Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01010916.1 Kokia drynarioides strain JFW-HI SEQ_125884, whole genome shotgun sequence
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: 503119
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 107 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:3703 original size:15 final size:16
Alignment explanation
Indices: 3678--3724 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 16
3668 TTGGTTTGGG
*
3678 TTTGGACTTGGTTCAA
1 TTTGGATTTGGTTCAA
* *
3694 -TTGGGTTTGGTTAAA
1 TTTGGATTTGGTTCAA
*
3709 TTTGGATTTGGGTCAA
1 TTTGGATTTGGTTCAA
3725 AGGTTTTAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.19, C:0.06, G:0.30, T:0.45
Consensus pattern (16 bp):
TTTGGATTTGGTTCAA
Found at i:13189 original size:46 final size:46
Alignment explanation
Indices: 13138--13230 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
13128 CTGAATCATA
*
13138 AATATATATCGAAAAGTTGAATTTATGAACCTATTAGAATATATAT
1 AATATATATCGAAAAGTTGAATTTATCAACCTATTAGAATATATAT
*
13184 AATATATATCGAAAAGTTGAATTTGTCAACCTATTAGAATATATAT
1 AATATATATCGAAAAGTTGAATTTATCAACCTATTAGAATATATAT
13230 A
1 A
13231 TGAATTTAAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.45, C:0.08, G:0.11, T:0.37
Consensus pattern (46 bp):
AATATATATCGAAAAGTTGAATTTATCAACCTATTAGAATATATAT
Found at i:15493 original size:20 final size:20
Alignment explanation
Indices: 15470--15514 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
15460 AAAGTCAATG
* *
15470 GTCACCGATCAATTATCAAA
1 GTCAACGATCAATGATCAAA
* *
15490 GTCAACGGTCAATGGTCAAA
1 GTCAACGATCAATGATCAAA
15510 GTCAA
1 GTCAA
15515 TGGTCAGTCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (20 bp):
GTCAACGATCAATGATCAAA
Found at i:15536 original size:11 final size:11
Alignment explanation
Indices: 15522--15559 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
15512 CAATGGTCAG
15522 TCAACGATCGA
1 TCAACGATCGA
15533 TCAACGATC-A
1 TCAACGATCGA
*
15543 GTCAACGGTCGA
1 -TCAACGATCGA
15555 TCAAC
1 TCAAC
15560 TTAGCTTGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
10 1 0.04
11 22 0.92
12 1 0.04
ACGTcount: A:0.34, C:0.29, G:0.18, T:0.18
Consensus pattern (11 bp):
TCAACGATCGA
Found at i:15543 original size:22 final size:22
Alignment explanation
Indices: 15518--15559 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
15508 AAGTCAATGG
15518 TCAGTCAACGATCGATCAACGA
1 TCAGTCAACGATCGATCAACGA
*
15540 TCAGTCAACGGTCGATCAAC
1 TCAGTCAACGATCGATCAAC
15560 TTAGCTTGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.19
Consensus pattern (22 bp):
TCAGTCAACGATCGATCAACGA
Found at i:15620 original size:21 final size:21
Alignment explanation
Indices: 15578--15625 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
15568 ACTTGGTTTG
**
15578 GGTTTGATTATTGGGTTTAAA
1 GGTTTGATTATTGGGTAAAAA
15599 GGTTTGATT-TTGGGTCAAAAA
1 GGTTTGATTATTGGGT-AAAAA
15620 GGTTTG
1 GGTTTG
15626 CGTTTCTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.23, C:0.02, G:0.31, T:0.44
Consensus pattern (21 bp):
GGTTTGATTATTGGGTAAAAA
Found at i:17738 original size:35 final size:35
Alignment explanation
Indices: 17687--17756 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
17677 TTCCATTGGG
17687 TGTAAACAGCCGAAGCAATAGAGTTGTTGTTGATC
1 TGTAAACAGCCGAAGCAATAGAGTTGTTGTTGATC
*
17722 TGTAAACAGCCTAAGCAATAGAGTTGTTGTTGATC
1 TGTAAACAGCCGAAGCAATAGAGTTGTTGTTGATC
17757 CCCACATGAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.30
Consensus pattern (35 bp):
TGTAAACAGCCGAAGCAATAGAGTTGTTGTTGATC
Found at i:19486 original size:41 final size:40
Alignment explanation
Indices: 19441--19568 Score: 98
Period size: 40 Copynumber: 3.2 Consensus size: 40
19431 CACTTTTAGC
*
19441 GGCGTTTGGAAAGAAAACACCACAAAATGTAAAGCAATAGT
1 GGCGTTTGGAAA-AAAACACCACAAAAGGTAAAGCAATAGT
**** * *
19482 GGCGTTTTTTCAAAAACGCCACAAAAGGTAAAGCATTAGT
1 GGCGTTTGGAAAAAAACACCACAAAAGGTAAAGCAATAGT
* * * * * *
19522 GACGTTT--AACCATAAACGCCGCAAAAGGTAAAGTAATAGC
1 GGCGTTTGGAA--AAAAACACCACAAAAGGTAAAGCAATAGT
19562 GGCGTTT
1 GGCGTTT
19569 ATAGGAAAAA
Statistics
Matches: 69, Mismatches: 16, Indels: 5
0.77 0.18 0.06
Matches are distributed among these distances:
40 61 0.88
41 8 0.12
ACGTcount: A:0.40, C:0.17, G:0.22, T:0.21
Consensus pattern (40 bp):
GGCGTTTGGAAAAAAACACCACAAAAGGTAAAGCAATAGT
Found at i:19504 original size:40 final size:40
Alignment explanation
Indices: 19454--19569 Score: 133
Period size: 40 Copynumber: 2.9 Consensus size: 40
19444 GTTTGGAAAG
* * ***
19454 AAAACACCACAAAATGTAAAGCAATAGTGGCGTTTTTTCA
1 AAAACGCCACAAAAGGTAAAGCAATAGTGGCGTTTAACCA
* *
19494 AAAACGCCACAAAAGGTAAAGCATTAGTGACGTTTAACCA
1 AAAACGCCACAAAAGGTAAAGCAATAGTGGCGTTTAACCA
* * * *
19534 TAAACGCCGCAAAAGGTAAAGTAATAGCGGCGTTTA
1 AAAACGCCACAAAAGGTAAAGCAATAGTGGCGTTTA
19570 TAGGAAAAAC
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.42, C:0.18, G:0.19, T:0.21
Consensus pattern (40 bp):
AAAACGCCACAAAAGGTAAAGCAATAGTGGCGTTTAACCA
Found at i:19703 original size:41 final size:41
Alignment explanation
Indices: 19558--19993 Score: 296
Period size: 41 Copynumber: 10.7 Consensus size: 41
19548 GGTAAAGTAA
* * * *
19558 TAGCGGCGTTTATAGGAAAAACGCCGCTAAAAGTCAGAGCAT
1 TAGCGGCGTTTATA-CAAAAGCGCCGCTAAAGGTCGGAGCAT
* * ** * ** * *
19600 TAGCGACATTTAGGGC-AAAGTGTTGCTAAAGGTCTGAGCAC
1 TAGCGGCGTTTA-TACAAAAGCGCCGCTAAAGGTCGGAGCAT
**** * *
19641 TAGCGGCGTTTATTGGGAAGCGCTGCTAAAGGTCGGAACAT
1 TAGCGGCGTTTATACAAAAGCGCCGCTAAAGGTCGGAGCAT
* *
19682 TAGCGGCGTTTATACAAAAGCGCCGCTAAAAGTCGGAGAAT
1 TAGCGGCGTTTATACAAAAGCGCCGCTAAAGGTCGGAGCAT
* * * * * * ** *
19723 TAGCGACGTTTGTGCTAAAGTGCCGTTAAAGGTTAGAGTAT
1 TAGCGGCGTTTATACAAAAGCGCCGCTAAAGGTCGGAGCAT
* * * **
19764 TAGCGGTGTTTATAGAAAAGCACCGCTAAAGGTCAAAGCAT
1 TAGCGGCGTTTATACAAAAGCGCCGCTAAAGGTCGGAGCAT
* * * * *
19805 TAGCGGCTTTTATAGAAAAGCGCTGCTAATGCTCGGAGCA-
1 TAGCGGCGTTTATACAAAAGCGCCGCTAAAGGTCGGAGCAT
* * * * *
19845 -A--AGCGTTTATGATAAAA-CGCCGCTAAAGGTTGAAACAT
1 TAGCGGCGTTTAT-ACAAAAGCGCCGCTAAAGGTCGGAGCAT
* * * *
19883 TAGCGTCGTTTGTGA-AGAAGTGCCGCTAAAGGTCGGAGCAT
1 TAGCGGCGTTTAT-ACAAAAGCGCCGCTAAAGGTCGGAGCAT
*
19924 TAGCGGCGTTTATGA-AGAAGCGCCGCTAAAGGTCGGAGCAT
1 TAGCGGCGTTTAT-ACAAAAGCGCCGCTAAAGGTCGGAGCAT
*
19965 TAGCGGCGTTT-TACAATAAACGCCGCTAA
1 TAGCGGCGTTTATACAA-AAGCGCCGCTAA
19994 TTTACATTTT
Statistics
Matches: 301, Mismatches: 83, Indels: 21
0.74 0.20 0.05
Matches are distributed among these distances:
37 21 0.07
38 5 0.02
39 3 0.01
40 5 0.02
41 257 0.85
42 10 0.03
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (41 bp):
TAGCGGCGTTTATACAAAAGCGCCGCTAAAGGTCGGAGCAT
Found at i:19743 original size:123 final size:122
Alignment explanation
Indices: 19558--19975 Score: 379
Period size: 123 Copynumber: 3.4 Consensus size: 122
19548 GGTAAAGTAA
* * * * *
19558 TAGCGGCGTTTATAGGAAAAACGCCGCTAAAAGTCAGAGCATTAGCGACATTTAGGGC-AAAGTG
1 TAGCGGCGTTTATA-GAAAAGCGCCGCTAAAAGTCGGAGAATTAGCGACGTTT-GTGCTAAAGTG
** * * *
19622 TTGCTAAAGGTCTGAGCACTAGCGGCGTTTATTGGGAAGCGCTGCTAAAGGTCGGAACAT
64 CCGCTAAAGGT-TGAGCATTAGCGGCGTTTATTGAGAAGCGCCGCTAAAGGTCGGAACAT
*
19682 TAGCGGCGTTTATACAAAAGCGCCGCTAAAAGTCGGAGAATTAGCGACGTTTGTGCTAAAGTGCC
1 TAGCGGCGTTTATAGAAAAGCGCCGCTAAAAGTCGGAGAATTAGCGACGTTTGTGCTAAAGTGCC
* * * * * * *
19747 GTTAAAGGTTAGAGTATTAGCGGTGTTTATAGAAAAGCACCGCTAAAGGTC-AAAGCAT
66 GCTAAAGGTT-GAGCATTAGCGGCGTTTATTGAGAAGCGCCGCTAAAGGTCGGAA-CAT
* * * * * **
19805 TAGCGGCTTTTATAGAAAAGCGCTGCT-AATGCTCGGAGCAA--A--G-CGTTTATGATAAAACG
1 TAGCGGCGTTTATAGAAAAGCGCCGCTAAAAG-TCGGAG-AATTAGCGACGTTTGTGCTAAAGTG
* * * * *
19864 CCGCTAAAGGTTGAAACATTAGCGTCGTTT-GTGAAGAAGTGCCGCTAAAGGTCGGAGCAT
64 CCGCTAAAGGTTG-AGCATTAGCGGCGTTTATTG-AGAAGCGCCGCTAAAGGTCGGAACAT
* * *
19924 TAGCGGCGTTTAT-GAAGAAGCGCCGCTAAAGGTCGGAGCATTAGCGGCGTTT
1 TAGCGGCGTTTATAGAA-AAGCGCCGCTAAAAGTCGGAGAATTAGCGACGTTT
19976 TACAATAAAC
Statistics
Matches: 237, Mismatches: 42, Indels: 31
0.76 0.14 0.10
Matches are distributed among these distances:
118 6 0.03
119 81 0.34
120 6 0.03
122 11 0.05
123 117 0.49
124 16 0.07
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (122 bp):
TAGCGGCGTTTATAGAAAAGCGCCGCTAAAAGTCGGAGAATTAGCGACGTTTGTGCTAAAGTGCC
GCTAAAGGTTGAGCATTAGCGGCGTTTATTGAGAAGCGCCGCTAAAGGTCGGAACAT
Found at i:19872 original size:78 final size:80
Alignment explanation
Indices: 19786--19977 Score: 187
Period size: 78 Copynumber: 2.4 Consensus size: 80
19776 TAGAAAAGCA
* *
19786 CCGCTAAAGGTCAAAGCATTAGCGGCTTTTATAGAA-AAGCGCTGCTAATGCTCGGAGCA-A-AG
1 CCGCTAAAGGTCAAAGCATTAGCGGCTTTTAT-GAAGAAGCGCCGCTAAAGCTCGGAGCATACAG
19848 CGTTTATGATA-AAACG
65 CGTTTATGA-AGAAACG
* * * * * *
19864 CCGCTAAAGGTTGAAA-CATTAGCGTCGTTTGTGAAGAAGTGCCGCTAAAGGTCGGAGCATTAGC
1 CCGCTAAAGG-TCAAAGCATTAGCGGCTTTTATGAAGAAGCGCCGCTAAAGCTCGGAGCA-TA-C
* *
19928 GGCGTTTATGAAGAAGCG
63 AGCGTTTATGAAGAAACG
**
19946 CCGCTAAAGGTCGGAGCATTAGCGGCGTTTTA
1 CCGCTAAAGGTCAAAGCATTAGCGGC-TTTTA
19978 CAATAAACGC
Statistics
Matches: 89, Mismatches: 16, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
77 3 0.03
78 42 0.47
79 4 0.04
80 1 0.01
81 3 0.03
82 33 0.37
83 3 0.03
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (80 bp):
CCGCTAAAGGTCAAAGCATTAGCGGCTTTTATGAAGAAGCGCCGCTAAAGCTCGGAGCATACAGC
GTTTATGAAGAAACG
Found at i:19906 original size:160 final size:161
Alignment explanation
Indices: 19687--19977 Score: 385
Period size: 160 Copynumber: 1.8 Consensus size: 161
19677 AACATTAGCG
* * *
19687 GCGTTTATACAAAAGCGCCGCTAAAAGTCGGAGAATTAGCGACGTTTGTGCTAAAGTGCCGTTAA
1 GCGTTTATACAAAAGCGCCGCTAAAAGTCGGAAAATTAGCGACGTTTGTGCAAAAGTGCCGCTAA
* * *
19752 AGGTTAGAGTATTAGCGGTGTTTATAGAA-AAGCACCGCTAAAGGTCAAAGCATTAGCGGC-TTT
66 AGGTCAGAGCATTAGCGGCGTTTAT-GAAGAAGCACCGCTAAAGGTCAAAGCATTAGCGGCGTTT
19815 TATAGAAAAGCGCTGCTAATGCTCGGAGCAAA
130 TATAGAAAAGCGCTGCTAATGCTCGGAGCAAA
* * * *
19847 GCGTTTATGATAAAA-CGCCGCTAAAGGT-TGAAACATTAGCGTCGTTTGTG-AAGAAGTGCCGC
1 GCGTTTAT-ACAAAAGCGCCGCTAAAAGTCGGAAA-ATTAGCGACGTTTGTGCAA-AAGTGCCGC
* * **
19909 TAAAGGTCGGAGCATTAGCGGCGTTTATGAAGAAGCGCCGCTAAAGGTCGGAGCATTAGCGGCGT
63 TAAAGGTCAGAGCATTAGCGGCGTTTATGAAGAAGCACCGCTAAAGGTCAAAGCATTAGCGGCGT
19974 TTTA
128 TTTA
19978 CAATAAACGC
Statistics
Matches: 112, Mismatches: 14, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
159 7 0.06
160 95 0.85
161 10 0.09
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.24
Consensus pattern (161 bp):
GCGTTTATACAAAAGCGCCGCTAAAAGTCGGAAAATTAGCGACGTTTGTGCAAAAGTGCCGCTAA
AGGTCAGAGCATTAGCGGCGTTTATGAAGAAGCACCGCTAAAGGTCAAAGCATTAGCGGCGTTTT
ATAGAAAAGCGCTGCTAATGCTCGGAGCAAA
Found at i:20051 original size:18 final size:19
Alignment explanation
Indices: 20024--20062 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
20014 TGTAAATTAT
20024 TAACACAATTAT-TGTTTA
1 TAACACAATTATATGTTTA
* *
20042 TAACATAATTTTATGTTTA
1 TAACACAATTATATGTTTA
20061 TA
1 TA
20063 TATTACATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (19 bp):
TAACACAATTATATGTTTA
Found at i:21772 original size:22 final size:21
Alignment explanation
Indices: 21739--21780 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
21729 AGGACTTTTA
21739 TAAATTTTAAAATTT-TAAAT
1 TAAATTTTAAAATTTCTAAAT
21759 TAAATATTATAAAATTTCTAAA
1 TAAAT-TT-TAAAATTTCTAAA
