Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold389
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: 982648
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 3 of 7
Found at i:291564 original size:20 final size:20
Alignment explanation
Indices: 291539--291591 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
291529 TCGATACATT
291539 GTATCGATACATTAGTAAAC
1 GTATCGATACATTAGTAAAC
291559 GTATCGATACATTAGTAAAC
1 GTATCGATACATTAGTAAAC
291579 GTATCGATACATT
1 GTATCGATACATT
291592 GAGCCCAACG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (20 bp):
GTATCGATACATTAGTAAAC
Found at i:294903 original size:13 final size:13
Alignment explanation
Indices: 294885--294909 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
294875 CAATTCATCA
294885 TGTATCGATACAT
1 TGTATCGATACAT
294898 TGTATCGATACA
1 TGTATCGATACA
294910 ATGTGCCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:294929 original size:33 final size:32
Alignment explanation
Indices: 294865--294929 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 32
294855 TTGGAAGCAA
*
294865 TGTATCGATACAATTCATCATGTATCGATACAT
1 TGTATCGATACAATTCA-CATGTATCAATACAT
*
294898 TGTATCGATACAATGTGC-CATGTATTAATACA
1 TGTATCGATACAAT-T-CACATGTATCAATACA
294930 AACAGTGATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 26 0.93
34 1 0.04
35 1 0.04
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAATTCACATGTATCAATACAT
Found at i:294984 original size:20 final size:20
Alignment explanation
Indices: 294959--295011 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
294949 CTGCTAGTTT
* *
294959 CATGTATCGATACAATTGCA
1 CATGTATCGATACAAGTGAA
294979 CATGTATCGATAC-AGTGAA
1 CATGTATCGATACAAGTGAA
*
294998 TATGTATCGATACA
1 CATGTATCGATACA
295012 TCGTATCGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAAGTGAA
Found at i:295023 original size:32 final size:32
Alignment explanation
Indices: 294978--295042 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
294968 ATACAATTGC
**
294978 ACATGTATCGATACAGTGAAT-ATGTATCGAT
1 ACATGTATCGATACAAAGAATAATGTATCGAT
*
295009 ACATCGTATCGATACAAAGCATAATGTATCGAT
1 ACAT-GTATCGATACAAAGAATAATGTATCGAT
295042 A
1 A
295043 TATCTGGGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 4 0.14
32 14 0.48
33 11 0.38
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.29
Consensus pattern (32 bp):
ACATGTATCGATACAAAGAATAATGTATCGAT
Found at i:295637 original size:22 final size:20
Alignment explanation
Indices: 295598--295640 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 20
295588 GGCTCTCATT
*
295598 AAAAAATTTTCCTTTTGATA
1 AAAAAATTTTCCTCTTGATA
295618 AAAAAATTTCTCTCTCTTGATA
1 AAAAAATTT-TC-CTCTTGATA
295640 A
1 A
295641 TCAGTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 2 0.10
22 9 0.45
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.42
Consensus pattern (20 bp):
AAAAAATTTTCCTCTTGATA
Found at i:296319 original size:20 final size:22
Alignment explanation
Indices: 296280--296322 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
296270 GCAGTGGGTG
*
296280 TGGGAGCTGCTCGATTGCGACC
1 TGGGAGCTGCTCGATCGCGACC
296302 TGGGAG-TG-TCGATCGCGACC
1 TGGGAGCTGCTCGATCGCGACC
296322 T
1 T
296323 AGAGGTGGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 12 0.60
21 2 0.10
22 6 0.30
ACGTcount: A:0.14, C:0.26, G:0.37, T:0.23
Consensus pattern (22 bp):
TGGGAGCTGCTCGATCGCGACC
Found at i:296685 original size:21 final size:22
Alignment explanation
Indices: 296639--296688 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
296629 TTTATTAATG
*
296639 AATTTG-A-TGAAAAATGAAGT
1 AATTTGAAGTGAAAAATGAAGA
*
296659 ATTTTGAAGTGAAAAAT-AAGA
1 AATTTGAAGTGAAAAATGAAGA
296680 AATTTGAAG
1 AATTTGAAG
296689 AAGATTTGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 5 0.20
21 12 0.48
22 8 0.32
ACGTcount: A:0.50, C:0.00, G:0.20, T:0.30
Consensus pattern (22 bp):
AATTTGAAGTGAAAAATGAAGA
Found at i:296814 original size:13 final size:13
Alignment explanation
Indices: 296796--296822 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
296786 ATAGTAACTC
296796 ATGTATCGATACA
1 ATGTATCGATACA
296809 ATGTATCGATACA
1 ATGTATCGATACA
296822 A
1 A
296823 AGAATATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:302358 original size:13 final size:13
Alignment explanation
Indices: 302340--302364 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
302330 CATTTTATGG
302340 TGTATCGATACAA
1 TGTATCGATACAA
302353 TGTATCGATACA
1 TGTATCGATACA
302365 TACTATGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:302380 original size:32 final size:33
Alignment explanation
Indices: 302317--302384 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
302307 CGTTACAAGC
**
302317 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
302350 CAATGTATCGATACATACTAT-GTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
302382 CAA
1 CAA
302385 GTTTGGCTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 14 0.42
33 19 0.58
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGGTGTATCGATA
Found at i:302463 original size:20 final size:20
Alignment explanation
Indices: 302415--302468 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
302405 TGCCAATGAC
**
302415 CTGTATCGATACATCTTTTT
1 CTGTATCGATACATCTTGGT
302435 CTAGTATCGATACAT-TTGGT
1 CT-GTATCGATACATCTTGGT
302455 CATGTATCGATACA
1 C-TGTATCGATACA
302469 ATGTATCGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.41
Consensus pattern (20 bp):
CTGTATCGATACATCTTGGT
Found at i:302474 original size:13 final size:13
Alignment explanation
Indices: 302456--302480 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
302446 ACATTTGGTC
302456 ATGTATCGATACA
1 ATGTATCGATACA
302469 ATGTATCGATAC
1 ATGTATCGATAC
302481 TATGCAACAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:304481 original size:21 final size:21
Alignment explanation
Indices: 304450--304501 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
304440 GTAGCTAGTG
*
304450 TGGGGGCTGCCCGGTTGCGACC
1 TGGGGG-TGCCCGGTCGCGACC
*
304472 TGGGGGTG-CCGGTCGTGACC
1 TGGGGGTGCCCGGTCGCGACC
304492 TGGTGGGTGC
1 TGG-GGGTGC
304502 TGCCTAAGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 13 0.50
21 7 0.27
22 6 0.23
ACGTcount: A:0.04, C:0.25, G:0.50, T:0.21
Consensus pattern (21 bp):
TGGGGGTGCCCGGTCGCGACC
Found at i:311119 original size:13 final size:13
Alignment explanation
Indices: 311101--311125 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
311091 CATTTTATGG
311101 TGTATCGATACAA
1 TGTATCGATACAA
311114 TGTATCGATACA
1 TGTATCGATACA
311126 TACTATGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:311141 original size:32 final size:33
Alignment explanation
Indices: 311078--311145 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
311068 CGTTACAAGC
**
311078 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
311111 CAATGTATCGATACATACTAT-GTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
311143 CAA
1 CAA
311146 GTTTGGCTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 14 0.42
33 19 0.58
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGGTGTATCGATA
Found at i:311235 original size:13 final size:13
Alignment explanation
Indices: 311217--311241 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
311207 ACATTTGGTC
311217 ATGTATCGATACA
1 ATGTATCGATACA
311230 ATGTATCGATAC
1 ATGTATCGATAC
311242 TATGCAACAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:314950 original size:37 final size:37
Alignment explanation
Indices: 314872--315084 Score: 144
Period size: 37 Copynumber: 5.7 Consensus size: 37
314862 CACAGGTTAG
* * * *
314872 AACAAAAATCACTATTCTTACTGAT-AGCACGGGTAGG
1 AACAAAAATCACTATTCTTACCGGTGA-CACGGGTCGA
* ** *
314909 AACAAAAATCAGTATTCTTATTGGTGACACGGGTCTA
1 AACAAAAATCACTATTCTTACCGGTGACACGGGTCGA
* * * * * *
314946 AACAAAAACCACAATTCTTAATCGGTGGCACAGTTCGA
1 AACAAAAATCACTATTCTT-ACCGGTGACACGGGTCGA
* * *
314984 AACAAAAATCGCTATTCTTAACCGGTGGCAC-GGTTGA
1 AACAAAAATCACTATTCTT-ACCGGTGACACGGGTCGA
* ** * **
315021 AACAAAAATCATTATTCTTAACCAATGACAC-AGTTAA
1 AACAAAAATCACTATTCTT-ACCGGTGACACGGGTCGA
*
315058 AACAAAAACCACTATTCTTAACCGGTG
1 AACAAAAATCACTATTCTT-ACCGGTG
315085 GCAAGGTTGA
Statistics
Matches: 143, Mismatches: 31, Indels: 4
0.80 0.17 0.02
Matches are distributed among these distances:
37 102 0.71
38 41 0.29
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.25
Consensus pattern (37 bp):
AACAAAAATCACTATTCTTACCGGTGACACGGGTCGA
Found at i:314993 original size:112 final size:112
Alignment explanation
Indices: 314833--315092 Score: 269
Period size: 112 Copynumber: 2.3 Consensus size: 112
314823 GCACAGTTCG
** * *
314833 AAACAAAAATTACAATTTTTAACCGATGGCACAGGTTAGAACAAAAATCACTATTCTT-ACTGAT
1 AAACAAAAACCACAATTCTTAACCGATGGCACAGGTTAGAACAAAAATCACTATTCTTAACCGAT
*
314897 AGCACGGGTAGGAACAAAAATCAGTATTCTTATTGGTGACACGGGTCT
66 AGCAC-GGTAGAAACAAAAATCAGTATTCTTATTGGTGACACGGGTCT
* * * * *
314945 AAACAAAAACCACAATTCTTAATCGGTGGCACA-GTTCGAAACAAAAATCGCTATTCTTAACCGG
1 AAACAAAAACCACAATTCTTAACCGATGGCACAGGTTAG-AACAAAAATCACTATTCTTAACCGA
* * * **** *
315009 TGGCACGGTTGAAACAAAAATCATTATTCTTAACCAATGACAC-AGT-T
65 TAGCACGGTAGAAACAAAAATCAGTATTCTT-ATTGGTGACACGGGTCT
* *
315056 AAAACAAAAACCACTATTCTTAACCGGTGGCA-AGGTT
1 -AAACAAAAACCACAATTCTTAACCGATGGCACAGGTT
315093 GAAATCAAAT
Statistics
Matches: 123, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
111 6 0.05
112 102 0.83
113 15 0.12
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (112 bp):
AAACAAAAACCACAATTCTTAACCGATGGCACAGGTTAGAACAAAAATCACTATTCTTAACCGAT
AGCACGGTAGAAACAAAAATCAGTATTCTTATTGGTGACACGGGTCT
Found at i:318359 original size:52 final size:52
Alignment explanation
Indices: 318267--318395 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
318257 CAAAATATGA
* *
318267 AAATTTACCTGCATGTATCGATACATTTAATAGTGCATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGCATCGATACATCTGGGC
* * *
318319 AAGTTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGCATCGATACATCTGGGC
318371 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
318396 AAGATCAGTG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGCATCGATACATCTGGGC
Found at i:318408 original size:52 final size:51
Alignment explanation
Indices: 318267--318415 Score: 201
Period size: 52 Copynumber: 2.9 Consensus size: 51
318257 CAAAATATGA
* *
318267 AAATTTACCTGCATGTATCGATACATTTAATAGTGCATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* * *
318319 AAGTTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
318371 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
318416 ATGTATCGAT
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
51 2 0.02
52 84 0.98
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:318422 original size:13 final size:13
Alignment explanation
Indices: 318404--318428 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
318394 CAAAGATCAG
318404 TGTATCGATACAA
1 TGTATCGATACAA
318417 TGTATCGATACA
1 TGTATCGATACA
318429 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:318508 original size:13 final size:13
Alignment explanation
Indices: 318490--318515 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
318480 ACAAAAAAAT
318490 TTGTATCGATACA
1 TTGTATCGATACA
318503 TTGTATCGATACA
1 TTGTATCGATACA
318516 ACACTTTATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:319539 original size:92 final size:92
Alignment explanation
Indices: 319379--319659 Score: 472
Period size: 92 Copynumber: 3.0 Consensus size: 92
319369 GTTAAAGATG
* *
319379 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGATGGTGCCAATATGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCT
*
319444 GATTCAAGGCCAACGATATTGGACTTA
66 GATTCAAGGCCAGCGATATTGGACTTA
* *
319471 AATGTGCCAATGTGCTGATTCAAGGCCAACTACATTGGACTTAAAGATGAAGGTGCCAATATGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCT
*
319536 GATTCAAGGCCAGCGATATTAGACTTA
66 GATTCAAGGCCAGCGATATTGGACTTA
*
319563 AAGGTGCCAATGTGCTAATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCT
* *
319628 GATTCAAGGCCAGCTATATTGGGCTTA
66 GATTCAAGGCCAGCGATATTGGACTTA
319655 GAAGG
1 -AAGG
319660 GTTGCCACCG
Statistics
Matches: 176, Mismatches: 12, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
92 172 0.98
93 4 0.02
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (92 bp):
AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCT
GATTCAAGGCCAGCGATATTGGACTTA
Found at i:319649 original size:49 final size:49
Alignment explanation
Indices: 319370--319641 Score: 352
Period size: 49 Copynumber: 5.8 Consensus size: 49
319360 CTTAGGAATG
*
319370 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* * *
319419 TTAAAGATGATGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* * *
319468 TT-AA-AT----GTGCCAATGTGCTGATTCAAGGCCAACTACATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* *
319511 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* * *
319560 TT----A--AAGGTGCCAATGTGCTAATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
319603 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGC
319642 TATATTGGGC
Statistics
Matches: 192, Mismatches: 19, Indels: 24
0.82 0.08 0.10
Matches are distributed among these distances:
43 73 0.38
44 2 0.01
45 3 0.02
47 3 0.02
48 2 0.01
49 109 0.57
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (49 bp):
TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
Found at i:319733 original size:32 final size:33
Alignment explanation
Indices: 319654--319855 Score: 322
Period size: 32 Copynumber: 6.2 Consensus size: 33
319644 TATTGGGCTT
319654 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
319687 AGAATGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
319720 AG-AGGGTTGCCACCGACTTGTGTAGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
319751 AGAAAGGTTGCCACCGACTTATGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
319784 AG-AGGGTTGCCACCGACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
319815 AGAAAGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
319848 AGAAGGGT
1 AGAAGGGT
319856 GAAAGATGCC
Statistics
Matches: 153, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
31 6 0.04
32 103 0.67
33 44 0.29
ACGTcount: A:0.20, C:0.18, G:0.35, T:0.28
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:320007 original size:34 final size:33
Alignment explanation
Indices: 319857--320581 Score: 370
Period size: 34 Copynumber: 22.8 Consensus size: 33
319847 GAGAAGGGTG
* * *
319857 AAAGA-TGCCATGAAGTTGTGGACTTAAAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTAGAA-GAA
* * * *
319890 CAAG-GTGCCATGAAGTTGTGGACTTTAAAAGGGAA
1 AAAGAGTGCCACGGAGTTGTGGAC-TTAGAA--GAA
* * *
319925 AAAGAGTGCCACAGAGTTGTGGGCTTTGAA-AA
1 AAAGAGTGCCACGGAGTTGTGGACTTAGAAGAA
*
319957 GAAG-GTGCCACGGAGTTGTGGACTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTAGAA-GAA
* * *
319990 AAAGAGTGCCACAGAGTTGTGGGCTTTGAA-AA
1 AAAGAGTGCCACGGAGTTGTGGACTTAGAAGAA
* **
320022 GAAG-GTGCCACGGAGTCATGGACTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTAGAA-GAA
* * * *
320055 CAAG-GTGCCACGGGGTTGTGGACTTTAAAAGGGGA
1 AAAGAGTGCCACGGAGTTGTGGAC-TTAGAA--GAA
* *
320090 AAAGAGTGCCACGGAGTTGTGGGCTT-----TA
1 AAAGAGTGCCACGGAGTTGTGGACTTAGAAGAA
* *
320118 AAAGGGTGCCACAGAGTTGTGGACTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTAGAA-GAA
* *
320152 AAAGAGTGCCACAGAGTTGTGGGCTT------A
1 AAAGAGTGCCACGGAGTTGTGGACTTAGAAGAA
*
320179 AAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTAGAA-GAA
*
320213 AAAGAGTGCCACGGAGTTGTGGGCTT------A
1 AAAGAGTGCCACGGAGTTGTGGACTTAGAAGAA
* * *
320240 AAAGGGTGCCACGAAATTGTGGACTTAGAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTAG--AAGAA
* * *
320275 AAAG-GTGCCACGGAGTCGTGGGCTTAAAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTAGAA-GAA
* *
320308 AAAGAGTGCCACGAAATTGTAGG-CTTTAG-AG-A
1 AAAGAGTGCCACGGAGTTGT-GGAC-TTAGAAGAA
* *
320340 AAAGA-TGCCACTGAGTCGTGGACTCT-G--GAA
1 AAAGAGTGCCACGGAGTTGTGGACT-TAGAAGAA
* * *
320370 AGAGA-TGCCACTGAGTTGTGGGCTT------A
1 AAAGAGTGCCACGGAGTTGTGGACTTAGAAGAA
* * * * *
320396 AAAGGGTGCCACAGAGTTATGGACTTAAAAGGA
1 AAAGAGTGCCACGGAGTTGTGGACTTAGAAGAA
* * *
320429 AAAGAGTGCCACGGAGTTGTGGGCTTTGCAGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTAGAAGAA
* ** * *
320462 AAGGA-TGCCACTAAGTCGTGGACTTTG-AGACA
1 AAAGAGTGCCACGGAGTTGTGGACTTAGAAGA-A
* * *
320494 AAAGA-TGCCACTGAGTCGTGGACTTTGAAGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTAGAAGAA
* ** * *
320526 AATGA-TGCCACTAAGTCGTGGACTTTG-AG-A
1 AAAGAGTGCCACGGAGTTGTGGACTTAGAAGAA
* * * *
320556 AGAGATTGCCACTGAGTCGTGGACTT
1 AAAGAGTGCCACGGAGTTGTGGACTT
320582 TAAGAAGGTA
Statistics
Matches: 554, Mismatches: 88, Indels: 102
0.74 0.12 0.14
Matches are distributed among these distances:
26 4 0.01
27 64 0.12
28 24 0.04
29 2 0.00
30 30 0.05
31 78 0.14
32 88 0.16
33 88 0.16
34 115 0.21
35 29 0.05
36 32 0.06
ACGTcount: A:0.32, C:0.14, G:0.33, T:0.21
Consensus pattern (33 bp):
AAAGAGTGCCACGGAGTTGTGGACTTAGAAGAA
Found at i:320064 original size:165 final size:158
Alignment explanation
Indices: 319875--320245 Score: 564
Period size: 165 Copynumber: 2.3 Consensus size: 158
319865 CATGAAGTTG
* * *
319875 TGGACTTAAAAGGAACAAGGTGCCATGAAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACAGA
1 TGGACTTAGAAGGAACAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACAGA
*
319940 GTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGA
66 GTTGTGGGCTTT-AAAAG--GGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGA
320005 GTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCA
128 GTTGTGGGC-TT-AAAAG--GGTGCCACGGAGTCA
* * *
320040 TGGACTTAGAAGGAACAAGGTGCCACGGGGTTGTGGACTTTAAAAGGGGAAAAGAGTGCCACGGA
1 TGGACTTAGAAGGAACAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACAGA
320105 GTTGTGGGCTTTAAAAGGGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTT
66 GTTGTGGGCTTTAAAAGGGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTT
**
320170 GTGGGCTTAAAAGGGTGCCACGGAGTTG
131 GTGGGCTTAAAAGGGTGCCACGGAGTCA
* *
320198 TGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGC-TTAAAAGGG
1 TGGACTTAGAAGGAACAAG-GTGCCACGGAGTTGTGGACTTTAAAAGGG
320246 TGCCACGAAA
Statistics
Matches: 193, Mismatches: 12, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
158 40 0.21
159 17 0.09
160 5 0.03
161 2 0.01
162 53 0.27
164 5 0.03
165 71 0.37
ACGTcount: A:0.32, C:0.13, G:0.35, T:0.20
Consensus pattern (158 bp):
TGGACTTAGAAGGAACAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACAGA
GTTGTGGGCTTTAAAAGGGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTT
GTGGGCTTAAAAGGGTGCCACGGAGTCA
Found at i:320075 original size:98 final size:95
Alignment explanation
Indices: 319924--320183 Score: 308
Period size: 98 Copynumber: 2.7 Consensus size: 95
319914 TTAAAAGGGA
* ** * * * *
319924 AAAAGAGTGCCACAGAGTTGTGGGCTTTGAA--AAGAAGGTGCCACGGAGTTGTGGACTTAGAAG
1 AAAAGGGTGCCACAGAGTCATGGACTTAGAAGGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAG
319987 GAAAAAGAGTGCCACAGAGTTGTGGGCTTT
66 GAAAAAGAGTGCCACAGAGTTGTGGGCTTT
* * *
320017 GAAAAGAAGGTGCCACGGAGTCATGGACTTAGAAGGAACAAGGTGCCACGGGGTTGTGGACTTTA
1 -AAAAG--GGTGCCACAGAGTCATGGACTTAGAAGGAAAAAGGTGCCACGGAGTTGTGGAC-TTA
* *
320082 AAAGGGGAAAAGAGTGCCACGGAGTTGTGGGCTTT
62 AAA-GGAAAAAGAGTGCCACAGAGTTGTGGGCTTT
** * *
320117 AAAAGGGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTAAAA
1 AAAAGGGTGCCACAGAGTCATGGACTTAGAAGGAAAAAG-GTGCCACGGAGTTGTGGACTTAAAA
320182 GG
65 GG
320184 GTGCCACGGA
Statistics
Matches: 141, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
94 5 0.04
96 22 0.16
97 36 0.26
98 39 0.28
99 10 0.07
100 29 0.21
ACGTcount: A:0.32, C:0.13, G:0.35, T:0.20
Consensus pattern (95 bp):
AAAAGGGTGCCACAGAGTCATGGACTTAGAAGGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAG
GAAAAAGAGTGCCACAGAGTTGTGGGCTTT
Found at i:320189 original size:27 final size:27
Alignment explanation
Indices: 320151--320454 Score: 113
Period size: 27 Copynumber: 10.0 Consensus size: 27
320141 CTTAGAAGGA
*
320151 AAAAGAGTGCCACAGAGTTGTGGGCTT
1 AAAAGAGTGCCACGGAGTTGTGGGCTT
* *
320178 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGAGTGCCACGGAGTTGTGGGCTT
320205 AGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 -------AAAAGAGTGCCACGGAGTTGTGGGCTT
* * * *
320239 AAAAGGGTGCCACGAAATTGTGGACTT
1 AAAAGAGTGCCACGGAGTTGTGGGCTT
*
320266 AGAAAAGAAAAAGGTGCCACGGAGTCGTGGGCTT
1 --AAAAG----A-GTGCCACGGAGTTGTGGGCTT
* * *
320300 AAAAGGAAAAAGAGTGCCACGAAATTGTAGGCTTT
1 -------AAAAGAGTGCCACGGAGTTGTGGGC-TT
* * * *
320335 AGAGAAAAGATGCCACTGAGTCGTGGACTCT
1 A-A-AAGAG-TGCCACGGAGTTGTGGGCT-T
* *
320366 GGAAAGAGATGCCACTGAGTTGTGGGCTT
1 -AAAAGAG-TGCCACGGAGTTGTGGGCTT
* * * *
320395 AAAAGGGTGCCACAGAGTTATGGACTT
1 AAAAGAGTGCCACGGAGTTGTGGGCTT
320422 AAAAGGAAAAGAGTGCCACGGAGTTGTGGGCTT
1 ------AAAAGAGTGCCACGGAGTTGTGGGCTT
320455 TGCAGAAAAG
Statistics
Matches: 206, Mismatches: 40, Indels: 56
0.68 0.13 0.19
Matches are distributed among these distances:
27 64 0.31
28 6 0.03
29 7 0.03
30 27 0.13
31 14 0.07
33 23 0.11
34 57 0.28
35 3 0.01
39 5 0.02
ACGTcount: A:0.33, C:0.14, G:0.33, T:0.20
Consensus pattern (27 bp):
AAAAGAGTGCCACGGAGTTGTGGGCTT
Found at i:320189 original size:61 final size:61
Alignment explanation
Indices: 320058--320305 Score: 372
Period size: 61 Copynumber: 4.0 Consensus size: 61
320048 GAAGGAACAA
* * *
320058 GGTGCCACGGGGTTGTGGACTTTAAAAGGGGAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAG
1 GGTGCCACGGAGTTGTGGAC-TTAGAA-GGAAAAAGAGTGCCACGGAGTTGTGGGC-TTAAAAG
* *
320122 GGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAG
320183 GGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAG
* * * *
320244 GGTGCCACGAAATTGTGGACTTAGAAAAGAAAAAG-GTGCCACGGAGTCGTGGGCTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAG-AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAG
320305 G
1 G
320306 AAAAAGAGTG
Statistics
Matches: 172, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
61 114 0.66
62 35 0.20
63 5 0.03
64 18 0.10
ACGTcount: A:0.31, C:0.13, G:0.36, T:0.20
Consensus pattern (61 bp):
GGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAG
Found at i:320379 original size:156 final size:153
Alignment explanation
Indices: 320213--320517 Score: 402
Period size: 154 Copynumber: 2.0 Consensus size: 153
320203 TTAGAAGGAA
*
320213 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCAC-GAAATTGTGGACTTAGAAAAGAAAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACAG-AATTATGGACTT--AAAAGAAAA
* *
320277 AG-GTGCCACGGAGTCGTGGGCTTAAAAGGAAAAAGAGTGCCACGAAATTGTAGG-CTTT-AGAG
63 AGAGTGCCACGGAGTCGTGGGCTTAAAA-GAAAAAGA-TGCCACGAAATCGT-GGACTTTGAGAC
320339 AAAAGATGCCACTGAGTCGTGGACTCTGG
125 AAAAGATGCCACTGAGTCGTGGACTCTGG
* * *
320368 AAAGAGATGCCACTGAGTTGTGGGCTTAAAAGGGTGCCACAGAGTTATGGACTTAAAAGGAAAAG
1 AAAGAG-TGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACAGAATTATGGACTTAAAAGAAAAAG
* *** * * *
320433 AGTGCCACGGAGTTGTGGGCTTTGCAGAAAAGGATGCCACTAAGTCGTGGACTTTGAGACAAAAG
65 AGTGCCACGGAGTCGTGGGCTTAAAAGAAAAAGATGCCACGAAATCGTGGACTTTGAGACAAAAG
320498 ATGCCACTGAGTCGTGGACT
130 ATGCCACTGAGTCGTGGACT
320518 TTGAAGAAAA
Statistics
Matches: 132, Mismatches: 13, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
152 2 0.02
153 15 0.11
154 45 0.34
155 27 0.20
156 42 0.32
157 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.32, T:0.20
Consensus pattern (153 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACAGAATTATGGACTTAAAAGAAAAAGA
GTGCCACGGAGTCGTGGGCTTAAAAGAAAAAGATGCCACGAAATCGTGGACTTTGAGACAAAAGA
TGCCACTGAGTCGTGGACTCTGG
Found at i:320404 original size:122 final size:124
Alignment explanation
Indices: 320273--320514 Score: 330
Period size: 122 Copynumber: 2.0 Consensus size: 124
320263 CTTAGAAAAG
* * *
320273 AAAAAGGTGCCACGGAGTCGTGGGCTTAAAAGGAAAAAGAGTGCCACGAAATTGTAGGCTTTAG-
1 AAAAAGGTGCCACAGAGTCATGGACTTAAAAGG-AAAAGAGTGCCACGAAATTGTAGGCTTT-GC
* * *
320337 AGAAAA-GATGCCACTGAGTCGTGGACTCTG-GA-AAGAGATGCCACTGAGTTGTGGGCTT
64 AGAAAAGGATGCCACTAAGTCGTGGACTCTGAGACAAAAGATGCCACTGAGTCGTGGGCTT
* * * * *
320395 AAAAGGGTGCCACAGAGTTATGGACTTAAAAGGAAAAGAGTGCCACGGAGTTGTGGGCTTTGCAG
1 AAAAAGGTGCCACAGAGTCATGGACTTAAAAGGAAAAGAGTGCCACGAAATTGTAGGCTTTGCAG
*
320460 AAAAGGATGCCACTAAGTCGTGGACTTTGAGACAAAAGATGCCACTGAGTCGTGG
66 AAAAGGATGCCACTAAGTCGTGGACTCTGAGACAAAAGATGCCACTGAGTCGTGG
320515 ACTTTGAAGA
Statistics
Matches: 104, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
120 1 0.01
121 31 0.30
122 50 0.48
123 2 0.02
124 20 0.19
ACGTcount: A:0.32, C:0.16, G:0.32, T:0.20
Consensus pattern (124 bp):
AAAAAGGTGCCACAGAGTCATGGACTTAAAAGGAAAAGAGTGCCACGAAATTGTAGGCTTTGCAG
AAAAGGATGCCACTAAGTCGTGGACTCTGAGACAAAAGATGCCACTGAGTCGTGGGCTT
Found at i:320574 original size:31 final size:30
Alignment explanation
Indices: 320331--320587 Score: 225
Period size: 32 Copynumber: 8.3 Consensus size: 30
320321 AAATTGTAGG
320331 CTTTAGAGAAAAGATGCCACTGAGTCGTGGA
1 CTTT-GAGAAAAGATGCCACTGAGTCGTGGA
* * *
320362 CTCTG-GAAAGAGATGCCACTGAGTTGTGGG
1 CTTTGAGAAA-AGATGCCACTGAGTCGTGGA
* * * **
320392 C-TT-A-AAAGGGTGCCACAGAGTTATGGA
1 CTTTGAGAAAAGATGCCACTGAGTCGTGGA
** * * *
320419 CTTAAAAGGAAAAGAGTGCCACGGAGTTGTGGG
1 CTT-TGA-GAAAAGA-TGCCACTGAGTCGTGGA
*
320452 CTTTGCAGAAAAGGATGCCACTAAGTCGTGGA
1 CTTTG-AGAAAA-GATGCCACTGAGTCGTGGA
320484 CTTTGAGACAAAAGATGCCACTGAGTCGTGGA
1 CTTTGAG--AAAAGATGCCACTGAGTCGTGGA
*
320516 CTTTGAAGAAAATGATGCCACTAAGTCGTGGA
1 CTTTG-AGAAAA-GATGCCACTGAGTCGTGGA
*
320548 CTTTGAGAAGAGATTGCCACTGAGTCGTGGA
1 CTTTGAGAAAAGA-TGCCACTGAGTCGTGGA
*
320579 CTTTAAGAA
1 CTTTGAGAA
320588 GGTATTTGAA
Statistics
Matches: 185, Mismatches: 26, Indels: 30
0.77 0.11 0.12
Matches are distributed among these distances:
27 16 0.09
28 4 0.02
29 5 0.03
30 23 0.12
31 38 0.21
32 73 0.39
33 26 0.14
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (30 bp):
CTTTGAGAAAAGATGCCACTGAGTCGTGGA
Found at i:328751 original size:52 final size:52
Alignment explanation
Indices: 328673--328801 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
328663 CGAAATATGA
* *
328673 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
*
328725 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
328777 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
328802 ATGTATCGAT
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
Found at i:328807 original size:13 final size:13
Alignment explanation
Indices: 328789--328814 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
328779 ATTTGCCTGC
328789 ATGTATCGATACA
1 ATGTATCGATACA
328802 ATGTATCGATACA
1 ATGTATCGATACA
328815 TTTGAGTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:328892 original size:33 final size:33
