Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008351.1 Hibiscus syriacus cultivar Beakdansim tig00111085_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 440059
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 2
Found at i:265871 original size:39 final size:38
Alignment explanation
Indices: 265783--266009 Score: 131
Period size: 39 Copynumber: 6.1 Consensus size: 38
265773 TATAAAAACA
* * *
265783 TTTTCAAAACTATATATTATAT-AGTTTTCAAAAATG-
1 TTTTTAAAACAATATATTATATAAGTTTTCCAAAATGT
*
265819 ATTTT--AA-AA-ATATTATATAAGTTTTCCAAAATGT
1 TTTTTAAAACAATATATTATATAAGTTTTCCAAAATGT
*
265853 TTTGTTAAAACAATATATTATATAAATTTTCCCAAAATGTTT
1 TTT-TTAAAACAATATATTATATAAGTTTT-CCAAAATG--T
* *
265895 TTTTTAAAA-AAAAAATATATATTATA-TTTT-CAAAATG-
1 TTTTTAAAACAATATAT-TATA-TA-AGTTTTCCAAAATGT
* * * * *
265932 ATTTCAAAGCTATATATTACATAA--TTTCCAAAATG-
1 TTTTTAAAACAATATATTATATAAGTTTTCCAAAATGT
* * *
265967 -TTTTAAAACTTATATATTGTATATAAGTTTTCAAAAACGT
1 TTTTTAAAAC-AATATA-T-TATATAAGTTTTCCAAAATGT
266007 TTT
1 TTT
266010 AAAAAAAAAC
Statistics
Matches: 149, Mismatches: 20, Indels: 39
0.72 0.10 0.19
Matches are distributed among these distances:
32 9 0.06
33 14 0.09
34 14 0.09
35 16 0.11
36 6 0.04
37 17 0.11
38 6 0.04
39 24 0.16
40 20 0.13
41 12 0.08
42 10 0.07
43 1 0.01
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.44
Consensus pattern (38 bp):
TTTTTAAAACAATATATTATATAAGTTTTCCAAAATGT
Found at i:266842 original size:84 final size:82
Alignment explanation
Indices: 266717--267186 Score: 588
Period size: 84 Copynumber: 5.7 Consensus size: 82
266707 TTGAATATAA
* *
266717 TCGAACTCGAAGGTCTT--TAGCAGATAGCCCTTCTCGACTTAAACTATGCTGCAAATGATGTGC
1 TCGAACTCGAAGGTCTTGGTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGC
*
266780 CTTGGAGCTGAGCGGAG
66 CTTGGAGCTGAGCGTAG
266797 TCGAACTCGAAGGTCTTTTGGTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
1 TCGAACTCGAAGGTC--TTGGTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
*
266862 GCCTTGGAGCTGAGCGGAG
64 GCCTTGGAGCTGAGCGTAG
* * * *
266881 TCGAACTCGATGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
1 TCGAACTCGAAGGTC--TTGGTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
266946 GCCTTGGAGCTGAGCGTAG
64 GCCTTGGAGCTGAGCGTAG
* * * * * * * * * *
266965 TCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGTTATG
1 TCGAACTCGAAGGTC-TTGGTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
* * *
267030 CCCTTGAAGCTGAGTGTAA
65 -CCTTGGAGCTGAGCGTAG
* *
267049 TCGAACTCGAAGGTCTT--TAGCAGATAGCCCTTCTCGACTTAAACTATGCTGCAAATGATGTGC
1 TCGAACTCGAAGGTCTTGGTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGC
*
267112 CTAGGAGCTGAGCGTAG
66 CTTGGAGCTGAGCGTAG
* * * * * *
267129 TCGAACTCAAAGGTCTTGGTGGCAGGTAGCCCTTCTGGCCTTGAGCTAAGCTGCAAAT
1 TCGAACTCGAAGGTCTTGGTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAAT
267187 AGTTTGTTTA
Statistics
Matches: 339, Mismatches: 44, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
80 45 0.13
81 33 0.10
82 34 0.10
83 43 0.13
84 184 0.54
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (82 bp):
TCGAACTCGAAGGTCTTGGTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGC
CTTGGAGCTGAGCGTAG
Found at i:266935 original size:168 final size:164
Alignment explanation
Indices: 266715--267186 Score: 660
Period size: 168 Copynumber: 2.9 Consensus size: 164
266705 AGTTGAATAT
266715 AATCGAACTCGAAGGTCTTTAGCAGATAGCCCTTCTCGACTTAAACTATGCTGCAAATGATGTGC
1 AATCGAACTCGAAGGTCTTTAGCAGATAGCCCTTCTCGACTTAAACTATGCTGCAAATGATGTGC
* * * *
266780 CTTGGAGCTGAGCGGAGTCGAACTCGAAGGTCTTTTGGTGGCAGATAGCCCTTCTCGACTTAAGC
66 CTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGGCAGATAGCCCTTCTAGCCTTGAGC
* *
266845 TATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGG
130 TATGCTGCAAATGATATGCCCTTGAAGCTGAGCGG
* * * * **
266879 AGTCGAACTCGATGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGAT
1 AATCGAACTCGAAGGTC---T-TTAGCAGATAGCCCTTCTCGACTTAAACTATGCTGCAAATGAT
* *
266944 GTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTG
62 GTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGATAGCCCTTCTAGCCTTG
* * * * * *
267009 AGTTATGTTGTAAATGTTATGCCCTTGAAGCTGAGTGT
127 AGCTATGCTGCAAATGATATGCCCTTGAAGCTGAGCGG
267047 AATCGAACTCGAAGGTCTTTAGCAGATAGCCCTTCTCGACTTAAACTATGCTGCAAATGATGTGC
1 AATCGAACTCGAAGGTCTTTAGCAGATAGCCCTTCTCGACTTAAACTATGCTGCAAATGATGTGC
* * * *
267112 CTAGGAGCTGAGCGTAGTCGAACTCAAAGGTC-TTGGTGGCAGGTAGCCCTTCTGGCCTTGAGCT
66 CTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGATAGCCCTTCTAGCCTTGAGCT
*
267176 AAGCTGCAAAT
131 ATGCTGCAAAT
267187 AGTTTGTTTA
Statistics
Matches: 267, Mismatches: 36, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
163 35 0.13
164 88 0.33
165 1 0.00
167 41 0.15
168 102 0.38
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (164 bp):
AATCGAACTCGAAGGTCTTTAGCAGATAGCCCTTCTCGACTTAAACTATGCTGCAAATGATGTGC
CTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGATAGCCCTTCTAGCCTTGAGCT
ATGCTGCAAATGATATGCCCTTGAAGCTGAGCGG
Found at i:270566 original size:18 final size:19
Alignment explanation
Indices: 270525--270569 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
270515 AGTTAATGTG
270525 AATGCAAAGAAAATAACAA
1 AATGCAAAGAAAATAACAA
*
270544 AATGCAAAGAAAATAA-GA
1 AATGCAAAGAAAATAACAA
270562 AATGCAAA
1 AATGCAAA
270570 ATGTCTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.67, C:0.09, G:0.13, T:0.11
Consensus pattern (19 bp):
AATGCAAAGAAAATAACAA
Found at i:272309 original size:33 final size:33
Alignment explanation
Indices: 272262--272328 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
272252 GTCGAAGATG
*
272262 TTAGGAAAAAAAAATAACAAATAAGT-AATGAA
1 TTAGGAAAAAAAAATAACAAATAAATAAATGAA
* *
272294 TTAGGAAGAATAAAATAATAAATAAATAAATGAA
1 TTAGGAA-AAAAAAATAACAAATAAATAAATGAA
272328 T
1 T
272329 ATAAATCAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
32 7 0.23
33 16 0.53
34 7 0.23
ACGTcount: A:0.64, C:0.01, G:0.12, T:0.22
Consensus pattern (33 bp):
TTAGGAAAAAAAAATAACAAATAAATAAATGAA
Found at i:272560 original size:14 final size:14
Alignment explanation
Indices: 272528--272557 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
272518 TATGGGAAAG
272528 AAATAACAATAATA
1 AAATAACAATAATA
272542 AAATAA-AATAATA
1 AAATAACAATAATA
272555 AAA
1 AAA
272558 ATAGATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (14 bp):
AAATAACAATAATA
Found at i:272565 original size:13 final size:14
Alignment explanation
Indices: 272528--272560 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
272518 TATGGGAAAG
272528 AAATAACAATAAT-A
1 AAATAA-AATAATAA
272542 AAATAAAATAATAA
1 AAATAAAATAATAA
272556 AAATA
1 AAATA
272561 GATAAAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (14 bp):
AAATAAAATAATAA
Found at i:273787 original size:10 final size:10
Alignment explanation
Indices: 273756--273798 Score: 61
Period size: 10 Copynumber: 4.4 Consensus size: 10
273746 AAATTAAGTT
273756 AATAAAATGA
1 AATAAAATGA
* *
273766 AATGAAACGA
1 AATAAAATGA
273776 AATAAAATGA
1 AATAAAATGA
273786 AATAAAAT-A
1 AATAAAATGA
273795 AATA
1 AATA
273799 TTAATAATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
9 5 0.17
10 24 0.83
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.19
Consensus pattern (10 bp):
AATAAAATGA
Found at i:273793 original size:15 final size:15
Alignment explanation
Indices: 273756--273796 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
273746 AAATTAAGTT
*
273756 AATAAAATGAAATGA
1 AATAAAATAAAATGA
**
273771 AACGAAATAAAATGA
1 AATAAAATAAAATGA
273786 AATAAAATAAA
1 AATAAAATAAA
273797 TATTAATAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.71, C:0.02, G:0.10, T:0.17
Consensus pattern (15 bp):
AATAAAATAAAATGA
Found at i:273963 original size:34 final size:32
Alignment explanation
Indices: 273893--273963 Score: 79
Period size: 33 Copynumber: 2.2 Consensus size: 32
273883 AACTATATAT
* *
273893 TATATAGTTTTCAAAAATGATTTTAAAAATAT
1 TATATAGTTTTCAAAAATGATTTTAAAAACAA
* * *
273925 TATATAAGTTTTCCAAAATGTTTTGTTAAAACAA
1 TATAT-AGTTTTCAAAAATGATTT-TAAAAACAA
273959 TATAT
1 TATAT
273964 TATATAAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
32 5 0.16
33 16 0.50
34 11 0.34
ACGTcount: A:0.44, C:0.06, G:0.07, T:0.44
Consensus pattern (32 bp):
TATATAGTTTTCAAAAATGATTTTAAAAACAA
Found at i:273964 original size:39 final size:37
Alignment explanation
Indices: 273876--274113 Score: 151
Period size: 39 Copynumber: 6.5 Consensus size: 37
273866 TATAAAAACA
* * *
273876 TTTTCAAAACTATATATTATAT-AGTTTTCAAAAATG
1 TTTTTAAAACAATATATTATATAAGTTTTCCAAAATG
*
273912 ATTTT--AA-AA-ATATTATATAAGTTTTCCAAAATG
1 TTTTTAAAACAATATATTATATAAGTTTTCCAAAATG
*
273945 TTTTGTTAAAACAATATATTATATAAATTTTCCCAAAATG
1 -TTT-TTAAAACAATATATTATATAAGTTTT-CCAAAATG
273985 TTTTTTTTTAAAA-AATATA-TAT-TATA-TTTT-CAAAATG
1 ----TTTTTAAAACAATATATTATATA-AGTTTTCCAAAATG
* * * *
274022 ATTTCAAAACTATATATTACATAA--TTTCCAAAATG
1 TTTTTAAAACAATATATTATATAAGTTTTCCAAAATG
* * *
274057 -TTTTAAAACTTATATATTGTATATAAGTTTTCAAAAACG
1 TTTTTAAAAC-AATATA-T-TATATAAGTTTTCCAAAATG
* *
274096 TTTTAAAAAAAACTATAT
