Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold15
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: 4011073
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 11440 characters in sequence are not A, C, G, or T
File 3 of 25
Found at i:358507 original size:13 final size:13
Alignment explanation
Indices: 358489--358513 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
358479 CAAAGATGAG
358489 TGTATCGATACAA
1 TGTATCGATACAA
358502 TGTATCGATACA
1 TGTATCGATACA
358514 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:358596 original size:32 final size:32
Alignment explanation
Indices: 358551--358651 Score: 168
Period size: 32 Copynumber: 3.1 Consensus size: 32
358541 TGCAGTAGCT
358551 TACATTGTATCGATACGAA-ACTTATGTATCGA
1 TACATTGTATCGATAC-AACACTTATGTATCGA
*
358583 TACATTGTGTCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
358615 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
358648 TACA
1 TACA
358652 AGACTTTATG
Statistics
Matches: 65, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
31 2 0.03
32 48 0.74
33 15 0.23
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.35
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:358625 original size:13 final size:13
Alignment explanation
Indices: 358575--358631 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
358565 ACGAAACTTA
358575 TGTATCGATACAT
1 TGTATCGATACAT
*
358588 TGTGTCGATACAACACTT
1 TGTATCGAT---ACA--T
358606 ATGTATCGATACAT
1 -TGTATCGATACAT
358620 TGTATCGATACA
1 TGTATCGATACA
358632 ACACTTTATG
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 20 0.56
14 1 0.03
16 6 0.17
18 1 0.03
19 8 0.22
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:358645 original size:20 final size:20
Alignment explanation
Indices: 358620--358672 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
358610 ATCGATACAT
358620 TGTATCGATACAACACTTTA
1 TGTATCGATACAACACTTTA
*
358640 TGTATCGATACAAGACTTTA
1 TGTATCGATACAACACTTTA
358660 TGTATCGATACAA
1 TGTATCGATACAA
358673 ATCGTTTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (20 bp):
TGTATCGATACAACACTTTA
Found at i:359742 original size:49 final size:49
Alignment explanation
Indices: 359474--359944 Score: 434
Period size: 49 Copynumber: 10.0 Consensus size: 49
359464 AGGAATGTTG
* *
359474 AAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAA
1 AAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT-A
* * *
359524 AAGATGACAAAG-GCACTAATGTGCTGATTCAAGGCCAACGATATTGGACTTA
1 AAGATG--AAGGTGC-C-AATGTGCTGATTCAAGGCCAGCTATATTGGACTTA
* * * * **
359576 AAGAAGAAGGTGCCAATGTGTTGATCCAA---C-G--ACATTGGGTTTAA
1 AAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT-A
* * * * *
359620 AAGATGAGGGTGCCAATATGCTGATTTAAGGCCAGCGATATTGTACTT-
1 AAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTA
*
359668 --G--G-AGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTAGACTTA
1 AAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTA
* *
359712 AAGATGAAGGTGCCAATATGCTAATTCAAGGCCAGCTATATTGGACTT-
1 AAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTA
* * *
359760 ---A--AAGGTGCCAATGTGCTGATTCAAGGCCAACTACATTGGACATA
1 AAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTA
* *
359804 AAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-
1 AAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTA
* * *
359852 ---A--AAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGATTTA
1 AAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTA
* * * *
359896 AAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
1 AAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTA
359945 GAAGGGTTGC
Statistics
Matches: 342, Mismatches: 49, Indels: 61
0.76 0.11 0.13
Matches are distributed among these distances:
43 118 0.35
44 25 0.07
45 2 0.01
46 3 0.01
47 3 0.01
48 2 0.01
49 126 0.37
50 17 0.05
51 4 0.01
52 10 0.03
53 32 0.09
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (49 bp):
AAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTA
Found at i:359743 original size:92 final size:92
Alignment explanation
Indices: 359480--359949 Score: 549
Period size: 92 Copynumber: 5.0 Consensus size: 92
359470 GTTGAAGATG
* *
359480 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAGATGACAAAG-GCACTAAT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AAAGAT-A-AAGGTGC-C-AAT
* *
359544 GTGCTGATTCAAGGCCAACGATATTGGACTTAAAGAA
61 ATGCTGATTCAAGGCCAGCGATATTGGACTT-----A
* * ** * *
359581 GAAGGTGCCAATGTGTTGATCCAA---C-G--ACATTGGGTTTAAAAGATGAGGGTGCCAATATG
1 -AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AAAGATAAAGGTGCCAATATG
* * *
359640 CTGATTTAAGGCCAGCGATATTGTACTTG
64 CTGATTCAAGGCCAGCGATATTGGACTTA
* * * *
359669 GAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTAGACTTAAAGATGAAGGTGCCAATATGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCT
* *
359734 AATTCAAGGCCAGCTATATTGGACTTA
66 GATTCAAGGCCAGCGATATTGGACTTA
* *
359761 AAGGTGCCAATGTGCTGATTCAAGGCCAACTACATTGGACATAAAGATAAAGGTGCCAATATGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCT
*
359826 GATTCAAGGCCAGCTATATTGGACTTA
66 GATTCAAGGCCAGCGATATTGGACTTA
* *
359853 AAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGATTTAAAGATAAAGGTGCCAATATGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCT
*
359918 GATTCAAGGCCAGCGATATTGGGCTTA
66 GATTCAAGGCCAGCGATATTGGACTTA
359945 GAAGG
1 -AAGG
359950 GTTGCCACCG
Statistics
Matches: 322, Mismatches: 38, Indels: 25
0.84 0.10 0.06
Matches are distributed among these distances:
87 20 0.06
90 1 0.00
91 1 0.00
92 215 0.67
93 41 0.13
94 3 0.01
95 2 0.01
96 16 0.05
98 1 0.00
99 1 0.00
102 21 0.07
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.26
Consensus pattern (92 bp):
AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCT
GATTCAAGGCCAGCGATATTGGACTTA
Found at i:359988 original size:33 final size:33