Alignment explanation
Indices: 328855--328921 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
328845 AGTAGCTTAA
328855 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
328888 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
328921 A
1 A
328922 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:328895 original size:13 final size:13
Alignment explanation
Indices: 328877--328901 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
328867 CAAAAAAATA
328877 TGTATCGATACAT
1 TGTATCGATACAT
328890 TGTATCGATACA
1 TGTATCGATACA
328902 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:334010 original size:52 final size:52
Alignment explanation
Indices: 333932--334080 Score: 228
Period size: 52 Copynumber: 2.9 Consensus size: 52
333922 CGAAATATGA
* *
333932 AAATTTGCCTGCATGTATTGATACATTTCATAGTGTTTCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
333984 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* * *
334036 AAATTTTCCTGCATGTATCGATACA-ATGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTTCAT-AGTGTATCGATACA
334081 ATGTATCGAT
Statistics
Matches: 89, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
51 3 0.03
52 86 0.97
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:334087 original size:13 final size:13
Alignment explanation
Indices: 334069--334093 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
334059 CAATGATCAG
334069 TGTATCGATACAA
1 TGTATCGATACAA
334082 TGTATCGATACA
1 TGTATCGATACA
334094 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:334106 original size:21 final size:21
Alignment explanation
Indices: 334080--334138 Score: 118
Period size: 21 Copynumber: 2.8 Consensus size: 21
334070 GTATCGATAC
334080 AATGTATCGATACATTTGAGT
1 AATGTATCGATACATTTGAGT
334101 AATGTATCGATACATTTGAGT
1 AATGTATCGATACATTTGAGT
334122 AATGTATCGATACATTT
1 AATGTATCGATACATTT
334139 TCTTGGCAGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (21 bp):
AATGTATCGATACATTTGAGT
Found at i:334200 original size:32 final size:33
Alignment explanation
Indices: 334155--334244 Score: 132
Period size: 32 Copynumber: 2.8 Consensus size: 33
334145 CAGTAGCTTC
*
334155 GTAG-CGATACATTGTAACGATACAAAACTTAT
1 GTAGTCGATACATTGTATCGATACAAAACTTAT
*
334187 GTA-TCGATACATTGTATCGATACAACACTTAT
1 GTAGTCGATACATTGTATCGATACAAAACTTAT
*
334219 GTAGT-GATACATTGTATTGATACAAA
1 GTAGTCGATACATTGTATCGATACAAA
334245 TCATTGAAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
32 51 0.98
33 1 0.02
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (33 bp):
GTAGTCGATACATTGTATCGATACAAAACTTAT
Found at i:334204 original size:13 final size:13
Alignment explanation
Indices: 334186--334210 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
334176 ACAAAACTTA
334186 TGTATCGATACAT
1 TGTATCGATACAT
334199 TGTATCGATACA
1 TGTATCGATACA
334211 ACACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:337242 original size:3 final size:3
Alignment explanation
Indices: 337234--337271 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
337224 TTTCAACCCC
337234 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
337272 TTCTTTCCCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:341600 original size:3 final size:3
Alignment explanation
Indices: 341592--341617 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
341582 AGCGAAGATT
341592 ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG AT
341618 AGGCAAGAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.31, T:0.35
Consensus pattern (3 bp):
ATG
Found at i:345448 original size:33 final size:32
Alignment explanation
Indices: 345393--345459 Score: 80
Period size: 33 Copynumber: 2.1 Consensus size: 32
345383 GATTTTTTAG
* ** *
345393 ATTGTATTGATACAATGCAATTTGTATTGATAC
1 ATTGTATCGATACAATAAAATTT-TATCGATAC
*
345426 ATTGTATCGATACATTAAAATTTTATCGATAC
1 ATTGTATCGATACAATAAAATTTTATCGATAC
345458 AT
1 AT
345460 CACGCTTATA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
32 10 0.34
33 19 0.66
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.42
Consensus pattern (32 bp):
ATTGTATCGATACAATAAAATTTTATCGATAC
Found at i:347675 original size:20 final size:20
Alignment explanation
Indices: 347650--347687 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
347640 CATAAGTCAT
347650 CCAAATTTATTTTTAAGTAA
1 CCAAATTTATTTTTAAGTAA
347670 CCAAATTTATTTTTAAGT
1 CCAAATTTATTTTTAAGT
347688 TTTGTTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.47
Consensus pattern (20 bp):
CCAAATTTATTTTTAAGTAA
Found at i:348157 original size:20 final size:20
Alignment explanation
Indices: 348113--348168 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
348103 AATCCCGTGT
*
348113 TTGTATCGATAGATGTTTAAA
1 TTGTATCGATACAT-TTTAAA
*
348134 TTGTATCGATACATTTTGAA
1 TTGTATCGATACATTTTAAA
*
348154 TTGTATAGATACATT
1 TTGTATCGATACATT
348169 CGGCCCAGCG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 19 0.59
21 13 0.41
ACGTcount: A:0.32, C:0.07, G:0.16, T:0.45
Consensus pattern (20 bp):
TTGTATCGATACATTTTAAA
Found at i:354264 original size:21 final size:21
Alignment explanation
Indices: 354240--354292 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
354230 CTTAGAAATA
*
354240 TGTATCAATACTTCATGAACT
1 TGTATCGATACTTCATGAACT
* * *
354261 TGTATTGACACTTCATGAGCT
1 TGTATCGATACTTCATGAACT
354282 TGTATCGATAC
1 TGTATCGATAC
354293 ACAAGCTTAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (21 bp):
TGTATCGATACTTCATGAACT
Found at i:367522 original size:4 final size:4
Alignment explanation
Indices: 367513--367538 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
367503 TTACAAAACA
367513 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
367539 GTGCCTCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:369677 original size:49 final size:51
Alignment explanation
Indices: 369616--369729 Score: 162
Period size: 51 Copynumber: 2.3 Consensus size: 51
369606 GAAAATAACA
*
369616 AGGTTGGAGTATCCCCGATGGTG-AGAAT-GGGGTTTTAGAAATAAAA-CTG
1 AGGTTGGAGTATCCCCGATGGTGAAAAATCGGGGTTTTAGAAATAAAATC-G
*
369665 AGGTTGGAGTATCCCCGATGGTGAAAAATCGGTGTTTTAGAAATAAAATCG
1 AGGTTGGAGTATCCCCGATGGTGAAAAATCGGGGTTTTAGAAATAAAATCG
* *
369716 GGGTTGGAATATCC
1 AGGTTGGAGTATCC
369730 TCTTGAAAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
49 23 0.40
50 4 0.07
51 30 0.52
52 1 0.02
ACGTcount: A:0.31, C:0.11, G:0.31, T:0.27
Consensus pattern (51 bp):
AGGTTGGAGTATCCCCGATGGTGAAAAATCGGGGTTTTAGAAATAAAATCG
Found at i:369755 original size:79 final size:78
Alignment explanation
Indices: 369666--369878 Score: 257
Period size: 79 Copynumber: 2.7 Consensus size: 78
369656 ATAAAACTGA
* * * *
369666 GGTTGGAGTATCCCCGATGGTGAAAAATCGGTGTTTTAGAAATAAAATCGGGGTTGGAATATCCT
1 GGTTGGAGTATCCCCGATGGTGGAAAATTGGTGTTTTAAAAATAAAA-CGGGGTTGGAATATCCC
* *
369731 CT-TGAAAATAACGG
65 CTCAG-AAATAACAG
* * *** *
369745 GGTTGGAGTATCCCCGATGGTGGAAAATTAGTTTTTTAAAAATAAAACCAAAGTTGGAGTATCCC
1 GGTTGGAGTATCCCCGATGGTGGAAAATTGGTGTTTTAAAAATAAAA-CGGGGTTGGAATATCCC
369810 CTCAGAAATAACAG
65 CTCAGAAATAACAG
* *
369824 GGCTAGAGTATCCCCGATGGTGGAAAATTGGTGTTTTAAAAATAAAACTGGGGTT
1 GGTTGGAGTATCCCCGATGGTGGAAAATTGGTGTTTTAAAAATAAAAC-GGGGTT
369879 ATCCCCAATG
Statistics
Matches: 112, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
78 1 0.01
79 110 0.98
80 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (78 bp):
GGTTGGAGTATCCCCGATGGTGGAAAATTGGTGTTTTAAAAATAAAACGGGGTTGGAATATCCCC
TCAGAAATAACAG
Found at i:369913 original size:125 final size:125
Alignment explanation
Indices: 369753--370003 Score: 333
Period size: 125 Copynumber: 2.0 Consensus size: 125
369743 GGGGTTGGAG
* * *
369753 TATCCCCGATGGTGGAAAATTAGTTTTTTAAAAATAAAACCAAAGTTGGAGTATCCCCTC-AGAA
1 TATCCCCAATGGTGGAAAATCAGTGTTTTAAAAATAAAACCAAAGTTGGAGTATCCCCTCGA-AA
*
369817 ATAACAGGGCTAGAGTATCCCCGATGGTGGAAAATTGGTGTTTTAAAAATAAAACTGGGGT
65 ATAACAGGGCTAGAGTATCCCCGATGGTGGAAAATTGGTGTTTTAAAAATAAAACCGGGGT
* * * * * *
369878 TATCCCCAATGGTGGAAAATCGGTGTTTTAGAAATAAAATCGAGGTTGGAGTATCTCCTCGAAAA
1 TATCCCCAATGGTGGAAAATCAGTGTTTTAAAAATAAAACCAAAGTTGGAGTATCCCCTCGAAAA
* * * ** * *
369943 TAATAGGGTTGGAGTATCCTTGATGGTGGAAAATTGGTGTTTTAGAAATAAACCCGGGGT
66 TAACAGGGCTAGAGTATCCCCGATGGTGGAAAATTGGTGTTTTAAAAATAAAACCGGGGT
370003 T
1 T
370004 GGGGGTATCC
Statistics
Matches: 108, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
125 107 0.99
126 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (125 bp):
TATCCCCAATGGTGGAAAATCAGTGTTTTAAAAATAAAACCAAAGTTGGAGTATCCCCTCGAAAA
TAACAGGGCTAGAGTATCCCCGATGGTGGAAAATTGGTGTTTTAAAAATAAAACCGGGGT
Found at i:369919 original size:204 final size:207
Alignment explanation
Indices: 369594--370054 Score: 567
Period size: 204 Copynumber: 2.2 Consensus size: 207
369584 AATGATGTTA
* * * * * *
369594 GAGTATCCCTTTGAAAATAACAAGGTTGGAGTATCCCCGATGGT-GAGAATGGGGTTTTAGAAAT
1 GAGTATCCCCTCGAAAATAACAGGGTTAGAGTATCCCCGATGGTGGAAAATGGGGTTTTAAAAAT
* *
369658 AAAACTGAGGTTGGAGTATCCCCGATGGTGAAAAATCGGTGTTTTAGAAATAAAATCGGGGTTGG
66 AAAACT-AGG-TGGAGTATCCCCAATGGTGAAAAATCGGTGTTTTAGAAATAAAATCGAGGTTGG
* * *
369723 AATATC-CTCTTGAAAATAACGGGGTTGGAGTATCCCCGATGGTGGAAAATTAGTTTTTTAAAAA
129 AATATCTC-CTCGAAAATAACAGGGTTGGAGTATCCCCGATGGTGGAAAATTAGTGTTTTAAAAA
369787 TAAAACCAAAGTT-G
193 TAAAACCAAAGTTGG
* *
369801 GAGTATCCCCTC-AGAAATAACAGGGCTAGAGTATCCCCGATGGTGGAAAATTGGTGTTTTAAAA
1 GAGTATCCCCTCGA-AAATAACAGGGTTAGAGTATCCCCGATGGTGGAAAA-TGGGGTTTTAAAA
* *
369865 ATAAAACT-GG-GG-TTATCCCCAATGGTGGAAAATCGGTGTTTTAGAAATAAAATCGAGGTTGG
64 ATAAAACTAGGTGGAGTATCCCCAATGGTGAAAAATCGGTGTTTTAGAAATAAAATCGAGGTTGG
* * ** * *
369927 AGTATCTCCTCGAAAATAATAGGGTTGGAGTATCCTTGATGGTGGAAAATTGGTGTTTTAGAAAT
129 AATATCTCCTCGAAAATAACAGGGTTGGAGTATCCCCGATGGTGGAAAATTAGTGTTTTAAAAAT
* ***
369992 AAACCCGGGGTTGG
194 AAAACCAAAGTTGG
* ** *
370006 GGGTATCCCCTCGAAAATAAGGGGGTTAGAGTATCCCCGATGTTGGAAA
1 GAGTATCCCCTCGAAAATAACAGGGTTAGAGTATCCCCGATGGTGGAAA
370055 TCGATATTTT
Statistics
Matches: 218, Mismatches: 30, Indels: 14
0.83 0.11 0.05
Matches are distributed among these distances:
204 108 0.50
205 46 0.21
206 2 0.01
207 39 0.18
208 4 0.02
209 19 0.09
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.27
Consensus pattern (207 bp):
GAGTATCCCCTCGAAAATAACAGGGTTAGAGTATCCCCGATGGTGGAAAATGGGGTTTTAAAAAT
AAAACTAGGTGGAGTATCCCCAATGGTGAAAAATCGGTGTTTTAGAAATAAAATCGAGGTTGGAA
TATCTCCTCGAAAATAACAGGGTTGGAGTATCCCCGATGGTGGAAAATTAGTGTTTTAAAAATAA
AACCAAAGTTGG
Found at i:370065 original size:79 final size:79
Alignment explanation
Indices: 369878--370392 Score: 536
Period size: 79 Copynumber: 6.5 Consensus size: 79
369868 AAACTGGGGT
* * * *
369878 TATCCCCAATGGTGGAAAATCGGTGTTTTAGAAATAAAATCGAGGTTGGAGTATCTCCTCGAAAA
1 TATCCCCGATGGTGGAAAATCGGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAA
* *
369943 TAATAGGGTTGGAG
66 TAACAGGGTTAGAG
** * * *
369957 TATCCTTGATGGTGGAAAATTGGTGTTTTAGAAATAAACCCGGGGTTGGGGGTATCCCCTCGAAA
1 TATCCCCGATGGTGGAAAATCGGTGTTTTAGAAATAAAACCGGGGTT-GGAGTATCCCCTCGAAA
**
370022 ATAAGGGGGTTAGAG
65 ATAACAGGGTTAGAG
* * * * *
370037 TATCCCCGATGTTGG-AAATCGATATTTTAGAAATAAAATCGAGGTTGGAGTATCCCCTC-AGAA
1 TATCCCCGATGGTGGAAAATCGGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGA-AA
370100 ATAACAGGGTTAGAG
65 ATAACAGGGTTAGAG
* * * ** *
370115 TATCCTCGAGGGTGGAAAATCGGTGCTTTAGAAATAAAATTGGGGTTGGAGTATCCCTTCGAAAA
1 TATCCCCGATGGTGGAAAATCGGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAA
*
370180 TAACAGAGTTAGAG
66 TAACAGGGTTAGAG
** * * *
370194 TATCCTTGATGGTGAAAAATCGGTGTTTTA-AAAGTTAAACTGGGGTTGGAGTATCCCCTC-AGA
1 TATCCCCGATGGTGGAAAATCGGTGTTTTAGAAA-TAAAACCGGGGTTGGAGTATCCCCTCGA-A
* * **
370257 AACAACGGGGTCGGAG
64 AATAACAGGGTTAGAG
* * * * *
370273 TATCCCTGATAGT-GAAAATTTGGTGTTTTAGAAATAAAACTGGGGTTGGAGTATCCCTTCGAAA
1 TATCCCCGATGGTGGAAAA-TCGGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAA
*
370337 ATAACGGGGGTTAGAG
65 ATAAC-AGGGTTAGAG
* * * * *
370353 TATCTCCAATGGTGGAAAATCGATATTTTAGGAATAAAAC
1 TATCCCCGATGGTGGAAAATCGGTGTTTTAGAAATAAAAC
370393 AAACATCAAT
Statistics
Matches: 362, Mismatches: 63, Indels: 21
0.81 0.14 0.05
Matches are distributed among these distances:
77 1 0.00
78 47 0.13
79 231 0.64
80 78 0.22
81 5 0.01
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (79 bp):
TATCCCCGATGGTGGAAAATCGGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAA
TAACAGGGTTAGAG
Found at i:370076 original size:158 final size:158
Alignment explanation
Indices: 369878--370391 Score: 633
Period size: 158 Copynumber: 3.2 Consensus size: 158
369868 AAACTGGGGT
* * *
369878 TATCCCCAATGGTGGAAAATCGGTGTTTTAGAAATAAAATCGAGGTTGGAGTATCTCCTC-GAAA
1 TATCCCCAATGGTGGAAAATCGATATTTTAGAAATAAAATCGAGGTTGGAGTATCCCCTCAG-AA
* * *
369942 ATAATAGGGTTGGAGTATCCTTGATGGTGGAAAATTGGTGTTTTAGAAATAAACCCGGGGTTGGG
65 ATAACAGGGTTGGAGTATCCTTGATGGTGGAAAATTGGTGTTTTAGAAATAAAACTGGGGTT-GG
* *
370007 GGTATCCCCTCGAAAATAAGGGGGTTAGAG
129 AGTATCCCTTCGAAAATAAGGGGGTTAGAG
* *
370037 TATCCCCGATGTTGG-AAATCGATATTTTAGAAATAAAATCGAGGTTGGAGTATCCCCTCAGAAA
1 TATCCCCAATGGTGGAAAATCGATATTTTAGAAATAAAATCGAGGTTGGAGTATCCCCTCAGAAA
* * * * * *
370101 TAACAGGGTTAGAGTATCCTCGAGGGTGGAAAATCGGTGCTTTAGAAATAAAATTGGGGTTGGAG
66 TAACAGGGTTGGAGTATCCTTGATGGTGGAAAATTGGTGTTTTAGAAATAAAACTGGGGTTGGAG
** *
370166 TATCCCTTCGAAAATAACAGAGTTAGAG
131 TATCCCTTCGAAAATAAGGGGGTTAGAG
*** * * * * *
370194 TATCCTTGATGGTGAAAAATCGGTGTTTTA-AAAGTTAAA-CTGGGGTTGGAGTATCCCCTCAGA