21781 AATTCTAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.26
21 2 0.11
22 8 0.42
23 4 0.21
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
TAAATTTTAAAATTTCTAAAT
Found at i:21886 original size:41 final size:41
Alignment explanation
Indices: 21821--21934 Score: 115
Period size: 41 Copynumber: 2.8 Consensus size: 41
21811 TAAAAAATAG
* **
21821 AGGTCAATTAATAGCGGCGA-TTATGAG-AAAAACGTCGCTAA
1 AGGTCAATCAATAGCGGC-ATTTATG-GTAAAAACCCCGCTAA
* *
21862 AGGTCAATCAATAGTGGCATTTATGGTAAAAACCCCGTTAA
1 AGGTCAATCAATAGCGGCATTTATGGTAAAAACCCCGCTAA
* * * *
21903 AGATCAAGCAATAGCGACATTTATGTTAAAAA
1 AGGTCAATCAATAGCGGCATTTATGGTAAAAA
21935 ACACCGTAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
40 2 0.03
41 59 0.97
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (41 bp):
AGGTCAATCAATAGCGGCATTTATGGTAAAAACCCCGCTAA
Found at i:25084 original size:32 final size:32
Alignment explanation
Indices: 25048--25144 Score: 112
Period size: 32 Copynumber: 3.0 Consensus size: 32
25038 TTATATATAT
*
25048 AAACAGTATTAGTTAATTAAATATTTAATTCA
1 AAACATTATTAGTTAATTAAATATTTAATTCA
*
25080 AAACATTTAATT-GTTTGATT--ATATTTAATT-A
1 AAACA-TT-ATTAG-TTAATTAAATATTTAATTCA
25111 TAAACATTATTAGTTAATTAAATATTTAATTCA
1 -AAACATTATTAGTTAATTAAATATTTAATTCA
25144 A
1 A
25145 GATATTTAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
30 8 0.15
31 4 0.07
32 31 0.57
33 3 0.06
34 8 0.15
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.45
Consensus pattern (32 bp):
AAACATTATTAGTTAATTAAATATTTAATTCA
Found at i:25122 original size:64 final size:64
Alignment explanation
Indices: 25045--25164 Score: 195
Period size: 64 Copynumber: 1.9 Consensus size: 64
25035 GTCTTATATA
* *
25045 TATAAACAGTATTAGTTAATTAAATATTTAATTCAAAACATTTAATTGTTTGATTATATTTAAT
1 TATAAACAGTATTAGTTAATTAAATATTTAATTCAAAACATTTAATTATTTAATTATATTTAAT
* * *
25109 TATAAACATTATTAGTTAATTAAATATTTAATTCAAGATATTTAATTATTTAATTA
1 TATAAACAGTATTAGTTAATTAAATATTTAATTCAAAACATTTAATTATTTAATTA
25165 GTTAATTATT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 51 1.00
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.47
Consensus pattern (64 bp):
TATAAACAGTATTAGTTAATTAAATATTTAATTCAAAACATTTAATTATTTAATTATATTTAAT
Found at i:25199 original size:55 final size:56
Alignment explanation
Indices: 25130--25270 Score: 212
Period size: 55 Copynumber: 2.5 Consensus size: 56
25120 TTAGTTAATT
*
25130 AAATATTTAATTCAAGATATTTAATTATTTAATTAGTTAATTATTAAAAACAATC-
1 AAATATTTAATTCAAAATATTTAATTATTTAATTAGTTAATTATTAAAAACAATCA
* * * *
25185 CAATCTTTAATTCAAAATATTTAATTATTTAATTAGTTATTTATTAATAACAATCGA
1 AAATATTTAATTCAAAATATTTAATTATTTAATTAGTTAATTATTAAAAACAATC-A
*
25242 AAATATTTAATCCAAAATATTTAATTATT
1 AAATATTTAATTCAAAATATTTAATTATT
25271 AAAATTAACC
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
55 50 0.66
57 26 0.34
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (56 bp):
AAATATTTAATTCAAAATATTTAATTATTTAATTAGTTAATTATTAAAAACAATCA
Found at i:25258 original size:14 final size:14
Alignment explanation
Indices: 25236--25266 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
25226 TATTAATAAC
*
25236 AATCGAAAATATTT
1 AATCCAAAATATTT
25250 AATCCAAAATATTT
1 AATCCAAAATATTT
25264 AAT
1 AAT
25267 TATTAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.10, G:0.03, T:0.35
Consensus pattern (14 bp):
AATCCAAAATATTT
Found at i:25339 original size:4 final size:4
Alignment explanation
Indices: 25330--25381 Score: 50
Period size: 4 Copynumber: 12.5 Consensus size: 4
25320 ATTCAAATAT
* * * *
25330 TTAA TTAA TTAA TTAT TTAA TTAC TTAA TTATA TTTAA TTAA ATAT TTAA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTA-A -TTAA TTAA TTAA TTAA
25380 TT
1 TT
25382 TAAACAGTAT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
4 33 0.87
5 2 0.05
6 3 0.08
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (4 bp):
TTAA
Found at i:25351 original size:12 final size:12
Alignment explanation
Indices: 25327--25381 Score: 60
Period size: 12 Copynumber: 4.8 Consensus size: 12
25317 ATGATTCAAA
25327 TATTTAATTAAT
1 TATTTAATTAAT
* *
25339 TAATTATTTAAT
1 TATTTAATTAAT
*
25351 TACTTAATT-A-
1 TATTTAATTAAT
*
25361 TATTTAATTAAA
1 TATTTAATTAAT
25373 TATTTAATT
1 TATTTAATT
25382 TAAACAGTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
10 8 0.22
11 2 0.06
12 26 0.72
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (12 bp):
TATTTAATTAAT
Found at i:25446 original size:22 final size:24
Alignment explanation
Indices: 25421--25477 Score: 73
Period size: 26 Copynumber: 2.4 Consensus size: 24
25411 CTCAAAATAT
25421 TTAATTATTTAA-T-TATATTTAA
1 TTAATTATTTAATTATATATTTAA
*
25443 TTAAATATTTAATTCAATATATTTAA
1 TTAATTATTTAATT--ATATATTTAA
25469 TTAATTATT
1 TTAATTATT
25478 AAAAACAACC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 11 0.38
23 1 0.03
26 17 0.59
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (24 bp):
TTAATTATTTAATTATATATTTAA
Found at i:25450 original size:30 final size:30
Alignment explanation
Indices: 25324--25456 Score: 96
Period size: 30 Copynumber: 4.4 Consensus size: 30
25314 AAAATGATTC
25324 AAATATTTAATTAATTAA-T-TATTTAATT
1 AAATATTTAATTAATTAATTATATTTAATT
** *
25352 ACTTAATTATATTTAATTAA--ATATTTAATTT
1 AAAT-ATT-TAATTAATTAATTATATTTAA-TT
* * * * *
25383 AAACAGTATTAGTTAATTAAATAT-TTTACTCA
1 AAATA-T-TTAATTAATTAATTATATTTAAT-T
*
25415 AAATATTTAATTATTTAATTATATTTAATT
1 AAATATTTAATTAATTAATTATATTTAATT
25445 AAATATTTAATT
1 AAATATTTAATT
25457 CAATATATTT
Statistics
Matches: 80, Mismatches: 15, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
28 2 0.03
29 3 0.04
30 43 0.54
31 21 0.26
32 9 0.11
33 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (30 bp):
AAATATTTAATTAATTAATTATATTTAATT
Found at i:25464 original size:14 final size:13
Alignment explanation
Indices: 25429--25477 Score: 66
Period size: 12 Copynumber: 3.8 Consensus size: 13
25419 ATTTAATTAT
25429 TTAATTATATTTAA
1 TTAA-TATATTTAA
25443 TTAA-ATATTTAA
1 TTAATATATTTAA
25455 TTCAATATATTTAA
1 TT-AATATATTTAA
25469 TTAAT-TATT
1 TTAATATATT
25478 AAAAACAACC
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
12 14 0.42
13 5 0.15
14 14 0.42
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (13 bp):
TTAATATATTTAA
Found at i:25519 original size:22 final size:22
Alignment explanation
Indices: 25412--25522 Score: 73
Period size: 22 Copynumber: 5.0 Consensus size: 22
25402 AATATTTTAC
25412 TCAAAATATTTAATTATTTAAT
1 TCAAAATATTTAATTATTTAAT
** * *
25434 T-ATATTTAATTAAATATTTAAT
1 TCA-AAATATTTAATTATTTAAT
* *
25456 TCAATATATTTAATTAATT-AT
1 TCAAAATATTTAATTATTTAAT
* * *** * *
25477 TAAAAACAACCCAAATCTTTAAT
1 TCAAAA-TATTTAATTATTTAAT
25500 TCAAAATATTTAATTATTTAAT
1 TCAAAATATTTAATTATTTAAT
25522 T
1 T
25523 AGCTATTTAT
Statistics
Matches: 61, Mismatches: 24, Indels: 8
0.66 0.26 0.09
Matches are distributed among these distances:
21 7 0.11
22 46 0.75
23 8 0.13
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.47
Consensus pattern (22 bp):
TCAAAATATTTAATTATTTAAT
Found at i:25562 original size:14 final size:14
Alignment explanation
Indices: 25540--25570 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
25530 TATTAATAAC
*
25540 AATCGAAAATATTT
1 AATCCAAAATATTT
25554 AATCCAAAATATTT
1 AATCCAAAATATTT
25568 AAT
1 AAT
25571 TATTTAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.10, G:0.03, T:0.35
Consensus pattern (14 bp):
AATCCAAAATATTT
Found at i:25580 original size:29 final size:29
Alignment explanation
Indices: 25547--25629 Score: 86
Period size: 29 Copynumber: 3.0 Consensus size: 29
25537 AACAATCGAA
25547 AATATTTAATCCAAAATATTTAATTATTT
1 AATATTTAATCCAAAATATTTAATTATTT
*
25576 AATATATTCAAT--TAAATATTTAATTA-TT
1 AATAT-TT-AATCCAAAATATTTAATTATTT
* *
25604 AA-AATTAA-CCCAAATATTTAATTATT
1 AATATTTAATCCAAAATATTTAATTATT
25630 CAATTAGTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
25 2 0.04
26 15 0.33
27 2 0.04
28 4 0.09
29 18 0.39
30 2 0.04
31 3 0.07
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.46
Consensus pattern (29 bp):
AATATTTAATCCAAAATATTTAATTATTT
Found at i:25609 original size:21 final size:21
Alignment explanation
Indices: 25566--25611 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
25556 TCCAAAATAT
* *
25566 TTAATTATTTAATATATTCAA
1 TTAAATATTTAATATATTAAA
25587 TTAAATATTTAAT-TATTAAAA
1 TTAAATATTTAATATATT-AAA
25608 TTAA
1 TTAA
25612 CCCAAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
TTAAATATTTAATATATTAAA
Found at i:25660 original size:42 final size:45
Alignment explanation
Indices: 25571--25688 Score: 147
Period size: 42 Copynumber: 2.7 Consensus size: 45
25561 AATATTTAAT
25571 TATTTAATATATTCAATTAAATATTTAATTATTAAAATTAACCCAAA
1 TATTTAAT-TATTCAATTAAATATTTAATTA-TAAAATTAACCCAAA
** *
25618 TATTTAATTATTCAATTAGTTATTT-ATTA-AAAA-TAACTCAAA
1 TATTTAATTATTCAATTAAATATTTAATTATAAAATTAACCCAAA
*
25660 TATTTAATTATTTAATT--ATATTTAATTAT
1 TATTTAATTATTCAATTAAATATTTAATTAT
25689 TTAATTACTT
Statistics
Matches: 64, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
40 5 0.08
41 4 0.06
42 24 0.38
43 4 0.06
45 4 0.06
46 15 0.23
47 8 0.12
ACGTcount: A:0.45, C:0.06, G:0.01, T:0.48
Consensus pattern (45 bp):
TATTTAATTATTCAATTAAATATTTAATTATAAAATTAACCCAAA
Found at i:25673 original size:8 final size:8
Alignment explanation
Indices: 25660--25695 Score: 54
Period size: 8 Copynumber: 4.2 Consensus size: 8
25650 ATAACTCAAA
25660 TATTTAAT
1 TATTTAAT
25668 TATTTAATT
1 TATTTAA-T
25677 ATATTTAAT
1 -TATTTAAT
25686 TATTTAAT
1 TATTTAAT
25694 TA
1 TA
25696 CTTAGTTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 17 0.65
9 2 0.08
10 7 0.27
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TATTTAAT
Found at i:25680 original size:18 final size:18
Alignment explanation
Indices: 25659--25695 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
25649 AATAACTCAA
25659 ATATTTAATTATTTAATT
1 ATATTTAATTATTTAATT
25677 ATATTTAATTATTTAATT
1 ATATTTAATTATTTAATT
25695 A
1 A
25696 CTTAGTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
ATATTTAATTATTTAATT
Found at i:25704 original size:26 final size:26
Alignment explanation
Indices: 25660--25713 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
25650 ATAACTCAAA
* *
25660 TATTTAATTATTTAATTATATTTAAT
1 TATTTAATTACTTAATTATATCTAAT
*
25686 TATTTAATTACTTAGTTATATCTAAT
1 TATTTAATTACTTAATTATATCTAAT
25712 TA
1 TA
25714 AATATTTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (26 bp):
TATTTAATTACTTAATTATATCTAAT
Found at i:25782 original size:77 final size:76
Alignment explanation
Indices: 25686--25856 Score: 245
Period size: 77 Copynumber: 2.2 Consensus size: 76
25676 TATATTTAAT
* * *
25686 TATTTAATTACTTAGTTATATCTAATTAAATATTTAATTATAAAC-CGTATTAGTTAATTAAAAT
1 TATTTAATTATTTAATTATATCTAATTAAATATTTAATTATAAACAC-TATTAATTAATT-AAAT
*
25750 ATTTTACTCAAAA
64 ATTTAACTCAAAA
* *
25763 TATTTAATTATTTAATTATATTTAATTAAATATTTAGTTATAAACACTATTAATTAATTAAATAT
1 TATTTAATTATTTAATTATATCTAATTAAATATTTAATTATAAACACTATTAATTAATTAAATAT
* *
25828 TTAATTCAAGA
66 TTAACTCAAAA
25839 TATTTAATTATTTAATTA
1 TATTTAATTATTTAATTA
25857 GTTAATTATT
Statistics
Matches: 85, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
76 32 0.38
77 52 0.61
78 1 0.01
