TGATTCAAAGCCAACGATATTGGACTTAAAGATGCAAAGAATGATAAAGGTGCCAATATGC
** * * * * * *
221937 TGATTCATGGCTAGCAATATCGGGCTTGAAGATG-AGAAGAATGATAAAGGTGCCAATATGC
1 TGATTCAAAGCCAACGATATTGGACTTAAAGATGCA-AAGAATGATAAAGGTGCCAATATGC
* * * * *
221998 TGATTCAAGGCCAACGATATTGGGCTTAAATATGC----CA--AT---GGTGCCAATGTGC
1 TGATTCAAAGCCAACGATATTGGACTTAAAGATGCAAAGAATGATAAAGGTGCCAATATGC
* * * * * *
222050 TGATTCAAAGGCAACGACATTAGACTTGAAGATG-AGAAGAATGATAAAAGTGCTAATATGC
1 TGATTCAAAGCCAACGATATTGGACTTAAAGATGCA-AAGAATGATAAAGGTGCCAATATGC
* *
222111 TTATTCAAGGCCAACGATATTGGACTTAAAGATGACAAAG
1 TGATTCAAAGCCAACGATATTGGACTTAAAGATG-CAAAG
222151 GCACCAATAT
Statistics
Matches: 164, Mismatches: 36, Indels: 27
0.72 0.16 0.12
Matches are distributed among these distances:
52 39 0.24
55 2 0.01
56 1 0.01
57 1 0.01
58 2 0.01
60 1 0.01
61 114 0.70
62 3 0.02
63 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (61 bp):
TGATTCAAAGCCAACGATATTGGACTTAAAGATGCAAAGAATGATAAAGGTGCCAATATGC
Found at i:222088 original size:113 final size:113
Alignment explanation
Indices: 221961--222231 Score: 330
Period size: 113 Copynumber: 2.4 Consensus size: 113
221951 CAATATCGGG
*
221961 CTTGAAGATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTTA
1 CTTGAAGATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTA
* * * ** *
222026 AATATGCCAATGGTGCCAATGTGCTGATTCAAAGG-CAACGACATTAGA
66 AAGATGACAAAGGCACCAATATGCTGATTC-AAGGCCAACGACATTAGA
* * *
222074 CTTGAAGATGAGAAGAATGATAAAAGTGCTAATATGCTTATTCAAGGCCAACGATATTGGACTTA
1 CTTGAAGATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTA
* * *
222139 AAGATGACAAAGGCACCAATATGCTGGTTCAAGGCCAACGATATTGGA
66 AAGATGACAAAGGCACCAATATGCTGATTCAAGGCCAACGACATTAGA
* * * * **
222187 CTTTAAAAATGATAAGAGTGA-AAAGAGTGCCAACGTGCTGATTCA
1 C-TTGAAGATGAGAAGAATGATAAAG-GTGCCAATATGCTGATTCA
222232 TGGCTAGTGA
Statistics
Matches: 133, Mismatches: 22, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
112 4 0.03
113 99 0.74
114 30 0.23
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (113 bp):
CTTGAAGATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTA
AAGATGACAAAGGCACCAATATGCTGATTCAAGGCCAACGACATTAGA
Found at i:222317 original size:52 final size:51
Alignment explanation
Indices: 222261--222406 Score: 152
Period size: 52 Copynumber: 2.8 Consensus size: 51
222251 TGAAGCTGAC
* *
222261 AAGAATGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTA-AAAAACTA
1 AAGAATTCCAATGTGCTGATTCAAGGCTAGCGATATTGGACTAGAAAAA-TA
** * * * *
222312 GAAGAATTCCAATGTGCAAATTCAAGGCTAGTGACATTGGGCTTAGGAATAATA
1 -AAGAATTCCAATGTGCTGATTCAAGGCTAGCGATATTGGAC-TA-GAAAAATA
* *
222366 AAG-ATTCCAATATGCTGATTCAAGGCTAGCGATATCGGACT
1 AAGAATTCCAATGTGCTGATTCAAGGCTAGCGATATTGGACT
222407 TAAATATGAC
Statistics
Matches: 76, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
51 1 0.01
52 64 0.84
53 5 0.07
54 2 0.03
55 4 0.05
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (51 bp):
AAGAATTCCAATGTGCTGATTCAAGGCTAGCGATATTGGACTAGAAAAATA
Found at i:223967 original size:20 final size:20
Alignment explanation
Indices: 223944--224016 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
223934 ACAATTCAAA
223944 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
223964 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
223985 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
224005 GTATCGATACAT
1 GTATCGATACAT
224017 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:223988 original size:21 final size:21
Alignment explanation
Indices: 223962--224037 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
223952 ACATGTTGCA
223962 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
223983 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
224003 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
224024 ATGTATCGATACAT
1 ATGTATCGATACAT
224038 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:223995 original size:41 final size:41
Alignment explanation
Indices: 223944--224037 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
223934 ACAATTCAAA
*
223944 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
223985 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
224026 GTATCGATACAT
1 GTATCGATACAT
224038 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:224094 original size:13 final size:13
Alignment explanation
Indices: 224076--224101 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
224066 TACAGCAAGT
224076 ATGTATCGATACA
1 ATGTATCGATACA
224089 ATGTATCGATACA
1 ATGTATCGATACA
224102 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:230284 original size:27 final size:27
Alignment explanation
Indices: 230246--230299 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
230236 TCTCTTATCA
*
230246 AAGTCCACAACTCTGTGGTACCCTTTT
1 AAGTCCACAACTCTGTGGCACCCTTTT
* *
230273 AAGTCCATAACTTTGTGGCACCCTTTT
1 AAGTCCACAACTCTGTGGCACCCTTTT
230300 TCTTTTTAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (27 bp):
AAGTCCACAACTCTGTGGCACCCTTTT
Found at i:230319 original size:61 final size:61
Alignment explanation
Indices: 230246--230362 Score: 173
Period size: 61 Copynumber: 1.9 Consensus size: 61
230236 TCTCTTATCA
* * ** *
230246 AAGTCCACAACTCTGTGGTACCCTTTT-AAGTCCATAACTTTGTGGCACCCTTTTTCTTTTT
1 AAGTCCACAACTCCGTGGTA-CCTTTTCAAGTCCAAAACTTCATGGCACCCTCTTTCTTTTT
230307 AAGTCCACAACTCCGTGGTACCTTTTCAAGTCCAAAACTTCATGGCACCCTCTTTC
1 AAGTCCACAACTCCGTGGTACCTTTTCAAGTCCAAAACTTCATGGCACCCTCTTTC
230363 AAAGCCCAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
60 6 0.12
61 44 0.88
ACGTcount: A:0.22, C:0.30, G:0.13, T:0.35
Consensus pattern (61 bp):
AAGTCCACAACTCCGTGGTACCTTTTCAAGTCCAAAACTTCATGGCACCCTCTTTCTTTTT
Found at i:230331 original size:33 final size:34
Alignment explanation
Indices: 230269--230332 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
230259 TGTGGTACCC
* **
230269 TTTTAAGTCCATAACTTTGTGGCACCCTTTTTCT
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTTTCT
*
230303 TTTTAAGTCCACAACTCCGTGGTA-CCTTTT
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTT
230333 CAAGTCCAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 6 0.23
34 20 0.77
ACGTcount: A:0.19, C:0.25, G:0.12, T:0.44
Consensus pattern (34 bp):
TTTTAAGTCCACAACTCCGTGGCACCCTTTTTCT
Found at i:230410 original size:32 final size:33
Alignment explanation
Indices: 230349--230790 Score: 254
Period size: 32 Copynumber: 13.8 Consensus size: 33
230339 CAAAACTTCA
* *
230349 TGGC-ACCCTCTTTC-AAAGCCCAAACAAGTCAG
1 TGGCAACCCT-TTTCTAAAGCCCACACAAGTCGG
*
230381 TGGCAACCCTTTTCTAAAGCCTACA-AAGTCGG
1 TGGCAACCCTTTTCTAAAGCCCACACAAGTCGG
* * * *
230413 TGGCAACCCCTTT-TAAAGCCTATACAAGTCGA
1 TGGCAACCCTTTTCTAAAGCCCACACAAGTCGG
* * * * * * **
230445 TTGCAACTCTATTTTTTTAAGCCTACATAAGTTAG
1 TGGCAAC-C-CTTTTCTAAAGCCCACACAAGTCGG
* * * * * *
230480 TGGTAACTCTTTTTTTAAGCGCACACAAGTTGG
1 TGGCAACCCTTTTCTAAAGCCCACACAAGTCGG
* * * * **
230513 TGGCACCCCCTTT-TAAAGTCCACAAAAGTTAG
1 TGGCAACCCTTTTCTAAAGCCCACACAAGTCGG
* * *
230545 TGGCAACCTTTTTC-AAAGCCCACATAAGTCAG
1 TGGCAACCCTTTTCTAAAGCCCACACAAGTCGG
* * * ** *
230577 TGGTAACCCTTCTC-AAAGCCCACGCAAACCGA
1 TGGCAACCCTTTTCTAAAGCCCACACAAGTCGG
* * * * *
230609 TGGCAACCCCTCT-TAAAGCCTATATAAGTCGG
1 TGGCAACCCTTTTCTAAAGCCCACACAAGTCGG
* * ** *** *
230641 TGGCAACCCCTCTC-AAAGCTGATGTAAG-CTAG
1 TGGCAACCCTTTTCTAAAGCCCACACAAGTC-GG
*
230673 TGGCAACCC--TTCTAAAGCCCACACAAGTTGG
1 TGGCAACCCTTTTCTAAAGCCCACACAAGTCGG
230704 TGGCAACCC--TTCTAAAGCCCACACAAGTCGG
1 TGGCAACCCTTTTCTAAAGCCCACACAAGTCGG
230735 TGGCAACCC--TTCTAAAGCCCACACAAGTCGG
1 TGGCAACCCTTTTCTAAAGCCCACACAAGTCGG
*
230766 TGGCAATCCC-TCTC-AAAGCCCACAC
1 TGGCAA-CCCTTTTCTAAAGCCCACAC
230791 GAGTTGGTCC
Statistics
Matches: 326, Mismatches: 70, Indels: 28
0.77 0.17 0.07
Matches are distributed among these distances:
30 2 0.01
31 88 0.27
32 170 0.52
33 45 0.14