Alignment explanation
Indices: 359944--360233 Score: 407
Period size: 33 Copynumber: 8.9 Consensus size: 33
359934 TATTGGGCTT
359944 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
359977 AGAATGGTTGCCA-CGAACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCG-ACTTGTGTGGGCTTTAG
*
360010 AG-AGGGTTGCCACCAACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
360041 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
360074 AG--GGGATTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAG
360106 ACGAA-GGTTGCCACCGACTTGTGTGGGCTTT-G
1 A-GAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
360138 AG-GGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* * *
360170 AAAATGGTTGCCACCGACTTGTGTGGGCTTTGG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* * *
360203 AAAAAGGTTGCCACCAACTTGTGTGGGCTTT
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT
360234 GAAAAGAAAA
Statistics
Matches: 235, Mismatches: 11, Indels: 22
0.88 0.04 0.08
Matches are distributed among these distances:
31 33 0.14
32 84 0.36
33 116 0.49
34 2 0.01
ACGTcount: A:0.18, C:0.19, G:0.34, T:0.29
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:360060 original size:64 final size:65
Alignment explanation
Indices: 359937--360233 Score: 426
Period size: 64 Copynumber: 4.6 Consensus size: 65
359927 CCAGCGATAT
*
359937 TGGGC-TTAGA-AGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAATGGTTGCCACGAACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAATGGTTGCCACCAACTTGTG
* *
360000 TGGGCTTTAGAGAGGGTTGCCACCAACTTGTGTGGGCTTT-GAGAAGGGTTGCCACCAACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAATGGTTGCCACCAACTTGTG
*
360064 TGGGCTTTAGAG-GGGATTGCCACCGACTTGTGTGGGCTTTAGACGAA-GGTTGCCACCGACTTG
1 TGGGCTTTAGAGAGGG-TTGCCACCGACTTGTGTGGGCTTTAGA-GAATGGTTGCCACCAACTTG
360127 TG
64 TG
* * *
360129 TGGGCTTT-GAGGGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAATGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAATGGTTGCCACCAACTTGTG
* * * *
360193 TGGGCTTTGGAAAAAGGTTGCCACCAACTTGTGTGGGCTTT
1 TGGGCTTTAG-AGAGGGTTGCCACCGACTTGTGTGGGCTTT
360234 GAAAAGAAAA
Statistics
Matches: 215, Mismatches: 10, Indels: 15
0.90 0.04 0.06
Matches are distributed among these distances:
63 10 0.05
64 118 0.55
65 58 0.27
66 29 0.13
ACGTcount: A:0.18, C:0.19, G:0.35, T:0.29
Consensus pattern (65 bp):
TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAATGGTTGCCACCAACTTGTG
Found at i:360115 original size:97 final size:95
Alignment explanation
Indices: 359937--360235 Score: 426
Period size: 97 Copynumber: 3.1 Consensus size: 95
359927 CCAGCGATAT
359937 TGGGC-TT-AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAATGGTTGCCA-CGAACTTGT
1 TGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAG--TGGTTGCCACCG-ACTTGT
*
359999 GTGGGCTTTAGAGAGGGTTGCCACCAACTTGTG
63 GTGGGCTTTAGAGAAGGTTGCCACCAACTTGTG
* *
360032 TGGGCTTTGAGAAGGGTTGCCACCAACTTGTGTGGGCTTTAGAGGGGATTGCCACCGACTTGTGT
1 TGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGTGG-TTGCCACCGACTTGTGT
*
360097 GGGCTTTAGACGAAGGTTGCCACCGACTTGTG
65 GGGCTTTAGA-GAAGGTTGCCACCAACTTGTG
* *
360129 TGGGCTTTGAG-GGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAATGGTTGCCACCGACTTGTG
1 TGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG--AGTGGTTGCCACCGACTTGTG
* *
360193 TGGGCTTTGGAAAAAGGTTGCCACCAACTTGTG
64 TGGGCTTTAG-AGAAGGTTGCCACCAACTTGTG
360226 TGGGCTTTGA
1 TGGGCTTTGA
360236 AAAGAAAAAG
Statistics
Matches: 185, Mismatches: 11, Indels: 14
0.88 0.05 0.07
Matches are distributed among these distances:
95 7 0.04
96 54 0.29
97 120 0.65
98 4 0.02
ACGTcount: A:0.18, C:0.18, G:0.35, T:0.29
Consensus pattern (95 bp):
TGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGTGGTTGCCACCGACTTGTGTG
GGCTTTAGAGAAGGTTGCCACCAACTTGTG
Found at i:360324 original size:26 final size:26
Alignment explanation
Indices: 360295--360353 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
360285 TTTGAAAAGG
*
360295 AAAAGGTGCCACGGAGTTGTGGGCTT
1 AAAAGGTGCCACGGAGTTGTGGACTT
* * *
360321 AAAAGGGTGTCATGGGGTTGTGGACTT
1 AAAA-GGTGCCACGGAGTTGTGGACTT
*
360348 AGAAGG
1 AAAAGG
360354 AAAAAGAGTG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 6 0.22
27 21 0.78
ACGTcount: A:0.25, C:0.10, G:0.41, T:0.24
Consensus pattern (26 bp):
AAAAGGTGCCACGGAGTTGTGGACTT
Found at i:360484 original size:156 final size:155
Alignment explanation
Indices: 360292--360628 Score: 387
Period size: 156 Copynumber: 2.2 Consensus size: 155
360282 GGCTTTGAAA
** * **** *
360292 AGGAAAAGG-TGCCACGGAGTTGTGGGCTTAAAAGGGTGTCATGGGGTTGTGGACTTAGAAGGAA
1 AGGAAAAGGATGCCACTAAGTTGTGGGCTTAAAAGGGTGCCACAAAGTTGTGGACTTAAAAGG-A
* * *
360356 AAAGAGTGCCACGGAGTCGTGGGCTTAAAAAGAAAAAAGG-TGCCACGGAGTCGTGGACTTTGA-
65 AAAGAGTGCCACAGAGTCGTGGGCTT-AAAAG--AAAAGGATGCCACGAAGTCATGGACTTTGAG
* * *
360419 AGAAAGGATGCCACTGAGTCGTGGACTTT
127 ACAAAAGATGCCACTGAGTCATGGACTTT
360448 -GG-AAAGAGATGCCACTAAGTTGTGGGCTTAAAAGGGTGCCACAAAGTTGTGGACTTAAAAGGA
1 AGGAAAAG-GATGCCACTAAGTTGTGGGCTTAAAAGGGTGCCACAAAGTTGTGGACTTAAAAGGA
* *** *
360511 AAAGAGTGCCACAGAGTTGTGGGCTTTGTAGAAAAGGATGCCACTAAGTCATGGACTTTGAGACA
65 AAAGAGTGCCACAGAGTCGTGGGCTTAAAAGAAAAGGATGCCACGAAGTCATGGACTTTGAGACA
*
360576 AAAGATGCCACTGAGTCATGGGCTTT
130 AAAGATGCCACTGAGTCATGGACTTT
* *
360602 GAGGAAAAGGATGCCACTGAGTCGTGG
1 -AGGAAAAGGATGCCACTAAGTTGTGG
360629 ACTTTGAAGA
Statistics
Matches: 152, Mismatches: 22, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
152 6 0.04
153 20 0.13
154 31 0.20
155 28 0.18
156 63 0.41
157 4 0.03
ACGTcount: A:0.31, C:0.14, G:0.34, T:0.21
Consensus pattern (155 bp):
AGGAAAAGGATGCCACTAAGTTGTGGGCTTAAAAGGGTGCCACAAAGTTGTGGACTTAAAAGGAA
AAGAGTGCCACAGAGTCGTGGGCTTAAAAGAAAAGGATGCCACGAAGTCATGGACTTTGAGACAA
AAGATGCCACTGAGTCATGGACTTT
Found at i:360494 original size:27 final size:27
Alignment explanation