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (76 bp):
TATTTAATTATTTAATTATATCTAATTAAATATTTAATTATAAACACTATTAATTAATTAAATAT
TTAACTCAAAA
Found at i:25833 original size:333 final size:326
Alignment explanation
Indices: 25256--25910 Score: 890
Period size: 333 Copynumber: 2.0 Consensus size: 326
25246 ATTTAATCCA
* * *
25256 AAATATTTAATTATTAAAATTAACCTAAATATTTAATTATTCAATTAGTTATTTATTTAAAATGA
1 AAATATTTAATTATTAAAATTAACCCAAATATTTAATTATTCAATTAGTTATTTATTAAAAATAA
* *
25321 TTCAAATATTTAATTAATTAATTATTTAATTACTTAATTATATTTAATTAAATATTTAATTTAAA
66 CTCAAATATTTAATTAATTAATTATTTAATTACTTAATTATATCTAATTAAATATTTAATTTAAA
25386 CAGTATTAGTTAATTAAATATTTTACTCAAAATATTTAATTATTTAATTATATTTAATTAAATAT
131 CAGTATTAGTTAATTAAATATTTTACTCAAAATATTTAATTATTTAATTATATTTAATTAAATAT
* * *
25451 TTAATTCAATATATTTAATTAATTATTAAAAACAACCCAAATCTTTAATTCAAAATATTTAATTA
196 TTAAGT--ATATA--TAA-TAACTATT-AAAACAACCCAAATATTTAATTCAAAATATTTAATTA
* * *
25516 TTTAATTAGCTATTTATTAATAACAATCGAAAATATTTAATCCAAAATATTTAATTATTTAATAT
255 TTTAATTAGCTAATTATTAAAAACAA-CCAAAATATTTAATCCAAAATATTTAATTATTTAATAT
25581 ATTCAATT
319 ATTCAATT
25589 AAATATTTAATTATTAAAATTAACCCAAATATTTAATTATTCAATTAGTTATTTATTAAAAATAA
1 AAATATTTAATTATTAAAATTAACCCAAATATTTAATTATTCAATTAGTTATTTATTAAAAATAA
*
25654 CTCAAATATTTAATTATTTAATTATATTTAATTATTTAATTACTTAGTTATATCTAATTAAATAT
66 CTC----A---AA-TATTTAATTA-A-TTAATTATTTAATTACTTAATTATATCTAATTAAATAT
*
25719 TTAATTATAAACCGTATTAGTTAATTAAAATATTTTACTCAAAATATTTAATTATTTAATTATAT
121 TTAATT-TAAACAGTATTAGTTAATT-AAATATTTTACTCAAAATATTTAATTATTTAATTATAT
* ** ** *
25784 TTAATTAAATATTT-AGT-TATA-AA-CACTATT-AATTAA-TTAAATATTTAATTCAAGATATT
184 TTAATTAAATATTTAAGTATATATAATAACTATTAAAACAACCCAAATATTTAATTCAAAATATT
* * * *
25843 TAATTATTTAATTAGTTAATTATTAAAAACAACCCAAATCTTTAATTCAAAATATTTAATTATTT
249 TAATTATTTAATTAGCTAATTATTAAAAACAACCAAAATATTTAATCCAAAATATTTAATTATTT
25908 AAT
314 AAT
25911 TAGCTATTTA
Statistics
Matches: 287, Mismatches: 23, Indels: 25
0.86 0.07 0.07
Matches are distributed among these distances:
332 32 0.11
333 112 0.39
334 4 0.01
336 5 0.02
337 1 0.00
338 2 0.01
340 2 0.01
341 14 0.05
342 1 0.00
343 42 0.15
344 20 0.07
345 52 0.18
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (326 bp):
AAATATTTAATTATTAAAATTAACCCAAATATTTAATTATTCAATTAGTTATTTATTAAAAATAA
CTCAAATATTTAATTAATTAATTATTTAATTACTTAATTATATCTAATTAAATATTTAATTTAAA
CAGTATTAGTTAATTAAATATTTTACTCAAAATATTTAATTATTTAATTATATTTAATTAAATAT
TTAAGTATATATAATAACTATTAAAACAACCCAAATATTTAATTCAAAATATTTAATTATTTAAT
TAGCTAATTATTAAAAACAACCAAAATATTTAATCCAAAATATTTAATTATTTAATATATTCAAT
T
Found at i:25868 original size:77 final size:79
Alignment explanation
Indices: 25677--25869 Score: 234
Period size: 77 Copynumber: 2.4 Consensus size: 79
25667 TTATTTAATT
*
25677 ATATTTAATTATTTAATTACTTAGTTATATCTAATTAAATATTTAATTATAAACCGTATTAGTTA
1 ATATTTAATTATTT-A--A-TTAGTTA-AT-TAATTAAATATTTAATTATAAACCGTATTAATTA
*
25742 ATTAAAATATTTTACTCAAA
60 ATTAAAATATTTAACTCAAA
* *
25762 ATATTTAATTATTTAATTA--TATTTAATTAAATATTTAGTTATAAACAC-TATTAATTAATT-A
1 ATATTTAATTATTTAATTAGTTAATTAATTAAATATTTAATTATAAAC-CGTATTAATTAATTAA
* *
25823 AATATTTAATTCAAG
65 AATATTTAACTCAAA
25838 ATATTTAATTATTTAATTAGTTAATT-ATTAAA
1 ATATTTAATTATTTAATTAGTTAATTAATTAAA
25870 AACAACCCAA
Statistics
Matches: 98, Mismatches: 7, Indels: 14
0.82 0.06 0.12
Matches are distributed among these distances:
76 32 0.33
77 39 0.40
78 6 0.06
79 2 0.02
81 3 0.03
82 1 0.01
84 1 0.01
85 14 0.14
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.49
Consensus pattern (79 bp):
ATATTTAATTATTTAATTAGTTAATTAATTAAATATTTAATTATAAACCGTATTAATTAATTAAA
ATATTTAACTCAAA
Found at i:25901 original size:56 final size:56
Alignment explanation
Indices: 25822--25952 Score: 181
Period size: 56 Copynumber: 2.3 Consensus size: 56
25812 TTAATTAATT
* *
25822 AAATATTTAATTCAAGATATTTAATTATTTAATTAGTTAATTATTAAAAACAACCC
1 AAATATTTAATTCAAAATATTTAATTATTTAATTAGCTAATTATTAAAAACAACCC
* * * **
25878 AAATCTTTAATTCAAAATATTTAATTATTTAATTAGCTATTTATTAATAACAATCGA
1 AAATATTTAATTCAAAATATTTAATTATTTAATTAGCTAATTATTAAAAACAA-CCC
*
25935 AAATATTTAATCCAAAAT
1 AAATATTTAATTCAAAAT
25953 TAATATATTC
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
56 48 0.74
57 17 0.26
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (56 bp):
AAATATTTAATTCAAAATATTTAATTATTTAATTAGCTAATTATTAAAAACAACCC
Found at i:27964 original size:43 final size:44
Alignment explanation
Indices: 27917--28038 Score: 135
Period size: 43 Copynumber: 2.8 Consensus size: 44
27907 AAGCATTGCG
*
27917 AAAGATCAAGTTTATTAGCGGCGTTTTTGGG-GTAAACGTC-GTT
1 AAAGATCAAGTTTATTAGCGGCGTTTGTGGGAG-AAACGTCGGTT
* * *
27960 AAAGATCATGTTTTTTAGCGGCGTTTGTGGGAGAAGCGTCGGTT
1 AAAGATCAAGTTTATTAGCGGCGTTTGTGGGAGAAACGTCGGTT
* *
28004 AAAGA-CTATGTTCT-TTAGTGGCGTTTGTGGGAGAA
1 AAAGATC-AAGTT-TATTAGCGGCGTTTGTGGGAGAA
28039 GCGCTGCTAA
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
43 35 0.50
44 34 0.49
45 1 0.01
ACGTcount: A:0.24, C:0.11, G:0.31, T:0.34
Consensus pattern (44 bp):
AAAGATCAAGTTTATTAGCGGCGTTTGTGGGAGAAACGTCGGTT
Found at i:28021 original size:44 final size:43
Alignment explanation
Indices: 27931--28064 Score: 148
Period size: 43 Copynumber: 3.1 Consensus size: 43
27921 ATCAAGTTTA
* * *
27931 TTAGCGGCGTTTTTGGG-GTAAACGTCGTTAAAGA-TCATGTTTT
1 TTAGCGGCGTTTGTGGGAG-AAGCGTCGTTAAAGACT-ATGTTCT
27974 TTAGCGGCGTTTGTGGGAGAAGCGTCGGTTAAAGACTATGTTCT
1 TTAGCGGCGTTTGTGGGAGAAGCGTC-GTTAAAGACTATGTTCT
* * * *
28018 TTAGTGGCGTTTGTGGGAGAAGCG-CTGCTAAAGACCATGCTCT
1 TTAGCGGCGTTTGTGGGAGAAGCGTC-GTTAAAGACTATGTTCT
28061 TTAG
1 TTAG
28065 TGACATTTTT
Statistics
Matches: 80, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
43 41 0.51
44 38 0.47
45 1 0.01
ACGTcount: A:0.21, C:0.14, G:0.31, T:0.34
Consensus pattern (43 bp):
TTAGCGGCGTTTGTGGGAGAAGCGTCGTTAAAGACTATGTTCT
Found at i:28064 original size:43 final size:44
Alignment explanation
Indices: 27959--28066 Score: 146
Period size: 44 Copynumber: 2.5 Consensus size: 44
27949 TAAACGTCGT
* * * *
27959 TAAAGATCATGTTTTTTAGCGGCGTTTGTGGGAGAAGCGTCGGT
1 TAAAGACCATGTTCTTTAGTGGCGTTTGTGGGAGAAGCGTCGGC
* *
28003 TAAAGACTATGTTCTTTAGTGGCGTTTGTGGGAGAAGCG-CTGC
1 TAAAGACCATGTTCTTTAGTGGCGTTTGTGGGAGAAGCGTCGGC
*
28046 TAAAGACCATGCTCTTTAGTG
1 TAAAGACCATGTTCTTTAGTG
28067 ACATTTTTCC
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
43 21 0.38
44 35 0.62
ACGTcount: A:0.22, C:0.14, G:0.31, T:0.33
Consensus pattern (44 bp):
TAAAGACCATGTTCTTTAGTGGCGTTTGTGGGAGAAGCGTCGGC
Found at i:37895 original size:79 final size:78
Alignment explanation
Indices: 37759--37995 Score: 350
Period size: 79 Copynumber: 3.0 Consensus size: 78
37749 TTATTAATTG
* * * *
37759 AGGATTTGACTGATATTGTTGGTAAATCTAACTAGAGCTGGGCTCACATTTGTGGTTTATCTGCT
1 AGGATTTGAC-GATATTGTTGGTTAATCCAACTAGAGCTGGGCTCACATTTGCGGTTTATCCGCT
*
37824 AGGCACTAGGTGCC
65 AGGCACTGGGTGCC
*
37838 AGGATTTGACGAATATTGTTTGTTAATCCAACTAGAGCTGGGCTCACATTTGCGGTTTATCCGCT
1 AGGATTTGACG-ATATTGTTGGTTAATCCAACTAGAGCTGGGCTCACATTTGCGGTTTATCCGCT
37903 AGGCACTGGGTGCC
65 AGGCACTGGGTGCC
* * * *
37917 AAGATTTGACGGACATTGTTGGTTAATCCAACTAGAGCTGGGCTCACTTTTGC-GATTATCCGCT
1 AGGATTTGAC-GATATTGTTGGTTAATCCAACTAGAGCTGGGCTCACATTTGCGGTTTATCCGCT
37981 AGGCACTGGGTGCC
65 AGGCACTGGGTGCC
37995 A
1 A
37996 TAATTGTTGG
Statistics
Matches: 145, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
78 26 0.18
79 118 0.81
80 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (78 bp):
AGGATTTGACGATATTGTTGGTTAATCCAACTAGAGCTGGGCTCACATTTGCGGTTTATCCGCTA
GGCACTGGGTGCC
Found at i:40163 original size:23 final size:22
Alignment explanation
Indices: 40137--40186 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 22
40127 CGACCTTGGA
40137 AAATTATAAATTATATTTATTAT
1 AAATTATAAATTATATTTATT-T
*
40160 AAATTATAAATTCTATTTATTT
1 AAATTATAAATTATATTTATTT
40182 AAATT
1 AAATT
40187 TGTATTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 6 0.23
23 20 0.77
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
AAATTATAAATTATATTTATTT
Found at i:61943 original size:12 final size:12
Alignment explanation
Indices: 61926--61964 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
61916 AGCCCGTACT
61926 TCCGGATACACA
1 TCCGGATACACA
* *
61938 TCCGGATGCACC
1 TCCGGATACACA
*
61950 TCCGAATACACA
1 TCCGGATACACA
61962 TCC
1 TCC
61965 AAATGCACCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.28, C:0.38, G:0.15, T:0.18
Consensus pattern (12 bp):
TCCGGATACACA
Found at i:61953 original size:24 final size:24
Alignment explanation
Indices: 61926--61974 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
61916 AGCCCGTACT
* **
61926 TCCGGATACACATCCGGATGCACC
1 TCCGAATACACATCCAAATGCACC
61950 TCCGAATACACATCCAAATGCACC
1 TCCGAATACACATCCAAATGCACC
61974 T
1 T
61975 TCGATTCCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.31, C:0.37, G:0.14, T:0.18
Consensus pattern (24 bp):
TCCGAATACACATCCAAATGCACC
Found at i:67426 original size:26 final size:26
Alignment explanation
Indices: 67396--67450 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
67386 TAATACATTG
*
67396 ATATAATTACATGATAATATCTGTTC
1 ATATAATTACATAATAATATCTGTTC
67422 ATATAATTACATAATAATATCTGTTC
1 ATATAATTACATAATAATATCTGTTC
67448 ATA
1 ATA
67451 CTTTCTTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.42
Consensus pattern (26 bp):
ATATAATTACATAATAATATCTGTTC
Found at i:77951 original size:87 final size:86
Alignment explanation
Indices: 77805--77971 Score: 235
Period size: 87 Copynumber: 1.9 Consensus size: 86
77795 AATTAAGTTT
* * * *
77805 GGTGAATTCATTAAGTCTGTTTCAATAGTACCACCCAAACTCTAGGATATGAACTCATTAAGAGT
1 GGTGAATTCATCAAGTCTGTCTCAATAGGACCACCCAAACTCTAGGATATAAACTCATTAAGAGT
77870 AAGAAACTCAACCTTACACGTC
66 AA-AAACTCAACCTTACACGTC
* * * * *
77892 GGTGAATTCATCAAGTCTGTCTCAATAGGATCATCCAAACTCTGGGTTATAAATTCATTAAGAGT
1 GGTGAATTCATCAAGTCTGTCTCAATAGGACCACCCAAACTCTAGGATATAAACTCATTAAGAGT
*
77957 AATAACTCAACCTTA
66 AAAAACTCAACCTTA
77972 TGCAAATACA
Statistics
Matches: 70, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
86 12 0.17
87 58 0.83
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.29
Consensus pattern (86 bp):
GGTGAATTCATCAAGTCTGTCTCAATAGGACCACCCAAACTCTAGGATATAAACTCATTAAGAGT
AAAAACTCAACCTTACACGTC
Found at i:91601 original size:118 final size:119
Alignment explanation
Indices: 91406--91630 Score: 274
Period size: 118 Copynumber: 1.9 Consensus size: 119
91396 ATAACCTAGT
* * * * *
91406 ATTTCATCCTCTTTTCTGTGTCAACTTTGTTACCAATAGACGATGCTTCTCACACGAGCTGCCAA
1 ATTTCATCCTCATGTCTGTATCAACTCTGTTACCAATAGACGATGCTTCTCACACGAGCTACCAA
* *
91471 TGACTCGCAAC-ATGCGGTACCTCAGCCATCGATACGGTATGCTATAATCTCGA
66 GGACTCGCAACAATGCGGTACCTCAACCATCGATACGGTATGCTATAATCTCGA
* * * * * *
91524 ATTTCATTCTCATGTCTGTATCAACTCTGTTGCCAGTATACGATG-TTGCTCACACGAGCTATCG
1 ATTTCATCCTCATGTCTGTATCAACTCTGTTACCAATAGACGATGCTT-CTCACACGAGCTACCA
* * *
91588 AGGACTCGCAACATATGCTGTTCCTCAACCATCGATATGGTAT
65 AGGACTCGCAACA-ATGCGGTACCTCAACCATCGATACGGTAT
91631 ATGTGCATAA
Statistics
Matches: 88, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
117 2 0.02
118 61 0.69
120 25 0.28
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (119 bp):
ATTTCATCCTCATGTCTGTATCAACTCTGTTACCAATAGACGATGCTTCTCACACGAGCTACCAA