34 3 0.01
35 18 0.06
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (33 bp):
TGGCAACCCTTTTCTAAAGCCCACACAAGTCGG
Found at i:230937 original size:33 final size:32
Alignment explanation
Indices: 230806--231200 Score: 286
Period size: 32 Copynumber: 12.3 Consensus size: 32
230796 GGTCCTATAG
*
230806 AAGTCGGTGGCAACCC-CTCTTAAAGCCCACAT
1 AAGTCGGTGGCAACCCTCTC-TAAAGCCCACAC
* *
230838 AAG-CTGGTGACAACCCT-TCCCAAAGCCCACAC
1 AAGTC-GGTGGCAACCCTCT-CTAAAGCCCACAC
* * *
230870 AAGTCAGTGGTAACCC-CTCTTAAAGCCCATAC
1 AAGTCGGTGGCAACCCTCTC-TAAAGCCCACAC
230902 AAGTCGGTGGCAACCCTTCTCTAAAGCCCACAC
1 AAGTCGGTGGCAACCC-TCTCTAAAGCCCACAC
** ** * *
230935 AAGTAAGTGATAATCCCCCTTTAAAGCCCACAC
1 AAGTCGGTGGCAA-CCCTCTCTAAAGCCCACAC
* * * *
230968 AAGTTGGTGGCAACCCTTATCTAAAGCCTACAG
1 AAGTCGGTGGCAACCC-TCTCTAAAGCCCACAC
* * * * * *
231001 AAGTTGGTGGCAA-CTTCTTTTAAAGTCGACAG
1 AAGTCGGTGGCAACCCTC-TCTAAAGCCCACAC
* * * *
231033 AAGTTGGTGGCAACCCTCTTTTAAAG-CCAGAT
1 AAGTCGGTGGCAACCCTC-TCTAAAGCCCACAC
** * *
231065 AAGTCAATGGCAACCCT-TCTAAAGCTCACAA
1 AAGTCGGTGGCAACCCTCTCTAAAGCCCACAC
* *
231096 AAGTCGGTGGC-A-CCTCTTTTAAAGCCTACAC
1 AAGTCGGTGGCAACCCTC-TCTAAAGCCCACAC
* * *
231127 AAGTCGGTGACAACCCTCTTCAAAAGCCCACAT
1 AAGTCGGTGGCAACCCTC-TCTAAAGCCCACAC
* *
231160 AAGTCGATGGCAACCCTCTCAAAAGCCCACAC
1 AAGTCGGTGGCAACCCTCTCTAAAGCCCACAC
*
231192 AAGTTGGTG
1 AAGTCGGTG
231201 CCATCTCCTT
Statistics
Matches: 288, Mismatches: 58, Indels: 34
0.76 0.15 0.09
Matches are distributed among these distances:
29 3 0.01
30 7 0.02
31 35 0.12
32 126 0.44
33 111 0.39
34 6 0.02
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (32 bp):
AAGTCGGTGGCAACCCTCTCTAAAGCCCACAC
Found at i:231349 original size:52 final size:53
Alignment explanation
Indices: 231271--231465 Score: 168
Period size: 52 Copynumber: 3.8 Consensus size: 53
231261 CATCTCTTTC
* * * * * *
231271 TAAGTCCAATGTTA-TTGGCCTCGAATCAACACATTGGCACCTTTTTCTTTTT
1 TAAGTCCAATATCACTTAGCCTTGAATCAGCATATTGGCACCTTTTTCTTTTT
* * * *
231323 TAAGTCCAATATCACTT-GCCTTGAATCAGCATATCGGCACCTTTATCATCTT
1 TAAGTCCAATATCACTTAGCCTTGAATCAGCATATTGGCACCTTTTTCTTTTT
** * * * * *
231375 TAAGTCTGATATCGC-TGGCCTTAAATCAGCATATTGGCA--TTATTCTAAATTT
1 TAAGTCCAATATCACTTAGCCTTGAATCAGCATATTGGCACCTTTTTCT--TTTT
*
231427 TAAGTCCAATATC-GTTAGCCTTGAATCAGCATATTGGCA
1 TAAGTCCAATATCACTTAGCCTTGAATCAGCATATTGGCA
231466 TTCTTCTTAT
Statistics
Matches: 114, Mismatches: 24, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
50 4 0.04
51 1 0.01
52 107 0.94
53 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.36
Consensus pattern (53 bp):
TAAGTCCAATATCACTTAGCCTTGAATCAGCATATTGGCACCTTTTTCTTTTT
Found at i:231466 original size:52 final size:52
Alignment explanation
Indices: 231320--231484 Score: 169
Period size: 52 Copynumber: 3.2 Consensus size: 52
231310 CCTTTTTCTT
* * * *
231320 TTTTAAGTCCAATATCACTTGCCTTGAATCAGCATATCGGCA-CCTT-TATCA
1 TTTTAAGTCCAATATC-GTTGCCTTGAATCAGCATATTGGCATTCTTCTATAA
** * * *
231371 TCTTTAAGTCTGATATCGCTGGCCTTAAATCAGCATATTGGCATTATTCTA-AA
1 T-TTTAAGTCCAATATCG-TTGCCTTGAATCAGCATATTGGCATTCTTCTATAA
231424 TTTTAAGTCCAATATCGTTAGCCTTGAATCAGCATATTGGCATTCTTCT-T-A
1 TTTTAAGTCCAATATCGTT-GCCTTGAATCAGCATATTGGCATTCTTCTATAA
231475 TCTTTAAGTC
1 T-TTTAAGTC
231485 TAATGTCGAT
Statistics
Matches: 93, Mismatches: 14, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
51 4 0.04
52 83 0.89
53 4 0.04
54 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.39
Consensus pattern (52 bp):
TTTTAAGTCCAATATCGTTGCCTTGAATCAGCATATTGGCATTCTTCTATAA
Found at i:231506 original size:52 final size:53
Alignment explanation
Indices: 231370--231498 Score: 163
Period size: 52 Copynumber: 2.5 Consensus size: 53
231360 CACCTTTATC
* *
231370 ATCTTTAAGTCTGATATCGCTGGCCTTAAATCAGCATATTGGCATTATTCTAA
1 ATCTTTAAGTCTAATATCGATGGCCTTAAATCAGCATATTGGCATTATTCTAA
* * * * * *
231423 AT-TTTAAGTCCAATATCGTTAGCCTTGAATCAGCATATTGGCATTCTTCT-T
1 ATCTTTAAGTCTAATATCGATGGCCTTAAATCAGCATATTGGCATTATTCTAA
*
231474 ATCTTTAAGTCTAATGTCGATGGCC
1 ATCTTTAAGTCTAATATCGATGGCC
231499 GTCAATCAAC
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
51 2 0.03
52 60 0.94
53 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (53 bp):
ATCTTTAAGTCTAATATCGATGGCCTTAAATCAGCATATTGGCATTATTCTAA
Found at i:231506 original size:104 final size:104
Alignment explanation
Indices: 231294--231524 Score: 256
Period size: 104 Copynumber: 2.2 Consensus size: 104
231284 ATTGGCCTCG
* *
231294 AATCAACACATTGGCACCTTTTTCT--TTTTTAAGTCCAATATCACTTGCCTTGAATCAGCATAT
1 AATCAACACATTGGCA--TTATTCTAAATTTTAAGTCCAATATCACTTGCCTTGAATCAGCATAT
* * *
231357 CGGCACCTTTATCATCTTTAAGTCTGATATCGCTGGCCTTA
64 CGGCACCTTTATCATCTTTAAGTCTAATATCGATGGCCGTA
* * * *
231398 AATCAGCATATTGGCATTATTCTAAATTTTAAGTCCAATATC-GTTAGCCTTGAATCAGCATATT
1 AATCAACACATTGGCATTATTCTAAATTTTAAGTCCAATATCACTT-GCCTTGAATCAGCATATC
* * *
231462 GGCATTCTTCT-T-ATCTTTAAGTCTAATGTCGATGGCCGTC
65 GGCA-CCTT-TATCATCTTTAAGTCTAATATCGATGGCCGTA
* *
231502 AATCAACACGTTGGCATTTTTCT
1 AATCAACACATTGGCATTATTCT
231525 CACTCTTATC
Statistics
Matches: 106, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
102 6 0.06
103 2 0.02
104 93 0.88
105 4 0.04
106 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (104 bp):
AATCAACACATTGGCATTATTCTAAATTTTAAGTCCAATATCACTTGCCTTGAATCAGCATATCG
GCACCTTTATCATCTTTAAGTCTAATATCGATGGCCGTA
Found at i:231804 original size:113 final size:114
Alignment explanation
Indices: 231542--231804 Score: 289
Period size: 113 Copynumber: 2.3 Consensus size: 114
231532 ATCATCTTTA
* ** * *
231542 AAGTCTAATATCGCTGGCCTTGAATTAGCATATTGGTGCTTTTTGTTATCTTTAAGTCCAATATC
1 AAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCACTATTTGTCATCTTTAAGTCCAATATC
* * * *
231607 ACTAGCCTTGAATCAGCATATCGGTACCTTTATCATTTTTCTCATATTC
66 ACTAGCCTTAAATCAGCATATCAGCACCTTTATCATTCTTCTCATATTC
* * * * *
231656 AAGTCCAATGTCGTTGGCCTTGAATCAACACATTGGCAC-ATTTGTCATCTTTAAG-CCTAATAT
1 AAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCACTATTTGTCATCTTTAAGTCC-AATAT
* * * * * *
231719 CATTTGCCTTAAATTAGCATATTAGCACTTTTATCATTCTTCTCATCTTC
65 CACTAGCCTTAAATCAGCATATCAGCACCTTTATCATTCTTCTCATATTC
* *
231769 AAGCTCC-ATATCACTGGCCGTGAATTAGCATATTGG
1 AAG-TCCAATATCGCTGGCCTTGAATTAGCATATTGG
231805 TACCTTTATC
Statistics
Matches: 120, Mismatches: 27, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
112 2 0.02
113 84 0.70
114 34 0.28
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (114 bp):
AAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCACTATTTGTCATCTTTAAGTCCAATATC
ACTAGCCTTAAATCAGCATATCAGCACCTTTATCATTCTTCTCATATTC
Found at i:234365 original size:52 final size:53
Alignment explanation
Indices: 234286--234398 Score: 174
Period size: 52 Copynumber: 2.2 Consensus size: 53
234276 TCTTTTCACT
* *
234286 TTTGTCATCTTTAAAGTCTAATATTGTTGGCCATGAATCAGCATATTGGCATC
1 TTTGTCATCTTTAAAGTCCAATATTGTTGGCCATGAATCAGCATATCGGCATC
* *
234339 TTTGTCATCTTT-AAGTCCAATATTGTTGGTCTTGAATCAGCATATCGGCATC
1 TTTGTCATCTTTAAAGTCCAATATTGTTGGCCATGAATCAGCATATCGGCATC
*
234391 TTTATCAT
1 TTTGTCAT
234399 TCTTCTCATC
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
52 43 0.78
53 12 0.22
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.42
Consensus pattern (53 bp):
TTTGTCATCTTTAAAGTCCAATATTGTTGGCCATGAATCAGCATATCGGCATC
Found at i:234486 original size:51 final size:52
Alignment explanation
Indices: 234404--234515 Score: 127
Period size: 51 Copynumber: 2.2 Consensus size: 52
234394 ATCATTCTTC
* * * * *
234404 TCATCTTCAAGTCCAATGTCACTAGCTTTGAATCAGCACATTAGCACCTTTG
1 TCATCTTCAAGCCCAATATCACTAGCCTTGAATCAACACATTAGCACCTTTA
* * * *
234456 TCATCTT-AAGCCCAATATTACTGGCCTTGAATCAACATATTGGCACCTTTA
1 TCATCTTCAAGCCCAATATCACTAGCCTTGAATCAACACATTAGCACCTTTA
234507 TCATTCTTC
1 TCA-TCTTC
234516 TCATCTTTAG
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
51 38 0.78
52 11 0.22