Indices: 360457--360509 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
360447 TGGAAAGAGA
* *
360457 TGCCACTAAGTTGTGGGCTTAAAAGGG
1 TGCCACAAAGTTGTGGACTTAAAAGGG
360484 TGCCACAAAGTTGTGGACTTAAAAGG
1 TGCCACAAAGTTGTGGACTTAAAAGG
360510 AAAAGAGTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (27 bp):
TGCCACAAAGTTGTGGACTTAAAAGGG
Found at i:360520 original size:33 final size:33
Alignment explanation
Indices: 360337--360532 Score: 121
Period size: 34 Copynumber: 6.2 Consensus size: 33
360327 GTGTCATGGG
* *
360337 GTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGA
1 GTTGTGGACTTAAAAGG-AAAAGAGTGCCACAGA
* * * * *
360371 GTCGTGGGCTTAAAAAGAAAAAAGGTGCCACGGA
1 GTTGTGGACTTAAAAGGAAAAGA-GTGCCACAGA
* ** * *
360405 GTCGTGGACTTTGAA-GAAAGGA-TGCCACTGA
1 GTTGTGGACTTAAAAGGAAAAGAGTGCCACAGA
* *
360436 GTCGTGGACTT---TGG-AAAGAGATGCCACTA-A
1 GTTGTGGACTTAAAAGGAAAAGAG-TGCCAC-AGA
* *
360466 GTTGTGGGCTTAAAA-G----G-GTGCCACAAA
1 GTTGTGGACTTAAAAGGAAAAGAGTGCCACAGA
360493 GTTGTGGACTTAAAAGGAAAAGAGTGCCACAGA
1 GTTGTGGACTTAAAAGGAAAAGAGTGCCACAGA
360526 GTTGTGG
1 GTTGTGG
360533 GCTTTGTAGA
Statistics
Matches: 128, Mismatches: 19, Indels: 31
0.72 0.11 0.17
Matches are distributed among these distances:
26 1 0.01
27 21 0.16
28 6 0.05
29 2 0.02
30 16 0.12
31 19 0.15
32 2 0.02
33 26 0.20
34 35 0.27
ACGTcount: A:0.33, C:0.14, G:0.33, T:0.20
Consensus pattern (33 bp):
GTTGTGGACTTAAAAGGAAAAGAGTGCCACAGA
Found at i:360553 original size:32 final size:31
Alignment explanation
Indices: 360390--360702 Score: 236
Period size: 32 Copynumber: 10.1 Consensus size: 31
360380 TTAAAAAGAA
*
360390 AAAAGG-TGCCACGGAGTCGTGGACTTTGA-
1 AAAAGGATGCCACAGAGTCGTGGACTTTGAG
*
360419 AGAAAGGATGCCACTGAGTCGTGGACTTTG-G
1 A-AAAGGATGCCACAGAGTCGTGGACTTTGAG
* *
360450 -AAAGAGATGCCACTA-AGTTGTGGGC-TT---
1 AAAAG-GATGCCAC-AGAGTCGTGGACTTTGAG
* * * **
360477 AAAAGGGTGCCACAAAGTTGTGGACTTAAAAGG
1 AAAAGGATGCCACAGAGTCGTGGACTT-TGA-G
* *
360510 AAAA-GAGTGCCACAGAGTTGTGGGCTTTGTAG
1 AAAAGGA-TGCCACAGAGTCGTGGACTTTG-AG
*
360542 AAAAGGATGCCACTA-AGTCATGGACTTTGAG
1 AAAAGGATGCCAC-AGAGTCGTGGACTTTGAG
* * * *
360573 ACAAAAGATGCCACTGAGTCATGGGCTTTGAGG
1 A-AAAGGATGCCACAGAGTCGTGGACTTTGA-G
*
360606 AAAAGGATGCCACTGAGTCGTGGACTTTGAAG
1 AAAAGGATGCCACAGAGTCGTGGACTTTG-AG
*
360638 AAAAGGATGCCACTGAGTCGTGGACTTTGAG
1 AAAAGGATGCCACAGAGTCGTGGACTTTGAG
* * *
360669 ACAAAAGATGCCACTA-AGTCATGGACTTTAAG
1 A-AAAGGATGCCAC-AGAGTCGTGGACTTTGAG
360701 AA
1 AA
360703 GGTATTTGAA
Statistics
Matches: 236, Mismatches: 25, Indels: 44
0.77 0.08 0.14
Matches are distributed among these distances:
26 1 0.00
27 16 0.07
28 5 0.02
29 7 0.03
30 21 0.09
31 28 0.12
32 129 0.55
33 29 0.12
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.22
Consensus pattern (31 bp):
AAAAGGATGCCACAGAGTCGTGGACTTTGAG
Found at i:360617 original size:96 final size:96
Alignment explanation
Indices: 360390--360697 Score: 294
Period size: 96 Copynumber: 3.3 Consensus size: 96
360380 TTAAAAAGAA
* ** * * * *
360390 AAAAGGTGCCACGGAGTCGTGGACTTTGAAGAAAGGA-TGCCACTGAGTCGTGGACTTTG--G-A
1 AAAAGATGCCACTAAGTCATGGACTTTGAGGAAAAGAGTGCCACAGAGTCGTGGACTTTGAAGAA
** *
360451 AAGAGATGCCACTAAGTTGTGGGC-TT---A-
66 AAG-GATGCCACTAAGTCATGGACTTTGAGAC
* * * ** ** * * *
360478 AAAGGGTGCCACAAAGTTGTGGACTTAAAAGGAAAAGAGTGCCACAGAGTTGTGGGCTTTGTAGA
1 AAAAGATGCCACTAAGTCATGGACTT-TGAGGAAAAGAGTGCCACAGAGTCGTGGACTTTGAAGA
360543 AAAGGATGCCACTAAGTCATGGACTTTGAGAC
65 AAAGGATGCCACTAAGTCATGGACTTTGAGAC
* * *
360575 AAAAGATGCCACTGAGTCATGGGCTTTGAGGAAAAG-GATGCCACTGAGTCGTGGACTTTGAAGA
1 AAAAGATGCCACTAAGTCATGGACTTTGAGGAAAAGAG-TGCCACAGAGTCGTGGACTTTGAAGA
* *
360639 AAAGGATGCCACTGAGTCGTGGACTTTGAGAC
65 AAAGGATGCCACTAAGTCATGGACTTTGAGAC
360671 AAAAGATGCCACTAAGTCATGGACTTT
1 AAAAGATGCCACTAAGTCATGGACTTT
360698 AAGAAGGTAT
Statistics
Matches: 178, Mismatches: 31, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
88 22 0.12
89 7 0.04
90 19 0.11
92 18 0.10
93 6 0.03
95 1 0.01
96 86 0.48
97 19 0.11
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.22
Consensus pattern (96 bp):
AAAAGATGCCACTAAGTCATGGACTTTGAGGAAAAGAGTGCCACAGAGTCGTGGACTTTGAAGAA
AAGGATGCCACTAAGTCATGGACTTTGAGAC
Found at i:360618 original size:64 final size:62
Alignment explanation
Indices: 360389--360702 Score: 307
Period size: 64 Copynumber: 5.0 Consensus size: 62
360379 CTTAAAAAGA
* * * *
360389 AAAAAGGTGCCACGGAGTCGTGGACTTTGA-AGAAAGGATGCCACTGAGTCGTGGACTTTG-G
1 AAAAAGATGCCACTGAGTCGTGGGCTTTGAGA-AAAGGATGCCACTAAGTCGTGGACTTTGAG
* * * * * * **
360450 AAAGAGATGCCACTAAGTTGTGGGC-TT---AAAAGGGTGCCACAAAGTTGTGGACTTAAAAG
1 AAAAAGATGCCACTGAGTCGTGGGCTTTGAGAAAAGGATGCCACTAAGTCGTGGACTT-TGAG
* * * *
360509 GAAAAGAGTGCCACAGAGTTGTGGGCTTTGTAGAAAAGGATGCCACTAAGTCATGGACTTTGAG
1 AAAAAGA-TGCCACTGAGTCGTGGGCTTTG-AGAAAAGGATGCCACTAAGTCGTGGACTTTGAG
* *
360573 ACAAAAGATGCCACTGAGTCATGGGCTTTGAGGAAAAGGATGCCACTGAGTCGTGGACTTTGAAG
1 A-AAAAGATGCCACTGAGTCGTGGGCTTTGA-GAAAAGGATGCCACTAAGTCGTGGACTTTG-AG
* * * * *
360638 AAAAGGATGCCACTGAGTCGTGGACTTTGAGACAAAAGATGCCACTAAGTCATGGACTTTAAG
1 AAAAAGATGCCACTGAGTCGTGGGCTTTGAGA-AAAGGATGCCACTAAGTCGTGGACTTTGAG
360701 AA
1 AA
360703 GGTATTTGAA
Statistics
Matches: 206, Mismatches: 35, Indels: 22
0.78 0.13 0.08
Matches are distributed among these distances:
57 22 0.11
58 1 0.00
59 6 0.03
60 18 0.09
61 21 0.10
63 7 0.03
64 99 0.48
65 32 0.16
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.22
Consensus pattern (62 bp):
AAAAAGATGCCACTGAGTCGTGGGCTTTGAGAAAAGGATGCCACTAAGTCGTGGACTTTGAG
Found at i:360833 original size:16 final size:17
Alignment explanation
Indices: 360802--360839 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
360792 GATGCAAATA
* *
360802 ATGATGTTATTGATGTT
1 ATGATGTCATTGATGTC
360819 ATGATGTCA-TGATGTC
1 ATGATGTCATTGATGTC
360835 ATGAT
1 ATGAT
360840 TACAGCACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.26, C:0.05, G:0.24, T:0.45