GGACTCGCAACAATGCGGTACCTCAACCATCGATACGGTATGCTATAATCTCGA
Found at i:92977 original size:88 final size:88
Alignment explanation
Indices: 92828--92995 Score: 309
Period size: 88 Copynumber: 1.9 Consensus size: 88
92818 ATTTACTCCT
*
92828 TTTTCCTTAATTAAGAGATAGATCATCAAAATTACCCGACCAAACTTCAATTCACAAATAATAAC
1 TTTTCCTTAATTAAGAGATAAATCATCAAAATTACCCGACCAAACTTCAATTCACAAATAATAAC
92893 ACTATGTAAATATTTTACTTTTA
66 ACTATGTAAATATTTTACTTTTA
* *
92916 TTTTCCTTAATTAAGAGATAAATCATCAAAATTACCTGACCAAACTTCAATTCACAAATAATAAG
1 TTTTCCTTAATTAAGAGATAAATCATCAAAATTACCCGACCAAACTTCAATTCACAAATAATAAC
92981 ACTATGTAAATATTT
66 ACTATGTAAATATTT
92996 AATAAAAATA
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
88 77 1.00
ACGTcount: A:0.42, C:0.17, G:0.06, T:0.35
Consensus pattern (88 bp):
TTTTCCTTAATTAAGAGATAAATCATCAAAATTACCCGACCAAACTTCAATTCACAAATAATAAC
ACTATGTAAATATTTTACTTTTA
Found at i:95481 original size:21 final size:22
Alignment explanation
Indices: 95457--95497 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
95447 CTACCTGCTA
*
95457 TGTCGTGACATAGAC-CTTGAG
1 TGTCGCGACATAGACTCTTGAG
*
95478 TGTCGCGACATCGACTCTTG
1 TGTCGCGACATAGACTCTTG
95498 GACATGAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.20, C:0.24, G:0.27, T:0.29
Consensus pattern (22 bp):
TGTCGCGACATAGACTCTTGAG
Found at i:96297 original size:3 final size:3
Alignment explanation
Indices: 96285--96316 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
96275 CTTTTTAACA
96285 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
96317 CAAACCCCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:119025 original size:17 final size:17
Alignment explanation
Indices: 119003--119036 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
118993 CTAAGAATTT
119003 AAAGAAAATAAATTTAA
1 AAAGAAAATAAATTTAA
* *
119020 AAAGAAACTCAATTTAA
1 AAAGAAAATAAATTTAA
119037 GTATCAGCCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.24
Consensus pattern (17 bp):
AAAGAAAATAAATTTAA
Found at i:119927 original size:23 final size:23
Alignment explanation
Indices: 119875--119929 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
119865 TCAATCCTTG
* *
119875 CTGACTAGACCTTCTAGAAGCTG
1 CTGACTGGACCTTCTAGAAGCTA
*
119898 CTGACTGGACTTTCTAGAAGCTA
1 CTGACTGGACCTTCTAGAAGCTA
119921 CTGACTGGA
1 CTGACTGGA
119930 TGTCACGTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (23 bp):
CTGACTGGACCTTCTAGAAGCTA
Found at i:120767 original size:53 final size:51
Alignment explanation
Indices: 120667--120778 Score: 118
Period size: 53 Copynumber: 2.1 Consensus size: 51
120657 AACCATTTTG
** * * *
120667 TTTTCTTCTTTTTCTCCTTTTATTTCTCTTTTTTTTTTCTTTTTTCGAACC
1 TTTTCTTCTTTTTCTCCTTTTATTTCTAGTTTTTTATTCTGTATTCGAACC
*
120718 TTTTGCTT-TTTTTCTCCTTCTTTATTTTTAGTTTTTTATTCTGTATTCGAACTC
1 TTTT-CTTCTTTTTCTCC-T-TTTATTTCTAGTTTTTTATTCTGTATTCGAAC-C
*
120772 CTTTCTT
1 TTTTCTT
120779 TGCTCTTTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
51 13 0.26
52 4 0.08
53 29 0.58
54 4 0.08
ACGTcount: A:0.08, C:0.20, G:0.04, T:0.68
Consensus pattern (51 bp):
TTTTCTTCTTTTTCTCCTTTTATTTCTAGTTTTTTATTCTGTATTCGAACC
Found at i:125670 original size:17 final size:17
Alignment explanation
Indices: 125648--125681 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
125638 CTAAGAATTT
125648 AAAGAAAATAAATTTAA
1 AAAGAAAATAAATTTAA
* *
125665 AAAGAAACTTAATTTAA
1 AAAGAAAATAAATTTAA
125682 GTATCAGCCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.26
Consensus pattern (17 bp):
AAAGAAAATAAATTTAA
Found at i:126534 original size:23 final size:23
Alignment explanation
Indices: 126506--126552 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
126496 CGTCAATCCT
126506 TGCTGACTAGACCTTCTAGAAGC
1 TGCTGACTAGACCTTCTAGAAGC
* *
126529 TGCTGATTGGACCTTCTAGAAGC
1 TGCTGACTAGACCTTCTAGAAGC
126552 T
1 T
126553 AATGACTGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.30
Consensus pattern (23 bp):
TGCTGACTAGACCTTCTAGAAGC
Found at i:126562 original size:23 final size:23
Alignment explanation
Indices: 126509--126562 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
126499 CAATCCTTGC
* **
126509 TGACTAGACCTTCTAGAAGCTGC
1 TGACTGGACCTTCTAGAAGCTAA
*
126532 TGATTGGACCTTCTAGAAGCTAA
1 TGACTGGACCTTCTAGAAGCTAA
126555 TGACTGGA
1 TGACTGGA
126563 TGCCATATCA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (23 bp):
TGACTGGACCTTCTAGAAGCTAA
Found at i:135125 original size:21 final size:20
Alignment explanation
Indices: 135101--135140 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
135091 TAACCAAATC
*
135101 GGAACAAATCAAAACATTTTA
1 GGAAAAAATCAAAA-ATTTTA
*
135122 GGAAAAAATTAAAAATTTT
1 GGAAAAAATCAAAAATTTT
135141 GCCTTATAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.55, C:0.07, G:0.10, T:0.28
Consensus pattern (20 bp):
GGAAAAAATCAAAAATTTTA
Found at i:136167 original size:31 final size:32
Alignment explanation
Indices: 136112--136188 Score: 84
Period size: 31 Copynumber: 2.4 Consensus size: 32
136102 TGCTTATAAG
* * *
136112 AGCTAATCAATCAGTGAATAGTATGATCGTAAT
1 AGCT-ATCAACCAGTGAACAGTATGATCGTAAA
* *
136145 AGTTATCAACCAGT-AACAGTATGCTCGTAAA
1 AGCTATCAACCAGTGAACAGTATGATCGTAAA
136176 AGCTATTCAACCA
1 AGCTA-TCAACCA
136189 ACACATCGGT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
31 18 0.49
32 16 0.43
33 3 0.08
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (32 bp):
AGCTATCAACCAGTGAACAGTATGATCGTAAA
Found at i:145262 original size:60 final size:60
Alignment explanation
Indices: 145169--145341 Score: 206
Period size: 60 Copynumber: 2.9 Consensus size: 60
145159 CTAATATAAC
* * * **
145169 ATTTGATACTTGAACTGGACACATTTTTTTAATTTGGTATCTAAA-TTTATTTTTTACCCA
1 ATTTGGTACTTGAACTTGACAAATTTTTTTAATTTGGTATCTAAACTTT-TTTTGGACCCA
* * *
145229 ATTTGGTACTTGGATTTGACAAATTTTTTTAATTTGGTATCTAAACTTTTTTTGGATCCA
1 ATTTGGTACTTGAACTTGACAAATTTTTTTAATTTGGTATCTAAACTTTTTTTGGACCCA
** * *
145289 ATTTGGTACTTGAACTTGAC-AATATTTCCTAATTTGGTATTTAAGCTTTTTTT
1 ATTTGGTACTTGAACTTGACAAAT-TTTTTTAATTTGGTATCTAAACTTTTTTT
145342 AAGATTCAAT
Statistics
Matches: 97, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
59 3 0.03
60 91 0.94
61 3 0.03
ACGTcount: A:0.26, C:0.12, G:0.13, T:0.50
Consensus pattern (60 bp):
ATTTGGTACTTGAACTTGACAAATTTTTTTAATTTGGTATCTAAACTTTTTTTGGACCCA
Found at i:145589 original size:30 final size:30
Alignment explanation
Indices: 145553--145628 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 30
145543 TGGATCCCAA
145553 AAGTTTAAGTACCAACTTA-AAAAAAGTGTC
1 AAGTTTAAGTACCAA-TTAGAAAAAAGTGTC
* * *
145583 AAGTTTAGGTACCATATTAGGAAAAAGTGTT
1 AAGTTTAAGTACCA-ATTAGAAAAAAGTGTC
* *
145614 AAGTTTGATTACCAA
1 AAGTTTAAGTACCAA
145629 ATTGGACCAA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
30 17 0.45
31 21 0.55
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.30
Consensus pattern (30 bp):
AAGTTTAAGTACCAATTAGAAAAAAGTGTC
Found at i:148483 original size:29 final size:29
Alignment explanation
Indices: 148441--148499 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
148431 CTCGACACAG
148441 ATATTAGAAGAAGAACATGGTAAGGCCCA
1 ATATTAGAAGAAGAACATGGTAAGGCCCA
148470 ATATTAGAAGAAGAACATGGTAAGGCCCA
1 ATATTAGAAGAAGAACATGGTAAGGCCCA
148499 A
1 A
148500 AGCTGTCTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.46, C:0.14, G:0.24, T:0.17
Consensus pattern (29 bp):
ATATTAGAAGAAGAACATGGTAAGGCCCA
Found at i:152172 original size:5 final size:5
Alignment explanation
Indices: 152150--152187 Score: 51
Period size: 5 Copynumber: 7.4 Consensus size: 5
152140 TTTTTTTTAT
152150 ATATA TATATA TATATA ATATA ATATA ATATA AT-TA AT
1 ATATA -ATATA -ATATA ATATA ATATA ATATA ATATA AT
152188 TTTATTTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.12
5 17 0.53
6 11 0.34
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (5 bp):
ATATA
Found at i:155008 original size:23 final size:23
Alignment explanation
Indices: 154978--155032 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
154968 TCAACTGCTC
154978 ATTGGGACGAAGAGCTTCTCCTT
1 ATTGGGACGAAGAGCTTCTCCTT
155001 ATTGGGACGAAGAGCTTCTCCTT
1 ATTGGGACGAAGAGCTTCTCCTT
* *
155024 GTTGCGACG
1 ATTGGGACG
155033 TCACACACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (23 bp):
ATTGGGACGAAGAGCTTCTCCTT
Found at i:156613 original size:11 final size:12
Alignment explanation
Indices: 156589--156617 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
156579 TTTAGGCTCT
156589 AATAAAAGAATA
1 AATAAAAGAATA
156601 AATAAAA-AATA
1 AATAAAAGAATA
156612 AATAAA
1 AATAAA
156618 GTTGATTGCG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.59
12 7 0.41
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.17
Consensus pattern (12 bp):
AATAAAAGAATA
Found at i:158785 original size:17 final size:17
Alignment explanation
Indices: 158765--158844 Score: 74
Period size: 17 Copynumber: 4.6 Consensus size: 17
158755 TTCATTTTGG
158765 GTTTAAATTTAGTTTAA
1 GTTTAAATTTAGTTTAA
* **
158782 GTTTAACTTTTCTTTTAA
1 GTTTAA-ATTTAGTTTAA
**
158800 GTTTAAATTTAAATTAA
1 GTTTAAATTTAGTTTAA
158817 GTTTAAATTT-GATTTGAA
1 GTTTAAATTTAG-TTT-AA
158835 -TTTAAATTTA
1 GTTTAAATTTA
158845 AATTAATTAA
Statistics
Matches: 50, Mismatches: 9, Indels: 7
0.76 0.14 0.11
Matches are distributed among these distances:
17 34 0.68
18 16 0.32
ACGTcount: A:0.35, C:0.03, G:0.09, T:0.54
Consensus pattern (17 bp):
GTTTAAATTTAGTTTAA
Found at i:158804 original size:35 final size:35
Alignment explanation
Indices: 158765--158850 Score: 111
Period size: 35 Copynumber: 2.5 Consensus size: 35
158755 TTCATTTTGG
** * ** *
158765 GTTTAAATTTAGTTTAAGTTTAACTTTTCTTTTAA
1 GTTTAAATTTAAATTAAGTTTAAATTTGATTTGAA
158800 GTTTAAATTTAAATTAAGTTTAAATTTGATTTGAA
1 GTTTAAATTTAAATTAAGTTTAAATTTGATTTGAA
158835 -TTTAAATTTAAATTAA
1 GTTTAAATTTAAATTAA
158851 TTAAAAAGTC
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
34 16 0.36
35 29 0.64
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.52
Consensus pattern (35 bp):
GTTTAAATTTAAATTAAGTTTAAATTTGATTTGAA
Found at i:158821 original size:11 final size:11
Alignment explanation
Indices: 158802--158850 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
158792 TCTTTTAAGT
158802 TTAAATTTAAA
1 TTAAATTTAAA
*
158813 TTAAGTTTAAA
1 TTAAATTTAAA
** *
158824 TTTGATTTGAAT
1 TTAAATTT-AAA
158836 TTAAATTTAAA
1 TTAAATTTAAA
158847 TTAA
1 TTAA
158851 TTAAAAAGTC
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
11 21 0.72
12 8 0.28
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:158837 original size:6 final size:6
Alignment explanation
Indices: 158795--158848 Score: 58
Period size: 6 Copynumber: 9.3 Consensus size: 6
158785 TAACTTTTCT
* * * *
158795 TTTAAG TTTAAA TTTAAA -TTAAG TTTAAA TTT-GA TTTGAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
158841 TTTAAA TT
1 TTTAAA TT
158849 AATTAAAAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
5 8 0.20
6 32 0.80
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:158936 original size:37 final size:37
Alignment explanation
Indices: 158895--158966 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
158885 ACTCGATTAG
* *
158895 GCCCAATTACAAATGGCCCAAATT-ACCTAAACCCAAA
