Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold195
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: 1506968
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 52797 characters in sequence are not A, C, G, or T
File 2 of 5
Found at i:393942 original size:28 final size:28
Alignment explanation
Indices: 393898--393951 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
393888 GTAACTGTAC
*
393898 AGTGTGGGCCTTGGCCCAATACAGTAAA
1 AGTGTGGGCCTTAGCCCAATACAGTAAA
393926 AGTGTGGGCCTTAGCCCAATACAGTA
1 AGTGTGGGCCTTAGCCCAATACAGTA
393952 TCAGTAAAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (28 bp):
AGTGTGGGCCTTAGCCCAATACAGTAAA
Found at i:394088 original size:26 final size:26
Alignment explanation
Indices: 394059--394129 Score: 90
Period size: 26 Copynumber: 2.7 Consensus size: 26
394049 AACACACCAA
* *
394059 TATCGCAGTAAAGCTGCCAGTAATAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
*
394085 TATCGCAGCAAAGCTTG-TAGTAACAG
1 TATCGCAGCAAAGC-TGCCAGTAACAG
*
394111 TATCGCAACAAAGCTGCCA
1 TATCGCAGCAAAGCTGCCA
394130 ATATAATGTA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
25 2 0.05
26 34 0.89
27 2 0.05
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAACAG
Found at i:397823 original size:33 final size:33
Alignment explanation
Indices: 397786--397853 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
397776 ATTTATCATG
397786 TTTAACAATGTTCTAGAAGAATTCCATGTCAAC
1 TTTAACAATGTTCTAGAAGAATTCCATGTCAAC
397819 TTTAACAATGTTCTAGAAGAATTCCATGTCAAC
1 TTTAACAATGTTCTAGAAGAATTCCATGTCAAC
397852 TT
1 TT
397854 GATCATTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (33 bp):
TTTAACAATGTTCTAGAAGAATTCCATGTCAAC
Found at i:400828 original size:14 final size:15
Alignment explanation
Indices: 400797--400826 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
400787 GAAATAATTT
400797 CAATTTTCGGTCCCC
1 CAATTTTCGGTCCCC
*
400812 CAATTTTTGGTCCCC
1 CAATTTTCGGTCCCC
400827 AACTTAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.37, G:0.13, T:0.37
Consensus pattern (15 bp):
CAATTTTCGGTCCCC
Found at i:414227 original size:50 final size:50
Alignment explanation
Indices: 414124--414316 Score: 188
Period size: 50 Copynumber: 3.7 Consensus size: 50
414114 GGGAATGAGA
* *
414124 TCCCATGTAAGACCATGTCTGGGACATGGCATTTGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGG
* *
414180 TCCAATGTAAGACCATGTTTGGGACATGGCATTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
** * * * * **
414230 TCCCCCGTAAGACTATGTCTGGGACATGGCATGGGCACCTATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * * *
414280 TCCCATGTAAAACCATATCTAGGATATGGCATTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
414317 GTACAAGAAA
Statistics
Matches: 115, Mismatches: 22, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
50 77 0.67
53 3 0.03
55 1 0.01
56 34 0.30
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:420490 original size:50 final size:50
Alignment explanation
Indices: 420423--420609 Score: 248
Period size: 50 Copynumber: 3.7 Consensus size: 50
420413 GGGAATGAGA
*
420423 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGG
* * *
420473 TCCCATTTAAGACCATGTCTGGAACATGGCGTTGGCACCAAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGG
** * * * **
420523 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGG
* * *
420573 TCCCATGTAAGACCATATCTAGGATATGGCATTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
420610 GTACAAGAAA
Statistics
Matches: 117, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 117 1.00
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGG
Found at i:425019 original size:37 final size:38
Alignment explanation
Indices: 424969--425042 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 38
424959 ACACATGGTC
424969 ACCCTATTTTATCATTAACAAAGATT-AATTGCAGGCT
1 ACCCTATTTTATCATTAACAAAGATTCAATTGCAGGCT
* * *
425006 ACCCTCTTTTATCATTAACAAAGGTTCAATTGTAGGC
1 ACCCTATTTTATCATTAACAAAGATTCAATTGCAGGC
425043 ATAATAAGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 24 0.73
38 9 0.27
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.35
Consensus pattern (38 bp):
ACCCTATTTTATCATTAACAAAGATTCAATTGCAGGCT
Found at i:431768 original size:22 final size:24
Alignment explanation
Indices: 431736--431784 Score: 75
Period size: 22 Copynumber: 2.1 Consensus size: 24
431726 AAGAGCCAAA
*
431736 CAAGCATAAAC-AAAAAA-AATAG
1 CAAGCAAAAACAAAAAAAGAATAG
431758 CAAGCAAAAACAAAAAAAGAATAG
1 CAAGCAAAAACAAAAAAAGAATAG
431782 CAA
1 CAA
431785 AGAAGAAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 10 0.42
23 6 0.25
24 8 0.33
ACGTcount: A:0.69, C:0.14, G:0.10, T:0.06
Consensus pattern (24 bp):
CAAGCAAAAACAAAAAAAGAATAG
Found at i:431799 original size:21 final size:20
Alignment explanation
Indices: 431760--431799 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
431750 AAAAATAGCA
431760 AGCAAAAACAAAAAAAGAAT
1 AGCAAAAACAAAAAAAGAAT
* *
431780 AGCAAAGAAGAAAGAAAGAA
1 AGCAAA-AACAAAAAAAGAA
431800 GGAGAGGAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.72, C:0.07, G:0.17, T:0.03
Consensus pattern (20 bp):
AGCAAAAACAAAAAAAGAAT
Found at i:431981 original size:25 final size:25
Alignment explanation
Indices: 431913--431981 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
431903 GGAGAAAAAG
431913 AAAAATGAAAG-AAAAAAAGATAGA
1 AAAAATGAAAGAAAAAAAAGATAGA
**
431937 AGAAAGGGAAAGAAAAAAAAGA-AGA
1 A-AAAATGAAAGAAAAAAAAGATAGA
*
431962 AAAAATGAACGAAAAGAAAA
1 AAAAATGAAAGAAAA-AAAA
431982 AAATTCAAGC
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
24 12 0.32
25 16 0.43
26 9 0.24
ACGTcount: A:0.74, C:0.01, G:0.20, T:0.04
Consensus pattern (25 bp):
AAAAATGAAAGAAAAAAAAGATAGA
Found at i:432310 original size:18 final size:18
Alignment explanation
Indices: 432289--432351 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 18
432279 GAAAGGAACG
*
432289 GAGAAGAAGAAGAAAAAA
1 GAGAAAAAGAAGAAAAAA
432307 GAGAAAAAGAA-AGAAAAA
1 GAGAAAAAGAAGA-AAAAA
* *
432325 GAGGAAAAAAAAGGAAAAA
1 GA-GAAAAAGAAGAAAAAA
432344 GAGGAAAA
1 GA-GAAAA
432352 TTAATATATA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
17 1 0.03
18 17 0.44
19 21 0.54
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (18 bp):
GAGAAAAAGAAGAAAAAA
Found at i:432322 original size:19 final size:19
Alignment explanation
Indices: 432302--432351 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
432292 AAGAAGAAGA
432302 AAAAAGA-GAAAAAGAAAG
1 AAAAAGAGGAAAAAGAAAG
432320 AAAAAGAGGAAAAA-AAAGG
1 AAAAAGAGGAAAAAGAAA-G
432339 AAAAAGAGGAAAA
1 AAAAAGAGGAAAA
432352 TTAATATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 10 0.33
19 20 0.67
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (19 bp):
AAAAAGAGGAAAAAGAAAG
Found at i:432342 original size:8 final size:9
Alignment explanation
Indices: 432302--432351 Score: 57
Period size: 9 Copynumber: 5.4 Consensus size: 9
432292 AAGAAGAAGA
432302 AAAAAGA-G
1 AAAAAGAGG
*
432310 AAAAAGAAAG
1 AAAAAG-AGG
432320 AAAAAGAGG
1 AAAAAGAGG
*
432329 AAAAAAAAGG
1 -AAAAAGAGG
432339 AAAAAGAGG
1 AAAAAGAGG
432348 AAAA
1 AAAA
432352 TTAATATATA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
8 6 0.17
9 15 0.42
10 15 0.42
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (9 bp):
AAAAAGAGG
Found at i:432469 original size:20 final size:20
Alignment explanation
Indices: 432427--432475 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
432417 CAGCAGCAAC
432427 ACAGCAGG-CCAAGTCTCCA
1 ACAGCAGGCCCAAGTCTCCA
* * *
432446 ACAGCAGGCCCAATTTTCCT
1 ACAGCAGGCCCAAGTCTCCA
432466 ACAGCAGGCC
1 ACAGCAGGCC
432476 TGTCCTAGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 8 0.31
20 18 0.69
ACGTcount: A:0.29, C:0.37, G:0.20, T:0.14
Consensus pattern (20 bp):
ACAGCAGGCCCAAGTCTCCA
Found at i:434340 original size:12 final size:12
Alignment explanation
Indices: 434323--434354 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
434313 TAGGAAGGTG
434323 TTATTAGGCATT
1 TTATTAGGCATT
*
434335 TTATTAGACATT
1 TTATTAGGCATT
434347 TTATTAGG
1 TTATTAGG
434355 AAGGTGTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.28, C:0.06, G:0.16, T:0.50
Consensus pattern (12 bp):
TTATTAGGCATT
Found at i:437991 original size:32 final size:32
Alignment explanation
Indices: 437950--438015 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
437940 TCTCGATTTA
437950 TTGCTCAACTTACCAACAAATGTGACCAAATT
1 TTGCTCAACTTACCAACAAATGTGACCAAATT
* *
437982 TTGCTCAACTTAGCAACAAATGTGACCCAATT
1 TTGCTCAACTTACCAACAAATGTGACCAAATT
438014 TT
1 TT
438016 CTAACTCCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.35, C:0.24, G:0.11, T:0.30
Consensus pattern (32 bp):
TTGCTCAACTTACCAACAAATGTGACCAAATT
Found at i:441342 original size:75 final size:75
Alignment explanation
Indices: 441219--441771 Score: 589
Period size: 75 Copynumber: 7.3 Consensus size: 75
441209 CAAGAATTAT
* * *
441219 TTTTCAATTTCTGCTTTTT-TAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCATTGGGTCAC
1 TTTTCAATTTCTG-TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCAC
441283 ACGCCGAGGTA
65 ACGCCGAGGTA
* * *
441294 TTTTCAATTTTTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC-GGACATA
1 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACA
* *
441358 TGCCAAGGTA
66 CGCCGAGGTA
* * *
441368 TTTTTCAATTGCAT-TTTAAAAAATAATAATAATCAACTCATAATGCGAGAGGTGAGTTGAGCCT
1 -TTTTCAATTTC-TGTTT-----TTCA-AA-AATCAACTCATAATGCGAGAGGTGAGTTGAGCCT
* * *
441432 CAGG-CACACGTCGAGATA
57 CGGGTCACACGCCGAGGTA
* *
441450 TTTTCAATTTCTGTTTTTTCAAAAATCAACTCATAATGCGAGAGATGAGTTGAGCCTCGGGTCGC
1 TTTTCAATTTCTG-TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCAC
* *
441515 ACGCTGAGGTG
65 ACGCCGAGGTA
* ** ** * *
441526 TTTTCAATTTTTGTTTTTCAAAAATCAACTCATAATGTAAGAGGTGAGTTGAGCCT-TAGACCCA
1 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACA
*
441590 TGCCGAGGTA
66 CGCCGAGGTA
* * * *
441600 TTTTTCAATTTCAT-TTTTTAAAAAATAAACTCATAATGCG-GTGGTGAGTTGAGCCTCGGGTCG
1 -TTTTCAATTTC-TGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCA
* * *
441663 CATGCTGGGGTA
64 CACGCCGAGGTA
* * * * *
441675 TTTCCAATTTATGTTTTTCAAACATCAACTCATAATCCAAGAGGTGAGTTGAGCCTCGGGTCACA
1 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACA
*
441740 CGCTGAGGTA
66 CGCCGAGGTA
441750 TTTTCAATTTCTGTTTTTCAAA
1 TTTTCAATTTCTGTTTTTCAAA
441772 TAAATAATAA
Statistics
Matches: 396, Mismatches: 63, Indels: 38
0.80 0.13 0.08
Matches are distributed among these distances:
73 1 0.00
74 74 0.19
75 230 0.58
76 25 0.06
77 2 0.01
80 3 0.01
81 12 0.03
82 47 0.12
83 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (75 bp):
TTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACA
CGCCGAGGTA
Found at i:441717 original size:149 final size:150
Alignment explanation
Indices: 441239--441778 Score: 507
Period size: 149 Copynumber: 3.5 Consensus size: 150
441229 CTGCTTTTTT
* * ** * *
441239 AAAATCAACTCATAATGCGAGAGGTGAGTTGAGCATTGGGTCACACGCCGAGGTATTTTCAATTT
1 AAAATCAACTCATAATGCAAGAGGTGAGTTGAGC-CTCAGACACACGCCGAGATATTTTCAATTT
* * * * ** * **
441304 -T-TGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC-GGACATATGCCAAGG
65 CTAT-TTTTTAAAAAATAAACTCATAATGCGAGAGATGAGTTGAGCCTCGGGTCGCACGCTGAGG
* * * *
441366 TATTTTTCAATTGCAT-TTTAAAAAATAA
129 TA-TTTCCAATT-TATGTTT-----TTCA
* * *
441394 TAATAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGGCACACGTCGAGATATTTTCAATT
1 -AA-AATCAACTCATAATGCAAGAGGTGAGTTGAGCCTCAGACACACGCCGAGATATTTTCAATT
* * *
441459 TCTGTTTTTTCAAAAATCAACTCATAATGCGAGAGATGAGTTGAGCCTCGGGTCGCACGCTGAGG
64 TCTATTTTTTAAAAAATAAACTCATAATGCGAGAGATGAGTTGAGCCTCGGGTCGCACGCTGAGG
* * *
441524 TGTTTTCAATTTTTGTTTTTCA
129 TATTTCCAATTTATGTTTTTCA
* * * * *
441546 AAAATCAACTCATAATGTAAGAGGTGAGTTGAGCCTTAGACCCATGCCGAGGTATTTTTCAATTT
1 AAAATCAACTCATAATGCAAGAGGTGAGTTGAGCCTCAGACACACGCCGAGATA-TTTTCAATTT
* * * *
441611 C-ATTTTTTAAAAAATAAACTCATAATGCG-GTGGTGAGTTGAGCCTCGGGTCGCATGCTGGGGT
65 CTATTTTTTAAAAAATAAACTCATAATGCGAGAGATGAGTTGAGCCTCGGGTCGCACGCTGAGGT
441674 ATTTCCAATTTATGTTTTTCA
130 ATTTCCAATTTATGTTTTTCA
* * * * * *
441695 AACATCAACTCATAATCCAAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATAATGCAAGAGGTGAGTTGAGCCTC-AGACACACGCCGAGATATTTTCAATTT
* *
441760 CTGTTTTTCAAATAAATAA
65 CTATTTTTTAAA-AAATAA
441779 TAATAATTTT
Statistics
Matches: 328, Mismatches: 47, Indels: 23
0.82 0.12 0.06
Matches are distributed among these distances:
149 92 0.28
150 89 0.27
151 19 0.06
152 2 0.01
156 27 0.08
157 88 0.27
158 11 0.03
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.33
Consensus pattern (150 bp):
AAAATCAACTCATAATGCAAGAGGTGAGTTGAGCCTCAGACACACGCCGAGATATTTTCAATTTC
TATTTTTTAAAAAATAAACTCATAATGCGAGAGATGAGTTGAGCCTCGGGTCGCACGCTGAGGTA
TTTCCAATTTATGTTTTTCA
Found at i:442153 original size:29 final size:29
Alignment explanation
Indices: 442097--442167 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 29
442087 AAAAAAAAAA
*
442097 TAAATTACATTTTGACCCTTAAATTTTTC
1 TAAATTACATTTTGACCCTCAAATTTTTC
*
442126 TAAATTTACATTTTGACCC-CAACA-TTTTG
1 TAAA-TTACATTTTGACCCTCAA-ATTTTTC
442155 TAAATTACATTTT