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (52 bp):
TCATCTTCAAGCCCAATATCACTAGCCTTGAATCAACACATTAGCACCTTTA
Found at i:234506 original size:112 final size:113
Alignment explanation
Indices: 234319--234522 Score: 311
Period size: 112 Copynumber: 1.8 Consensus size: 113
234309 TTGTTGGCCA
* * * * ** * *
234319 TGAATCAGCATATTGGCATCTTTGTCATCTTTAAGTCCAATATTGTTGGTCTTGAATCAGCATAT
1 TGAATCAGCACATTAGCACCTTTGTCATCTTTAAGCCCAATATTACTGGCCTTGAATCAACATAT
*
234384 CGGCATCTTTATCATTCTTCTCATCTTCAAGTCCAATGTCACTAGCTT
66 CGGCACCTTTATCATTCTTCTCATCTTCAAGTCCAATGTCACTAGCTT
234432 TGAATCAGCACATTAGCACCTTTGTCATC-TTAAGCCCAATATTACTGGCCTTGAATCAACATAT
1 TGAATCAGCACATTAGCACCTTTGTCATCTTTAAGCCCAATATTACTGGCCTTGAATCAACATAT
*
234496 TGGCACCTTTATCATTCTTCTCATCTT
66 CGGCACCTTTATCATTCTTCTCATCTT
234523 TAGCCTGATA
Statistics
Matches: 81, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
112 55 0.68
113 26 0.32
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.38
Consensus pattern (113 bp):
TGAATCAGCACATTAGCACCTTTGTCATCTTTAAGCCCAATATTACTGGCCTTGAATCAACATAT
CGGCACCTTTATCATTCTTCTCATCTTCAAGTCCAATGTCACTAGCTT
Found at i:234549 original size:60 final size:59
Alignment explanation
Indices: 234456--234584 Score: 170
Period size: 60 Copynumber: 2.2 Consensus size: 59
234446 AGCACCTTTG
* * *
234456 TCATCTTAAGCCCAATATTACTGGCCTTGAATCAACATATTGGCACCTTTATCATTCTT
1 TCATCTTTAGCCCAATATTACTGGCATTGAATCAACATATTGGCACCGTTATCATTCTT
** *
234515 CTCATCTTTAGCCTGATATTACTGG-ATGTGAATCAGCATATTGGCACCGTTATCATTCTT
1 -TCATCTTTAGCCCAATATTACTGGCAT-TGAATCAACATATTGGCACCGTTATCATTCTT
234575 TGCATCTTTA
1 T-CATCTTTA
234585 AGTCCAAGGT
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
59 2 0.03
60 59 0.97
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.39
Consensus pattern (59 bp):
TCATCTTTAGCCCAATATTACTGGCATTGAATCAACATATTGGCACCGTTATCATTCTT
Found at i:239387 original size:61 final size:61
Alignment explanation
Indices: 239294--239422 Score: 161
Period size: 61 Copynumber: 2.1 Consensus size: 61
239284 CATTGGGTTT
* * * *
239294 AAGATGCGAAGAATGATAAAGGTGCCAGTATGCTGATTCACGGCCAGCAATATCGGGCTTGA
1 AAGATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAACAATATCGGGCTT-A
* * * * *
239356 AA-ATGAGAAGAATGATTAGGGTGCTAATATGCTGATTCAAGGCCAACGATATTGGGCTTA
1 AAGATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAACAATATCGGGCTTA
239416 AAGATGA
1 AAGATGA
239423 CAAAGGTTCC
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
60 3 0.05
61 52 0.91
62 2 0.04
ACGTcount: A:0.35, C:0.14, G:0.28, T:0.23
Consensus pattern (61 bp):
AAGATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAACAATATCGGGCTTA
Found at i:239470 original size:52 final size:51
Alignment explanation
Indices: 239375--239722 Score: 267
Period size: 52 Copynumber: 6.7 Consensus size: 51
239365 GAATGATTAG
* * * * *
239375 GGTGCTAATATGCTGATTCAAGGCCAACGATATTGGGCTTAAAGATGACAAA
1 GGTGCCAATGTGCTTATTCAAGGCCAGCGATATTGGACTTAAAGATGA-AAA
* * * *
239427 GGTTCCAATGTG-TTGTCTCAAGGCCAGCGATATTAGACTTAAAGATCGCAAA
1 GGTGCCAATGTGCTTAT-TCAAGGCCAGCGATATTGGACTTAAAGAT-GAAAA
* * * *
239479 GGTGCTAATATGCTAATTCAAGGCCAGTGATATTGGACTTGAGAA-A-GAAGAA
1 GGTGCCAATGTGCTTATTCAAGGCCAGCGATATTGGACTT-A-AAGATGAA-AA
** * * * *
239531 GGTGTTAATGTGCTGATTCAAGGCCAGCAACAGTGGACTTAAAGATGATAAA
1 GGTGCCAATGTGCTTATTCAAGGCCAGCGATATTGGACTTAAAGATGA-AAA
* * *
239583 AGTGCCAATATGCTTATTCAAGGCCAGCGATGTTGGACTTGTGAAAGA--AAAA
1 GGTGCCAATGTGCTTATTCAAGGCCAGCGATATTGGAC-T-T-AAAGATGAAAA
* * * * *
239635 GGTGCCAATGTGCTAATTCAAGGCCATCAACATTAGACTTAAAGATGATAAA
1 GGTGCCAATGTGCTTATTCAAGGCCAGCGATATTGGACTTAAAGATGA-AAA
** * *
239687 GGTGCCAATAAG-TTGATTCAAGGTCAGTGATATTGG
1 GGTGCCAATGTGCTT-ATTCAAGGCCAGCGATATTGG
239723 GCTTGTGCTA
Statistics
Matches: 230, Mismatches: 50, Indels: 32
0.74 0.16 0.10
Matches are distributed among these distances:
49 5 0.02
50 3 0.01
51 9 0.04
52 197 0.86
53 8 0.03
54 3 0.01
55 5 0.02
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (51 bp):
GGTGCCAATGTGCTTATTCAAGGCCAGCGATATTGGACTTAAAGATGAAAA
Found at i:239555 original size:104 final size:103
Alignment explanation
Indices: 239375--239727 Score: 374
Period size: 104 Copynumber: 3.4 Consensus size: 103
239365 GAATGATTAG
* * *
239375 GGTGCTAATATGCTGATTCAAGGCCAACGATATTGGGCTT-A-AAGATGACAAAGGT-TCCAATG
1 GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAGAA-A-GA-AAAGGTGT-CAATG
* * * *
239437 TGTTG-TCTCAAGGCCAGCGATATTAGACTTAAAGATCG-CAAA
62 TGCTGAT-TCAAGGCCAGCAACATTAGACTTAAAGAT-GATAAA
* * * *
239479 GGTGCTAATATGCTAATTCAAGGCCAGTGATATTGGACTTGAGAAAGAAGAAGGTGTTAATGTGC
1 GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAGAAAGAA-AAGGTGTCAATGTGC
* *
239544 TGATTCAAGGCCAGCAACAGTGGACTTAAAGATGATAAA
65 TGATTCAAGGCCAGCAACATTAGACTTAAAGATGATAAA
* * * * *
239583 AGTGCCAATATGCTTATTCAAGGCCAGCGATGTTGGACTTGTGAAAGAAAAAGGTGCCAATGTGC
1 GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAGAAAG-AAAAGGTGTCAATGTGC
* *
239648 TAATTCAAGGCCATCAACATTAGACTTAAAGATGATAAA
65 TGATTCAAGGCCAGCAACATTAGACTTAAAGATGATAAA
* * * * *
239687 GGTGCCAATAAGTTGATTCAAGGTCAGTGATATTGGGCTTG
1 GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTG
239728 TGCTAATGTG
Statistics
Matches: 211, Mismatches: 31, Indels: 14
0.82 0.12 0.05
Matches are distributed among these distances:
103 2 0.01
104 201 0.95
105 6 0.03
106 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (103 bp):
GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAGAAAGAAAAGGTGTCAATGTGCT
GATTCAAGGCCAGCAACATTAGACTTAAAGATGATAAA
Found at i:239608 original size:156 final size:156
Alignment explanation
Indices: 239375--239660 Score: 355
Period size: 156 Copynumber: 1.8 Consensus size: 156
239365 GAATGATTAG
* * * * * * *
239375 GGTGCTAATATGCTGATTCAAGGCCAACGATATTGGGCTTAAAGATGACAAAGGTTCCAATGTGT
1 GGTGCTAATATGCTGATTCAAGGCCAACAACAGTGGACTTAAAGATGACAAAAGTGCCAATATGT
* * *
239440 TGTCTCAAGGCCAGCGATATTAGAC-T-T-AAAGATCGCAAAGGTGCTAATATGCTAATTCAAGG
66 TATCTCAAGGCCAGCGATATTAGACTTGTGAAAGA---AAAAGGTGCCAATATGCTAATTCAAGG
239502 CCAGTGATATTGGACTTGAGAAAGAAGAA
128 CCAGTGATATTGGACTTGAGAAAGAAGAA
* * * *
239531 GGTGTTAATGTGCTGATTCAAGGCCAGCAACAGTGGACTTAAAGATGATAAAAGTGCCAATATGC
1 GGTGCTAATATGCTGATTCAAGGCCAACAACAGTGGACTTAAAGATGACAAAAGTGCCAATATG-
* * *
239596 TTAT-TCAAGGCCAGCGATGTTGGACTTGTGAAAGAAAAAGGTGCCAATGTGCTAATTCAAGGCC
65 TTATCTCAAGGCCAGCGATATTAGACTTGTGAAAGAAAAAGGTGCCAATATGCTAATTCAAGGCC
239660 A
130 A
239661 TCAACATTAG
Statistics
Matches: 109, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
156 99 0.91
157 4 0.04
158 1 0.01
159 5 0.05
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.25
Consensus pattern (156 bp):
GGTGCTAATATGCTGATTCAAGGCCAACAACAGTGGACTTAAAGATGACAAAAGTGCCAATATGT
TATCTCAAGGCCAGCGATATTAGACTTGTGAAAGAAAAAGGTGCCAATATGCTAATTCAAGGCCA
GTGATATTGGACTTGAGAAAGAAGAA
Found at i:239852 original size:32 final size:31
Alignment explanation
Indices: 239824--239949 Score: 157
Period size: 32 Copynumber: 4.0 Consensus size: 31
239814 TAGAAAGAGA
*
239824 TGCCACCAGCTTGTGTAGGCTTTTGAAAGGGT
1 TGCCACCAGCTTGTGTGGGC-TTTGAAAGGGT
* *
239856 TGCTACC-GACTTGTGTGGGCTTTAAGAAGGGT
1 TGCCACCAG-CTTGTGTGGGCTTTGA-AAGGGT
*
239888 TGCCACCAGCTTGTGTGGGCTTTGAAGGGGT
1 TGCCACCAGCTTGTGTGGGCTTTGAAAGGGT
* *
239919 TGCCACTAACTTGTGTGGGCTTTG-AAGGGT
1 TGCCACCAGCTTGTGTGGGCTTTGAAAGGGT
239949 T
1 T
239950 TTTCTGTCGA
Statistics
Matches: 82, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
30 6 0.07
31 32 0.39
32 43 0.52
33 1 0.01
ACGTcount: A:0.17, C:0.17, G:0.34, T:0.32
Consensus pattern (31 bp):
TGCCACCAGCTTGTGTGGGCTTTGAAAGGGT
Found at i:239935 original size:63 final size:62
Alignment explanation
Indices: 239824--239949 Score: 182
Period size: 63 Copynumber: 2.0 Consensus size: 62
239814 TAGAAAGAGA
* *
239824 TGCCACCAGCTTGTGTAGGCTTTTGAAAGGGTTGCTACCGACTTGTGTGGGCTTTAAGAAGGGT