1 GCCCAATTACAAATGACCC-AATTCAACTAAACCCAAA
*
158932 GCCCAATTACAACTGACCCAATTCAACTAAACCCA
1 GCCCAATTACAAATGACCCAATTCAACTAAACCCA
158967 TTGACCCAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
36 4 0.13
37 27 0.87
ACGTcount: A:0.42, C:0.35, G:0.07, T:0.17
Consensus pattern (37 bp):
GCCCAATTACAAATGACCCAATTCAACTAAACCCAAA
Found at i:159556 original size:3 final size:3
Alignment explanation
Indices: 159548--159601 Score: 74
Period size: 3 Copynumber: 18.0 Consensus size: 3
159538 TTAATTATAG
* *
159548 TAA TAA TAA TAT TAA TAA TAA T-A TAA TAA TTAA TAA TAA TAA TAT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA
159593 TAA TAA TAA
1 TAA TAA TAA
159602 ATAAAAGAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
2 2 0.04
3 40 0.89
4 3 0.07
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:160701 original size:30 final size:29
Alignment explanation
Indices: 160665--160725 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
160655 CCTTAAAGGT
*
160665 CCTTAAACTGTT-CAGAAATTACATTTTTAC
1 CCTTAAACT-TTCCA-AAATTACATTTTGAC
*
160695 CCTTAAACTTTCCAAAATTCCATTTTGAC
1 CCTTAAACTTTCCAAAATTACATTTTGAC
160724 CC
1 CC
160726 CACTTTTTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 17 0.61
30 11 0.39
ACGTcount: A:0.31, C:0.26, G:0.05, T:0.38
Consensus pattern (29 bp):
CCTTAAACTTTCCAAAATTACATTTTGAC
Found at i:160718 original size:29 final size:28
Alignment explanation
Indices: 160680--160932 Score: 111
Period size: 29 Copynumber: 8.6 Consensus size: 28
160670 AACTGTTCAG
*
160680 AAATTACATTTTTACCCTTAAACTTTCCA
1 AAATTACATTTTTACCC-CAAACTTTCCA
* * ***
160709 AAATTCCATTTTGACCCCACTTTTTCCAA
1 AAATTACATTTTTACCCCAAACTTTCC-A
* *
160738 AAATTACACTTTTACTCCCGAACTTTCCA
1 AAATTACATTTTTAC-CCCAAACTTTCCA
* * **
160767 AAATTCCATTTTTGACCCCGATTTTTCCAA
1 AAATTACATTTTT-ACCCCAAACTTTCC-A
*
160797 AAATCACCA-TTTTACCTCCAAAC-TTCCAA
1 AAATTA-CATTTTTACC-CCAAACTTTCC-A
* * * *
160826 AAATTCCATTTTTAACCCC-GATTCTTCAAA
1 AAATTACATTTTT-ACCCCAAACT-TTC-CA
* * *
160856 AAAGTACCA-TTTTAGCCCCAAA-TATCTAA
1 AAATTA-CATTTTTA-CCCCAAACTTTC-CA
* *
160885 AAATTCCATTTTTAACCCCTAACTTTCCCA
1 AAATTACATTTTT-ACCCCAAACTTT-CCA
*
160915 AAATTACCATTTTGACCC
1 AAATTA-CATTTTTACCC
160933 TCGAGTACCA
Statistics
Matches: 166, Mismatches: 39, Indels: 37
0.69 0.16 0.15
Matches are distributed among these distances:
28 11 0.07
29 88 0.53
30 55 0.33
31 12 0.07
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (28 bp):
AAATTACATTTTTACCCCAAACTTTCCA
Found at i:160810 original size:59 final size:57
Alignment explanation
Indices: 160700--160932 Score: 231
Period size: 59 Copynumber: 4.0 Consensus size: 57
160690 TTTACCCTTA
*
160700 AACTTTCCAAAATTCCA-TTTTGACCCC-ACTTTTTCCAAAAATTA-CACTTTTACTCCC
1 AACTTTCCAAAATTCCATTTTTAACCCCGA-TTTTTCCAAAAATTACCA-TTTTAC-CCC
* *
160757 GAACTTTCCAAAATTCCATTTTTGACCCCGATTTTTCCAAAAATCACCATTTTACCTCC
1 -AACTTTCCAAAATTCCATTTTTAACCCCGATTTTTCCAAAAATTACCATTTTACC-CC
* * *
160816 AAAC-TTCCAAAAATTCCATTTTTAACCCCGATTCTTCAAAAAAGTACCATTTTAGCCCC
1 -AACTTTCC-AAAATTCCATTTTTAACCCCGATTTTTCCAAAAATTACCATTTTA-CCCC
* * * * ** *
160875 AAATATCTAAAAATTCCATTTTTAACCCCTAACTTTCCCAAAATTACCATTTTGACCC
1 AACTTTC-CAAAATTCCATTTTTAACCCCGATTTTTCCAAAAATTACCATTTT-ACCC
160933 TCGAGTACCA
Statistics
Matches: 149, Mismatches: 17, Indels: 17
0.81 0.09 0.09
Matches are distributed among these distances:
58 24 0.16
59 119 0.80
60 6 0.04
ACGTcount: A:0.33, C:0.30, G:0.03, T:0.34
Consensus pattern (57 bp):
AACTTTCCAAAATTCCATTTTTAACCCCGATTTTTCCAAAAATTACCATTTTACCCC
Found at i:160946 original size:28 final size:28
Alignment explanation
Indices: 160912--160972 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
160902 CCTAACTTTC
160912 CCAAAATTACCATTTTGACCCTCGAGTA-
1 CCAAAATTACCATTTTG-CCCTCGAGTAT
* * *
160940 CCAAAATTATCGTTTTGCCCTCGGGTAT
1 CCAAAATTACCATTTTGCCCTCGAGTAT
160968 CCAAA
1 CCAAA
160973 GATCACATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 9 0.31
28 20 0.69
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.30
Consensus pattern (28 bp):
CCAAAATTACCATTTTGCCCTCGAGTAT
Found at i:160983 original size:28 final size:28
Alignment explanation
Indices: 160912--160983 Score: 67
Period size: 28 Copynumber: 2.6 Consensus size: 28
160902 CCTAACTTTC
* *
160912 CCAAAATTACCATTTTGACCCTCGAGTA
1 CCAAAATCATCATTTTGACCCTCGAGTA
* * *
160940 CCAAAATTATCGTTTTG-CCCTCGGGTA
1 CCAAAATCATCATTTTGACCCTCGAGTA
160967 TCCAAAGATCA-CATTTT
1 -CCAAA-ATCATCATTTT
160984 CAACTCCGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 9 0.24
28 25 0.68
29 3 0.08
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (28 bp):
CCAAAATCATCATTTTGACCCTCGAGTA
Found at i:161338 original size:97 final size:95
Alignment explanation
Indices: 161207--161380 Score: 240
Period size: 97 Copynumber: 1.8 Consensus size: 95
161197 GCGATATTAT
* * * *
161207 TTTATTTCGAATTTTGAAAATTTGTGCCTTAACTTACTAGGCACGATTTTTCTTCAAATCAAAAT
1 TTTATCTCGAATTTTGAAAATTTGTACCTAAACTTACTAGGCACGA-CTTT-TTCAAATCAAAAT
161272 AATCGAATACCCTTAATTCGAGACAATGTTTC
64 AATCGAATACCCTTAATTCGAGACAATGTTTC
* ** * *
161304 TTTATCTCTAATTTTGAAAATTTGTACCTAAACTTACTAGGTGCGACTTTTTCAAATCGAGATAA
1 TTTATCTCGAATTTTGAAAATTTGTACCTAAACTTACTAGGCACGACTTTTTCAAATCAAAATAA
*
161369 TCGAATATCCTT
66 TCGAATACCCTT
161381 TTTCGAAGTT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
95 24 0.36
96 3 0.04
97 40 0.60
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.40
Consensus pattern (95 bp):
TTTATCTCGAATTTTGAAAATTTGTACCTAAACTTACTAGGCACGACTTTTTCAAATCAAAATAA
TCGAATACCCTTAATTCGAGACAATGTTTC
Found at i:167291 original size:18 final size:18
Alignment explanation
Indices: 167264--167307 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
167254 CAAATATGAA
167264 GGAAAAGAAGAAAGAGAT
1 GGAAAAGAAGAAAGAGAT
* **
167282 GGAAAGGAAGCGAGAGAT
1 GGAAAAGAAGAAAGAGAT
167300 GAGAAAAG
1 G-GAAAAG
167308 CACGATTGGT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.55, C:0.02, G:0.39, T:0.05
Consensus pattern (18 bp):
GGAAAAGAAGAAAGAGAT
Found at i:172069 original size:49 final size:50
Alignment explanation
Indices: 172007--172373 Score: 235
Period size: 49 Copynumber: 7.4 Consensus size: 50
171997 GTACGACGAA
*
172007 ACATGAAGGGAAAGATTTAAGCTGCAACGGTGAATCCAGTACC-AAGAAG
1 ACATGAAGGGAAAGATTTAAGCTGCAACGGCGAATCCAGTACCTAAGAAG
* * * * *
172056 ATATGGAGGGAAAGGTTTAAG-TCGCAACGGCGAA-CCTTGTACCTTAG-AG
1 ACATGAAGGGAAAGATTTAAGCT-GCAACGGCGAATCC-AGTACCTAAGAAG
* * * * * * *
172105 ACATGAAGAGAAAGATCTAAACCGCAACGGCGGATCTAGTACCACAATGAAG
1 ACATGAAGGGAAAGATTTAAGCTGCAACGGCGAATCCAGTACC-TAA-GAAG
* * * *
172157 ACA-CAAGGGAAAGGTTTAAG-TCGCAATGGCGAA-CCTAGTACCTCAGAAG
1 ACATGAAGGGAAAGATTTAAGCT-GCAACGGCGAATCC-AGTACCTAAGAAG
* * *
172206 ACATGAAGGGAAAGATCTAAGCCGCAACGGAGAATCCAGTA-CT--GCAATG
1 ACATGAAGGGAAAGATTTAAGCTGCAACGGCGAATCCAGTACCTAAG-AA-G
** * * **
172255 ACACAAAGGGAAA-AGTTTAAG-TCGTAACGACGAA-CCTAGTACCCCA-AAG
1 ACATGAAGGGAAAGA-TTTAAGCT-GCAACGGCGAATCC-AGTACCTAAGAAG
* *
172304 ACATGAAGGGAAAGATCTAAGCTGCAACGGCGGATCCAGTACC-ACA-AAG
1 ACATGAAGGGAAAGATTTAAGCTGCAACGGCGAATCCAGTACCTA-AGAAG
** *
172353 ACAAAAAGGGAAAGGTTTAAG
1 ACATGAAGGGAAAGATTTAAG
172374 TCGTAACGAT
Statistics
Matches: 239, Mismatches: 54, Indels: 50
0.70 0.16 0.15
Matches are distributed among these distances:
47 1 0.00
48 8 0.03
49 155 0.65
50 40 0.17
51 30 0.13
52 5 0.02
ACGTcount: A:0.40, C:0.19, G:0.26, T:0.16
Consensus pattern (50 bp):
ACATGAAGGGAAAGATTTAAGCTGCAACGGCGAATCCAGTACCTAAGAAG
Found at i:172324 original size:98 final size:98
Alignment explanation
Indices: 172007--172493 Score: 573
Period size: 98 Copynumber: 4.9 Consensus size: 98
171997 GTACGACGAA
* * * * * ***
172007 ACATGAAGGGAAAGATTTAAGCTGCAACGGTGAATCCAGTACCA-AGAAGATATGGAGGGAAAGG
1 ACATGAAGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACA-AAGACACAAAGGGAAAGG
* ** *
172071 TTTAAGTCGCAACGGCGAACCTTGTACCTTAGAG
65 TTTAAGTCGCAACGGCGAACCTAGTACCCCAAAG
* * *
172105 ACATGAAGAGAAAGATCTAAACCGCAACGGCGGATCTAGTACCACAATGAAGACAC-AAGGGAAA
1 ACATGAAGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCAC-A--AAGACACAAAGGGAAA
* *
172169 GGTTTAAGTCGCAATGGCGAACCTAGTACCTCAGAAG
63 GGTTTAAGTCGCAACGGCGAACCTAGTACCCCA-AAG
* * ** * *
172206 ACATGAAGGGAAAGATCTAAGCCGCAACGGAGAATCCAGTACTGCAATGACACAAAGGGAAAAGT
1 ACATGAAGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACAAAGACACAAAGGGAAAGGT
* *
172271 TTAAGTCGTAACGACGAACCTAGTACCCCAAAG
66 TTAAGTCGCAACGGCGAACCTAGTACCCCAAAG
* *
172304 ACATGAAGGGAAAGATCTAAGCTGCAACGGCGGATCCAGTACCACAAAGACAAAAAGGGAAAGGT
1 ACATGAAGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACAAAGACACAAAGGGAAAGGT
* **
172369 TTAAGTCGTAACGATGAACCTAGTACCCCAAAG
66 TTAAGTCGCAACGGCGAACCTAGTACCCCAAAG
* * * * * *
172402 ACATGAAAGGAAAAATCTAAGCCTCAACGGCGGATCTAGTACCGCAAAGACACAAAGGGAAGGGT
1 ACATGAAGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACAAAGACACAAAGGGAAAGGT
* *
172467 TTAAGTCGCAATGGCGAACCTTGTACC
66 TTAAGTCGCAACGGCGAACCTAGTACC
172494 TTAGAAACAT
Statistics
Matches: 335, Mismatches: 49, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
98 214 0.64
99 36 0.11
100 39 0.12
101 46 0.14
ACGTcount: A:0.39, C:0.20, G:0.25, T:0.16
Consensus pattern (98 bp):
ACATGAAGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACAAAGACACAAAGGGAAAGGT
TTAAGTCGCAACGGCGAACCTAGTACCCCAAAG
Found at i:172347 original size:199 final size:194
Alignment explanation
Indices: 172007--172493 Score: 584
Period size: 199 Copynumber: 2.5 Consensus size: 194
171997 GTACGACGAA
* * * *
172007 ACATGAAGGGAAAGATTTAAGCTGCAACGGTGAATCCAGTAC-CAAGA-AGATATGGAGGGAAAG
1 ACATGAAGGGAAAGATCTAAGCCGCAACGGAGAATCCAGTACGCAAGACACA-A---AGGGAAAG
** *
172070 GTTTAAGTCGCAACGGCGAACCTTGTACCTTAGAGACATGAAGAGAAAGATCTAAACCGCAACGG
62 GTTTAAGTCGCAACGGCGAACCTTGTACCCCAAAGACATGAAGAGAAAGATCTAAACCGCAACGG
* * * *
172135 CGGATCTAGTACCACAATGAAGAC-ACAAGGGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACC
127 CGGATCCAGTACCAC-A--AAGACAAAAAGGGAAAGGTTTAAGTCGCAACGACGAACCTAGTACC
*
172199 TCAGAAG
189 CCA-AAG
*
172206 ACATGAAGGGAAAGATCTAAGCCGCAACGGAGAATCCAGTACTGCAATGACACAAAGGGAAAAGT
1 ACATGAAGGGAAAGATCTAAGCCGCAACGGAGAATCCAGTAC-GCAA-GACACAAAGGGAAAGGT
* * * * * *
172271 TTAAGTCGTAACGACGAACCTAGTACCCCAAAGACATGAAGGGAAAGATCTAAGCTGCAACGGCG
64 TTAAGTCGCAACGGCGAACCTTGTACCCCAAAGACATGAAGAGAAAGATCTAAACCGCAACGGCG
* *
172336 GATCCAGTACCACAAAGACAAAAAGGGAAAGGTTTAAGTCGTAACGATGAACCTAGTACCCCAAA
129 GATCCAGTACCACAAAGACAAAAAGGGAAAGGTTTAAGTCGCAACGACGAACCTAGTACCCCAAA
172401 G
194 G
* * * * * * *
172402 ACATGAAAGGAAAAATCTAAGCCTCAACGGCGGATCTAGTACCGCAAAGACACAAAGGGAAGGGT
1 ACATGAAGGGAAAGATCTAAGCCGCAACGGAGAATCCAGTA-CGC-AAGACACAAAGGGAAAGGT
*
172467 TTAAGTCGCAATGGCGAACCTTGTACC
64 TTAAGTCGCAACGGCGAACCTTGTACC
172494 TTAGAAACAT
Statistics
Matches: 248, Mismatches: 33, Indels: 17
0.83 0.11 0.06
Matches are distributed among these distances:
196 83 0.33
197 40 0.16
198 1 0.00
199 116 0.47
201 3 0.01
202 3 0.01
203 2 0.01
ACGTcount: A:0.39, C:0.20, G:0.25, T:0.16
Consensus pattern (194 bp):
ACATGAAGGGAAAGATCTAAGCCGCAACGGAGAATCCAGTACGCAAGACACAAAGGGAAAGGTTT
AAGTCGCAACGGCGAACCTTGTACCCCAAAGACATGAAGAGAAAGATCTAAACCGCAACGGCGGA
TCCAGTACCACAAAGACAAAAAGGGAAAGGTTTAAGTCGCAACGACGAACCTAGTACCCCAAAG