1 TAAATTACATTTT
442168 AGCCTCTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
28 9 0.24
29 14 0.37
30 15 0.39
ACGTcount: A:0.32, C:0.17, G:0.04, T:0.46
Consensus pattern (29 bp):
TAAATTACATTTTGACCCTCAAATTTTTC
Found at i:442182 original size:29 final size:30
Alignment explanation
Indices: 442097--442201 Score: 78
Period size: 30 Copynumber: 3.6 Consensus size: 30
442087 AAAAAAAAAA
* * *
442097 TAAATTACATTTTGACCCT-TAAA-TTTTTC
1 TAAATTACATTTT-AGCCTCTAAACATTTTG
*
442126 TAAATTTACATTTT-GACC-C-CAACATTTTG
1 TAAA-TTACATTTTAG-CCTCTAAACATTTTG
*
442155 TAAATTACATTTTAGCCTCTAAACTTTTTG
1 TAAATTACATTTTAGCCTCTAAACATTTTG
*
442185 AAAATT-CTATTTTAGCC
1 TAAATTAC-ATTTTAGCC
442202 CCAAATTTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 15
0.73 0.08 0.18
Matches are distributed among these distances:
28 13 0.21
29 17 0.28
30 31 0.51
ACGTcount: A:0.31, C:0.18, G:0.06, T:0.45
Consensus pattern (30 bp):
TAAATTACATTTTAGCCTCTAAACATTTTG
Found at i:442190 original size:30 final size:28
Alignment explanation
Indices: 442142--442218 Score: 77
Period size: 30 Copynumber: 2.7 Consensus size: 28
442132 TACATTTTGA
*
442142 CCCCAACA-TTTTGTAAATTAC-ATTTTAG
1 CCCCAA-ATTTTTGAAAATT-CTATTTTAG
*
442170 CCTCTAAACTTTTTGAAAATTCTATTTTAG
1 CC-CCAAA-TTTTTGAAAATTCTATTTTAG
*
442200 CCCCAAATTTTTTAAAATT
1 CCCCAAATTTTTGAAAATT
442219 GCACTGTTGC
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
28 14 0.34
29 8 0.20
30 19 0.46
ACGTcount: A:0.32, C:0.19, G:0.05, T:0.43
Consensus pattern (28 bp):
CCCCAAATTTTTGAAAATTCTATTTTAG
Found at i:442197 original size:58 final size:56
Alignment explanation
Indices: 442097--442215 Score: 127
Period size: 58 Copynumber: 2.1 Consensus size: 56
442087 AAAAAAAAAA
*
442097 TAAATTACATTTTGACCCTTAAATTTTTCTAAATTTACATTTT-GACCCCAACATTTTG
1 TAAATTACATTTTGACCCTTAAATTTTTCAAAATTTA-ATTTTAG-CCCCAA-ATTTTG
* * *
442155 TAAATTACATTTT-AGCCTCTAAACTTTTTGAAAATTCT-ATTTTAGCCCCAAATTTTT
1 TAAATTACATTTTGACCCT-TAAA-TTTTTCAAAATT-TAATTTTAGCCCCAAATTTTG
442212 TAAA
1 TAAA
442216 ATTGCACTGT
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
57 13 0.25
58 28 0.53
59 11 0.21
60 1 0.02
ACGTcount: A:0.33, C:0.18, G:0.05, T:0.45
Consensus pattern (56 bp):
TAAATTACATTTTGACCCTTAAATTTTTCAAAATTTAATTTTAGCCCCAAATTTTG
Found at i:442767 original size:27 final size:27
Alignment explanation
Indices: 442737--442798 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 27
442727 AGAAGAAAGG
442737 AGAAAAAGAAAAGGGAAAGAAAAAAAA
1 AGAAAAAGAAAAGGGAAAGAAAAAAAA
* * * *
442764 AGAAAGATG-AACGGGAAGGAAAAAAAG
1 AGAAA-AAGAAAAGGGAAAGAAAAAAAA
442791 A-AAAAAGA
1 AGAAAAAGA
442799 TGAAAAAAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
25 2 0.07
26 3 0.11
27 21 0.75
28 2 0.07
ACGTcount: A:0.71, C:0.02, G:0.26, T:0.02
Consensus pattern (27 bp):
AGAAAAAGAAAAGGGAAAGAAAAAAAA
Found at i:442797 original size:28 final size:27
Alignment explanation
Indices: 442749--442802 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
442739 AAAAAGAAAA
*
442749 GGGAAAGAAAAAAAAAGAAAGATGAAC
1 GGGAAAGAAAAAAAAAAAAAGATGAAC
*
442776 GGGAAGGAAAAAAAGAAAAAAGATGAA
1 GGGAAAGAAAAAAA-AAAAAAGATGAA
442803 AAAAAGGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 13 0.54
28 11 0.46
ACGTcount: A:0.67, C:0.02, G:0.28, T:0.04
Consensus pattern (27 bp):
GGGAAAGAAAAAAAAAAAAAGATGAAC
Found at i:442963 original size:18 final size:19
Alignment explanation
Indices: 442929--442964 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
442919 CTACTAATAC
*
442929 CAAAAGAAAGCAAATCAAG
1 CAAAAGAAAGAAAATCAAG
442948 CAAAAGAAA-AAAATCAA
1 CAAAAGAAAGAAAATCAA
442965 AATAAAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.69, C:0.14, G:0.11, T:0.06
Consensus pattern (19 bp):
CAAAAGAAAGAAAATCAAG
Found at i:443172 original size:26 final size:25
Alignment explanation
Indices: 443134--443194 Score: 77
Period size: 26 Copynumber: 2.4 Consensus size: 25
443124 CGAGAAGAAG
*
443134 AAGAAAAAGGGGAAAAAGAAAGAAAA
1 AAGAAAAAAGGGAAAAA-AAAGAAAA
*
443160 AAGAAAAAAGGGAAAAAAATGAAAA
1 AAGAAAAAAGGGAAAAAAAAGAAAA
*
443185 AGAGGAAAAA
1 A-AGAAAAAA
443195 TAATATATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
25 8 0.26
26 23 0.74
ACGTcount: A:0.74, C:0.00, G:0.25, T:0.02
Consensus pattern (25 bp):
AAGAAAAAAGGGAAAAAAAAGAAAA
Found at i:443192 original size:9 final size:9
Alignment explanation
Indices: 443131--443194 Score: 51
Period size: 9 Copynumber: 7.2 Consensus size: 9
443121 GAACGAGAAG
*
443131 AAGAAGAAA
1 AAGAGGAAA
*
443140 AAGGGGAAA
1 AAGAGGAAA
*
443149 AAGAAAGAAA
1 AAG-AGGAAA
*
443159 AA-AGAAAA
1 AAGAGGAAA
443167 AAG-GGAAA
1 AAGAGGAAA
* *
443175 AAAATGAAA
1 AAGAGGAAA
443184 AAGAGGAAA
1 AAGAGGAAA
443193 AA
1 AA
443195 TAATATATAA
Statistics
Matches: 41, Mismatches: 11, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
8 12 0.29
9 23 0.56
10 6 0.15
ACGTcount: A:0.73, C:0.00, G:0.25, T:0.02
Consensus pattern (9 bp):
AAGAGGAAA
Found at i:444636 original size:37 final size:37
Alignment explanation
Indices: 444535--444641 Score: 110
Period size: 37 Copynumber: 2.9 Consensus size: 37
444525 GGCCAACTGA
* * * * *
444535 TCATAAGAGCTCATCGACCCGATAACACGCCAATTGC
1 TCATAAGAGCTAATCCACCCGATAACATGTCAAATGC
* *
444572 T-TTGAAGAGCTAATCCAACCGGA-AACATGTCAAATGC
1 TCAT-AAGAGCTAATCC-ACCCGATAACATGTCAAATGC
*
444609 TCATAAGAGCTAATCCACCCAATAACATGTCAA
1 TCATAAGAGCTAATCCACCCGATAACATGTCAA
444642 TTTCTCCGTA
Statistics
Matches: 56, Mismatches: 10, Indels: 8
0.76 0.14 0.11
Matches are distributed among these distances:
36 5 0.09
37 45 0.80
38 6 0.11
ACGTcount: A:0.37, C:0.27, G:0.15, T:0.21
Consensus pattern (37 bp):
TCATAAGAGCTAATCCACCCGATAACATGTCAAATGC
Found at i:444906 original size:10 final size:10
Alignment explanation
Indices: 444882--444911 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
444872 ATAATAAAAC
444882 TATTATATC-
1 TATTATATCA
444891 TATTATATCA
1 TATTATATCA
444901 TATTATATCA
1 TATTATATCA
444911 T
1 T
444912 CAAACATTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (10 bp):
TATTATATCA
Found at i:445642 original size:21 final size:22
Alignment explanation
Indices: 445603--445645 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
445593 GAAGATGAAA
* *
445603 TGTTTTATTCTTTCTTTAATTT
1 TGTTTTAATCTTTCATTAATTT
445625 TGTTTTAAT-TTTCATTAATTT
1 TGTTTTAATCTTTCATTAATTT
445646 ACAAAATTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.19, C:0.07, G:0.05, T:0.70
Consensus pattern (22 bp):
TGTTTTAATCTTTCATTAATTT
Found at i:447346 original size:33 final size:29
Alignment explanation
Indices: 447300--447384 Score: 93
Period size: 27 Copynumber: 2.8 Consensus size: 29
447290 TTAACCGTTA
*
447300 TCGGTGGATTCAGCACTTAGCAACCACTAGTG
1 TCGG-GGAATCAGCACTTAGCAACCACT--TG
*
447332 ATTCGGGGAATCAGCACTTAGCAACCCCTTG
1 --TCGGGGAATCAGCACTTAGCAACCACTTG
447363 --GGGGAATCAGCACTTAGCAACC
1 TCGGGGAATCAGCACTTAGCAACC
447385 CCCTTTATAT
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
27 22 0.45
31 2 0.04
33 21 0.43
34 4 0.08
ACGTcount: A:0.27, C:0.27, G:0.25, T:0.21
Consensus pattern (29 bp):
TCGGGGAATCAGCACTTAGCAACCACTTG
Found at i:447480 original size:103 final size:103
Alignment explanation
Indices: 447301--447501 Score: 339
Period size: 103 Copynumber: 2.0 Consensus size: 103
447291 TAACCGTTAT
* * * *
447301 CGGTGGATTCAGCACTTAGCAACCACTAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTGGGG
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTGGGG
*
447366 GAATCAGCACTTAGCAACCCCCTTTATATTCAAAGATA
66 GAATCAACACTTAGCAACCCCCTTTATATTCAAAGATA
* *
447404 CGGTGGAATCAGCACTTGGCAACCACCAATGAGTCGGGGAATCAGCAGTTAGCAACCCCTTGGGG
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTGGGG
447469 GAATCAACACTTAGCAACCCCCTTTATATTCAA
66 GAATCAACACTTAGCAACCCCCTTTATATTCAA
447502 TGTACTCCGG
Statistics
Matches: 91, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 91 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (103 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTGGGG
GAATCAACACTTAGCAACCCCCTTTATATTCAAAGATA
Found at i:454964 original size:102 final size:103
Alignment explanation
Indices: 454778--455110 Score: 479
Period size: 103 Copynumber: 3.2 Consensus size: 103
454768 AGTGATTCGA
* * *
454778 GGAATCAGCACTTAGCAACCCCTTTCACATTTAAAGATATGGTGGAATCAGCACTTAGCAACCAC
1 GGAATCAACACTTAGCAACCCCCTTCACATTTAAAGATACGGTGGAATCAGCACTTAGCAACCAC
* * * * ** *
454843 GAATGATTCAGGGAATCAGCATTTAGCAGGCCTTTGGG
66 CAATGAATCGGGGAATCAGCACTTAGCAACCCCTTGGG
* * *
454881 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAA-ATACAGTGGGATCAGCACTTAGCAACCAC
1 GGAATCAACACTTAGCAACCCCCTTCACATTTAAAGATACGGTGGAATCAGCACTTAGCAACCAC
454945 CAATGAATCGGGGAATCAGCACTTAGCAACCCCTTGGG
66 CAATGAATCGGGGAATCAGCACTTAGCAACCCCTTGGG
* * * * *
454983 GGAATCAACATTTAGCAACCCCCTTTATATTCAAAGATACGGTGGAATCAGCACTTGGCAACCAC
1 GGAATCAACACTTAGCAACCCCCTTCACATTTAAAGATACGGTGGAATCAGCACTTAGCAACCAC
* *
455048 CAATGAGTCGGGGAATCAGCAGTTAGCAACCCCTTGGG
66 CAATGAATCGGGGAATCAGCACTTAGCAACCCCTTGGG
455086 GGAATCAACACTTAGCAACCCCCTT
1 GGAATCAACACTTAGCAACCCCCTT
455111 TATATTCAAT
Statistics
Matches: 207, Mismatches: 22, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
102 87 0.42
103 120 0.58
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.22
Consensus pattern (103 bp):
GGAATCAACACTTAGCAACCCCCTTCACATTTAAAGATACGGTGGAATCAGCACTTAGCAACCAC
CAATGAATCGGGGAATCAGCACTTAGCAACCCCTTGGG
Found at i:454968 original size:33 final size:33
Alignment explanation
Indices: 454926--455078 Score: 102
Period size: 33 Copynumber: 4.5 Consensus size: 33
454916 ATACAGTGGG
454926 ATCAGCACTTAGCAACCACCAATGAATCGGGGA
1 ATCAGCACTTAGCAACCACCAATGAATCGGGGA
*
454959 ATCAGCACTTAGCAACC-CC--T---TGGGGGA
1 ATCAGCACTTAGCAACCACCAATGAATCGGGGA
* * * *
454986 ATCAACATTTAGCAACCCCCTTTATATTCAAAGATACGGTGGA
1 ATCAGCACTTAGCAACCACC---A-A-T--GA-AT-CGG-GGA
* *
455029 ATCAGCACTTGGCAACCACCAATGAGTCGGGGA
1 ATCAGCACTTAGCAACCACCAATGAATCGGGGA
*
455062 ATCAGCAGTTAGCAACC
1 ATCAGCACTTAGCAACC
455079 CCTTGGGGGA
Statistics
Matches: 92, Mismatches: 12, Indels: 32
0.68 0.09 0.24
Matches are distributed among these distances:
27 21 0.23
28 2 0.02
30 1 0.01
32 2 0.02
33 35 0.38
34 3 0.03
35 2 0.02
36 1 0.01
38 1 0.01
39 1 0.01
40 1 0.01
41 1 0.01
42 2 0.02
43 19 0.21
ACGTcount: A:0.33, C:0.27, G:0.21, T:0.20
Consensus pattern (33 bp):
ATCAGCACTTAGCAACCACCAATGAATCGGGGA
Found at i:458414 original size:20 final size:20
Alignment explanation
Indices: 458389--458428 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
458379 TAAGACGTAC
*
458389 TAAAAAAATGCTCAGATTAT
1 TAAAAAAATACTCAGATTAT
458409 TAAAAAAATACTCAGATTAT
1 TAAAAAAATACTCAGATTAT
458429 AACATACTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.53, C:0.10, G:0.07, T:0.30
Consensus pattern (20 bp):
TAAAAAAATACTCAGATTAT
Found at i:459977 original size:20 final size:20
Alignment explanation
Indices: 459952--459990 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
459942 TACTTTCTTC
459952 TTTACTTACTCTCTTACTTG
1 TTTACTTACTCTCTTACTTG
459972 TTTACTTACTCTCTTACTT
1 TTTACTTACTCTCTTACTT
459991 AAATAACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.26, G:0.03, T:0.56
Consensus pattern (20 bp):
TTTACTTACTCTCTTACTTG
Found at i:460316 original size:50 final size:51
Alignment explanation
Indices: 460243--460523 Score: 302
Period size: 50 Copynumber: 5.5 Consensus size: 51
460233 CCCTGTACTA
* * * * ** *
460243 CCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCAG-TG
1 CCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTCAGATG
* **
460293 CCAATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTC-GATG
1 CCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTCAGATG
* **
460343 CCAACGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTC-GATG
1 CCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTCAGATG
* * *
460393 CCAACGCCATGTCCCT-GACATGGTTTTACGTGGGACCTCTCATCTC-GGTG
1 CCAACGCCATGT-CCTAGACATGGTCTTACATGGGACCTCTCATCTCAGATG
*
460443 CCAACGCTATGTCCTAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATG
1 CCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTC---ATCTC-A-GATG
* *
460499 CCAATGTCATGTCCTAGACATGGTC
1 CCAACGCCATGTCCTAGACATGGTC
460524 AACGGGACTT
Statistics
Matches: 201, Mismatches: 21, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
49 4 0.02
50 165 0.82
51 2 0.01
53 5 0.02
56 25 0.12
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (51 bp):
CCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTCAGATG
Found at i:460384 original size:100 final size:101
Alignment explanation
Indices: 460243--460523 Score: 352
Period size: 100 Copynumber: 2.8 Consensus size: 101
460233 CCCTGTACTA
* * * **
460243 CCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCAG-TGCCAATGCCATGTCC
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGATGCCAATGCCATGTCC
460307 TAGACATGGTCTTACGGGGGACCTCTCATCTCGATG
66 TAGACATGGTCTTACGGGGGACCTCTCATCTCGATG
** * *
460343 CCAACGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTC-GATGCCAACGCCATGTCC