1 TATCCCCAATGGTGGAAAATCGATATTTTAGAAA-TAAAATC-GAGGTTGGAGTATCCCCTCAGA
* * * * *
370257 AACAACGGGGTCGGAGTATCCCTGATAGT-GAAAATTTGGTGTTTTAGAAATAAAACTGGGGTTG
64 AATAACAGGGTTGGAGTATCCTTGATGGTGGAAAA-TTGGTGTTTTAGAAATAAAACTGGGGTTG
370321 GAGTATCCCTTCGAAAATAACGGGGGTTAGAG
128 GAGTATCCCTTCGAAAATAA-GGGGGTTAGAG
* *
370353 TATCTCCAATGGTGGAAAATCGATATTTTAGGAATAAAA
1 TATCCCCAATGGTGGAAAATCGATATTTTAGAAATAAAA
370392 CAAACATCAA
Statistics
Matches: 298, Mismatches: 50, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
157 47 0.16
158 200 0.67
159 49 0.16
160 2 0.01
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (158 bp):
TATCCCCAATGGTGGAAAATCGATATTTTAGAAATAAAATCGAGGTTGGAGTATCCCCTCAGAAA
TAACAGGGTTGGAGTATCCTTGATGGTGGAAAATTGGTGTTTTAGAAATAAAACTGGGGTTGGAG
TATCCCTTCGAAAATAAGGGGGTTAGAG
Found at i:370304 original size:237 final size:238
Alignment explanation
Indices: 369878--370374 Score: 609
Period size: 237 Copynumber: 2.1 Consensus size: 238
369868 AAACTGGGGT
* * *
369878 TATCCCCAATGGTGGAAAATCGGTGTTTTAGAAATAAAATCGAGGTTGGAGTATCTCCTCGAAAA
1 TATCTCCAAGGGTGGAAAATCGGTGCTTTAGAAATAAAATCGAGGTTGGAGTATCTCCTCGAAAA
* * * * * *
369943 TAATAGGGTTGGAGTATCCTTGATGGTGGAAAATTGGTGTTTTAGAAATAAACCCGGGGTTGGGG
66 TAACAGAGTTAGAGTATCCTTGATGGTGAAAAATCGGTGTTTTAGAAATAAACCCGGGGTTGGGA
* * * *
370008 GTATCCCCTCGAAAATAAGGGGGTTAGAGTATCCCCGATGTTGGAAATCGATATTTTAGAAATAA
131 GTATCCCCTCGAAAACAACGGGGTCAGAGTATCCCCGATGTTGAAAATCGATATTTTAGAAATAA
370073 AA-TCGAGGTTGGAGTATCCCCTC-AGAAATAAC-AGGGTTAGAG
196 AACT-GAGGTTGGAGTATCCCCTCGA-AAATAACGAGGGTTAGAG
* * *
370115 TATC-CTCGAGGGTGGAAAATCGGTGCTTTAGAAATAAAATTGGGGTTGGAGTATC-CCTTCGAA
1 TATCTC-CAAGGGTGGAAAATCGGTGCTTTAGAAATAAAATCGAGGTTGGAGTATCTCC-TCGAA
*
370178 AATAACAGAGTTAGAGTATCCTTGATGGTGAAAAATCGGTGTTTTA-AAAGTTAAA-CTGGGGTT
64 AATAACAGAGTTAGAGTATCCTTGATGGTGAAAAATCGGTGTTTTAGAAA--TAAACCCGGGGTT
* * * * *
370241 -GGAGTATCCCCTC-AGAAACAACGGGGTCGGAGTATCCCTGATAG-TGAAAATTTGGTGTTTTA
127 GGGAGTATCCCCTCGA-AAACAACGGGGTCAGAGTATCCCCGAT-GTTGAAAA-TCGATATTTTA
* * *
370303 GAAATAAAACTGGGGTTGGAGTATCCCTTCGAAAATAACGGGGGTTAGAG
189 GAAATAAAACTGAGGTTGGAGTATCCCCTCGAAAATAACGAGGGTTAGAG
*
370353 TATCTCCAATGGTGGAAAATCG
1 TATCTCCAAGGGTGGAAAATCG
370375 ATATTTTAGG
Statistics
Matches: 223, Mismatches: 26, Indels: 21
0.83 0.10 0.08
Matches are distributed among these distances:
235 1 0.00
236 45 0.20
237 143 0.64
238 33 0.15
239 1 0.00
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.28
Consensus pattern (238 bp):
TATCTCCAAGGGTGGAAAATCGGTGCTTTAGAAATAAAATCGAGGTTGGAGTATCTCCTCGAAAA
TAACAGAGTTAGAGTATCCTTGATGGTGAAAAATCGGTGTTTTAGAAATAAACCCGGGGTTGGGA
GTATCCCCTCGAAAACAACGGGGTCAGAGTATCCCCGATGTTGAAAATCGATATTTTAGAAATAA
AACTGAGGTTGGAGTATCCCCTCGAAAATAACGAGGGTTAGAG
Found at i:375202 original size:104 final size:102
Alignment explanation
Indices: 374969--375465 Score: 437
Period size: 103 Copynumber: 4.8 Consensus size: 102
374959 GGCAGGAGCA
* * * * * *
374969 TCCCCAAAGATAAAATTATGAAAATATTTAGGAA-AAAAAGCAAATATGATTTTTTTTATGAAAA
1 TCCCCAAAGATAAAATTATGAAAACACTTAGGAACAAAGAGAAAATTTGA---TTTTTATGAAGA
*** * * * * *
375033 ATAAGGTTGGAATGTCCCATCAGAGTAATG-GGTTGGAGTT
63 ACGGGGTT-GAGTATCCCTTTAGAGTAGTGAGGTTGGAGTT
* *
375073 TCCCTCGAAGATAAAATTATGAAAACACTTAGGAACAAAGATAAAATTTGACTTTTTATGAAGAA
1 TCCC-CAAAGATAAAATTATGAAAACACTTAGGAACAAAGAGAAAATTTGA-TTTTTATGAAGAA
* *
375138 TGGGGTTGTAGTATCCCTTTAGATTAGTGAGGTTGGAGTT
64 CGGGGTTG-AGTATCCCTTTAGAGTAGTGAGGTTGGAGTT
* * * * *
375178 TCTCCAAAGATAAAATTATAAAAACATTTAGGAACAAAGAGAAAATTTGATTTTTCTAAAGAACG
1 TCCCCAAAGATAAAATTATGAAAACACTTAGGAACAAAGAGAAAATTTGATTTTTATGAAGAACG
* * *
375243 TGGTTAGAATAT-CCTCTTAGAGTAAT-AGGGTTGGAGTT
66 GGGTT-GAGTATCCCT-TTAGAGTAGTGA-GGTTGGAGTT
* * * * * *
375281 TCCCTAAAGATAAAATTTTGAAAATACTTAAGG-ACAAATAGAAAATTTGATTTTTACGTAGAAC
1 TCCCCAAAGATAAAATTATGAAAACACTT-AGGAACAAAGAGAAAATTTGATTTTTATGAAGAAC
* * * *
375345 GAGGTTGAAGTACCCCCTTAGAGTAGTGGGGTTGGAGTT
65 GGGGTTG-AGTATCCCTTTAGAGTAGTGAGGTTGGAGTT
* * * * *
375384 TCCCCAAAGATAAAATTATGAAAATATTTAGGGACAAAGAAAAAATTTGATTTCTTTATGAAAAA
1 TCCCCAAAGATAAAATTATGAAAACACTTAGGAACAAAGAGAAAATTTGA-TT-TTTATGAAGAA
* *
375449 TGGGATTGGAGTATCCC
64 CGGGGTT-GAGTATCCC
375466 CAAAGATAAA
Statistics
Matches: 320, Mismatches: 58, Indels: 29
0.79 0.14 0.07
Matches are distributed among these distances:
102 8 0.03
103 156 0.49
104 85 0.27
105 59 0.18
106 12 0.04
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.31
Consensus pattern (102 bp):
TCCCCAAAGATAAAATTATGAAAACACTTAGGAACAAAGAGAAAATTTGATTTTTATGAAGAACG
GGGTTGAGTATCCCTTTAGAGTAGTGAGGTTGGAGTT
Found at i:375402 original size:206 final size:208
Alignment explanation
Indices: 374969--375436 Score: 579
Period size: 206 Copynumber: 2.3 Consensus size: 208
374959 GGCAGGAGCA
* * * *
374969 TCCCCAAAGATAAAATTATGAAAATATTTAGGAA-AAAAAGCAAATATGATTTTTTTTATGAAAA
1 TCCCCAAAGATAAAATTATGAAAATATTTAGGAACAAAGAGAAAATTTGA-TTTTTCTA-GAAAA
* * * *
375033 ATAAGGTTGGAATGTCCCATCAGAGTAATGGGTTGGAGTTTCCCTCGAAGATAAAATTATGAAAA
64 ACAAGGTTAGAATATCCCATCAGAGTAATGGGTTGGAGTTTCCCTCAAAGATAAAATTATGAAAA
* * * * * * * *
375098 CACTTAGGAACAAAGATAAAATTTGACTTTTTATGAAGAATGGGGTTGTAGTATCCCTTTAGATT
129 CACTTAGGAACAAAGAGAAAATTTGACTTTTTACGAAGAACGAGGTTGAAGTACCCCCTTAGAGT
375163 AGTGAGGTTGGAGTT
194 AGTGAGGTTGGAGTT
* * * *
375178 TCTCCAAAGATAAAATTATAAAAACATTTAGGAACAAAGAGAAAATTTGATTTTTCTA-AAGAAC
1 TCCCCAAAGATAAAATTATGAAAATATTTAGGAACAAAGAGAAAATTTGATTTTTCTAGAAAAAC
** * *
375242 GTGGTTAGAATATCCTC-TTAGAGTAATAGGGTTGGAGTTTCCCT-AAAGATAAAATTTTGAAAA
66 AAGGTTAGAATATCC-CATCAGAGTAAT-GGGTTGGAGTTTCCCTCAAAGATAAAATTATGAAAA
* * *
375305 TACTTAAGG-ACAAATAGAAAATTTGA-TTTTTACGTAGAACGAGGTTGAAGTACCCCCTTAGAG
129 CACTT-AGGAACAAAGAGAAAATTTGACTTTTTACGAAGAACGAGGTTGAAGTACCCCCTTAGAG
*
375368 TAGTGGGGTTGGAGTT
193 TAGTGAGGTTGGAGTT
* *
375384 TCCCCAAAGATAAAATTATGAAAATATTTAGGGACAAAGAAAAAATTTGATTT
1 TCCCCAAAGATAAAATTATGAAAATATTTAGGAACAAAGAGAAAATTTGATTT
375437 CTTTATGAAA
Statistics
Matches: 222, Mismatches: 33, Indels: 11
0.83 0.12 0.04
Matches are distributed among these distances:
206 92 0.41
207 60 0.27
208 20 0.09
209 38 0.17
210 12 0.05
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.31
Consensus pattern (208 bp):
TCCCCAAAGATAAAATTATGAAAATATTTAGGAACAAAGAGAAAATTTGATTTTTCTAGAAAAAC
AAGGTTAGAATATCCCATCAGAGTAATGGGTTGGAGTTTCCCTCAAAGATAAAATTATGAAAACA
CTTAGGAACAAAGAGAAAATTTGACTTTTTACGAAGAACGAGGTTGAAGTACCCCCTTAGAGTAG
TGAGGTTGGAGTT
Found at i:375507 original size:78 final size:78
Alignment explanation
Indices: 375371--375514 Score: 225
Period size: 78 Copynumber: 1.8 Consensus size: 78
375361 CTTAGAGTAG
* * * **
375371 TGGGGTTGGAGTTTCCCCAAAGATAAAATTATGAAAATATTTAGGGACAAAGAAAAAATTTGATT
1 TGGGATTGGAGTATCCCCAAAGATAAAATTATGAAAACATTTAGAAACAAAGAAAAAATTTGATT
375436 TCTTTATGAAAAA
66 TCTTTATGAAAAA
* *
375449 TGGGATTGGAGTATCCCCAAAGATAAAATTATGGAAACATTTAGAAACAAAGAGAAAATTTGATT
1 TGGGATTGGAGTATCCCCAAAGATAAAATTATGAAAACATTTAGAAACAAAGAAAAAATTTGATT
375514 T
66 T
375515 TTCTATAGAA
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
78 59 1.00
ACGTcount: A:0.43, C:0.08, G:0.19, T:0.29
Consensus pattern (78 bp):
TGGGATTGGAGTATCCCCAAAGATAAAATTATGAAAACATTTAGAAACAAAGAAAAAATTTGATT
TCTTTATGAAAAA
Found at i:375575 original size:103 final size:103
Alignment explanation
Indices: 375454--375930 Score: 455
Period size: 103 Copynumber: 4.6 Consensus size: 103
375444 AAAAATGGGA
* * *
375454 TTGGAGTATCCCCAAAGATAAAATTATGGAAACATTTAGAAACAAAGAGAAAATTTGATTTTTCT
1 TTGGAGTTTCCCCAAAGATAAAATTATGAAAACATTTAGAGACAAAGAGAAAATTTGATTTTTCT
* *
375519 ATAGAACGGGGTTAGAGTATCTTTTTAAAGTAATAGAG
66 ATAGAACGGGGTTAGAGTATCTTCTTAAAGTAATAGGG
* * * * *
375557 TTGGAGTTTCCCCCAAGATTAAATTATGAAAATATTTA-AGGACAAAAAGAAAATTTGTTTTTTT
1 TTGGAGTTTCCCCAAAGATAAAATTATGAAAACATTTAGA-GACAAAGAGAAAATTTG--ATTTT
* * * * ***
375621 TTTATAAAAAACAGAGTTAGAGTATC-TCTTAAGAGTAGCGGGG
63 TCTAT--AGAACGGGGTTAGAGTATCTTCTTAA-AGTAATAGGG
* * * * *
375664 TTAGAGTTTTCCCAAAGATAAAATTATGAAAACATTTAGGGACAAGGAAAAAATTTGATTTTTCT
1 TTGGAGTTTCCCCAAAGATAAAATTATGAAAACATTTAGAGACAAAGAGAAAATTTGATTTTTCT
* ** * *
375729 AAAGAGTGGGGTTAGAGTATCCTCTTAGAGTAATAGGG
66 ATAGAACGGGGTTAGAGTATCTTCTTAAAGTAATAGGG
* * *
375767 TTGGAGTTTACCTAAAGATAAAATTATGAAAACATTTA-AGGACAAATAGAAAATTTGATTTTTA
1 TTGGAGTTTCCCCAAAGATAAAATTATGAAAACATTTAGA-GACAAAGAGAAAATTTGATTTTT-
* * * *
375831 CGTA-A-AACGGGGTT-GAAGTA-CTCCCTTAGAGTAGTGGGG
64 C-TATAGAACGGGGTTAG-AGTATCT-TCTTAAAGTAATAGGG
* * * * *
375870 TTAGAGTTTCCCTAAAGATAAAATTATGAAAATATTTAGGGACAAAGAAAAAATTTGATTT
1 TTGGAGTTTCCCCAAAGATAAAATTATGAAAACATTTAGAGACAAAGAGAAAATTTGATTT
375931 CTTTATGAAG
Statistics
Matches: 303, Mismatches: 57, Indels: 28
0.78 0.15 0.07
Matches are distributed among these distances:
102 3 0.01
103 202 0.67
104 7 0.02
105 17 0.06
106 5 0.02
107 69 0.23
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.32
Consensus pattern (103 bp):
TTGGAGTTTCCCCAAAGATAAAATTATGAAAACATTTAGAGACAAAGAGAAAATTTGATTTTTCT
ATAGAACGGGGTTAGAGTATCTTCTTAAAGTAATAGGG
Found at i:384466 original size:18 final size:20
Alignment explanation
Indices: 384428--384464 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
384418 TCCCGTGTAA
384428 ATGTATCGATACAATTTTTG
1 ATGTATCGATACAATTTTTG
384448 ATGTATCGATAC-ATTTT
1 ATGTATCGATACAATTTT
384465 GAAAATATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (20 bp):
ATGTATCGATACAATTTTTG
Found at i:384538 original size:13 final size:13
Alignment explanation
Indices: 384520--384545 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
384510 AATTTTTTGG
384520 TGTATCGATACAT
1 TGTATCGATACAT
384533 TGTATCGATACAT
1 TGTATCGATACAT
384546 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:390914 original size:25 final size:24
Alignment explanation
Indices: 390870--390922 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
390860 TCAAAATGAT
*
390870 AAAAAAAGTCAAAAGCAAAAGCAC
1 AAAAAAAGTCAAAAGAAAAAGCAC
*
390894 AAAAAAA-TCAAAAGAGAAAAAGTAC
1 AAAAAAAGTC-AAA-AGAAAAAGCAC
390919 AAAA
1 AAAA
390923 GTACAATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 2 0.08
24 10 0.40
25 13 0.52
ACGTcount: A:0.72, C:0.11, G:0.11, T:0.06
Consensus pattern (24 bp):
AAAAAAAGTCAAAAGAAAAAGCAC
Found at i:394577 original size:52 final size:51
Alignment explanation
Indices: 394492--394615 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 51
394482 ATATGAAAAG
* *
394492 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAA
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
394543 TTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGCAAA
1 -TTGCCTGCATGTATCGATACA-TTTAATAATGTATCGATACATCTGGGCAAA
394595 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
394616 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
51 21 0.30
52 43 0.62
53 5 0.07
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
Found at i:394628 original size:51 final size:50
Alignment explanation
Indices: 394492--394635 Score: 177
Period size: 52 Copynumber: 2.8 Consensus size: 50
394482 ATATGAAAAG
* *
394492 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA--AAATAGTGTATCGATACATCTGGGCAAAT
394544 TTGCCTGCATGTATCGATACATTTTAAA-A-TGTATCGATACATCTGGGCAAA-
1 TTGCCTGCATGTATCGATACA----AAATAGTGTATCGATACATCTGGGCAAAT
394595 TTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACAAA-AT-AGTGTATCGATACA
394636 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 2, Indels: 13
0.85 0.02 0.13
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
50 1 0.01
51 33 0.39
52 42 0.50
53 1 0.01
54 4 0.05
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (50 bp):
TTGCCTGCATGTATCGATACAAAATAGTGTATCGATACATCTGGGCAAAT
Found at i:394642 original size:13 final size:13
Alignment explanation
Indices: 394624--394648 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
394614 CAAAGATCAG
394624 TGTATCGATACAA
1 TGTATCGATACAA
394637 TGTATCGATACA
1 TGTATCGATACA
394649 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:394726 original size:33 final size:33
Alignment explanation
Indices: 394689--394755 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
394679 AGTAGCTTAA
394689 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
394722 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
394755 A
1 A
394756 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:394729 original size:13 final size:13
Alignment explanation
Indices: 394711--394735 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
394701 CAAAAAAATA
394711 TGTATCGATACAT
1 TGTATCGATACAT
394724 TGTATCGATACA
1 TGTATCGATACA
394736 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:396084 original size:28 final size:27
Alignment explanation
Indices: 395878--396317 Score: 546
Period size: 27 Copynumber: 16.1 Consensus size: 27
395868 CGGTAGTCCA
*
395878 TTTTAAGTCCACAACTCCGTGGCA-CTC
1 TTTTAAGTCCACAACTCTGTGGCATC-C
* *
395905 TTTTAAGTCCACAACTATGTGGCATCT
1 TTTTAAGTCCACAACTCTGTGGCATCC
* *
395932 TTTTAAGCCCACAACTCTGTGGCACCC
1 TTTTAAGTCCACAACTCTGTGGCATCC
* *
395959 TTTTAAGTCTACAACTCTGTGGCACCC
1 TTTTAAGTCCACAACTCTGTGGCATCC
395986 TTTTAAGTCCACAACTCTGTGGCA-CC
1 TTTTAAGTCCACAACTCTGTGGCATCC
* *
396012 TTTTTAAGTCCACAACTCCGTGGCACCC
1 -TTTTAAGTCCACAACTCTGTGGCATCC
*
396040 TTTTAAGTCCACAACTCCGTGGCATCC
1 TTTTAAGTCCACAACTCTGTGGCATCC
396067 TTTTAAAGTCCACAACTCTGTGGCATCC