1 TTTTTAAAACAA-TATAT
274114 AATACATATT
Statistics
Matches: 162, Mismatches: 17, Indels: 43
0.73 0.08 0.19
Matches are distributed among these distances:
32 9 0.06
33 21 0.13
34 20 0.12
35 18 0.11
36 6 0.04
37 15 0.09
38 2 0.01
39 32 0.20
40 23 0.14
41 6 0.04
42 6 0.04
43 4 0.02
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.44
Consensus pattern (37 bp):
TTTTTAAAACAATATATTATATAAGTTTTCCAAAATG
Found at i:274065 original size:34 final size:35
Alignment explanation
Indices: 273876--274079 Score: 136
Period size: 32 Copynumber: 5.7 Consensus size: 35
273866 TATAAAAACA
* * *
273876 TTTTCAAAACTATATATTATATAGTTTTCAAAAATG
1 TTTTTAAAACTATATATTATATA-ATTTCCAAAATG
*
273912 ATTTT-AAA--A-ATATTATATAAGTTTTCCAAAATG
1 TTTTTAAAACTATATATTATATAA--TTTCCAAAATG
*
273945 TTTTGTTAAAACAATATATTATATAAATTTTCCCAAAATG
1 -TTT-TTAAAACTATATATTATAT-AA-TTT-CCAAAATG
*
273985 TTTTTTTTTAAAAAATATATATTATAT--TTT-CAAAATG
1 ----TTTTT-AAAACTATATATTATATAATTTCCAAAATG
* * *
274022 ATTTCAAAACTATATATTACATAATTTCCAAAATG
1 TTTTTAAAACTATATATTATATAATTTCCAAAATG
*
274057 -TTTTAAAACTTATATATTGTATA
1 TTTTTAAAAC-TATATATTATATA
274080 TAAGTTTTCA
Statistics
Matches: 136, Mismatches: 14, Indels: 37
0.73 0.07 0.20
Matches are distributed among these distances:
32 25 0.18
33 14 0.10
34 13 0.10
35 23 0.17
36 6 0.04
37 7 0.05
38 1 0.01
39 16 0.12
40 10 0.07
42 2 0.01
43 19 0.14
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (35 bp):
TTTTTAAAACTATATATTATATAATTTCCAAAATG
Found at i:274071 original size:35 final size:32
Alignment explanation
Indices: 273990--274074 Score: 91
Period size: 35 Copynumber: 2.5 Consensus size: 32
273980 AAATGTTTTT
* *
273990 TTTTAAAAAATATATATTATATTTTCAAAATGA
1 TTTT-AAAACTATATATTATATTTCCAAAATGA
*
274023 TTTCAAAACTATATATTACATAATTTCCAAAATG-
1 TTTTAAAACTATATATT--AT-ATTTCCAAAATGA
274057 TTTTAAAACTTATATATT
1 TTTTAAAAC-TATATATT
274075 GTATATAAGT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
32 12 0.27
33 3 0.07
34 10 0.23
35 19 0.43
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (32 bp):
TTTTAAAACTATATATTATATTTCCAAAATGA
Found at i:275288 original size:19 final size:19
Alignment explanation
Indices: 275264--275306 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
275254 TAGGTCTCCA
275264 GGAGCACAAGGCGACCTAT
1 GGAGCACAAGGCGACCTAT
** *
275283 GGAGCACTTGGCGACCTGT
1 GGAGCACAAGGCGACCTAT
275302 GGAGC
1 GGAGC
275307 TGCAACAGCG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.23, C:0.26, G:0.37, T:0.14
Consensus pattern (19 bp):
GGAGCACAAGGCGACCTAT
Found at i:275787 original size:18 final size:19
Alignment explanation
Indices: 275752--275788 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
275742 CACGGAATGT
275752 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
275772 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
275789 GAATTACTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:277437 original size:15 final size:15
Alignment explanation
Indices: 277404--277445 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 15
277394 TTTTAATTAT
277404 AATAAATATCTACATA
1 AATAAATAT-TACATA
277420 AATAAATATT-CATAA
1 AATAAATATTACAT-A
277435 AATAAATATTA
1 AATAAATATTA
277446 TTTTTATTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 3 0.12
15 12 0.50
16 9 0.38
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (15 bp):
AATAAATATTACATA
Found at i:278826 original size:20 final size:22
Alignment explanation
Indices: 278786--278839 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
278776 CATGTTATAT
278786 TATTATATTT-TGATATATTAAA
1 TATTATATTTAT-ATATATTAAA
278808 -ATTATATTTATAT-TATTAAA
1 TATTATATTTATATATATTAAA
278828 TATTA-ATTTATA
1 TATTATATTTATA
278840 AATTTCAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
20 14 0.47
21 15 0.50
22 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TATTATATTTATATATATTAAA
Found at i:280692 original size:16 final size:18
Alignment explanation
Indices: 280660--280693 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
280650 TATTAATGTA
280660 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
280678 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
280694 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:281412 original size:127 final size:125
Alignment explanation
Indices: 281163--281419 Score: 417
Period size: 127 Copynumber: 2.0 Consensus size: 125
281153 AATTTTCTTC
*
281163 TAATTAGGTGGTGACATGTGTCACCAATAACATATATCATGATCATGTGTAACACATGTCAGATC
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGTAACACATGTCAGATC
**
281228 CTGGTTAAATGATTAATTTATTAAATTTATTTAATTTAGGACCAAATTGATAGCATATATAA
66 CTAATTAAATGATTAATTTATTAAATTTATTTAATTTAGGACCAAATTGATA-CATATA-AA
* * *
281290 TAATTAGGTGGTGACATGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTG-TAACACATGTCAGAT
281355 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT-CATATAAA
65 CCTAATTAAATGATTAATTTATTAAATT-TATTTAATTTAGGACCAAATTGATACATATAAA
281416 TAAT
1 TAAT
281420 AAAGACTGAA
Statistics
Matches: 122, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
126 6 0.05
127 51 0.42
128 41 0.34
129 24 0.20
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.36
Consensus pattern (125 bp):
TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGTAACACATGTCAGATC
CTAATTAAATGATTAATTTATTAAATTTATTTAATTTAGGACCAAATTGATACATATAAA
Found at i:281854 original size:35 final size:35
Alignment explanation
Indices: 281804--281879 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
281794 AATTGAATTT
* *
281804 AATTGAATTATTTTGGAATTTAGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
*
281839 AATTGAATTACTTTGGAAATTGGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
281874 AATTGA
1 AATTGA
281880 GGACTGTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.36, C:0.01, G:0.24, T:0.39
Consensus pattern (35 bp):
AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
Found at i:292095 original size:12 final size:12
Alignment explanation
Indices: 292068--292137 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 12
292058 ATGGAGATAT
* *
292068 CAGAAATCAAAA
1 CAGAATTCAGAA
*
292080 CAGAATTCAGAT
1 CAGAATTCAGAA
292092 CAG-ATATCAGAA
1 CAGAAT-TCAGAA
* * *
292104 CAGAATCCATAT
1 CAGAATTCAGAA
* *
292116 CAGAAATCATAA
1 CAGAATTCAGAA
292128 CAGAATTCAG
1 CAGAATTCAG
292138 GTAATGTATC
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
11 2 0.05
12 40 0.91
13 2 0.05
ACGTcount: A:0.50, C:0.19, G:0.13, T:0.19
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:292100 original size:24 final size:24
Alignment explanation
Indices: 292066--292160 Score: 102
Period size: 24 Copynumber: 4.0 Consensus size: 24
292056 AAATGGAGAT
292066 ATCAGAAATCAAAACAGAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * *
292090 ATCAGATATCAGAACAGAATCCAT
1 ATCAGAAATCAAAACAGAATTCAG
*
292114 ATCAGAAATCATAACAGAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * *
292138 GTAATG-TATCAAAACAGAATTCA
1 ATCA-GAAATCAAAACAGAATTCA
292161 AGTCGGAAAT
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
24 57 0.98
25 1 0.02
ACGTcount: A:0.49, C:0.17, G:0.13, T:0.21
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:292172 original size:24 final size:24
Alignment explanation
Indices: 292067--292172 Score: 92
Period size: 24 Copynumber: 4.4 Consensus size: 24
292057 AATGGAGATA
292067 TCAGAAATCAAAACAGAATTC-AG
1 TCAGAAATCAAAACAGAATTCAAG
* * *
292090 ATCAGATATCAGAACAGAATCCATA-
1 -TCAGAAATCAAAACAGAATTCA-AG
* *
292115 TCAGAAATCATAACAGAATTCAGG
1 TCAGAAATCAAAACAGAATTCAAG
* *
292139 TAATG-TATCAAAACAGAATTCAAG
1 TCA-GAAATCAAAACAGAATTCAAG
*
292163 TCGGAAATCA
1 TCAGAAATCA
292173 GATAAAATAT
Statistics
Matches: 63, Mismatches: 14, Indels: 10
0.72 0.16 0.11
Matches are distributed among these distances:
23 1 0.02
24 60 0.95
25 1 0.02
26 1 0.02
ACGTcount: A:0.48, C:0.17, G:0.14, T:0.21
Consensus pattern (24 bp):
TCAGAAATCAAAACAGAATTCAAG
Found at i:292172 original size:48 final size:48
Alignment explanation
Indices: 292064--292157 Score: 136
Period size: 48 Copynumber: 2.0 Consensus size: 48
292054 GTAAATGGAG
* *
292064 ATATCAGAAATCAAAACAGAATTCAGATCAGATATCAGAACAGAATCC
1 ATATCAGAAATCAAAACAGAATTCAGATAAGATATCAAAACAGAATCC
* *
292112 ATATCAGAAATCATAACAGAATTCAGGTAATG-TATCAAAACAGAAT
1 ATATCAGAAATCAAAACAGAATTCAGATAA-GATATCAAAACAGAAT
292158 TCAAGTCGGA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 40 0.98
49 1 0.02
ACGTcount: A:0.50, C:0.16, G:0.13, T:0.21
Consensus pattern (48 bp):
ATATCAGAAATCAAAACAGAATTCAGATAAGATATCAAAACAGAATCC
Found at i:294667 original size:13 final size:13
Alignment explanation
Indices: 294649--294677 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
294639 CGGGCAACGA
294649 GTCAACGGGTCGG
1 GTCAACGGGTCGG
294662 GTCAACGGGTCGG
1 GTCAACGGGTCGG
294675 GTC
1 GTC
294678 GGGTCAGCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.24, G:0.45, T:0.17
Consensus pattern (13 bp):
GTCAACGGGTCGG
Found at i:294691 original size:18 final size:18
Alignment explanation
Indices: 294654--294694 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