1 TGCCACCAGCTTGTGTAGGCTTTTGAAAGGGTTGCCACCAACTTGTGTGGGCTTT--GAAGGGT
* * *
239888 TGCCACCAGCTTGTGTGGGC-TTTGAAGGGGTTGCCACTAACTTGTGTGGGCTTTGAAGGGT
1 TGCCACCAGCTTGTGTAGGCTTTTGAAAGGGTTGCCACCAACTTGTGTGGGCTTTGAAGGGT
239949 T
1 T
239950 TTTCTGTCGA
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
61 8 0.14
63 30 0.53
64 19 0.33
ACGTcount: A:0.17, C:0.17, G:0.34, T:0.32
Consensus pattern (62 bp):
TGCCACCAGCTTGTGTAGGCTTTTGAAAGGGTTGCCACCAACTTGTGTGGGCTTTGAAGGGT
Found at i:240179 original size:28 final size:27
Alignment explanation
Indices: 240120--240179 Score: 84
Period size: 28 Copynumber: 2.2 Consensus size: 27
240110 TATATAGCAA
*
240120 GTGCCACTGATTGTGGACTTCGAAAAG
1 GTGCCACTAATTGTGGACTTCGAAAAG
* *
240147 ATGCCACTAAGTTGTGGACTTCGAAGAG
1 GTGCCACTAA-TTGTGGACTTCGAAAAG
240175 GTGCC
1 GTGCC
240180 TCTGGCTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 8 0.29
28 20 0.71
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (27 bp):
GTGCCACTAATTGTGGACTTCGAAAAG
Found at i:241232 original size:20 final size:20
Alignment explanation
Indices: 241207--241280 Score: 105
Period size: 20 Copynumber: 3.8 Consensus size: 20
241197 TTTTTACCCA
*
241207 AATGTATTGATACATTTTTC
1 AATGTATCGATACATTTTTC
* * *
241227 AATGTATCGATACATGTATG
1 AATGTATCGATACATTTTTC
241247 AATGTATCGATACA-TTTTC
1 AATGTATCGATACATTTTTC
241266 AATGTATCGATACAT
1 AATGTATCGATACAT
241281 CTAGTTAAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
19 16 0.35
20 30 0.65
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.41
Consensus pattern (20 bp):
AATGTATCGATACATTTTTC
Found at i:244659 original size:19 final size:19
Alignment explanation
Indices: 244635--244702 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
244625 ATTCAACTGA
244635 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
244654 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
244669 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
244686 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
244703 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:244673 original size:32 final size:32
Alignment explanation
Indices: 244637--244699 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
244627 TCAACTGATT
*
244637 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
244669 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
244700 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:244674 original size:13 final size:13
Alignment explanation
Indices: 244656--244680 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
244646 ACATAAGTTT
244656 TGTATCGATACAA
1 TGTATCGATACAA
244669 TGTATCGATACA
1 TGTATCGATACA
244681 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:244760 original size:13 final size:13
Alignment explanation
Indices: 244742--244767 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
244732 CATTTTTCTG
244742 TGTATCGATACAT
1 TGTATCGATACAT
244755 TGTATCGATACAT
1 TGTATCGATACAT
244768 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:244764 original size:33 final size:33
Alignment explanation
Indices: 244722--244788 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
244712 GCCAAAGAAA
***
244722 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
244755 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
244788 T
1 T
244789 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:247353 original size:107 final size:106
Alignment explanation
Indices: 247189--247581 Score: 334
Period size: 107 Copynumber: 3.7 Consensus size: 106
247179 TTCTATAATC
*
247189 GGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCC
1 GGGGATACTCCAACTCCGATTTTA-TTCC-AAAAACACCAATTT-TTCACAATCGGGGATACTCC
247254 AACCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTTCGA
63 AACCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTTCGA
* * *
247298 GGGGATACTCCAACTCCGGTTTTA-TCGCTAAAACACTAATTTTTCCACAATCGGGGATACTCCA
1 GGGGATACTCCAACTCCGATTTTATTC-CAAAAACACCAATTTTT-CACAATCGGGGATACTCCA
** * ** * * * ** **
247362 ATCCTGGTTTTATTTTC---AAAACGCCAATTTTCC-TT-TAATC--
64 A-CCCCG-TTAATCATCGGGGATACTCCAA--CCCCGTTATTTTCGA
* *
247402 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCCAA
1 GGGGATACTCCAACTCCGATTTTA-TTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAA
* * * *
247467 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGA
65 CCCCGTTA-ATCATCGGGGATACTCCAACCCCGTTATTTTCGA
* ** * * *** * * *
247510 GGGGATACTCCAACCCCGGCTTTATTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAAC
1 GGGGATACTCCAACTCCGATTTTATTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
247575 CCCGTTA
66 CCCGTTA
247582 TTTTCGAGGG
Statistics
Matches: 221, Mismatches: 47, Indels: 34
0.73 0.16 0.11
Matches are distributed among these distances:
102 2 0.01
103 7 0.03
104 44 0.20
105 16 0.07
106 22 0.10
107 75 0.34
108 27 0.12
109 28 0.13
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (106 bp):
GGGGATACTCCAACTCCGATTTTATTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
CCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTTCGA
Found at i:247371 original size:52 final size:51
Alignment explanation
Indices: 247298--247467 Score: 175
Period size: 52 Copynumber: 3.3 Consensus size: 51
247288 TTATTTTCGA
*
247298 GGGGATACTCCAACTCCGGTTTTATCGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACTCCGGTTTTATC-CTAAAACACCAATTTTTCCACAATC
** * **
247350 GGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAA-TTTTCCTTTAATC
1 GGGGATACTCCAACTCC-GGTTTTATCCT-AAAACACCAATTTTTCC-ACAATC
* * *
247402 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAACTCCGGTTTTA--TCCTAAAACACCAATTTTTCCACAATC
*
247454 GAGGATACTCCAAC
1 GGGGATACTCCAAC
247468 CTCGTTATTT
Statistics
Matches: 96, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
51 10 0.10
52 69 0.72
53 12 0.12
54 5 0.05
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACTCCGGTTTTATCCTAAAACACCAATTTTTCCACAATC
Found at i:247451 original size:104 final size:103
Alignment explanation
Indices: 247131--247466 Score: 288
Period size: 104 Copynumber: 3.2 Consensus size: 103
247121 ATCAATTCTC
* * * * *
247131 CACAATCGAGGATATTCCAACTCCGATTTTATTTTTAAAACACTAATTTT-CTATAATCGGGGAT
1 CACAATCGAGGATACTCCAA-TCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGAT
*
247195 ACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTT
65 ACTCCAACTCCGATTTTATTTCC-AAAAACACCAATTT-TT
* * * * ** * * * ** **
247236 CACAATCGGGGATACTCCAACCCCG-TTAATCATCGGGGATACTCCAA--CCCCGTTATTTTCGA
1 CACAATCGAGGATACTCCAATCCGGTTTTATTTTC---AAAACACCAATTTTCC-TT-TAATC--
* * *
247298 GGGGATACTCCAACTCCGGTTTTA--TCGCTAAAACACTAATTTTT
59 GGGGATACTCCAACTCCGATTTTATTTC-CAAAAACACCAATTTTT
* *
247342 CCACAATCGGGGATACTCCAATCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGGGA
1 -CACAATCGAGGATACTCCAATCC-GGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGA
*
247407 TACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT
64 TACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
247447 CACAATCGAGGATACTCCAA
1 CACAATCGAGGATACTCCAA
247467 CCTCGTTATT
Statistics
Matches: 176, Mismatches: 39, Indels: 33
0.71 0.16 0.13
Matches are distributed among these distances:
103 5 0.03
104 44 0.25
105 33 0.19
106 21 0.12
107 41 0.23
108 4 0.02
109 28 0.16
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.32
Consensus pattern (103 bp):
CACAATCGAGGATACTCCAATCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATA
CTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
Found at i:247487 original size:28 final size:28
Alignment explanation
Indices: 247451--247527 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
247441 ATTTTTCACA
* * *
247451 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
247479 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