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGATGCCAATGCCATGT-C
* * *
460407 CT-GACATGGTTTTACGTGGGACCTCTCATCTCGGTG
65 CTAGACATGGTCTTACGGGGGACCTCTCATCTCGATG
* * *
460443 CCAACGCTATGTCCTAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAATGTCA
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC-A-GATGCCAATGCCA
460508 TGTCCTAGACATGGTC
61 TGTCCTAGACATGGTC
460524 AACGGGACTT
Statistics
Matches: 152, Mismatches: 20, Indels: 12
0.83 0.11 0.07
Matches are distributed among these distances:
99 1 0.01
100 121 0.80
101 3 0.02
103 2 0.01
105 3 0.02
106 22 0.14
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (101 bp):
CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGATGCCAATGCCATGTCC
TAGACATGGTCTTACGGGGGACCTCTCATCTCGATG
Found at i:462356 original size:24 final size:24
Alignment explanation
Indices: 462328--462374 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
462318 GTCCATACAA
462328 AGCTTCATAAGGGGCCATCTTCAG
1 AGCTTCATAAGGGGCCATCTTCAG
462352 AGCTTCATAAGGGGCCATCTTCA
1 AGCTTCATAAGGGGCCATCTTCA
462375 AACTCGACTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (24 bp):
AGCTTCATAAGGGGCCATCTTCAG
Found at i:465411 original size:13 final size:13
Alignment explanation
Indices: 465393--465430 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
465383 AGTTCTTCAT
465393 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
465406 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
465419 TGCTTTTGAGAA
1 TGCTTTTGAGAA
465431 NNNNNNNNNN
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.24, C:0.08, G:0.29, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:465957 original size:44 final size:44
Alignment explanation
Indices: 465909--466002 Score: 170
Period size: 44 Copynumber: 2.1 Consensus size: 44
465899 TATATTCAAT
*
465909 AAATGATTTGGTTAATACAGTACTTATATTTGATAAGCATATGA
1 AAATGATTTGGTTAATACAATACTTATATTTGATAAGCATATGA
465953 AAATGATTTGGTTAATACAATACTTATATTTGATAAGCATATGA
1 AAATGATTTGGTTAATACAATACTTATATTTGATAAGCATATGA
*
465997 CAATGA
1 AAATGA
466003 AAGTCGAGAC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.40, C:0.07, G:0.15, T:0.37
Consensus pattern (44 bp):
AAATGATTTGGTTAATACAATACTTATATTTGATAAGCATATGA
Found at i:470233 original size:80 final size:81
Alignment explanation
Indices: 470111--470283 Score: 235
Period size: 80 Copynumber: 2.1 Consensus size: 81
470101 GGTACTACAG
* *
470111 TCATTCTACCCTAAAGGGGTATTTCAGTTATTGTACCCTATGGGGGTATTTCGGTCATTTTACCC
1 TCATTTTACCCTAAAGGGGTATTTCAGTTATTGTACCCTATGGGGGTATTTCGATCATTTTACCC
* *
470176 TAT-GGGGTATTTCGT
66 AATGGGGGTATTTCGA
* * *
470191 TCATTTTACCCTATAA-GGGTATTTC-GTTCATTTTACCTTATGGGGGTATTTCGATCATTTTAT
1 TCATTTTACCCTA-AAGGGGTATTTCAGTT-ATTGTACCCTATGGGGGTATTTCGATCATTTTAC
470254 CCAATGGGGGTATTTCGA
64 CCAATGGGGGTATTTCGA
*
470272 TCATTTGACCCT
1 TCATTTTACCCT
470284 CTTGAAAGAT
Statistics
Matches: 82, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
79 3 0.04
80 55 0.67
81 24 0.29
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (81 bp):
TCATTTTACCCTAAAGGGGTATTTCAGTTATTGTACCCTATGGGGGTATTTCGATCATTTTACCC
AATGGGGGTATTTCGA
Found at i:470243 original size:27 final size:27
Alignment explanation
Indices: 470111--470283 Score: 206
Period size: 27 Copynumber: 6.4 Consensus size: 27
470101 GGTACTACAG
* **
470111 TCATTCTACCCTAAAGGGGTATTTCAGT
1 TCATTTTACCCTATGGGGGTATTTC-GT
* *
470139 T-ATTGTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGT
470165 TCATTTTACCCTAT-GGGGTATTTCGT
1 TCATTTTACCCTATGGGGGTATTTCGT
**
470191 TCATTTTACCCTATAAGGGTATTTCGT
1 TCATTTTACCCTATGGGGGTATTTCGT
* *
470218 TCATTTTACCTTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGT
* * *
470245 TCATTTTATCCAATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGT
*
470272 TCATTTGACCCT
1 TCATTTTACCCT
470284 CTTGAAAGAT
Statistics
Matches: 126, Mismatches: 17, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
26 27 0.21
27 98 0.78
28 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCGT
Found at i:474097 original size:65 final size:65
Alignment explanation
Indices: 473993--474122 Score: 260
Period size: 65 Copynumber: 2.0 Consensus size: 65
473983 TTATCTGATG
473993 GTTTTGACCCCTATTCACTAGAAATAAATTATCTCATTGTACAAAATTTCTTATAATGTTCTTGT
1 GTTTTGACCCCTATTCACTAGAAATAAATTATCTCATTGTACAAAATTTCTTATAATGTTCTTGT
474058 GTTTTGACCCCTATTCACTAGAAATAAATTATCTCATTGTACAAAATTTCTTATAATGTTCTTGT
1 GTTTTGACCCCTATTCACTAGAAATAAATTATCTCATTGTACAAAATTTCTTATAATGTTCTTGT
474123 TTATTATTTT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.31, C:0.17, G:0.09, T:0.43
Consensus pattern (65 bp):
GTTTTGACCCCTATTCACTAGAAATAAATTATCTCATTGTACAAAATTTCTTATAATGTTCTTGT
Found at i:475164 original size:49 final size:50
Alignment explanation
Indices: 475091--475213 Score: 151
Period size: 49 Copynumber: 2.5 Consensus size: 50
475081 ACATGCGAAA
* * *
475091 GCCATGTCTCAGACATGGTTTTACATGGGATGTT-TCCTATA-CTACCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATATAGCTACCAAT
* * * * *
475140 GCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATAGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATAGCTACCAAT
475190 GCCATGTCCCAGACATGGTCTTAC
1 GCCATGTCCCAGACATGGTCTTAC
475214 GGGGGACCTC
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
48 3 0.05
49 32 0.52
50 27 0.44
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATAGCTACCAAT
Found at i:475208 original size:50 final size:50
Alignment explanation
Indices: 475091--475322 Score: 166
Period size: 50 Copynumber: 4.5 Consensus size: 50
475081 ACATGCGAAA
* * * * *
475091 GCCATGTCTCAGACATGGTTTTACATGGGATGTT-TCCTATA-CTACCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATATAGGTGCCAAT
* * *
475140 GCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATAGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATAGGTGCCAAT
** ** * * * *
475190 GCCATGTCCCAGACATGGTCTTACGGGGGACCTCTTATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATAGGTGCCAAT
* * * * *
475240 GCCATGTCTCTGACATGGTCTTACGTGGAACCGCTCATAACCTCA-ATA-ATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA--G-T--T---CTCATATAGGTGCCAAT
475296 GCCATGTCCCAGACATGGTCTTACATG
1 GCCATGTCCCAGACATGGTCTTACATG
475323 TGATCTCATC
Statistics
Matches: 140, Mismatches: 33, Indels: 13
0.75 0.18 0.07
Matches are distributed among these distances:
48 3 0.02
49 32 0.23
50 70 0.50
55 1 0.01
56 30 0.21
57 1 0.01
58 3 0.02
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.28
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATAGGTGCCAAT
Found at i:481024 original size:43 final size:43
Alignment explanation
Indices: 480932--481027 Score: 131
Period size: 43 Copynumber: 2.2 Consensus size: 43
480922 GGTGTGATTT
*
480932 CATGTAAGACCATGTCTAGGACATTGGCATCGATATGAGACTA
1 CATGTAAGACCATGTCTAGGACAATGGCATCGATATGAGACTA
* * * *
480975 CGTGTAAGACCTTGTGTAGGACAATGGCATCGATATGTGA-TAA
1 CATGTAAGACCATGTCTAGGACAATGGCATCGATATGAGACT-A
481018 CATGTAAGAC
1 CATGTAAGAC
481028 TATATCTGGG
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 1 0.02
43 45 0.98
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (43 bp):
CATGTAAGACCATGTCTAGGACAATGGCATCGATATGAGACTA
Found at i:486563 original size:15 final size:15
Alignment explanation
Indices: 486543--486572 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
486533 TATGACAAAA
486543 TTGCTAAAGTGTTTT
1 TTGCTAAAGTGTTTT
486558 TTGCTAAAGTGTTTT
1 TTGCTAAAGTGTTTT
486573 GGCATGAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.20, T:0.53
Consensus pattern (15 bp):
TTGCTAAAGTGTTTT
Found at i:488807 original size:19 final size:19
Alignment explanation
Indices: 488783--488819 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
488773 TTTATAACTG
*
488783 AAAAAATAATGTTGTTATA
1 AAAAAATAATGTTATTATA
488802 AAAAAATAATGTTATTAT
1 AAAAAATAATGTTATTAT
488820 TATGTGCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (19 bp):
AAAAAATAATGTTATTATA
Found at i:503498 original size:216 final size:216
Alignment explanation
Indices: 503232--509727 Score: 12992
Period size: 216 Copynumber: 30.1 Consensus size: 216
503222 AGAAAAAAGT
503232 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
1 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
503297 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
66 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
503362 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
131 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
503427 CTTCCAAGAGACAAGATCTAA
196 CTTCCAAGAGACAAGATCTAA
503448 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
1 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
503513 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
66 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
503578 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
131 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
503643 CTTCCAAGAGACAAGATCTAA
196 CTTCCAAGAGACAAGATCTAA
503664 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
1 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
503729 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
66 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
503794 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
131 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
503859 CTTCCAAGAGACAAGATCTAA
196 CTTCCAAGAGACAAGATCTAA
503880 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
1 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
503945 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
66 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
504010 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
131 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
504075 CTTCCAAGAGACAAGATCTAA
196 CTTCCAAGAGACAAGATCTAA
504096 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
1 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
504161 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
66 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
504226 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
131 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
504291 CTTCCAAGAGACAAGATCTAA
196 CTTCCAAGAGACAAGATCTAA
504312 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
1 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
504377 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
66 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
504442 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
131 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
504507 CTTCCAAGAGACAAGATCTAA
196 CTTCCAAGAGACAAGATCTAA
504528 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
1 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
504593 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
66 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
504658 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
131 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
504723 CTTCCAAGAGACAAGATCTAA
196 CTTCCAAGAGACAAGATCTAA
504744 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
1 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
504809 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
66 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
504874 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
131 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
504939 CTTCCAAGAGACAAGATCTAA
196 CTTCCAAGAGACAAGATCTAA
504960 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
1 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
505025 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
66 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
505090 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
131 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
505155 CTTCCAAGAGACAAGATCTAA
196 CTTCCAAGAGACAAGATCTAA
505176 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
1 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
505241 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
66 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
505306 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
131 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
505371 CTTCCAAGAGACAAGATCTAA
196 CTTCCAAGAGACAAGATCTAA
505392 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
1 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
505457 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
66 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
505522 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
131 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
505587 CTTCCAAGAGACAAGATCTAA
196 CTTCCAAGAGACAAGATCTAA
505608 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
1 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
505673 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
66 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
505738 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
