Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold40
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: 3440810
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 28138 characters in sequence are not A, C, G, or T
File 4 of 24
Found at i:523946 original size:27 final size:27
Alignment explanation
Indices: 523914--524535 Score: 949
Period size: 27 Copynumber: 22.7 Consensus size: 27
523904 GACCTTTTCA
*
523914 AAGTCCACAACTCTGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
523941 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
523968 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
** *
523995 AAGTCCACAACTCTATGGCATTCCTTTT
1 AAGTCCACAACTCCGTGGCA-CCCTTTT
524023 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
524050 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* *
524077 AAGTCCACAACTCTGTGGCATTCCTTTT
1 AAGTCCACAACTCCGTGGCA-CCCTTTT
524105 AA-TACCACAACTCCGTGGCACCCTTTT
1 AAGT-CCACAACTCCGTGGCACCCTTTT
524132 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
*
524159 AAGTCCACAACTCCGTGGCACTCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* * *
524186 AAATCCATAACTCCATGGCATCCCTTTT
1 AAGTCCACAACTCCGTGGCA-CCCTTTT
524214 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* *
524241 AAGACCACAACTCCGTAGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
524268 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* * **
524295 AAGTCCATAACTCTGTGGCATCTTTTTT
1 AAGTCCACAACTCCGTGGCA-CCCTTTT
*
524323 AAGTCCACAACTCTGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
524350 AAAGTCCACAACTCCGTGGCACCCTTTT
1 -AAGTCCACAACTCCGTGGCACCCTTTT
* *
524378 TAGTCCACAACTCTGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
524405 AAGTCCACAACTCCGTGGCATCCCTTTT
1 AAGTCCACAACTCCGTGGCA-CCCTTTT
524433 AAGTCCACAACTCCGTGGCATCCCTTTT
1 AAGTCCACAACTCCGTGGCA-CCCTTTT
524461 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
524488 AAGTCCACAACTCCGTGGCATCCCTTTT
1 AAGTCCACAACTCCGTGGCA-CCCTTTT
* * * *
524516 AAATTCACAAATCGGTGGCA
1 AAGTCCACAACTCCGTGGCA
524536 ACCCATTCCA
Statistics
Matches: 547, Mismatches: 39, Indels: 17
0.91 0.06 0.03
Matches are distributed among these distances:
27 348 0.64
28 199 0.36
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (27 bp):
AAGTCCACAACTCCGTGGCACCCTTTT
Found at i:524050 original size:82 final size:82
Alignment explanation
Indices: 523914--524535 Score: 957
Period size: 82 Copynumber: 7.6 Consensus size: 82
523904 GACCTTTTCA
*
523914 AAGTCCACAACTCTGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
1 AAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
523978 CTCCGTGGCACCCTTTT
66 CTCCGTGGCACCCTTTT
** *
523995 AAGTCCACAACTCTATGGCATTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
1 AAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
524060 CTCCGTGGCACCCTTTT
66 CTCCGTGGCACCCTTTT
* *
524077 AAGTCCACAACTCTGTGGCATTCCTTTTAA-TACCACAACTCCGTGGCACCCTTTTAAGTCCACA
1 AAGTCCACAACTCCGTGGCATCCCTTTTAAGT-CCACAACTCCGTGGCACCCTTTTAAGTCCACA
524141 ACTCCGTGGCACCCTTTT
65 ACTCCGTGGCACCCTTTT
* * * *
524159 AAGTCCACAACTCCGTGGCA-CTCTTTTAAATCCATAACTCCATGGCATCCCTTTTAAGTCCACA
1 AAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACA
524223 ACTCCGTGGCACCCTTTT
65 ACTCCGTGGCACCCTTTT
* * *
524241 AAGACCACAACTCCGTAGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCATAA
1 AAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
* **
524305 CTCTGTGGCATCTTTTTT
66 CTCCGTGGCA-CCCTTTT
* *
524323 AAGTCCACAACTCTGTGGCA-CCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTTAGTCCACA
1 AAGTCCACAACTCCGTGGCATCCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACA
*
524387 ACTCTGTGGCACCCTTTT
65 ACTCCGTGGCACCCTTTT
524405 AAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACA
1 AAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACA
524470 ACTCCGTGGCACCCTTTT
65 ACTCCGTGGCACCCTTTT
* * * *
524488 AAGTCCACAACTCCGTGGCATCCCTTTTAAATTCACAAATCGGTGGCA
1 AAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCA
524536 ACCCATTCCA
Statistics
Matches: 501, Mismatches: 32, Indels: 14
0.92 0.06 0.03
Matches are distributed among these distances:
81 66 0.13
82 307 0.61
83 128 0.26
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (82 bp):
AAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
CTCCGTGGCACCCTTTT
Found at i:524130 original size:109 final size:109
Alignment explanation
Indices: 523914--524535 Score: 978
Period size: 109 Copynumber: 5.7 Consensus size: 109
523904 GACCTTTTCA
*
523914 AAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAAC
1 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAAC
** *
523979 TCCGTGGCA-CCCTTTTAAGTCCACAACTCTATGGCATTCCTTTT
66 TCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTT
524023 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAAC
1 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAAC
* *
524088 TCTGTGGCATTCCTTTTAA-TACCACAACTCCGTGGCACCCTTTT
66 TCCGTGGCATCCCTTTTAAGT-CCACAACTCCGTGGCACCCTTTT
* * *
524132 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTAAATCCATAAC
1 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAAC
*
524197 TCCATGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
66 TCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
* * *
524241 AAGACCACAACTCCGTAGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCATAAC
1 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAAC
* ** *
524306 TCTGTGGCATCTTTTTTAAGTCCACAACTCTGTGGCACCCTTTT
66 TCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
* *
524350 AAAGTCCACAACTCCGTGGCACCCTTTTTAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAA
1 -AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
524415 CTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTT
65 CTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTT
* *
524461 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAATTCACAA
1 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAA
* *
524526 ATCGGTGGCA
65 CTCCGTGGCA
524536 ACCCATTCCA
Statistics
Matches: 471, Mismatches: 36, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
109 280 0.59
110 161 0.34
111 30 0.06
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (109 bp):
AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAAC
TCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
Found at i:524563 original size:32 final size:32
Alignment explanation
Indices: 524521--524963 Score: 726
Period size: 32 Copynumber: 13.8 Consensus size: 32
524511 CTTTTAAATT
* *
524521 CACAAATCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
524553 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
524585 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
524617 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
524649 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
524681 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
524713 CACAAGTCGGTGGCAACCCATTTCAAAGCTCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
524745 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
524777 CACAAGTCGGTGGCAACCCA-TTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTC-AAAGCCCA
*
524809 CACAAGTAGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** *
524841 CACAAGTCGGTGGCAACCTTTTTCAAAGCCCC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * *
524873 CAGAAGTTGGTGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
524905 CGCAAGTCGGTGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * *
524937 CGCAAGTCAGTGGCAACCCTTTTCAAA
1 CACAAGTCGGTGGCAACCCATTTCAAA
524964 TCACCATTTT
Statistics
Matches: 388, Mismatches: 21, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
31 3 0.01
32 382 0.98
33 3 0.01
ACGTcount: A:0.31, C:0.33, G:0.19, T:0.16
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:526246 original size:17 final size:17
Alignment explanation
Indices: 526211--526245 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
526201 AAGGAAGATG
526211 AAGAAGAAAAAAAGAAA
1 AAGAAGAAAAAAAGAAA
526228 AAGAA-AAAAAAAGAAA
1 AAGAAGAAAAAAAGAAA
526244 AA
1 AA
526246 ATATGAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (17 bp):
AAGAAGAAAAAAAGAAA
Found at i:530281 original size:1 final size:1
Alignment explanation
Indices: 530275--530346 Score: 72
Period size: 1 Copynumber: 72.0 Consensus size: 1
530265 CATCCTCCAC
* * * * * * * *
530275 AAAAAAAAAAAAACAAAACAAAAAAAAACAAAAACAAAAAAAAAACAAAACAAAACAAAAAAACA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
530340 AAAAAAA
1 AAAAAAA
530347 GGGTCCGGAT
Statistics
Matches: 55, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:530297 original size:16 final size:16
Alignment explanation
Indices: 530278--530346 Score: 97
Period size: 16 Copynumber: 4.2 Consensus size: 16
530268 CCTCCACAAA
530278 AAAAAAAAAACAAAAC
1 AAAAAAAAAACAAAAC
530294 -AAAAAAAAACAAAAAC
1 AAAAAAAAAAC-AAAAC
530310 AAAAAAAAAACAAAAC
1 AAAAAAAAAACAAAAC
530326 AAAACAAAAAAACAAAA-
1 -AAA-AAAAAAACAAAAC
530343 AAAA
1 AAAA
530347 GGGTCCGGAT
Statistics
Matches: 49, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
15 11 0.22
16 13 0.27
17 13 0.27
18 12 0.24
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAACAAAAC
Found at i:530299 original size:21 final size:20
Alignment explanation
Indices: 530275--530346 Score: 99
Period size: 21 Copynumber: 3.5 Consensus size: 20
530265 CATCCTCCAC
530275 AAAAAAAAAAAAACAAAACAA
1 AAAAAAAAAAAAACAAAA-AA
*
530296 AAAAAAACAAAAACAAAAAA
1 AAAAAAAAAAAAACAAAAAA
*
530316 AAAACAAAACAAAACAAAAAA
1 AAAA-AAAAAAAAACAAAAAA
530337 ACAAAAAAAA
1 A-AAAAAAAA
530347 GGGTCCGGAT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
20 6 0.13
21 36 0.80
22 3 0.07
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAAAAACAAAAAA
Found at i:530307 original size:27 final size:26
Alignment explanation
Indices: 530277--530346 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 26
530267 TCCTCCACAA
530277 AAAAAAAAAAACAAAACAAAAAAAAAC
1 AAAAAAAAAAA-AAAACAAAAAAAAAC
*
530304 AAAAACAAAAAAAAAACAAAACAAAAC
1 AAAAA-AAAAAAAAAACAAAAAAAAAC
530331 AAAAAAACAAAAAAAA
1 AAAAAAA-AAAAAAAA
530347 GGGTCCGGAT
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
26 2 0.05
27 32 0.80
28 6 0.15
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (26 bp):
AAAAAAAAAAAAAAACAAAAAAAAAC
Found at i:530325 original size:37 final size:37
Alignment explanation
Indices: 530276--530346 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
530266 ATCCTCCACA
*
530276 AAAAAAAAAAAACAAAACAAAAAAA-AACAAAAACAA
1 AAAAAAAAAAAACAAAACAAAAAAACAAAAAAAACAA
530312 AAAAAAAACAAAACAAAACAAAAAAACAAAAAAAA
1 AAAAAAAA-AAAACAAAACAAAAAAACAAAAAAAA
530347 GGGTCCGGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
36 8 0.25
37 17 0.53
38 7 0.22
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (37 bp):
AAAAAAAAAAAACAAAACAAAAAAACAAAAAAAACAA
Found at i:531767 original size:29 final size:30
Alignment explanation
Indices: 531727--531904 Score: 141
Period size: 29 Copynumber: 6.0 Consensus size: 30
531717 TCACCCTTCA
*
531727 AAAGTCCACAAGTCAGTGGCA-TCTTTTTC
1 AAAGCCCACAAGTCAGTGGCATTCTTTTTC
* * *
531756 AAAGCCCGCAAGTCAGTGACATTTTTTTTTTC
1 AAAGCCCACAAGTCAGTGGCA--TTCTTTTTC
* *
531788 AAAAGCCCACAAGTCAGTGGCA-AC--CTTC
1 -AAAGCCCACAAGTCAGTGGCATTCTTTTTC
* ** *
531816 AAAGCCCACAAATCAGTGGCACCCTTTTTT
1 AAAGCCCACAAGTCAGTGGCATTCTTTTTC
* * *
531846 GAAGCCCACAAGTCGGTGGCA-TCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATTCTTTTTC
* * * *
531875 AAAGTCCACAACTCCGTGGCACTCTTTTTC
1 AAAGCCCACAAGTCAGTGGCATTCTTTTTC
531905 TTTTGTAAGC
Statistics
Matches: 117, Mismatches: 24, Indels: 15
0.75 0.15 0.10
Matches are distributed among these distances:
27 20 0.17
28 4 0.03
29 40 0.34
30 27 0.23
32 7 0.06
33 19 0.16
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.28
Consensus pattern (30 bp):
AAAGCCCACAAGTCAGTGGCATTCTTTTTC
Found at i:531824 original size:27 final size:27
Alignment explanation
Indices: 531789--531841 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
531779 TTTTTTTTCA
*
531789 AAAGCCCACAAGTCAGTGGCAACCTTC
1 AAAGCCCACAAATCAGTGGCAACCTTC
*
531816 AAAGCCCACAAATCAGTGGCACCCTT
1 AAAGCCCACAAATCAGTGGCAACCTT
531842 TTTTGAAGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.34, C:0.34, G:0.17, T:0.15
Consensus pattern (27 bp):
AAAGCCCACAAATCAGTGGCAACCTTC
Found at i:531964 original size:34 final size:36
Alignment explanation
Indices: 531881--531971 Score: 111
Period size: 35 Copynumber: 2.6 Consensus size: 36