294644 AACGAGTCAA
*
294654 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACAGGT
* *
294672 CGGGTCGGGTCAGCATGT
1 CGGGTCGGGTCAACAGGT
294690 CGGGT
1 CGGGT
294695 AAACGGGTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.10, C:0.22, G:0.49, T:0.20
Consensus pattern (18 bp):
CGGGTCGGGTCAACAGGT
Found at i:313365 original size:21 final size:20
Alignment explanation
Indices: 313322--313366 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
313312 TACATATTAT
*
313322 TTGTCATACAAAATTATTAG
1 TTGTCATACAAAATTAATAG
313342 TTGTCATACAACTAA-TAATAG
1 TTGTCATACAA--AATTAATAG
313363 TTGT
1 TTGT
313367 ATAATGCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 11 0.50
21 9 0.41
22 2 0.09
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (20 bp):
TTGTCATACAAAATTAATAG
Found at i:326091 original size:20 final size:22
Alignment explanation
Indices: 326053--326108 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 22
326043 CAGAACCCCA
* *
326053 GGGGGGTATCGATTCCCCT-GT
1 GGGGGGAATCGATTCCCCTCAT
*
326074 GGGGGGAATCGGTT-CCCTCAT
1 GGGGGGAATCGATTCCCCTCAT
326095 GGGGGG-ATCGATTC
1 GGGGGGAATCGATTC
326109 TCTCTGCACC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 10 0.34
21 19 0.66
ACGTcount: A:0.12, C:0.21, G:0.41, T:0.25
Consensus pattern (22 bp):
GGGGGGAATCGATTCCCCTCAT
Found at i:327596 original size:12 final size:12
Alignment explanation
Indices: 327579--327604 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
327569 ACAACTCCAT
327579 TTTGTTGAGGGG
1 TTTGTTGAGGGG
327591 TTTGTTGAGGGG
1 TTTGTTGAGGGG
327603 TT
1 TT
327605 CTAGGTGCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.00, G:0.46, T:0.46
Consensus pattern (12 bp):
TTTGTTGAGGGG
Found at i:333670 original size:21 final size:21
Alignment explanation
Indices: 333646--333698 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
333636 AGTACAGAGG
*
333646 GTATCAGTACTCCTAAAGGGA
1 GTATCGGTACTCCTAAAGGGA
333667 GTATCGGTACTCCTAAAGGGA
1 GTATCGGTACTCCTAAAGGGA
333688 GTATCGGTACT
1 GTATCGGTACT
333699 ACCTTTGTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (21 bp):
GTATCGGTACTCCTAAAGGGA
Found at i:335839 original size:43 final size:43
Alignment explanation
Indices: 335779--335864 Score: 129
Period size: 45 Copynumber: 2.0 Consensus size: 43
335769 AGGATAAGTG
335779 GAGTGCCAACTGAGTCATC-CACACGTGTCGGAACCCCAGGTT
1 GAGTGCCAACTGAGTCATCGCACACGTGTCGGAACCCCAGGTT
* *
335821 GAGTGTCAACCTGAGTCATCTGCACATGTGTCGGAACCCCAGGT
1 GAGTGCCAA-CTGAGTCATC-GCACACGTGTCGGAACCCCAGGT
335865 GGGTTTATCA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
42 8 0.21
43 10 0.26
45 21 0.54
ACGTcount: A:0.23, C:0.29, G:0.27, T:0.21
Consensus pattern (43 bp):
GAGTGCCAACTGAGTCATCGCACACGTGTCGGAACCCCAGGTT
Found at i:338557 original size:41 final size:41
Alignment explanation
Indices: 338500--338608 Score: 200
Period size: 41 Copynumber: 2.7 Consensus size: 41
338490 TATTAATCGA
338500 ACCGAACAAAATTTGATTATTTCGGTCGGTTAACCGAATTT
1 ACCGAACAAAATTTGATTATTTCGGTCGGTTAACCGAATTT
* *
338541 ACCGAACAAAATTTGATTATTTTGGTCGGTTAACTGAATTT
1 ACCGAACAAAATTTGATTATTTCGGTCGGTTAACCGAATTT
338582 ACCGAACAAAATTTGATTATTTCGGTC
1 ACCGAACAAAATTTGATTATTTCGGTC
338609 TGTAGAAAAT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 65 1.00
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.36
Consensus pattern (41 bp):
ACCGAACAAAATTTGATTATTTCGGTCGGTTAACCGAATTT
Found at i:342182 original size:19 final size:19
Alignment explanation
Indices: 342160--342199 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
342150 TACTTAAATT
* *
342160 AATTATTATTTTTTAAAAA
1 AATTATAATTTTATAAAAA
342179 AATTATAATTTTATAAAAA
1 AATTATAATTTTATAAAAA
342198 AA
1 AA
342200 AGAATTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
AATTATAATTTTATAAAAA
Found at i:348723 original size:28 final size:28
Alignment explanation
Indices: 348688--348749 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 28
348678 ACTTAAAAAT
348688 AAATTTT-AA-TTAAATTTATAC-AATCTTA
1 AAATTTTAAATTTAAATTT-TACTAATC--A
348716 AAATTTTAAATTTAAATTTTACTAATCA
1 AAATTTTAAATTTAAATTTTACTAATCA
348744 AAATTT
1 AAATTT
348750 AAAGTAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
28 14 0.45
29 5 0.16
30 12 0.39
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (28 bp):
AAATTTTAAATTTAAATTTTACTAATCA
Found at i:349836 original size:23 final size:23
Alignment explanation
Indices: 349793--349836 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
349783 TGATTTTGAA
**
349793 ATTATTTTTTTAATATTAAAAAT
1 ATTATTTTTTTAATAAAAAAAAT
349816 ATTATTATTTTT-ATAAAAAAA
1 ATTATT-TTTTTAATAAAAAAA
349837 TTCATTTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 13 0.72
24 5 0.28
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
ATTATTTTTTTAATAAAAAAAAT
Found at i:356707 original size:15 final size:15
Alignment explanation
Indices: 356687--356768 Score: 82
Period size: 15 Copynumber: 5.5 Consensus size: 15
356677 TAATAAGGTT
356687 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
356702 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
356717 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
356732 TGGATTGACTTTT--AA-A
1 ---ATTTA-TTTTAAAATA
356748 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
356762 ATTTATT
1 ATTTATT
356769 AGTATGGATT
Statistics
Matches: 57, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
12 4 0.07
13 6 0.11
14 8 0.14
15 29 0.51
16 1 0.02
17 2 0.04
18 4 0.07
19 3 0.05
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:356785 original size:32 final size:32
Alignment explanation
Indices: 356748--357119 Score: 208
Period size: 32 Copynumber: 12.4 Consensus size: 32
356738 GACTTTTAAA
356748 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
356780 ATTTATTTT--A-AA---A-TA-T-T-GATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
356802 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
356834 ATTTA-TTT---TAA---A--A-TATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
*
356856 ATTTATTTTAAATAATTTATTAGTATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
** **
356888 ATTTATTTTAAA-ATATGGATT-G-ATTTATT-
1 ATTTATTTTAAATA-ATTTATTAGTATGGATTG
* * * * *
356917 ATTGTAGTTGTATGAATTGATTTATT--T-T-AAATA
1 ATT-TA-TT-T-T-AAATAATTTATTAGTATGGATTG
* ** *
356950 ATTTATTAGTATAGATTGGTTTATTTTAAAATATGGATTG
1 ATTTATT--T-TA-AATAATTTA--TT--AGTATGGATTG
*
356990 ATTTATTTTAAATAATTTATTAGTATAGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
357022 ATTTA-TTT---TAA---A--A-TATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
357044 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
*
357076 ATTTATTTTAAATAATTTATTTGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
357108 ATTTATTTTAAA
1 ATTTATTTTAAA
357120 ATATGAATTG
Statistics
Matches: 269, Mismatches: 22, Indels: 98
0.69 0.06 0.25
Matches are distributed among these distances:
22 41 0.15
23 9 0.03
24 2 0.01
25 6 0.02
26 7 0.03
28 7 0.03
29 9 0.03
30 9 0.03
31 16 0.06
32 127 0.47
33 5 0.02
34 11 0.04
36 6 0.02
37 2 0.01
38 2 0.01
39 1 0.00
40 9 0.03
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (32 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTG
Found at i:356822 original size:54 final size:54
Alignment explanation
Indices: 356748--356916 Score: 320
Period size: 54 Copynumber: 3.1 Consensus size: 54
356738 GACTTTTAAA
*
356748 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATTGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
356802 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
356856 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
356910 ATTTATT
1 ATTTATT
356917 ATTGTAGTTG
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 113 1.00
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
Found at i:356850 original size:22 final size:22
Alignment explanation
Indices: 356825--356867 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
356815 AATTTATTAG
356825 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
356847 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
356868 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:356942 original size:134 final size:137
Alignment explanation
Indices: 356798--357136 Score: 544
Period size: 134 Copynumber: 2.5 Consensus size: 137
356788 TAAAATATTG
356798 ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
1 ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
356863 TTAAATAATTTATTAGTAT-GAATTGATTTATTTTAAAATATGGATTGATTTA-TT-AT-TGTAG
66 TTAAATAATTTATTAGTATAG-ATTGATTTATTTTAAAATATGGATTGATTTATTTAATATGTA-
356924 TT-GTATGA
129 TTAGTATGA
* *
356932 ATTGATTTATTTTAAATAATTTATTAGTATAGATTGGTTTATTTTAAAATATGGATTGATTTATT
1 ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
*
356997 TTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTT
66 TTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTA-TTT-AAT-ATGT
*
357062 ATTAGTATGG
128 ATTAGTATGA
* *
357072 ATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGAATTGATTTATT
1 ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
357137 ATTGTAGTTG
Statistics
Matches: 189, Mismatches: 8, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
134 113 0.60
135 1 0.01
136 2 0.01
138 2 0.01
139 2 0.01
140 69 0.37
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (137 bp):
ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
TTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTTAATATGTATT
AGTATGA
Found at i:356947 original size:80 final size:80
Alignment explanation
Indices: 356847--356996 Score: 266
Period size: 80 Copynumber: 1.9 Consensus size: 80
356837 TATTTTAAAA
*
356847 TATGGATTGATTTATTTTAAATAATTTATTAGTAT-GAATTGATTTATTTTAAAATATGGATTGA
1 TATGAATTGATTTATTTTAAATAATTTATTAGTATAG-ATTGATTTATTTTAAAATATGGATTGA
356911 TTTATTATTGTAGTTG
65 TTTATTATTGTAGTTG
*
356927 TATGAATTGATTTATTTTAAATAATTTATTAGTATAGATTGGTTTATTTTAAAATATGGATTGAT
1 TATGAATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
356992 TTATT
66 TTATT
356997 TTAAATAATT
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
80 66 0.99
81 1 0.01
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (80 bp):
TATGAATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
TTATTATTGTAGTTG
Found at i:356975 original size:188 final size:188
Alignment explanation
Indices: 356748--357087 Score: 635
Period size: 188 Copynumber: 1.8 Consensus size: 188
356738 GACTTTTAAA
* *
356748 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATTGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
*
356813 ATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
66 ATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
356878 GTATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGAATTG
131 GTATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGAATTG
*
356936 ATTTATTTTAAATAATTTATTAGTATAGATTGGTTTATTTTAAAATATGGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
357001 ATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
66 ATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
*
357066 GTATGGATTGATTTATTTTAAA
131 GTATGAATTGATTTATTTTAAA
357088 TAATTTATTT
Statistics
Matches: 147, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
188 147 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (188 bp):
ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
ATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
GTATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGAATTG
Found at i:356996 original size:54 final size:54
Alignment explanation
Indices: 356927--357231 Score: 359
Period size: 54 Copynumber: 5.6 Consensus size: 54
356917 ATTGTAGTTG
* *
356927 TATGAATTGATTTATTTTAAATAATTTATTAGTATAGATTGGTTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAA
356981 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAA
*
357035 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAA
* * * ** * * ** ***
357088 TA---ATTTATTTGTATGGATTGATTTATTTTAAAATATGAATTGATTTATTATTGTAGTTG
1 TATGGATTGATTTATTTTAAATAATTTA--TTAGTATA-G-ATTGATTTA-T-TT-TA-AAA
357147 TATGGATTGATTTATTTTAAATAATTTATTAGTAT-GAATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATAG-ATTGATTTATTTTAAAA
357201 TATGGATTGATTTATTTTAAATAATTTATTA
1 TATGGATTGATTTATTTTAAATAATTTATTA
357232 TTGTAGCTGT
Statistics
Matches: 211, Mismatches: 28, Indels: 24
0.80 0.11 0.09
Matches are distributed among these distances:
50 16 0.08
52 5 0.02
53 6 0.03
54 141 0.67
55 3 0.01
56 4 0.02
57 2 0.01
58 11 0.05
59 2 0.01
60 5 0.02
62 16 0.08
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (54 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAA
Found at i:357032 original size:220 final size:220
Alignment explanation
Indices: 356797--357231 Score: 671
Period size: 220 Copynumber: 2.0 Consensus size: 220
356787 TTAAAATATT
** ** *
356797 GATTGATTTATTTT-AAATAATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGATTGATT
1 GATTGATTTATTTTAAAAT-ATGGATT-G-ATGGATTTGAAATAATTTATAAATATGGATTGATT
*
356859 TATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAG
63 TATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGAATTGATTTATTATTGTAG
*
356924 TTGTATGAATTGATTTATTTTAAATAATTTATTAGTAT-AGATTGGTTTATTTTAAAATATGGAT
128 TTGTATGAATTGATTTATTTTAAATAATTTATTAGTATGA-ATTGATTTATTTTAAAATATGGAT
356988 TGATTTATTTTAAATAATTTATTAGTATA
192 TGATTTATTTTAAATAATTTATTAGTATA
** * * *
357017 GATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTAT
1 GATTGATTTATTTTAAAATATGGATTGATGGATTTGAAATAATTTATAAATATGGATTGATTTAT
* *
357082 TTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGAATTGATTTATTATTGTAGTTG
66 TTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGAATTGATTTATTATTGTAGTTG
*
357147 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
131 TATGAATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
357212 TTATTTTAAATAATTTATTA
196 TTATTTTAAATAATTTATTA
357232 TTGTAGCTGT
Statistics
Matches: 196, Mismatches: 15, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
218 3 0.02
219 10 0.05
220 178 0.91
221 5 0.03
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.53
Consensus pattern (220 bp):
GATTGATTTATTTTAAAATATGGATTGATGGATTTGAAATAATTTATAAATATGGATTGATTTAT
TTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGAATTGATTTATTATTGTAGTTG
TATGAATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
TTATTTTAAATAATTTATTAGTATA
Found at i:357111 original size:18 final size:18
Alignment explanation
Indices: 357058--357115 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
357048 ATTTTAAATA
*
357058 ATTTATTAGTATGGATTG
1 ATTTATTTGTATGGATTG
* *
357076 ATTTATTT-TA---AATA
1 ATTTATTTGTATGGATTG
357090 ATTTATTTGTATGGATTG
1 ATTTATTTGTATGGATTG
357108 ATTTATTT
1 ATTTATTT
357116 TAAAATATGA
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
14 10 0.32
15 2 0.06
17 2 0.06
18 17 0.55
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (18 bp):
ATTTATTTGTATGGATTG
Found at i:357163 original size:188 final size:185
Alignment explanation
Indices: 356765--357167 Score: 555
Period size: 188 Copynumber: 2.1 Consensus size: 185
356755 TTAAATAATT
* *
356765 TATTAGTATGGATTGATTTATTTTAAAATATTGATTGATTTATTTTAAATAATTTATTAGTATGG
1 TATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATAG
356830 ATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATT
66 ATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATT
* * *** *
356895 TTAAAATATGGATTGATTTATTATTGTAGTTGTATGAATTGATTTATTTTAAATAATT
131 TTAAAATATGGATGGATTGATTATTGTAGAAATATGAATTGATTTA-TTT-AAT-ATG
* *
356953 TATTAGTATAGATTGGTTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATAG
1 TATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATAG
*
357018 ATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATT
66 ATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATT
* *
357083 TTAAATAATTTATTTGTATGGATTGATTTATTTTA-AAATATGAATTGATTTA-TT-AT-TG
131 TT-AA-AA--TA--TGGATGGATTGA-TTATTGTAGAAATATGAATTGATTTATTTAATATG
357141 TAGTT-GTATGGATTGATTTATTTTAAA
1 TA-TTAGTATGGATTGATTTATTTTAAA
357168 TAATTTATTA
Statistics
Matches: 192, Mismatches: 15, Indels: 16
0.86 0.07 0.07
Matches are distributed among these distances:
188 150 0.78
189 4 0.02
190 4 0.02
192 4 0.02
194 23 0.12
195 7 0.04
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (185 bp):
TATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATAG
ATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATT
TTAAAATATGGATGGATTGATTATTGTAGAAATATGAATTGATTTATTTAATATG
Found at i:357204 original size:22 final size:22
Alignment explanation
Indices: 357179--357221 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
357169 AATTTATTAG
357179 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
357201 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
357222 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:357303 original size:31 final size:31
Alignment explanation
Indices: 357246--357304 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
357236 AGCTGTATGG
* **
357246 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTACAAAACTAAA
357277 ATTATTTAAATCTCAGTATTACAAAACT
1 ATTATTTAAATCTCAGTATTACAAAACT
357305 CTTTTAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTACAAAACTAAA
Found at i:360189 original size:163 final size:160
Alignment explanation
Indices: 359919--360229 Score: 487
Period size: 163 Copynumber: 1.9 Consensus size: 160
359909 TGCCACCACT
** *
359919 CTTGAAACTGCCGATGGCATCATGGTTGCTATCAGCGGCTTATCAATAGCTCTCGTACACTTGAA
1 CTTGAAACTGCCGATGGCATCACAGTTGCTATCAGCGGCTTATCAATACCTCTCGTACACTTGAA
* *
359984 AATGGCTTTTCACCTAAGGTCGAGTTTCTCATTGCGCTGCTATTAATGCTTATCCTATTAATATT
66 AATGGCTTTTCACCTAAGGTCGAGTTTCTCATTGCACTGCTATCAATGCTTATCCTATT--TATT
360049 TGCCAACAATGTCATCTTATCACATCCCTATG
129 TGCCAACAATGTCATCTTATCACATCCCTATG
* *
360081 CTTGAAACTGCCGATGGCATCACAGTTGCTATCAGCGGCTTCATCAATACCTCTTGTACGCTTGA
1 CTTGAAACTGCCGATGGCATCACAGTTGCTATCAGCGGCTT-ATCAATACCTCTCGTACACTTGA
* * * *
360146 AAATGGCTTTTCATCTAAGGTTGAGTTTCTCATTGCACTGCTATCCATGCTTATCCTGTTTATTT