131 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
505803 CTTCCAAGAGACAAGATCTAA
196 CTTCCAAGAGACAAGATCTAA
505824 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
1 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
505889 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
66 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
505954 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
131 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
506019 CTTCCAAGAGACAAGATCTAA
196 CTTCCAAGAGACAAGATCTAA
506040 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
1 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
506105 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
66 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
506170 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
131 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
506235 CTTCCAAGAGACAAGATCTAA
196 CTTCCAAGAGACAAGATCTAA
506256 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
1 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
506321 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
66 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
506386 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
131 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
506451 CTTCCAAGAGACAAGATCTAA
196 CTTCCAAGAGACAAGATCTAA
506472 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
1 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
506537 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
66 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
506602 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
131 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
506667 CTTCCAAGAGACAAGATCTAA
196 CTTCCAAGAGACAAGATCTAA
506688 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
1 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
506753 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
66 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
506818 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
131 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
506883 CTTCCAAGAGACAAGATCTAA
196 CTTCCAAGAGACAAGATCTAA
506904 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
1 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
506969 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
66 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
507034 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
131 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
507099 CTTCCAAGAGACAAGATCTAA
196 CTTCCAAGAGACAAGATCTAA
507120 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
1 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
507185 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
66 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
507250 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
131 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
507315 CTTCCAAGAGACAAGATCTAA
196 CTTCCAAGAGACAAGATCTAA
507336 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
1 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
507401 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
66 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
507466 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
131 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
507531 CTTCCAAGAGACAAGATCTAA
196 CTTCCAAGAGACAAGATCTAA
507552 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
1 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
507617 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
66 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
507682 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
131 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
507747 CTTCCAAGAGACAAGATCTAA
196 CTTCCAAGAGACAAGATCTAA
507768 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
1 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
507833 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
66 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
507898 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
131 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
507963 CTTCCAAGAGACAAGATCTAA
196 CTTCCAAGAGACAAGATCTAA
507984 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
1 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
508049 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
66 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
508114 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
131 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
508179 CTTCCAAGAGACAAGATCTAA
196 CTTCCAAGAGACAAGATCTAA
508200 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
1 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
508265 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
66 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
508330 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
131 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
508395 CTTCCAAGAGACAAGATCTAA
196 CTTCCAAGAGACAAGATCTAA
508416 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
1 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
508481 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
66 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
508546 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
131 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
508611 CTTCCAAGAGACAAGATCTAA
196 CTTCCAAGAGACAAGATCTAA
508632 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
1 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
508697 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
66 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
508762 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
131 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
508827 CTTCCAAGAGACAAGATCTAA
196 CTTCCAAGAGACAAGATCTAA
508848 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
1 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
508913 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
66 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
508978 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
131 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
509043 CTTCCAAGAGACAAGATCTAA
196 CTTCCAAGAGACAAGATCTAA
509064 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
1 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
509129 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
66 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
509194 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
131 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
509259 CTTCCAAGAGACAAGATCTAA
196 CTTCCAAGAGACAAGATCTAA
509280 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
1 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
509345 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
66 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
509410 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
131 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
509475 CTTCCAAGAGACAAGATCTAA
196 CTTCCAAGAGACAAGATCTAA
509496 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
1 GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
509561 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
66 ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
509626 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
131 GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
509691 CTTCCAAGAGACAAGATCTAA
196 CTTCCAAGAGACAAGATCTAA
509712 GGTTTTAATCCGCTCC
1 GGTTTTAATCCGCTCC
509728 TGTTACATAA
Statistics
Matches: 6280, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
216 6280 1.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (216 bp):
GGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTTTGTCTATTCCGTTGCA
ACTTCAGGGGGATAAAATTTGCCATTTTTGGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
GCTTACTTAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAA
CTTCCAAGAGACAAGATCTAA
Found at i:513971 original size:45 final size:45
Alignment explanation
Indices: 513916--514030 Score: 194
Period size: 45 Copynumber: 2.6 Consensus size: 45
513906 CTTCAATCTG
513916 TTCCACTGTTGACCAGGGAGATAGGACTTTGTGATTTTCAACATA
1 TTCCACTGTTGACCAGGGAGATAGGACTTTGTGATTTTCAACATA
* *
513961 TTCCACTGTTGACTAGGGAGATAGGACTTTGTGATTTTCAACCTA
1 TTCCACTGTTGACCAGGGAGATAGGACTTTGTGATTTTCAACATA
**
514006 TTCCACTACTGACCAGGGAGATAGG
1 TTCCACTGTTGACCAGGGAGATAGG
514031 GCTGTGGTTA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 65 1.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.31
Consensus pattern (45 bp):
TTCCACTGTTGACCAGGGAGATAGGACTTTGTGATTTTCAACATA
Found at i:514113 original size:88 final size:88
Alignment explanation
Indices: 514041--514346 Score: 445
Period size: 88 Copynumber: 3.5 Consensus size: 88
514031 GCTGTGGTTA
** * * *
514041 TCGATCTATTTCACTGTCGGTGTAGGAAGGCAAGATTTGCTAATTTTAACCTGCTCCACTGCAAC
1 TCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTAATTTTAACCTGCTCCGCTGCAAC
*
514106 CCGGGGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * * * *
514129 TTGATCTGCTTCGCTGTCGGCGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGTAAC
1 TCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTAATTTTAACCTGCTCCGCTGCAAC
* *
514194 CCAAGGAGGCAAGGCTGATGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* *
514217 TCGATCTGCTTCACTGTCAGTGCAGGAAGGCAAGATCTGCT-ATTCTTAACCTGCTCCGCTACAA
1 TCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTAATT-TTAACCTGCTCCGCTGCAA
514281 CCCAGGGAGGCAAGGCTGGTGTCT
65 CCCAGGGAGGCAAGGCTGGTGTCT
514305 TCGATCTGCTTCGA-TGTCGGTGCAGGAAGGCAAGATCTGCTA
1 TCGATCTGCTTC-ACTGTCGGTGCAGGAAGGCAAGATCTGCTA
514347 TCTTCGATCT
Statistics
Matches: 192, Mismatches: 23, Indels: 5
0.87 0.10 0.02
Matches are distributed among these distances:
87 2 0.01
88 189 0.98
89 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.27
Consensus pattern (88 bp):
TCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTAATTTTAACCTGCTCCGCTGCAAC
CCAGGGAGGCAAGGCTGGTGTCT
Found at i:514353 original size:45 final size:45
Alignment explanation
Indices: 514126--514361 Score: 160
Period size: 45 Copynumber: 5.3 Consensus size: 45
514116 AAGGCTGGTG
* *
514126 TCTTTGATCTGCTTCGCTGTCGGCGCAGGAAGGCAAGATCTGCTA
1 TCTTCGATCTGCTTCGCTGTCAGCGCAGGAAGGCAAGATCTGCTA
* ** * * * * * * *
514171 TTTTTAACCTGCTCCGCTGT-AACCCAAGG-AGGCAAG-GCTGATG
1 TCTTCGATCTGCTTCGCTGTCAGCGC-AGGAAGGCAAGATCTGCTA
* *
514214 TCTTCGATCTGCTTCACTGTCAGTGCAGGAAGGCAAGATCTGCTA
1 TCTTCGATCTGCTTCGCTGTCAGCGCAGGAAGGCAAGATCTGCTA
* * * * * * * * * *
514259 TTCTT-AACCTGCTCCGCT-ACAACCCAGGGAGGCAAG-GCTGGTG
1 -TCTTCGATCTGCTTCGCTGTCAGCGCAGGAAGGCAAGATCTGCTA
* * *
514302 TCTTCGATCTGCTTCGATGTCGGTGCAGGAAGGCAAGATCTGCTA
1 TCTTCGATCTGCTTCGCTGTCAGCGCAGGAAGGCAAGATCTGCTA
*
514347 TCTTCGATCTACTTC
1 TCTTCGATCTGCTTC
514362 ACGCCAATAC
Statistics
Matches: 135, Mismatches: 48, Indels: 16
0.68 0.24 0.08
Matches are distributed among these distances:
42 4 0.03
43 34 0.25
44 43 0.32
45 50 0.37
46 4 0.03
ACGTcount: A:0.20, C:0.26, G:0.26, T:0.28
Consensus pattern (45 bp):
TCTTCGATCTGCTTCGCTGTCAGCGCAGGAAGGCAAGATCTGCTA
Found at i:514395 original size:44 final size:44
Alignment explanation
Indices: 514327--514525 Score: 215
Period size: 44 Copynumber: 4.5 Consensus size: 44
514317 GATGTCGGTG
* *
514327 CAGGAAGGCAAGATCTGCTATCTTCGATCTACTTCACGCCAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATA
* * * *
514371 CATGAAGACAAGATATGCTTTCTTCGATCTACTTCACCACCAGTA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTTCA-CACCAATA
** * *
514416 TGGGAAGACAAGATCTGC-ATCTTCGATCCACTTCGCTACCAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATA
* * * * *
514460 -AGGAAGACAGGATTTGCCATGTTCGATCTACTTCACGCCAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATA
*
514503 CATGAAGACAAGATCTGCT-TCTT
1 CAGGAAGACAAGATCTGCTATCTT
514526 TACTGATCTG
Statistics
Matches: 125, Mismatches: 26, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
43 24 0.19
44 81 0.65
45 20 0.16
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (44 bp):
CAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATA
Found at i:520621 original size:13 final size:14
Alignment explanation
Indices: 520603--520632 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
520593 GCATTAATCC
520603 AAAAATTGATAA-A
1 AAAAATTGATAACA
520616 AAAAATTGATAACA
1 AAAAATTGATAACA
520630 AAA
1 AAA
520633 TGAAAGTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (14 bp):
AAAAATTGATAACA
Found at i:521674 original size:18 final size:18
Alignment explanation
Indices: 521651--521685 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
521641 CGACAAAAGC
521651 TGAAAAGCCGAAATACGT
1 TGAAAAGCCGAAATACGT
*
521669 TGAAAAGTCGAAATACG
1 TGAAAAGCCGAAATACG