Consensus pattern (17 bp):
ATGATGTCATTGATGTC
Found at i:370954 original size:19 final size:19
Alignment explanation
Indices: 370910--370965 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
370900 CTACCAATTT
**
370910 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
370930 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
370949 CATGTATAGATACAATG
1 CATGTATCGATACAATG
370966 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:373343 original size:13 final size:13
Alignment explanation
Indices: 373325--373350 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
373315 TACACAAAGT
373325 ATGTATCGATACA
1 ATGTATCGATACA
373338 ATGTATCGATACA
1 ATGTATCGATACA
373351 CAAAAAAATT
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:373369 original size:34 final size:32
Alignment explanation
Indices: 373307--373371 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
373297 TAGCCAAACT
**
373307 TGTATCGATACACAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAATGTATCGATACAA
373339 TGTATCGATACACAAAAAAATTGTATCGATACA
1 TGTATCGATACAC-AAAAAA-TGTATCGATACA
373372 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 13 0.45
33 4 0.14
34 12 0.41
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACAAAAAATGTATCGATACAA
Found at i:376981 original size:15 final size:15
Alignment explanation
Indices: 376961--376991 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
376951 TAAAAATGTC
*
376961 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
376976 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
376991 C
1 C
376992 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:379090 original size:13 final size:13
Alignment explanation
Indices: 379072--379109 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
379062 CATTTTTCTT
379072 TGTATCGATACAA
1 TGTATCGATACAA
*
379085 TGTATCGATACAC
1 TGTATCGATACAA
379098 TGTATCGATACA
1 TGTATCGATACA
379110 GGGAGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:381703 original size:21 final size:20
Alignment explanation
Indices: 381657--381709 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
381647 GTAGCCAAAC
**
381657 TTGTATCGATACACAAAGTA
1 TTGTATCGATACACAAAAAA
381677 -TGTATCGATACACAAAAAAA
1 TTGTATCGATACAC-AAAAAA
381697 TTGTATCGATACA
1 TTGTATCGATACA
381710 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 13 0.45
20 4 0.14
21 12 0.41
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.28
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:382986 original size:13 final size:13
Alignment explanation
Indices: 382968--382993 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
382958 TAGTAACCCT
382968 TGTATCGATACAA
1 TGTATCGATACAA
382981 TGTATCGATACAA
1 TGTATCGATACAA
382994 AGAATATTGC
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):
TGTATCGATACAA
Found at i:389122 original size:13 final size:13
Alignment explanation
Indices: 389104--389129 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
389094 TACAGCAAGT
389104 ATGTATCGATACA
1 ATGTATCGATACA
389117 ATGTATCGATACA
1 ATGTATCGATACA
389130 CAAAAAATTG
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:390373 original size:20 final size:19
Alignment explanation
Indices: 390348--390385 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
390338 CTACCAATTT
390348 CATGTATCGATACAATTGTC
1 CATGTATCGATAC-ATTGTC
390368 CATGTATCGATACATTGT
1 CATGTATCGATACATTGT
390386 ATCGACACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (19 bp):
CATGTATCGATACATTGTC
Found at i:391354 original size:32 final size:31
Alignment explanation
Indices: 391313--391454 Score: 108
Period size: 32 Copynumber: 4.5 Consensus size: 31
391303 GTCATACGTT
391313 AAACTTATATATTTCTAAACAAGTCAAAAATC
1 AAACTTATATATTT-TAAACAAGTCAAAAATC
* * * * *
391345 AAACCTATATATTTTATAATAGGTTAAAACTC
1 AAACTTATATATTTTA-AACAAGTCAAAAATC
* * *
391377 AAACTTATCTCTTTTCAAACAAGTCAAAAATT
1 AAACTTATATATTTT-AAACAAGTCAAAAATC
* * * *
391409 AAACTTGTGTTTTTCTAAA-AAGT-AAAAAGTT
1 AAACTTATATATTT-TAAACAAGTCAAAAA-TC
*
391440 AAACTTGTATATTTT
1 AAACTTATATATTTT
391455 TGAATAAGCA
Statistics
Matches: 88, Mismatches: 18, Indels: 10
0.76 0.16 0.09
Matches are distributed among these distances:
30 6 0.07
31 20 0.23
32 60 0.68
33 2 0.02
ACGTcount: A:0.44, C:0.13, G:0.06, T:0.37
Consensus pattern (31 bp):
AAACTTATATATTTTAAACAAGTCAAAAATC
Found at i:391442 original size:31 final size:31
Alignment explanation
Indices: 391388--391447 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 31
391378 AACTTATCTC
391388 TTTTCAAACAAGTCAAAAATTAAACTTGTGT
1 TTTTCAAACAAGTCAAAAATTAAACTTGTGT
391419 TTTTCTAAA-AAGT-AAAAAGTTAAACTTGT
1 TTTTC-AAACAAGTCAAAAA-TTAAACTTGT
391448 ATATTTTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 5 0.19
31 19 0.70
32 3 0.11
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.37
Consensus pattern (31 bp):
TTTTCAAACAAGTCAAAAATTAAACTTGTGT
Found at i:391516 original size:126 final size:128
Alignment explanation
Indices: 391310--391594 Score: 305
Period size: 126 Copynumber: 2.2 Consensus size: 128
391300 TAGGTCATAC
* * * * * *
391310 GTTAAACTTATATATTTCTAAACAAGTCAAAAATCAAACCTATATATTTTATAATAGGTTAAAAC
1 GTTAAACTTGTATATTTTTGAATAAGTCAAAAACCAAACCTATATATCTTATAATAGGTTAAAAC
* *
391375 TCAAACTTATCTCTTTTCAAACAAG-TCAAAAATTAAACTTGTGTTTTTC-TAAAAAGTAAAAA
66 TCAAACTTATATCTTTTCAAACAAGCT-AAAAATTAAACTTGTGCTTTTCTTAAAAAGTAAAAA
* *
391437 GTTAAACTTGTATATTTTTGAATAAG-CAAAAGCCAAA-C-ATATATCTTATTGAATAGGTTAGG
1 GTTAAACTTGTATATTTTTGAATAAGTCAAAAACCAAACCTATATATCTTA-T-AATAGGTTA-A
* * * * * * *
391499 AA-TCAAACTTGTATCTTTTCGAAGAAGCTAAAATTTAAACTTGTGCTTTTCTTAATAGGTTAAA
63 AACTCAAACTTATATCTTTTCAAACAAGCTAAAAATTAAACTTGTGCTTTTCTTAAAAAGTAAAA
391563 A
128 A
* *
391564 GCTT-AACTCGTATCTTTTTGAATAAGTCAAA
1 G-TTAAACTTGTATATTTTTGAATAAGTCAAA
391595 TTCAAACTTG
Statistics