Found at i:172394 original size:49 final size:49
Alignment explanation
Indices: 172062--172493 Score: 264
Period size: 49 Copynumber: 8.8 Consensus size: 49
172052 GAAGATATGG
* * ** * **
172062 AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTTAGAGACATGA
1 AGGGAAAGGTTTAAGTCGCAACGACGAACCTAGTACCCCAAAGACACAA
* * * ** * * * *
172111 AGAGAAAGATCTAAACCGCAACGGCGGATCTAGTACCACAATGAAGACAC-A
1 AGGGAAAGGTTTAAGTCGCAACGACGAACCTAGTACC-CCA--AAGACACAA
* * * **
172162 AGGGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAGAAGACATGA
1 AGGGAAAGGTTTAAGTCGCAACGACGAACCTAGTACCCCA-AAGACACAA
* * * ** *
172212 AGGGAAAGATCTAAGCCGCAACGGA-GAATCC-AGTACTGCAATGACACAA
1 AGGGAAAGGTTTAAGTCGCAAC-GACGAA-CCTAGTACCCCAAAGACACAA
* * **
172261 AGGGAAAAGTTTAAGTCGTAACGACGAACCTAGTACCCCAAAGACATGA
1 AGGGAAAGGTTTAAGTCGCAACGACGAACCTAGTACCCCAAAGACACAA
* * * * * *
172310 AGGGAAAGATCTAAG-CTGCAACGGCGGATCC-AGTACCACAAAGACAAAA
1 AGGGAAAGGTTTAAGTC-GCAACGAC-GAACCTAGTACCCCAAAGACACAA
* * *
172359 AGGGAAAGGTTTAAGTCGTAACGATGAACCTAGTACCCCAAAGACATGAA
1 AGGGAAAGGTTTAAGTCGCAACGACGAACCTAGTACCCCAAAGACA-CAA
** * * * * * * *
172409 A-GGAAAAATCTAAGCCTCAACGGCGGATCTAGTACCGCAAAGACACAA
1 AGGGAAAGGTTTAAGTCGCAACGACGAACCTAGTACCCCAAAGACACAA
* * * *
172457 AGGGAAGGGTTTAAGTCGCAATGGCGAACCTTGTACC
1 AGGGAAAGGTTTAAGTCGCAACGACGAACCTAGTACC
172494 TTAGAAACAT
Statistics
Matches: 287, Mismatches: 82, Indels: 28
0.72 0.21 0.07
Matches are distributed among these distances:
48 12 0.04
49 198 0.69
50 39 0.14
51 33 0.11
52 5 0.02
ACGTcount: A:0.39, C:0.21, G:0.25, T:0.16
Consensus pattern (49 bp):
AGGGAAAGGTTTAAGTCGCAACGACGAACCTAGTACCCCAAAGACACAA
Found at i:172493 original size:147 final size:146
Alignment explanation
Indices: 172062--172493 Score: 383
Period size: 147 Copynumber: 2.9 Consensus size: 146
172052 GAAGATATGG
* * ** * * *
172062 AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTTAGAGACATG-AAGAGAAAGATCTAAA
1 AGGGAAAGGTTTAAGTCGCAAC-GAGAACCTAGTACCCCAAAGACATGAAAG-GAAAAATCTAAG
*
172126 CCGCAACGGCGGATCTAGTACCACAATGAAGACACAAGGGAAAGGTTTAAGTCGCAATGGCGAAC
64 CCTCAACGGCGGATCTAGTACCAC-A--AAGACACAAGGGAAAGGTTTAAGTCGCAATGGCGAAC
* **
172191 CTAGTACCTCAGAAGACATGA
126 CTAGTACCACAGAAGACAAAA
* * * ** * * * *
172212 AGGGAAAGATCTAAGCCGCAACGGAGAATCC-AGTACTGCAATGACA-CAAAGGGAAAAGTTTAA
1 AGGGAAAGGTTTAAGTCGCAAC-GAGAA-CCTAGTACCCCAAAGACATGAAA-GGAAAAATCTAA
* * * * * * * * *
172275 GTCGT-AACGACGAACCTAGTACCCCAAAGACATGAAGGGAAAGATCTAAG-CTGCAACGGCGGA
63 G-CCTCAACGGCGGATCTAGTACCACAAAGACA-CAAGGGAAAGGTTTAAGTC-GCAATGGC-GA
*
172338 TCC-AGTACCACA-AAGACAAAA
124 ACCTAGTACCACAGAAGACAAAA
*
172359 AGGGAAAGGTTTAAGTCGTAACGATGAACCTAGTACCCCAAAGACATGAAAGGAAAAATCTAAGC
1 AGGGAAAGGTTTAAGTCGCAACGA-GAACCTAGTACCCCAAAGACATGAAAGGAAAAATCTAAGC
* * *
172424 CTCAACGGCGGATCTAGTACCGCAAAGACACAAAGGGAAGGGTTTAAGTCGCAATGGCGAACCTT
65 CTCAACGGCGGATCTAGTACCACAAAGACAC-AAGGGAAAGGTTTAAGTCGCAATGGCGAACCTA
172489 GTACC
129 GTACC
172494 TTAGAAACAT
Statistics
Matches: 217, Mismatches: 51, Indels: 31
0.73 0.17 0.10
Matches are distributed among these distances:
146 10 0.05
147 106 0.49
148 33 0.15
149 5 0.02
150 59 0.27
151 4 0.02
ACGTcount: A:0.39, C:0.21, G:0.25, T:0.16
Consensus pattern (146 bp):
AGGGAAAGGTTTAAGTCGCAACGAGAACCTAGTACCCCAAAGACATGAAAGGAAAAATCTAAGCC
TCAACGGCGGATCTAGTACCACAAAGACACAAGGGAAAGGTTTAAGTCGCAATGGCGAACCTAGT
ACCACAGAAGACAAAA
Found at i:173215 original size:17 final size:17
Alignment explanation
Indices: 173195--173257 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
173185 TTCATTTTGG
173195 GTTTAAATTTAGTTTAA
1 GTTTAAATTTAGTTTAA
* **
173212 GTTTAACTTTTCTTTTAA
1 GTTTAA-ATTTAGTTTAA
173230 GTTTAAATTT-GATTTGAA
1 GTTTAAATTTAG-TTT-AA
173248 -TTTAAATTTA
1 GTTTAAATTTA
173258 AATTAATTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
17 21 0.57
18 16 0.43
ACGTcount: A:0.32, C:0.03, G:0.10, T:0.56
Consensus pattern (17 bp):
GTTTAAATTTAGTTTAA
Found at i:173375 original size:37 final size:37
Alignment explanation
Indices: 173308--173379 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
173298 ACCCGATTGG
* *
173308 GCCCAATTACAAATGGCTCAAATTACCTAAACCCAAA
1 GCCCAATTACAAATGACTCAAATTAACTAAACCCAAA
* *
173345 GCCCAATTACAATTGAC-CCAATTCAACTAAACCCA
1 GCCCAATTACAAATGACTCAAATT-AACTAAACCCA
173380 TTGACCCAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 5 0.17
37 25 0.83
ACGTcount: A:0.42, C:0.32, G:0.07, T:0.19
Consensus pattern (37 bp):
GCCCAATTACAAATGACTCAAATTAACTAAACCCAAA
Found at i:173902 original size:3 final size:3
Alignment explanation
Indices: 173894--174003 Score: 114
Period size: 3 Copynumber: 36.0 Consensus size: 3
173884 GCATTTTAAT
* ** * *
173894 TAA TAA TAA TAA TAA TAA AACA TTT TAA TTA CAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
* *
173940 TAA TAA TAA TAA TAA TAA CAT TAAA TAA TAA T-A TAA TAA TTAA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA -TAA TAA
*
173986 TAA TAA TAT TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
174004 ATAAAAGAAA
Statistics
Matches: 87, Mismatches: 16, Indels: 8
0.78 0.14 0.07
Matches are distributed among these distances:
2 2 0.02
3 79 0.91
4 6 0.07
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:173911 original size:31 final size:30
Alignment explanation
Indices: 173876--173942 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 30
173866 GCATACATTG
173876 AATAAATAGCATTTTAATT-AATAATAATAAT
1 AATAAA-A-CATTTTAATTAAATAATAATAAT
173907 AATAAAACATTTTAATTACAATAATAATAAT
1 AATAAAACATTTTAATTA-AATAATAATAAT
173938 AATAA
1 AATAA
173943 TAATAATAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
29 10 0.29
30 1 0.03
31 23 0.68
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.36
Consensus pattern (30 bp):
AATAAAACATTTTAATTAAATAATAATAAT
Found at i:173967 original size:37 final size:37
Alignment explanation
Indices: 173894--173993 Score: 125
Period size: 37 Copynumber: 2.7 Consensus size: 37
173884 GCATTTTAAT
* * *
173894 TAATAATAATAATAATAA-AACATTTTAATTACAATAA
1 TAATAATAATAATAATAATAATA-ATAAATTACAATAA
173931 TAATAATAATAATAATAATAATAATAACATTA-AATAA
1 TAATAATAATAATAATAATAATAATAA-ATTACAATAA
173968 TAAT-ATAATAATTAATAATAATAATA
1 TAATAATAATAA-TAATAATAATAATA
173994 TTAATAATAA
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
36 7 0.12
37 43 0.75
38 7 0.12
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (37 bp):
TAATAATAATAATAATAATAATAATAAATTACAATAA
Found at i:173984 original size:46 final size:45
Alignment explanation
Indices: 173889--174003 Score: 148
Period size: 46 Copynumber: 2.6 Consensus size: 45
173879 AAATAGCATT
*
173889 TTAATTAATAATAATAATAATAA-AACATTTTAATTACAATAATAA
1 TTAA-TAATAATAATAATAATAATAACATTATAATTACAATAATAA
173934 -TAATAATAATAATAATAATAATAACATTA-AATAATA-ATATAATAA
1 TTAATAATAATAATAATAATAATAACATTATAAT--TACA-ATAATAA
*
173979 TTAATAATAATAATATTAATAATAA
1 TTAATAATAATAATAATAATAATAA
174004 ATAAAAGAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
43 21 0.33
44 10 0.16
45 9 0.14
46 23 0.37
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (45 bp):
TTAATAATAATAATAATAATAATAACATTATAATTACAATAATAA
Found at i:174980 original size:29 final size:29
Alignment explanation
Indices: 174942--175105 Score: 132
Period size: 29 Copynumber: 5.5 Consensus size: 29
174932 AACTATCCAC
*
174942 AAATTACATTTTTACCCCTAAACTTTCTA
1 AAATTCCATTTTTACCCCTAAACTTTCTA
* ** *
174971 AAATTCCATTTTTAACCCTAATTTTTTTTCCA
1 AAATTCCATTTTTACCCCTAA---ACTTTCTA
* *
175003 AAAATCACATTTTTACCCCTGAACTTTCTA
1 AAATTC-CATTTTTACCCCTAAACTTTCTA
* * * * *
175033 AAATTCCATTTTTA-ACTTTAATTTTTTCA
1 AAATTCCATTTTTACCCCTAAACTTTCT-A
* * *
175062 AAAATCACATTTTTACCCTTAAACTTTCAA
1 AAATTC-CATTTTTACCCCTAAACTTTCTA
175092 AAATTCCATTTTTA
1 AAATTCCATTTTTA
175106 ACCTCGATTT
Statistics
Matches: 104, Mismatches: 24, Indels: 14
0.73 0.17 0.10
Matches are distributed among these distances:
28 8 0.08
29 41 0.39
30 24 0.23
31 8 0.08
32 10 0.10
33 13 0.12
ACGTcount: A:0.34, C:0.21, G:0.01, T:0.45
Consensus pattern (29 bp):
AAATTCCATTTTTACCCCTAAACTTTCTA
Found at i:175073 original size:30 final size:30
Alignment explanation
Indices: 174977--175133 Score: 115
Period size: 29 Copynumber: 5.2 Consensus size: 30
174967 TCTAAAATTC
*
174977 CATTTTTAACCCTAATTTTTTTTCCAAAAATCA
1 CATTTTTAACCTTAA--TTTTTT-CAAAAATCA
* * * * *
175010 CATTTTTACCCCTGAACTTTCT-AAAATTC-
1 CATTTTTA-ACCTTAATTTTTTCAAAAATCA
*
175039 CATTTTTAACTTTAATTTTTTCAAAAATCA
1 CATTTTTAACCTTAATTTTTTCAAAAATCA
* **
175069 CATTTTTACCCTTAA-ACTTTCAAAAATTC-
1 CATTTTTAACCTTAATTTTTTCAAAAA-TCA
** *
175098 CATTTTTAACCTCGATTTTTCCAAAAATCA
1 CATTTTTAACCTTAATTTTTTCAAAAATCA
175128 CCATTT
1 -CATTT
175134 ACCTCCAAAC
Statistics
Matches: 95, Mismatches: 22, Indels: 16
0.71 0.17 0.12
Matches are distributed among these distances:
28 8 0.08
29 37 0.39
30 29 0.31
31 5 0.05
32 4 0.04
33 8 0.08
34 4 0.04
ACGTcount: A:0.32, C:0.22, G:0.01, T:0.44
Consensus pattern (30 bp):
CATTTTTAACCTTAATTTTTTCAAAAATCA
Found at i:175145 original size:58 final size:59
Alignment explanation
Indices: 174951--175315 Score: 320
Period size: 59 Copynumber: 6.1 Consensus size: 59
174941 CAAATTACAT
* *
174951 TTTTACCCCTAAACTTTCTAAAATTCCATTTTTAACC-CTAATTTTTTTTCCAAAAATCA-CA
1 TTTTACCCCTAAACTTCCAAAAATTCCATTTTTAACCTC-AA---TTTTTCCAAAAATCACCA
* * * * * *
175012 TTTTTACCCCTGAACTTTCTAAAATTCCATTTTTAACTTTAATTTTTTCAAAAATCA-CA
1 -TTTTACCCCTAAACTTCCAAAAATTCCATTTTTAACCTCAATTTTTCCAAAAATCACCA
* * *
175071 TTTTTACCCTTAAACTTTCAAAAATTCCATTTTTAACCTCGATTTTTCCAAAAATCACCA
1 -TTTTACCCCTAAACTTCCAAAAATTCCATTTTTAACCTCAATTTTTCCAAAAATCACCA
* ** *
175131 -TTTACCTCC-AAACTTCCAAAAATTCCATTTTTGACACT-AATTTTTTTGAAAAAAATTACCA
1 TTTTACC-CCTAAACTTCCAAAAATTCCATTTTTAAC-CTCAA--TTTTT-CCAAAAATCACCA
* * * *
175192 -TTTACCCCTAAACTTCCAAAAATTCCATTTTTTACCTCGATTTCTCC-AAAATTACCA
1 TTTTACCCCTAAACTTCCAAAAATTCCATTTTTAACCTCAATTTTTCCAAAAATCACCA
* * * *
175249 TTTTA-CCCTCGAACTTCCAAAAATTCCATTTTTGACCCCGATTCTTT-CAAAAGAT-ACCA
1 TTTTACCCCT-AAACTTCCAAAAATTCCATTTTTAACCTCAATT-TTTCCAAAA-ATCACCA
175308 TTTTACCC
1 TTTTACCC
175316 TCAAATGTCT
Statistics
Matches: 261, Mismatches: 27, Indels: 32
0.82 0.08 0.10
Matches are distributed among these distances:
57 14 0.05
58 66 0.25
59 87 0.33
60 15 0.06
61 42 0.16
62 37 0.14
ACGTcount: A:0.33, C:0.25, G:0.02, T:0.40
Consensus pattern (59 bp):
TTTTACCCCTAAACTTCCAAAAATTCCATTTTTAACCTCAATTTTTCCAAAAATCACCA
Found at i:175212 original size:119 final size:116
Alignment explanation
Indices: 174942--175284 Score: 381
Period size: 119 Copynumber: 2.9 Consensus size: 116
174932 AACTATCCAC
* * *
174942 AAATTACATTTTTACCCCTAAACTTTCTAAAATTCCATTTTTAACC-CTAATTTTTTTTCCAAAA
1 AAATCACA-TTTTACCCCTAAACTTTCAAAAATTCCATTTTTAACCTC-GA---TTTTTCCAAAA
* * * ** *
175006 ATCA-CATTTTTACCCCTGAACTTTCTAAAATTCCATTTTTAACTTTAATTTTTTCAA
61 ATCACCA-TTTTACCCC-GAACTTCCAAAAATTCCATTTTTGACACTAATTTTTTAAA
*
175063 AAATCACATTTTTACCCTTAAACTTTCAAAAATTCCATTTTTAACCTCGATTTTTCCAAAAATCA
1 AAATCACA-TTTTACCCCTAAACTTTCAAAAATTCCATTTTTAACCTCGATTTTTCCAAAAATCA
*
175128 CCA-TTTACCTCCAAACTTCCAAAAATTCCATTTTTGACACTAATTTTTTTGAAAA
65 CCATTTTACC-CCGAACTTCCAAAAATTCCATTTTTGACACTAA-TTTTTT--AAA