521686 GCATTGAGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.14, G:0.23, T:0.17
Consensus pattern (18 bp):
TGAAAAGCCGAAATACGT
Found at i:522026 original size:27 final size:27
Alignment explanation
Indices: 521996--522301 Score: 345
Period size: 27 Copynumber: 11.3 Consensus size: 27
521986 TTACACTGTT
* *
521996 ATGACTAAAATACCTCCATAGGGTAAA
1 ATGACTGAAATACCCCCATAGGGTAAA
* *
522023 ATGACCGAAATACCCCCATAGGGTAGA
1 ATGACTGAAATACCCCCATAGGGTAAA
*
522050 ATGATCT-AAATACCCTCATAGGGTAAA
1 ATGA-CTGAAATACCCCCATAGGGTAAA
* *
522077 ATGACCGAAATACCCCAATAGGGTAAA
1 ATGACTGAAATACCCCCATAGGGTAAA
* *
522104 ATGACCGAAATACCCCCATAGGATAAA
1 ATGACTGAAATACCCCCATAGGGTAAA
*
522131 ATGA-TCGAAATACCCTCATAGGGTAAA
1 ATGACT-GAAATACCCCCATAGGGTAAA
* *
522158 ATGACTGAAATACCCCTCCGTAAGGTAAA
1 ATGACTGAAATA-CCC-CCATAGGGTAAA
* *
522187 ATGA-TCAAAATACCCCCGTAGGGTAAA
1 ATGACT-GAAATACCCCCATAGGGTAAA
* *
522214 ATGA-TCAAAATACCCCCGTAGGGTAAA
1 ATGACT-GAAATACCCCCATAGGGTAAA
522241 ATGA-TCGAAATACCCCCATAGGGTAAA
1 ATGACT-GAAATACCCCCATAGGGTAAA
*
522268 ATG-GTCGAAATACCCCCATAGGGTAAA
1 ATGACT-GAAATACCCCCATAGGGTAAA
522295 ATGACTG
1 ATGACTG
522302 TTATAACCCT
Statistics
Matches: 247, Mismatches: 23, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
26 1 0.00
27 218 0.88
28 10 0.04
29 18 0.07
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.19
Consensus pattern (27 bp):
ATGACTGAAATACCCCCATAGGGTAAA
Found at i:522070 original size:54 final size:54
Alignment explanation
Indices: 522003--522299 Score: 398
Period size: 54 Copynumber: 5.5 Consensus size: 54
521993 GTTATGACTA
* * *
522003 AAATACCTCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAGAATGATCT
1 AAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGATCG
* * *
522057 AAATACCCTCATAGGGTAAAATGACCGAAATACCCCAATAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGATCG
* * *
522111 AAATACCCCCATAGGATAAAATGATCGAAATACCCTCATAGGGTAAAATGA-CTG
1 AAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGATC-G
* * * * * *
522165 AAATACCCCTCCGTAAGGTAAAATGATCAAAATACCCCCGTAGGGTAAAATGATCA
1 AAATA-CCC-CCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGATCG
* * *
522221 AAATACCCCCGTAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGGTCG
1 AAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGATCG
522275 AAATACCCCCATAGGGTAAAATGAC
1 AAATACCCCCATAGGGTAAAATGAC
522300 TGTTATAACC
Statistics
Matches: 214, Mismatches: 25, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
53 1 0.00
54 164 0.77
55 6 0.03
56 42 0.20
57 1 0.00
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.19
Consensus pattern (54 bp):
AAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGATCG
Found at i:522134 original size:81 final size:81
Alignment explanation
Indices: 522003--522298 Score: 421
Period size: 81 Copynumber: 3.6 Consensus size: 81
521993 GTTATGACTA
* * *
522003 AAATACCTCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAGAATGATCTAAATACCCTCA
1 AAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGATCAAAATACCCTCA
522068 TAGGGTAAAATGACCG
66 TAGGGTAAAATGACCG
* * *
522084 AAATACCCCAATAGGGTAAAATGACCGAAATACCCCCATAGGATAAAATGATCGAAATACCCTCA
1 AAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGATCAAAATACCCTCA
*
522149 TAGGGTAAAATGACTG
66 TAGGGTAAAATGACCG
* * * * * *
522165 AAATACCCCTCCGTAAGGTAAAATGATCAAAATACCCCCGTAGGGTAAAATGATCAAAATACCCC
1 AAATA-CCC-CCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGATCAAAATACCCT
* *
522230 CGTAGGGTAAAATGATCG
64 CATAGGGTAAAATGACCG
**
522248 AAATACCCCCATAGGGTAAAATGGTCGAAATACCCCCATAGGGTAAAATGA
1 AAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGA
522299 CTGTTATAAC
Statistics
Matches: 190, Mismatches: 23, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
81 118 0.62
82 6 0.03
83 66 0.35
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.19
Consensus pattern (81 bp):
AAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGATCAAAATACCCTCA
TAGGGTAAAATGACCG
Found at i:528350 original size:2 final size:2
Alignment explanation
Indices: 528343--528373 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
528333 TTAAAGAAAT
528343 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
528374 ATATAACACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:530384 original size:19 final size:19
Alignment explanation
Indices: 530362--530423 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 19
530352 GCACATAACG
530362 TGCATATTGGCATACAAAA
1 TGCATATTGGCATACAAAA
* **
530381 TGCATCTTGGCGCACAAAA
1 TGCATATTGGCATACAAAA
* * * *
530400 CGCATATCGGCTTACAAAG
1 TGCATATTGGCATACAAAA
530419 TGCAT
1 TGCAT
530424 CCTGGTGCCA
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (19 bp):
TGCATATTGGCATACAAAA
Found at i:530446 original size:53 final size:53
Alignment explanation
Indices: 530388--530490 Score: 190
Period size: 53 Copynumber: 1.9 Consensus size: 53
530378 AAATGCATCT
530388 TGGCGCACAAAAC-GCATATCGGCTTACAAAGTGCATCCTGGTGCCACAAATCC
1 TGGCGCAC-AAACTGCATATCGGCTTACAAAGTGCATCCTGGTGCCACAAATCC
530441 TGGCGCACAAACTGCATATCGGCTTACAAAGTGCATCCTGGTGCCACAAA
1 TGGCGCACAAACTGCATATCGGCTTACAAAGTGCATCCTGGTGCCACAAA
530491 CTCAAAAAGG
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
52 4 0.08
53 45 0.92
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.19
Consensus pattern (53 bp):
TGGCGCACAAACTGCATATCGGCTTACAAAGTGCATCCTGGTGCCACAAATCC
Found at i:544108 original size:22 final size:22
Alignment explanation
Indices: 544083--544130 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
544073 GCTAAGAGCC
* * *
544083 ATAAACGGGATAGCTATAAGCT
1 ATAAACAGAATAGCTACAAGCT
*
544105 ATAAACAGAATGGCTACAAGCT
1 ATAAACAGAATAGCTACAAGCT
544127 ATAA
1 ATAA
544131 GTACAGTAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.21
Consensus pattern (22 bp):
ATAAACAGAATAGCTACAAGCT
Found at i:544183 original size:32 final size:32
Alignment explanation
Indices: 544133--544260 Score: 193
Period size: 32 Copynumber: 4.0 Consensus size: 32
544123 AGCTATAAGT
*
544133 ACAGTAATATGATTGGCACAAAGCCATCAGTA
1 ACAGTAATATGATCGGCACAAAGCCATCAGTA
* *
544165 GCAGTGATATGATCGGCACAAAGCCATCAGTA
1 ACAGTAATATGATCGGCACAAAGCCATCAGTA
* *
544197 ATAGTAATATGATCGGCACAAAGCCATTAGTA
1 ACAGTAATATGATCGGCACAAAGCCATCAGTA
* *
544229 ACGGTAATATGATCGGCCCAAAGCCATCAGTA
1 ACAGTAATATGATCGGCACAAAGCCATCAGTA
544261 GCATCGTAGC
Statistics
Matches: 85, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 85 1.00
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.21
Consensus pattern (32 bp):
ACAGTAATATGATCGGCACAAAGCCATCAGTA
Found at i:544458 original size:11 final size:11
Alignment explanation
Indices: 544442--544508 Score: 53
Period size: 11 Copynumber: 5.7 Consensus size: 11
544432 AATCAGTCAT
544442 ACAAATCACAG
1 ACAAATCACAG
*
544453 ACAAATCAGTCAT
1 ACAAATCA--CAG
*
544466 ACCAATCACAG
1 ACAAATCACAG
*
544477 ACAAATCAGTCAT
1 ACAAATCA--CAG
**
544490 TTAAATCACAG
1 ACAAATCACAG
544501 ACAAATCA
1 ACAAATCA
544509 GTCATTTACC
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
11 25 0.60
13 17 0.40
ACGTcount: A:0.49, C:0.25, G:0.07, T:0.18
Consensus pattern (11 bp):
ACAAATCACAG
Found at i:544516 original size:24 final size:24
Alignment explanation
Indices: 544432--544513 Score: 137
Period size: 24 Copynumber: 3.4 Consensus size: 24
544422 CCATGCTTAG
544432 AATCAGTCATACAAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
*
544456 AATCAGTCATACCAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
**
544480 AATCAGTCATTTAAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
544504 AATCAGTCAT
1 AATCAGTCAT
544514 TTACCCTATT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 54 1.00
ACGTcount: A:0.46, C:0.24, G:0.09, T:0.21
Consensus pattern (24 bp):
AATCAGTCATACAAATCACAGACA
Found at i:544617 original size:27 final size:27
Alignment explanation
Indices: 544529--544735 Score: 175
Period size: 27 Copynumber: 7.6 Consensus size: 27
544519 CTATTAAGGC
* * * *
544529 ATTACGATCGTTTTACCTTACAGGAGT
1 ATTACGGTCATTTTACCTTATAGGGGT
* * * * *
544556 ATTTCGATCATTTAACCCTATGGGGGGT
1 ATTACGGTCATTTTACCTTAT-AGGGGT
* *
544584 ATTACGGTCATATTTTCC-TATAGGGGC
1 ATTACGGTCAT-TTTACCTTATAGGGGT
* * *
544611 ATTACGGTTATTTTACCCTATGGGGGT
1 ATTACGGTCATTTTACCTTATAGGGGT
* *
544638 TTTTCGGTCATTTTACCTTATAGGGGT
1 ATTACGGTCATTTTACCTTATAGGGGT
* * *
544665 ATTACGATCATTTTACCTTACAGGGGC
1 ATTACGGTCATTTTACCTTATAGGGGT
* *
544692 ATTACGATCATTTTACCTTA-CGAGGGT
1 ATTACGGTCATTTTACCTTATAG-GGGT
*
544719 ATTTCGGTCATTTTACC
1 ATTACGGTCATTTTACC
544736 CATCGAGGGT
Statistics
Matches: 145, Mismatches: 31, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
26 6 0.04
27 119 0.82
28 16 0.11
29 4 0.03
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.39
Consensus pattern (27 bp):
ATTACGGTCATTTTACCTTATAGGGGT
Found at i:544703 original size:54 final size:54
Alignment explanation
Indices: 544526--544762 Score: 183
Period size: 54 Copynumber: 4.4 Consensus size: 54
544516 ACCCTATTAA
* * * * * *
544526 GGCATTACGATCGTTTTACCTTACAGGAGTATTTCGATCATTTAACCCTATGGGG
1 GGCATTACGATCATTTTACCTTATAGGGGTATTACGATCATTTTACCCTA-CGGG
* * * * * * *
544581 GGTATTACGGTCATATTTTCC-TATAGGGGCATTACGGTTATTTTACCCTATGGG
1 GGCATTACGATCAT-TTTACCTTATAGGGGTATTACGATCATTTTACCCTACGGG
** * * * *
544635 GGTTTTTCGGTCATTTTACCTTATAGGGGTATTACGATCATTTTACCTTACAGG
1 GGCATTACGATCATTTTACCTTATAGGGGTATTACGATCATTTTACCCTACGGG
* * * *
544689 GGCATTACGATCATTTTACCTTA-CGAGGGTATTTCGGTCATTTTACCC-ATCGAG
1 GGCATTACGATCATTTTACCTTATAG-GGGTATTACGATCATTTTACCCTA-CGGG
* * *
544743 GGTATTTCAATCATTTTACC
1 GGCATTACGATCATTTTACC
544763 CATTGAGGGT
Statistics
Matches: 144, Mismatches: 34, Indels: 9
0.77 0.18 0.05
Matches are distributed among these distances:
53 7 0.05
54 99 0.69
55 33 0.23
56 5 0.03
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (54 bp):
GGCATTACGATCATTTTACCTTATAGGGGTATTACGATCATTTTACCCTACGGG
Found at i:544705 original size:81 final size:79
Alignment explanation
Indices: 544526--544762 Score: 249
Period size: 81 Copynumber: 2.9 Consensus size: 79
544516 ACCCTATTAA
* * * * * * *
544526 GGCATTACGATCGTTTTACCTTACAGGAGTATTTCGATCATTTAACCCTATGGGGGGTATTACGG
1 GGCATTACGATCATTTTACCTTACGGGGGTATTTCGGTCATTTTA-CCTAT-AGGGGTATTACGA
* *
544591 TCATATTTTCCTATAGG
64 TCAT-TTTACCTACAGG
* * * * *
544608 GGCATTACGGTTATTTTACCCTATGGGGGTTTTTCGGTCATTTTACCTTATAGGGGTATTACGAT
1 GGCATTACGATCATTTTACCTTACGGGGGTATTTCGGTCATTTTACC-TATAGGGGTATTACGAT
544673 CATTTTACCTTACAGG
65 CATTTTACC-TACAGG
* * * * *
544689 GGCATTACGATCATTTTACCTTACGAGGGTATTTCGGTCATTTTACCCATCGAGGGTATTTCAAT
1 GGCATTACGATCATTTTACCTTACGGGGGTATTTCGGTCATTTTACCTATAG-GGGTATTACGAT
544754 CATTTTACC
65 CATTTTACC
544763 CATTGAGGGT
Statistics
Matches: 128, Mismatches: 24, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
80 8 0.06
81 82 0.64
82 38 0.30
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (79 bp):
GGCATTACGATCATTTTACCTTACGGGGGTATTTCGGTCATTTTACCTATAGGGGTATTACGATC
ATTTTACCTACAGG
Found at i:544742 original size:27 final size:27
Alignment explanation
Indices: 544620--544920 Score: 252
Period size: 27 Copynumber: 11.1 Consensus size: 27
544610 CATTACGGTT
* * *
544620 ATTTTACCCTAT-GGGGGTTTTTCGGTC
1 ATTTTACCC-ATCGAGGGTATTTCGATC
* * *
544647 ATTTTACCTTATAG-GGGTATTACGATC
1 ATTTTACC-CATCGAGGGTATTTCGATC
* * *
544674 ATTTTA-CCTTAC-AGGGGCATTACGATC
1 ATTTTACCCAT-CGA-GGGTATTTCGATC
* *
544701 ATTTTA-CCTTACGAGGGTATTTCGGTC
1 ATTTTACCCAT-CGAGGGTATTTCGATC
*
544728 ATTTTACCCATCGAGGGTATTTCAATC
1 ATTTTACCCATCGAGGGTATTTCGATC
* * *
544755 ATTTTACCCATTGAGGGTATTTCAATA
1 ATTTTACCCATCGAGGGTATTTCGATC
* *
544782 ATTTTACCCATTGAGAGTATTTCGATC
1 ATTTTACCCATCGAGGGTATTTCGATC
* * * *
544809 ATTTTTCCCATCGAGGGTATTTTGGTA
1 ATTTTACCCATCGAGGGTATTTCGATC
* * * *
544836 ATTTTACCCATCGAGAGTATTTTGGTT
1 ATTTTACCCATCGAGGGTATTTCGATC
* *
544863 ATTTTACCCATCGAGGGTATTTTGATA
1 ATTTTACCCATCGAGGGTATTTCGATC
* * *
544890 ATTTTACCCATCGAAGGTATTTTGGTC
1 ATTTTACCCATCGAGGGTATTTCGATC
544917 ATTT
1 ATTT
544921 AACAAATATT
Statistics
Matches: 233, Mismatches: 34, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
25 1 0.00
26 1 0.00
27 226 0.97
28 5 0.02
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.41
Consensus pattern (27 bp):
ATTTTACCCATCGAGGGTATTTCGATC
Found at i:550998 original size:32 final size:32
Alignment explanation
Indices: 550920--551043 Score: 144
Period size: 32 Copynumber: 3.9 Consensus size: 32
550910 ATAAGTACAA
* * *
550920 TAATATGATTGGCATAAAGCCATCAGTAGCA-G
1 TAATATGATCGGCACAAAGCCATCAGTA-AAGG
* *
550952 TGATAAGATCGGCACACAA-CCATCAGTAAAGG
1 TAATATGATCGGCACA-AAGCCATCAGTAAAGG
* *
550984 TAATATGATTGGCACAAAGCCATCAGTAACGG
1 TAATATGATCGGCACAAAGCCATCAGTAAAGG
*
551016 TAATATGATCAGCACAAAGCCATCAGTA
1 TAATATGATCGGCACAAAGCCATCAGTA
551044 GCATCATAGC
Statistics
Matches: 78, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
31 3 0.04
32 73 0.94
33 2 0.03
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.21
Consensus pattern (32 bp):
TAATATGATCGGCACAAAGCCATCAGTAAAGG
Found at i:551031 original size:64 final size:64