531871 TTCCAAAGTC
*
531881 CACAACTC-CGTGGCACTCTTTTTCTTTTGTAAGCT
1 CACAACTCTAGTGGCACTCTTTTTCTTTTGTAAGCT
531916 CACAACTCTA-TGGCACTCTTTTTCTTTT-TAAGC-
1 CACAACTCTAGTGGCACTCTTTTTCTTTTGTAAGCT
* *
531949 CTACAAGT-TAGTGGCACCCTTTT
1 C-ACAACTCTAGTGGCACTCTTTT
531972 CAAAAGCCCA
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
33 3 0.06
34 21 0.42
35 26 0.52
ACGTcount: A:0.20, C:0.27, G:0.13, T:0.40
Consensus pattern (36 bp):
CACAACTCTAGTGGCACTCTTTTTCTTTTGTAAGCT
Found at i:531979 original size:30 final size:29
Alignment explanation
Indices: 531945--532068 Score: 130
Period size: 28 Copynumber: 4.3 Consensus size: 29
531935 TTTTCTTTTT
* * *
531945 AAGCCTACAAGTTAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTCAGTGGCAACC-TTTCAA
531975 AAGCCCACAAGTCAGTGGCAACCTTT-AA
1 AAGCCCACAAGTCAGTGGCAACCTTTCAA
*
532003 AAGCCCACAAGTCAGTAGCAACC-TTCAA
1 AAGCCCACAAGTCAGTGGCAACCTTTCAA
* * *
532031 AAGCACACAAGT-TGAT-GCAAACCTCTCAA
1 AAGCCCACAAGTCAG-TGGC-AACCTTTCAA
532060 AAGCCCACA
1 AAGCCCACA
532069 TAAGTTGGTG
Statistics
Matches: 82, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
27 5 0.06
28 42 0.51
29 15 0.18
30 20 0.24
ACGTcount: A:0.37, C:0.30, G:0.15, T:0.18
Consensus pattern (29 bp):
AAGCCCACAAGTCAGTGGCAACCTTTCAA
Found at i:532214 original size:49 final size:47
Alignment explanation
Indices: 532088--532317 Score: 234
Period size: 48 Copynumber: 4.8 Consensus size: 47
532078 GGCGTCTCCT
* *
532088 TTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTGCC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CTTCCC
* * * **
532136 TTTAAGTCCAATATCGCTGGCCTTAAATCAGCGTATTGGCACATTCATA
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC-TTC-CC
* * *
532185 TTTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGGCA----CC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTCCC
*
532228 TTAAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C--TTCC--C
* * *
532280 TTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTG
532318 ACATCTTTTT
Statistics
Matches: 148, Mismatches: 23, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
43 37 0.25
47 1 0.01
48 39 0.26
49 35 0.24
50 1 0.01
52 35 0.24
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (47 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTCCC
Found at i:532237 original size:43 final size:43
Alignment explanation
Indices: 532188--532272 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
532178 ATTCATATTT
*
532188 AAGTCCAATGTAGCTGACCTTGAATCAGCACATTGGCACCTTA
1 AAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCACCTTA
* *
532231 AAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT
1 AAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCACCTT
532273 TTCCATCTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (43 bp):
AAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCACCTTA
Found at i:532326 original size:52 final size:54
Alignment explanation
Indices: 532231--532364 Score: 164
Period size: 52 Copynumber: 2.5 Consensus size: 54
532221 TGGCACCTTA
* *
532231 AAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTTTC-CATCTTT
1 AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTTTCTCATCTTT
* * *
532283 AAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCTTTTTTCTCATCTTT
1 AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACA-CCTTTTTCTCATCTTT
* * * *
532338 AAGCCCAATATCGTTGGCCGTGAATCA
1 AAGTCCAATATAGCTGGCCTTGAATCA
532365 ACATATTGGC
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
52 34 0.50
53 1 0.01
54 5 0.07
55 28 0.41
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.34
Consensus pattern (54 bp):
AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTTTCTCATCTTT
Found at i:532362 original size:55 final size:54
Alignment explanation
Indices: 532235--532380 Score: 179
Period size: 55 Copynumber: 2.7 Consensus size: 54
532225 ACCTTAAAGT
* *
532235 CCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C-CTTTTCCATCTTTAAGT
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTTCCATCTTTAAGC
* * * *
532287 TCAATGTAGCTGGCCTTGAATCAGCACATTGACATCTTTTTTCTCATCTTTAAGC
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTTC-CATCTTTAAGC
* * * *
532342 CCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTT
532381 ATCACTTTTC
Statistics
Matches: 77, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
52 30 0.39
53 1 0.01
54 5 0.06
55 41 0.53
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.36
Consensus pattern (54 bp):
CCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTTCCATCTTTAAGC
Found at i:533238 original size:13 final size:13
Alignment explanation
Indices: 533220--533244 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
533210 CATAAAGTGT
533220 TGTATCGATACAA
1 TGTATCGATACAA
533233 TGTATCGATACA
1 TGTATCGATACA
533245 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:533242 original size:33 final size:33
Alignment explanation
Indices: 533200--533266 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
533190 TTCAATGATT
533200 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
533233 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
533266 T
1 T
533267 TCAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:533325 original size:13 final size:13
Alignment explanation
Indices: 533307--533331 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
533297 ATCACTTAAA
533307 TGTATCGATACAT
1 TGTATCGATACAT
533320 TGTATCGATACA
1 TGTATCGATACA
533332 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:533396 original size:52 final size:52
Alignment explanation
Indices: 533340--533468 Score: 206
Period size: 52 Copynumber: 2.5 Consensus size: 52
533330 CACTGATCTT
*
533340 TGTATCGATACATGCAGGCAAATTTGCCCAG-ATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTG-CCAGCATGTATCGATACACTATAAAA
* **
533392 TGTATCGATACATGCAGGCAAATTTGCCTGCATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCAGCATGTATCGATACACTATAAAA
533444 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
533469 TCATATTTCG
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
51 3 0.04
52 69 0.96
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCAGCATGTATCGATACACTATAAAA
Found at i:534546 original size:43 final size:43
Alignment explanation
Indices: 534485--534638 Score: 227
Period size: 43 Copynumber: 3.4 Consensus size: 43
534475 GGGGACGAAT
534485 TCAGCATATTGACACCTTTAAGTCCAATATAGCTGGCCTTGAA
1 TCAGCATATTGACACCTTTAAGTCCAATATAGCTGGCCTTGAA
*
534528 TCAGCATATTGACACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGAA
1 TCAGCATATTGACA-C-----CTTTAAGTCCAATATAGCTGGCCTTGAA
*
534577 TCAGCACATTGACACCTTTAAGTCCAATATAGCTGGCCTTGAA
1 TCAGCATATTGACACCTTTAAGTCCAATATAGCTGGCCTTGAA
*
534620 TCAGCATATTGGCACCTTT
1 TCAGCATATTGACACCTTT
534639 TCCATCTTTA
Statistics
Matches: 100, Mismatches: 5, Indels: 12
0.85 0.04 0.10
Matches are distributed among these distances:
43 58 0.58
44 1 0.01
48 1 0.01
49 40 0.40
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (43 bp):
TCAGCATATTGACACCTTTAAGTCCAATATAGCTGGCCTTGAA
Found at i:534557 original size:49 final size:49
Alignment explanation
Indices: 534500--534691 Score: 252
Period size: 52 Copynumber: 4.0 Consensus size: 49
534490 ATATTGACAC
*
534500 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACACCTTTAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTAT
*
534549 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACA-C-----
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTAT
* *
534592 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACC-TTT--AT
* *
534644 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACA-CCTTT
534692 TTCTCATCTT
Statistics
Matches: 124, Mismatches: 9, Indels: 17
0.83 0.06 0.11
Matches are distributed among these distances:
43 39 0.31
44 1 0.01
48 1 0.01
49 40 0.32
52 41 0.33
53 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (49 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTAT
Found at i:534670 original size:52 final size:52
Alignment explanation
Indices: 534592--534745 Score: 177
Period size: 52 Copynumber: 2.9 Consensus size: 52
534582 ACATTGACAC
534592 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAAT-TAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
* * *
534644 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAAT-TAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTCTCAT
* * * *
534699 CTTTAAGCCCAA-TAGCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 CTTTAAGTCCAATTAGC--TGGCCTTGAATCAGCATATTGGCACCTTT
534746 ATCACTTTTC
Statistics
Matches: 86, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
52 38 0.44
53 9 0.10
54 6 0.07
55 33 0.38
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (52 bp):
CTTTAAGTCCAATTAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
Found at i:534902 original size:169 final size:172
Alignment explanation
Indices: 534592--534978 Score: 444
Period size: 169 Copynumber: 2.2 Consensus size: 172
534582 ACATTGACAC
* * *
534592 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTT-CATCTTTAAGTCCAAT
* * * *
534657 GTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCCAATAGCGTTGGCC
65 ATAGCTAGCC-TGAATCAGCACATT-ACATCCTTTTTCTCATCTCTAAACCCAATAGCGTTGGCC
* * *
534722 GTGAATCAACATATTGG-CATCTTTATCACTTTTC-TCATCTTCAT
128 GTGAATCAACATATTGGTCAT-TTTATCACTCTTCATCATCATAAT
*
534766 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTT-ATCTTTAAGTCCAATA
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTTCATCTTTAAGTCCAATA
* ** * * * *
534829 TCGCTAGCC-GCATATTGGCTCCTT-TATCCTTTTTCTCATCTCTAAACCCAATATCGTTGGCCG
66 TAGCTAGCCTG-A-ATCAGCACATTACATCCTTTTTCTCATCTCTAAACCCAATAGCGTTGGCCG
* * *
534892 TGAATCAACATATTGGTCCTTTTATCGCTCTTCATCCTCATAAT
129 TGAATCAACATATTGGTCATTTTATCACTCTTCATCATCATAAT
* * * * *
534936 CTTTAAGTCCAGTGTGGCAGGCCTTGAATCTGCACAGTGGCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
534979 ACTGTAAGAC
Statistics
Matches: 183, Mismatches: 26, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
169 63 0.34
170 48 0.26
171 28 0.15
173 3 0.02
174 41 0.22
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (172 bp):
CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTTCATCTTTAAGTCCAATA
TAGCTAGCCTGAATCAGCACATTACATCCTTTTTCTCATCTCTAAACCCAATAGCGTTGGCCGTG
AATCAACATATTGGTCATTTTATCACTCTTCATCATCATAAT
Found at i:535402 original size:43 final size:43
Alignment explanation
Indices: 535341--535494 Score: 227
Period size: 43 Copynumber: 3.4 Consensus size: 43
535331 GGGGACGAAT
535341 TCAGCATATTGACACCTTTAAGTCCAATATAGCTGGCCTTGAA
1 TCAGCATATTGACACCTTTAAGTCCAATATAGCTGGCCTTGAA
*
535384 TCAGCATATTGACACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGAA
1 TCAGCATATTGACA-C-----CTTTAAGTCCAATATAGCTGGCCTTGAA
*
535433 TCAGCACATTGACACCTTTAAGTCCAATATAGCTGGCCTTGAA
1 TCAGCATATTGACACCTTTAAGTCCAATATAGCTGGCCTTGAA
*
535476 TCAGCATATTGGCACCTTT
1 TCAGCATATTGACACCTTT
535495 TCCATCTTTA
Statistics
Matches: 100, Mismatches: 5, Indels: 12
0.85 0.04 0.10
Matches are distributed among these distances:
43 58 0.58
44 1 0.01
48 1 0.01
49 40 0.40
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (43 bp):
TCAGCATATTGACACCTTTAAGTCCAATATAGCTGGCCTTGAA
Found at i:535413 original size:49 final size:49
Alignment explanation
Indices: 535356--535547 Score: 252
Period size: 52 Copynumber: 4.0 Consensus size: 49
535346 ATATTGACAC
*
535356 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACACCTTTAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTAT
*
535405 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACA-C-----
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTAT
* *
535448 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACC-TTT--AT
* *
535500 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACA-CCTTT
535548 TTCTCATCTT
Statistics
Matches: 124, Mismatches: 9, Indels: 17
0.83 0.06 0.11
Matches are distributed among these distances:
43 39 0.31
44 1 0.01
48 1 0.01
49 40 0.32
52 41 0.33
53 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (49 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTAT
Found at i:535526 original size:52 final size:52
Alignment explanation
Indices: 535448--535601 Score: 177
Period size: 52 Copynumber: 2.9 Consensus size: 52
535438 ACATTGACAC
535448 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAAT-TAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
* * *
535500 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAAT-TAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTCTCAT
* * * *
535555 CTTTAAGCCCAA-TAGCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 CTTTAAGTCCAATTAGC--TGGCCTTGAATCAGCATATTGGCACCTTT
535602 ATCACTTTTC
Statistics
Matches: 86, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
52 38 0.44
53 9 0.10
54 6 0.07
55 33 0.38
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (52 bp):
CTTTAAGTCCAATTAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
Found at i:535758 original size:169 final size:172
Alignment explanation
Indices: 535448--535834 Score: 444
Period size: 169 Copynumber: 2.2 Consensus size: 172
535438 ACATTGACAC
* * *
535448 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTT-CATCTTTAAGTCCAAT
* * * *
535513 GTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCCAATAGCGTTGGCC
65 ATAGCTAGCC-TGAATCAGCACATT-ACATCCTTTTTCTCATCTCTAAACCCAATAGCGTTGGCC
* * *
535578 GTGAATCAACATATTGG-CATCTTTATCACTTTTC-TCATCTTCAT
128 GTGAATCAACATATTGGTCAT-TTTATCACTCTTCATCATCATAAT
*
535622 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTT-ATCTTTAAGTCCAATA
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTTCATCTTTAAGTCCAATA
* ** * * * *
535685 TCGCTAGCC-GCATATTGGCTCCTT-TATCCTTTTTCTCATCTCTAAACCCAATATCGTTGGCCG
66 TAGCTAGCCTG-A-ATCAGCACATTACATCCTTTTTCTCATCTCTAAACCCAATAGCGTTGGCCG
* * *
535748 TGAATCAACATATTGGTCCTTTTATCGCTCTTCATCCTCATAAT
129 TGAATCAACATATTGGTCATTTTATCACTCTTCATCATCATAAT
* * * * *
535792 CTTTAAGTCCAGTGTGGCAGGCCTTGAATCTGCACAGTGGCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
535835 ACTGTAAGAC
Statistics
Matches: 183, Mismatches: 26, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
169 63 0.34
170 48 0.26
171 28 0.15
173 3 0.02
174 41 0.22
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (172 bp):
CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTTCATCTTTAAGTCCAATA
TAGCTAGCCTGAATCAGCACATTACATCCTTTTTCTCATCTCTAAACCCAATAGCGTTGGCCGTG
AATCAACATATTGGTCATTTTATCACTCTTCATCATCATAAT
Found at i:536050 original size:856 final size:856
Alignment explanation
Indices: 534398--536276 Score: 3740
Period size: 856 Copynumber: 2.2 Consensus size: 856
534388 GCATGATCAT
*
534398 TGTAGACACTTCATTTTGTCCGAGCCCATTTTCGACAATTTGAAGCCTAGCTAGTAGGTGGAATA
1 TGTAGACACTTCATTTTGTCCGAGCCAATTTTCGACAATTTGAAGCCTAGCTAGTAGGTGGAATA
534463 TCCGACGTATGTGGGGACGAATTCAGCATATTGACACCTTTAAGTCCAATATAGCTGGCCTTGAA
66 TCCGACGTATGTGGGGACGAATTCAGCATATTGACACCTTTAAGTCCAATATAGCTGGCCTTGAA
534528 TCAGCATATTGACACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACACC
131 TCAGCATATTGACACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACACC
534593 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAATG
196 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAATG
534658 TAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCCAATAGCGTTGGCCG
261 TAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCCAATAGCGTTGGCCG
534723 TGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTCATCTTTAAGTCCAATGTCGCTGGC
326 TGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTCATCTTTAAGTCCAATGTCGCTGGC
534788 CTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATATCGCTAGCCGCATATTGGCTCCTT
391 CTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATATCGCTAGCCGCATATTGGCTCCTT
534853 TATCCTTTTTCTCATCTCTAAACCCAATATCGTTGGCCGTGAATCAACATATTGGTCCTTTTATC
456 TATCCTTTTTCTCATCTCTAAACCCAATATCGTTGGCCGTGAATCAACATATTGGTCCTTTTATC
534918 GCTCTTCATCCTCATAATCTTTAAGTCCAGTGTGGCAGGCCTTGAATCTGCACAGTGGCACACTG
521 GCTCTTCATCCTCATAATCTTTAAGTCCAGTGTGGCAGGCCTTGAATCTGCACAGTGGCACACTG
*
534983 TAAGACATTGACCATATTCTTCCAAAATCCTCTCCAAACTCTACACTAATCTACACCTATCTAAG
586 TAAGACATTGACCATATTCTTCCAAAATCCTCTCCAAACTCTACACCAATCTACACCTATCTAAG
535048 GAGGTCAAGCCTTAGAAAACTTCAAAACCTAGTAGGGAGGACAAACCCTACAAACTCATTTTTTC
651 GAGGTCAAGCCTTAGAAAACTTCAAAACCTAGTAGGGAGGACAAACCCTACAAACTCATTTTTTC
535113 CATCGGAACCGCCGCCAATAGACTCTTCATCACGGCGAAGCATTAATCACCCAGAGGTCACAACA
716 CATCGGAACCGCCGCCAATAGACTCTTCATCACGGCGAAGCATTAATCACCCAGAGGTCACAACA
535178 TGCGGCCGCGGACAAAATGGTGTCTATTTGTCTTTGGCCTGTTCCTGATACTCAGAAACGGCCAA
781 TGCGGCCGCGGACAAAATGGTGTCTATTTGTCTTTGGCCTGTTCCTGATACTCAGAAACGGCCAA
535243 AGAGGGGCAGC
846 AGAGGGGCAGC
535254 TGTAGACACTTCATTTTGTCCGAGCCAATTTTCGACAATTTGAAGCCTAGCTAGTAGGTGGAATA
1 TGTAGACACTTCATTTTGTCCGAGCCAATTTTCGACAATTTGAAGCCTAGCTAGTAGGTGGAATA
535319 TCCGACGTATGTGGGGACGAATTCAGCATATTGACACCTTTAAGTCCAATATAGCTGGCCTTGAA
66 TCCGACGTATGTGGGGACGAATTCAGCATATTGACACCTTTAAGTCCAATATAGCTGGCCTTGAA
535384 TCAGCATATTGACACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACACC
131 TCAGCATATTGACACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACACC
535449 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAATG
196 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAATG
535514 TAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCCAATAGCGTTGGCCG
261 TAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCCAATAGCGTTGGCCG
535579 TGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTCATCTTTAAGTCCAATGTCGCTGGC
326 TGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTCATCTTTAAGTCCAATGTCGCTGGC
535644 CTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATATCGCTAGCCGCATATTGGCTCCTT
391 CTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATATCGCTAGCCGCATATTGGCTCCTT
535709 TATCCTTTTTCTCATCTCTAAACCCAATATCGTTGGCCGTGAATCAACATATTGGTCCTTTTATC
456 TATCCTTTTTCTCATCTCTAAACCCAATATCGTTGGCCGTGAATCAACATATTGGTCCTTTTATC
535774 GCTCTTCATCCTCATAATCTTTAAGTCCAGTGTGGCAGGCCTTGAATCTGCACAGTGGCACACTG
521 GCTCTTCATCCTCATAATCTTTAAGTCCAGTGTGGCAGGCCTTGAATCTGCACAGTGGCACACTG
535839 TAAGACATTGACCATATTCTTCCAAAATCCTCTCCAAACTCTACACCAATCTACACCTATCTAAG
586 TAAGACATTGACCATATTCTTCCAAAATCCTCTCCAAACTCTACACCAATCTACACCTATCTAAG
535904 GAGGTCAAGCCTTAGAAAACTTCAAAACCTAGTAGGGAGGACAAACCCTACAAACTCATTTTTTC
651 GAGGTCAAGCCTTAGAAAACTTCAAAACCTAGTAGGGAGGACAAACCCTACAAACTCATTTTTTC
535969 CATCGGAACCGCCGCCAATAGACTCTTCATCACGGCGAAGCATTAATCACCCAGAGGTCACAACA
716 CATCGGAACCGCCGCCAATAGACTCTTCATCACGGCGAAGCATTAATCACCCAGAGGTCACAACA
536034 TGCGGCCGCGGACAAAATGGTGTCTATTTGTCTTTGGCCTGTTCCTGATACTCAGAAACGGCCAA
781 TGCGGCCGCGGACAAAATGGTGTCTATTTGTCTTTGGCCTGTTCCTGATACTCAGAAACGGCCAA
536099 AGAGGGGCAGC
846 AGAGGGGCAGC
536110 TGTAGACACTTCATTTTGTCCGAGCCAATTTTCGACAATTTGAAGCCTAGCTAGTAGGTGGAATA
1 TGTAGACACTTCATTTTGTCCGAGCCAATTTTCGACAATTTGAAGCCTAGCTAGTAGGTGGAATA
536175 TCCGACGTATGTGGGGACGAATTCAGCATATTGACACCTTTAAGTCCAATATAGCTGGCCTTGAA
66 TCCGACGTATGTGGGGACGAATTCAGCATATTGACACCTTTAAGTCCAATATAGCTGGCCTTGAA
536240 TCAGCATATTGACACCTTTATCTTTAAGTCCAATGTA
131 TCAGCATATTGACACCTTTATCTTTAAGTCCAATGTA
536277 TCGATATCCC
Statistics
Matches: 1021, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
856 1021 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (856 bp):
TGTAGACACTTCATTTTGTCCGAGCCAATTTTCGACAATTTGAAGCCTAGCTAGTAGGTGGAATA
TCCGACGTATGTGGGGACGAATTCAGCATATTGACACCTTTAAGTCCAATATAGCTGGCCTTGAA
TCAGCATATTGACACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACACC
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAATG
TAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCCAATAGCGTTGGCCG
TGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTCATCTTTAAGTCCAATGTCGCTGGC
CTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATATCGCTAGCCGCATATTGGCTCCTT
TATCCTTTTTCTCATCTCTAAACCCAATATCGTTGGCCGTGAATCAACATATTGGTCCTTTTATC
GCTCTTCATCCTCATAATCTTTAAGTCCAGTGTGGCAGGCCTTGAATCTGCACAGTGGCACACTG
TAAGACATTGACCATATTCTTCCAAAATCCTCTCCAAACTCTACACCAATCTACACCTATCTAAG
GAGGTCAAGCCTTAGAAAACTTCAAAACCTAGTAGGGAGGACAAACCCTACAAACTCATTTTTTC
CATCGGAACCGCCGCCAATAGACTCTTCATCACGGCGAAGCATTAATCACCCAGAGGTCACAACA
TGCGGCCGCGGACAAAATGGTGTCTATTTGTCTTTGGCCTGTTCCTGATACTCAGAAACGGCCAA
AGAGGGGCAGC
Found at i:536474 original size:33 final size:33
Alignment explanation
Indices: 536437--536503 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
536427 TTCAACGATT
536437 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
536470 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
536503 T
1 T
536504 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:536475 original size:13 final size:13
Alignment explanation
Indices: 536457--536481 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
536447 CATAAAATGT
536457 TGTATCGATACAA
1 TGTATCGATACAA
536470 TGTATCGATACA
1 TGTATCGATACA
536482 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:536562 original size:13 final size:13
Alignment explanation
Indices: 536544--536568 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
536534 ATTACTCAAA
536544 TGTATCGATACAT
1 TGTATCGATACAT
536557 TGTATCGATACA
1 TGTATCGATACA
536569 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:536633 original size:52 final size:52
Alignment explanation
Indices: 536577--536701 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
536567 CACTGATCTT
*
536577 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
536629 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
536681 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
536702 CTTTTCATAT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:543635 original size:21 final size:21
Alignment explanation
Indices: 543593--543652 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 21
543583 TATTGTTTGG
*
543593 TTTTGTTTTCTAAAAT-TATTA
1 TTTTATTTT-TAAAATATATTA
*
543614 TTTTATTTTTAAAATATTTTA
1 TTTTATTTTTAAAATATATTA
* *
543635 -TATATTTTTAATATATAT
1 TTTTATTTTTAAAATATAT
543653 ATTAAAATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
20 21 0.64
21 12 0.36
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTTATTTTTAAAATATATTA
Found at i:544251 original size:36 final size:36
Alignment explanation
Indices: 544198--544267 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
544188 GAATATATTA
* * **
544198 AGAAATCGTCACTTGATATGGTGATTTCTCAACTTG
1 AGAAATCATCACCTGATATGACGATTTCTCAACTTG
544234 AGAAATCATCACCTGATATGACGATTTCTCAACT
1 AGAAATCATCACCTGATATGACGATTTCTCAACT
544268 GTAATTGAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (36 bp):
AGAAATCATCACCTGATATGACGATTTCTCAACTTG
Found at i:544890 original size:24 final size:22
Alignment explanation
Indices: 544821--544907 Score: 77
Period size: 22 Copynumber: 3.9 Consensus size: 22
544811 ATATAATTAT
**
544821 ATTAATTTAATTTAATTTTTTTA
1 ATTAATTTAATTT-ATTTTTAAA
* ** *
544844 AGTAATTTAA-AAATTTTTGAA
1 ATTAATTTAATTTATTTTTAAA
*
544865 ATCTAATTTATTTTTATTTTTAAA
1 AT-TAATTTA-ATTTATTTTTAAA
544889 ATTAATTTAATTTATTTTT
1 ATTAATTTAATTTATTTTT
544908 TATTTTATTA
Statistics
Matches: 50, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
21 8 0.16
22 16 0.32
23 16 0.32
24 10 0.20
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.60
Consensus pattern (22 bp):
ATTAATTTAATTTATTTTTAAA
Found at i:544908 original size:23 final size:23
Alignment explanation
Indices: 544821--544909 Score: 69
Period size: 23 Copynumber: 3.9 Consensus size: 23
544811 ATATAATTAT
*
544821 ATTAATTTAATTTAATTTTTT-TA
1 ATTAATTTAATTT-ATTTTTTAAA
* * * *
544844 AGTAATTTAA--AAATTTTTGAA
1 ATTAATTTAATTTATTTTTTAAA
*
544865 ATCTAATTT-ATTTTTATTTTTAAA
1 AT-TAATTTAATTTAT-TTTTTAAA
544889 ATTAATTTAATTTATTTTTTA
1 ATTAATTTAATTTATTTTTTA
544910 TTTTATTATA
Statistics
Matches: 50, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
20 6 0.12
21 3 0.06
22 6 0.12
23 21 0.42
24 14 0.28
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.60
Consensus pattern (23 bp):
ATTAATTTAATTTATTTTTTAAA
Found at i:544908 original size:24 final size:24
Alignment explanation
Indices: 544856--544907 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
544846 TAATTTAAAA
*
544856 ATTTTTGAAATCTAATTTATTTTT
1 ATTTTTAAAATCTAATTTATTTTT
*
544880 ATTTTTAAAAT-TAATTTA-ATTT
1 ATTTTTAAAATCTAATTTATTTTT
544902 ATTTTT
1 ATTTTT
544908 TATTTTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 9 0.35
23 7 0.27
24 10 0.38
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (24 bp):
ATTTTTAAAATCTAATTTATTTTT
Found at i:544963 original size:23 final size:22
Alignment explanation
Indices: 544929--544974 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
544919 ATATAAATTT
544929 AAAATATTAATTATAAAAATAAA
1 AAAATATTAATTATAAAAA-AAA
*
544952 AAAAT-TTAAATTTTAAAAAAAA
1 AAAATATT-AATTATAAAAAAAA
544974 A
1 A
544975 CATCATGGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (22 bp):
AAAATATTAATTATAAAAAAAA
Found at i:548295 original size:20 final size:19
Alignment explanation
Indices: 548240--548348 Score: 104