* * * * *
175183 AAATTACCA-TTTACCCCTAAACTTCCAAAAATTCCATTTTTTACCTCGATTTCTCC-AAAATTA
1 AAATCA-CATTTTACCCCTAAACTTTCAAAAATTCCATTTTTAACCTCGATTTTTCCAAAAATCA
175246 CCATTTTACCCTCGAACTTCCAAAAATTCCATTTTTGAC
65 CCATTTTACCC-CGAACTTCCAAAAATTCCATTTTTGAC
175285 CCCGATTCTT
Statistics
Matches: 195, Mismatches: 18, Indels: 20
0.84 0.08 0.09
Matches are distributed among these distances:
117 31 0.16
118 33 0.17
119 77 0.39
120 7 0.04
121 46 0.24
122 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.02, T:0.40
Consensus pattern (116 bp):
AAATCACATTTTACCCCTAAACTTTCAAAAATTCCATTTTTAACCTCGATTTTTCCAAAAATCAC
CATTTTACCCCGAACTTCCAAAAATTCCATTTTTGACACTAATTTTTTAAA
Found at i:178279 original size:28 final size:28
Alignment explanation
Indices: 178246--178325 Score: 124
Period size: 28 Copynumber: 2.9 Consensus size: 28
178236 ACTTCAGTTT
*
178246 CTTCGTAGCTTCACTATGACAGTTTGCA
1 CTTCGTAGCTTCACTATGACAATTTGCA
*
178274 CTTCGTAGCTTCACTGTGACAATTTGCA
1 CTTCGTAGCTTCACTATGACAATTTGCA
**
178302 CTTCACAGCTTCACTATGACAATT
1 CTTCGTAGCTTCACTATGACAATT
178326 CACACTTTTC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (28 bp):
CTTCGTAGCTTCACTATGACAATTTGCA
Found at i:178341 original size:28 final size:28
Alignment explanation
Indices: 178254--178342 Score: 70
Period size: 28 Copynumber: 3.2 Consensus size: 28
178244 TTCTTCGTAG
* ** ** *
178254 CTTCACTATGACAGTTTGCACTTCGTAG
1 CTTCACTATGACAATTCACACTTCACAA
* ** *
178282 CTTCACTGTGACAATTTGCACTTCACAG
1 CTTCACTATGACAATTCACACTTCACAA
**
178310 CTTCACTATGACAATTCACACTTTTCAA
1 CTTCACTATGACAATTCACACTTCACAA
178338 CTTCA
1 CTTCA
178343 GTGTTCGCTA
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.35
Consensus pattern (28 bp):
CTTCACTATGACAATTCACACTTCACAA
Found at i:179765 original size:33 final size:32
Alignment explanation
Indices: 179687--179767 Score: 85
Period size: 32 Copynumber: 2.5 Consensus size: 32
179677 CCAAACAATA
* * *
179687 AAAATAACCAAAATAGCAGCAAAAATAATAAC
1 AAAACAACCAAAATAGCAACAAAAAAAATAAC
*
179719 AAAACAACAAAAATAGCAACAAAAAAAA-ATA-
1 AAAACAACCAAAATAGCAACAAAAAAAATA-AC
179750 AAAACAATACCAAAATAG
1 AAAAC-A-ACCAAAATAG
179768 TAAAAAACAA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
31 6 0.15
32 26 0.63
33 9 0.22
ACGTcount: A:0.70, C:0.15, G:0.05, T:0.10
Consensus pattern (32 bp):
AAAACAACCAAAATAGCAACAAAAAAAATAAC
Found at i:179773 original size:21 final size:20
Alignment explanation
Indices: 179749--179856 Score: 98
Period size: 21 Copynumber: 5.2 Consensus size: 20
179739 AAAAAAAAAT
*
179749 AAAAACAATACCAAAATAGTA
1 AAAAACAA-ACCAAAACAGTA
179770 AAAAACAACACCAAAACAG--
1 AAAAACAA-ACCAAAACAGTA
179789 AAAAA-AAACCAAAACAGTAAA
1 AAAAACAAACCAAAACAGT--A
**
179810 AAAAACAACACCAAAACAACA
1 AAAAACAA-ACCAAAACAGTA
179831 AAATAA-ACAACCAAAACAGTA
1 AAA-AACA-AACCAAAACAGTA
179852 AAAAA
1 AAAAA
179857 AAGCACAAAA
Statistics
Matches: 73, Mismatches: 6, Indels: 17
0.76 0.06 0.18
Matches are distributed among these distances:
17 10 0.14
18 2 0.03
19 5 0.07
20 2 0.03
21 40 0.55
22 5 0.07
23 9 0.12
ACGTcount: A:0.71, C:0.19, G:0.04, T:0.06
Consensus pattern (20 bp):
AAAAACAAACCAAAACAGTA
Found at i:179793 original size:40 final size:39
Alignment explanation
Indices: 179749--179857 Score: 130
Period size: 40 Copynumber: 2.6 Consensus size: 39
179739 AAAAAAAAAT
*
179749 AAAAACAATACCAAAATAGT-AAAAAACAACACCAAAACAG
1 AAAAA-AA-ACCAAAACAGTAAAAAAACAACACCAAAACAG
*
179789 AAAAAAAACCAAAACAGTAAAAAAAACAACACCAAAACAACA
1 AAAAAAAACCAAAACAGT-AAAAAAACAACACCAAAAC-A-G
179831 AAATAAACAACCAAAACAGTAAAAAAA
1 AAA-AAA-AACCAAAACAGTAAAAAAA
179858 AGCACAAAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
38 10 0.16
39 2 0.03
40 23 0.38
41 1 0.02
42 3 0.05
43 10 0.16
44 12 0.20
ACGTcount: A:0.72, C:0.19, G:0.04, T:0.06
Consensus pattern (39 bp):
AAAAAAAACCAAAACAGTAAAAAAACAACACCAAAACAG
Found at i:179867 original size:21 final size:20
Alignment explanation
Indices: 179761--179869 Score: 89
Period size: 21 Copynumber: 5.3 Consensus size: 20
179751 AAACAATACC
* *
179761 AAAATAGTAAAAAACAACACC
1 AAAACAGTAAAAAA-AACACA
179782 AAAACAG-AAAAAAAAC-C-
1 AAAACAGTAAAAAAAACACA
179799 AAAACAGTAAAAAAAACAACA
1 AAAACAGTAAAAAAAAC-ACA
** * *
179820 CCAAAACAACAAAATAAACAACC
1 --AAAACAGTAAAAAAAAC-ACA
179843 AAAACAGTAAAAAAAAGCACA
1 AAAACAGTAAAAAAAA-CACA
179864 AAAACA
1 AAAACA
179870 ACAATATAAT
Statistics
Matches: 72, Mismatches: 9, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
17 7 0.10
18 10 0.14
19 3 0.04
20 7 0.10
21 27 0.38
22 1 0.01
23 17 0.24
ACGTcount: A:0.72, C:0.19, G:0.05, T:0.05
Consensus pattern (20 bp):
AAAACAGTAAAAAAAACACA
Found at i:182556 original size:28 final size:28
Alignment explanation
Indices: 182524--182583 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
182514 ACTTCAATTT
* *
182524 CTTCGTAGCTTCACTATGACAGCTCGCA
1 CTTCGCAGCTTCACTATGACAGCTCACA
** *
182552 CTTCGCAGCTTCTTTATGACAGTTCACA
1 CTTCGCAGCTTCACTATGACAGCTCACA
182580 CTTC
1 CTTC
182584 ACAGTTTCTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.20, C:0.32, G:0.15, T:0.33
Consensus pattern (28 bp):
CTTCGCAGCTTCACTATGACAGCTCACA
Found at i:182592 original size:28 final size:28
Alignment explanation
Indices: 182538--182593 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
182528 GTAGCTTCAC
* *
182538 TATGACAGCTCGCACTTCGCAGCTTCTT
1 TATGACAGCTCACACTTCACAGCTTCTT
* *
182566 TATGACAGTTCACACTTCACAGTTTCTT
1 TATGACAGCTCACACTTCACAGCTTCTT
182594 CGCCACTTGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.21, C:0.29, G:0.14, T:0.36
Consensus pattern (28 bp):
TATGACAGCTCACACTTCACAGCTTCTT
Found at i:183688 original size:18 final size:20
Alignment explanation
Indices: 183665--183706 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
183655 AAAAATTTCA
183665 AATATAAAATATTCATCAAT
1 AATATAAAATATTCATCAAT
* *
183685 TATATAAAATATTCATTAAT
1 AATATAAAATATTCATCAAT
183705 AA
1 AA
183707 CTCCACAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (20 bp):
AATATAAAATATTCATCAAT
Found at i:188675 original size:16 final size:16
Alignment explanation
Indices: 188654--188687 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
188644 GGTCTATTTT
188654 TGGTAATAGAATATTG
1 TGGTAATAGAATATTG
188670 TGGTAATAGAATATTG
1 TGGTAATAGAATATTG
188686 TG
1 TG
188688 CTGATGAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.26, T:0.38
Consensus pattern (16 bp):
TGGTAATAGAATATTG
Found at i:196252 original size:3 final size:3
Alignment explanation
Indices: 196244--196272 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
196234 ACAAAACCAA
196244 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
196273 AACACTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:196475 original size:18 final size:19
Alignment explanation
Indices: 196437--196475 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
196427 TTTAGAATTT
* *
196437 TATTAAAATTAAAATATAA
1 TATTAAAATTAAAAAAAAA
196456 TATT-AAATTAAAAAAAAA
1 TATTAAAATTAAAAAAAAA
196474 TA
1 TA
196476 AGTAAAACAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
TATTAAAATTAAAAAAAAA
Found at i:196557 original size:31 final size:31
Alignment explanation
Indices: 196519--196596 Score: 156
Period size: 31 Copynumber: 2.5 Consensus size: 31
196509 AGTACAAATG
196519 ATATTTACATTAAATTGATTGAATATAAAAA
1 ATATTTACATTAAATTGATTGAATATAAAAA
196550 ATATTTACATTAAATTGATTGAATATAAAAA
1 ATATTTACATTAAATTGATTGAATATAAAAA
196581 ATATTTACATTAAATT
1 ATATTTACATTAAATT
196597 AAAAAAAAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.50, C:0.04, G:0.05, T:0.41
Consensus pattern (31 bp):
ATATTTACATTAAATTGATTGAATATAAAAA
Found at i:198059 original size:23 final size:23
Alignment explanation
Indices: 198033--198094 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
198023 AGTTTTAATG
*
198033 CTTTATGTGTGTTATATTTAGCA
1 CTTTATATGTGTTATATTTAGCA
** *
198056 CTTTGCACGTGTTATATTTAGCA
1 CTTTATATGTGTTATATTTAGCA
198079 CTTTATATGTGTTATA
1 CTTTATATGTGTTATA
198095 CTAGTGTGGT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.23, C:0.11, G:0.16, T:0.50
Consensus pattern (23 bp):
CTTTATATGTGTTATATTTAGCA
Found at i:198824 original size:22 final size:21
Alignment explanation
Indices: 198799--198849 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
198789 ACTTGTCTTG
198799 AGACAACATGATTTAAGTCTCA
1 AGACAA-ATGATTTAAGTCTCA
* **
198821 AGACAGAGTGATTTGTGTCTCA
1 AGACA-AATGATTTAAGTCTCA
198843 AGACAAA
1 AGACAAA
198850 GTTACATTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 1 0.04
22 22 0.92
23 1 0.04
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (21 bp):
AGACAAATGATTTAAGTCTCA
Found at i:204365 original size:18 final size:18
Alignment explanation
Indices: 204342--204379 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
204332 AAATAGTTCG
204342 ATTAAAAA-ATAATTAAAA
1 ATTAAAAAGA-AATTAAAA
204360 ATTAAAAAGAAATTAAAA
1 ATTAAAAAGAAATTAAAA
204378 AT
1 AT
204380 CTCGTCCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 18 0.95
19 1 0.05
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (18 bp):
ATTAAAAAGAAATTAAAA
Found at i:210409 original size:30 final size:30
Alignment explanation
Indices: 210306--210409 Score: 77
Period size: 30 Copynumber: 3.5 Consensus size: 30
210296 ACTCGGGGGC
* *
210306 AAAATGATAATTTTGGGAAAGTTCGAGGTCA
1 AAAATGA-AATTTTTGGAAAGTTCGAGGTCT
* * * * *
210337 AAAACGAAATTTTTAGACA-TCCGAGG-GT
1 AAAATGAAATTTTTGGAAAGTTCGAGGTCT
* * *
210365 AAAATAGTAGTTTTTGGAAAGTTCGAGGTTT
1 AAAAT-GAAATTTTTGGAAAGTTCGAGGTCT
*
210396 AAAATGGAATTTTT
1 AAAATGAAATTTTT
210410 AGACATTCTG
Statistics
Matches: 54, Mismatches: 16, Indels: 7
0.70 0.21 0.09
Matches are distributed among these distances:
28 4 0.07
29 16 0.30
30 22 0.41
31 12 0.22
ACGTcount: A:0.38, C:0.07, G:0.23, T:0.33
Consensus pattern (30 bp):
AAAATGAAATTTTTGGAAAGTTCGAGGTCT
Found at i:210466 original size:58 final size:59
Alignment explanation
Indices: 210279--210713 Score: 265
Period size: 59 Copynumber: 7.2 Consensus size: 59
210269 ATCTAAGGGT
* * * * * *
210279 AAAATGGTAA-TTTTAGAA-CTCGGGGGCAAAATGATAATTTTGGGAAAGTTCGAGGTCA
1 AAAATGG-AATTTTTAGAAGTTCGAGGGTAAAATGGTAATTTTGGAAAAATTCGAGGTCA
* * * * * * **
210337 AAAACGAAATTTTTAGACA-TCCGAGGGTAAAATAGTAGTTTTTGG-AAAGTTCGAGGTTT
1 AAAATGGAATTTTTAGA-AGTTCGAGGGTAAAATGGTA-ATTTTGGAAAAATTCGAGGTCA
* *
210396 AAAATGGAATTTTTAGACA-TTCTG-GGGTAAAATGGTAATTTTGGAAAAATTAG-GGTAA
1 AAAATGGAATTTTTAGA-AGTTC-GAGGGTAAAATGGTAATTTTGGAAAAATTCGAGGTCA
*
210454 AAAATGGAATTTTTGGAAGCTT--ATGGGTAAAGCGATAAGGGTAAATGGCATTTTTTGGAAAAA
1 AAAATGGAATTTTTAGAAG-TTCGA-GGGTAAA---AT---GGT--A----A--TTTTGGAAAAA
210517 TT-G-GGTCA
50 TTCGAGGTCA
* * *
210525 AAAATGAAAATTTT-GAAAGTTCGAGGGTAAAATGGTAATTTTGGAGAAA-TCGAGGTCA
1 AAAATGGAATTTTTAG-AAGTTCGAGGGTAAAATGGTAATTTTGGAAAAATTCGAGGTCA
* *
210583 AAAATGGAATTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTGGAAAAATT-GGGGTCA
1 AAAATGGAATTTTTAGAAGTTCGAGGGTAAAATGGTAA-TTTTGGAAAAATTCGAGGTCA
* * * * * *
210642 AAAAAGGAA-TTTTGGAAAGTTTC-AGAGTAAAAAT-GTAATTTTTGAAAAGTTTGAGGTCA
1 AAAATGGAATTTTTAG-AAG-TTCGAGGGT-AAAATGGTAATTTTGGAAAAATTCGAGGTCA
210701 AAAATGGAATTTT
1 AAAATGGAATTTT
210714 GGAAAAGGTC
Statistics
Matches: 306, Mismatches: 35, Indels: 70