65 AAATGGCTTTTCACCTAAGGTCGAGTTTCTCATTGCACTGCTATCAATGCTTATCCTATTTATTT
*
360211 GCCAACAATTTCATCTTAT
130 GCCAACAATGTCATCTTAT
360230 ATTATCTCTA
Statistics
Matches: 136, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
161 23 0.17
162 39 0.29
163 74 0.54
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (160 bp):
CTTGAAACTGCCGATGGCATCACAGTTGCTATCAGCGGCTTATCAATACCTCTCGTACACTTGAA
AATGGCTTTTCACCTAAGGTCGAGTTTCTCATTGCACTGCTATCAATGCTTATCCTATTTATTTG
CCAACAATGTCATCTTATCACATCCCTATG
Found at i:364069 original size:91 final size:91
Alignment explanation
Indices: 363921--364094 Score: 348
Period size: 91 Copynumber: 1.9 Consensus size: 91
363911 GTGGGATTGG
363921 TGACCAGGTATGCACTCTATTCATCTATCTATAAAGATGAATAGTTGTTCTATGTGAAGAATAAC
1 TGACCAGGTATGCACTCTATTCATCTATCTATAAAGATGAATAGTTGTTCTATGTGAAGAATAAC
363986 TCTGACTGCTGAAACACCATGGTGAA
66 TCTGACTGCTGAAACACCATGGTGAA
364012 TGACCAGGTATGCACTCTATTCATCTATCTATAAAGATGAATAGTTGTTCTATGTGAAGAATAAC
1 TGACCAGGTATGCACTCTATTCATCTATCTATAAAGATGAATAGTTGTTCTATGTGAAGAATAAC
364077 TCTGACTGCTGAAACACC
66 TCTGACTGCTGAAACACC
364095 GTCTGGTGAA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 83 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (91 bp):
TGACCAGGTATGCACTCTATTCATCTATCTATAAAGATGAATAGTTGTTCTATGTGAAGAATAAC
TCTGACTGCTGAAACACCATGGTGAA
Found at i:368186 original size:34 final size:32
Alignment explanation
Indices: 368134--368199 Score: 80
Period size: 32 Copynumber: 2.0 Consensus size: 32
368124 TGGCCCGATA
*
368134 AATATTAAAAATAATAATTATTATATATATATAT
1 AATATTAAAAATAATAA-T-TTAAATATATATAT
*
368168 AATATTAATAAAT-TTAATTTAAATATATATAT
1 AATATTAA-AAATAATAATTTAAATATATATAT
368200 CCGGTTCGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 13 0.45
33 1 0.03
34 11 0.38
35 4 0.14
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (32 bp):
AATATTAAAAATAATAATTTAAATATATATAT
Found at i:369312 original size:21 final size:21
Alignment explanation
Indices: 369288--369331 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
369278 AACATAAATT
*
369288 ATATGAAAAATAAAATTAAGG
1 ATATAAAAAATAAAATTAAGG
* *
369309 ATATAAAAAATAAATTTAGGG
1 ATATAAAAAATAAAATTAAGG
369330 AT
1 AT
369332 CAAATTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.14, T:0.27
Consensus pattern (21 bp):
ATATAAAAAATAAAATTAAGG
Found at i:381510 original size:15 final size:16
Alignment explanation
Indices: 381478--381510 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
381468 AAAATCTTTC
381478 TTTCCCGTTCTAGATT
1 TTTCCCGTTCTAGATT
*
381494 TTTCCCG-TCTGGATT
1 TTTCCCGTTCTAGATT
381509 TT
1 TT
381511 GATCTGCCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.09, C:0.24, G:0.15, T:0.52
Consensus pattern (16 bp):
TTTCCCGTTCTAGATT
Found at i:382285 original size:16 final size:17
Alignment explanation
Indices: 382260--382291 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
382250 TCGCCGACCG
382260 AATTTCACTATTCACGA
1 AATTTCACTATTCACGA
382277 AATTT-ACTATTCACG
1 AATTTCACTATTCACG
382292 TGAATAGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.34, C:0.22, G:0.06, T:0.38
Consensus pattern (17 bp):
AATTTCACTATTCACGA
Found at i:383341 original size:12 final size:12
Alignment explanation
Indices: 383324--383349 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
383314 AAGCCAGCTT
383324 CAGGATCAGGAC
1 CAGGATCAGGAC
383336 CAGGATCAGGAC
1 CAGGATCAGGAC
383348 CA
1 CA
383350 TGGCTGGAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.27, G:0.31, T:0.08
Consensus pattern (12 bp):
CAGGATCAGGAC
Found at i:384507 original size:14 final size:14
Alignment explanation
Indices: 384488--384518 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
384478 TTAAATTTAA
*
384488 ATTAATTTATTATT
1 ATTAATTTATAATT
384502 ATTAATTTATAATT
1 ATTAATTTATAATT
384516 ATT
1 ATT
384519 TTATTTTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
ATTAATTTATAATT
Found at i:385790 original size:2 final size:2
Alignment explanation
Indices: 385783--385811 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
385773 GCTTCAGTTT
385783 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
385812 TAGAGTTAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:386448 original size:2 final size:2
Alignment explanation
Indices: 386441--386469 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
386431 AAGAAATTAA
386441 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
386470 GGATTTCGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:390911 original size:2 final size:2
Alignment explanation
Indices: 390862--390893 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
390852 TGCAGCCAAC
*
390862 GA GA GA GA GA GA GA GA GA GA GA GA CA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
390894 TGGAGAGTGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.47, T:0.00
Consensus pattern (2 bp):
GA
Found at i:397467 original size:32 final size:31
Alignment explanation
Indices: 397412--397471 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
397402 TTTGTCAGAG
397412 TTCGATAAATTTAAATATCATTTTATAACAT
1 TTCGATAAATTTAAATATCATTTTATAACAT
* *
397443 TTCGATAAATTTTAATGATGATTTTATAA
1 TTCGATAAATTTAAAT-ATCATTTTATAA
397472 TAATTTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 15 0.58
32 11 0.42
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (31 bp):
TTCGATAAATTTAAATATCATTTTATAACAT
Found at i:400099 original size:72 final size:72
Alignment explanation
Indices: 399982--400130 Score: 244
Period size: 72 Copynumber: 2.1 Consensus size: 72
399972 ATCTGTTTAT
* *
399982 TTTTGGATTAAAGCTGAGATAACAAGCTAAATATAAGCTTATAGCATAGCTTCCTATGCTTAAAC
1 TTTTGGATTAAAGCAGAGAAAACAAGCTAAATATAAGCTTATAGCATAGCTTCCTATGCTTAAAC
400047 AATGGAG
66 AATGGAG
* * * *
400054 TTTTGGATTAAAGCAGAGAAAACAAGGTTAATCTAAGCTTATAGCATAGCTTCCTATGCTTTAAC
1 TTTTGGATTAAAGCAGAGAAAACAAGCTAAATATAAGCTTATAGCATAGCTTCCTATGCTTAAAC
400119 AATGGAG
66 AATGGAG
400126 TTTTG
1 TTTTG
400131 AACAAGTATC
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (72 bp):
TTTTGGATTAAAGCAGAGAAAACAAGCTAAATATAAGCTTATAGCATAGCTTCCTATGCTTAAAC
AATGGAG
Found at i:405547 original size:20 final size:21
Alignment explanation
Indices: 405522--405614 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
405512 TTTTCCTAAT
*
405522 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
405542 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
405563 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
405583 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
405604 TCGCAATGCGA
1 TCGCAATGCGA
405615 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:405628 original size:20 final size:20
Alignment explanation
Indices: 405603--405717 Score: 106
Period size: 20 Copynumber: 5.7 Consensus size: 20
405593 AATTGGGAAA
*
405603 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
405623 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
* *
405644 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
* *
405664 TTCGCAACACGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
405684 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
405704 TTCGCAACGCGATA
1 ATCGCAACGCGATA
405718 ATACATAATC
Statistics
Matches: 79, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.03
20 62 0.78
21 13 0.16
22 2 0.03
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:405629 original size:41 final size:41
Alignment explanation
Indices: 405522--405614 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
405512 TTTTCCTAAT
405522 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
405563 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
405604 TCGCAATGCGA
1 TCGCAATGCGA
405615 TACTGACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:405645 original size:41 final size:41
Alignment explanation
Indices: 405600--405731 Score: 142
Period size: 41 Copynumber: 3.2 Consensus size: 41
405590 GCGAATTGGG
* * *
405600 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
* * * *
405641 AAAATCGCAACGAGATACTTACTTTCGCAACACGATACTGAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAAT-AC
** *
405683 --TTTCGCAACGCGATTCTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
*
405722 ATAATCGCAA
1 AAAATCGCAA
405732 TGCTATTTTC
Statistics
Matches: 72, Mismatches: 16, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
39 2 0.03
40 30 0.42
41 38 0.53
42 2 0.03
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
Found at i:405933 original size:22 final size:22
Alignment explanation
Indices: 405905--405948 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
405895 CACTCTCTCA
405905 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
405927 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
405949 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:406238 original size:20 final size:20
Alignment explanation
Indices: 406213--406250 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
406203 CGATTCTCTC
406213 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
406233 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