1 TTTT-AAGTCCACAACTCTGTGGCATCC
396095 TTTTAAAGTCCACAACTCTGTGGCATCC
1 TTTT-AAGTCCACAACTCTGTGGCATCC
*
396123 TTTTAAAGTCCATAACTCTGTGGCATCC
1 TTTT-AAGTCCACAACTCTGTGGCATCC
* *
396151 TTTTAAGTCTACAACTCCGTGGCATCC
1 TTTTAAGTCCACAACTCTGTGGCATCC
* *
396178 GTTTAAAGTCCACAACTCTATGGCATCC
1 -TTTTAAGTCCACAACTCTGTGGCATCC
*
396206 TTTTAAAGTCCACAACTCCGTGGCATCC
1 TTTT-AAGTCCACAACTCTGTGGCATCC
* * *
396234 TTTTAAGCCCATAACTCCGTGGCATCC
1 TTTTAAGTCCACAACTCTGTGGCATCC
*
396261 TTTTAAGTCTACAACT-TCGTGGCAT-C
1 TTTTAAGTCCACAACTCT-GTGGCATCC
* * * * *
396287 TTTCAAAGTCTACAAATCAGTGGCACCC
1 TTT-TAAGTCCACAACTCTGTGGCATCC
396315 TTT
1 TTT
396318 CAAAATCCAC
Statistics
Matches: 369, Mismatches: 34, Indels: 19
0.87 0.08 0.05
Matches are distributed among these distances:
26 6 0.02
27 227 0.62
28 136 0.37
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.32
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCTGTGGCATCC
Found at i:396365 original size:56 final size:56
Alignment explanation
Indices: 396058--396641 Score: 329
Period size: 56 Copynumber: 10.4 Consensus size: 56
396048 CCACAACTCC
* * * * *
396058 GTGGCATCCTTTT-AAAGTCCACAACTCT-GTGGCATCCTTTTAAAGTCCACAACTCT-
1 GTGGCA-CCTTTTCAAAGCCCACAAGT-TAGTGGCATCCTTTCAAAGCCCACAAGT-TA
* * * * * * * **
396114 GTGGCATCCTTTT-AAAGTCCATAACTCT-GTGGCATCCTTT-TAAGTCTACAACTCC
1 GTGGCA-CCTTTTCAAAGCCCACAAGT-TAGTGGCATCCTTTCAAAGCCCACAAGTTA
* * * * * * **
396169 GTGGCATCCGTTT-AAAGTCCACAACTCTA-TGGCATCCTTTTAAAGTCCACAACTCC
1 GTGGCA-CCTTTTCAAAGCCCACAAGT-TAGTGGCATCCTTTCAAAGCCCACAAGTTA
* * ** * * * * *
396225 GTGGCATCCTTTT--AAGCCCATAACTCCGTGGCATCCTTT-TAAGTCTACAACTTC
1 GTGGCA-CCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTA
* * * * * * ** *
396279 GTGGCATC-TTTCAAAGTCTACAAATCAGTGGCACCCTTTCAAAATCCACAAATTA
1 GTGGCACCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTA
* * *
396334 GTGGCGCCTTTTCAAAGCCTACAAGTTAGTGGCATCCTTTCAAAAG-CCAGCAAGTCA
1 GTGGCACCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTC-AAAGCCCA-CAAGTTA
* * * * *
396391 ATGGTATCCTTTTCAAAGCTCACAAGTTAGTGGCAT--TTTTACAAGCCCACAAGTCA
1 GTGGCA-CCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCA-AAGCCCACAAGTTA
* * * ** * *
396447 ATGGCACC-TTTCTAAAGCCCACAACTTAGTGTCATATTTTCATAGCCCATAAGTTA
1 GTGGCACCTTTTC-AAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTA
396503 GTGGCACCTTTTCAAAGCCCACAAGTTAGTGGCAT-CTTCTCAAAGCCCACAAGTTA
1 GTGGCACCTTTTCAAAGCCCACAAGTTAGTGGCATCCTT-TCAAAGCCCACAAGTTA
* * * *
396559 GTGGCACCATCTCAAAGCCCACAAGTCAGTGGCATCCTTTTAAAGCCCACATATGTTA
1 GTGGCACCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACA-A-GTTA
** *
396617 GTAACAACTTTCTCTAAAGCCCACA
1 GTGGCACCTTT-TC-AAAGCCCACA
396642 TAAGTTGGTG
Statistics
Matches: 439, Mismatches: 66, Indels: 42
0.80 0.12 0.08
Matches are distributed among these distances:
52 3 0.01
53 1 0.00
54 42 0.10
55 109 0.25
56 209 0.48
57 26 0.06
58 37 0.08
59 2 0.00
60 10 0.02
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (56 bp):
GTGGCACCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTA
Found at i:396493 original size:28 final size:28
Alignment explanation
Indices: 396279--396641 Score: 288
Period size: 28 Copynumber: 12.8 Consensus size: 28
396269 CTACAACTTC
* * * *
396279 GTGGCATC-TTTCAAAGTCTACAAATCA
1 GTGGCATCTTTTCAAAGCCCACAAGTTA
* * ** *
396306 GTGGCACCCTTTCAAAATCCACAAATTA
1 GTGGCATCTTTTCAAAGCCCACAAGTTA
** *
396334 GTGGCGCCTTTTCAAAGCCTACAAGTTA
1 GTGGCATCTTTTCAAAGCCCACAAGTTA
* *
396362 GTGGCATCCTTTCAAAAG-CCAGCAAGTCA
1 GTGGCATCTTTTC-AAAGCCCA-CAAGTTA
* * *
396391 ATGGTATCCTTTTCAAAGCTCACAAGTTA
1 GTGGCAT-CTTTTCAAAGCCCACAAGTTA
*
396420 GTGGCAT-TTTT-ACAAGCCCACAAGTCA
1 GTGGCATCTTTTCA-AAGCCCACAAGTTA
* * *
396447 ATGGCA-CCTTTCTAAAGCCCACAACTTA
1 GTGGCATCTTTTC-AAAGCCCACAAGTTA
* * * *
396475 GTGTCATATTTTCATAGCCCATAAGTTA
1 GTGGCATCTTTTCAAAGCCCACAAGTTA
*
396503 GTGGCACCTTTTCAAAGCCCACAAGTTA
1 GTGGCATCTTTTCAAAGCCCACAAGTTA
*
396531 GTGGCATCTTCTCAAAGCCCACAAGTTA
1 GTGGCATCTTTTCAAAGCCCACAAGTTA
* * * *
396559 GTGGCACCATCTCAAAGCCCACAAGTCA
1 GTGGCATCTTTTCAAAGCCCACAAGTTA
396587 GTGGCATCCTTTT-AAAGCCCACATATGTTA
1 GTGGCAT-CTTTTCAAAGCCCACA-A-GTTA
** *
396617 GTAACAACTTTCTCTAAAGCCCACA
1 GTGGCATCTTT-TC-AAAGCCCACA
396642 TAAGTTGGTG
Statistics
Matches: 268, Mismatches: 52, Indels: 27
0.77 0.15 0.08
Matches are distributed among these distances:
26 1 0.00
27 31 0.12
28 168 0.63
29 43 0.16
30 15 0.06
32 10 0.04
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.27
Consensus pattern (28 bp):
GTGGCATCTTTTCAAAGCCCACAAGTTA
Found at i:397341 original size:75 final size:76
Alignment explanation
Indices: 397210--397351 Score: 198
Period size: 75 Copynumber: 1.9 Consensus size: 76
397200 TTTTACCCAG
** * * *
397210 ATGTATTGGTACATTTTGTTTTTTACCCAGATGATGTATCGATACATTTTTTAATGTATCGATAC
1 ATGTATTAATACATTCTGTTTTTTACCCAGA-GATGTATCGATACATTATTCAATGTATCGATAC
397275 ATACATGTATGA
65 ATACATGTATGA
*
397287 ATGTATTAATACATTCTGTATTTTTACCCA-A-ATGTATTGATACATTATTCAATGTATCGATAC
1 ATGTATTAATACATTCTGT-TTTTTACCCAGAGATGTATCGATACATTATTCAATGTATCGATAC
397350 AT
65 AT
397352 CTAGTTAATA
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
75 31 0.53
77 17 0.29
78 10 0.17
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.44
Consensus pattern (76 bp):
ATGTATTAATACATTCTGTTTTTTACCCAGAGATGTATCGATACATTATTCAATGTATCGATACA
TACATGTATGA
Found at i:399961 original size:50 final size:50
Alignment explanation
Indices: 399852--399983 Score: 176
Period size: 50 Copynumber: 2.6 Consensus size: 50
399842 AATTGCCTGT
* * * *
399852 ATGTATCGATACATTGAATAATGTATCGATGCATCTGGGTAAAATACCCAG
1 ATGTATCGATACAATG-ATAATATATCGATACATCTGGGTAAAAAACCCAG
* *
399903 ATGTATCGATACAATGATCAATATATCGATACAT-TTGGTAAAAAATCCAG
1 ATGTATCGATACAATGAT-AATATATCGATACATCTGGGTAAAAAACCCAG
399953 ATGTATCGATACAATGATAAATATATCGATA
1 ATGTATCGATACAATGAT-AATATATCGATA
399984 TAATGTATCG
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
50 45 0.62
51 28 0.38
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (50 bp):
ATGTATCGATACAATGATAATATATCGATACATCTGGGTAAAAAACCCAG
Found at i:400013 original size:33 final size:33
Alignment explanation
Indices: 399953--400016 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
399943 AAAAATCCAG
*
399953 ATGTATCGATACAATGATAAATATATCGATATA
1 ATGTATCGATACAATGATAAACATATCGATATA
* * * *
399986 ATGTATCGATACATTTATTAACGTATCGATA
1 ATGTATCGATACAATGATAAACATATCGATA
400017 CATTTCCTTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (33 bp):
ATGTATCGATACAATGATAAACATATCGATATA
Found at i:400768 original size:61 final size:60
Alignment explanation
Indices: 400643--400781 Score: 147
Period size: 61 Copynumber: 2.3 Consensus size: 60
400633 ACTTAAAGAA
* * * *
400643 TAAAGATGAGATGAGTGATAAAGATGCCAATATGCTCATTCAAGACTAGCGATATCAGGCT
1 TAAAGATGAGAAGAATGATAAAGATGCCAACATGCTCATTCAAGACTAGCGATATCA-GAT
* * * *
400704 TAAAGATGAGAAGAATGATAAAGGTGCCAACATGCTGATTCAAG-GTGAGTGATATTGCA-AT
1 TAAAGATGAGAAGAATGATAAAGATGCCAACATGCTCATTCAAGACT-AGCGATA-T-CAGAT
*
400765 TAAAGATGTGAAGAATG
1 TAAAGATGAGAAGAATG
400782 TCAATATGCC
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
60 1 0.02
61 62 0.94
62 1 0.02
63 2 0.03
ACGTcount: A:0.40, C:0.11, G:0.25, T:0.24
Consensus pattern (60 bp):
TAAAGATGAGAAGAATGATAAAGATGCCAACATGCTCATTCAAGACTAGCGATATCAGAT
Found at i:400831 original size:52 final size:50
Alignment explanation
Indices: 400764--401173 Score: 279
Period size: 52 Copynumber: 8.1 Consensus size: 50
400754 GATATTGCAA
* * * * *
400764 TTAAAGATGTGAAGAATGTCAATATGCCGATTCATGGCCAGCGACATTAGAC
1 TTAAAGATG-AAAG-ATGCCAATATGCTGATTCAAGGCCAACGACATTAGAC
* * * * *
400816 TTGAAGATGAAAAGAATGCTAATATGCTGAGTCAAGGCCAACAACATTAGGC
1 TTAAAGATG-AAAG-ATGCCAATATGCTGATTCAAGGCCAACGACATTAGAC
* * * * **
400868 TTAGGAATG-TTAAAGATGCCAATATGCTGATTCAAGGCTAGCGATATCGGAC
1 TTA--AA-GATGAAAGATGCCAATATGCTGATTCAAGGCCAACGACATTAGAC
* * *
400920 TTAAAGATG-AAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGAC
1 TTAAAGATGAAAGATGCCAATATGCTGATTCAAGGCCAACGACATTAGAC
* * * *
400969 TTAAAGATGGTAAAGGTGCCAATATGTTGATTCAAGGCCAATGACATTGGAC
1 TTAAAGAT-G-AAAGATGCCAATATGCTGATTCAAGGCCAACGACATTAGAC
* * * *
401021 TTAAAGGTGGTAAA-AGTGCCAATATGCTGATTCAAGGCTAAC-AGTATTGGAC
1 TTAAAGAT-G-AAAGA-TGCCAATATGCTGATTCAAGGCCAACGA-CATTAGAC
* *
401073 TT-AA-A-G---G-TGCCAATATGCTGATTCAAGGCCAGCGACATTGGA-
1 TTAAAGATGAAAGATGCCAATATGCTGATTCAAGGCCAACGACATTAGAC
* * * *
401115 TGTAAAGATGACAAAGACGCCAATATGCTAATTCAAGGCCAGCGATATT-GAAC
1 T-TAAAGATG--AAAGATGCCAATATGCTGATTCAAGGCCAACGACATTAG-AC
401168 TTAAAG
1 TTAAAG
401174 GTGCCAATGT
Statistics
Matches: 290, Mismatches: 45, Indels: 46
0.76 0.12 0.12
Matches are distributed among these distances:
42 1 0.00
43 31 0.11
44 3 0.01
45 1 0.00
46 1 0.00
48 1 0.00
49 43 0.15
50 4 0.01
51 5 0.02
52 191 0.66
53 5 0.02
54 3 0.01
55 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.24
Consensus pattern (50 bp):
TTAAAGATGAAAGATGCCAATATGCTGATTCAAGGCCAACGACATTAGAC
Found at i:400989 original size:101 final size:103
Alignment explanation
Indices: 400783--401173 Score: 296
Period size: 101 Copynumber: 3.9 Consensus size: 103
400773 TGAAGAATGT
* * * ** * * *
400783 CAATATGCCGATTCATGGCCAGCGACATTAGACTTGAAGAT-GAAAAGAATGCTAATATGCTGAG
1 CAATATGCTGATTCAAGGCCAACGACATCGGACTTAAAGATGGAAAAG--TGCCAATATGCTGAT
* *
400847 TCAAGGCCAACAACATTAGG-CTT-AGGAATGTTAAAGATGC
64 TCAAGGCCAAC-ACATT-GGACTTAAAGAATGGTAAAGATGC
* * * * *
400887 CAATATGCTGATTCAAGGCTAGCGATATCGGACTTAAAGAT-G-AAGGTGCCAATGTGCTGATTC
1 CAATATGCTGATTCAAGGCCAACGACATCGGACTTAAAGATGGAAAAGTGCCAATATGCTGATTC
*
400950 AAGGCCAACGACATTGGACTTAAAG-ATGGTAAAGGTGC
66 AAGGCCAAC-ACATTGGACTTAAAGAATGGTAAAGATGC
* * * *
400988 CAATATGTTGATTCAAGGCCAATGACATTGGACTTAAAGGTGGTAAAAGTGCCAATATGCTGATT
1 CAATATGCTGATTCAAGGCCAACGACATCGGACTTAAAGATGG-AAAAGTGCCAATATGCTGATT
* *
401053 CAAGGCTAACAGTATTGGACTT--A-AA--G----G-TGC
65 CAAGGCCAACA-CATTGGACTTAAAGAATGGTAAAGATGC
* * * *
401083 CAATATGCTGATTCAAGGCCAGCGACATTGGA-TGTAAAGAT-GACAAAGACGCCAATATGCTAA
1 CAATATGCTGATTCAAGGCCAACGACATCGGACT-TAAAGATGGA-AAAG-TGCCAATATGCTGA
* * *
401146 TTCAAGGCCAGCGATATTGAACTTAAAG
63 TTCAAGGCCAAC-ACATTGGACTTAAAG
401174 GTGCCAATGT
Statistics
Matches: 238, Mismatches: 35, Indels: 34
0.78 0.11 0.11
Matches are distributed among these distances:
93 1 0.00
94 6 0.03
95 69 0.29
96 2 0.01
97 1 0.00
100 3 0.01
101 76 0.32
102 5 0.02
103 4 0.02
104 71 0.30
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (103 bp):
CAATATGCTGATTCAAGGCCAACGACATCGGACTTAAAGATGGAAAAGTGCCAATATGCTGATTC
AAGGCCAACACATTGGACTTAAAGAATGGTAAAGATGC
Found at i:401008 original size:153 final size:152
Alignment explanation
Indices: 400715--401155 Score: 433
Period size: 153 Copynumber: 2.9 Consensus size: 152
400705 AAAGATGAGA
* * * * *
400715 AGAATGATAAAGGTGCCAACATGCTGATTCAAGG-TGAGTGATATTGCAATTAAAGATGTGAAGA
1 AGAATGATAAAGATGCCAATATGCTGATTCAAGGCT-AGCGATATTGGACTTAAAGA--TGAAG-
* * * * * * *
400779 ATGTCAATATGCCGATTCATGGCCAGCGACATTAGACTTGAAGAT-GAAAAGAATGCTAATATGC
62 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGAAAAG-ATGCCAATATGC
*
400843 TGAGTCAAGGCCAACAACATTAGG-CTT
126 TGATTCAAGGCCAACAACATT-GGACTT
* *
400870 AGGAATGTTAAAGATGCCAATATGCTGATTCAAGGCTAGCGATATCGGACTTAAAGATGAAGGTG
1 A-GAATGATAAAGATGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAGATGAAGGTG
* * * * *
400935 CCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGGTAAAGGTGCCAATATGTTGAT
65 CCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGAAAAGATGCCAATATGCTGAT
**
401000 TCAAGGCCAATGACATTGGACTT
130 TCAAGGCCAACAACATTGGACTT
* *
401023 A-AAGGTGGTAAA-AGTGCCAATATGCTGATTCAAGGCTAAC-AGTATTGGACTT----A--AAG
1 AGAA--TGATAAAGA-TGCCAATATGCTGATTCAAGGCTAGCGA-TATTGGACTTAAAGATGAAG
*
401079 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGA-TGTAAAGAT-GACAAAGACGCCAATATG
62 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACT-TAAAGATGGA-AAAGATGCCAATATG
*
401142 CTAATTCAAGGCCA
125 CTGATTCAAGGCCA
401156 GCGATATTGA
Statistics
Matches: 244, Mismatches: 32, Indels: 28
0.80 0.11 0.09
Matches are distributed among these distances:
146 2 0.01
147 69 0.28
149 1 0.00
151 2 0.01
152 4 0.02
153 108 0.44
154 10 0.04
155 1 0.00
156 46 0.19
157 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.24
Consensus pattern (152 bp):
AGAATGATAAAGATGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAGATGAAGGTGC
CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGAAAAGATGCCAATATGCTGATT
CAAGGCCAACAACATTGGACTT
Found at i:401095 original size:95 final size:95
Alignment explanation
Indices: 400979--401202 Score: 285
Period size: 95 Copynumber: 2.4 Consensus size: 95
400969 TTAAAGATGG
* * * *
400979 TAAAGGTGCCAATATGTTGATTCAAGGCCAATGACATTGGACT-TAAAGGTGGTA-AAAG-TGCC
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAACGACATTGGA-TGTAAAGAT-G-ACAAAGACGCC
* * *
401041 AATATGCTGATTCAAGGCTAAC-AGTATTGGACT
63 AATATGCTAATTCAAGGCCAACGA-TATTGAACT
*
401074 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGATGTAAAGATGACAAAGACGCCAAT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAACGACATTGGATGTAAAGATGACAAAGACGCCAAT
*
401139 ATGCTAATTCAAGGCCAGCGATATTGAACT
66 ATGCTAATTCAAGGCCAACGATATTGAACT
* *
401169 TAAAGGTGCCAATGTACTGATTCAAGGCCAACGA
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAACGA
401203 TAATAGGCTT
Statistics