Alignment explanation
Indices: 550920--551043 Score: 178
Period size: 64 Copynumber: 1.9 Consensus size: 64
550910 ATAAGTACAA
* * * *
550920 TAATATGATTGGCATAAAGCCATCAGTAGCAGTGATAAGATCGGCACACAA-CCATCAGTAAAGG
1 TAATATGATTGGCACAAAGCCATCAGTAACAGTAATAAGATCAGCACA-AAGCCATCAGTAAAGG
* *
550984 TAATATGATTGGCACAAAGCCATCAGTAACGGTAATATGATCAGCACAAAGCCATCAGTA
1 TAATATGATTGGCACAAAGCCATCAGTAACAGTAATAAGATCAGCACAAAGCCATCAGTA
551044 GCATCATAGC
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
63 2 0.04
64 51 0.96
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.21
Consensus pattern (64 bp):
TAATATGATTGGCACAAAGCCATCAGTAACAGTAATAAGATCAGCACAAAGCCATCAGTAAAGG
Found at i:553924 original size:25 final size:25
Alignment explanation
Indices: 553895--553950 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
553885 AAGTATTATA
553895 CAGAGAACA-TAAATGTGCTAATAAT
1 CAGAGAACACT-AATGTGCTAATAAT
* * *
553920 TAGAGAGCACTGATGTGCTAATAAT
1 CAGAGAACACTAATGTGCTAATAAT
553945 CAGAGA
1 CAGAGA
553951 GCACGCTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 25 0.96
26 1 0.04
ACGTcount: A:0.43, C:0.12, G:0.21, T:0.23
Consensus pattern (25 bp):
CAGAGAACACTAATGTGCTAATAAT
Found at i:553951 original size:25 final size:25
Alignment explanation
Indices: 553907--553954 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
553897 GAGAACATAA
*
553907 ATGTGCTAATAATTAGAGAGCACTG
1 ATGTGCTAATAATCAGAGAGCACTG
553932 ATGTGCTAATAATCAGAGAGCAC
1 ATGTGCTAATAATCAGAGAGCAC
553955 GCTAAACTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.25
Consensus pattern (25 bp):
ATGTGCTAATAATCAGAGAGCACTG
Found at i:554832 original size:50 final size:50
Alignment explanation
Indices: 554771--555009 Score: 279
Period size: 50 Copynumber: 4.8 Consensus size: 50
554761 TTTTACCTGA
* * * * * **
554771 TCTCATATCGGTGCCCATGCCATATCCCAGACATGGTTTTACGGGGGACC
1 TCTCATCTCGGTGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACC
* *
554821 TCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACC
1 TCTCATCTCGGTGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACC
* *
554871 TCTCATCTCGGTGGCAATGCCATGTCCCAAACATGGTCTTACATGAGACC
1 TCTCATCTCGGTGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACC
*
554921 TCTCATCTTGGTGCCAATGCCATGTCCCAAACATGGTCTTACACT-GG--C
1 TCTCATCTCGGTGCCAATGCCATGTCCCAAACATGGTCTTACA-TGGGACC
* * * * *
554969 T-TACATATCGATGTCGATGCCATGTCCCAGACATGGTCTTA
1 TCT-CATCTCGGTGCCAATGCCATGTCCCAAACATGGTCTTA
555010 TACGAGATCG
Statistics
Matches: 167, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
47 1 0.01
48 34 0.20
50 131 0.78
51 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (50 bp):
TCTCATCTCGGTGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACC
Found at i:555029 original size:48 final size:48
Alignment explanation
Indices: 554839--555031 Score: 117
Period size: 50 Copynumber: 3.9 Consensus size: 48
554829 CGGTGCCAAC
* * * * *
554839 GCCATGTCCCAGACATGGTCTTACA-TGGGACCTCTCAT-CTCGGTGGCAAT
1 GCCATGTCCCAAACATGGTCTTACACT-GGA--TCACATAC-CGATGTCGAT
* * * * *
554889 GCCATGTCCCAAACATGGTCTTACA-TGAGACCTCTCAT-CTTGGTGCCAAT
1 GCCATGTCCCAAACATGGTCTTACACTG-GA--TCACATAC-CGATGTCGAT
* * *
554939 GCCATGTCCCAAACATGGTCTTACACTGGCTTACATATCGATGTCGAT
1 GCCATGTCCCAAACATGGTCTTACACTGGATCACATACCGATGTCGAT
* * * *
554987 GCCATGTCCCAGACATGGTCTTATAC-GAGATCGCATGCCGATGTC
1 GCCATGTCCCAAACATGGTCTTACACTG-GATCACATACCGATGTC
555032 ATATTCCACA
Statistics
Matches: 121, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
47 1 0.01
48 46 0.38
49 1 0.01
50 71 0.59
51 2 0.02
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (48 bp):
GCCATGTCCCAAACATGGTCTTACACTGGATCACATACCGATGTCGAT
Found at i:562312 original size:34 final size:34
Alignment explanation
Indices: 562274--562342 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
562264 AATTGATTTC
*
562274 GTATTGAATTCGGAAAGGTATGTTACTTTTGTTG
1 GTATTGAATTCGGAAAGGTATGTTACTTTGGTTG
*
562308 GTATTGAATTGGGAAAGGTATGTTACTTTGGTTG
1 GTATTGAATTCGGAAAGGTATGTTACTTTGGTTG
562342 G
1 G
562343 GTTTGCTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.23, C:0.04, G:0.30, T:0.42
Consensus pattern (34 bp):
GTATTGAATTCGGAAAGGTATGTTACTTTGGTTG
Found at i:568144 original size:24 final size:25
Alignment explanation
Indices: 568117--568163 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
568107 ACTGGTCATA
568117 GAGAGAATTGAGGAG-GAATATTTG
1 GAGAGAATTGAGGAGAGAATATTTG
*
568141 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAGAGAATATT
568164 GAGATTTAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.38, C:0.00, G:0.36, T:0.26
Consensus pattern (25 bp):
GAGAGAATTGAGGAGAGAATATTTG
Found at i:568165 original size:14 final size:14
Alignment explanation
Indices: 568123--568166 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 14
568113 CATAGAGAGA
568123 ATTGAGGAG-GAAT
1 ATTGAGGAGAGAAT
*
568136 ATT-TGGAGAG-AT
1 ATTGAGGAGAGAAT
568148 -TTGAGGAGAGAAT
1 ATTGAGGAGAGAAT
568161 ATTGAG
1 ATTGAG
568167 ATTTAGGGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
11 2 0.08
12 12 0.48
13 6 0.24
14 5 0.20
ACGTcount: A:0.36, C:0.00, G:0.36, T:0.27
Consensus pattern (14 bp):
ATTGAGGAGAGAAT
Found at i:569251 original size:27 final size:27
Alignment explanation
Indices: 568830--569240 Score: 468
Period size: 27 Copynumber: 15.3 Consensus size: 27
568820 AGAGGTCGAT
* ** *
568830 AAATGATCGAAATACCCTAATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
568857 AAATGACCGCAATACCCCCATAGGATA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
568884 AAATGACCGAAATACCCTCATAGGATA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
568911 AAATAACCGAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
568938 AAATGACTGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
568965 AAATGACTGAAATACCTCCATAGCGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* **
568992 GAATGACCGAAATACCCTTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* **
569019 AAATGACCAAAATACCCTTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
** ** *
569046 AAATGA-TTAAAGTATGCCTATAGGGTA
1 AAATGACCGAAA-TACCCCCATAGGGTA
* ** *
569073 GAATGACTAAAATACCCCCGTAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
569100 AAATGACCGAAATA-CCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* ** *
569126 GAATGAATGAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
569153 AAATGACTGAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
569180 AAATGACC-AATATACCCCCATAGGGTA
1 AAATGACCGAA-ATACCCCCATAGGGTA
569207 AAATGACCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
569234 AAATGAC
1 AAATGAC
569241 TGTTATACCC
Statistics
Matches: 331, Mismatches: 48, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
26 27 0.08
27 298 0.90
28 6 0.02
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.20
Consensus pattern (27 bp):
AAATGACCGAAATACCCCCATAGGGTA
Found at i:570011 original size:367 final size:373
Alignment explanation
Indices: 569277--570021 Score: 1358
Period size: 367 Copynumber: 2.0 Consensus size: 373
569267 CTGTTATGGC
569277 ATGATGTTATGACTTATTTGATCTATGATATGTATGGTTGTGATTAAGCATGACATTTTGCATAC
1 ATGATGTTATGACTTATTTGATCTATGATATGTATGGTTGTGATTAAGCATGACATTTTGCATAC
569342 ACGTACGATATTATGTCACGACATATTTCATGGGGATGGGTTGTTATATTTGGAGGAAGTGTACC
66 ACGTACGATATTATGTCACGACATATTTCATGGGGATGGGTTGTTATATTTGGAGGAAGTGTACC
***
569407 GTACTGATAAGGTTGCACGGGTCTTTCAAGACGACTGTGGACCTACTAATGGCTATATGTCGTTT
131 GTACTGATAAGGTTGCACGGGTCGCCCAAGACGACTGTGGACC-ACTAA--GCTATA--TCGTTT
*
569472 ATTTTACTGGCGGCTTTGCTGCGATATTGGTGTGTTGGCTGGGTGGGTTAATTTTATCCCCACAT
191 ATTTTACTGGCGGCTTTGCTGCGATATTGGGGTGTTGGCTGGGTGGGTTAATTTTATCCCCACAT
*
569537 GGTGTGTTGGTGGTATGGAGTGGTGTGTTGACTGGATTGGGATGGGTTGCATTATTGCACTGTAC
256 GGGGTGTTGGTGGTATGGAGTGGTGTGTTGACTGGATTGGGATGGGTTGCATTATTGCACTGTAC
569602 CGATACTGTATTGAGCTAAGGCCCACATTGTTACTGTATTGGGCTAAGGCCCA
321 CGATACTGTATTGAGCTAAGGCCCACATTGTTACTGTATTGGGCTAAGGCCCA
569655 ATGATGTTATGACTTATTTGATCTATGATATGTATGGTTGTGATTAAGCATGACATTTTGCATAC
1 ATGATGTTATGACTTATTTGATCTATGATATGTATGGTTGTGATTAAGCATGACATTTTGCATAC
569720 ACGTACGATATTATGTCACGACATATTTCATGGGGATGGGTTGTTATATTTGGAGGAAGTGTACC
66 ACGTACGATATTATGTCACGACATATTTCATGGGGATGGGTTGTTATATTTGGAGGAAGTGTACC
569785 GTACTGATAAGGTTGCACGGGTCGCCCAAGACGACTGTGGA-C-CT-A-CTA-A-CGTTTATTTT
131 GTACTGATAAGGTTGCACGGGTCGCCCAAGACGACTGTGGACCACTAAGCTATATCGTTTATTTT
569844 ACTGGCGGCTTTGCTGCGATATTGGGGTGTTGGCTGGGTGGGTTAATTTTATCCCCACATGGGGT
196 ACTGGCGGCTTTGCTGCGATATTGGGGTGTTGGCTGGGTGGGTTAATTTTATCCCCACATGGGGT
569909 GTTGGTGGTATGGAGTGGTGTGTTGACTGGATTGGGATGGGTTGCATTATTGCACTGTACCGATA
261 GTTGGTGGTATGGAGTGGTGTGTTGACTGGATTGGGATGGGTTGCATTATTGCACTGTACCGATA
569974 CTGTATTGAGCTAAGGCCCACATTGTTACTGTATTGGGCTAAGGCCCA
326 CTGTATTGAGCTAAGGCCCACATTGTTACTGTATTGGGCTAAGGCCCA
570022 CATTATTACT
Statistics
Matches: 362, Mismatches: 5, Indels: 11
0.96 0.01 0.03
Matches are distributed among these distances:
367 186 0.51
370 1 0.00
371 3 0.01
374 1 0.00
375 2 0.01
377 1 0.00
378 168 0.46
ACGTcount: A:0.21, C:0.15, G:0.29, T:0.35
Consensus pattern (373 bp):
ATGATGTTATGACTTATTTGATCTATGATATGTATGGTTGTGATTAAGCATGACATTTTGCATAC
ACGTACGATATTATGTCACGACATATTTCATGGGGATGGGTTGTTATATTTGGAGGAAGTGTACC
GTACTGATAAGGTTGCACGGGTCGCCCAAGACGACTGTGGACCACTAAGCTATATCGTTTATTTT
ACTGGCGGCTTTGCTGCGATATTGGGGTGTTGGCTGGGTGGGTTAATTTTATCCCCACATGGGGT
GTTGGTGGTATGGAGTGGTGTGTTGACTGGATTGGGATGGGTTGCATTATTGCACTGTACCGATA
CTGTATTGAGCTAAGGCCCACATTGTTACTGTATTGGGCTAAGGCCCA
Found at i:570014 original size:28 final size:28
Alignment explanation
Indices: 569972--570060 Score: 135
Period size: 28 Copynumber: 3.2 Consensus size: 28
569962 ACTGTACCGA
*
569972 TACTGTATTGAGCTAAGGCCCACATTGT
1 TACTGTATTGGGCTAAGGCCCACATTGT
*
570000 TACTGTATTGGGCTAAGGCCCACATTAT
1 TACTGTATTGGGCTAAGGCCCACATTGT
* *
570028 TACTGTATTGGGTTAAGGCCCACACTGT
1 TACTGTATTGGGCTAAGGCCCACATTGT
570056 T-CTGT
1 TACTGT
570061 TACTAAATAG
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 4 0.07
28 52 0.93
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.34
Consensus pattern (28 bp):
TACTGTATTGGGCTAAGGCCCACATTGT
Found at i:570857 original size:82 final size:82
Alignment explanation
Indices: 570760--570926 Score: 246
Period size: 82 Copynumber: 2.0 Consensus size: 82
570750 AATTTTTATC
* *
570760 CAATTTATTTTGGGTTAAATAATAATTATTAATTATATTAT-GAAAGGAGGCCCAGTTGTGCTAA
1 CAATTTATTTTGGGTTAAATAATAATTATTAATTATATTATGGAAA-GAGACCCAATTGTGCTAA
* *
570824 TACGAGAGACTGATCCAA
65 TACAAAAGACTGATCCAA
* *
570842 CAATTTATTTTGGGTTAAATAATTATTATTAATTATATTATGGAAAGAGACCTAATTGTGCTAAT
1 CAATTTATTTTGGGTTAAATAATAATTATTAATTATATTATGGAAAGAGACCCAATTGTGCTAAT
* *
570907 ACAAAATATTGATCCAA
66 ACAAAAGACTGATCCAA
570924 CAA
1 CAA
570927 AGCAATCGGC
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
82 72 0.95
83 4 0.05
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (82 bp):
CAATTTATTTTGGGTTAAATAATAATTATTAATTATATTATGGAAAGAGACCCAATTGTGCTAAT
ACAAAAGACTGATCCAA
Found at i:577209 original size:2 final size:2
Alignment explanation
Indices: 577202--577229 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
577192 CTGAATATTC
577202 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
577230 TTTCCTCCTC
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:577328 original size:46 final size:46
Alignment explanation
Indices: 577275--577367 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
577265 TTATATAATA
*
577275 TGCTTATAAGTAACATTATCTATGATTTTACTATTTACTTGTAAAT
1 TGCTTATAAGTAACATTATCTATGATTCTACTATTTACTTGTAAAT
577321 TGCTTATAAGTAACATTATCTATGATTCTACTATTTACTTGTAAAT
1 TGCTTATAAGTAACATTATCTATGATTCTACTATTTACTTGTAAAT
577367 T
1 T
577368 TATTCAAAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.47
Consensus pattern (46 bp):
TGCTTATAAGTAACATTATCTATGATTCTACTATTTACTTGTAAAT
Found at i:581549 original size:26 final size:27
Alignment explanation
Indices: 581511--581568 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 27
581501 CTTATAATTT
**
581511 AAAGCTGTTAGTAACAATA-ATGTAGC
1 AAAGCTGCCAGTAACAATATATGTAGC
* * *
581537 AAAGCTGCCAGTAATAGTATATGTGGC
1 AAAGCTGCCAGTAACAATATATGTAGC
581564 AAAGC
1 AAAGC
581569 CACCAGTACA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.40, C:0.14, G:0.22, T:0.24
Consensus pattern (27 bp):
AAAGCTGCCAGTAACAATATATGTAGC
Found at i:581754 original size:27 final size:27
Alignment explanation
Indices: 581724--581878 Score: 195
Period size: 27 Copynumber: 5.7 Consensus size: 27
581714 TTCAACTCAT
*
581724 AGAGGTATTTCAGTCATTTTACCCTTC
1 AGAGGTAATTCAGTCATTTTACCCTTC
*
581751 AGAGGTATTTCAGTCATTTTACCCTTC
1 AGAGGTAATTCAGTCATTTTACCCTTC
* * *
581778 AGGGGTATTTCGGTCATTTTACCCTTC
1 AGAGGTAATTCAGTCATTTTACCCTTC
* * * *
581805 GGGGGTAATTCGGTCACTTTACCCTTC
1 AGAGGTAATTCAGTCATTTTACCCTTC
*
581832 AGAGGTAATTCGGTCATTTTACCCTTC
1 AGAGGTAATTCAGTCATTTTACCCTTC
*
581859 A-AGGGTAATTCAATCATTTT
1 AGA-GGTAATTCAGTCATTTT
581879 TTGACCTATC
Statistics
Matches: 117, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
26 1 0.01
27 116 0.99
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39