406251 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:406440 original size:25 final size:24
Alignment explanation
Indices: 406386--406440 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
406376 ATGTTATTAT
* *
406386 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
406410 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
406436 TGTTT
1 TGTTT
406441 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:407593 original size:17 final size:18
Alignment explanation
Indices: 407568--407611 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
407558 TCCACTTCGG
*
407568 GAGCCATCACCTC-GCCA
1 GAGCCATCACCTCACCCA
*
407585 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
407603 GAGCCATCA
1 GAGCCATCA
407612 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.27, C:0.43, G:0.16, T:0.14
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:408147 original size:19 final size:20
Alignment explanation
Indices: 408093--408159 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
408083 TAGTTTACTT
* *
408093 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
408113 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
408133 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
408152 TCGCAACG
1 TCGCAACG
408160 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:408167 original size:14 final size:14
Alignment explanation
Indices: 408148--408205 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
408138 ATGCGAAATG
408148 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
408162 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
408178 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
408194 AAAATCGCAACG
1 AAAATCGCAACG
408206 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:408190 original size:32 final size:33
Alignment explanation
Indices: 408132--408222 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
408122 GGAAATGGCT
*
408132 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
408165 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
408197 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAACGCGAAATGAAAATCGCAA
408223 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:408216 original size:19 final size:19
Alignment explanation
Indices: 408093--408227 Score: 85
Period size: 19 Copynumber: 7.6 Consensus size: 19
408083 TAGTTTACTT
* **
408093 TCGCAACACGAAAATGACTA
1 TCGCAACGCG-AAATGAAAA
***
408113 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
*
408133 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
408152 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
408166 TCGCAACGCGAAATG-AAA
1 TCGCAACGCGAAATGAAAA
*
408184 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
408198 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
408217 TCGCAATGCGA
1 TCGCAACGCGA
408228 TTTGTGTTTC
Statistics
Matches: 92, Mismatches: 11, Indels: 25
0.72 0.09 0.20
Matches are distributed among these distances:
14 20 0.22
15 1 0.01
16 6 0.07
17 2 0.02
18 11 0.12
19 27 0.29
20 24 0.26
21 1 0.01
ACGTcount: A:0.43, C:0.24, G:0.21, T:0.13
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:408258 original size:14 final size:14
Alignment explanation
Indices: 408239--408296 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
408229 TTGTGTTTCG
408239 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
408253 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
408269 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
408285 CGTTGCGATTTT
1 CGTTGCGATTTT
408297 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:408273 original size:32 final size:33
Alignment explanation
Indices: 408234--408312 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
408224 GCGATTTGTG
408234 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
408266 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
408299 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
408313 AGCCATTTCC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 27 0.60
33 18 0.40
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:408331 original size:20 final size:19
Alignment explanation
Indices: 408297--408352 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
408287 TTGCGATTTT
*
408297 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
408316 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
408336 CATTTTCGCGTTGCGAT
1 CA-TTTCGCGTTGCGAT
408353 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 5 0.15
20 25 0.76
21 3 0.09
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:410262 original size:13 final size:13
Alignment explanation
Indices: 410215--410267 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 13
410205 TTGATTGTTT
410215 AATTGATTTGTAA
1 AATTGATTTGTAA
*
410228 AAGATGATTTGTAA
1 AA-TTGATTTGTAA
**
410242 ATATTGATTTGTTT
1 A-ATTGATTTGTAA
*
410256 AATTGATGTGTA
1 AATTGATTTGTA
410268 CATAATTTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
13 11 0.34
14 20 0.62
15 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (13 bp):
AATTGATTTGTAA
Found at i:410363 original size:19 final size:19
Alignment explanation
Indices: 410337--410446 Score: 68
Period size: 20 Copynumber: 5.9 Consensus size: 19
410327 AGGCAAAACA
410337 GACTATCGCAACGCGAAAT
1 GACTATCGCAACGCGAAAT
* *
410356 GGCTATCGCAACGAG-AA-
1 GACTATCGCAACGCGAAAT
*
410373 -A--ATCGCAATGCGAAAT
1 GACTATCGCAACGCGAAAT
** * *
410389 GAAAATCGCAATGTGAAAAT
1 GACTATCGCAACGCG-AAAT
**
410409 GAAAATCGCAACGCGAAAAT
1 GACTATCGCAACGCG-AAAT
* *
410429 GGCTATCGCAACGAGAAA
1 GACTATCGCAACGCGAAA
410447 ATCGCAATGC
Statistics
Matches: 73, Mismatches: 12, Indels: 12
0.75 0.12 0.12
Matches are distributed among these distances:
14 9 0.12
15 2 0.03
17 1 0.01
18 2 0.03
19 26 0.36
20 33 0.45
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.15
Consensus pattern (19 bp):
GACTATCGCAACGCGAAAT
Found at i:410386 original size:33 final size:33
Alignment explanation
Indices: 410341--410491 Score: 140
Period size: 33 Copynumber: 4.4 Consensus size: 33
410331 AAAACAGACT
* ***
410341 ATCGCAACGCGAAATGGCTATCGCAACGAGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
*
410374 ATCGCAATGCGAAATGAAAATCGCAATGTGAAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAA--CG---A-GAAA
* ***
410413 ATCGCAACGCGAAAATGGCTATCGCAACGAGAAA
1 ATCGCAATGCG-AAATGAAAATCGCAACGAGAAA
*
410447 ATCGCAATGCGAAATGAAAATCGCAACGAAAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
*
410480 ATCGTAATGCGA
1 ATCGCAATGCGA
410492 TTTTCATTTC
Statistics
Matches: 95, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
33 51 0.54
34 14 0.15
35 2 0.02
38 2 0.02
39 14 0.15
40 12 0.13
ACGTcount: A:0.44, C:0.19, G:0.22, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
Found at i:410467 original size:19 final size:19
Alignment explanation
Indices: 410370--410472 Score: 108
Period size: 20 Copynumber: 5.6 Consensus size: 19
410360 ATCGCAACGA
410370 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
*
410389 GAAAATCGCAATGTGAAAAT
1 GAAAATCGCAATGCG-AAAT
*
410409 GAAAATCGCAACGCGAAAAT
1 GAAAATCGCAATGCG-AAAT
***
410429 GGCTATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
410443 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
410462 GAAAATCGCAA
1 GAAAATCGCAA
410473 CGAAAAAATC
Statistics
Matches: 69, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
14 8 0.12
15 1 0.01
16 2 0.03
18 3 0.04
19 25 0.36
20 30 0.43
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:410481 original size:73 final size:72
Alignment explanation
Indices: 410341--410481 Score: 246
Period size: 73 Copynumber: 1.9 Consensus size: 72
410331 AAAACAGACT
* **
410341 ATCGCAACGCGAAATGGCTATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCAATGTGAA
1 ATCGCAACGCGAAATGGCTATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAA
410406 AATGAAA
66 AATGAAA
410413 ATCGCAACGCGAAAATGGCTATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCAACGAAA
1 ATCGCAACGCG-AAATGGCTATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCAACGAAA
410478 AAAT
65 AAAT
410482 CGTAATGCGA
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
72 11 0.17
73 54 0.83
ACGTcount: A:0.45, C:0.19, G:0.21, T:0.14
Consensus pattern (72 bp):
ATCGCAACGCGAAATGGCTATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAA
AATGAAA
Found at i:410535 original size:20 final size:20
Alignment explanation
Indices: 410510--410547 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
410500 TCGCATTGCG
*
410510 ATTTTCTCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
410530 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
410548 TCAAATGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.21, G:0.24, T:0.39
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:411610 original size:24 final size:24
Alignment explanation
Indices: 411583--411636 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
411573 GTATTCGAAA
* *
411583 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