Period size: 20 Copynumber: 5.8 Consensus size: 19
548230 TTTTCACAAT
548240 TTGTATCGATACATTATTCA
1 TTGTATCGATACATT-TTCA
*
548260 TTATATCGATACATTGTTCA
1 TTGTATCGATACATT-TTCA
548280 TTGTATCGAT--A----CA
1 TTGTATCGATACATTTTCA
*
548293 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATT-TTCA
*
548313 TTGTATCAATACATTTTACA
1 TTGTATCGATACATTTT-CA
*
548333 ATGTATCGATACATTT
1 TTGTATCGATACATTT
548349 AGGCATTTTT
Statistics
Matches: 74, Mismatches: 7, Indels: 16
0.76 0.07 0.16
Matches are distributed among these distances:
13 12 0.16
15 1 0.01
18 1 0.01
19 1 0.01
20 59 0.80
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.43
Consensus pattern (19 bp):
TTGTATCGATACATTTTCA
Found at i:548305 original size:33 final size:33
Alignment explanation
Indices: 548258--548327 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
548248 ATACATTATT
* *
548258 CATTATATCGATACATTGTTCATTGTATCGATA
1 CATTATATCGATACATTGCTCATTGTATCAATA
*
548291 CATTGTATCGATACATTGCTCATTGTATCAATA
1 CATTATATCGATACATTGCTCATTGTATCAATA
548324 CATT
1 CATT
548328 TTACAATGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.41
Consensus pattern (33 bp):
CATTATATCGATACATTGCTCATTGTATCAATA
Found at i:548325 original size:53 final size:53
Alignment explanation
Indices: 548240--548347 Score: 155
Period size: 53 Copynumber: 2.0 Consensus size: 53
548230 TTTTCACAAT
* * *
548240 TTGTATCGATACATTATTCATTATATCGATACATTGTT-CATTGTATCGATACA
1 TTGTATCGATACATTACTCATTATATCAATACATT-TTACAATGTATCGATACA
* *
548293 TTGTATCGATACATTGCTCATTGTATCAATACATTTTACAATGTATCGATACA
1 TTGTATCGATACATTACTCATTATATCAATACATTTTACAATGTATCGATACA
548346 TT
1 TT
548348 TAGGCATTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
52 2 0.04
53 47 0.96
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.43
Consensus pattern (53 bp):
TTGTATCGATACATTACTCATTATATCAATACATTTTACAATGTATCGATACA
Found at i:548327 original size:13 final size:13
Alignment explanation
Indices: 548278--548308 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
548268 ATACATTGTT
548278 CATTGTATCGATA
1 CATTGTATCGATA
548291 CATTGTATCGATA
1 CATTGTATCGATA
548304 CATTG
1 CATTG
548309 CTCATTGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:549893 original size:183 final size:180
Alignment explanation
Indices: 549593--550280 Score: 822
Period size: 183 Copynumber: 3.8 Consensus size: 180
549583 TTTACTTTTC
* *
549593 AGTCCTCAAAGAGCAAGATG-C--CT--TTCAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCC
1 AGTCCTCAAAGAGCAGGATGCCTTCTCCTTCAAAGCCCACACAAGTTGGTGGCACCCTCTAGTCC
* * *
549653 TCAAAGAGTAGGATGCCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCCCCCTTTAGTCCTCAA
66 TCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAA
* **
549718 AGAGCAGGACGCCTTCTCCTTCAAAGCCCACACGAGTTGGTGGCACTCTCC
131 AGAGCAGGACGCCTTCTCCTT-AAAGCCCACACAAGTTGGTGGCACTCTTT
* * * **
549769 AGTCCTCAAAGAGCAGGATGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA-CCTAGAG
1 AGTCCTCAAAGAGCAGGATGCC--TTCTC-CTTCAAAGCCCACACAAGTTGGTGGCACCCTCTAG
549833 TCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCT
63 TCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCT
* * *
549898 CAAAGAGCAGGACGCCTTTTCCCAACTGTAATTGCCCACGCAAGTTGGT-GCA-TCCTTT
128 CAAAGAGCAGGACGCC--TTCTC--CT-TAA-AGCCCACACAAGTTGGTGGCACT-CTTT
* **
549956 AGTCCTCAAAGAGCAGGATGCCTTCTCCTTCAAAGCCCACACGAGTTGGTGGCACATTCTAGTCC
1 AGTCCTCAAAGAGCAGGATGCCTTCTCCTTCAAAGCCCACACAAGTTGGTGGCACCCTCTAGTCC
*
550021 TCAAAGAGCAGGATGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTTAGTCCTC
66 TCAAAGAGCAGGATGCC--TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTC
* * * * *
550085 AAAGAGTAGGACGTCTTTTCCTTTTAAAGCCCACATAAGTTGGTGGCACCCTTT
129 AAAGAGCAGGACGCCTTCTCC--TTAAAGCCCACACAAGTTGGTGGCACTCTTT
* * *
550139 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTCAAAGCCCACACGAGTTGGTGGCACCCTCCAGTCC
1 AGTCCTCAAAGAGCAGGATGCCTTCTCCTTCAAAGCCCACACAAGTTGGTGGCACCCTCTAGTCC
* * ** * *
550204 TTAAAGAGCAAGACACATTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCAGCTCC--TAGTCC
66 TCAAAGAGCAGGATGC--CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-C-CCTTTAGTCC
550267 TCAAAGAGCAGGAC
127 TCAAAGAGCAGGAC
550281 ACATTTTATT
Statistics
Matches: 444, Mismatches: 41, Indels: 46
0.84 0.08 0.09
Matches are distributed among these distances:
176 19 0.04
177 1 0.00
181 1 0.00
182 15 0.03
183 199 0.45
184 72 0.16
185 31 0.07
186 28 0.06
187 63 0.14
188 15 0.03
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.26
Consensus pattern (180 bp):
AGTCCTCAAAGAGCAGGATGCCTTCTCCTTCAAAGCCCACACAAGTTGGTGGCACCCTCTAGTCC
TCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAA
AGAGCAGGACGCCTTCTCCTTAAAGCCCACACAAGTTGGTGGCACTCTTT
Found at i:550022 original size:247 final size:244
Alignment explanation
Indices: 549613--550279 Score: 930
Period size: 247 Copynumber: 2.7 Consensus size: 244
549603 GAGCAAGATG
* * * *
549613 CCTTTCAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGATGCCTTTTCCTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCCT
* * *
549678 TTAAAGCCCACACGAGTTGGTGGCCCCCTTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTCAAA
66 GTAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTCAAA
549743 GCCCACACGAGTTGGTGGCACTCTCCAGTCCTCAAAGAGCAGGATGCCTTTTTTCTTTTTAAAGC
131 GCCCACACGAGTTGGTGGCACTCTCCAGTCCTCAAAGAGCAGGATGCCTTTTTTCTTTTTAAAGC
*
549808 CCACACAAGTTGGTGGCACCTAGAGTCCTCAAAGAGCAGGATGCCTTTT
196 CCACACAAGTTGGTGGCACCTAGAGTCCTCAAAGAGCAGGACGCCTTTT
549857 CCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCCA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTT-CC-
* * * *
549922 ACTGTAATTGCCCACGCAAGTTGGT-GCATCCTTTAGTCCTCAAAGAGCAGGATGCCTTCTCCTT
64 -CTGTAA-AGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTT
*
549986 CAAAGCCCACACGAGTTGGTGGCACAT-TCTAGTCCTCAAAGAGCAGGATGCCTTTTTTCTTTTT
127 CAAAGCCCACACGAGTTGGTGGCAC-TCTCCAGTCCTCAAAGAGCAGGATGCCTTTTTTCTTTTT
** * *
550050 AAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGTAGGACGTCTTTT
191 AAAGCCCACACAAGTTGGTGGCACCTAGAGTCCTCAAAGAGCAGGACGCCTTTT
* *
550104 CCTTTTAAAGCCCACATAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTCT-CCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCCT
* ** * * * * * *
550168 -TCAAAGCCCACACGAGTTGGTGGCACCCTCCAGTCCTTAAAGAGCAAGACACATTTTTTCTTTT
66 GT-AAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACGC--CTTCTC-CTT
* * *
550232 TAAAGCCCACACAAGTTGGTGGCAGCTC-CTAGTCCTCAAAGAGCAGGA
127 CAAAGCCCACACGAGTTGGTGGCA-CTCTCCAGTCCTCAAAGAGCAGGA
550280 CACATTTTAT
Statistics
Matches: 377, Mismatches: 34, Indels: 22
0.87 0.08 0.05
Matches are distributed among these distances:
242 15 0.04
243 27 0.07
244 58 0.15
245 7 0.02
246 45 0.12
247 210 0.56
248 15 0.04
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.26
Consensus pattern (244 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCCT
GTAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTCAAA
GCCCACACGAGTTGGTGGCACTCTCCAGTCCTCAAAGAGCAGGATGCCTTTTTTCTTTTTAAAGC
CCACACAAGTTGGTGGCACCTAGAGTCCTCAAAGAGCAGGACGCCTTTT
Found at i:550280 original size:123 final size:120
Alignment explanation
Indices: 549614--550280 Score: 716
Period size: 123 Copynumber: 5.4 Consensus size: 120
549604 AGCAAGATGC
* * *
549614 CTTTCAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGATGCC-TTTTC-CT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCC-TTAGTCCTCAAAGAGCAGGACGCCTTTTTCAC-
* * *
549677 TTTAAAGCCCACACGAGTTGGTGGCCCCCTTTAGTCCTCAAAGAGCAGGACGCCTTCT
64 TTTAAAGCCCACACAAGTTGGTGG-CACCTTTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * * * * **
549735 CCTTCAAAGCCCACACGAGTTGGTGGCACTCTCCAGTCCTCAAAGAGCAGGATGCCTTTTTTCTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCCT-TAGTCCTCAAAGAGCAGGACGCC-TTTTTCAC
** *
549800 TTTAAAGCCCACACAAGTTGGTGGCACCTAGAGTCCTCAAAGAGCAGGATGCCTTTT
64 TTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTT
*
549857 CCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCCA
1 -CTTTTAAAGCCCACACAAGTTGGTGGCACCC-TTAGTCCTCAAAGAGCAGGACGCCTTTT-TC-
* * * * *
549922 ACTGTAATTGCCCACGCAAGTTGGT-GCATCCTTTAGTCCTCAAAGAGCAGGATGCCTTCT
62 ACTTTAA-AGCCCACACAAGTTGGTGGCA-CCTTTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * ** * **
549982 CCTTCAAAGCCCACACGAGTTGGTGGCACATTCTAGTCCTCAAAGAGCAGGATGCCTTTTTTCTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCCT-TAGTCCTCAAAGAGCAGGACGCC-TTTTTCAC
* *
550047 TTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGTAGGACGTCTTTT
64 TTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTT
* *
550104 CCTTTTAAAGCCCACATAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACGCC-TTCTC-C
1 -CTTTTAAAGCCCACACAAGTTGGTGGCACCC-TTAGTCCTCAAAGAGCAGGACGCCTTTTTCAC
* * ** * * * *
550167 TTCAAAGCCCACACGAGTTGGTGGCACCCTCCAGTCCTTAAAGAGCAAGACACATTTTTT
64 TTTAAAGCCCACACAAGTTGGTGGCA-CCTTTAGTCCTCAAAGAGCAGGACGC--CTTTT
550227 CTTTTTAAAGCCCACACAAGTTGGTGGCAGCTCC-TAGTCCTCAAAGAGCAGGAC
1 C-TTTTAAAGCCCACACAAGTTGGTGGCA-C-CCTTAGTCCTCAAAGAGCAGGAC
550281 ACATTTTATT
Statistics
Matches: 462, Mismatches: 63, Indels: 40
0.82 0.11 0.07
Matches are distributed among these distances:
120 25 0.05
121 72 0.16
122 75 0.16
123 182 0.39
124 59 0.13
125 49 0.11
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.26
Consensus pattern (120 bp):
CTTTTAAAGCCCACACAAGTTGGTGGCACCCTTAGTCCTCAAAGAGCAGGACGCCTTTTTCACTT
TAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTT
Found at i:550311 original size:43 final size:43
Alignment explanation
Indices: 550263--550604 Score: 293
Period size: 43 Copynumber: 7.8 Consensus size: 43
550253 GCAGCTCCTA
* * *
550263 GTCCTCAAAGAGCAGGACACATTTTATTTTCCTCTTCCCCCTT
1 GTCCTCAAAGAGCAGGACACATTTCATTTTCCTTTTCCCCTTT
* * * *
550306 GTCCTCAAAGAGCAAGACGCATTTCATTTCTTTCTTTTCCCTTTT
1 GTCCTCAAAGAGCAGGACACATTTCA-TT-TTCCTTTTCCCCTTT
* * * *
550351 GCCCTCAAAGAGCAAGACACATTT--TTTTCCTTTTCTCCTCT
1 GTCCTCAAAGAGCAGGACACATTTCATTTTCCTTTTCCCCTTT
* * * *
550392 ATCCTTAAAGAGAAGGACACACTTT-ATTTTCCTTTTCTCCTTT
1 GTCCTCAAAGAGCAGGACACA-TTTCATTTTCCTTTTCCCCTTT
* * *
550435 GTCCTCAAAGAGCAGGACACGTTCCATTCCCTT-CTTTTCTCCTTTT
1 GTCCTCAAAGAGCAGGACACATTTCATT---TTCCTTTTC-CCCTTT
*
550481 GTCCTCAAAGAGCAGGACACACTTCATTTTCTTCTTTT-CCCTTCT
1 GTCCTCAAAGAGCAGGACACATTTCATTTTC--CTTTTCCCCTT-T
* * * *
550526 ACTTCTCAAAGAGCAGGACGCACTTT-ATTTTCCTTTT-TCCTTT
1 -GTCCTCAAAGAGCAGGACACA-TTTCATTTTCCTTTTCCCCTTT
* * *
550569 ATCCTCAAAGAGTAGGACACATTTCGTTTTCCTTTT
1 GTCCTCAAAGAGCAGGACACATTTCATTTTCCTTTT
550605 TTTATTTTGT
Statistics
Matches: 243, Mismatches: 40, Indels: 33
0.77 0.13 0.10
Matches are distributed among these distances:
41 30 0.12
42 34 0.14
43 62 0.26
44 15 0.06
45 40 0.16
46 60 0.25
47 2 0.01
ACGTcount: A:0.21, C:0.28, G:0.11, T:0.39
Consensus pattern (43 bp):
GTCCTCAAAGAGCAGGACACATTTCATTTTCCTTTTCCCCTTT
Found at i:550421 original size:46 final size:45
Alignment explanation
Indices: 550264--550598 Score: 240
Period size: 46 Copynumber: 7.6 Consensus size: 45
550254 CAGCTCCTAG
* * * *
550264 TCCTCAAAGAGCAGGACACA-TT--TTATTTTCCTCTTCCCCCTTG
1 TCCTCAAAGAGCAGGACACACTTCATT-TTTTCCTTTTCTCCTTTA
* * *
550307 TCCTCAAAGAGCAAGACGCATTTCATTTCTTT-CTTTTC-CCTTT-
1 TCCTCAAAGAGCAGGACACACTTCATTT-TTTCCTTTTCTCCTTTA
* *
550350 TGCCCTCAAAGAGCAAGACACA--T--TTTTTTCCTTTTCTCCTCTA
1 T--CCTCAAAGAGCAGGACACACTTCATTTTTTCCTTTTCTCCTTTA
* * * *
550393 TCCTTAAAGAGAAGGACACACTT--TATTTTCCTTTTCTCCTTTG
1 TCCTCAAAGAGCAGGACACACTTCATTTTTTCCTTTTCTCCTTTA
* ** *
550436 TCCTCAAAGAGCAGGACAC-GTTCCATTCCCTT-CTTTTCTCCTTTTG
1 TCCTCAAAGAGCAGGACACACTT-CATT-TTTTCCTTTTCTCC-TTTA
550482 TCCTCAAAGAGCAGGACACACTTCATTTTCTT-CTTTTC-CCTTCTA
1 TCCTCAAAGAGCAGGACACACTTCATTTT-TTCCTTTTCTCCTT-TA
* * *
550527 CTTCTCAAAGAGCAGGACGCACTT--TATTTTCCTTTT-TCCTTTA
1 -TCCTCAAAGAGCAGGACACACTTCATTTTTTCCTTTTCTCCTTTA
* * *
550570 TCCTCAAAGAGTAGGACACATTTCGTTTT
1 TCCTCAAAGAGCAGGACACACTTCATTTT
550599 CCTTTTTTTA
Statistics
Matches: 238, Mismatches: 30, Indels: 47
0.76 0.10 0.15
Matches are distributed among these distances:
40 3 0.01
41 25 0.11
42 25 0.11
43 60 0.25
44 23 0.10
45 37 0.16
46 63 0.26
47 2 0.01
ACGTcount: A:0.22, C:0.28, G:0.11, T:0.39
Consensus pattern (45 bp):
TCCTCAAAGAGCAGGACACACTTCATTTTTTCCTTTTCTCCTTTA
Found at i:551338 original size:20 final size:20
Alignment explanation
Indices: 551313--551406 Score: 111
Period size: 20 Copynumber: 4.7 Consensus size: 20
551303 TTTAACCAGA
*
551313 TGTATCGATACATT-TTGCAT
1 TGTATCGATACATTGCT-CAT
*
551333 TGTATCAATACATTGCTCAT
1 TGTATCGATACATTGCTCAT
551353 TGTATCGATACATTGCTCAT
1 TGTATCGATACATTGCTCAT
* * *