Matches: 132, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
124 9 0.07
125 2 0.02
126 59 0.45
127 56 0.42
128 6 0.05
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (128 bp):
GTTAAACTTGTATATTTTTGAATAAGTCAAAAACCAAACCTATATATCTTATAATAGGTTAAAAC
TCAAACTTATATCTTTTCAAACAAGCTAAAAATTAAACTTGTGCTTTTCTTAAAAAGTAAAAA
Found at i:393708 original size:49 final size:48
Alignment explanation
Indices: 393655--393758 Score: 138
Period size: 48 Copynumber: 2.1 Consensus size: 48
393645 TGTCATTTTA
* * * *
393655 GTCATTTTTCATGACTTAA-GGACTTTCATGTCATTTTATGAATTTTGAT
1 GTCATTTTCCATGAC-CAAGGGAC-TTAATGTAATTTTATGAATTTTGAT
*
393704 GTCATGTTCCATGACCAAGGGACTTAATGTAATTTTATGAATTTTGAT
1 GTCATTTTCCATGACCAAGGGACTTAATGTAATTTTATGAATTTTGAT
393752 GTCATTT
1 GTCATTT
393759 AGGCCATTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
48 31 0.65
49 17 0.35
ACGTcount: A:0.26, C:0.12, G:0.16, T:0.45
Consensus pattern (48 bp):
GTCATTTTCCATGACCAAGGGACTTAATGTAATTTTATGAATTTTGAT
Found at i:393807 original size:53 final size:55
Alignment explanation
Indices: 393734--394002 Score: 248
Period size: 53 Copynumber: 4.9 Consensus size: 55
393724 GACTTAATGT
*
393734 AATTTTATGAATTTTGATGTCATTTAGGCCATTTTCATGTCTTAGGGAC-T-TGC
1 AATTTTATGAATTTTGATGTCATTTAGGTCATTTTCATGTCTTAGGGACATATGC
* * * * *
393787 AATTTTATAAATTTTAATGTCATTTAAGTCATTTTCAT-TATTTAGGTACTCATATGC
1 AATTTTATGAATTTTGATGTCATTTAGGTCATTTTCATGT-CTTAGGGA--CATATGC
* *
393844 AATTTTATGAATTTTGATATCATTTAGGTCATTTTTCATGACTTAGGG--A-ATGC
1 AATTTTATGAATTTTGATGTCATTTAGGTCA-TTTTCATGTCTTAGGGACATATGC
* * * *
393897 AA-TTTATGAATTTTGATGTCATTTATGTTATTTATCATGATC-TAGGGACTTGGATGT
1 AATTTTATGAATTTTGATGTCATTTAGGTCATTT-TCATG-TCTTAGGGACAT--ATGC
* * * *
393954 AATTTTATGAATTTTAATGTGACTTAGGTCATTTTTCATGATCTAAGGG
1 AATTTTATGAATTTTGATGTCATTTAGGTCA-TTTTCATG-TCTTAGGG
394003 CTTTTACTCA
Statistics
Matches: 174, Mismatches: 25, Indels: 28
0.77 0.11 0.12
Matches are distributed among these distances:
51 3 0.02
52 36 0.21
53 47 0.27
54 1 0.01
55 1 0.01
56 1 0.01
57 35 0.20
58 43 0.25
59 7 0.04
ACGTcount: A:0.28, C:0.10, G:0.16, T:0.46
Consensus pattern (55 bp):
AATTTTATGAATTTTGATGTCATTTAGGTCATTTTCATGTCTTAGGGACATATGC
Found at i:393851 original size:110 final size:110
Alignment explanation
Indices: 393721--394002 Score: 327
Period size: 110 Copynumber: 2.6 Consensus size: 110
393711 TCCATGACCA
* * * *
393721 AGGGACTTA-ATGTAATTTTATGAATTTTGATGTCATTTAGGCCA-TTTTCATGTCTTAGGGACT
1 AGGGACTCAGATGCAATTTTATGAATTTTGATGTCATTTAGGTCATTTTTCATGTCTTAGGGA-A
* *
393784 TGCAATTTTATAAATTTTAATGTCATTTAAGTCATTT-TCATTATTT
65 TGCAA-TTTATAAATTTTAATGTCATTTAAGTCATTTATCATGATCT
* * * *
393830 AGGTACTCATATGCAATTTTATGAATTTTGATATCATTTAGGTCATTTTTCATGACTTAGGGAAT
1 AGGGACTCAGATGCAATTTTATGAATTTTGATGTCATTTAGGTCATTTTTCATGTCTTAGGGAAT
* * * *
393895 GCAATTTATGAATTTTGATGTCATTTATGTTATTTATCATGATCT
66 GCAATTTATAAATTTTAATGTCATTTAAGTCATTTATCATGATCT
** * * * * *
393940 AGGGACTTGGATGTAATTTTATGAATTTTAATGTGACTTAGGTCATTTTTCATGATCTAAGGG
1 AGGGACTCAGATGCAATTTTATGAATTTTGATGTCATTTAGGTCATTTTTCATG-TCTTAGGG
394003 CTTTTACTCA
Statistics
Matches: 145, Mismatches: 24, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
109 34 0.23
110 89 0.61
111 22 0.15
ACGTcount: A:0.28, C:0.10, G:0.17, T:0.46
Consensus pattern (110 bp):
AGGGACTCAGATGCAATTTTATGAATTTTGATGTCATTTAGGTCATTTTTCATGTCTTAGGGAAT
GCAATTTATAAATTTTAATGTCATTTAAGTCATTTATCATGATCT
Found at i:394373 original size:45 final size:45
Alignment explanation
Indices: 394308--394398 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
394298 TGTGTGCTTC
394308 CAATATATAGAAATTACCTTATCAATTATTTTAAGCAATGGAATA
1 CAATATATAGAAATTACCTTATCAATTATTTTAAGCAATGGAATA
* *
394353 CAATATATAGAAATTGCCTTATCTATTATTTTAAGCAATGGAATA
1 CAATATATAGAAATTACCTTATCAATTATTTTAAGCAATGGAATA
394398 C
1 C
394399 CCTCTTTAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.36
Consensus pattern (45 bp):
CAATATATAGAAATTACCTTATCAATTATTTTAAGCAATGGAATA
Found at i:398245 original size:20 final size:20
Alignment explanation
Indices: 398222--398295 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
398212 AAAGTACCCA
398222 AATGTATCGATACATTTTTC
1 AATGTATCGATACATTTTTC
* * *
398242 AATGTATCGATACATGTATG
1 AATGTATCGATACATTTTTC
* *
398262 AATGTATAGAT--ATTCTTC
1 AATGTATCGATACATTTTTC
*
398280 AATGTATCGATGCATT
1 AATGTATCGATACATT
398296 CTGTCTTTTT
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
18 13 0.30
20 30 0.70
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (20 bp):
AATGTATCGATACATTTTTC
Found at i:403106 original size:115 final size:115
Alignment explanation
Indices: 402904--403134 Score: 408
Period size: 115 Copynumber: 2.0 Consensus size: 115
402894 CATAGAAAAA
* *
402904 GCCAAGTTTGATAGAGTATATTGCAAGGCGTCTCAACCCCCACCATTTAAGAAAAGATTGGCGCA
1 GCCAAGTTTGACAGAGTATATTGCAAGGCCTCTCAACCCCCACCATTTAAGAAAAGATTGGCGCA
* *
402969 AATCACCGGGATTACTAGGCTTGGATACAAGAACACATTAAGGTGAAAGG
66 AATCACCGGGACTACTAGGCTTGGATACAAGAACACATTAAGGTCAAAGG
*
403019 GCCAAGTTTGACAGAGTATATTGCAAGGCCTCTCAGCCCCCACCATTTAAGAAAAGATTGGCGCA
1 GCCAAGTTTGACAGAGTATATTGCAAGGCCTCTCAACCCCCACCATTTAAGAAAAGATTGGCGCA
*
403084 AATCACCGGGGCTACTAGGCTTGGATACAAGAACACATTAAGGTCAAAGG
66 AATCACCGGGACTACTAGGCTTGGATACAAGAACACATTAAGGTCAAAGG
403134 G
1 G
403135 AATCAAAACT
Statistics
Matches: 110, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
115 110 1.00
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.21
Consensus pattern (115 bp):
GCCAAGTTTGACAGAGTATATTGCAAGGCCTCTCAACCCCCACCATTTAAGAAAAGATTGGCGCA
AATCACCGGGACTACTAGGCTTGGATACAAGAACACATTAAGGTCAAAGG
Found at i:411451 original size:12 final size:12
Alignment explanation
Indices: 411434--411523 Score: 94
Period size: 12 Copynumber: 7.2 Consensus size: 12
411424 CTTCATACCC
411434 AAAAAAACAAAA
1 AAAAAAACAAAA
411446 AAAAAAACAAAA
1 AAAAAAACAAAA
411458 AAAAAAACAAAA
1 AAAAAAACAAAA