247507 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
247528 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:247496 original size:212 final size:212
Alignment explanation
Indices: 247129--247534 Score: 620
Period size: 212 Copynumber: 1.9 Consensus size: 212
247119 TTATCAATTC
* * *
247129 TCCACAATCGAGGATATTCCAACTCCGATTTTATTTTTAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGAGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
* *
247194 TACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
* * * *
247259 CGTTAATCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACTCCGGTTTTATC
131 CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATC
247324 GCTAAAACACTAATTTT
196 GCTAAAACACTAATTTT
* * * *
247341 TCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGG
1 TCCACAATCGAGGATACTCCAACTCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATCGGG
*
247405 GATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCCAAC
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAAC
* *
247468 CTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTT
129 CCCGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTT
247533 AT
193 AT
247535 TCCCAAAATA
Statistics
Matches: 175, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
211 31 0.18
212 109 0.62
213 35 0.20
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (212 bp):
TCCACAATCGAGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATC
GCTAAAACACTAATTTT
Found at i:247630 original size:79 final size:79
Alignment explanation
Indices: 247481--247685 Score: 223
Period size: 79 Copynumber: 2.6 Consensus size: 79
247471 GTTATTTCAT
* * *
247481 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
* * *
247546 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * * * ** *
247560 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAAT-A
247624 TCGATTTCTCACAAC
65 TCGATTTCTCACAAC
* * * * * *
247639 CGGGGATACTCTAGCCCCGTTATTTTCAAGGGAACACTCCCACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
247686 TTATTATCTC
Statistics
Matches: 104, Mismatches: 21, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
78 3 0.03
79 101 0.97
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.29
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:251559 original size:20 final size:20
Alignment explanation
Indices: 251533--251587 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
251523 GTTTACCCAG
*
251533 ATGTATCGATACATTTTGCA
1 ATGTATCGATACATTTTACA
*
251553 TTGTATCGATACATTTTACA
1 ATGTATCGATACATTTTACA
251573 ATGTATCGATACATT
1 ATGTATCGATACATT
251588 CAAGCATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTACA
Found at i:254011 original size:51 final size:51
Alignment explanation
Indices: 253936--254055 Score: 150
Period size: 51 Copynumber: 2.4 Consensus size: 51
253926 TATTTTTCTT
* * * * *
253936 AATCGGGGATACTCTAACTCCGATTTTATTTCTAAAGCATCAATTTACCCC
1 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTACCAC
* * **
253987 AATCAGGGATACTCCAACTTCGATTTTATTTCCAAAACACCAATTTTTCAC
1 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTACCAC
*
254038 AATTGGGGATACTCCAAC
1 AATCGGGGATACTCCAAC
254056 CTTGTTATTT
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.32
Consensus pattern (51 bp):
AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTACCAC
Found at i:254075 original size:28 final size:28
Alignment explanation
Indices: 254042--254115 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 28
254032 TTTCACAATT
**
254042 GGGGATACTCCAACCTTGTTATTTCATCA
1 GGGGATACTCCAACCCCGTTATTTC-TCA
*
254071 -GGGATACTCCAACCCCGTTATTTCTGA
1 GGGGATACTCCAACCCCGTTATTTCTCA
*
254098 GGGGATACTCTAACCCCG
1 GGGGATACTCCAACCCCG
254116 GCTTTATTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
27 2 0.05
28 38 0.95
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTCTCA
Found at i:254164 original size:51 final size:51
Alignment explanation
Indices: 254098--254217 Score: 138
Period size: 51 Copynumber: 2.4 Consensus size: 51
254088 TTATTTCTGA
**
254098 GGGGATAC-TCTAACCCCGGCTTTATTTCCAAAAT-A-CTGATTTCTCACAATC
1 GGGGATACTTC-AACCCCGGCCATATTT-CAAAATCATC-GATTTCTCACAATC
* * *
254149 GGGGATACTTCAACCCCAGCCATATTTCTAAATCATCGATTTTTCACAATC
1 GGGGATACTTCAACCCCGGCCATATTTCAAAATCATCGATTTCTCACAATC
*
254200 GGGGATACTCCAACCCCG
1 GGGGATACTTCAACCCCG
254218 TTATTTTCGA
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
50 5 0.08
51 51 0.86
52 3 0.05
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (51 bp):
GGGGATACTTCAACCCCGGCCATATTTCAAAATCATCGATTTCTCACAATC
Found at i:254254 original size:79 final size:77
Alignment explanation
Indices: 254171--254375 Score: 227
Period size: 77 Copynumber: 2.6 Consensus size: 77
254161 ACCCCAGCCA
* * * *
254171 TATTTCTAAATCA-TCGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGAATA
1 TATTTCAAAATCACT-GATTTTTCATAATCAGGGATACTCCAACCCCGTTATTTCCG-GGG-ATA
254235 CTCCAACCCCGATTT
63 CTCCAACCCCGATTT
* * **
254250 TATTTTCAAAAT-ACTGATTTTTTATAATTAGGGATACTCCAACCCTATTATTTCCGGGGATACT
1 TA-TTTCAAAATCACTGATTTTTCATAATCAGGGATACTCCAACCCCGTTATTTCCGGGGATACT
**
254314 CCAACTTCGATTT
65 CCAACCCCGATTT
* * *
254327 TATTTCCAGAA-CACTGATTTTCCATAATCAGGGATACTCCAGCCCCGTT
1 TATTT-CAAAATCACTGATTTTTCATAATCAGGGATACTCCAACCCCGTT
254376 GTTATCTCCA
Statistics
Matches: 105, Mismatches: 17, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
76 3 0.03
77 53 0.50
78 3 0.03
79 37 0.35
80 9 0.09
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.35
Consensus pattern (77 bp):
TATTTCAAAATCACTGATTTTTCATAATCAGGGATACTCCAACCCCGTTATTTCCGGGGATACTC
CAACCCCGATTT
Found at i:260970 original size:52 final size:52
Alignment explanation
Indices: 260892--261020 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
260882 CGAAATATGA
*
260892 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
*
260944 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
260996 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
261021 AAGATCAGTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
Found at i:261033 original size:52 final size:51
Alignment explanation
Indices: 260892--261040 Score: 228
Period size: 52 Copynumber: 2.9 Consensus size: 51
260882 CGAAATATGA
260892 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* *
260944 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
260996 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
261041 ATGTATCGAT
Statistics
Matches: 90, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 88 0.98
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:261047 original size:13 final size:13
Alignment explanation
Indices: 261029--261053 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
261019 CAAAGATCAG
261029 TGTATCGATACAA
1 TGTATCGATACAA
261042 TGTATCGATACA
1 TGTATCGATACA
261054 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:261066 original size:21 final size:21
Alignment explanation
Indices: 261040--261098 Score: 118
Period size: 21 Copynumber: 2.8 Consensus size: 21
261030 GTATCGATAC
261040 AATGTATCGATACATTTGAGT
1 AATGTATCGATACATTTGAGT
261061 AATGTATCGATACATTTGAGT
1 AATGTATCGATACATTTGAGT
261082 AATGTATCGATACATTT
1 AATGTATCGATACATTT
261099 TTTGGCAGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (21 bp):
AATGTATCGATACATTTGAGT
Found at i:261141 original size:19 final size:18
Alignment explanation
Indices: 261117--261214 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
261107 TAGCTTAAAT
261117 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
261136 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
261149 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
261168 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
261181 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
261201 TGTATCGATACAAA