551373 TGTATCAATACATT-TTACAA
1 TGTATCGATACATTGCT-CAT
551393 TGTATCGATACATT
1 TGTATCGATACATT
551407 CAGGCATTTT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
19 1 0.02
20 63 0.97
21 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATTGCTCAT
Found at i:551374 original size:40 final size:40
Alignment explanation
Indices: 551312--551407 Score: 133
Period size: 40 Copynumber: 2.4 Consensus size: 40
551302 GTTTAACCAG
*
551312 ATGTATCGATACATTTTGCATTGTATCAATACATTGCT-CA
1 ATGTATCGATACATTCTGCATTGTATCAATACATT-CTACA
* *
551352 TTGTATCGATACATTGCT-CATTGTATCAATACATTTTACA
1 ATGTATCGATACATT-CTGCATTGTATCAATACATTCTACA
551392 ATGTATCGATACATTC
1 ATGTATCGATACATTC
551408 AGGCATTTTG
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
39 2 0.04
40 47 0.94
41 1 0.02
ACGTcount: A:0.30, C:0.18, G:0.11, T:0.41
Consensus pattern (40 bp):
ATGTATCGATACATTCTGCATTGTATCAATACATTCTACA
Found at i:553762 original size:51 final size:51
Alignment explanation
Indices: 553699--553866 Score: 221
Period size: 51 Copynumber: 3.3 Consensus size: 51
553689 TTTTCATCTC
*
553699 GGGGATACTCCAA-TCCTGATTTCATTTCCAAAACATCAATTTTTTTTAATT
1 GGGGATACTCCAACTCC-GATTTTATTTCCAAAACATCAATTTTTTTTAATT
* * * **** *
553750 GGGGATACTCCAACTCCGATTTTATTTCTAAAGCATCGATTTACCGTAATC
1 GGGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTTTTAATT
*
553801 GGGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTTTACAATT
1 GGGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTTT-TAATT
553853 GGGGATACTCCAAC
1 GGGGATACTCCAAC
553867 CCCGTTATTT
Statistics
Matches: 97, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
51 77 0.79
52 20 0.21
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (51 bp):
GGGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTTTTAATT
Found at i:553912 original size:28 final size:28
Alignment explanation
Indices: 553853--553918 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 28
553843 TTTTACAATT
**
553853 GGGGATACTCCAACCCCGTTATTTCATC
1 GGGGATACTCCAACCCCGTTATTTCAGA
* *
553881 GGGGATACTCCAACCCTGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTATTTCAGA
553909 GGGGATACTC
1 GGGGATACTC
553919 TAATCTCGAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTCAGA
Found at i:553952 original size:108 final size:108
Alignment explanation
Indices: 553801--554187 Score: 501
Period size: 108 Copynumber: 3.6 Consensus size: 108
553791 TACCGTAATC
* * * * * ** *
553801 GGGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTTTACAATTGGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATATCTAAAATATTGATTTTTTCACAATTGGGGATACTCCAA
553866 CCCCGTTATTTCATCGGGGATACTCCAACCCTGTTATTTCCGA
66 CCCCGTTATTTCATCGGGGATACTCCAACCCTGTTATTTCCGA
* * * *
553909 GGGGATACTCTAATCTCGACTTTATATCTAAAATATTGATTTTTTCACAATTAGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATATCTAAAATATTGATTTTTTCACAATTGGGGATACTCCAA
* *
553974 CCCCGTTATTTCGTCGGGGATATTCCAACCCTGTTATTTCCGA
66 CCCCGTTATTTCATCGGGGATACTCCAACCCTGTTATTTCCGA
* * * *
554017 GGAGATACTCCAACCCCGGCTTTATATCTAAAATATTGATTTTCTTCATAATCGGGG-TACTCCA
1 GGGGATACTCCAACCCCGACTTTATATCTAAAATATTGATTTT-TTCACAATTGGGGATACTCCA
* * *
554081 ACCCTGTTATTTCATTGGGGATACTCCAATCCC-ATTATTTCCGA
65 ACCCCGTTATTTCATCGGGGATACTCCAA-CCCTGTTATTTCCGA
* * ** *
554125 GGGGATACTCCAACCCCGATTTTATTTCTAAAATA-CCAATTTTTCACAATTGGGGATACTCCA
1 GGGGATACTCCAACCCCGACTTTATATCTAAAATATTGATTTTTTCACAATTGGGGATACTCCA
554188 CCTCCGATTT
Statistics
Matches: 240, Mismatches: 36, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
106 11 0.05
107 11 0.05
108 205 0.85
109 13 0.05
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (108 bp):
GGGGATACTCCAACCCCGACTTTATATCTAAAATATTGATTTTTTCACAATTGGGGATACTCCAA
CCCCGTTATTTCATCGGGGATACTCCAACCCTGTTATTTCCGA
Found at i:554002 original size:28 final size:27
Alignment explanation
Indices: 553961--554034 Score: 96
Period size: 28 Copynumber: 2.7 Consensus size: 27
553951 TTTCACAATT
553961 AGGGATACTCCAACCCCGTTATTTCGTCG
1 AGGGATACTCCAACCCCGTTATTTC--CG
* *
553990 -GGGATATTCCAACCCTGTTATTTCCG
1 AGGGATACTCCAACCCCGTTATTTCCG
554016 AGGAGATACTCCAACCCCG
1 AGG-GATACTCCAACCCCG
554035 GCTTTATATC
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
26 2 0.05
27 2 0.05
28 35 0.90
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (27 bp):
AGGGATACTCCAACCCCGTTATTTCCG
Found at i:554106 original size:28 final size:27
Alignment explanation
Indices: 554070--554140 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 27
554060 CTTCATAATC
* **
554070 GGGG-TACTCCAACCCTGTTATTTCATT
1 GGGGATACTCCAACCC-ATTATTTCAGA
*
554097 GGGGATACTCCAATCCCATTATTTCCGA
1 GGGGATACTCCAA-CCCATTATTTCAGA
554125 GGGGATACTCCAACCC
1 GGGGATACTCCAACCC
554141 CGATTTTATT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
27 7 0.18
28 28 0.74
29 3 0.08
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (27 bp):
GGGGATACTCCAACCCATTATTTCAGA
Found at i:554186 original size:51 final size:51
Alignment explanation
Indices: 554125--554244 Score: 181
Period size: 51 Copynumber: 2.4 Consensus size: 51
554115 TTATTTCCGA
* * *
554125 GGGGATACTCCAACCCCGATTTTA-TTTCTAAAATACCAATTTTTCACAATT
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAACACCAATTTCTCACAATC
554176 GGGGATACTCC-ACCTCCGATTTTATTTTCAAAACACCAATTTCTCACAATC
1 GGGGATACTCCAACC-CCGATTTTATTTTCAAAACACCAATTTCTCACAATC
554227 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
554245 TTATTTTCAT
Statistics
Matches: 63, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
50 3 0.05
51 53 0.84
52 7 0.11
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.30
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTCTCACAATC
Found at i:554258 original size:79 final size:79
Alignment explanation
Indices: 554175--554321 Score: 181
Period size: 79 Copynumber: 1.9 Consensus size: 79
554165 TTTTCACAAT
* ** *
554175 TGGGGATAC-TCCACCTCCGATTTTATTT-TCAAAACACCAATTTCTCACAATCGGGGATACTCC
1 TGGGGATACTTCAACC-CCGACCTTATTTCT-AAAACACCAATTTCTCACAATCAGGGATACTCC
554238 AACCCCGTTATTTTCA
64 AACCCCGTTATTTTCA
* * * * *
554254 TGGGGATACTTCAACCCCGGCCTTATTTCTAAAGCATCGATTTTTCACAATCAGGGATACTCCAA
1 TGGGGATACTTCAACCCCGACCTTATTTCTAAAACACCAATTTCTCACAATCAGGGATACTCCAA
554319 CCC
66 CCC
554322 TGATTTTATT
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
79 51 0.89
80 6 0.11
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (79 bp):
TGGGGATACTTCAACCCCGACCTTATTTCTAAAACACCAATTTCTCACAATCAGGGATACTCCAA
CCCCGTTATTTTCA
Found at i:554330 original size:130 final size:130
Alignment explanation
Indices: 554097--554334 Score: 318
Period size: 130 Copynumber: 1.8 Consensus size: 130
554087 TTATTTCATT
* ** *
554097 GGGGATACTCCAATCCCATTATTTCCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAATACC
1 GGGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCGACCTTATTTCTAAAACACC
**
554162 AATTTTTCACAATTGGGGATACTCCACCTCCGATTTTATTTTCAAAACACCAATTTCTCACAATC
66 AATTTTTCACAATCAGGGATACTCCACCTCCGATTTTATTTTCAAAACACCAATTTCTCACAATC
* * * * * *
554227 GGGGATACTCCAACCCCGTTATTTTC-ATGGGGATACTTCAACCCCGGCCTTATTTCTAAAGCAT
1 GGGGATACTCCAACCCCATTATTTCCGA-GGGGATACTCCAACCCCGACCTTATTTCTAAAACAC
* *
554291 CGATTTTTCACAATCAGGGATACTCCAACC-CTGATTTTATTTTC
65 CAATTTTTCACAATCAGGGATACTCC-ACCTCCGATTTTATTTTC
554335 GGAATATCGA
Statistics
Matches: 92, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
129 1 0.01
130 88 0.96
131 3 0.03
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (130 bp):
GGGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCGACCTTATTTCTAAAACACC
AATTTTTCACAATCAGGGATACTCCACCTCCGATTTTATTTTCAAAACACCAATTTCTCACAATC
Found at i:556164 original size:121 final size:123
Alignment explanation
Indices: 556027--556367 Score: 462
Period size: 123 Copynumber: 2.8 Consensus size: 123
556017 AGTAATAAAA
*
556027 TTTTAATTTAAAATTTTTTATTTTTAAAAACATAATAATTAATATTTTAA-TTGTTAATGTAAAT
1 TTTTATTTTAAAATTTTTTATTTTTAAAAACATAATAATTAATATTTTAATTTGTTAATGTAAAT
* *
556091 TTTTAAACTTAATTAAAAATTATTTTTTATTTTATTAAAAATTATAATAAA-AAACCT
66 TTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAAATAATAATAAACAAACCT
556148 TTTTATTTTAAAATTTTTTATTTTTATAAAAACATAATAATTAA-ATTTTAATTTGTTAATGTAA
1 TTTTATTTTAAAATTTTTTA-TTTT-TAAAAACATAATAATTAATATTTTAATTTGTTAATGTAA
* * ** **
556212 TTTTTTAAACTTAATTAAATATTATTTTTAATTTTATTAAAAATAATAATAAACCCATTT
64 ATTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAAATAATAATAAACAAACCT
* * *
556272 TATTTTTATTTAAAATTTTTTATTATT--AAA-A-AATAATTAATATTTTAATTTGTTAATATAA
1 T-TTTAT-TTTAAAATTTTTTATTTTTAAAAACATAATAATTAATATTTTAATTTGTTAATGTAA
*
556333 ATTTCTTTAAAGTTAATTAAATATTATTTTTTATT
64 A-TT-TTTAAACTTAATTAAATATTATTTTTTATT
556368 AAAAATAATA
Statistics
Matches: 196, Mismatches: 15, Indels: 16
0.86 0.07 0.07
Matches are distributed among these distances:
120 9 0.05
121 39 0.20
122 16 0.08
123 107 0.55
124 4 0.02
125 7 0.04
126 14 0.07
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (123 bp):
TTTTATTTTAAAATTTTTTATTTTTAAAAACATAATAATTAATATTTTAATTTGTTAATGTAAAT
TTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAAATAATAATAAACAAACCT
Found at i:557630 original size:79 final size:79
Alignment explanation
Indices: 557517--557665 Score: 235
Period size: 79 Copynumber: 1.9 Consensus size: 79
557507 CCGATTCTGA
* *
557517 AAAATCGATGTTCTAAAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACAAGGTTGGAGT
1 AAAATCGATATTCTAAAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACAAGGTTGGAGT
557582 ATCCCTAATAATAG
66 ATCCCTAATAATAG
* * * **
557596 AAAATCGATATTTTGAAAATAAAATCGGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGT
1 AAAATCGATATTCTAAAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACAAGGTTGGAGT
557661 ATCCC
66 ATCCC
557666 CGATGAAATA
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
79 63 1.00
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (79 bp):
AAAATCGATATTCTAAAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACAAGGTTGGAGT
ATCCCTAATAATAG
Found at i:557697 original size:28 final size:27
Alignment explanation
Indices: 557621--557697 Score: 120
Period size: 28 Copynumber: 2.8 Consensus size: 27
557611 AAAATAAAAT
557621 CGGGGTTGGAGTATCCCTTCGA-AAATAA
1 CGGGGTTGGAGTATCCC--CGATAAATAA
557649 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAT-AAATAA
557677 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
557698 TGTGAAAAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
26 3 0.06
28 44 0.94
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.23
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCGATAAATAA
Found at i:557728 original size:107 final size:107
Alignment explanation
Indices: 557542--557744 Score: 246
Period size: 107 Copynumber: 1.9 Consensus size: 107
557532 AAAATAAAAT
** *
557542 CGGGGTTGGAGTATCCCCTCGGAAATAACAAGGTTGGAGTATCCCTAATAATAGAAAATCGATAT
1 CGGGGTTGGAGTATCCCCGAGGAAATAACAAGGTTGGAGTATCCCCAATAATAGAAAATCGATAT
* * *
557607 TTTGAAAATAAAATCGGGGTTGGAGTATCCCTTCGAAAATAA
66 TTTGAAAATAAAATCAGAGTTGGAATATCCCTTCGAAAATAA
* ** * ** * * *
557649 CGGGGTTGGAGTATCCCCGATGAAATAACGGGGTTGGAGTATCCCCGATTGT-GAAAAATTGGTG
1 CGGGGTTGGAGTATCCCCGAGGAAATAACAAGGTTGGAGTATCCCCAATAATAG-AAAATCGATA
*
557713 TTTTGGAAATAAAATCAGAGTTGGAATATCCC
65 TTTTGAAAATAAAATCAGAGTTGGAATATCCC
557745 CGATTGTGAA
Statistics
Matches: 79, Mismatches: 16, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
106 1 0.01
107 78 0.99
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.27
Consensus pattern (107 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAACAAGGTTGGAGTATCCCCAATAATAGAAAATCGATAT
TTTGAAAATAAAATCAGAGTTGGAATATCCCTTCGAAAATAA
Found at i:557749 original size:51 final size:51
Alignment explanation
Indices: 557681--557796 Score: 187
Period size: 51 Copynumber: 2.3 Consensus size: 51
557671 AAATAACGGG
* *
557681 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAACCAGA
* * *
557732 GTTGGAATATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAACCGGG
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAACCAGA
557783 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
557797 TCGGAAATAA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAACCAGA
Found at i:560212 original size:29 final size:30
Alignment explanation
Indices: 560165--560240 Score: 118
Period size: 30 Copynumber: 2.5 Consensus size: 30
560155 CGATACATTA
560165 AAAACTGTATCGATACATCTGAGT-AAACCC
1 AAAA-TGTATCGATACATCTGAGTAAAACCC
* *
560195 AGAATGTATCGATACATCTGGGTAAAACCC
1 AAAATGTATCGATACATCTGAGTAAAACCC
560225 AAAATGTATCGATACA
1 AAAATGTATCGATACA
560241 ATGAACAATG