Matches: 113, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
93 1 0.01
94 6 0.05
95 105 0.93
96 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (95 bp):
TAAAGGTGCCAATATGCTGATTCAAGGCCAACGACATTGGATGTAAAGATGACAAAGACGCCAAT
ATGCTAATTCAAGGCCAACGATATTGAACT
Found at i:401100 original size:21 final size:21
Alignment explanation
Indices: 401036--401100 Score: 53
Period size: 21 Copynumber: 3.0 Consensus size: 21
401026 GGTGGTAAAA
401036 GTGCCAATATGCTGATTCAAG
1 GTGCCAATATGCTGATTCAAG
** * *
401057 GCTAACAGTAT--TGGACTTAAAG
1 G-TGCCAATATGCT-GA-TTCAAG
401079 GTGCCAATATGCTGATTCAAG
1 GTGCCAATATGCTGATTCAAG
401100 G
1 G
401101 CCAGCGACAT
Statistics
Matches: 31, Mismatches: 8, Indels: 10
0.63 0.16 0.20
Matches are distributed among these distances:
20 1 0.03
21 15 0.48
22 14 0.45
23 1 0.03
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.28
Consensus pattern (21 bp):
GTGCCAATATGCTGATTCAAG
Found at i:401113 original size:43 final size:43
Alignment explanation
Indices: 401031--401204 Score: 145
Period size: 43 Copynumber: 3.8 Consensus size: 43
401021 TTAAAGGTGG
* * *
401031 TAAAAGTGCCAATATGCTGATTCAAGGCTAAC-AGTATTGGACT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGA-TATTGGACT
*
401074 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGA-T
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
* * *
401116 GTAAAGATGACAAAGACGCCAATATGCTAATTCAAGGCCAGCGATATTGAACT
1 -T-AA-A-G-----G-TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
* * *
401169 TAAAGGTGCCAATGTACTGATTCAAGGCCAACGATA
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATA
401205 ATAGGCTTAG
Statistics
Matches: 106, Mismatches: 13, Indels: 24
0.74 0.09 0.17
Matches are distributed among these distances:
42 1 0.01
43 61 0.58
44 4 0.04
45 1 0.01
46 1 0.01
49 1 0.01
50 1 0.01
51 3 0.03
52 32 0.30
53 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (43 bp):
TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
Found at i:401267 original size:33 final size:32
Alignment explanation
Indices: 401229--401340 Score: 138
Period size: 33 Copynumber: 3.5 Consensus size: 32
401219 AGATGTCACT
*
401229 AACTTGTGTGGGCTTTTGAAAAAGGTTGCCACC
1 AACTTGTGTGGGC-TTTGAAAAGGGTTGCCACC
* * * *
401262 GACTTGTATGGGCTTT--AGAGGGGTGCCACC
1 AACTTGTGTGGGCTTTGAAAAGGGTTGCCACC
*
401292 AACTTGTGTGGGCTTTGAGAAGGGCTTGCCACC
1 AACTTGTGTGGGCTTTGAAAAGGG-TTGCCACC
401325 AACTTGTGTGGGCTTT
1 AACTTGTGTGGGCTTT
401341 AGAAGGGAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
30 25 0.38
32 7 0.11
33 34 0.52
ACGTcount: A:0.19, C:0.19, G:0.32, T:0.30
Consensus pattern (32 bp):
AACTTGTGTGGGCTTTGAAAAGGGTTGCCACC
Found at i:401458 original size:33 final size:33
Alignment explanation
Indices: 401373--401606 Score: 178
Period size: 33 Copynumber: 7.0 Consensus size: 33
401363 TTGTGGACTT
* * *
401373 AAAAGGGTGCCACAAAATTGTGGACTTTGAAAA-G
1 AAAAAGGTGCCACAGAGTTGTGGAC-TT-AAAAGG
*
401407 AAAAATGTGCCACAGAGTTGTGGACTTAAAAGG
1 AAAAAGGTGCCACAGAGTTGTGGACTTAAAAGG
* ** *
401440 AACAAGGTGCCATGGAGTTATGGACTTAAAA-G
1 AAAAAGGTGCCACAGAGTTGTGGACTTAAAAGG
**
401472 AAAAAGGGTGCCATGGAGTTGTGGACTTTTAAAA-G
1 AAAAA-GGTGCCACAGAGTTGTGGAC--TTAAAAGG
* *
401507 AAAAAAGTGCCACAGAATTGTGGACTT-AAAGG
1 AAAAAGGTGCCACAGAGTTGTGGACTTAAAAGG
* * *
401539 AAGAAGAGTGCCACAGAGTTATTGG-CTTTGGAAA-G
1 AAAAAG-GTGCCACAGAGTT-GTGGAC-TT-AAAAGG
401574 AAACAA-GTGCCAC-GAAGTTGTGGACTTAAAAGG
1 AAA-AAGGTGCCACAG-AGTTGTGGACTTAAAAGG
401607 GTGCCACTTG
Statistics
Matches: 164, Mismatches: 22, Indels: 29
0.76 0.10 0.13
Matches are distributed among these distances:
31 3 0.02
32 19 0.12
33 68 0.41
34 54 0.33
35 15 0.09
36 5 0.03
ACGTcount: A:0.38, C:0.12, G:0.28, T:0.21
Consensus pattern (33 bp):
AAAAAGGTGCCACAGAGTTGTGGACTTAAAAGG
Found at i:401517 original size:67 final size:67
Alignment explanation
Indices: 401390--401605 Score: 215
Period size: 67 Copynumber: 3.2 Consensus size: 67
401380 TGCCACAAAA
* * *
401390 TTGTGGACTTTGAAAAGAAAAA-TGTGCCACAGAGTTGTGGAC--TTAAAAGGAACAAGGTGCCA
1 TTGTGGAC-TT-AAAAGAAAAAGAGTGCCACAGAGTTGTGGACTTTTAAAA-GAAAAAAGTGCCA
*
401452 TGGAG
63 CGGAG
* * ** *
401457 TTATGGACTTAAAAGAAAAAGGGTGCCATGGAGTTGTGGACTTTTAAAAGAAAAAAGTGCCACAG
1 TTGTGGACTTAAAAGAAAAAGAGTGCCACAGAGTTGTGGACTTTTAAAAGAAAAAAGTGCCACGG
*
401522 AA
66 AG
* * * ** *
401524 TTGTGGACTTAAAGGAAGAAGAGTGCCACAGAGTTATTGG-CTTTGGAAAGAAACAAGTGCCACG
1 TTGTGGACTTAAAAGAAAAAGAGTGCCACAGAGTT-GTGGACTTTTAAAAGAAAAAAGTGCCACG
*
401588 AAG
65 GAG
401591 TTGTGGACTTAAAAG
1 TTGTGGACTTAAAAG
401606 GGTGCCACTT
Statistics
Matches: 122, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
65 10 0.08
66 19 0.16
67 84 0.69
68 9 0.07
ACGTcount: A:0.38, C:0.12, G:0.28, T:0.23
Consensus pattern (67 bp):
TTGTGGACTTAAAAGAAAAAGAGTGCCACAGAGTTGTGGACTTTTAAAAGAAAAAAGTGCCACGG
AG
Found at i:401652 original size:28 final size:28
Alignment explanation
Indices: 401603--401657 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
401593 GTGGACTTAA
*
401603 AAGGGTGCCACTTGCTTGTGGGCTTTGG
1 AAGGGTGCCACTTGCTTATGGGCTTTGG
*
401631 AAGGGTGCCAC-TGAGTTATGGGCTTTG
1 AAGGGTGCCACTTG-CTTATGGGCTTTG
401658 AAAAGAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.08
28 22 0.92
ACGTcount: A:0.15, C:0.16, G:0.38, T:0.31
Consensus pattern (28 bp):
AAGGGTGCCACTTGCTTATGGGCTTTGG
Found at i:401663 original size:89 final size:90
Alignment explanation
Indices: 401541--401704 Score: 226
Period size: 89 Copynumber: 1.8 Consensus size: 90
401531 CTTAAAGGAA
* *
401541 GAAGAGTGCCACAGAGTTATTGGCTTTGGAAAGAAACAA-GTGCCAC-GAAGTTGT-GGACTTAA
1 GAAGAGTGCCACAGAGTTATGGGCTTTGAAAAGAAA-AAGGTGCCACAG-AGTTGTAGGACTTAA
401603 AAGGGTGCCACTTGCTTGTGGGCTTTG
64 AAGGGTGCCACTTGCTTGTGGGCTTTG
* * ** *
401630 GAAGGGTGCCACTGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTTGTAGGTTTTGAAA
1 GAAGAGTGCCACAGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTTGTAGGACTTAAAA
401695 GGGTGCCACT
66 GGGTGCCACT
401705 AACTTATAGG
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
88 2 0.03
89 45 0.69
90 18 0.28
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.25
Consensus pattern (90 bp):
GAAGAGTGCCACAGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTTGTAGGACTTAAAA
GGGTGCCACTTGCTTGTGGGCTTTG
Found at i:403739 original size:53 final size:53
Alignment explanation
Indices: 403677--403782 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
403667 GGTGCGAACT
403677 GAGGTCCGATAGGCATGAAGTGCAAAAGGTAGCTTCTCATGCCAGTCTTTGTA
1 GAGGTCCGATAGGCATGAAGTGCAAAAGGTAGCTTCTCATGCCAGTCTTTGTA
403730 GAGGTCCGATAGGCATGAAGTGCAAAAGGTAGCTTCTCATGCCAGTCTTTGTA
1 GAGGTCCGATAGGCATGAAGTGCAAAAGGTAGCTTCTCATGCCAGTCTTTGTA
403783 AGTCTCGACC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (53 bp):
GAGGTCCGATAGGCATGAAGTGCAAAAGGTAGCTTCTCATGCCAGTCTTTGTA
Found at i:415648 original size:51 final size:51
Alignment explanation
Indices: 415593--415724 Score: 153
Period size: 50 Copynumber: 2.6 Consensus size: 51
415583 ATTTGCCTGT
* * * *
415593 ATGTATCGATATATTGAAT-AATGTATCAATAGATCTGGGTAAAATACCCAG
1 ATGTATCGATACAATGAATAAATGTATCAATACAT-TGGGTAAAAAACCCAG
* * * * *
415644 ATGTATCGATACAATG-ATCAATGTATCGATACATTTGGTAAAAAATCTAG
1 ATGTATCGATACAATGAATAAATGTATCAATACATTGGGTAAAAAACCCAG
415694 ATGTATCGATACAAT-AATAAATGTATCAATA
1 ATGTATCGATACAATGAATAAATGTATCAATA
415725 AATGTCCTTG
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
50 42 0.61
51 27 0.39
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.32
Consensus pattern (51 bp):
ATGTATCGATACAATGAATAAATGTATCAATACATTGGGTAAAAAACCCAG
Found at i:415791 original size:19 final size:20
Alignment explanation
Indices: 415762--415820 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
415752 TTTGTATCAA
415762 TATATTGTATCGATACAAAAC
1 TATA-TGTATCGATACAAAAC
**
415783 T-TATGTATCGATACATTTAC
1 TATATGTATCGATACA-AAAC
*
415803 TATTTGTATCGATACAAA
1 TATATGTATCGATACAAA
415821 TTGTTGGAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
19 12 0.39
20 5 0.16
21 14 0.45
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (20 bp):
TATATGTATCGATACAAAAC
Found at i:417159 original size:56 final size:54
Alignment explanation
Indices: 417067--417270 Score: 167
Period size: 58 Copynumber: 3.6 Consensus size: 54
417057 CATAATAATT
* * * *
417067 CCTA-ATTCATGGAAAATGACATAACTATCTCTAAAATGTATGAAATTGCATGAATC
1 CCTAGATT-ATGGAAAATGACCTAAATAACTC-AAAAT-TATGAAATTGCATAAATC
* *
417123 CCTAGATTATGGAAAATGACCTAATTAACATCAAAATTTATGAAATTGTATCAAAATC
1 CCTAGATTATGGAAAATGACCTAAATAAC-TCAAAA-TTATGAAATTGCAT--AAATC
* * * * * * *
417181 CGTAGATCATGGAAAATAACCTAAATGACGTCAAAATTCATAAAATTACACCAAAGTC
1 CCTAGATTATGGAAAATGACCTAAATAAC-TCAAAATT-ATGAAATTGCA-TAAA-TC
* *
417239 CCTAGATTATGGAAAATGCCCTAAATGACTCA
1 CCTAGATTATGGAAAATGACCTAAATAACTCA
417271 TATAAAATTG
Statistics
Matches: 121, Mismatches: 19, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
56 38 0.31
57 14 0.12
58 69 0.57
ACGTcount: A:0.43, C:0.17, G:0.12, T:0.27
Consensus pattern (54 bp):
CCTAGATTATGGAAAATGACCTAAATAACTCAAAATTATGAAATTGCATAAATC
Found at i:417265 original size:58 final size:58
Alignment explanation
Indices: 417119--417267 Score: 181
Period size: 58 Copynumber: 2.6 Consensus size: 58
417109 AAATTGCATG
* * * * ** *
417119 AATCCCTAGATTATGGAAAATGACCTAATTAACATCAAAATTTATGAAATTGTATCAA
1 AATCCCTAGATTATGGAAAATGACCTAAATGACATCAAAATTCATAAAATTACACCAA
* * * *
417177 AATCCGTAGATCATGGAAAATAACCTAAATGACGTCAAAATTCATAAAATTACACCAA
1 AATCCCTAGATTATGGAAAATGACCTAAATGACATCAAAATTCATAAAATTACACCAA
* *
417235 AGTCCCTAGATTATGGAAAATGCCCTAAATGAC
1 AATCCCTAGATTATGGAAAATGACCTAAATGAC
417268 TCATATAAAA
Statistics
Matches: 75, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
58 75 1.00
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.26
Consensus pattern (58 bp):
AATCCCTAGATTATGGAAAATGACCTAAATGACATCAAAATTCATAAAATTACACCAA
Found at i:419622 original size:13 final size:13
Alignment explanation
Indices: 419604--419629 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
419594 CAATTTTTTG
419604 TGTATCGATACAT
1 TGTATCGATACAT
419617 TGTATCGATACAT
1 TGTATCGATACAT
419630 ACTTGTTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:420368 original size:21 final size:21
Alignment explanation
Indices: 420327--420370 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
420317 CTCTCCTTTA
* *
420327 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
420348 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
420369 TC
1 TC
420371 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:422194 original size:13 final size:13
Alignment explanation
Indices: 422176--422214 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
422166 ATAATCACCC
422176 TGTATCGATACAA
1 TGTATCGATACAA
422189 TGTATCGATACAA
1 TGTATCGATACAA
422202 TGTATCGATACAA
1 TGTATCGATACAA
422215 AGAAAAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:423862 original size:13 final size:13
Alignment explanation
Indices: 423844--423868 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
423834 ATTACTCAAA
423844 TGTATCGATACAT
1 TGTATCGATACAT
423857 TGTATCGATACA
1 TGTATCGATACA
423869 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:423932 original size:51 final size:52
Alignment explanation
Indices: 423877--424006 Score: 210
Period size: 52 Copynumber: 2.5 Consensus size: 52
423867 CACTGATCTT
*
423877 TGTATCGATACATGCAGGC-AATTTTCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATT-AAA
*
423928 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATTAAA
*
423980 TGTATCGATACATACAGGCAAATTTTC
1 TGTATCGATACATGCAGGCAAATTTTC
424007 ATATTTCGGG
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
51 19 0.26
52 51 0.70
53 3 0.04
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATTAAA
Found at i:430889 original size:13 final size:13
Alignment explanation
Indices: 430867--430908 Score: 59
Period size: 12 Copynumber: 3.2 Consensus size: 13
430857 AGTAAAAAGT
430867 AAACACAAAAAACA
1 AAACA-AAAAAACA
430881 AAACAAAAAAACA
1 AAACAAAAAAACA
*
430894 AAA-AAAAAAAGA
1 AAACAAAAAAACA
430906 AAA
1 AAA
430909 AGTGCAAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 11 0.41
13 11 0.41
14 5 0.19
ACGTcount: A:0.86, C:0.12, G:0.02, T:0.00
Consensus pattern (13 bp):
AAACAAAAAAACA
Found at i:430894 original size:20 final size:20
Alignment explanation
Indices: 430871--430909 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
430861 AAAAGTAAAC
*
430871 ACAAAAAACAAAACAAAAAA
1 ACAAAAAAAAAAACAAAAAA
*
430891 ACAAAAAAAAAAAGAAAAA
1 ACAAAAAAAAAAACAAAAA
430910 GTGCAAAGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.87, C:0.10, G:0.03, T:0.00
Consensus pattern (20 bp):
ACAAAAAAAAAAACAAAAAA
Found at i:432080 original size:31 final size:30
Alignment explanation
Indices: 432037--432215 Score: 189
Period size: 31 Copynumber: 5.8 Consensus size: 30
432027 TTTTAAATTT
* *
432037 CACGACTAAGTGGCAATCTCTTCTCAAAGTC
1 CACGACTCAGTGGC-ATCTTTTCTCAAAGTC
* *
432068 CACGACTCAGTGGCAATCTCTGCTCAAAGTC
1 CACGACTCAGTGGC-ATCTTTTCTCAAAGTC
* *
432099 CACGACCCAGTGGCATCCTTTTCTTTAAAGTC
1 CACGACTCAGTGGCAT-CTTTTC-TCAAAGTC
432131 CACGACTCAGTGGCAT-TTTATCTCAAAGTC
1 CACGACTCAGTGGCATCTTT-TCTCAAAGTC
* *
432161 CACGACTCAGTGGCATTTTTTCTTCAAAGCC
1 CACGACTCAGTGGCATCTTTTC-TCAAAGTC
* * *
432192 CACAACTCCGTGGCACCTTCTTCT
1 CACGACTCAGTGGCATCTT-TTCT