Consensus pattern (27 bp):
AGAGGTAATTCAGTCATTTTACCCTTC
Found at i:581876 original size:81 final size:81
Alignment explanation
Indices: 581727--581878 Score: 223
Period size: 81 Copynumber: 1.9 Consensus size: 81
581717 AACTCATAGA
* * * * * **
581727 GGTATTTCAGTCATTTTACCCTTCAGAGGTATTTCAGTCATTTTACCCTTCAGGGGTATTTCGGT
1 GGTAATTCAGTCACTTTACCCTTCAGAGGTAATTCAGTCATTTTACCCTTCAAGGGTAATTCAAT
581792 CATTTTACCCTTCGGG
66 CATTTTACCCTTCGGG
* *
581808 GGTAATTCGGTCACTTTACCCTTCAGAGGTAATTCGGTCATTTTACCCTTCAAGGGTAATTCAAT
1 GGTAATTCAGTCACTTTACCCTTCAGAGGTAATTCAGTCATTTTACCCTTCAAGGGTAATTCAAT
581873 CATTTT
66 CATTTT
581879 TTGACCTATC
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 62 1.00
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.39
Consensus pattern (81 bp):
GGTAATTCAGTCACTTTACCCTTCAGAGGTAATTCAGTCATTTTACCCTTCAAGGGTAATTCAAT
CATTTTACCCTTCGGG
Found at i:582634 original size:28 final size:28
Alignment explanation
Indices: 582588--582653 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
582578 TTATACAGTA
* *
582588 ACAGT-ACAGTGTGGTCCTTAGCCCATT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
582615 ACAGTAACAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
582643 ACAGTAACAGT
1 ACAGTAACAGT
582654 ACAATGCAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 5 0.14
28 31 0.86
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (28 bp):
ACAGTAACAGTGTGGGCCTTAGCCCAAT
Found at i:583016 original size:27 final size:27
Alignment explanation
Indices: 582986--583103 Score: 134
Period size: 27 Copynumber: 4.4 Consensus size: 27
582976 AGGGATATAA
* *
582986 CAGTTATTTTACCCTTCGGGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
*
583013 CAGTCATTTTACCCTTCGGGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
*
583040 C-GTTCATTTTACCCTTCGAGGGTAACTT
1 CAG-TCATTTTACCCTTCGAGGGT-ATTT
* *
583068 -GGTCATTTTACCCTTCGAGGGTGATTC
1 CAGTCATTTTACCCTTCGAGGGT-ATTT
583095 CA-TCATTTT
1 CAGTCATTTT
583104 TGACCTCTCA
Statistics
Matches: 80, Mismatches: 7, Indels: 8
0.84 0.07 0.08
Matches are distributed among these distances:
26 1 0.01
27 75 0.94
28 4 0.05
ACGTcount: A:0.16, C:0.22, G:0.20, T:0.42
Consensus pattern (27 bp):
CAGTCATTTTACCCTTCGAGGGTATTT
Found at i:585395 original size:33 final size:31
Alignment explanation
Indices: 585353--585426 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 31
585343 ATACAGTATG
*
585353 CAGTAACAGTACAGTGTAGGCCTTAGCCCATTA
1 CAGTAACAGTACAGTG--GGCCTTAGCCCAATA
585386 CAGTAACAGT---GTGGGCCTTAGCCCAATA
1 CAGTAACAGTACAGTGGGCCTTAGCCCAATA
*
585414 CAGTTACAGTACA
1 CAGTAACAGTACA
585427 ATGCAGTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
28 23 0.64
30 3 0.08
33 10 0.28
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (31 bp):
CAGTAACAGTACAGTGGGCCTTAGCCCAATA
Found at i:585397 original size:28 final size:27
Alignment explanation
Indices: 585358--585423 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 27
585348 GTATGCAGTA
*
585358 ACAGTACAGTGTAGGCCTTAGCCCATT
1 ACAGTACAGTGTAGGCCTTAGCCCAAT
*
585385 ACAGTAACAGTGTGGGCCTTAGCCCAAT
1 ACAGT-ACAGTGTAGGCCTTAGCCCAAT
585413 ACAGTTACAGT
1 ACAG-TACAGT
585424 ACAATGCAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
27 5 0.14
28 29 0.83
29 1 0.03
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (27 bp):
ACAGTACAGTGTAGGCCTTAGCCCAAT
Found at i:585804 original size:27 final size:27
Alignment explanation
Indices: 585761--585900 Score: 165
Period size: 27 Copynumber: 5.2 Consensus size: 27
585751 TATAACACTT
585761 ATTTTACCCTTCGGGGGTATTTCAGTC
1 ATTTTACCCTTCGGGGGTATTTCAGTC
** **
585788 ATTTTACCCTTTTGGGGTATTTTGGTC
1 ATTTTACCCTTCGGGGGTATTTCAGTC
*
585815 ATTTTACCCTTCGGGGGTATTTCATTC
1 ATTTTACCCTTCGGGGGTATTTCAGTC
* * *
585842 ATTTTACCCTTCGAGGGTAATTT-GGTT
1 ATTTTACCCTTCGGGGGT-ATTTCAGTC
* * *
585869 ATTTTACCCTTCGAGGGTAATTAAGTC
1 ATTTTACCCTTCGGGGGTATTTCAGTC
585896 ATTTT
1 ATTTT
585901 TTGACCTCTC
Statistics
Matches: 95, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
26 3 0.03
27 88 0.93
28 4 0.04
ACGTcount: A:0.17, C:0.18, G:0.20, T:0.45
Consensus pattern (27 bp):
ATTTTACCCTTCGGGGGTATTTCAGTC
Found at i:585844 original size:54 final size:54
Alignment explanation
Indices: 585761--585900 Score: 201
Period size: 54 Copynumber: 2.6 Consensus size: 54
585751 TATAACACTT
* *
585761 ATTTTACCCTTCGGGGGTATTTCAGTCATTTTACCCTTTTG-GGGTATTTTGGTC
1 ATTTTACCCTTCGGGGGTATTTCAGTCATTTTACCC-TTCGAGGGTAATTTGGTC
* *
585815 ATTTTACCCTTCGGGGGTATTTCATTCATTTTACCCTTCGAGGGTAATTTGGTT
1 ATTTTACCCTTCGGGGGTATTTCAGTCATTTTACCCTTCGAGGGTAATTTGGTC
* * *
585869 ATTTTACCCTTCGAGGGTAATTAAGTCATTTT
1 ATTTTACCCTTCGGGGGTATTTCAGTCATTTT
585901 TTGACCTCTC
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
53 3 0.04
54 74 0.96
ACGTcount: A:0.17, C:0.18, G:0.20, T:0.45
Consensus pattern (54 bp):
ATTTTACCCTTCGGGGGTATTTCAGTCATTTTACCCTTCGAGGGTAATTTGGTC
Found at i:587176 original size:64 final size:63
Alignment explanation
Indices: 587091--587215 Score: 214
Period size: 64 Copynumber: 2.0 Consensus size: 63
587081 AAACACAGAC
* *
587091 TCCATCAGTAGCTTCCACTGCGCAATCTAGTTCCAAATTAGGTATATGGTCAAACGATGAGCA
1 TCCATCAGTAACTTCCACTGCGCAATCTAGTTCCAAATTAGGTATATGGCCAAACGATGAGCA
*
587154 TCCATCAGTACACTTCCACTGCGCACTCTAGTTCCAAATTAGGTATATGGCCAAACGATGAG
1 TCCATCAGTA-ACTTCCACTGCGCAATCTAGTTCCAAATTAGGTATATGGCCAAACGATGAG
587216 GACACAACTC
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
63 10 0.17
64 48 0.83
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (63 bp):
TCCATCAGTAACTTCCACTGCGCAATCTAGTTCCAAATTAGGTATATGGCCAAACGATGAGCA
Found at i:588328 original size:28 final size:28
Alignment explanation
Indices: 588271--588336 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
588261 CTATATAGTA
* *
588271 ACAGT-ACAGTGTGGGCCTTAGCTCATT
1 ACAGTAACAGTGTGGGCCTTACCTCAAT
*
588298 ACAGTAACAGTGTTGGCCTTAACCT-AAT
1 ACAGTAACAGTGTGGGCCTT-ACCTCAAT
*
588326 ACAGGAACAGT
1 ACAGTAACAGT
588337 ACAATGTAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 5 0.15
28 25 0.76
29 3 0.09
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (28 bp):
ACAGTAACAGTGTGGGCCTTACCTCAAT
Found at i:588700 original size:27 final size:27
Alignment explanation
Indices: 588670--588787 Score: 123
Period size: 27 Copynumber: 4.4 Consensus size: 27
588660 TATAATAGTT
*
588670 ATTTTATCCTTCGAGGGTATTTCGGTC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
** *
588697 ATTTTACCCTTC-AGAGGTATTTCAATT
1 ATTTTACCCTTCGAG-GGTATTTCGGTC
* * *
588724 ATTTTACCCTT-TAGGGGTATTTTGGTT
1 ATTTTACCCTTCGA-GGGTATTTCGGTC
* *
588751 ATTTTACCCTTCGAAGGTAATTCGGTC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
588778 ATTTTACCCT
1 ATTTTACCCT
588788 CTGGGGGTAA
Statistics
Matches: 75, Mismatches: 12, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
26 2 0.03
27 71 0.95
28 2 0.03
ACGTcount: A:0.19, C:0.19, G:0.17, T:0.45
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGGTC
Found at i:588769 original size:54 final size:54
Alignment explanation
Indices: 588684--588801 Score: 139
Period size: 54 Copynumber: 2.2 Consensus size: 54
588674 TATCCTTCGA
* * *
588684 GGGTATTTCGGTCATTTTACCCTTCAGAGGTATTTCAATTATTTTACCCTTTAG
1 GGGTATTTCGGTCATTTTACCCTTCAGAGGTAATTCAATCATTTTACCCTCTAG
* * ** *
588738 GGGTATTTTGGTTATTTTACCCTTC-GAAGGTAATTCGGTCATTTTACCCTCTGG
1 GGGTATTTCGGTCATTTTACCCTTCAG-AGGTAATTCAATCATTTTACCCTCTAG
*
588792 GGGTAATTCG
1 GGGTATTTCG
588802 ATAATTTTTT
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
53 1 0.02
54 52 0.98
ACGTcount: A:0.19, C:0.18, G:0.21, T:0.42
Consensus pattern (54 bp):
GGGTATTTCGGTCATTTTACCCTTCAGAGGTAATTCAATCATTTTACCCTCTAG
Found at i:601130 original size:30 final size:31
Alignment explanation
Indices: 601094--601151 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
601084 TCGAGCTTGA
601094 GGACAAAAAT-GTAATTTTG-CAAAAGTTTTG
1 GGAC-AAAATCGTAATTTTGACAAAAGTTTTG
601124 GGACAAAATCGTAATTTTGACAAAAGTT
1 GGACAAAATCGTAATTTTGACAAAAGTT
601152 GAGTCAAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 5 0.19
30 13 0.50
31 8 0.31
ACGTcount: A:0.41, C:0.09, G:0.19, T:0.31
Consensus pattern (31 bp):
GGACAAAATCGTAATTTTGACAAAAGTTTTG
Found at i:601159 original size:29 final size:28
Alignment explanation
Indices: 601090--601159 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 28
601080 ATTTTCGAGC
601090 TTGAGGACAAAAATGTAATTTTGCAAAAGTT
1 TTGA-GAC-AAAATGTAATTTTGCAAAAG-T
*
601121 TTGGGACAAAATCGTAATTTTGACAAAAG-
1 TTGAGACAAAAT-GTAATTTTG-CAAAAGT
*
601150 TTGAGTCAAA
1 TTGAGACAAA
601160 TCTTGTTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
29 13 0.38
30 12 0.35
31 9 0.26
ACGTcount: A:0.41, C:0.09, G:0.20, T:0.30
Consensus pattern (28 bp):
TTGAGACAAAATGTAATTTTGCAAAAGT
Found at i:601680 original size:51 final size:51
Alignment explanation
Indices: 601620--601959 Score: 323
Period size: 51 Copynumber: 6.7 Consensus size: 51
601610 TATCGATGAA
* * * *
601620 CACATGTGTAGTACTGTGTGAAGGCTACTACATGTATCGATAAATGATGGT
1 CACATGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATGTTGGT
* * * * * *
601671 CACATGTGTAGTACTAAGTGAAAGCTACAATGTGTACCGAGAAGCT-TTGGT
1 CACATGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAA-ATGTTGGT
* * * *
601722 CACATGTGTAGTACTGTGTGACA-GCTACTACGTGAATCGATAAATGATGGT
1 CACATGTGTAGTACTATGTGA-AGGCTACTACGTGTACCGATAAATGTTGGT
* *
601773 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAA-GCTTTGGT
1 CACATGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATG--TTGGT
* * * ** *
601824 CACGTCTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGAT
1 CACATGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATGTTGGT
* * * * ** *
601874 CACGTCTGTAGTACTATGTAAAGGCTACTACGTGAACC-ATAAAACTTGAT
1 CACATGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATGTTGGT
**
601924 CATGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 CACATGTGTAGTACTATGTGAAGGCTACTACGTGTA
601960 TCGAGTGATA
Statistics
Matches: 243, Mismatches: 37, Indels: 19
0.81 0.12 0.06
Matches are distributed among these distances:
49 1 0.00
50 89 0.37
51 151 0.62
52 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.29
Consensus pattern (51 bp):
CACATGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATGTTGGT
Found at i:601800 original size:102 final size:102
Alignment explanation
Indices: 601620--601963 Score: 401
Period size: 102 Copynumber: 3.4 Consensus size: 102
601610 TATCGATGAA
* *
601620 CACATGTGTAGTACTGTGTGAAGGCTACTACATGTATCGATAAATGATGGTCACATGTGTAGTAC
1 CACATGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
*
601685 TAAGTGAAAGCTACAATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAAGCTACAATGTGTACCGAAAAGCTTTGGT
601722 CACATGTGTAGTACTGTGTGACA-GCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTA
1 CACATGTGTAGTACTGTGTGA-AGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTA
* *
601786 CTAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
65 CTAAGTGAAAGCTACAATGTGTACCGAAAAGCTTTGGT
* * * * *** * * *
601824 CACGTCTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGATCACGTCTGTAGTAC
1 CACATGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
* * * * * *
601888 TATGT-AAAGGCTACTACGTGAACC-ATAAAAC-TTGAT
66 TAAGTGAAA-GCTACAATGTGTACCGA-AAAGCTTTGGT
** * *
601924 CATGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 CACATGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGA
601964 GTGATAAAAG
Statistics
Matches: 212, Mismatches: 25, Indels: 11
0.85 0.10 0.04
Matches are distributed among these distances:
100 42 0.20
101 41 0.19
102 128 0.60
103 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (102 bp):
CACATGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
TAAGTGAAAGCTACAATGTGTACCGAAAAGCTTTGGT
Found at i:601890 original size:50 final size:50
Alignment explanation
Indices: 601728--601957 Score: 266
Period size: 50 Copynumber: 4.6 Consensus size: 50
601718 TGGTCACATG
* * *** * * *
601728 TGTAGTACTGTGTGACA-GCTACTACGTGAATCGATAAATGATGGTCACATG
1 TGTAGTACTATGTGA-AGGCTACTACGTGAACCG-TAAAACTTGATCACGTC
* * * *
601779 TGTAGTACTAAGTGAAGGCTACTATGTGTACCG-AAAAGCTTTGGTCACGTC
1 TGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAA-C-TTGATCACGTC
601830 TGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGATCACGTC
1 TGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGATCACGTC
* * * *
601880 TGTAGTACTATGTAAAGGCTACTACGTGAACCATAAAACTTGATCATGTG
1 TGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGATCACGTC
601930 TGTAGTACTATGTGAAGGCTACTACGTG
1 TGTAGTACTATGTGAAGGCTACTACGTG
601958 TATCGAGTGA
Statistics
Matches: 156, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 3 0.02
50 84 0.54
51 65 0.42
52 4 0.03
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.30
Consensus pattern (50 bp):
TGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGATCACGTC
Found at i:602477 original size:76 final size:76
Alignment explanation
Indices: 602380--602531 Score: 304
Period size: 76 Copynumber: 2.0 Consensus size: 76
602370 TCCCCTTTTT