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
29 18 0.43
30 24 0.57
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.24
Consensus pattern (30 bp):
AAAATGTATCGATACATCTGAGTAAAACCC
Found at i:561079 original size:89 final size:90
Alignment explanation
Indices: 560951--561136 Score: 277
Period size: 89 Copynumber: 2.1 Consensus size: 90
560941 AATAAATTTG
** * *
560951 ATTATATCTTAAAATTGAATTTTTTTATGGAAAAAAAGAAAAGTTGATTGATTGTAAATGTCAGA
1 ATTATATCTTAAAATTGAATTTTTTTATAAAAAAAAAGAAAAGTTGATTAAGTGTAAATGTCAGA
561016 CCACAAGGATTAGAATAATGCATGA
66 CCACAAGGATTAGAATAATGCATGA
561041 ATTATATC-TAAGAATT-AATTTTTTTATAAAAAAAAAGAAAAGTTGATTAAGTGTAAATGTCAG
1 ATTATATCTTAA-AATTGAATTTTTTTATAAAAAAAAAGAAAAGTTGATTAAGTGTAAATGTCAG
*** *
561104 ACTGTAAGGATTAGACTAATGCATGA
65 ACCACAAGGATTAGAATAATGCATGA
561130 ATTATAT
1 ATTATAT
561137 ATGAGAATCG
Statistics
Matches: 87, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
89 75 0.86
90 12 0.14
ACGTcount: A:0.44, C:0.06, G:0.16, T:0.34
Consensus pattern (90 bp):
ATTATATCTTAAAATTGAATTTTTTTATAAAAAAAAAGAAAAGTTGATTAAGTGTAAATGTCAGA
CCACAAGGATTAGAATAATGCATGA
Found at i:561180 original size:57 final size:58
Alignment explanation
Indices: 561092--561207 Score: 198
Period size: 57 Copynumber: 2.0 Consensus size: 58
561082 GTTGATTAAG
* *
561092 TGTAAATGTCAGACTGTAAGGATTAGACTAATGCATGAATTATATATGAGAATC-GAT
1 TGTAAATGTCAAACTGCAAGGATTAGACTAATGCATGAATTATATATGAGAATCAGAT
*
561149 TGTAAATGTCAAACTGCAAGGATTAGACTAATGCGTGAATTATATATGAGAATCAGAT
1 TGTAAATGTCAAACTGCAAGGATTAGACTAATGCATGAATTATATATGAGAATCAGAT
561207 T
1 T
561208 TTTTATAGAA
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
57 51 0.93
58 4 0.07
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.31
Consensus pattern (58 bp):
TGTAAATGTCAAACTGCAAGGATTAGACTAATGCATGAATTATATATGAGAATCAGAT
Found at i:561287 original size:144 final size:146
Alignment explanation
Indices: 561000--561289 Score: 415
Period size: 144 Copynumber: 2.0 Consensus size: 146
560990 AAAGTTGATT
* * *
561000 GATTGTAAATGTCAGACCACAAGGATTAGAATAATGCATGAATTATATCTAAGAATTAATTTTTT
1 GATTGTAAATGTCAAACCACAAGGATTAGAATAATGCATGAATTATATATAAGAATCAATTTTTT
* * *
561065 TATAAAAAAAAAGAAAAGTTGATTAAGTGTAAATGTCAGACTGTAAGGATTAGACTAATGCATGA
66 TATAAAAAAAAAGAAAAGTTGACTAAGTGTAAATGTCAGACTGCAAGGATTAGACTAATACATGA
561130 ATTATATATGAGAATC
131 ATTATATATGAGAATC
** * * *
561146 GATTGTAAATGTCAAACTGCAAGGATTAGACTAATGCGTGAATTATATATGAGAATCAGA-TTTT
1 GATTGTAAATGTCAAACCACAAGGATTAGAATAATGCATGAATTATATATAAGAATCA-ATTTTT
* * *
561210 TTAT-AGAAAAAA-AAAAGTTGACTAATTGTAAATGTTAGACTGCAAGGATTAGACTAATACATG
65 TTATAAAAAAAAAGAAAAGTTGACTAAGTGTAAATGTCAGACTGCAAGGATTAGACTAATACATG
*
561273 AATTATATTTGAGAATC
130 AATTATATATGAGAATC
561290 AAATTCTTTT
Statistics
Matches: 128, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
144 62 0.48
145 7 0.05
146 58 0.45
147 1 0.01
ACGTcount: A:0.43, C:0.08, G:0.18, T:0.32
Consensus pattern (146 bp):
GATTGTAAATGTCAAACCACAAGGATTAGAATAATGCATGAATTATATATAAGAATCAATTTTTT
TATAAAAAAAAAGAAAAGTTGACTAAGTGTAAATGTCAGACTGCAAGGATTAGACTAATACATGA
ATTATATATGAGAATC
Found at i:561354 original size:88 final size:87
Alignment explanation
Indices: 561147--561489 Score: 418
Period size: 88 Copynumber: 3.9 Consensus size: 87
561137 ATGAGAATCG
* * * *
561147 ATTGTAAATGTCAAACTGCAAGGATTAGACTAATGCGTGAATTATATATGAGAATCAGATTTTTT
1 ATTGTAAATATCAAACTGCAAGGATTAGACTAATACATGAATTATATTTGAGAATCAGATTTTTT
* * *
561212 ATAGAAAAAAAAAAGTTGACTA
66 TTATAGAAAAAAAAGTTGACTA
* * * *
561234 ATTGTAAATGTTAGACTGCAAGGATTAGACTAATACATGAATTATATTTGAGAATCAAATTCTTT
1 ATTGTAAATATCAAACTGCAAGGATTAGACTAATACATGAATTATATTTGAGAATCAGATT-TTT
*
561299 TTTATAGAAAAAAAAGTTGACTC
65 TTTATAGAAAAAAAAGTTGACTA
* * **
561322 ATTGTAAATATCAAACTGCAACGATTAGACTAATACATGCATTATATTTGAGAATTGGATTCTTT
1 ATTGTAAATATCAAACTGCAAGGATTAGACTAATACATGAATTATATTTGAGAATCAGATT-TTT
* * *
561387 TTTATAGAAAAAAAGAAAGACTGATTG
65 TTTATAG--AAAAA-AAAG-TTGACTA
* * * *
561414 ATTATAAATATCAGACTGCAAGGATTAGACTAATGCATGAATTATGTTTGAGAATCAGA-TTTTT
1 ATTGTAAATATCAAACTGCAAGGATTAGACTAATACATGAATTATATTTGAGAATCAGATTTTTT
561478 TTATAGAAAAAA
66 TTATAGAAAAAA
561490 GAGAGACTGC
Statistics
Matches: 222, Mismatches: 29, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
87 56 0.25
88 91 0.41
90 15 0.07
91 5 0.02
92 55 0.25
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.34
Consensus pattern (87 bp):
ATTGTAAATATCAAACTGCAAGGATTAGACTAATACATGAATTATATTTGAGAATCAGATTTTTT
TTATAGAAAAAAAAGTTGACTA
Found at i:561537 original size:67 final size:70
Alignment explanation
Indices: 561426--561596 Score: 285
Period size: 67 Copynumber: 2.5 Consensus size: 70
561416 TATAAATATC
* *
561426 AGACTGCAAGGATTAGACTAATGCATGAATTATGTTTGAGAATCAGA-T-TTTTTTATA-GAAAA
1 AGACTGCAAGGATTAGACTAATGCATGAATTATATTTGAAAATCAGATTCTTTTTTATAGGAAAA
*
561488 AAGAG
66 AAGAA
561493 AGACTGCAAGGATTAGACTAATGCATGAATTATATTTGAAAATCAGATTCTTTTTTATAGGAAAA
1 AGACTGCAAGGATTAGACTAATGCATGAATTATATTTGAAAATCAGATTCTTTTTTATAGGAAAA
561558 AAGAA
66 AAGAA
*
561563 AAACTGCAAGGATTAGACTAATGCATGAATTATA
1 AGACTGCAAGGATTAGACTAATGCATGAATTATA
561597 CATAAGAATT
Statistics
Matches: 97, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
67 45 0.46
68 1 0.01
69 9 0.09
70 42 0.43
ACGTcount: A:0.42, C:0.09, G:0.19, T:0.30
Consensus pattern (70 bp):
AGACTGCAAGGATTAGACTAATGCATGAATTATATTTGAAAATCAGATTCTTTTTTATAGGAAAA
AAGAA
Found at i:561629 original size:70 final size:69
Alignment explanation
Indices: 561428--561605 Score: 245
Period size: 70 Copynumber: 2.6 Consensus size: 69
561418 TAAATATCAG
* *
561428 ACTGCAAGGATTAGACTAATGCATGAATTATGTTTGAGAATCAGATTT-TTTTAT-AGAAAAAAG
1 ACTGCAAGGATTAGACTAATGCATGAATTATATTTAAGAATCAGATTTCTTTTATAAGAAAAAAG
* *
561491 AGAG
66 AAAA
* *
561495 ACTGCAAGGATTAGACTAATGCATGAATTATATTTGAA-AATCAGATTCTTTTTTATAGGAAAAA
1 ACTGCAAGGATTAGACTAATGCATGAATTATATTT-AAGAATCAGATT-TCTTTTATAAGAAAAA
561559 AGAAAA
64 AGAAAA
**
561565 ACTGCAAGGATTAGACTAATGCATGAATTATACATAAGAAT
1 ACTGCAAGGATTAGACTAATGCATGAATTATATTTAAGAAT
561606 TGAATTTCTT
Statistics
Matches: 99, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
67 43 0.43
68 2 0.02
69 8 0.08
70 46 0.46
ACGTcount: A:0.43, C:0.09, G:0.18, T:0.30
Consensus pattern (69 bp):
ACTGCAAGGATTAGACTAATGCATGAATTATATTTAAGAATCAGATTTCTTTTATAAGAAAAAAG
AAAA
Found at i:564937 original size:20 final size:20
Alignment explanation
Indices: 564912--564986 Score: 105
Period size: 20 Copynumber: 3.8 Consensus size: 20
564902 TTTTACCCAG
564912 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
564932 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
564952 ATGTATTGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
564972 ATGTATCGATACATT
1 ATGTATCGATACATT
564987 CTGTCTTTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:570852 original size:79 final size:79
Alignment explanation
Indices: 570749--570966 Score: 278
Period size: 79 Copynumber: 2.8 Consensus size: 79
570739 TCGGTGTTCA
* * * *
570749 AAAAATAAAATCGGGGTTGAAGTATCCCCTCGGAAATAACAGGGTTAGAGTATCCCTGATTAT-A
1 AAAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAATAGGGTTGGAGTATCCCCGATTATGA
*
570813 GAAAATCGATACTTT
66 G-AAATCAATACTTT
* * *
570828 AAAAATAAAATCGGGATTGGAGTATCCCCGT-GAAAATAATGGGGTTGGAGTATCCCCGATTATG
1 AAAAATAAAATCGGGGTTGGAGTATCCCC-TCGGAAATAATAGGGTTGGAGTATCCCCGATTATG
*
570892 AGAAATCAATATTTT
65 AGAAATCAATACTTT
* ** * *
570907 AGAAATAAAGCCGGGGTTGGAGTATCCCATCGGAAATAATAAGGTTGGAGTATCCCCGAT
1 AAAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAATAGGGTTGGAGTATCCCCGAT
570967 GAAATAACGA
Statistics
Matches: 119, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
78 1 0.01
79 115 0.97
80 3 0.03
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (79 bp):
AAAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAATAGGGTTGGAGTATCCCCGATTATGA
GAAATCAATACTTT
Found at i:570970 original size:28 final size:29
Alignment explanation
Indices: 570921--570994 Score: 91
Period size: 28 Copynumber: 2.6 Consensus size: 29
570911 ATAAAGCCGG
*
570921 GGTTGGAGTAT-CCC-ATCGGAAATAATAA
1 GGTTGGAGTATCCCCGATC-GAAATAACAA
*
570949 GGTTGGAGTATCCCCGAT-GAAATAACGA
1 GGTTGGAGTATCCCCGATCGAAATAACAA
*
570977 GGTTGAAGTATCCCCGAT
1 GGTTGGAGTATCCCCGAT
570995 TGTGAAAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
28 36 0.88
29 3 0.07
30 2 0.05
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (29 bp):
GGTTGGAGTATCCCCGATCGAAATAACAA
Found at i:571033 original size:107 final size:107
Alignment explanation
Indices: 570844--571041 Score: 256
Period size: 107 Copynumber: 1.9 Consensus size: 107
570834 AAAATCGGGA
* * * *
570844 TTGGAGTATCCCCGTGAAAATAATGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAG
1 TTGGAGTATCCCCGTGAAAATAACGAGGTTGAAGTATCCCCGATTATGAAAAATCAATATTTTAG
* *
570909 AAATAAAGCCGGGGTTGGAGTATCCCATCGGAAATAATAAGG
66 AAATAAAACCGGAGTTGGAGTATCCCATCGGAAATAATAAGG
* * * *
570951 TTGGAGTATCCCCGATG-AAATAACGAGGTTGAAGTATCCCCGATTGTGAAAAATTAGTGTTTT-
1 TTGGAGTATCCCCG-TGAAAATAACGAGGTTGAAGTATCCCCGATTATGAAAAATCAATATTTTA
**
571014 GAAAATAAAATTGGAGTTGGAGTATCCC
65 G-AAATAAAACCGGAGTTGGAGTATCCC
571042 CGATTGTAGA
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
106 1 0.01
107 74 0.96
108 2 0.03
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (107 bp):
TTGGAGTATCCCCGTGAAAATAACGAGGTTGAAGTATCCCCGATTATGAAAAATCAATATTTTAG
AAATAAAACCGGAGTTGGAGTATCCCATCGGAAATAATAAGG
Found at i:571072 original size:51 final size:51
Alignment explanation
Indices: 570978--571093 Score: 137
Period size: 51 Copynumber: 2.3 Consensus size: 51
570968 AAATAACGAG
*
570978 GTTGAAGTATCCCCGATTGTGAAAAATTAGTGTTTTGAAAATAAAATTGGA
1 GTTGAAGTATCCCCGATTGTGAAAAATTAGTGTTTTGAAAATAAAATGGGA
* * * * *
571029 GTTGGAGTATCCCCGATTGT-AGAGAATTGGTGTTTT-AGGAATAAAATGGGG
1 GTTGAAGTATCCCCGATTGTGA-AAAATTAGTGTTTTGA-AAATAAAATGGGA
*
571080 GTTGAAGCATCCCC
1 GTTGAAGTATCCCC
571094 TCGAAAATAA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
50 2 0.04
51 53 0.96
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.31
Consensus pattern (51 bp):
GTTGAAGTATCCCCGATTGTGAAAAATTAGTGTTTTGAAAATAAAATGGGA
Found at i:571112 original size:79 final size:79
Alignment explanation
Indices: 571029--571202 Score: 215
Period size: 79 Copynumber: 2.2 Consensus size: 79
571019 TAAAATTGGA
* ** * * **
571029 GTTGGAGTATCCCCGATTGT-AGAGAATTGGTGTTTTAGGAATAAAATGGGGGTTGAAGCATCCC
1 GTTGGAGTATCCCCGATTATGAGA-AATTAATATTTTAGAAATAAAACCGGGGTTGAAGCATCCC
571093 CTCGAAAATAACGGG
65 CTCGAAAATAACGGG
* * * *
571108 GTTGGAGTATCCTCGATTATGAGAAATTAATATTTTAGAAATAAAGCCGGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACCGGGGTTGAAGCATCCCC
* *
571173 TCTAGAATAACGGG
66 TCGAAAATAACGGG
571187 GTTGGAGTATCCCCGA
1 GTTGGAGTATCCCCGA
571203 CGAAAAATTT
Statistics
Matches: 80, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
79 77 0.96
80 3 0.04
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (79 bp):
GTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACCGGGGTTGAAGCATCCCC
TCGAAAATAACGGG
Found at i:573535 original size:20 final size:19
Alignment explanation
Indices: 573488--573595 Score: 102
Period size: 20 Copynumber: 5.8 Consensus size: 19
573478 AAAATGTCTG
* *
573488 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AC
*
573508 AATCTATCGATACAATGAGC
1 AATGTATCGATACAATGA-C
573528 AATGTATCG-----AT-AC
1 AATGTATCGATACAATGAC
573541 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-C
573561 AATGTATCGATACAATGAAC
1 AATGTATCGATACAATG-AC
*
573581 AATGTATCAATACAA
1 AATGTATCGATACAA
573596 ATTTTGACTT
Statistics
Matches: 74, Mismatches: 5, Indels: 18
0.76 0.05 0.19
Matches are distributed among these distances:
13 10 0.14
14 1 0.01
15 2 0.03
18 2 0.03
19 2 0.03
20 56 0.76
21 1 0.01
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.28
Consensus pattern (19 bp):
AATGTATCGATACAATGAC
Found at i:573550 original size:53 final size:53
Alignment explanation
Indices: 573488--573595 Score: 155
Period size: 53 Copynumber: 2.0 Consensus size: 53
573478 AAAATGTCTG
* * *
573488 AATGTATCGATACATTGTA-AAATCTATCGATACAATGAGCAATGTATCGATAC
1 AATGTATCGATACAATG-AGAAATCTATCGATACAATGAACAATGTATCAATAC
* *
573541 AATGTATCGATACAATGAGCAATGTATCGATACAATGAACAATGTATCAATAC
1 AATGTATCGATACAATGAGAAATCTATCGATACAATGAACAATGTATCAATAC
573594 AA
1 AA
573596 ATTTTGACTT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
52 1 0.02
53 48 0.98
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.28
Consensus pattern (53 bp):
AATGTATCGATACAATGAGAAATCTATCGATACAATGAACAATGTATCAATAC
Found at i:573554 original size:33 final size:33