1 TGTATCGATACAAA
261215 TCGTTGAATT
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
14 2 0.03
16 4 0.06
18 1 0.02
19 24 0.36
20 13 0.20
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:261154 original size:13 final size:13
Alignment explanation
Indices: 261136--261192 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
261126 ACAAAACTTA
261136 TGTATCGATACAT
1 TGTATCGATACAT
261149 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
261167 ATGTATCGATACAT
1 -TGTATCGATACAT
261181 TGTATCGATACA
1 TGTATCGATACA
261193 ACACTTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:261156 original size:32 final size:32
Alignment explanation
Indices: 261115--261212 Score: 178
Period size: 32 Copynumber: 3.0 Consensus size: 32
261105 AGTAGCTTAA
*
261115 ATTGTATCGATACAAAACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
261147 ATTGTATCGATACAACACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
261179 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAACAC-TTATGTATCGATAC
261212 A
1 A
261213 AATCGTTGAA
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 49 0.77
33 15 0.23
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (32 bp):
ATTGTATCGATACAACACTTATGTATCGATAC
Found at i:261884 original size:55 final size:55
Alignment explanation
Indices: 261800--262164 Score: 232
Period size: 52 Copynumber: 6.6 Consensus size: 55
261790 ACCAATACGT
* * * **
261800 TGATTCACGGCCAACGATATTGGGTTTAAAGATGAGAAAAAGGATGTCAATGTGC
1 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAAAAGGATGTCAATGTGC
* * * *
261855 TGATTCACGGTCAGCGACATTAGACTTAAAGATGAG-AAAA--ATGCCAATGTGC
1 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAAAAGGATGTCAATGTGC
* * * ** * *
261907 TGATTCAAGGTCAACAACATTGGGTTTTAAAGATGATG---AAGG-TGCCAATATGC
1 TGATTCAAGGCCAGCGACATT-GGACTTAAAGATGA-GAAAAAGGATGTCAATGTGC
* *
261960 TGATTCAAGGCCAGC-AGTATTGGACTTAAAGATGAAGATGAGAAAAGTGATAAAGATACCAATA
1 TGATTCAAGGCCAGCGA-CATTGGACTTAAAGAT---GA-GA-AAAAG-GAT---G-T--CAATG
*
262024 TGT
53 TGC
* * *
262027 TGATTCACA-GCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAATGTGC
1 TGATTCA-AGGCCAGCGACATTGGACTTAAAGATGAGAAAAAGGATGTCAATGTGC
* * * * *
262082 TGATTCAAGGCCAGCTACATTGAACTTAAAGATG-G-AAAATG-TGCCAATATGC
1 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAAAAGGATGTCAATGTGC
** *
262134 TGATTCAAGGCCAGTTATATTGGACTTAAAG
1 TGATTCAAGGCCAGCGACATTGGACTTAAAG
262165 GTGCCAATGT
Statistics
Matches: 251, Mismatches: 36, Indels: 49
0.75 0.11 0.15
Matches are distributed among these distances:
52 79 0.31
53 42 0.17
54 7 0.03
55 67 0.27
57 1 0.00
58 1 0.00
59 3 0.01
60 1 0.00
61 4 0.02
62 5 0.02
63 2 0.01
64 3 0.01
67 34 0.14
68 2 0.01
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.25
Consensus pattern (55 bp):
TGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAAAAGGATGTCAATGTGC
Found at i:262129 original size:227 final size:228
Alignment explanation
Indices: 261733--262143 Score: 618
Period size: 227 Copynumber: 1.8 Consensus size: 228
261723 CTACTGTGCA
* * *
261733 GATTCAAGGCCTGCCATACTGGACTTAAAGATGATGAGAATGAAGAGTGATAAAAGGACCAATAC
1 GATTCAAGGCCAGCCATACTGGACTTAAAGATGAAGAGAATGAAAAGTGATAAAAGGACCAATAC
* * *
261798 GTTGATTCACGGCCAACGATATTGGGTTTAAAGATGAGAAAAAGGATGTCAATGTGCTGATTCAC
66 GTTGATTCACAGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAATGTGCTGATTCAA
* *
261863 GGTCAGCGACATTAGACTTAAAGATGAGAAAAATGCCAATGTGCTGATTCAAGGTCAACAACATT
131 GGCCAGCGACATTAGACTTAAAGATGAGAAAAATGCCAATATGCTGATTCAAGGTCAACAACATT
261928 GGGTTTTAAAGATGATGAAGGTGCCAATATGCT
196 GGGTTTTAAAGATGATGAAGGTGCCAATATGCT
* *
261961 GATTCAAGGCCAG-CAGTATTGGACTTAAAGATGAAGATG-A-GAAAAGTGAT-AAAGATACCAA
1 GATTCAAGGCCAGCCA-TACTGGACTTAAAGATGAAGA-GAATGAAAAGTGATAAAAG-GACCAA
*
262022 TATGTTGATTCACAGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAATGTGCTGATT
63 TACGTTGATTCACAGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAATGTGCTGATT
* *
262087 CAAGGCCAGCTACATT-GAACTTAAAGATG-GAAAATGTGCCAATATGCTGATTCAAGG
128 CAAGGCCAGCGACATTAG-ACTTAAAGATGAGAAAA-ATGCCAATATGCTGATTCAAGG
262144 CCAGTTATAT
Statistics
Matches: 165, Mismatches: 13, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
226 10 0.06
227 122 0.74
228 32 0.19
229 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (228 bp):
GATTCAAGGCCAGCCATACTGGACTTAAAGATGAAGAGAATGAAAAGTGATAAAAGGACCAATAC
GTTGATTCACAGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAATGTGCTGATTCAA
GGCCAGCGACATTAGACTTAAAGATGAGAAAAATGCCAATATGCTGATTCAAGGTCAACAACATT
GGGTTTTAAAGATGATGAAGGTGCCAATATGCT
Found at i:262217 original size:49 final size:48
Alignment explanation
Indices: 262064--262798 Score: 882
Period size: 49 Copynumber: 15.7 Consensus size: 48
262054 AAAGATGAGA
* * *
262064 AAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGG
1 AAAAGG-TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT-AA-A--G
* * *
262117 AAAATGTGCCAATATGCTGATTCAAGGCCAGTTATATTGGACTT----
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
*
262161 -AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
*
262208 AAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T----
1 AA-AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
*
262252 AAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
262300 AAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
1 -AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
* * *
262349 AAGAAGGTGCCAATATGCGGATTCAAGGCCAGCTATATTGGATTTAAAG
1 AA-AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
* *
262398 AAGAAGGTGCCAATATGCTAATTCAAGGCCAGCTATATTGGACTT----
1 AA-AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
*
262443 -AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
* *
262490 AAGAAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----
1 AA-AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
*
262535 -AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
*
262582 AAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----
1 AA-AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
* * *
262627 -AAAGGTGCCAATGTGCTGATTCAAGGCCAACAACATTGGACTTAAAG
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
* * * *
262674 ATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----
1 A-AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
*
262719 -AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
* *
262766 ATAAAGGTGCCAATATGTTTATTCAAGGCCAGC
1 A-AAAGGTGCCAATATGCTGATTCAAGGCCAGC
262799 GATATTTGGC
Statistics
Matches: 595, Mismatches: 50, Indels: 78
0.82 0.07 0.11
Matches are distributed among these distances:
43 231 0.39
44 6 0.01
48 6 0.01
49 314 0.53
52 33 0.06
53 5 0.01
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (48 bp):
AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
Found at i:262257 original size:92 final size:92
Alignment explanation
Indices: 262065--262804 Score: 1176
Period size: 92 Copynumber: 7.9 Consensus size: 92
262055 AAGATGAGAA
* * * *
262065 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---AGAAGGTGCCAAT
*
262130 ATGCTGATTCAAGGCCAGTTATATTGGACTT
62 ATGCTGATTCAAGGCCAGCTATATTGGACTT
262161 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
*
262226 TGATTCAAGGCCAGCTATATTGGACTA
66 TGATTCAAGGCCAGCTATATTGGACTT
*
262253 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAAAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
*
262318 TGATTCAAGGCCAGCTACATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
* * * *
262345 AAAGAAGAAGGTGCCAATATGCGGATTCAAGGCCAGCTATATTGGATTTAAAGAAGAAGGTGCCA
1 -----A-AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCA
*
262410 ATATGCTAATTCAAGGCCAGCTATATTGGACTT
60 ATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
262443 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAAGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
262508 TGATTCAAGGCCAGCTATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
262535 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
262600 TGATTCAAGGCCAGCTATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
* * * *
262627 AAAGGTGCCAATGTGCTGATTCAAGGCCAACAACATTGGACTTAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
*
262692 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
262719 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA-AAGGTGCCAATATG
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-AGAAGGTGCCAATATG
* * *
262783 TTTATTCAAGGCCAGCGATATT
65 CTGATTCAAGGCCAGCTATATT
262805 TGGCTTAGAA
Statistics
Matches: 603, Mismatches: 34, Indels: 18
0.92 0.05 0.03
Matches are distributed among these distances:
92 471 0.78
93 1 0.00
95 41 0.07
96 5 0.01
97 1 0.00
98 84 0.14
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
TGATTCAAGGCCAGCTATATTGGACTT
Found at i:262340 original size:141 final size:135
Alignment explanation
Indices: 262117--262804 Score: 904
Period size: 141 Copynumber: 5.0 Consensus size: 135
262107 TTAAAGATGG
* *
262117 AAAATGTGCCAATATGCTGATTCAAGGCCAGTTATATTGGACTTAAAGGTGCCAATGTGCTGATT
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATT
262182 CAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATT
66 CAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATT
262247 GGACT
131 GGACT
* * *
262252 AAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAAAAGGTGCCAATATG
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT------AAAGGTGCCAATGTG
*
262317 CTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCGGATTCAAGGCCAGC
60 CTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGC
*
262382 TATATTGGATTT
125 TATATTGGA-CT
*
262394 AAAGAAGAAGGTGCCAATATGCTAATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGC
1 ----AA-AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGC
*
262459 TGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAAGTGCCAATATGCTGATTCAAGGCCAGCT
61 TGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCT
262524 ATATTGGACT
126 ATATTGGACT
* * * *
262534 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATG
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-----A-AAGGTGCCAATGTG
* * *
262599 CTGATTCAAGGCCAGCTATATTGGACTT-----A-AAGGTGCCAATGTGCTGATTCAAGGCCAAC
60 CTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGC
* *
262658 AACATTGGACTT
125 TATATTGGAC-T
*
262670 AAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGC
1 AAA-A-G--G-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGC
* *
262735 TGATTCAAGGCCAGCTACATTGGACTTAAAGATA-AAGGTGCCAATATGTTTATTCAAGGCCAGC
61 TGATTCAAGGCCAGCTACATTGGACTTAAAGA-AGAAGGTGCCAATATGCTGATTCAAGGCCAGC
*
262799 GATATT
125 TATATT
262805 TGGCTTAGAA
Statistics
Matches: 486, Mismatches: 37, Indels: 54
0.84 0.06 0.09
Matches are distributed among these distances:
135 154 0.32
136 6 0.01
137 1 0.00
138 1 0.00
140 3 0.01
141 279 0.57
142 1 0.00
146 2 0.00
147 39 0.08
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (135 bp):
AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATT
CAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATT
GGACT
Found at i:262890 original size:32 final size:32
Alignment explanation
Indices: 262809--263076 Score: 416
Period size: 32 Copynumber: 8.3 Consensus size: 32
262799 GATATTTGGC
262809 TTAGA-AGGGTTGCCACCGACTTGTGTGGGCT
1 TTAGAGAGGGTTGCCACCGACTTGTGTGGGCT
*
262840 TTAGAAGAAGGTTGCCACCGACTTGTGTGGGCT
1 TTAG-AGAGGGTTGCCACCGACTTGTGTGGGCT
* *
262873 TTAGAGGGGGTTGCCACCAACTTGTGTGGGCT
1 TTAGAGAGGGTTGCCACCGACTTGTGTGGGCT
* *
262905 TTAGAGAAGGTTTGCCACCGACTTATGTGGGCT
1 TTAGAG-AGGGTTGCCACCGACTTGTGTGGGCT
262938 TTAGAGAGGGTTGCCACCGACTTGTGTGGGCT
1 TTAGAGAGGGTTGCCACCGACTTGTGTGGGCT
*
262970 TT-GAGAAGGGTTGCCACTGACTTGTGTGGGCT
1 TTAGAG-AGGGTTGCCACCGACTTGTGTGGGCT
263002 TTAGAGAGGGTTGCCACCGACTTGTGTGGGCT
1 TTAGAGAGGGTTGCCACCGACTTGTGTGGGCT
263034 TT-GAGAAGGGTTGCCACCGACTTGTGTGGGCT
1 TTAGAG-AGGGTTGCCACCGACTTGTGTGGGCT
*
263066 TTAGAAAGGGT
1 TTAGAGAGGGT
263077 GAAAGATGCC
Statistics
Matches: 217, Mismatches: 13, Indels: 13
0.89 0.05 0.05
Matches are distributed among these distances:
31 10 0.05
32 145 0.67
33 62 0.29
ACGTcount: A:0.18, C:0.18, G:0.36, T:0.29
Consensus pattern (32 bp):
TTAGAGAGGGTTGCCACCGACTTGTGTGGGCT
Found at i:263141 original size:34 final size:34
Alignment explanation
Indices: 263078--263530 Score: 426
Period size: 31 Copynumber: 13.6 Consensus size: 34
263068 AGAAAGGGTG
* * *
263078 AAAGATGCCACGAAGTTGTGGACTT-AAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTGAAAAGGAA
*
263111 CAAGGTGCCACGGAGTTGTGGGCTTGAAAAGGGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTGAAAA-GGAA
263146 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA-G--
1 AAAG-GTGCCACGGAGTTGTGGGC-TTGAAAAGGAA
* ** * *
263179 -AAGGTGCCACGGAGTCGCAGACTTTAAAA-G--
1 AAAGGTGCCACGGAGTTGTGGGCTTGAAAAGGAA
* *
263209 AAAGGTGCCACGGAGTCGTGGACTT--AAAGGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTGAAAAGGAA
*
263241 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGGAA
1 AAAG-GTGCCACGGAGTTGTGGGCTTGAAAAGGAA
* * *
263276 AAAGAGTGCCACGGAGTTGTGGACTTAAAAAAGAA
1 AAAG-GTGCCACGGAGTTGTGGGCTTGAAAAGGAA
263311 AAAGGTGCCACGGAGTTGTGGGCTTTG-AAAGG--
1 AAAGGTGCCACGGAGTTGTGGGC-TTGAAAAGGAA
* * *
263343 -AAGGTGCCACGAAGTCGTGGACTT--AAAGGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTGAAAAGGAA
*
263374 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGGGAA
1 AAAG-GTGCCACGGAGTTGTGGGCTTGAAAA-GGAA
* * * *
263410 AAAGAGTGCCACGAAGTTGTGGACTTAAAAAAGAA
1 AAAG-GTGCCACGGAGTTGTGGGCTTGAAAAGGAA
263445 AAAGGTGCCACGGAGTTGTGGGCTTTG-AAAGG--
1 AAAGGTGCCACGGAGTTGTGGGC-TTGAAAAGGAA
* * *
263477 -AAGGTGCCATGGGGTTGTGGGCTTTAAAAAGG-A
1 AAAGGTGCCACGGAGTTGTGGGC-TTGAAAAGGAA
263510 AAAGGTGCCACGGAGTTGTGG
1 AAAGGTGCCACGGAGTTGTGG
263531 CTTTGAAGAA
Statistics
Matches: 358, Mismatches: 39, Indels: 45
0.81 0.09 0.10
Matches are distributed among these distances:
29 8 0.02
30 10 0.03
31 79 0.22
32 15 0.04
33 58 0.16
34 65 0.18
35 65 0.18
36 51 0.14
37 7 0.02
ACGTcount: A:0.33, C:0.13, G:0.35, T:0.19
Consensus pattern (34 bp):
AAAGGTGCCACGGAGTTGTGGGCTTGAAAAGGAA
Found at i:263474 original size:134 final size:134
Alignment explanation
Indices: 263083--263534 Score: 641
Period size: 134 Copynumber: 3.4 Consensus size: 134
263073 GGGTGAAAGA
* * *
263083 TGCCACGAAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGGCTTGAAAAGGGAAAA
1 TGCCACGAAGTCGTGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAA
* ** * ** * * *
263148 AGAGTGCCACGGAGTTGTGGGCTTTGAAAAG---AAGGTGCCACGGAGTCGCAGACTTTAAAAGA
66 AGAGTGCCACGGAGTTGTGGACTTAAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAGG
263210 AAGG
131 AAGG
*
263214 TGCCACGGAGTCGTGGACTT-AAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA-GGAAA
1 TGCCACGAAGTCGTGGACTTAAAAGGAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAGGGAAA
263277 AAGAGTGCCACGGAGTTGTGGACTTAAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAG
65 AAGAGTGCCACGGAGTTGTGGACTTAAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAG
263342 GAAGG
130 GAAGG
263347 TGCCACGAAGTCGTGGACTT-AAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAA
1 TGCCACGAAGTCGTGGACTTAAAAGGAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAGGGAAA
*
263411 AAGAGTGCCACGAAGTTGTGGACTTAAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAG
65 AAGAGTGCCACGGAGTTGTGGACTTAAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAG
263476 GAAGG
130 GAAGG
* ** * *
263481 TGCCATGGGGTTGTGGGCTTTAAAAAGG-AAAAGGTGCCACGGAGTTGT-GGCTTT
1 TGCCACGAAGTCGTGGAC-TT-AAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTT
263535 GAAGAAAAAA
Statistics
Matches: 293, Mismatches: 20, Indels: 13
0.90 0.06 0.04