0.74 0.09 0.17
Matches are distributed among these distances:
56 1 0.00
57 14 0.05
58 100 0.33
59 115 0.38
60 19 0.06
61 2 0.01
63 1 0.00
64 3 0.01
65 3 0.01
66 1 0.00
68 2 0.01
70 4 0.01
71 27 0.09
72 14 0.05
ACGTcount: A:0.38, C:0.05, G:0.26, T:0.31
Consensus pattern (59 bp):
AAAATGGAATTTTTAGAAGTTCGAGGGTAAAATGGTAATTTTGGAAAAATTCGAGGTCA
Found at i:210556 original size:28 final size:28
Alignment explanation
Indices: 210525--210624 Score: 96
Period size: 28 Copynumber: 3.5 Consensus size: 28
210515 AATTGGGTCA
*
210525 AAAATGAAAATTTTGAAAGTTCGAGGGT
1 AAAATGGAAATTTTGAAAGTTCGAGGGT
* *
210553 AAAATGGTAATTTTGGAGAA-ATCGA-GGT
1 AAAATGGAAATTTT-GA-AAGTTCGAGGGT
* *
210581 CAAAAATGGAATTTTTGGAAGTTCGAGGGT
1 --AAAATGGAAATTTTGAAAGTTCGAGGGT
*
210611 AAAATGGTAATTTT
1 AAAATGGAAATTTT
210625 TGGAAAAATT
Statistics
Matches: 57, Mismatches: 9, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
28 29 0.51
29 11 0.19
30 17 0.30
ACGTcount: A:0.39, C:0.04, G:0.26, T:0.31
Consensus pattern (28 bp):
AAAATGGAAATTTTGAAAGTTCGAGGGT
Found at i:210589 original size:30 final size:28
Alignment explanation
Indices: 210506--210719 Score: 120
Period size: 29 Copynumber: 7.4 Consensus size: 28
210496 AAATGGCATT
* *
210506 TTTTGGAAAAATTG-GGTCAAAAATGAAAA
1 TTTTGG-AAAATCGAGGTCAAAAATG-GAA
*
210535 TTTT-GAAAGTTCGAGGGT--AAAATGGTAA
1 TTTTGGAAA-ATCGA-GGTCAAAAATGG-AA
210563 TTTTGGAGAAATCGAGGTCAAAAATGGAA
1 TTTTGGA-AAATCGAGGTCAAAAATGGAA
**
210592 TTTTTGGAAGTTCGAGGGT--AAAATGGTAA
1 -TTTTGGAAAATCGA-GGTCAAAAATGG-AA
* * *
210621 TTTTTGGAAAAATTGGGGTCAAAAAAGGAA
1 -TTTTGG-AAAATCGAGGTCAAAAATGGAA
* *
210651 TTTTGGAAAGTTTC-AGAGT-AAAAATGTAA
1 TTTTGGAAA--ATCGAG-GTCAAAAATGGAA
* *
210680 TTTTTGAAAAGTTTGAGGTCAAAAATGGAA
1 TTTTGGAAAA--TCGAGGTCAAAAATGGAA
210710 TTTTGGAAAA
1 TTTTGGAAAA
210720 GGTCAAGGGT
Statistics
Matches: 143, Mismatches: 21, Indels: 41
0.70 0.10 0.20
Matches are distributed among these distances:
27 3 0.02
28 28 0.20
29 55 0.38
30 51 0.36
31 6 0.04
ACGTcount: A:0.40, C:0.04, G:0.25, T:0.31
Consensus pattern (28 bp):
TTTTGGAAAATCGAGGTCAAAAATGGAA
Found at i:210735 original size:30 final size:30
Alignment explanation
Indices: 210519--210735 Score: 147
Period size: 30 Copynumber: 7.3 Consensus size: 30
210509 TGGAAAAATT
*
210519 GGGTCAAAAATGAAAATTTT-G-AAAGTTCGA
1 GGGTC-AAAATG-GAATTTTGGAAAAGTTCGA
210549 GGGT-AAAATGGTAATTTTGGAGAAA--TCGA
1 GGGTCAAAATGG-AATTTTGGA-AAAGTTCGA
210578 -GGTCAAAAATGGAATTTTTGG--AAGTTCGA
1 GGGTC-AAAATGGAA-TTTTGGAAAAGTTCGA
*
210607 GGGT-AAAATGGTAATTTTTGGAAAAATT-G-
1 GGGTCAAAATGG-AA-TTTTGGAAAAGTTCGA
*
210636 GGGTCAAAAAAGGAATTTTGG-AAAGTTTC-A
1 GGGTC-AAAATGGAATTTTGGAAAAG-TTCGA
* * * * *
210666 GAGTAAAAATGTAATTTTTGAAAAGTTTGA
1 GGGTCAAAATGGAATTTTGGAAAAGTTCGA
* *
210696 -GGTCAAAAATGGAATTTTGGAAAAGGTCAA
1 GGGTC-AAAATGGAATTTTGGAAAAGTTCGA
210726 GGGTCAAAAT
1 GGGTCAAAAT
210736 ATGATTTTTG
Statistics
Matches: 148, Mismatches: 17, Indels: 44
0.71 0.08 0.21
Matches are distributed among these distances:
27 2 0.01
28 25 0.17
29 48 0.32
30 56 0.38
31 17 0.11
ACGTcount: A:0.40, C:0.05, G:0.26, T:0.29
Consensus pattern (30 bp):
GGGTCAAAATGGAATTTTGGAAAAGTTCGA
Found at i:211905 original size:14 final size:13
Alignment explanation
Indices: 211876--211910 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
211866 TTATTAATAC
*
211876 TTATTAATTCTAT
1 TTATTACTTCTAT
211889 TTATTACTTCTTAT
1 TTATTACTTC-TAT
211903 TTATTACT
1 TTATTACT
211911 AACATTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (13 bp):
TTATTACTTCTAT
Found at i:211923 original size:15 final size:15
Alignment explanation
Indices: 211903--211949 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
211893 TACTTCTTAT
* *
211903 TTATTACTAACATTA
1 TTATTAATAAAATTA
**
211918 TTATTAATATTATTA
1 TTATTAATAAAATTA
211933 TTATTAATAAAATTA
1 TTATTAATAAAATTA
211948 TT
1 TT
211950 TTTTCAAAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (15 bp):
TTATTAATAAAATTA
Found at i:212720 original size:17 final size:17
Alignment explanation
Indices: 212698--212772 Score: 98
Period size: 17 Copynumber: 4.4 Consensus size: 17
212688 ACCTTTATTT
*
212698 ATTTAAATTTATAATAA
1 ATTTAAATTTAAAATAA
212715 ATTTAAATTTAAAATAA
1 ATTTAAATTTAAAATAA
** *
212732 ATTTAAACCTAAAACAA
1 ATTTAAATTTAAAATAA
212749 ATTT-AATCTTAAAATAA
1 ATTTAAAT-TTAAAATAA
212766 ATTTAAA
1 ATTTAAA
212773 ATGGATTTGG
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
16 2 0.04
17 45 0.92
18 2 0.04
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (17 bp):
ATTTAAATTTAAAATAA
Found at i:213276 original size:49 final size:49
Alignment explanation
Indices: 213183--213566 Score: 283
Period size: 49 Copynumber: 7.9 Consensus size: 49
213173 AGGTATAAGG
* * * * *
213183 TTCGCCATTGCGACTTAAACCTTTCCCCTT-GTGTGT-TCACGGTACTGGA
1 TTCGCCGTTGCGACTTAAATCTTT-CCCTTCATGTCTCTGA-GGTACTGGA
*
213232 TTTGCCGTTGCGACTTAAATCTTTCCCTTCATGTCTCTGAGGTACTAGG-
1 TTCGCCGTTGCGACTTAAATCTTTCCCTTCATGTCTCTGAGGTACT-GGA
* * * * * *
213281 TTCGCCATTGTGACTTAAACCTTTCAC-TCGTGTCTTCGTGA--TATTGGA
1 TTCGCCGTTGCGACTTAAATCTTTCCCTTCATGTC-TC-TGAGGTACTGGA
* ** *
213329 TTCGTCGTTATGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTACTAGG-
1 TTCGCCGTTGCGACTTAAATCTTTCCCTTCATGTCTCTGAGGTACT-GGA
* * * * * *
213378 TTCGCCATTACGACTT-AACCTTTCCCTT-GTGTCT-TCGTGGTATTGGA
1 TTCGCCGTTGCGACTTAAATCTTTCCCTTCATGTCTCT-GAGGTACTGGA
** * * *
213425 TTCATCGTTGCGGCTTAAATCTTTCCTTTCATGTCTCTGAGGTATTAGG-
1 TTCGCCGTTGCGACTTAAATCTTTCCCTTCATGTCTCTGAGGTACT-GGA
* * *
213474 TTCACCATTGCGACTTAAA-CATTTCCCTT--TGTCTCTTCGTGGTACTGGA
1 TTCGCCGTTGCGACTTAAATC-TTTCCCTTCATGTCTC-T-GAGGTACTGGA
* *
213523 TTCGTCGTTGCGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTA
1 TTCGCCGTTGCGACTTAAATCTTTCCCTTCATGTCTCTGAGGTA
213567 TAAGGTTCGC
Statistics
Matches: 263, Mismatches: 49, Indels: 46
0.73 0.14 0.13
Matches are distributed among these distances:
46 3 0.01
47 33 0.13
48 62 0.24
49 145 0.55
50 14 0.05
51 6 0.02
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (49 bp):
TTCGCCGTTGCGACTTAAATCTTTCCCTTCATGTCTCTGAGGTACTGGA
Found at i:213296 original size:98 final size:98
Alignment explanation
Indices: 213125--213663 Score: 608
Period size: 98 Copynumber: 5.6 Consensus size: 98
213115 TCAATCTGCA
** * *** *
213125 TGGTACTAAATTCGCCGTTGCGGCTTAAAT-TTTTTTTTCATG-CTTTTGAGGTA-TAAGGTTCG
1 TGGTACTGGATTCGTCGTTGCGGCTTAAATCTTTCCCTTCATGTC-TCTGAGGTACT-AGGTTCG
* *
213187 CCATTGCGACTTAAACCTTTCCCCTTGTGTGTTCA
64 CCATTGCGACTTAAACCTTTCCCCTTGTGTCTTCG
* * * *
213222 CGGTACTGGATTTGCCGTTGCGACTTAAATCTTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCC
1 TGGTACTGGATTCGTCGTTGCGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCC
* * *
213287 ATTGTGACTTAAACCTTT-CACTCGTGTCTTCG
66 ATTGCGACTTAAACCTTTCCCCTTGTGTCTTCG
* * **
213319 TGATATTGGATTCGTCGTTATGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCC
1 TGGTACTGGATTCGTCGTTGCGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCC
*
213384 ATTACGACTT-AACCTTT-CCCTTGTGTCTTCG
66 ATTGCGACTTAAACCTTTCCCCTTGTGTCTTCG
* * * * *
213415 TGGTATTGGATTCATCGTTGCGGCTTAAATCTTTCCTTTCATGTCTCTGAGGTATTAGGTTCACC
1 TGGTACTGGATTCGTCGTTGCGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCC
* * *
213480 ATTGCGACTTAAACATTTCCCTTTGTCTCTTCG
66 ATTGCGACTTAAACCTTTCCCCTTGTGTCTTCG
213513 TGGTACTGGATTCGTCGTTGCGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTA-TAAGGTTCG-
1 TGGTACTGGATTCGTCGTTGCGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTACT-AGGTTCGC
*
213576 C----C-A---AAACCTTTCCCTTTGTGTCTTCG
65 CATTGCGACTTAAACCTTTCCCCTTGTGTCTTCG
* ** * *
213602 TGGTTCTGGATTCACCGTTGCGGCTTAAATCTTTCCCTTCACG-CTTCTGAGGTACGAGGTTC
1 TGGTACTGGATTCGTCGTTGCGGCTTAAATCTTTCCCTTCATGTC-TCTGAGGTACTAGGTTC
213664 AACCCTGTGA
Statistics
Matches: 386, Mismatches: 48, Indels: 24
0.84 0.10 0.05
Matches are distributed among these distances:
88 1 0.00
89 75 0.19
92 1 0.00
93 1 0.00
96 86 0.22
97 108 0.28
98 112 0.29
99 2 0.01
ACGTcount: A:0.17, C:0.24, G:0.20, T:0.39
Consensus pattern (98 bp):
TGGTACTGGATTCGTCGTTGCGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCC
ATTGCGACTTAAACCTTTCCCCTTGTGTCTTCG
Found at i:213557 original size:194 final size:193
Alignment explanation
Indices: 213125--213664 Score: 647
Period size: 194 Copynumber: 2.8 Consensus size: 193
213115 TCAATCTGCA
** * *** *
213125 TGGTACTAAATTCGCCGTTGCGGCTTAAAT-TTTTTTTTCATG-CTTTTGAGGTATAAGGTTCGC
1 TGGTACTGGATTCGTCGTTGCGGCTTAAATCTTTCCCTTCATGTC-TCTGAGGTATAAGGTTCGC
* * ** * ** *
213188 CATTGCGACTTAAACCTTTCCCCTTGTGTGTTCACGGTACTGGATTTGCCGTTGCGACTTAAATC
65 CATTACGACTT-AACCTTT-CCCTTGTGTCTTCGTGGTATTGGATTCACCGTTGCGGCTTAAATC
* * * *
213253 TTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCCATTGTGACTTAAACCTTTCACTCGTGTCTTC
128 TTTCCCTTCATGTCTCTGAGGTACTAGGTTCACCATTGCGACTTAAACATTTCACTCGTCTCTTC
213318 G
193 G
* * **
213319 TGATATTGGATTCGTCGTTATGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTACT-AGGTTCGC
1 TGGTACTGGATTCGTCGTTGCGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTA-TAAGGTTCGC
*
213383 CATTACGACTTAACCTTTCCCTTGTGTCTTCGTGGTATTGGATTCATCGTTGCGGCTTAAATCTT
65 CATTACGACTTAACCTTTCCCTTGTGTCTTCGTGGTATTGGATTCACCGTTGCGGCTTAAATCTT
* * * *
213448 TCCTTTCATGTCTCTGAGGTATTAGGTTCACCATTGCGACTTAAACATTTCCCTTTGTCTCTTCG
130 TCCCTTCATGTCTCTGAGGTACTAGGTTCACCATTGCGACTTAAACATTTCAC-TCGTCTCTTCG
213513 TGGTACTGGATTCGTCGTTGCGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTATAAGGTTCGCC
1 TGGTACTGGATTCGTCGTTGCGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTATAAGGTTCGCC
213578 ---A--A---AACCTTTCCCTTTGTGTCTTCGTGGT-TCTGGATTCACCGTTGCGGCTTAAATCT
66 ATTACGACTTAACCTTTCCC-TTGTGTCTTCGTGGTAT-TGGATTCACCGTTGCGGCTTAAATCT
* *
213634 TTCCCTTCACG-CTTCTGAGGTACGAGGTTCA
129 TTCCCTTCATGTC-TCTGAGGTACTAGGTTCA
213665 ACCCTGTGAC
Statistics
Matches: 301, Mismatches: 37, Indels: 23
0.83 0.10 0.06
Matches are distributed among these distances:
186 12 0.04
187 65 0.22
189 1 0.00
191 1 0.00
193 87 0.29
194 98 0.33
195 35 0.12
196 2 0.01
ACGTcount: A:0.17, C:0.24, G:0.20, T:0.39
Consensus pattern (193 bp):
TGGTACTGGATTCGTCGTTGCGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTATAAGGTTCGCC
ATTACGACTTAACCTTTCCCTTGTGTCTTCGTGGTATTGGATTCACCGTTGCGGCTTAAATCTTT
CCCTTCATGTCTCTGAGGTACTAGGTTCACCATTGCGACTTAAACATTTCACTCGTCTCTTCG
Found at i:213651 original size:89 final size:89
Alignment explanation
Indices: 213490--213655 Score: 262
Period size: 89 Copynumber: 1.9 Consensus size: 89
213480 ATTGCGACTT
** *
213490 AAACATTTCCCTTTGTCTCTTCGTGGTACTGGATTCGTCGTTGCGGCTTAAATCTTTCCCTTCAT
1 AAACATTTCCCTTTGTCTCTTCGTGGTACTGGATTCACCGTTGCGGCTTAAATCTTTCCCTTCAC
213555 GTCTCTGAGGTATAAGGTTCGCCA
66 GTCTCTGAGGTATAAGGTTCGCCA
* * *
213579 AAACCTTTCCCTTTGTGTCTTCGTGGTTCTGGATTCACCGTTGCGGCTTAAATCTTTCCCTTCAC
1 AAACATTTCCCTTTGTCTCTTCGTGGTACTGGATTCACCGTTGCGGCTTAAATCTTTCCCTTCAC
213644 G-CTTCTGAGGTA
66 GTC-TCTGAGGTA
213656 CGAGGTTCAA
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
88 1 0.01
89 69 0.99
ACGTcount: A:0.16, C:0.26, G:0.20, T:0.39
Consensus pattern (89 bp):
AAACATTTCCCTTTGTCTCTTCGTGGTACTGGATTCACCGTTGCGGCTTAAATCTTTCCCTTCAC
GTCTCTGAGGTATAAGGTTCGCCA
Done.