Alignment explanation
Indices: 573512--573577 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
573502 TTGTAAAATC
573512 TATCGATACAATGAGCAATGTATCGATACAATG
1 TATCGATACAATGAGCAATGTATCGATACAATG
573545 TATCGATACAATGAGCAATGTATCGATACAATG
1 TATCGATACAATGAGCAATGTATCGATACAATG
573578 AACAATGTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.27
Consensus pattern (33 bp):
TATCGATACAATGAGCAATGTATCGATACAATG
Found at i:573576 original size:13 final size:13
Alignment explanation
Indices: 573527--573557 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
573517 ATACAATGAG
573527 CAATGTATCGATA
1 CAATGTATCGATA
573540 CAATGTATCGATA
1 CAATGTATCGATA
573553 CAATG
1 CAATG
573558 AGCAATGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:577426 original size:20 final size:22
Alignment explanation
Indices: 577401--577455 Score: 82
Period size: 20 Copynumber: 2.7 Consensus size: 22
577391 CTGCCAAGGA
577401 AATGTATCGATACATT-AT-TT
1 AATGTATCGATACATTGATCTT
577421 AATGTATCGATACATTGATCTT
1 AATGTATCGATACATTGATCTT
577443 --TGTATCGATACAT
1 AATGTATCGATACAT
577456 CTGGGAATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 29 0.88
21 2 0.06
22 2 0.06
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.42
Consensus pattern (22 bp):
AATGTATCGATACATTGATCTT
Found at i:586600 original size:9 final size:9
Alignment explanation
Indices: 586585--586693 Score: 82
Period size: 9 Copynumber: 11.9 Consensus size: 9
586575 GCATCTTCGT
586585 ACAAAAAAA
1 ACAAAAAAA
*
586594 GCAAAAAAA
1 ACAAAAAAA
586603 ACAAAAAAA
1 ACAAAAAAA
586612 TA-AAAAAAA
1 -ACAAAAAAA
*
586621 ACCAAGAATGAA
1 A-CAA-AA-AAA
586633 ACAAAAAAA
1 ACAAAAAAA
586642 ACAAAAAAAA
1 AC-AAAAAAA
**
586652 ACCAAAAGCA
1 A-CAAAAAAA
586662 A-AAAAAAA
1 ACAAAAAAA
*
586670 AC-AAACAA
1 ACAAAAAAA
*
586678 AC-AAACAA
1 ACAAAAAAA
586686 ACAAAAAA
1 ACAAAAAA
586694 TGGGTCCAGA
Statistics
Matches: 81, Mismatches: 10, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
8 22 0.27
9 31 0.38
10 19 0.23
11 6 0.07
12 3 0.04
ACGTcount: A:0.81, C:0.14, G:0.04, T:0.02
Consensus pattern (9 bp):
ACAAAAAAA
Found at i:586648 original size:31 final size:29
Alignment explanation
Indices: 586587--586683 Score: 108
Period size: 28 Copynumber: 3.3 Consensus size: 29
586577 ATCTTCGTAC
* * *
586587 AAAAAAAGCAAAAAAAAC-AAAAAAATAA
1 AAAAAAACCAAAAGAAACAAAAAAAACAA
586615 AAAAAAACCAAGAATGAAACAAAAAAAACAA
1 AAAAAAACCAA-AA-GAAACAAAAAAAACAA
*
586646 AAAAAAACCAAAAGCAA-AAAAAAAACAA
1 AAAAAAACCAAAAGAAACAAAAAAAACAA
586674 ACAAACAAAC
1 A-AAA-AAAC
586684 AAACAAAAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
28 22 0.37
29 8 0.13
30 10 0.17
31 20 0.33
ACGTcount: A:0.80, C:0.13, G:0.04, T:0.02
Consensus pattern (29 bp):
AAAAAAACCAAAAGAAACAAAAAAAACAA
Found at i:586663 original size:17 final size:17
Alignment explanation
Indices: 586585--586692 Score: 71
Period size: 17 Copynumber: 6.1 Consensus size: 17
586575 GCATCTTCGT
586585 ACAAAAAAAGCAAA-AAAA
1 ACAAAAAAA--AAACAAAA
*
586603 ACAAAAAAATAAAAAAAA
1 ACAAAAAAA-AAACAAAA
586621 ACCAAGAATGAAACAAA-AAAA
1 A-CAA-AA--AAA-AAACAAAA
*
586642 ACAAAAAAAAACCAAAA
1 ACAAAAAAAAAACAAAA
*
586659 GCAAAAAAAAAAC--AA
1 ACAAAAAAAAAACAAAA
*
586674 ACAAACAAACAAACAAAA
1 ACAAA-AAAAAAACAAAA
586692 A
1 A
586693 ATGGGTCCAG
Statistics
Matches: 74, Mismatches: 7, Indels: 18
0.75 0.07 0.18
Matches are distributed among these distances:
15 6 0.08
16 9 0.12
17 21 0.28
18 17 0.23
19 5 0.07
20 5 0.07
21 5 0.07
22 6 0.08
ACGTcount: A:0.81, C:0.14, G:0.04, T:0.02
Consensus pattern (17 bp):
ACAAAAAAAAAACAAAA
Found at i:586684 original size:49 final size:48
Alignment explanation
Indices: 586585--586693 Score: 119
Period size: 53 Copynumber: 2.2 Consensus size: 48
586575 GCATCTTCGT
* * * **
586585 ACAAAAAAAGCAAAAAAAACAAAAAAATAAAAAAAAACCAAGAATGAA
1 ACAAAAAAAACAAAAAAAACAAAAAAATAAAAAAAAACAAACAAACAA
*
586633 ACAAAAAAAACAAAAAAAAACCAAAAGCAAAAAAAAAACAAACAAACAAACAA
1 ACAAAAAAAAC-AAAAAAAA-CAAAA--AAATAAAAAA-AAACAAACAAACAA
586686 ACAAAAAA
1 ACAAAAAA
586694 TGGGTCCAGA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
48 10 0.20
49 8 0.16
50 5 0.10
52 9 0.18
53 18 0.36
ACGTcount: A:0.81, C:0.14, G:0.04, T:0.02
Consensus pattern (48 bp):
ACAAAAAAAACAAAAAAAACAAAAAAATAAAAAAAAACAAACAAACAA
Found at i:587976 original size:28 final size:28
Alignment explanation
Indices: 587942--588468 Score: 669
Period size: 28 Copynumber: 18.5 Consensus size: 28
587932 TGTTCATCTC
*
587942 TTCAAAGCCCACAGGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
587970 TTCAAAGCCCACAAGTTAGTGGCATTCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
587998 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
588026 TTCAAAGCACACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
588054 TTCAAAGCCTATAAGTCAGTGGTA-CTCT
1 TTCAAAGCCCACAAGTCAGTGGCATC-CT
* * *
588082 TTCAAAACCCATAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
588110 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
588138 TTCCAAGCCCACAAGTCAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
588166 TTCAAAGCCCACAAGTCAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
588194 TTCAAAGCCCAGAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
588222 TTCAAAGCCCACAAGTCAGTGGCATACCCC
1 TTCAAAGCCCACAAGTCAGTGGCAT--CCT
* *
588252 TTCAAAGACCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
588280 TTCAAAGCCCACAAGTCAATGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
588308 TTCAAAGCCCACAAGTCAGTGGCATACCAC
1 TTCAAAGCCCACAAGTCAGTGGCAT-CC-T
* *
588338 TTCAAAGCCCACAAGTCAGTGACACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
588366 TTCAAAGCCCACAAGTCAGTGACATTCCCT
1 TTCAAAGCCCACAAGTCAGTGGCA-T-CCT
* * * *
588396 TTCAAAGCTCACAAGTCGGTGGTACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * * *
588424 TTCAAAACCCACACAAGTCGGTGGTAACTCTT
1 TTC-AAAGCC-CACAAGTCAGTGG-CA-TCCT
588456 TTCAAAGCCCACA
1 TTCAAAGCCCACA
588469 CAAGTTAGTG
Statistics
Matches: 438, Mismatches: 49, Indels: 22
0.86 0.10 0.04
Matches are distributed among these distances:
27 1 0.00
28 329 0.75
29 9 0.02
30 88 0.20
31 6 0.01
32 5 0.01
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCT
Found at i:588439 original size:30 final size:32
Alignment explanation
Indices: 588405--588473 Score: 106
Period size: 32 Copynumber: 2.2 Consensus size: 32
588395 TTTCAAAGCT
588405 CACAAGTCGGTGGT-AC-CCTTTCAAAACCCA
1 CACAAGTCGGTGGTAACTCCTTTCAAAACCCA
* *
588435 CACAAGTCGGTGGTAACTCTTTTCAAAGCCCA
1 CACAAGTCGGTGGTAACTCCTTTCAAAACCCA
588467 CACAAGT
1 CACAAGT
588474 TAGTGGCACT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 14 0.40
31 2 0.06
32 19 0.54
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.22
Consensus pattern (32 bp):
CACAAGTCGGTGGTAACTCCTTTCAAAACCCA
Found at i:588510 original size:38 final size:39
Alignment explanation
Indices: 588459--588538 Score: 117
Period size: 38 Copynumber: 2.1 Consensus size: 39
588449 AACTCTTTTC
* *
588459 AAAGCCCACACAAGTTAGTGGCA-CTTTTTTTTTAAAAA
1 AAAGCCCACACAAGTTAGTAGCACCTTTTTTTATAAAAA
* *
588497 AAAGCTCATACAAGTTAGTAGCACCTTTTTTTATAAAAA
1 AAAGCCCACACAAGTTAGTAGCACCTTTTTTTATAAAAA
588536 AAA
1 AAA
588539 CCTACGCAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
38 20 0.54
39 17 0.46
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.31
Consensus pattern (39 bp):
AAAGCCCACACAAGTTAGTAGCACCTTTTTTTATAAAAA
Found at i:588549 original size:38 final size:38
Alignment explanation
Indices: 588465--588549 Score: 109
Period size: 38 Copynumber: 2.2 Consensus size: 38
588455 TTTCAAAGCC
* * *
588465 CACACAAGTTAGTGGCACTTTTTTTTTAAAAAAAAGCT
1 CACACAAGTTAGTAGCACTTTTTTTATAAAAAAAACCT
*
588503 CATACAAGTTAGTAGCACCTTTTTTTATAAAAAAAACCT
1 CACACAAGTTAGTAGCA-CTTTTTTTATAAAAAAAACCT
*
588542 -ACGCAAGT
1 CACACAAGT
588550 CGGTGGCAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
38 21 0.52
39 19 0.47
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.32
Consensus pattern (38 bp):
CACACAAGTTAGTAGCACTTTTTTTATAAAAAAAACCT
Found at i:588752 original size:48 final size:48
Alignment explanation
Indices: 588634--588811 Score: 225
Period size: 48 Copynumber: 3.8 Consensus size: 48
588624 GGCACATTTT
* * * *
588634 TTAGCTCAATGTCACTAGCCTTGAATCAGTACATTGTCCAC-CTTT-A
1 TTAGCTCAATGTCACTGGCCTTGAATCAGCACATTGTCCACTTTTTCC
**
588680 TTAGCTCAATGTTGCTGGCCTTGAATCAGCACATTGTCCACTTTTTCC
1 TTAGCTCAATGTCACTGGCCTTGAATCAGCACATTGTCCACTTTTTCC
* *
588728 TTAGCTCAATGTCACTGGCTTTGAATCAGCACATTGTCCACTTTTCCC
1 TTAGCTCAATGTCACTGGCCTTGAATCAGCACATTGTCCACTTTTTCC
* ** **
588776 TTAGCTCGATGTCGTTGGCCTTGAATTGGCACATTG
1 TTAGCTCAATGTCACTGGCCTTGAATCAGCACATTG
588812 GCACTCCTCT
Statistics
Matches: 114, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
46 37 0.32
47 3 0.03
48 74 0.65
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (48 bp):
TTAGCTCAATGTCACTGGCCTTGAATCAGCACATTGTCCACTTTTTCC
Found at i:588762 original size:94 final size:95
Alignment explanation
Indices: 588600--588811 Score: 252
Period size: 94 Copynumber: 2.3 Consensus size: 95
588590 AAGTTCGATA
* * * * *
588600 TCGCTGGCATTGAATCGGCATATTG-GCACATTTT--TTAGCTCAATGTCACTAGCCTTGAATCA
1 TCGCTGGCCTTGAATCAGCACATTGTCCACTTTTTCCTTAGCTCAATGTCACTAGCCTTGAATCA
*
588662 GTACATTGTCCACCTTT-ATTAGCTCAATG
66 GCACATTGTCCACCTTTCATTAGCTCAATG
* * *
588691 TTGCTGGCCTTGAATCAGCACATTGTCCACTTTTTCCTTAGCTCAATGTCACTGGCTTTGAATCA
1 TCGCTGGCCTTGAATCAGCACATTGTCCACTTTTTCCTTAGCTCAATGTCACTAGCCTTGAATCA
* * *
588756 GCACATTGTCCACTTTTCCCTTAGCTCGATG
66 GCACATTGTCCACCTTT-CATTAGCTCAATG
* **
588787 TCGTTGGCCTTGAATTGGCACATTG
1 TCGCTGGCCTTGAATCAGCACATTG
588812 GCACTCCTCT
Statistics
Matches: 100, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
91 21 0.21
92 7 0.07
94 41 0.41
96 31 0.31
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (95 bp):
TCGCTGGCCTTGAATCAGCACATTGTCCACTTTTTCCTTAGCTCAATGTCACTAGCCTTGAATCA
GCACATTGTCCACCTTTCATTAGCTCAATG
Found at i:589499 original size:20 final size:20
Alignment explanation
Indices: 589474--589534 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
589464 TTTTTACCCA
* *
589474 AATGTATTGATACATTTTTC
1 AATGTATCGATACATTTATC
* *
589494 AATGTATCGATACATGTATG
1 AATGTATCGATACATTTATC
589514 AATGTATCGATACATTCTATC
1 AATGTATCGATACATT-TATC
589535 TTTTTACCTA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
20 31 0.91
21 3 0.09
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (20 bp):
AATGTATCGATACATTTATC
Found at i:597336 original size:2 final size:2
Alignment explanation
Indices: 597329--597356 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
597319 CTTATTTGGA
597329 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
597357 GTTATTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:597482 original size:19 final size:19
Alignment explanation
Indices: 597448--597504 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 19
597438 AATATCCGAA
597448 ATAATTTTTTAA--ATTTGT
1 ATAA-TTTTTAATTATTTGT
597466 ATAATTTTTAATTATTTGT
1 ATAATTTTTAATTATTTGT
*
597485 AAATATGTTTTATATTATTT
1 ATA-AT-TTTTA-ATTATTT
597505 ATAATCAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
17 7 0.21
18 4 0.12
19 8 0.24
20 2 0.06
21 5 0.15
22 7 0.21
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.61
Consensus pattern (19 bp):
ATAATTTTTAATTATTTGT
Found at i:599228 original size:16 final size:17
Alignment explanation
Indices: 599209--599242 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
599199 CAGAAAATGG
*
599209 AAAATGAAAA-AAAAAA
1 AAAAAGAAAAGAAAAAA
599225 AAAAAGAAAAGAAAAAA
1 AAAAAGAAAAGAAAAAA
599242 A
1 A
599243 GGAGGGACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.03
Consensus pattern (17 bp):
AAAAAGAAAAGAAAAAA
Found at i:599542 original size:81 final size:85
Alignment explanation
Indices: 599375--599553 Score: 213
Period size: 87 Copynumber: 2.1 Consensus size: 85
599365 AGGTGGTACA
* * * *
599375 GGTGGGAAAGGGAATGGGGGAAGAGGAAATGGGAAGGCCGGCGGAGGCGGTGGTGGTGGTGGTGG
1 GGTGGGAAAGGGAATGGGGGAAGAGGAAATGGGAAGGACGGCGCA-G-GGTGGTGGTAGTAGTGG
* *
599440 TGGAGAAGTTAGTCCTGGAATC
64 TGGAGAAGTCAGCCCTGGAATC
* * *
599462 GGTGGGAAATGGATTGGGGGAAGAGGAAATGGGAAGGACGGTGCA-GGTGGTGG-AG-AG-GGTG
1 GGTGGGAAAGGGAATGGGGGAAGAGGAAATGGGAAGGACGGCGCAGGGTGGTGGTAGTAGTGGTG
*
599523 GAGGAGTCAGCCCTGGAATC
66 GAGAAGTCAGCCCTGGAATC
*
599543 GGTGGAAAAGG
1 GGTGGGAAAGG
599554 AAACACTGGC
Statistics
Matches: 80, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
81 30 0.38
82 1 0.01
83 1 0.01
84 8 0.10
87 40 0.50
ACGTcount: A:0.25, C:0.08, G:0.52, T:0.15
Consensus pattern (85 bp):