Matches are distributed among these distances:
130 44 0.15
131 43 0.15
133 86 0.29
134 93 0.32
135 17 0.06
136 5 0.02
137 5 0.02
ACGTcount: A:0.33, C:0.13, G:0.35, T:0.20
Consensus pattern (134 bp):
TGCCACGAAGTCGTGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAA
AGAGTGCCACGGAGTTGTGGACTTAAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAGG
AAGG
Found at i:263616 original size:32 final size:30
Alignment explanation
Indices: 263515--263658 Score: 166
Period size: 31 Copynumber: 4.7 Consensus size: 30
263505 AAGGAAAAGG
* * *
263515 TGCCACGGAGTTGTGG-CTTTGAAGAAAAAA
1 TGCCACTGAGTCGTGGACTTTG-AGAAAGAA
* *
263545 TGCCACTGAGTCATGGTCTTTGAGACAA-AA
1 TGCCACTGAGTCGTGGACTTTGAGA-AAGAA
*
263575 TGCCACTGAGTCGTGGACTTTGTAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTG-AGAA-AGAA
*
263607 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAA-AGAA
263638 TGCCACTGAGTCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTT
263659 AAAAAGGTAT
Statistics
Matches: 103, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
30 39 0.38
31 41 0.40
32 23 0.22
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.27
Consensus pattern (30 bp):
TGCCACTGAGTCGTGGACTTTGAGAAAGAA
Found at i:263794 original size:16 final size:17
Alignment explanation
Indices: 263763--263800 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
263753 GATGCAAATA
* *
263763 ATGATGTTATTGATGTT
1 ATGATGTCATTGATGTC
263780 ATGATGTCA-TGATGTC
1 ATGATGTCATTGATGTC
263796 ATGAT
1 ATGAT
263801 TACAGCACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.26, C:0.05, G:0.24, T:0.45
Consensus pattern (17 bp):
ATGATGTCATTGATGTC
Found at i:264686 original size:22 final size:21
Alignment explanation
Indices: 264661--264701 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
264651 CTCACCGAGA
*
264661 TTTTCTATTTTGTTTTTTTTCC
1 TTTTCTATCTT-TTTTTTTTCC
*
264683 TTTTCTCTCTTTTTTTTTT
1 TTTTCTATCTTTTTTTTTT
264702 GTGTTTGGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.02, C:0.15, G:0.02, T:0.80
Consensus pattern (21 bp):
TTTTCTATCTTTTTTTTTTCC
Found at i:272147 original size:13 final size:13
Alignment explanation
Indices: 272129--272154 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
272119 TACAGCAAGT
272129 ATGTATCGATACA
1 ATGTATCGATACA
272142 ATGTATCGATACA
1 ATGTATCGATACA
272155 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:274411 original size:21 final size:21
Alignment explanation
Indices: 274373--274417 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
274363 TTGCAAGTTG
*
274373 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
274395 AAATAATGAA-TTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
274415 AAA
1 AAA
274418 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 7 0.33
22 9 0.43
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:276241 original size:15 final size:15
Alignment explanation
Indices: 276221--276251 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
276211 TAAAAATGTC
*
276221 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
276236 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
276251 C
1 C
276252 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:278334 original size:20 final size:20
Alignment explanation
Indices: 278255--278334 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
278245 AATGTCCAAA
*
278255 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
278275 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
278300 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
278320 TTGTATCGATACATT
1 ATGTATCGATACATT
278335 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:278338 original size:13 final size:13
Alignment explanation
Indices: 278320--278358 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
278310 ACATTTTTCT
278320 TTGTATCGATACA
1 TTGTATCGATACA
278333 TTGTATCGATACA
1 TTGTATCGATACA
*
278346 CTGTATCGATACA
1 TTGTATCGATACA
278359 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:278503 original size:21 final size:21
Alignment explanation
Indices: 278479--278525 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
278469 AAATCTTTTG
278479 CAAAAT-ACTT-GTTTTTCACTT
1 CAAAATAACTTCGTTTTTCA--T
278500 C-AAATAACTTCGTTTTTCAT
1 CAAAATAACTTCGTTTTTCAT
278520 CAAAAT
1 CAAAAT
278526 CAGCATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (21 bp):
CAAAATAACTTCGTTTTTCAT
Found at i:278522 original size:20 final size:19
Alignment explanation
Indices: 278481--278523 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
278471 ATCTTTTGCA
278481 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
278501 AAATAACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
278521 AAA
1 AAA
278524 ATCAGCATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Found at i:280895 original size:13 final size:13
Alignment explanation
Indices: 280877--280902 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
280867 TACAGCAAGT
280877 ATGTATCGATACA
1 ATGTATCGATACA
280890 ATGTATCGATACA
1 ATGTATCGATACA
280903 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:281807 original size:52 final size:52
Alignment explanation
Indices: 281729--281877 Score: 228
Period size: 52 Copynumber: 2.9 Consensus size: 52
281719 CGAAATATGA
*
281729 AAATTTGCCTGCATGTATCAATACATTTGATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTGATAGTGTATCGATACATCTGGGC
* *
281781 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTGATAGTGTATCGATACATCTGGGC
* **
281833 AAATTTACCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTTGAT-AGTGTATCGATACA
281878 ATGTATCGAT
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
51 2 0.02
52 86 0.98
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTGATAGTGTATCGATACATCTGGGC
Found at i:281884 original size:13 final size:13
Alignment explanation
Indices: 281866--281890 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
281856 CAAAGATCAG
281866 TGTATCGATACAA
1 TGTATCGATACAA
281879 TGTATCGATACA
1 TGTATCGATACA
281891 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:281957 original size:19 final size:18
Alignment explanation
Indices: 281933--282030 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
281923 TAGCTTAAAT
281933 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
281952 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
281965 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
281984 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
281997 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
282017 TGTATCGATACAAA
1 TGTATCGATACAAA
282031 TCGTTGAATT
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
14 2 0.03
16 4 0.06
18 1 0.02
19 24 0.36
20 13 0.20
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:281970 original size:13 final size:13
Alignment explanation
Indices: 281952--282008 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
281942 ACAAAACTTA
281952 TGTATCGATACAT
1 TGTATCGATACAT
281965 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
281983 ATGTATCGATACAT
1 -TGTATCGATACAT
281997 TGTATCGATACA
1 TGTATCGATACA
282009 ACACTTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:281972 original size:32 final size:32
Alignment explanation
Indices: 281931--282028 Score: 178
Period size: 32 Copynumber: 3.0 Consensus size: 32
281921 AGTAGCTTAA
*
281931 ATTGTATCGATACAAAACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
281963 ATTGTATCGATACAACACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
281995 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAACAC-TTATGTATCGATAC
282028 A
1 A
282029 AATCGTTGAA
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 49 0.77
33 15 0.23
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (32 bp):
ATTGTATCGATACAACACTTATGTATCGATAC
Done.