411470 AAACCAAAA-AAAA
1 AAA--AAAACAAAA
*
411483 AAACAAAA-AACA
1 AAA-AAAACAAAA
*
411495 AAAAAACCAAGGAA
1 AAAAAAACAA--AA
*
411509 AAAATAACAAAA
1 AAAAAAACAAAA
411521 AAA
1 AAA
411524 CAGAAAGGGG
Statistics
Matches: 68, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
11 3 0.04
12 45 0.66
13 7 0.10
14 13 0.19
ACGTcount: A:0.86, C:0.11, G:0.02, T:0.01
Consensus pattern (12 bp):
AAAAAAACAAAA
Found at i:411478 original size:33 final size:33
Alignment explanation
Indices: 411433--411498 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
411423 CCTTCATACC
411433 CAAAAAAACAAAAAAAAAAACAAAAAA-AAAAA
1 CAAAAAAACAAAAAAAAAAACAAAAAACAAAAA
411465 CAAAAAAACCAAAAAAAAAAACAAAAAACAAAAA
1 CAAAAAAA-CAAAAAAAAAAACAAAAAACAAAAA
411499 AACCAAGGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 8 0.25
33 19 0.59
34 5 0.16
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (33 bp):
CAAAAAAACAAAAAAAAAAACAAAAAACAAAAA
Found at i:411512 original size:1 final size:1
Alignment explanation
Indices: 411434--411500 Score: 71
Period size: 1 Copynumber: 67.0 Consensus size: 1
411424 CTTCATACCC
* * * ** * *
411434 AAAAAAACAAAAAAAAAAACAAAAAAAAAAACAAAAAAACCAAAAAAAAAAACAAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
411499 AA
1 AA
411501 CCAAGGAAAA
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:411529 original size:20 final size:20
Alignment explanation
Indices: 411433--411525 Score: 109
Period size: 20 Copynumber: 4.5 Consensus size: 20
411423 CCTTCATACC
411433 CAAAAAAACAAAAAAAAAAA
1 CAAAAAAACAAAAAAAAAAA
411453 CAAAAAAA-AAAACAAAAAAA
1 CAAAAAAACAAAA-AAAAAAA
*
411473 CCAAAAAAA-AAAACAAAAAA
1 -CAAAAAAACAAAAAAAAAAA
*
411493 CAAAAAAACCAAGGAAAAAATAA
1 CAAAAAAA-CAA--AAAAAAAAA
411516 CAAAAAAACA
1 CAAAAAAACA
411526 GAAAGGGGTC
Statistics
Matches: 64, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
19 12 0.19
20 21 0.33
21 14 0.22
22 2 0.03
23 15 0.23
ACGTcount: A:0.84, C:0.13, G:0.02, T:0.01
Consensus pattern (20 bp):
CAAAAAAACAAAAAAAAAAA
Found at i:412782 original size:28 final size:28
Alignment explanation
Indices: 412742--413359 Score: 447
Period size: 28 Copynumber: 21.1 Consensus size: 28
412732 TGTTCATCTC
*
412742 TTCAAAGCCCACAAGTCAGTGGCACCAT
1 TTCAAAGCCCACAAGTCAGTGGCACCTT
412770 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CTT
** * *
412799 TTCAAAGCCCACACGAGTTGGTAGCAACTTTT
1 TTCAAAGCCCACA--AGTCAGTGGC-AC-CTT
* * *
412831 TTCAATGCCCACAAGTCAATGGCATCCCT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCTT
412860 TT-AAAGCCCACAAGTCAGTGGCATCC-T
1 TTCAAAGCCCACAAGTCAGTGGCA-CCTT
*
412887 TTCAAAGCCCACAAGTTAGTGGCACCTTT
1 TTCAAAGCCCACAAGTCAGTGGCACC-TT
*** *
412916 TTCAAAGATGACAAGTTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CTT
*
412945 TTCAAAGCCCACATGAGTCAGTGGCACTATT
1 TTCAAAGCCCACA--AGTCAGTGGCAC-CTT
* * * *
412976 TTCAAAACGCACACGAGTCGGTGGTAACTCTT
1 TTC-AAA-GCCCACAAGTCAGTGG-CAC-CTT
* * * *
413008 TTTAAAGCCTATAAGTCAGTGGTATCC-T
1 TTCAAAGCCCACAAGTCAGTGGCA-CCTT
*
413036 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCTT
* *
413064 TTCAAAGCCCATAAGTCAGGGGCACCCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCTT
* *
413093 TTTAAAGCCCACAAGTTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CTT
*
413122 TTCAAAGCCCACACGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-AC-CTT
*** *
413154 TTCAAAGTGTACAAGTTAGTGGCATCC-T
1 TTCAAAGCCCACAAGTCAGTGGCA-CCTT
* **
413182 TTCAAAGCCCACGAGTTGGTGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGC-AC-CTT
* * *
413212 TTCAGAGCACACAAGTTAGTGGCATCCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCTT
* * *
413241 TT-AAACCCCACAATTCAGTGACACC-T
1 TTCAAAGCCCACAAGTCAGTGGCACCTT
* * *
413267 TTCAATGTCCACAAGTCAGTGGCACTATT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CTT
* *
413296 TTCAAAGCCCACACGAGTCGGTGGCAACTTTT
1 TTCAAAGCCCACA--AGTCAGTGGC-AC-CTT
** *
413328 TTCATTGCCCACACAAGTTAGTGGCACCTT
1 TTCAAAG-CC-CACAAGTCAGTGGCACCTT
413358 TT
1 TT
413360 TTTAACAAAA
Statistics
Matches: 472, Mismatches: 84, Indels: 66
0.76 0.14 0.11
Matches are distributed among these distances:
26 3 0.01
27 26 0.06
28 147 0.31
29 116 0.25
30 54 0.11
31 54 0.11
32 61 0.13
33 7 0.01
34 4 0.01
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCTT
Found at i:413045 original size:177 final size:176
Alignment explanation
Indices: 412745--413159 Score: 543
Period size: 177 Copynumber: 2.4 Consensus size: 176
412735 TCATCTCTTC
* * * *
412745 AAAGCCCACAAGTCAGTGGCAC-CATTTCAAAGCCCACA-AGTCAGTGGCACTCTTTTCAAAGCC
1 AAAGACCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAGAGTCAGTGGCACTCTTTTCAAAACC
* *
412808 CACACGAGTTGGTAGCAACTTTTTTCAATGCCCACAAGTCAATGGCATCCCTTTAAAGCCCACAA
66 CACACGAGTCGGTAGCAACTTTTTTCAAAGCCCACAAGTCAATGGCATCCCTTTAAAGCCCACAA
* * *
412873 GTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCA-CCTTTTT
131 GTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGGGGCACCCTTTTT
** *
412918 CAAAGATGACAAGTTAGTGGCACTCTTTTCAAAGCCCACATGAGTCAGTGGCACTATTTTCAAAA
1 -AAAGACCACAAGTTAGTGGCACTCTTTTCAAAGCCCACA-GAGTCAGTGGCACTCTTTTCAAAA
* * * * * * *
412983 CGCACACGAGTCGGTGGTAACTCTTTTT-AAAGCCTATAAGTCAGTGGTAT-CCTTTCAAAGCCC
64 CCCACACGAGTCGGTAGCAACT-TTTTTCAAAGCCCACAAGTCAATGGCATCCCTTT-AAAGCCC
*
413046 ACAAGTCAGTGGCACCCTTTCAAAGCCCATAAGTCAGGGGCACCCTTTTT
127 ACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGGGGCACCCTTTTT
* *
413096 AAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACACGAGTCGGTGGCAACTCTTTTCAAA
1 AAAGACCACAAGTTAGTGGCACTCTTTTCAAAGCCCACA-GAGTCAGTGGC-ACTCTTTTCAAA
413160 GTGTACAAGT
Statistics
Matches: 208, Mismatches: 26, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
174 18 0.09
175 15 0.07
176 5 0.02
177 147 0.71
178 23 0.11
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (176 bp):
AAAGACCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAGAGTCAGTGGCACTCTTTTCAAAACC