411607 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
411631 TTTGAT
1 TTTGAT
411637 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:411828 original size:12 final size:12
Alignment explanation
Indices: 411811--411835 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
411801 ATATAATTCT
411811 GAAGAAGAAAAA
1 GAAGAAGAAAAA
411823 GAAGAAGAAAAA
1 GAAGAAGAAAAA
411835 G
1 G
411836 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:414149 original size:19 final size:19
Alignment explanation
Indices: 414127--414257 Score: 76
Period size: 19 Copynumber: 7.7 Consensus size: 19
414117 GGAAATTACT
414127 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
414146 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
*
414160 ATCGCAATGCAAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
414179 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
414193 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
414212 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
*
414226 ATCGCAATGCAAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
414245 ATCGCAACGCGAA
1 ATCGCAATGCGAA
414258 TTTAATTTTG
Statistics
Matches: 80, Mismatches: 17, Indels: 30
0.63 0.13 0.24
Matches are distributed among these distances:
14 27 0.34
15 3 0.04
16 4 0.05
17 5 0.06
18 3 0.04
19 38 0.47
ACGTcount: A:0.44, C:0.20, G:0.21, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:414169 original size:33 final size:33
Alignment explanation
Indices: 414127--414253 Score: 184
Period size: 33 Copynumber: 3.8 Consensus size: 33
414117 GGAAATTACT
*
414127 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCAAAATGAAAATCGCAACGAGAGA
**
414160 ATCGCAATGCAAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCAAAATGAAAATCGCAACGAGAGA
* * *
414192 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCAAAATGAAAATCGCAACGAGAGA
414226 ATCGCAATGCAAAATGAAAATCGCAACG
1 ATCGCAATGCAAAATGAAAATCGCAACG
414254 CGAATTTAAT
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
32 1 0.01
33 80 0.98
34 1 0.01
ACGTcount: A:0.44, C:0.20, G:0.21, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCAAAATGAAAATCGCAACGAGAGA
Found at i:414234 original size:66 final size:66
Alignment explanation
Indices: 414128--414260 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
414118 GAAATTACTA
*
414128 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCAAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCAAAATGAAAATCGCAACGCGAAT
414193 T
66 T
*
414194 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCAAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCAAAATGAAAATCGCAACGCGAAT
414259 T
66 T
414260 T
1 T
414261 AATTTTGCGT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.43, C:0.20, G:0.21, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCAAAATGAAAATCGCAACGCGAAT
T
Found at i:414284 original size:19 final size:19
Alignment explanation
Indices: 414262--414315 Score: 81
Period size: 20 Copynumber: 2.8 Consensus size: 19
414252 CGCGAATTTA
414262 ATTTTGCGTTGCGATTTTC
1 ATTTTGCGTTGCGATTTTC
414281 ATTTTCGCGTTGCGATTTTC
1 ATTTT-GCGTTGCGATTTTC
* *
414301 ATTTCGCATTGCGAT
1 ATTTTGCGTTGCGAT
414316 AGTACTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 14 0.44
20 18 0.56
ACGTcount: A:0.13, C:0.19, G:0.20, T:0.48
Consensus pattern (19 bp):
ATTTTGCGTTGCGATTTTC
Found at i:414292 original size:20 final size:20
Alignment explanation
Indices: 414262--414315 Score: 85
Period size: 19 Copynumber: 2.8 Consensus size: 20
414252 CGCGAATTTA
414262 ATTTT-GCGTTGCGATTTTC
1 ATTTTCGCGTTGCGATTTTC
414281 ATTTTCGCGTTGCGATTTTC
1 ATTTTCGCGTTGCGATTTTC
*
414301 A-TTTCGCATTGCGAT
1 ATTTTCGCGTTGCGAT
414316 AGTACTTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.13, C:0.19, G:0.20, T:0.48
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATTTTC
Found at i:414441 original size:14 final size:14
Alignment explanation
Indices: 414422--414458 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
414412 CATCAATTAA
414422 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
414436 ACAAATCACCTTTT
1 ACAAATCAACTTTT
414450 ACAAATCAA
1 ACAAATCAA
414459 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:415881 original size:21 final size:21
Alignment explanation
Indices: 415815--415881 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
415805 GTGAATCGGG
*
415815 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
415835 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
415857 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
415878 CTCT
1 CTCT
415882 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:415900 original size:42 final size:41
Alignment explanation
Indices: 415815--415937 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
415805 GTGAATCGGG
* * * *
415815 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGACAGGGGC
*
415857 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGGGGC
* * * * *
415899 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGACAGG
415938 CGAGTCGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGGGGC
Found at i:417084 original size:21 final size:22
Alignment explanation
Indices: 417042--417084 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
417032 AATAACAAAT
*
417042 ATTAGTAATTGTTAAATAATTA
1 ATTAGTAATTGTTAAAAAATTA
417064 ATTA-TAATT-TTAAAAACATTA
1 ATTAGTAATTGTTAAAAA-ATTA
417085 TATAGAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 6 0.32
21 9 0.47
22 4 0.21
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (22 bp):
ATTAGTAATTGTTAAAAAATTA
Found at i:418006 original size:34 final size:34
Alignment explanation
Indices: 417963--418046 Score: 118
Period size: 33 Copynumber: 2.5 Consensus size: 34
417953 GAGATAATGA
* *
417963 AATCGCAACGCGGAAATGACTATCGCAACGAGAG
1 AATCGCAACGCGGAAATGACTATCGCAACCAGAC
*
417997 AATCGCAACGC-GAAATGACTATCGCGACCAGAC
1 AATCGCAACGCGGAAATGACTATCGCAACCAGAC
418030 AATCGCAAC-CGCGAAAT
1 AATCGCAACGCG-GAAAT
418047 AAAAATCGCA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
32 1 0.02
33 28 0.62
34 16 0.36
ACGTcount: A:0.38, C:0.27, G:0.23, T:0.12
Consensus pattern (34 bp):
AATCGCAACGCGGAAATGACTATCGCAACCAGAC
Found at i:418099 original size:24 final size:19
Alignment explanation
Indices: 417936--418119 Score: 165
Period size: 19 Copynumber: 10.1 Consensus size: 19
417926 TATTTTGGTT
*
417936 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
417955 GATAATG-AAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
417974 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
417992 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
418008 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
418026 ---A-GACAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
*
418042 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
418061 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
418080 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
* *
418099 AAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
418118 GA
1 GA
418120 TTTTTGTTTC
Statistics
Matches: 135, Mismatches: 16, Indels: 28
0.75 0.09 0.16
Matches are distributed among these distances:
14 18 0.13
15 3 0.02
16 3 0.02
17 1 0.01
18 3 0.02
19 85 0.63
20 22 0.16
ACGTcount: A:0.45, C:0.22, G:0.21, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:418151 original size:19 final size:19
Alignment explanation
Indices: 418115--418159 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
418105 AAAATCGCAA
*
418115 TGCGATTTTTGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
*
418134 TGCGTTTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
418153 TGCGATT
1 TGCGATT
418160 CTCTCGTTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.07, C:0.16, G:0.24, T:0.53
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:418796 original size:20 final size:20
Alignment explanation
Indices: 418711--418804 Score: 73
Period size: 20 Copynumber: 4.7 Consensus size: 20
418701 CGCTATGTAA
* * *
418711 ATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATAGTCAGT
* * *
418731 ATCGCGTTGCGAAATTCAGT
1 ATCGCATTGCGATAGTCAGT
** * *
418751 ATCTAATTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTCAGT
418772 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
418792 ATCGCATTGCGAT
1 ATCGCATTGCGAT
418805 TTTCCCAATT
Statistics
Matches: 58, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
19 3 0.05
20 42 0.72
21 12 0.21
22 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:418823 original size:41 final size:41
Alignment explanation
Indices: 418731--418825 Score: 102
Period size: 41 Copynumber: 2.3 Consensus size: 41
418721 GAAAGTCAGA
* * * ** *
418731 ATCGCGTTGCGAAATTCAGTATCTAATTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTCAGTATCGAATTGCGATTTTCCAAT
* *
418772 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 ATCGCGTTGCGATAGTCAGTATCGAATTGCGATTTT-CCAAT
418814 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
418826 TTACTTATTC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