432216 TTTCAAAGCC
Statistics
Matches: 129, Mismatches: 13, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
30 30 0.23
31 74 0.57
32 25 0.19
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.28
Consensus pattern (30 bp):
CACGACTCAGTGGCATCTTTTCTCAAAGTC
Found at i:432224 original size:34 final size:34
Alignment explanation
Indices: 432153--432902 Score: 943
Period size: 34 Copynumber: 22.3 Consensus size: 34
432143 GCATTTTATC
* * * *
432153 TCAAAGTCCACGACTCAGTGGCA--TTTTT-TCT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
*
432184 TCAAAGCCCACAACTCCGTGGCACCTTCTTCTTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
* *
432218 TCAAAGCCCACAACTCCGTGGCGCCTTCTTCTTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
*
432252 TCAAAGCCCACAACTCCGTGGCACTTTTTTCATCTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTC-T-TT
*
432288 T--AAGTCCACAACTCCGTGGCACCTTTTTCTTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
*
432320 TCAAAGCCCACAACTCCGTGGCACTTTTTTCTTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
*
432354 T-AAAGCCCACAACTCCGTGGCACC-TTTTCCTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
*
432386 T-AAAGCCCACAACTCCGTGGCACCTTCTTCTTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
432419 TCAAAGCCCACAACTCCGTGGCACC---TTC-TT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
*
432449 TCAAAGCCCACAACTCCGTGGCACTTTTTTCATCTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTC-T-TT
*
432485 T--AAGTCCACAACTCCGTGGCACCTTTTTCTTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
*
432517 TTAAAGCCCACAACTCCGTGGCACCTTTTTCTGTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCT-TT
*
432552 T-AAAGCTCACAACTCCGTGGCACTCTTTTTCCCTTT
1 TCAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTT
*
432588 TCAAAGCCCACAACTCCGTGGCACTTTTTTCTTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
*
432622 T-AAAGCCCACAACTCCGTGGCACC-TTTTCCTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
* *
432654 T-AAAGCCCACAACTCTGTGGCACCTTCTTCTTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
*
432687 TCAAAGCCCACAACTCCGTGGCACCTTCTTCTTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
*
432721 TCAAAGCCCACAACTCCGTGGCACTTTTTTCATCTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTC-T-TT
* *
432757 T--AAGTCCACAACTCCGTGGCACCTTCTTCTTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
*
432789 TCAAAGCCCACAACTCCGTGGCACTTTTTTCTTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
432823 T-AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
1 TCAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTT
* * * *
432859 T--AAGTCCACAACTCCGTGGCATCTTTCTCCCTT
1 TCAAAGCCCACAACTCCGTGGCACCTTT-TTCTTT
432892 TCTAAAGCCCA
1 TC-AAAGCCCA
432903 AACAAGTCGG
Statistics
Matches: 640, Mismatches: 44, Indels: 65
0.85 0.06 0.09
Matches are distributed among these distances:
30 26 0.04
31 23 0.04
32 70 0.11
33 94 0.15
34 345 0.54
35 31 0.05
36 28 0.04
37 23 0.04
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.33
Consensus pattern (34 bp):
TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
Found at i:433001 original size:33 final size:33
Alignment explanation
Indices: 432889--433112 Score: 323
Period size: 33 Copynumber: 6.8 Consensus size: 33
432879 ATCTTTCTCC
*
432889 CTTTCTAAAGCCCAAACAAGTCGGTGGCAACC--
1 CTTTC-AAAGCCCACACAAGTCGGTGGCAACCTT
432921 CTTCTCAAAGCCCACACAAGTCGGTGGCAACC--
1 CTT-TCAAAGCCCACACAAGTCGGTGGCAACCTT
432953 CTTTCTAAAGCCCACACAAGTCGGTGGCAACCTT
1 CTTTC-AAAGCCCACACAAGTCGGTGGCAACCTT
432987 CTTTCAAAGCCCACACAAGTCGGTGGCAACCTT
1 CTTTCAAAGCCCACACAAGTCGGTGGCAACCTT
*
433020 CTTCCAAAGCCCACACAAGTCGGTGGCAACCTT
1 CTTTCAAAGCCCACACAAGTCGGTGGCAACCTT
* * *
433053 CTTCCAAAGCCCACACAAGTTGGTGACAACCATT
1 CTTTCAAAGCCCACACAAGTCGGTGGCAACC-TT
*
433087 CTCT-AAAGCCCACACAAGTCGGTGGC
1 CTTTCAAAGCCCACACAAGTCGGTGGC
433113 GACCCTTTAA
Statistics
Matches: 179, Mismatches: 8, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
31 2 0.01
32 57 0.32
33 111 0.62
34 9 0.05
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.19
Consensus pattern (33 bp):
CTTTCAAAGCCCACACAAGTCGGTGGCAACCTT
Found at i:433189 original size:49 final size:48
Alignment explanation
Indices: 433117--433823 Score: 899
Period size: 49 Copynumber: 14.8 Consensus size: 48
433107 GGTGGCGACC
* * * *
433117 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATTTAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC-TTCAT
* *
433166 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTCA-
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCAT
*
433213 CTTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCAC--CA-
1 C-TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCAT
* *
433259 --TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CTTCAT
* * *
433306 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGGACATTGGCACCTCA-
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCAT
*
433353 CTTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCAC--CA-
1 C-TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCAT
* * *
433399 --TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CTTCAT
* *
433446 CTTTAAGTCCAATGTAGCAGGCCTTGACTCAGCACATTGGCACCTTCAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CTTCAT
* *
433495 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CTTCAT
*
433544 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CTTCAT
* * *
433593 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CTTCAT
* *
433642 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCAT
*
433690 CATTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---C--
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCAT
* * *
433733 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C--TT-CAT
*
433785 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
433824 ACATCCTTTT
Statistics
Matches: 590, Mismatches: 45, Indels: 43
0.87 0.07 0.06
Matches are distributed among these distances:
43 112 0.19
44 2 0.00
45 1 0.00
46 7 0.01
47 2 0.00
48 133 0.23
49 297 0.50
50 1 0.00
52 35 0.06
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (48 bp):
CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCAT
Found at i:433371 original size:140 final size:142
Alignment explanation
Indices: 433119--433823 Score: 995
Period size: 140 Copynumber: 5.0 Consensus size: 142
433109 TGGCGACCCT
* * *
433119 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATTTATCTTTAAGTCCAATGTAGC
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGC
433184 TGGCCTTGACTCAGCACATTGGCACC-TCACT-TTTAAGTCCAATGTAGCTGGCCTTGACTCAGC
66 TGGCCTTGACTCAGCACATTGGCACCTTCACTCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGC
433247 ACATTGGCACCA
131 ACATTGGCACCA
433259 TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGC
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGC
*
433324 TGGCCTTGACTCAGGACATTGGCACC-TCACT-TTTAAGTCCAATGTAGCTGGCCTTGACTCAGC
66 TGGCCTTGACTCAGCACATTGGCACCTTCACTCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGC
433387 ACATTGGCACCA
131 ACATTGGCACCA
*
433399 TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGC
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGC
*
433464 AGGCCTTGACTCAGCACATTGGCACCTTCA-TCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGC
66 TGGCCTTGACTCAGCACATTGGCACCTTCACTCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGC
433528 ACATTGGCACCTTTA
131 ACATTGGCACC---A
* * * *
433543 TCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATAT
1 ---TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
* * * *
433608 AGCTGGCCTTGAATCAGCATATTGGCACCTTTA-TCTTTAAGTCCAATGTAGCTGGCCTTGAATC
63 AGCTGGCCTTGACTCAGCACATTGGCACCTTCACTCTTTAAGTCCAATGTAGCTGGCCTTGACTC
433672 AGCACATTGGCACCTCACCA
128 AGCACATTGG-----CACCA
* * *
433692 TTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATAGC
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGC
* * * * *
433751 TGGCCTTGAATCAGCATATCGGCACCTTTTC-CATCTTTAAGTTCAATGTAGCTGGCCTTGAATC
66 TGGCCTTGACTCAGCACATTGGCACC--TTCAC-TCTTTAAGTCCAATGTAGCTGGCCTTGACTC
433815 AGCACATTG
128 AGCACATTG
433824 ACATCCTTTT
Statistics
Matches: 527, Mismatches: 21, Indels: 31
0.91 0.04 0.05
Matches are distributed among these distances:
140 268 0.51
141 46 0.09
142 3 0.01
143 39 0.07
144 1 0.00
146 39 0.07
147 126 0.24
149 1 0.00
152 4 0.01
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (142 bp):
TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGC
TGGCCTTGACTCAGCACATTGGCACCTTCACTCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGC
ACATTGGCACCA
Found at i:433724 original size:336 final size:331
Alignment explanation
Indices: 433117--433823 Score: 1159
Period size: 336 Copynumber: 2.1 Consensus size: 331
433107 GGTGGCGACC
* * * *
433117 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATTTATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACATTCATCTTTAAGTCCAATGTA
433182 GCTGGCCTTGACTCAGCACATTGGCACCTCACTTTTAAGTCCAATGTAGCTGGCCTTGACTCAGC
66 GCTGGCCTTGACTCAGCACATTGGCACCTCACTTTTAAGTCCAATGTAGCTGGCCTTGACTCAGC
433247 ACATTGGCACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAA
131 ACATTGGCACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAA
* * **
433312 GTCCAATGTAGCTGGCCTTGACTCAGGACATTGGCACCTCACTTTTAAGTCCAATGTAGCTGGCC
196 GTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCATTAAGTCCAATGTAGCTGGCC
* *
433377 TTGACTCAGCACATTGGCACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-
261 TTGAATCAGCACATTGGCACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCT
433441 TTT-AT
326 TTTCAT
* * *
433446 CTTTAAGTCCAATGTAGCAGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACATTCATCTTTAAGTCCAATGTA
*
433511 GCTGGCCTTGACTCAGCACATTGGCACCTTTA-TCTTTAAGTCCAATGTAGCTGGCCTTGACTCA
66 GCTGGCCTTGACTCAGCACATTGGCACC-TCACT-TTTAAGTCCAATGTAGCTGGCCTTGACTCA
*
433575 GCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
129 GCACATTGGCA-C--CA---TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTC
433640 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCATTAAGTCCAATGT
188 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCATTAAGTCCAATGT
*
433705 AGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
253 AGCTGGCCTTGAATCAGCACATTGGCACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
433770 CGGCACCTTTTCCAT
318 CGGCACCTTTT-CAT
*
433785 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
433824 ACATCCTTTT
Statistics
Matches: 348, Mismatches: 19, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
329 87 0.25
330 43 0.12
331 1 0.00
333 2 0.01
336 174 0.50
337 3 0.01
339 38 0.11
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (331 bp):
CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACATTCATCTTTAAGTCCAATGTA
GCTGGCCTTGACTCAGCACATTGGCACCTCACTTTTAAGTCCAATGTAGCTGGCCTTGACTCAGC
ACATTGGCACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAA
GTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCATTAAGTCCAATGTAGCTGGCC
TTGAATCAGCACATTGGCACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCT
TTTCAT
Found at i:433869 original size:56 final size:52
Alignment explanation
Indices: 433733--433871 Score: 161
Period size: 52 Copynumber: 2.6 Consensus size: 52
433723 ACATTGGCAC
* *
433733 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCCAT
* * *
433785 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACA-CC-TTTTC--CAT
* * * *
433841 CTTTAAGCCCAATATCGTTGGCCGTGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
433872 ACATATTGGC
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
52 37 0.51
53 2 0.03
54 5 0.07
56 28 0.39
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCCAT
Found at i:434718 original size:13 final size:13
Alignment explanation
Indices: 434700--434724 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
434690 CATAAAATGT
434700 TGTATCGATACAA
1 TGTATCGATACAA
434713 TGTATCGATACA
1 TGTATCGATACA
434725 TATTTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:434806 original size:13 final size:13
Alignment explanation
Indices: 434788--434812 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
434778 ATTACTCAAA
434788 TGTATCGATACAT
1 TGTATCGATACAT
434801 TGTATCGATACA
1 TGTATCGATACA
434813 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:434863 original size:51 final size:49
Alignment explanation
Indices: 434801--434944 Score: 182
Period size: 52 Copynumber: 2.8 Consensus size: 49
434791 ATCGATACAT
*
434801 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAATTTGCCCAGA
1 TGTATCGATACACT-AT-TATGTATCGATACATGCAGGCAATTTGCCCAGA
*
434852 TGTATCGATACA-TTTTAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTATT---ATGTATCGATACATGCAGGC-AATTTGCCCAGA
*
434904 TGTATCGATACACTATTAAATGTATCGATACATACAGGCAA
1 TGTATCGATACACTATT--ATGTATCGATACATGCAGGCAA
434945 ATTTTCATAT
Statistics
Matches: 84, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
48 1 0.01
49 1 0.01
50 1 0.01
51 33 0.39
52 45 0.54
53 3 0.04
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (49 bp):
TGTATCGATACACTATTATGTATCGATACATGCAGGCAATTTGCCCAGA
Found at i:434914 original size:52 final size:52
Alignment explanation
Indices: 434821--434948 Score: 215
Period size: 52 Copynumber: 2.5 Consensus size: 52