GGTGGGAAAGGGAATGGGGGAAGAGGAAATGGGAAGGACGGCGCAGGGTGGTGGTAGTAGTGGTG
GAGAAGTCAGCCCTGGAATC
Found at i:599621 original size:42 final size:42
Alignment explanation
Indices: 599573--599733 Score: 244
Period size: 42 Copynumber: 4.0 Consensus size: 42
599563 CGCTGGAGGT
* *
599573 GCTGGAGGAGGCTGGAATGGGTTTGGAATGAGTGGAGCTGGA
1 GCTGGAGGAGGCTGAAATGGGTTTGGAATTAGTGGAGCTGGA
*
599615 GCTGGAGGAGGCTGGAATGGGTTTGGAATTAGTGGAGCTGGA
1 GCTGGAGGAGGCTGAAATGGGTTTGGAATTAGTGGAGCTGGA
*
599657 GCTGGAGGAGGCTGAAAGGGGTTTGGAATTAGTGGAGCT---
1 GCTGGAGGAGGCTGAAATGGGTTTGGAATTAGTGGAGCTGGA
599696 G--GG-GGAGGCTGAAATGGGTTTGGAATTAGTGGAGCTGG
1 GCTGGAGGAGGCTGAAATGGGTTTGGAATTAGTGGAGCTGG
599734 TGGCGGCTGA
Statistics
Matches: 113, Mismatches: 4, Indels: 8
0.90 0.03 0.06
Matches are distributed among these distances:
36 32 0.28
37 2 0.02
39 1 0.01
42 78 0.69
ACGTcount: A:0.22, C:0.07, G:0.48, T:0.23
Consensus pattern (42 bp):
GCTGGAGGAGGCTGAAATGGGTTTGGAATTAGTGGAGCTGGA
Found at i:599652 original size:36 final size:39
Alignment explanation
Indices: 599573--599757 Score: 202
Period size: 42 Copynumber: 4.7 Consensus size: 39
599563 CGCTGGAGGT
*
599573 GCTGGAGGAGGCTGGAATGGGTTTGGAATGAGTGGAGCTGGA
1 GCTGGAGGAGGCTGAAATGGGTTTGGAAT--GT-GAGCTGGA
*
599615 GCTGGAGGAGGCTGGAATGGGTTTGGAATTAGTGGAGCTGGA
1 GCTGGAGGAGGCTGAAATGGGTTTGGAA-T-GT-GAGCTGGA
*
599657 GCTGGAGGAGGCTGAAAGGGGTTTGGAAT-T-AG-TGGA
1 GCTGGAGGAGGCTGAAATGGGTTTGGAATGTGAGCTGGA
*
599693 GCTGGGGGAGGCTGAAATGGGTTTGGAAT-T-AG-TGGA
1 GCTGGAGGAGGCTGAAATGGGTTTGGAATGTGAGCTGGA
* * * *
599729 GCTGGTGGCGGCTGAAAGGGGTTGGGAAT
1 GCTGGAGGAGGCTGAAATGGGTTTGGAAT
599758 AGGAGGAATC
Statistics
Matches: 134, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
36 63 0.47
37 2 0.01
39 1 0.01
41 1 0.01
42 66 0.49
43 1 0.01
ACGTcount: A:0.22, C:0.07, G:0.49, T:0.23
Consensus pattern (39 bp):
GCTGGAGGAGGCTGAAATGGGTTTGGAATGTGAGCTGGA
Found at i:599712 original size:78 final size:81
Alignment explanation
Indices: 599573--599733 Score: 238
Period size: 78 Copynumber: 2.0 Consensus size: 81
599563 CGCTGGAGGT
* * *
599573 GCTGGAGGAGGCTGGAATGGGTTTGGAATGAGTGGAGCTGGAGCTGGAGGAGGCTGGAATGGGTT
1 GCTGGAGGAGGCTGAAAGGGGTTTGGAAT--GT-GAGCTGGAGCTGGAGGAGGCTGAAATGGGTT
599638 TGGAATTAGTGGAGCTGGA
63 TGGAATTAGTGGAGCTGGA
*
599657 GCTGGAGGAGGCTGAAAGGGGTTTGGAAT-T-AG-TGGAGCTGGGGGAGGCTGAAATGGGTTTGG
1 GCTGGAGGAGGCTGAAAGGGGTTTGGAATGTGAGCTGGAGCTGGAGGAGGCTGAAATGGGTTTGG
599719 AATTAGTGGAGCTGG
66 AATTAGTGGAGCTGG
599734 TGGCGGCTGA
Statistics
Matches: 73, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
78 43 0.59
79 2 0.03
81 1 0.01
84 27 0.37
ACGTcount: A:0.22, C:0.07, G:0.48, T:0.23
Consensus pattern (81 bp):
GCTGGAGGAGGCTGAAAGGGGTTTGGAATGTGAGCTGGAGCTGGAGGAGGCTGAAATGGGTTTGG
AATTAGTGGAGCTGGA
Found at i:600593 original size:2 final size:2
Alignment explanation
Indices: 600586--600626 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
600576 ACAGTTAAAA
600586 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
600627 AATCTTATCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:601500 original size:24 final size:23
Alignment explanation
Indices: 601449--601508 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 23
601439 TAATATAAAA
601449 ATTAAAAT-TAAAATTAAAATAT
1 ATTAAAATATAAAATTAAAATAT
* **
601471 AATAAAATATAAACATTTTAATAT
1 ATTAAAATATAAA-ATTAAAATAT
601495 ATTAAATATATAAA
1 ATTAAA-ATATAAA
601509 TAAAAAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
22 7 0.23
23 4 0.13
24 13 0.42
25 7 0.23
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (23 bp):
ATTAAAATATAAAATTAAAATAT
Found at i:602018 original size:22 final size:22
Alignment explanation
Indices: 601977--602019 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
601967 TATTATTAAA
*
601977 ATATTTTTATATTAATATTTAT
1 ATATTTTTATAATAATATTTAT
601999 ATATTTTTATAAATAA-ATTTA
1 ATATTTTTAT-AATAATATTTA
602020 AATAAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
ATATTTTTATAATAATATTTAT
Found at i:602208 original size:13 final size:13
Alignment explanation
Indices: 602190--602219 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
602180 TTTAAATATT
602190 TATTAAATATAAA
1 TATTAAATATAAA
602203 TATTAAATATAAA
1 TATTAAATATAAA
602216 TATT
1 TATT
602220 TTTAAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
TATTAAATATAAA
Found at i:602552 original size:16 final size:16
Alignment explanation
Indices: 602527--602559 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
602517 TATATTAAAA
602527 TTTATATTTTTATTTT
1 TTTATATTTTTATTTT
*
602543 TTTATTTTTTTATTTT
1 TTTATATTTTTATTTT
602559 T
1 T
602560 AAATTACTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTATATTTTTATTTT
Found at i:603327 original size:13 final size:13
Alignment explanation
Indices: 603309--603336 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
603299 TCACAAAAGT
603309 TAAGAATTTTAAA
1 TAAGAATTTTAAA
603322 TAAGAATTTTAAA
1 TAAGAATTTTAAA
603335 TA
1 TA
603337 TGATTCCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (13 bp):
TAAGAATTTTAAA
Found at i:603999 original size:14 final size:15
Alignment explanation
Indices: 603971--604003 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
603961 TTTAAAATGT
603971 ATAATATATCATATAA
1 ATAATATAT-ATATAA
603987 ATAATATAT-TATAA
1 ATAATATATATATAA
604001 ATA
1 ATA
604004 TGTAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
16 9 0.53
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (15 bp):
ATAATATATATATAA
Found at i:604197 original size:23 final size:21
Alignment explanation
Indices: 604171--604228 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 21
604161 GAATAACAAA
*
604171 TTTAAAATATTTTAACAATGATT
1 TTTAAAATATTTTAAAAAT-A-T
* *
604194 TTTATAATATATTAAAAATAT
1 TTTAAAATATTTTAAAAATAT
604215 TTTAATAATATTTT
1 TTTAA-AATATTTT
604229 CAATATTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 5 0.17
22 8 0.28
23 16 0.55
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (21 bp):
TTTAAAATATTTTAAAAATAT
Found at i:604219 original size:11 final size:11
Alignment explanation
Indices: 604174--604228 Score: 56
Period size: 11 Copynumber: 4.9 Consensus size: 11
604164 TAACAAATTT
604174 AAAATATTTTA
1 AAAATATTTTA
* *
604185 ACAATGATTTTT
1 AAAAT-ATTTTA
* *
604197 ATAATATATTA
1 AAAATATTTTA
604208 AAAATATTTTA
1 AAAATATTTTA
*
604219 ATAATATTTT
1 AAAATATTTT
604229 CAATATTTTA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
11 26 0.74
12 9 0.26
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (11 bp):
AAAATATTTTA
Found at i:604296 original size:50 final size:49
Alignment explanation
Indices: 604241--604348 Score: 121
Period size: 50 Copynumber: 2.2 Consensus size: 49
604231 ATATTTTAAG
* *
604241 TAATAATATTTAAATAATGTTTAATGGTATAATTT-TAAATTATGAATA-TT
1 TAATAATATTTAAATAATATTTAATAGTAT-ATTTGTAAA-TAT-AATATTT
* * *
604291 TAATAATATTTTAGTAATATTTAATATTATATTTGTAAATATAATATTT
1 TAATAATATTTAAATAATATTTAATAGTATATTTGTAAATATAATATTT
*
604340 TAATGATAT
1 TAATAATAT
604349 ATTTGAAAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
48 4 0.08
49 17 0.34
50 29 0.58
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (49 bp):
TAATAATATTTAAATAATATTTAATAGTATATTTGTAAATATAATATTT
Found at i:604328 original size:21 final size:21
Alignment explanation
Indices: 604285--604338 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
604275 TTAAATTATG
*
604285 AATATTTAATAATATTTTAGT
1 AATATTTAATATTATTTTAGT
604306 AATATTTAATATTATATTT-GT
1 AATATTTAATATTAT-TTTAGT
*
604327 AA-ATATAATATT
1 AATATTTAATATT
604339 TTAATGATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 9 0.30
21 18 0.60
22 3 0.10
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (21 bp):
AATATTTAATATTATTTTAGT
Found at i:604337 original size:15 final size:15
Alignment explanation
Indices: 604313--604368 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
604303 AGTAATATTT
*
604313 AATATTATATTTGTA
1 AATATAATATTTGTA
604328 AATATAATATTT-T-
1 AATATAATATTTGTA
*
604341 AATGAT-ATATTTGAA
1 AAT-ATAATATTTGTA
604356 AATATGAATATTT
1 AATAT-AATATTT
604369 TAATAATATT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
13 9 0.26
14 5 0.15
15 14 0.41
16 6 0.18
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (15 bp):
AATATAATATTTGTA
Found at i:604377 original size:29 final size:28
Alignment explanation
Indices: 604305--604377 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
604295 AATATTTTAG
* *
604305 TAATA-TTTAATATTATATTTGTAAATA
1 TAATATTTTAATAATATATTTGAAAATA
*
604332 TAATATTTTAATGATATATTTGAAAATA
1 TAATATTTTAATAATATATTTGAAAATA
604360 TGAATATTTTAATAATAT
1 T-AATATTTTAATAATAT
604378 TAAAAGTATA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 5 0.12
28 20 0.50
29 15 0.38
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.49
Consensus pattern (28 bp):
TAATATTTTAATAATATATTTGAAAATA
Found at i:604515 original size:20 final size:20
Alignment explanation
Indices: 604486--604527 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
604476 TATATTTTAA
* *
604486 ATTATGATTTTTTTAATAAT
1 ATTATAATTTATTTAATAAT
604506 ATTATAATTTATTTAATAAT
1 ATTATAATTTATTTAATAAT
604526 AT
1 AT
604528 GATTAGTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
ATTATAATTTATTTAATAAT
Found at i:604544 original size:16 final size:16
Alignment explanation
Indices: 604517--604549 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
604507 TTATAATTTA
604517 TTTAATAATATGATTAG
1 TTTAATAATATG-TTAG
604534 TTTAA-AATATGTTAG
1 TTTAATAATATGTTAG
604549 T
1 T
604550 AATATTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 6 0.38
17 5 0.31
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (16 bp):
TTTAATAATATGTTAG
Found at i:604570 original size:11 final size:10
Alignment explanation
Indices: 604497--604639 Score: 55
Period size: 10 Copynumber: 15.2 Consensus size: 10
604487 TTATGATTTT
604497 TTTAATAATA
1 TTTAATAATA
*
604507 TTATAAT-TTA
1 TT-TAATAATA
604517 TTTAATAATA
1 TTTAATAATA
*
604527 --TGAT--TA
1 TTTAATAATA
604533 GTTTAA-AATA
1 -TTTAATAATA
*
604543 TGTTAGTAATA
1 T-TTAATAATA
604554 TTTAAT-AT-
1 TTTAATAATA
604562 TTTAATAATA
1 TTTAATAATA
*
604572 TTTAATATTTTA
1 TTTAATA--ATA
604584 TTTGAA-AATA
1 TTT-AATAATA
*
604594 -TGAAT-AT-
1 TTTAATAATA
604601 TTT-ATAATA
1 TTTAATAATA
*
604610 TTCAAT-AT-
1 TTTAATAATA
604618 TTTAATAATA
1 TTTAATAATA
* *
604628 TTAAATATTA
1 TTTAATAATA
604638 TT
1 TT
604640 AAAACATTGA
Statistics
Matches: 98, Mismatches: 14, Indels: 42
0.64 0.09 0.27
Matches are distributed among these distances:
6 2 0.02
7 2 0.02
8 21 0.21
9 18 0.18
10 38 0.39
11 9 0.09
12 6 0.06
13 2 0.02
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (10 bp):
TTTAATAATA
Found at i:604570 original size:18 final size:18
Alignment explanation
Indices: 604539--604656 Score: 105
Period size: 18 Copynumber: 6.4 Consensus size: 18
604529 ATTAGTTTAA
* * *
604539 AATATGTTAGTAATATTT
1 AATATTTTAATAATATTG
*
604557 AATATTTTAATAATATTT
1 AATATTTTAATAATATTG
* *
604575 AATATTTTATTTGAAAATATG
1 AATATTTTA-AT-AATAT-TG
*
604596 AATATTTT-ATAATATTC
1 AATATTTTAATAATATTG
*
604613 AATATTTTAATAATATTA
1 AATATTTTAATAATATTG
*
604631 AATATTATTAA-AACATTG
1 AATATT-TTAATAATATTG
604649 AATATTTT
1 AATATTTT
604657 TAAATTAATA
Statistics
Matches: 84, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
17 11 0.13
18 54 0.64
19 6 0.07
20 4 0.05
21 9 0.11
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (18 bp):
AATATTTTAATAATATTG
Found at i:604748 original size:18 final size:18
Alignment explanation
Indices: 604725--604783 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 18
604715 CACATAATAT
604725 AAATATACTTATATATAA
1 AAATATACTTATATATAA
604743 AAATATAC--ATGATATAA
1 AAATATACTTAT-ATATAA
* *
604760 AATAAATAATTAATATATAA
1 AA-ATATACTT-ATATATAA
604780 AAAT
1 AAAT
604784 TTATACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
16 2 0.06
17 8 0.24
18 12 0.36
19 1 0.03
20 8 0.24
21 2 0.06
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (18 bp):
AAATATACTTATATATAA
Found at i:605089 original size:18 final size:18
Alignment explanation
Indices: 605038--605091 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
605028 AAAATAGATG
*
605038 ATAATGATATTGAATATT
1 ATAATAATATTGAATATT
* * *
605056 TTAA-AATTAATAAATATT
1 ATAATAA-TATTGAATATT
605074 ATAATAATATTGAATATT
1 ATAATAATATTGAATATT
605092 TAAATATATT
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
17 1 0.04
18 24 0.89
19 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (18 bp):
ATAATAATATTGAATATT
Done.