41 42 0.95
42 2 0.05
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (41 bp):
ATCGCGTTGCGATAGTCAGTATCGAATTGCGATTTTCCAAT
Found at i:418915 original size:21 final size:21
Alignment explanation
Indices: 418875--418915 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
418865 ACTGTATACC
**
418875 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
418896 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
418916 ACGAATTTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:420329 original size:15 final size:14
Alignment explanation
Indices: 420311--420350 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
420301 ATTTATAAAT
420311 AATATAAATAATTA
1 AATATAAATAATTA
420325 AA-ATATAATAATTA
1 AATATA-AATAATTA
*
420339 AATATAGATAAT
1 AATATAAATAAT
420351 CACAATAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 3 0.13
14 17 0.74
15 3 0.13
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (14 bp):
AATATAAATAATTA
Found at i:421415 original size:261 final size:261
Alignment explanation
Indices: 421093--422105 Score: 1235
Period size: 259 Copynumber: 3.9 Consensus size: 261
421083 GGGATGGGCT
* * * * *
421093 TGAAGACGCTAATAAGATTGTGGATGGAGAAGAAGAGGCAGACAAGAAGCGGAAGAAGAAGAAGA
1 TGAAGACGCTAATAAGATTGTGCACGGAGAGGAAGAGGCATACGAGAAGCGGAAGAAGAAGAAG-
*
421158 AAAACAAGAGCTTGAGAAGGTGAATGGTGCTGTTGCTGATGAAAATGGTACTAGTAAAGAGAATT
65 -AAACAAGAGCTGGAGAAGGTGAATGGTGCTGTTGCTGATGAAAATGGTACTAGTAAAGAGAATT
* *
421223 CAACAGGCAATGAGATAGAATGCAGAAAATTGCGAGATAGTGCTGGTGATATCGAAGATGGTAAT
129 CAGCAGGCAATGAGATAGAAAGCAGAAAATTGCGAGATAGTGCTGGTGATATCGAAGATGGTAAT
421288 GGACGCAAGAAGAAG-AGAAATC-AAATCAGTGATAAATGATTCTGAGGAACAGAAAATCTGCAG
194 GGACGCAAGAAGAAGAAGAAATCAAAATCAGTGATAAATGATTCTGAGGAACAGAAAATCTGCAG
421351 CCA
259 CCA
* *
421354 TGAAGACGCTAATAAGATTGTGCACGGAGAGGAAGAGACATATGAGAAGCGGAAGAAGAAGAAGA
1 TGAAGACGCTAATAAGATTGTGCACGGAGAGGAAGAGGCATACGAGAAGCGGAAGAAGAAGAAGA
* * * *
421419 AACAAGAGCTGGAGAAGGTGAATGGTGCTGTTGCTGATGAAAAAGGTACCAGTAAAGGGAATTCT
66 AACAAGAGCTGGAGAAGGTGAATGGTGCTGTTGCTGATGAAAATGGTACTAGTAAAGAGAATTCA
* * * * * * * *
421484 GCAGGCAATGAGGTAGAATGCAGAAAATTGCGAGATACTGCTAGTGATTTTGAAGTTGGTAACGG
131 GCAGGCAATGAGATAGAAAGCAGAAAATTGCGAGATAGTGCTGGTGATATCGAAGATGGTAATGG
* * * * *
421549 ACACAACAAGAAGAAGAAATCAAAATCAGTGATCAATGATACTGAGGAACAGAAAATCTGCACCC
196 ACGCAAGAAGAAGAAGAAATCAAAATCAGTGATAAATGATTCTGAGGAACAGAAAATCTGCAGCC
*
421614 T
261 A
* * * * ** *
421615 TGAAGACACTAATAAGATTGCGCAGGGAGAGGAAGAGGCATACCAGAAGCCAAAAAAGAAGAAGA
1 TGAAGACGCTAATAAGATTGTGCACGGAGAGGAAGAGGCATACGAGAAGCGGAAGAAGAAGAAGA
* * * * *
421680 AACAAGAGCCGGAGAAGGTGCA---T--AG-TGCTGATGAAAATGGAACTAGTAAAGTGAATTCA
66 AACAAGAGCTGGAGAAGGTGAATGGTGCTGTTGCTGATGAAAATGGTACTAGTAAAGAGAATTCA
* * * *
421739 GCAGGCAATGAGATAGAAAGCAGAAAATTGCTAGAT-GCCGGTGGTGATATCGAAGATGGTATTG
131 GCAGGCAATGAGATAGAAAGCAGAAAATTGCGAGATAG-TGCTGGTGATATCGAAGATGGTAATG
* * *
421803 GATGCAAGAAGAAGAATAAATCAAAGTCAGTGATAAATGATTCTGAGGAACAGAAAATCTGCAGC
195 GACGCAAGAAGAAGAAGAAATCAAAATCAGTGATAAATGATTCTGAGGAACAGAAAATCTGCAGC
*
421868 CC
260 CA
* * * * ** *
421870 TGAAGACTCTATTAAGATTGTGTACGGAG-GAGAAGAGGGATACGTCAAG-GG-GGAAGAAGAAG
1 TGAAGACGCTAATAAGATTGTGCACGGAGAG-GAAGAGGCATACGAGAAGCGGAAGAAGAAGAAG
* * * * *
421932 AAACGAA-AGATGGAGAAGGTGAATGGTTCCGTTGCGGATGAAAATGGTGCTAGTAAAGAGAATT
65 AAAC-AAGAGCTGGAGAAGGTGAATGGTGCTGTTGCTGATGAAAATGGTACTAGTAAAGAGAATT
* * * * * * **
421996 CAGCAGGCAATGGGATAGAAAGCAGAGAATTGCGAAATA-TCGGTGGTGATATAGAAGACGGCGA
129 CAGCAGGCAATGAGATAGAAAGCAGAAAATTGCGAGATAGT-GCTGGTGATATCGAAGATGGTAA
422060 TGGACGCAAGAAGAAGAAGAAGAAATCAAAATCAGTGATAAATGAT
193 TGGACGC---AAGAAGAAGAAGAAATCAAAATCAGTGATAAATGAT
422106 GCGGAGGGTG
Statistics
Matches: 638, Mismatches: 98, Indels: 31
0.83 0.13 0.04
Matches are distributed among these distances:
253 26 0.04
254 3 0.00
255 176 0.28
256 2 0.00
258 2 0.00
259 215 0.34
260 7 0.01
261 173 0.27
262 34 0.05
ACGTcount: A:0.41, C:0.11, G:0.30, T:0.18
Consensus pattern (261 bp):
TGAAGACGCTAATAAGATTGTGCACGGAGAGGAAGAGGCATACGAGAAGCGGAAGAAGAAGAAGA
AACAAGAGCTGGAGAAGGTGAATGGTGCTGTTGCTGATGAAAATGGTACTAGTAAAGAGAATTCA
GCAGGCAATGAGATAGAAAGCAGAAAATTGCGAGATAGTGCTGGTGATATCGAAGATGGTAATGG
ACGCAAGAAGAAGAAGAAATCAAAATCAGTGATAAATGATTCTGAGGAACAGAAAATCTGCAGCC
A
Found at i:421928 original size:514 final size:519
Alignment explanation
Indices: 421091--422030 Score: 1319
Period size: 514 Copynumber: 1.8 Consensus size: 519
421081 CAGGGATGGG
* * * * *
421091 CTTGAAGACGCTAATAAGATTGTGGATGGAGAAGAAGAGGCAGACAAGAAGCGGAAGAAGAAGAA
1 CTTGAAGACACTAATAAGATTGCGCAGGGAGAAGAAGAGGCAGACAAGAAGCGCAAGAAGAAGAA
** * *
421156 GAAAAACAAGAGCTTGAGAAGGTGAATGGTGCTGTTGCTGATGAAAATGGTACTAGTAAAGAGAA
66 GAAAAACAAGAGCCGGAGAAGGTGAA--GT-CAGTTGCTGATGAAAATGGAACTAGTAAAGAGAA
* *
421221 TTCAACAGGCAATGAGATAGAATGCAGAAAATTGCGAGATAGTGCTGGTGATATCGAAGATGGTA
128 TTCAACAGGCAATGAGATAGAAAGCAGAAAATTGCGAGATAGCGCTGGTGATATCGAAGATGGTA
421286 ATGGACGCAAGAAGAAGAGAAATCAAATCAGTGATAAATGATTCTGAGGAACAGAAAATCTGCAG
193 ATGGACGCAAGAAGAAGAGAAATCAAATCAGTGATAAATGATTCTGAGGAACAGAAAATCTGCAG
* *
421351 CCATGAAGACGCTAATAAGATTGTGCACGGAGAGGAAGAGACATATGAGAAGCGGAAGAAGAAGA
258 CCATGAAGACGCTAATAAGATTGTGCACGGAGAGGAAGAGACATACGACAAGCGGAAGAAGAAGA
* * * *
421416 AGAAAC-AAGAGCTGGAGAAGGTGAATGGTGCTGTTGCTGATGAAAAAGGTACCAGTAAAGGGAA
323 AGAAACGAA-AGATGGAGAAGGTGAATGGTGCCGTTGCGGATGAAAAAGGTACCAGTAAAGAGAA
* *
421480 TTCTGCAGGCAATGAGG-TAGAATGCAGAAAATTGCGAGATACTGCTAGTGATTTTGAAGTTGGT
387 TTCAGCAGGCAATG-GGATAGAAAGCAGAAAATTGCGAGATACTGCTAGTGATTTTGAAGTTGGT
421544 AACGGACACAACAAGAAGAAGAAATCAAAATCAGTGATCAATGATACTGAGGAACAGAAAATCTG
451 AACGGACACAACAAGAAGAAGAAATCAAAATCAGTGATCAATGATACTGAGGAACAGAAAATCTG
421609 CACC
516 CACC
* * *
421613 CTTGAAGACACTAATAAGATTGCGCAGGGAGAGGAAGAGGCATACCAGAAGC-CAA-AA-AAGAA
1 CTTGAAGACACTAATAAGATTGCGCAGGGAGAAGAAGAGGCAGACAAGAAGCGCAAGAAGAAGAA
* *
421675 GAAGAAACAAGAGCCGGAGAAGGTGCA-T-AG-TGCTGATGAAAATGGAACTAGTAAAGTGAATT
66 GAA-AAACAAGAGCCGGAGAAGGTGAAGTCAGTTGCTGATGAAAATGGAACTAGTAAAGAGAATT
* * * *
421737 CAGCAGGCAATGAGATAGAAAGCAGAAAATTGCTAGAT-GCCGGTGGTGATATCGAAGATGGTAT
130 CAACAGGCAATGAGATAGAAAGCAGAAAATTGCGAGATAG-CGCTGGTGATATCGAAGATGGTAA
* *
421801 TGGATGCAAGAAGAAGAATAAATCAAAGTCAGTGATAAATGATTCTGAGGAACAGAAAATCTGCA
194 TGGACGCAAGAAGAAG-AGAAATCAAA-TCAGTGATAAATGATTCTGAGGAACAGAAAATCTGCA
* * * * ** * *
421866 GCCCTGAAGACTCTATTAAGATTGTGTACGGAG-GAGAAGAGGGATACGTCAAG-GG-GGAAGAA
257 GCCATGAAGACGCTAATAAGATTGTGCACGGAGAG-GAAGAGACATACGACAAGCGGAAGAAGAA
* * * *
421928 GAAGAAACGAAAGATGGAGAAGGTGAATGGTTCCGTTGCGGATGAAAATGGTGCTAGTAAAGAGA
321 GAAGAAACGAAAGATGGAGAAGGTGAATGGTGCCGTTGCGGATGAAAAAGGTACCAGTAAAGAGA
*
421993 ATTCAGCAGGCAATGGGATAGAAAGCAGAGAATTGCGA
386 ATTCAGCAGGCAATGGGATAGAAAGCAGAAAATTGCGA
422031 AATATCGGTG
Statistics
Matches: 368, Mismatches: 43, Indels: 22
0.85 0.10 0.05
Matches are distributed among these distances:
513 3 0.01
514 193 0.52
515 15 0.04
516 79 0.21
517 1 0.00
519 8 0.02
520 22 0.06
521 2 0.01
522 45 0.12
ACGTcount: A:0.41, C:0.12, G:0.30, T:0.18
Consensus pattern (519 bp):
CTTGAAGACACTAATAAGATTGCGCAGGGAGAAGAAGAGGCAGACAAGAAGCGCAAGAAGAAGAA
GAAAAACAAGAGCCGGAGAAGGTGAAGTCAGTTGCTGATGAAAATGGAACTAGTAAAGAGAATTC
AACAGGCAATGAGATAGAAAGCAGAAAATTGCGAGATAGCGCTGGTGATATCGAAGATGGTAATG
GACGCAAGAAGAAGAGAAATCAAATCAGTGATAAATGATTCTGAGGAACAGAAAATCTGCAGCCA
TGAAGACGCTAATAAGATTGTGCACGGAGAGGAAGAGACATACGACAAGCGGAAGAAGAAGAAGA
AACGAAAGATGGAGAAGGTGAATGGTGCCGTTGCGGATGAAAAAGGTACCAGTAAAGAGAATTCA
GCAGGCAATGGGATAGAAAGCAGAAAATTGCGAGATACTGCTAGTGATTTTGAAGTTGGTAACGG
ACACAACAAGAAGAAGAAATCAAAATCAGTGATCAATGATACTGAGGAACAGAAAATCTGCACC
Found at i:422241 original size:36 final size:36
Alignment explanation
Indices: 422194--422266 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
422184 GATCAGGTTG
*
422194 AGGTTTTCCCTTCAGATAATGCAAACAAAGGCTGCA
1 AGGTTTTCCCTTCAGATAATGCAAACAAAGGCCGCA
*
422230 AGGTTTTCCCTTCAGATAATGCAAACAAGGGCCGCA
1 AGGTTTTCCCTTCAGATAATGCAAACAAAGGCCGCA
422266 A
1 A
422267 AGACGGTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (36 bp):
AGGTTTTCCCTTCAGATAATGCAAACAAAGGCCGCA
Found at i:423200 original size:41 final size:41
Alignment explanation
Indices: 423155--423234 Score: 142
Period size: 41 Copynumber: 2.0 Consensus size: 41
423145 CTGCTATTGA
* *
423155 TATCTTCAGAACGTTTTATCTTGTTTCTAGCACTGTTTTGT
1 TATCTTCAGAACATTGTATCTTGTTTCTAGCACTGTTTTGT
423196 TATCTTCAGAACATTGTATCTTGTTTCTAGCACTGTTTT
1 TATCTTCAGAACATTGTATCTTGTTTCTAGCACTGTTTT
423235 ATTTATTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.50
Consensus pattern (41 bp):
TATCTTCAGAACATTGTATCTTGTTTCTAGCACTGTTTTGT
Found at i:439909 original size:32 final size:32
Alignment explanation
Indices: 439867--439930 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
439857 GAATTATGTG
439867 GGGGGGCGGGGGCGCAACCCCCGCGGTACGGT
1 GGGGGGCGGGGGCGCAACCCCCGCGGTACGGT
*
439899 GGGGTGCGGGGGCGCAACCCCCGCGGTACGGT
1 GGGGGGCGGGGGCGCAACCCCCGCGGTACGGT
439931 ACAGGGTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.09, C:0.31, G:0.52, T:0.08
Consensus pattern (32 bp):
GGGGGGCGGGGGCGCAACCCCCGCGGTACGGT
Done.