602380 TTAAAAATATATTTTGAGAAGGATATTCGATCATTTAAGTCAATCGAGGAATTGGAATCCAGTAA
1 TTAAAAATATATTTTGAGAAGGATATTCGATCATTTAAGTCAATCGAGGAATTGGAATCCAGTAA
602445 GTTAGGGTTCA
66 GTTAGGGTTCA
602456 TTAAAAATATATTTTGAGAAGGATATTCGATCATTTAAGTCAATCGAGGAATTGGAATCCAGTAA
1 TTAAAAATATATTTTGAGAAGGATATTCGATCATTTAAGTCAATCGAGGAATTGGAATCCAGTAA
602521 GTTAGGGTTCA
66 GTTAGGGTTCA
602532 ATTTCTCGAA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.33
Consensus pattern (76 bp):
TTAAAAATATATTTTGAGAAGGATATTCGATCATTTAAGTCAATCGAGGAATTGGAATCCAGTAA
GTTAGGGTTCA
Found at i:603609 original size:39 final size:39
Alignment explanation
Indices: 603565--603722 Score: 244
Period size: 39 Copynumber: 3.9 Consensus size: 39
603555 TTGAGTAAAA
*
603565 AAAATCTAAATTTGTATTAAATCGAAATCCATTTTAACC
1 AAAATCTAAATTTGTATTAAATCGAAATCCGTTTTAACC
*
603604 AAAATCTAAATTTGTATTAAATCGAAATTCGTTTTAACC
1 AAAATCTAAATTTGTATTAAATCGAAATCCGTTTTAACC
*
603643 TTAAAAAATCTAAATTTGTATTAAATCGAAATTCGTTTTAACC
1 ----AAAATCTAAATTTGTATTAAATCGAAATCCGTTTTAACC
*
603686 AAAATCGAAATTTGTATTAAATCGAAATCCGTTTTAA
1 AAAATCTAAATTTGTATTAAATCGAAATCCGTTTTAA
603723 ACTTGGAGGA
Statistics
Matches: 111, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
39 72 0.65
43 39 0.35
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.37
Consensus pattern (39 bp):
AAAATCTAAATTTGTATTAAATCGAAATCCGTTTTAACC
Found at i:603656 original size:82 final size:82
Alignment explanation
Indices: 603563--603722 Score: 284
Period size: 82 Copynumber: 2.0 Consensus size: 82
603553 TTTTGAGTAA
*
603563 AAAAAATCTAAATTTGTATTAAATCGAAATCCATTTTAACCAAAATCTAAATTTGTATTAAATCG
1 AAAAAATCTAAATTTGTATTAAATCGAAATCCATTTTAACCAAAATCGAAATTTGTATTAAATCG
*
603628 AAATTCGTTTTAACCTT
66 AAATCCGTTTTAACCTT
* *
603645 AAAAAATCTAAATTTGTATTAAATCGAAATTCGTTTTAACCAAAATCGAAATTTGTATTAAATCG
1 AAAAAATCTAAATTTGTATTAAATCGAAATCCATTTTAACCAAAATCGAAATTTGTATTAAATCG
603710 AAATCCGTTTTAA
66 AAATCCGTTTTAA
603723 ACTTGGAGGA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 74 1.00
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.37
Consensus pattern (82 bp):
AAAAAATCTAAATTTGTATTAAATCGAAATCCATTTTAACCAAAATCGAAATTTGTATTAAATCG
AAATCCGTTTTAACCTT
Found at i:603674 original size:17 final size:17
Alignment explanation
Indices: 603648--603713 Score: 60
Period size: 17 Copynumber: 3.6 Consensus size: 17
603638 TAACCTTAAA
*
603648 AAATCTAAATTTGTATT
1 AAATCGAAATTTGTATT
* *
603665 AAATCGAAATTCGTTTT
1 AAATCGAAATTTGTATT
603682 AACCAAAATCGAAATTTGTATT
1 -----AAATCGAAATTTGTATT
603704 AAATCGAAAT
1 AAATCGAAAT
603714 CCGTTTTAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
17 24 0.62
22 15 0.38
ACGTcount: A:0.44, C:0.11, G:0.09, T:0.36
Consensus pattern (17 bp):
AAATCGAAATTTGTATT
Found at i:604667 original size:15 final size:15
Alignment explanation
Indices: 604647--604684 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
604637 GGGCTTGGTT
604647 TTGGGTTTAGGCTAG
1 TTGGGTTTAGGCTAG
*
604662 TTGGGTTTCGGCTAG
1 TTGGGTTTAGGCTAG
604677 TTGGGTTT
1 TTGGGTTT
604685 GGGTTAAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.08, C:0.08, G:0.39, T:0.45
Consensus pattern (15 bp):
TTGGGTTTAGGCTAG
Found at i:605724 original size:87 final size:87
Alignment explanation
Indices: 605231--605680 Score: 900
Period size: 87 Copynumber: 5.2 Consensus size: 87
605221 CCACTGTAAT
605231 CTTAGGGAGATAAGATTACTAGCTTCAATCTGCTCCGCTGCAACTTTAGGGAGATAGGATTGATT
1 CTTAGGGAGATAAGATTACTAGCTTCAATCTGCTCCGCTGCAACTTTAGGGAGATAGGATTGATT
605296 TCTTCTGTCTGCTCCACTACTG
66 TCTTCTGTCTGCTCCACTACTG
605318 CTTAGGGAGATAAGATTACTAGCTTCAATCTGCTCCGCTGCAACTTTAGGGAGATAGGATTGATT
1 CTTAGGGAGATAAGATTACTAGCTTCAATCTGCTCCGCTGCAACTTTAGGGAGATAGGATTGATT
605383 TCTTCTGTCTGCTCCACTACTG
66 TCTTCTGTCTGCTCCACTACTG
605405 CTTAGGGAGATAAGATTACTAGCTTCAATCTGCTCCGCTGCAACTTTAGGGAGATAGGATTGATT
1 CTTAGGGAGATAAGATTACTAGCTTCAATCTGCTCCGCTGCAACTTTAGGGAGATAGGATTGATT
605470 TCTTCTGTCTGCTCCACTACTG
66 TCTTCTGTCTGCTCCACTACTG
605492 CTTAGGGAGATAAGATTACTAGCTTCAATCTGCTCCGCTGCAACTTTAGGGAGATAGGATTGATT
1 CTTAGGGAGATAAGATTACTAGCTTCAATCTGCTCCGCTGCAACTTTAGGGAGATAGGATTGATT
605557 TCTTCTGTCTGCTCCACTACTG
66 TCTTCTGTCTGCTCCACTACTG
605579 CTTAGGGAGATAAGATTACTAGCTTCAATCTGCTCCGCTGCAACTTTAGGGAGATAGGATTGATT
1 CTTAGGGAGATAAGATTACTAGCTTCAATCTGCTCCGCTGCAACTTTAGGGAGATAGGATTGATT
605644 TCTTCTGTCTGCTCCACTACTG
66 TCTTCTGTCTGCTCCACTACTG
605666 CTTAGGGAGATAAGA
1 CTTAGGGAGATAAGA
605681 CTTGTAATTT
Statistics
Matches: 363, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 363 1.00
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (87 bp):
CTTAGGGAGATAAGATTACTAGCTTCAATCTGCTCCGCTGCAACTTTAGGGAGATAGGATTGATT
TCTTCTGTCTGCTCCACTACTG
Found at i:623426 original size:51 final size:51
Alignment explanation
Indices: 623306--623489 Score: 167
Period size: 51 Copynumber: 3.6 Consensus size: 51
623296 AAAGTGATGG
* * *** * * *
623306 TCACATGTGTAGTACTATGTGTAAGCTACTACGTGTACCGGA-A-TGATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATACGTACCAGATAGTAAT-GA
* * *
623356 TCGCATGTGTAGTACTATGTGCAGCCTACTATACGTACCAGATAGT-TTCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATACGTACCAGATAGTAAT-GA
* *** * * *
623407 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATGGTAATGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATACGTACCAGATAGTAATGA
623458 TCACATGTGTAGTACTATGTGCAGGCTACTAT
1 TCACATGTGTAGTACTATGTGCAGGCTACTAT
623490 GTGAACTGAA
Statistics
Matches: 108, Mismatches: 23, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
50 34 0.31
51 72 0.67
52 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.32
Consensus pattern (51 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATACGTACCAGATAGTAATGA
Found at i:623492 original size:26 final size:26
Alignment explanation
Indices: 623412--623492 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
623402 TTCGATCACG
623412 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* * *
623438 CGTGTA-T-CAGATG-GTAATGG-TCAC-A
1 TGTGTAGTAC-TATGTG-CA-GGCT-ACTA
623463 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
623489 TGTG
1 TGTG
623493 AACTGAACAT
Statistics
Matches: 40, Mismatches: 6, Indels: 18
0.62 0.09 0.28
Matches are distributed among these distances:
24 2 0.05
25 16 0.40
26 20 0.50
27 2 0.05
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:623585 original size:45 final size:45
Alignment explanation
Indices: 623499--623586 Score: 133
Period size: 45 Copynumber: 2.0 Consensus size: 45
623489 TGTGAACTGA
* * *
623499 ACATCGTTGATTAGTAAGGTGGTTGCTATGTGCTAATTCCACCGG
1 ACATCCTTGATTAATAAGGTGGTTGCTATGTACTAATTCCACCGG
623544 ACATCCTTGATTAATAAGGTGGTTGCTATGTACTGAA-TCCACC
1 ACATCCTTGATTAATAAGGTGGTTGCTATGTACT-AATTCCACC
623587 AAGTATCTGT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
45 37 0.95
46 2 0.05
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (45 bp):
ACATCCTTGATTAATAAGGTGGTTGCTATGTACTAATTCCACCGG
Found at i:628042 original size:17 final size:16
Alignment explanation
Indices: 628017--628051 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
628007 AACCCTAGTT
* *
628017 TTTCCCTTTTCTTTTC
1 TTTCCCCTTTCCTTTC
628033 TTTCCCCTTTCCTTTC
1 TTTCCCCTTTCCTTTC
628049 TTT
1 TTT
628052 TTTATTCGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTCCCCTTTCCTTTC
Found at i:633759 original size:34 final size:34
Alignment explanation
Indices: 633716--633784 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
633706 GATCTCTTTA
*
633716 CCCAAATGTCATGACATTTGTATCCGATATATTC
1 CCCAAATGTCATGACATTTGTATCCGATACATTC
633750 CCCAAATGTCATGACATTTGTATCCGATACATTC
1 CCCAAATGTCATGACATTTGTATCCGATACATTC
633784 C
1 C
633785 TTATGCTTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (34 bp):
CCCAAATGTCATGACATTTGTATCCGATACATTC
Found at i:641978 original size:130 final size:130
Alignment explanation
Indices: 641745--642022 Score: 538
Period size: 130 Copynumber: 2.1 Consensus size: 130
641735 ATGGCCAAGC
641745 GACACGGCCGTGTGTCCCCTGTAACTTTCAAGGGGTTGTAAGTCAAGCTGTTACACGGTCTAGCA
1 GACACGGCCGTGTGTCCCCTGTAACTTTCAAGGGGTTGTAAGTCAAGCTGTTACACGGTCTAGCA
*
641810 CACGGGTGTGTGGCTTGGCCGTGTGACCCAAGTTAGTGAGTTACACGCGGACGGACAAGTGTTGG
66 CACGGGTGTGTGGCTTGGCCGTGTGACCCAAGTTAGTGAGTTACACGAGGACGGACAAGTGTTGG
641875 GACACGGCCGTGTGTCCCCTGTAACTTTCAAGGGGTTGTAAGTCAAGCTGTTACACGGTCTAGCA
1 GACACGGCCGTGTGTCCCCTGTAACTTTCAAGGGGTTGTAAGTCAAGCTGTTACACGGTCTAGCA
*
641940 CACGGGTGTGTGGCTTGGCCGTGTGACCCAAGTTAGTGAGTTACACGAGGACGGACATGTGTTGG
66 CACGGGTGTGTGGCTTGGCCGTGTGACCCAAGTTAGTGAGTTACACGAGGACGGACAAGTGTTGG
642005 GACACGGCCGTGTGTCCC
1 GACACGGCCGTGTGTCCC
642023 TACTTCGAAT
Statistics
Matches: 146, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
130 146 1.00
ACGTcount: A:0.19, C:0.23, G:0.33, T:0.24
Consensus pattern (130 bp):
GACACGGCCGTGTGTCCCCTGTAACTTTCAAGGGGTTGTAAGTCAAGCTGTTACACGGTCTAGCA
CACGGGTGTGTGGCTTGGCCGTGTGACCCAAGTTAGTGAGTTACACGAGGACGGACAAGTGTTGG
Found at i:643157 original size:15 final size:16
Alignment explanation
Indices: 643137--643167 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
643127 TATAAGCTCG
643137 ACAAATAA-AATAAAA
1 ACAAATAATAATAAAA
643152 ACAAATAATAATAAAA
1 ACAAATAATAATAAAA
643168 GATAGTTTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.16
Consensus pattern (16 bp):
ACAAATAATAATAAAA
Found at i:648760 original size:335 final size:336
Alignment explanation
Indices: 648138--648809 Score: 1337
Period size: 335 Copynumber: 2.0 Consensus size: 336
648128 TATCTCTTTC
648138 GAGCATAAGAGCAACTGACTCTAGGTTGATTAATTAAAATTTTTTTTCTAATTAAAACTCCTATT
1 GAGCATAAGAGCAACTGACTCTAGGTTGATTAATTAAAATTTTTTTTCTAATTAAAACTCCTATT
648203 ATCGCATTAACTCGTTCTATGCATTCCCCTATTAGATTTGACTCTAATTCGGTAGATTTATGTCG
66 ATCGCATTAACTCGTTCTATGCATTCCCCTATTAGATTTGACTCTAATTCGGTAGATTTATGTCG
648268 TCCTATTTCTAGGATTGCATGCAACTCCACCGATTTAAGTATATCAAATATGGATTAATAATCTA
131 TCCTATTTCTAGGATTGCATGCAACTCCACCGATTTAAGTATATCAAATATGGATTAATAATCTA
648333 GAACTATTAAACCAAGAATTAAACACATATAATTAAGAACAAGAAACTTAATATTTATTGCATAA
196 GAACTATTAAACCAAGAATTAAACACATATAATTAAGAACAAGAAACTTAATATTTATTGCATAA
648398 AATAAAAATCAAACAACAAAATACATCATAGGTTCATCTCCCTAGGTATTTAGAAAATAAAAACA
261 AATAAAAATCAAACAACAAAATACATCATAGGTTCATCTCCCTAGGTATTTAGAAAATAAAAACA
648463 TCCAAGATACA
326 TCCAAGATACA
648474 GAGCATAAGAG-AACTGACTCTAGGTTGATTAATTAAAATTTTTTTTCTAATTAAAACTCCTATT
1 GAGCATAAGAGCAACTGACTCTAGGTTGATTAATTAAAATTTTTTTTCTAATTAAAACTCCTATT
648538 ATCGCATTAACTCGTTCTATGCATTCCCCTATTAGATTTGACTCTAATTCGGTAGATTTATGTCG
66 ATCGCATTAACTCGTTCTATGCATTCCCCTATTAGATTTGACTCTAATTCGGTAGATTTATGTCG
648603 TCCTATTTCTAGGATTGCATGCAACTCCACCGATTTAAGTATATCAAATATGGATTAATAATCTA
131 TCCTATTTCTAGGATTGCATGCAACTCCACCGATTTAAGTATATCAAATATGGATTAATAATCTA
648668 GAACTATTAAACCAAGAATTAAACACATATAATTAAGAACAAGAAACTTAATATTTATTGCATAA
196 GAACTATTAAACCAAGAATTAAACACATATAATTAAGAACAAGAAACTTAATATTTATTGCATAA
648733 AATAAAAATCAAACAACAAAATACATCATAGGTTCATCTCCCTAGGTATTTAGAAAATAAAAACA
261 AATAAAAATCAAACAACAAAATACATCATAGGTTCATCTCCCTAGGTATTTAGAAAATAAAAACA
648798 TCCAAGATACA
326 TCCAAGATACA
648809 G
1 G
648810 TATAACCGAA
Statistics
Matches: 336, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
335 325 0.97
336 11 0.03
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (336 bp):
GAGCATAAGAGCAACTGACTCTAGGTTGATTAATTAAAATTTTTTTTCTAATTAAAACTCCTATT
ATCGCATTAACTCGTTCTATGCATTCCCCTATTAGATTTGACTCTAATTCGGTAGATTTATGTCG
TCCTATTTCTAGGATTGCATGCAACTCCACCGATTTAAGTATATCAAATATGGATTAATAATCTA
GAACTATTAAACCAAGAATTAAACACATATAATTAAGAACAAGAAACTTAATATTTATTGCATAA
AATAAAAATCAAACAACAAAATACATCATAGGTTCATCTCCCTAGGTATTTAGAAAATAAAAACA
TCCAAGATACA
Found at i:652721 original size:41 final size:41
Alignment explanation
Indices: 652664--652748 Score: 152
Period size: 41 Copynumber: 2.1 Consensus size: 41
652654 ATCCAATGAG
* *
652664 GTACTAAGTGGGCAATTGTCCCTAACTGTAACTGCACCGGT
1 GTACTAAGCGGGCAATTGTCCCTAACTGTAACTGCACCGAT
652705 GTACTAAGCGGGCAATTGTCCCTAACTGTAACTGCACCGAT
1 GTACTAAGCGGGCAATTGTCCCTAACTGTAACTGCACCGAT
652746 GTA
1 GTA
652749 GTGGGGTGCA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.26
Consensus pattern (41 bp):
GTACTAAGCGGGCAATTGTCCCTAACTGTAACTGCACCGAT
Found at i:653397 original size:14 final size:15
Alignment explanation
Indices: 653369--653403 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
653359 AATTTTAAAG
*
653369 AAAAATGAATGTTGT
1 AAAAATGAATATTGT
653384 AAAAATGAA-ATTGT
1 AAAAATGAATATTGT
653398 AAAAAT
1 AAAAAT
653404 ATTAGTTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (15 bp):
AAAAATGAATATTGT
Found at i:657855 original size:20 final size:20
Alignment explanation
Indices: 657832--657898 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
657822 AAACAAGCTG
657832 CCAGTATTGCAGATAAACTA
1 CCAGTATTGCAGATAAACTA
* * *
657852 CCAGTATTG-TGATCTAACCA
1 CCAGTATTGCAGAT-AAACTA
* *
657872 CCAGTATTGCAGACAAGCTA
1 CCAGTATTGCAGATAAACTA
657892 CCAGTAT
1 CCAGTAT
657899 AGTGGATGTA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
19 3 0.08
20 32 0.86
21 2 0.05
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.25
Consensus pattern (20 bp):
CCAGTATTGCAGATAAACTA
Done.