CACACGAGTCGGTAGCAACTTTTTTCAAAGCCCACAAGTCAATGGCATCCCTTTAAAGCCCACAA
GTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGGGGCACCCTTTTT
Found at i:413055 original size:89 final size:89
Alignment explanation
Indices: 412742--413159 Score: 367
Period size: 89 Copynumber: 4.7 Consensus size: 89
412732 TGTTCATCTC
*
412742 TTCAAAGCCCACAAGTCAGTGGCA-CCATTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAA
* *
412806 CCCACACGAGTTGGTAGCAACT-TTT
65 CGCACACGAGTTGGT-GGAACTCTTT
* * *
412831 TTCAATGCCCACAAGTCAATGGCATCCCTTT-AAAGCCCACAAGTCAGTGGCA-TCCTTTC-AAA
1 TTCAAAGCCCACAAGTCAGTGGCAT-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAA
* * * *
412893 -GCCCACAAGTTAGTGGCAC-CTTT
65 CGCACACGAGTTGGTGGAACTCTTT
*** * * *
412916 TTCAAAGATGACAAGTTAGTGGCACTCTTTTCAAAGCCCACATGAGTCAGTGGCACTATTTTCAA
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACA--AGTCAGTGGCACTCTTTTCAA
*
412981 AACGCACACGAGTCGGTGGTAACTCTTT
63 AACGCACACGAGTTGGTGG-AACTCTTT
* * * *
413009 TT-AAAGCCTATAAGTCAGTGGTATCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTC-AAA-
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAAC
* ** * * *
413070 GCCCATAAGTCAGG-GGCACCCTTT
66 GCACACGAGT-TGGTGGAACTCTTT
* * *
413094 TT-AAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACACGAGTCGGTGGCAACTCTTTTCA
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACA--AGTCAGTGGC-ACTCTTTTCA
413158 AA
62 AA
413160 GTGTACAAGT
Statistics
Matches: 264, Mismatches: 46, Indels: 36
0.76 0.13 0.10
Matches are distributed among these distances:
85 53 0.20
86 46 0.17
87 7 0.03
88 30 0.11
89 62 0.23
90 11 0.04
91 32 0.12
92 17 0.06
93 6 0.02
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (89 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAAC
GCACACGAGTTGGTGGAACTCTTT
Found at i:413175 original size:146 final size:146
Alignment explanation
Indices: 412742--413252 Score: 557
Period size: 146 Copynumber: 3.5 Consensus size: 146
412732 TGTTCATCTC
412742 TTCAAAGCCCACAAGTCAGTGGCACCATTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACCATTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC
* * * * ** * * *
412807 CCACACGAGTTGGTAGCAACTTTTTTCAATGCCCACA--AGTCAATGGCATC-CCTTTAAAGCCC
66 CCACA-GAGTTAGTGGC-ACTATTTTCAAAGCCCACACGAGTCGGTGGCAACTCTTTTAAAGCCT
412869 ACAAGTCAGTGGCATCCT
129 ACAAGTCAGTGGCATCCT
* * *** *
412887 TTCAAAGCCCACAAGTTAGTGGCACCTTTTTCAAAGATGACAAGTTAGTGGCACTCTTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCACC-ATTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAG
* * * *
412952 CCCACATGAGTCAGTGGCACTATTTTCAAAACGCACACGAGTCGGTGGTAACTCTTTTTAAAGCC
65 CCCACA-GAGTTAGTGGCACTATTTTCAAAGCCCACACGAGTCGGTGGCAACTC-TTTTAAAGCC
* *
413017 TATAAGTCAGTGGTATCCT
128 TACAAGTCAGTGGCATCCT
* * * * *
413036 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCATAAGTCAGGGGCACCCTTTTTAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACCATTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC
* **
413101 CCACA-AGTTAGTGGCACTCTTTTCAAAGCCCACACGAGTCGGTGGCAACTCTTTTCAAAGTGTA
66 CCACAGAGTTAGTGGCACTATTTTCAAAGCCCACACGAGTCGGTGGCAACTCTTTT-AAAGCCTA
*
413165 CAAGTTAGTGGCATCCT
130 CAAGTCAGTGGCATCCT
* ** * * * *
413182 TTCAAAGCCCACGAGTTGGTGGCAACTCTTTTCAGAGCACACAAGTTAGTGGCA-TCCTTTT-AA
1 TTCAAAGCCCACAAGTCAGTGGC-AC-CATTTCAAAGCCCACAAGTCAGTGGCACT-CTTTTCAA
*
413245 ACCCCACA
63 AGCCCACA
413253 ATTCAGTGAC
Statistics
Matches: 304, Mismatches: 53, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
145 44 0.14
146 128 0.42
147 20 0.07
148 62 0.20
149 50 0.16
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (146 bp):
TTCAAAGCCCACAAGTCAGTGGCACCATTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC
CCACAGAGTTAGTGGCACTATTTTCAAAGCCCACACGAGTCGGTGGCAACTCTTTTAAAGCCTAC
AAGTCAGTGGCATCCT
Found at i:413210 original size:58 final size:58
Alignment explanation
Indices: 412742--413358 Score: 409
Period size: 58 Copynumber: 10.5 Consensus size: 58
412732 TGTTCATCTC
* *
412742 TTCAAAGCCCACAAGTCAGTGGCA-CCATTTCAAAGCCCACAAGTCAGTGGC-ACTCTT
1 TTCAAAGCGCACAAGTTAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCAACTCTT
* * * ** * * * *
412799 TTCAAAGCCCACACGAGTTGGTAGCAACTTTTTTCAATGCCCACAAGTCAATGGCATC-CCT
1 TTCAAAGCGCACA--AGTTAGTGGC-A-TCCTTTCAAAGCCCACAAGTCAGTGGCAACTCTT
* * * *
412860 TT-AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCACCT-TT
1 TTCAAAGCGCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCAACTCTT
* * *
412916 TTCAAAGATG-ACAAGTTAGTGGCACTCTTTTCAAAGCCCACATGAGTCAGTGGC-ACTATT
1 TTCAAAG-CGCACAAGTTAGTGGCA-TCCTTTCAAAGCCCACA--AGTCAGTGGCAACTCTT
* ** * * * * * * *
412976 TTCAAAACGCACACGAGTCGGTGGTAACTCTTTTTAAAGCCTATAAGTCAGTGG-TA-TCCT
1 TTCAAAGCGCACA--AGTTAGTGG-CA-TCCTTTCAAAGCCCACAAGTCAGTGGCAACTCTT
* * * * * *
413036 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCATAAGTCAGGGGC-ACCCTT
1 TTCAAAGCGCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCAACTCTT
* * * *
413093 TTTAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACACGAGTCGGTGGCAACTCTT
1 TTCAAAGCGCACAAGTTAGTGGCA-TCCTTTCAAAGCCCACA--AGTCAGTGGCAACTCTT
* * * **
413154 TTCAAAGTGTACAAGTTAGTGGCATCCTTTCAAAGCCCACGAGTTGGTGGCAACTCTT
1 TTCAAAGCGCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCAACTCTT
* * * * * *
413212 TTCAGAGCACACAAGTTAGTGGCATCCTTTTAAACCCCACAATTCAGTGAC-AC-C-T
1 TTCAAAGCGCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCAACTCTT
* * ** * *
413267 TTCAATGTC-CACAAGTCAGTGGCACTATTTTCAAAGCCCACACGAGTCGGTGGCAACTTTT
1 TTCAAAG-CGCACAAGTTAGTGGCA-TCCTTTCAAAGCCCACA--AGTCAGTGGCAACTCTT
** *
413328 TTCATTGCCCACACAAGTTAGTGGCA-CCTTT
1 TTCAAAG--CGCACAAGTTAGTGGCATCCTTT
413359 TTTTAACAAA
Statistics
Matches: 439, Mismatches: 88, Indels: 62
0.75 0.15 0.11
Matches are distributed among these distances:
55 20 0.05
56 64 0.15
57 58 0.13
58 108 0.25
59 12 0.03
60 67 0.15
61 71 0.16
62 9 0.02