434811 CACTGATCTT
*
434821 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATT-AAA
434872 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
*
434924 TGTATCGATACATACAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
434949 TCATATTTCG
Statistics
Matches: 73, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
51 19 0.26
52 51 0.70
53 3 0.04
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:441833 original size:13 final size:13
Alignment explanation
Indices: 441811--441846 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
441801 AGTAAAAAGT
441811 AAACACAAAAAACA
1 AAACA-AAAAAACA
441825 AAACAAAAAAACA
1 AAACAAAAAAACA
441838 AAA-AAAAAA
1 AAACAAAAAA
441847 GAAAAAGTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 6 0.27
13 11 0.50
14 5 0.23
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (13 bp):
AAACAAAAAAACA
Found at i:441838 original size:20 final size:19
Alignment explanation
Indices: 441815--441852 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
441805 AAAAGTAAAC
441815 ACAAAAAACAAAACAAAAAA
1 ACAAAAAA-AAAACAAAAAA
*
441835 ACAAAAAAAAAAGAAAAA
1 ACAAAAAAAAAACAAAAA
441853 GTGCAAAGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.87, C:0.11, G:0.03, T:0.00
Consensus pattern (19 bp):
ACAAAAAAAAAACAAAAAA
Found at i:443191 original size:31 final size:30
Alignment explanation
Indices: 443153--443370 Score: 222
Period size: 31 Copynumber: 7.0 Consensus size: 30
443143 ATACCTTTTT
* *
443153 AAAGTCCACGACTAAGTGGCAATCTCTTCTC
1 AAAGTCCACGACTCAGTGGC-ATCTTTTCTC
* *
443184 AAAGTCCACGACTCAGTGGCAATCTCTGCTC
1 AAAGTCCACGACTCAGTGGC-ATCTTTTCTC
* *
443215 AAAGTCCACGACCCAGTGGCATCCTTTTCTTT
1 AAAGTCCACGACTCAGTGGCAT-CTTTTC-TC
*
443247 AAAGTCCACGACTCAGTGGCATCCTTTATCTTT
1 AAAGTCCACGACTCAGTGGCAT-CTTT-TC-TC
443280 AAAGTCCACGACTCAGTGGCAT-TTTATCTC
1 AAAGTCCACGACTCAGTGGCATCTTT-TCTC
* *
443310 AAAGTTCACGACTCAGTGGCATTTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATCTTTTC-TC
* * * *
443341 AAAGCCCACAACTCCGTGGCACCTTCTTCT
1 AAAGTCCACGACTCAGTGGCATCTT-TTCT
443371 TTTCAAAGCC
Statistics
Matches: 166, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
30 26 0.16
31 83 0.50
32 30 0.18
33 27 0.16
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (30 bp):
AAAGTCCACGACTCAGTGGCATCTTTTCTC
Found at i:443331 original size:63 final size:61
Alignment explanation
Indices: 443153--443370 Score: 233
Period size: 63 Copynumber: 3.5 Consensus size: 61
443143 ATACCTTTTT
* * * *
443153 AAAGTCCACGACTAAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCAATCTCTGC-TC
1 AAAGTCCACGACTCAGTGGC-ATCTTTTCTCAAAGTCCACGACTCAGTGGC-ATCTTTTCTTC
* * *
443215 AAAGTCCACGACCCAGTGGCATCCTTTTCTTTAAAGTCCACGACTCAGTGGCATCCTTTATCTTT
1 AAAGTCCACGACTCAGTGGCAT-CTTTTC-TCAAAGTCCACGACTCAGTGGCAT-CTTT-TCTTC
* *
443280 AAAGTCCACGACTCAGTGGCAT-TTTATCTCAAAGTTCACGACTCAGTGGCATTTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATCTTT-TCTCAAAGTCCACGACTCAGTGGCATCTTTTCTTC
* * * *
443341 AAAGCCCACAACTCCGTGGCACCTTCTTCT
1 AAAGTCCACGACTCAGTGGCATCTT-TTCT
443371 TTTCAAAGCC
Statistics
Matches: 132, Mismatches: 16, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
61 24 0.18
62 33 0.25
63 50 0.38
64 3 0.02
65 22 0.17
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (61 bp):
AAAGTCCACGACTCAGTGGCATCTTTTCTCAAAGTCCACGACTCAGTGGCATCTTTTCTTC
Found at i:443337 original size:94 final size:94
Alignment explanation
Indices: 443150--443370 Score: 261
Period size: 94 Copynumber: 2.4 Consensus size: 94
443140 CAAATACCTT
* * *
443150 TTTAAAGTCCACGACTAAGTGGCAAT-CTCTTCTCAAAGTCCACGACTCAGTGGCAATCTCTGCT
1 TTTAAAGTCCACGACTCAGTGGC-ATCCTTTTCTCAAAGTCCACGACTCAGTGGCAATCTATGCT
443214 CAAAGTCCACGACCCAGTGGCATCCTTTTC
65 CAAAGTCCACGACCCAGTGGCATCCTTTTC
* * *
443244 TTTAAAGTCCACGACTCAGTGGCATCCTTTATCTTTAAAGTCCACGACTCAGTGGCATTTTAT-C
1 TTTAAAGTCCACGACTCAGTGGCATCCTTT-TC-TCAAAGTCCACGACTCAGTGGCAATCTATGC
* * *
443308 TCAAAGTTCACGACTCAGTGGCAT-TTTTTC
64 TCAAAGTCCACGACCCAGTGGCATCCTTTTC
* * * *
443338 TTCAAAGCCCACAACTCCGTGGCA-CCTTCTTCT
1 TTTAAAGTCCACGACTCAGTGGCATCCTT-TTCT
443371 TTTCAAAGCC
Statistics
Matches: 110, Mismatches: 13, Indels: 10
0.83 0.10 0.08
Matches are distributed among these distances:
92 1 0.01
93 8 0.07
94 51 0.46
95 25 0.23
96 25 0.23
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.30
Consensus pattern (94 bp):
TTTAAAGTCCACGACTCAGTGGCATCCTTTTCTCAAAGTCCACGACTCAGTGGCAATCTATGCTC
AAAGTCCACGACCCAGTGGCATCCTTTTC
Found at i:443377 original size:34 final size:34
Alignment explanation
Indices: 443338--444098 Score: 984
Period size: 34 Copynumber: 22.4 Consensus size: 34
443328 GCATTTTTTC
*
443338 TTCAAAGCCCACAACTCCGTGGCACCTTCTTCTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTT
* *
443372 TTCAAAGCCCACAACTCCGTGGCGCCTTCTTCTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTT
*
443406 TTCAAAGCCCACAACTCCGTGGCACTTTTTTCATCT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTC-T-T
*
443442 TT--AAGTCCACAACTCCGTGGCACCTTTTTCTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTT
*
443474 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTGT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCT-T
443509 TT-AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTT
1 TTCAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTT
*
443545 TTCAAAGCCCACAACTCCGTGGCACTTTTTTCTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTT
*
443579 TT-AAAGCCCACAACTCCGTGGCACC-TTTTCCT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTT
*
443611 TT-AAAGCCCACAACTCCGTGGCACCTTCTTCTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTT
* *
443644 TTCAGAGCCCACAACTCCGTGGAACC---TTC-T
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTT
*
443674 TTCAAAGCCCACAACTCCGTGGCACTTTTTTCATCT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTC-T-T
*
443710 TT--AAGTCCACAACTCCGTGGCACCTTTTTCTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTT
*
443742 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTGT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCT-T
*
443777 TT-AAAGCTCACAACTCCGTGGCACTCTTTTTCCCTT
1 TTCAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTT
*
443813 TTCAAAGCCCACAACTCCGTGGCACTTTTTTCTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTT
*
443847 TT-AAAGCCCACAACTCCGTGGCACCTTCTTCTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTT
*
443880 TTCAAAGCCCACAACTCCGTGGCACCTTCTTCTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTT
*
443914 TTCAAAGCCCACAACTCCGTGGCACTTTTTTCATCT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTC-T-T
* *
443950 TT--AAGTCCACAACTCCGTGGCACCTTCTTCTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTT
*
443982 TTCAAAGCCCACAACTCCGTGGCACTTTTTTCTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTT
444016 TT-AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTT
1 TTCAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTT
* * * *
444052 TT--AAGTCCACAACTCCGTGGCATCTTTCTCCCT
1 TTCAAAGCCCACAACTCCGTGGCACCTTT-TTCTT
444085 TTCTAAAGCCCACA
1 TTC-AAAGCCCACA
444099 CAAGTCGGTG
Statistics
Matches: 652, Mismatches: 39, Indels: 70
0.86 0.05 0.09
Matches are distributed among these distances:
30 24 0.04
31 3 0.00
32 40 0.06
33 92 0.14
34 368 0.56
35 40 0.06
36 38 0.06
37 47 0.07
ACGTcount: A:0.21, C:0.35, G:0.12, T:0.33
Consensus pattern (34 bp):
TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTT
Found at i:444195 original size:33 final size:33
Alignment explanation
Indices: 444083--444306 Score: 341
Period size: 33 Copynumber: 6.8 Consensus size: 33
444073 ATCTTTCTCC
444083 CTTTCTAAAGCCCACACAAGTCGGTGGCAACC--
1 CTTTC-AAAGCCCACACAAGTCGGTGGCAACCTT
444115 CTTCTCAAAGCCCACACAAGTCGGTGGCAACC--
1 CTT-TCAAAGCCCACACAAGTCGGTGGCAACCTT
444147 CTTTCTAAAGCCCACACAAGTCGGTGGCAACCTT
1 CTTTC-AAAGCCCACACAAGTCGGTGGCAACCTT
444181 CTTTCAAAGCCCACACAAGTCGGTGGCAACCTT
1 CTTTCAAAGCCCACACAAGTCGGTGGCAACCTT
*
444214 CTTCCAAAGCCCACACAAGTCGGTGGCAACCTT
1 CTTTCAAAGCCCACACAAGTCGGTGGCAACCTT
* *
444247 CTTCCAAAGCCCACACAAGTCGGTGACAACCATT
1 CTTTCAAAGCCCACACAAGTCGGTGGCAACC-TT
*
444281 CTCT-AAAGCCCACACAAGTCGGTGGC
1 CTTTCAAAGCCCACACAAGTCGGTGGC
444307 GACCCTTTAA
Statistics
Matches: 182, Mismatches: 5, Indels: 9
0.93 0.03 0.05
Matches are distributed among these distances:
31 2 0.01
32 58 0.32
33 113 0.62
34 9 0.05
ACGTcount: A:0.28, C:0.35, G:0.18, T:0.19
Consensus pattern (33 bp):
CTTTCAAAGCCCACACAAGTCGGTGGCAACCTT
Found at i:444368 original size:49 final size:49
Alignment explanation
Indices: 444311--445026 Score: 956
Period size: 49 Copynumber: 15.0 Consensus size: 49
444301 GGTGGCGACC
* * *
444311 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
* *
444360 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC-TCA-
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
*
444407 CTTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC---A-
1 C-TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
* * *
444453 --TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
* *
444500 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC-TCA-
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
*
444547 CTTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC---A-
1 C-TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
* *
444593 --TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
* *
444640 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
*
444689 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
* *
444738 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
* *
444787 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
* *
444836 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
*
444884 CATTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-----
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
* * *
444927 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TTT--AT
* *
444979 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CCTTT
445027 TTCATCATCT
Statistics
Matches: 605, Mismatches: 38, Indels: 45
0.88 0.06 0.07
Matches are distributed among these distances:
43 116 0.19
44 1 0.00
46 4 0.01
47 3 0.00
48 134 0.22
49 305 0.50
52 40 0.07
53 2 0.00
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (49 bp):
CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
Found at i:444565 original size:140 final size:142
Alignment explanation
Indices: 444313--445017 Score: 1022
Period size: 140 Copynumber: 5.0 Consensus size: 142
444303 TGGCGACCCT
* *
444313 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGC
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGC
444378 TGGCCTTGACTCAGCACATTGGCACC-TCACT-TTTAAGTCCAATGTAGCTGGCCTTGACTCAGC
66 TGGCCTTGACTCAGCACATTGGCACCTTCACTCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGC
444441 ACATTGGCACCA
131 ACATTGGCACCA
444453 TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGC
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGC
444518 TGGCCTTGACTCAGCACATTGGCACC-TCACT-TTTAAGTCCAATGTAGCTGGCCTTGACTCAGC
66 TGGCCTTGACTCAGCACATTGGCACCTTCACTCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGC
444581 ACATTGGCACCA
131 ACATTGGCACCA
*
444593 TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGC
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGC
444658 TGGCCTTGACTCAGCACATTGGCACCTTCA-TCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGC
66 TGGCCTTGACTCAGCACATTGGCACCTTCACTCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGC
444722 ACATTGGCACCTTTA
131 ACATTGGCACC---A
* * * *
444737 TCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATAT
1 ---TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
* * * *
444802 AGCTGGCCTTGAATCAGCATATTGGCACCTTTA-TCTTTAAGTCCAATGTAGCTGGCCTTGAATC
63 AGCTGGCCTTGACTCAGCACATTGGCACCTTCACTCTTTAAGTCCAATGTAGCTGGCCTTGACTC
444866 AGCACATTGGCACCTCACCA
128 AGCACATTGG-----CACCA
* * *
444886 TTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATAGC
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGC
* * * * *
444945 TGGCCTTGAATCAGCATATCGGCACCTTTTC-CATCTTTAAGTTCAATGTAGCTGGCCTTGAATC
66 TGGCCTTGACTCAGCACATTGGCACC--TTCAC-TCTTTAAGTCCAATGTAGCTGGCCTTGACTC
445009 AGCACATTG
128 AGCACATTG
445018 ACATCCTTTT
Statistics
Matches: 532, Mismatches: 16, Indels: 31
0.92 0.03 0.05
Matches are distributed among these distances:
140 272 0.51
141 46 0.09
142 3 0.01
143 39 0.07
144 1 0.00
146 39 0.07
147 127 0.24
149 1 0.00
152 4 0.01
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (142 bp):
TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGC
TGGCCTTGACTCAGCACATTGGCACCTTCACTCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGC
ACATTGGCACCA
Found at i:445063 original size:56 final size:52
Alignment explanation
Indices: 444927--445065 Score: 161
Period size: 52 Copynumber: 2.6 Consensus size: 52
444917 ACATTGGCAC
* *
444927 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCCAT
* * *
444979 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACA-CC-TTTTC--CAT
* * * *
445035 CTTTAAGCCCAATATCGTTGGCCGTGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
445066 ACATATTGGC
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
52 37 0.51
53 2 0.03
54 5 0.07
56 28 0.39
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCCAT
Done.