63 30 0.07
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (58 bp):
TTCAAAGCGCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCAACTCTT
Found at i:427899 original size:17 final size:16
Alignment explanation
Indices: 427877--427910 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
427867 ATTAAGTGTT
*
427877 AGGAAAGGTGCTCGGCA
1 AGGAAAGG-GCTAGGCA
427894 AGGAAAGGGCTAGGCA
1 AGGAAAGGGCTAGGCA
427910 A
1 A
427911 ATACCTCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.35, C:0.15, G:0.41, T:0.09
Consensus pattern (16 bp):
AGGAAAGGGCTAGGCA
Found at i:433288 original size:31 final size:31
Alignment explanation
Indices: 433219--433470 Score: 191
Period size: 31 Copynumber: 8.1 Consensus size: 31
433209 TTCACTCCTT
* * ** * *
433219 TCAAAGCCCACAAAAGCTGGCAGCATCCGAG
1 TCAAAGCCCACACAAGTTGGTGGCACCCTAG
*
433250 TCTAAGCCCACACAAGTTGGTGGCACCCTAG
1 TCAAAGCCCACACAAGTTGGTGGCACCCTAG
* * *
433281 TCAAAGCCCGCACAAGCTGGTAGCACCCTAG
1 TCAAAGCCCACACAAGTTGGTGGCACCCTAG
* * * * * *
433312 TCAAAGCTCGCACAAGCTGGCGACA-CTTGAG
1 TCAAAGCCCACACAAGTTGGTGGCACCCT-AG
* * ** *
433343 TCTAAGCCCACCCGTGTTTGTGGCACCCTAG
1 TCAAAGCCCACACAAGTTGGTGGCACCCTAG
* * * *
433374 TCAAAGCCCGCACAAGTTGATGGCACCCCAA
1 TCAAAGCCCACACAAGTTGGTGGCACCCTAG
* ** * *
433405 TCAAAGCCTACACAAGTTGGCAGCACTCGAG
1 TCAAAGCCCACACAAGTTGGTGGCACCCTAG
* **
433436 TCAAAGCCCACACGAGTTGGTGGCATGCTAG
1 TCAAAGCCCACACAAGTTGGTGGCACCCTAG
433467 TCAA
1 TCAA
433471 GTCCAATTTA
Statistics
Matches: 168, Mismatches: 51, Indels: 4
0.75 0.23 0.02
Matches are distributed among these distances:
30 2 0.01
31 164 0.98
32 2 0.01
ACGTcount: A:0.29, C:0.32, G:0.23, T:0.17
Consensus pattern (31 bp):
TCAAAGCCCACACAAGTTGGTGGCACCCTAG
Found at i:433378 original size:93 final size:93
Alignment explanation
Indices: 433219--433470 Score: 303
Period size: 93 Copynumber: 2.7 Consensus size: 93
433209 TTCACTCCTT
* * *
433219 TCAAAGCCCACAAAAGCTGGCAGCA-TCCGAGTCTAAGCCCACACAAGTTGGTGGCACCCTAGTC
1 TCAAAGCCTACACAAGCTGGCAGCACT-CGAGTCTAAGCCCACACGAGTTGGTGGCACCCTAGTC
* * *
433283 AAAGCCCGCACAAGCTGGTAGCACCCTAG
65 AAAGCCCGCACAAGCTGATAGCACCCCAA
* * * * *
433312 TCAAAG-CTCGCACAAGCTGGC-GACACTTGAGTCTAAGCCCACCCGTGTTTGTGGCACCCTAGT
1 TCAAAGCCT-ACACAAGCTGGCAG-CACTCGAGTCTAAGCCCACACGAGTTGGTGGCACCCTAGT
* *
433375 CAAAGCCCGCACAAGTTGATGGCACCCCAA
64 CAAAGCCCGCACAAGCTGATAGCACCCCAA
* * **
433405 TCAAAGCCTACACAAGTTGGCAGCACTCGAGTCAAAGCCCACACGAGTTGGTGGCATGCTAGTCA
1 TCAAAGCCTACACAAGCTGGCAGCACTCGAGTCTAAGCCCACACGAGTTGGTGGCACCCTAGTCA
433470 A
66 A
433471 GTCCAATTTA
Statistics
Matches: 132, Mismatches: 22, Indels: 10
0.80 0.13 0.06
Matches are distributed among these distances:
92 2 0.02
93 126 0.95
94 4 0.03
ACGTcount: A:0.29, C:0.32, G:0.23, T:0.17
Consensus pattern (93 bp):
TCAAAGCCTACACAAGCTGGCAGCACTCGAGTCTAAGCCCACACGAGTTGGTGGCACCCTAGTCA
AAGCCCGCACAAGCTGATAGCACCCCAA
Found at i:433612 original size:31 final size:31
Alignment explanation
Indices: 433515--433612 Score: 85
Period size: 31 Copynumber: 3.2 Consensus size: 31
433505 AGTCTTGAAT
* *
433515 GTCAAAGTCCA-CAAAAATTGGTGGCACCTTA
1 GTCAAAG-CCAGCACAAGTTGGTGGCACCTTA
* ***
433546 GTCAAAGCCAGCATAAGTTAACGGCACC-TA
1 GTCAAAGCCAGCACAAGTTGGTGGCACCTTA
*
433576 TGTCAAAGCCCA-CACGAGTTGGTGGCACCTTA
1 -GTCAAAG-CCAGCACAAGTTGGTGGCACCTTA
433608 GTCAA
1 GTCAA
433613 GTCAACATTA
Statistics
Matches: 53, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
30 5 0.09
31 43 0.81
32 5 0.09
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.20
Consensus pattern (31 bp):
GTCAAAGCCAGCACAAGTTGGTGGCACCTTA
Found at i:434270 original size:20 final size:21
Alignment explanation
Indices: 434247--434301 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
434237 TATAAATAGT
*
434247 AATGTATCGATACATAAGTG-
1 AATGTATCGATACATAACTGA
* **
434267 AATGTATCGATGCATGCCTGA
1 AATGTATCGATACATAACTGA
434288 AATGTATCGATACA
1 AATGTATCGATACA
434302 AACCACCCTG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (21 bp):
AATGTATCGATACATAACTGA
Found at i:439809 original size:29 final size:29
Alignment explanation
Indices: 439635--440157 Score: 517
Period size: 28 Copynumber: 18.6 Consensus size: 29
439625 TACTAACTCA
439635 TGTGGGCTTTGAAAAAGG-TAGCCACTGACT
1 TGTGGGCTTTG-AAAAGGAT-GCCACTGACT
* *
439665 TGTGGGATTT-AAAAGTG-TGCCACTAACT
1 TGTGGGCTTTGAAAAG-GATGCCACTGACT
* **
439693 TATGGGCTTTGAAAAGG-TGCCGTTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* *
439721 TATGGGCTTTG-AAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* * *
439749 TATGGGCTTTGAAAAGG-TGCCACTAACA
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* * *
439777 TGTGGGATTTAAAAAGGACGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* *
439806 TGT--G----GAAAAAGATGCCACTGAGT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* *
439829 TATGGGCTTTGAAAAGG-TGCCACTAACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
*
439857 TATGGGCTTTGAAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* *
439886 TGTGGGCTTTGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* * * *
439915 TGTGCGCTTTAAAAAGG-TGCTACTAACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
*
439943 TGTGGGCTTTGAAAATGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* * *
439972 TGTGGACTTTG-AAAGGATGCCACTAATT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
**
440000 TACGGGCTTTG-AAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* * * *
440028 TATGGGCTTTAAAAAGGATGCCAGTAACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* *
440057 TGTGGGCTTTAAAAAGG-TGCCGCTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
*
440085 TATGGGCTTTG-AAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
** *
440113 CATGGGCTTTGAAAAGG-TGCCATTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
*
440141 TGTGAGCTTTGAAAAGG
1 TGTGGGCTTTGAAAAGG
440158 TGTCGTATTG
Statistics
Matches: 415, Mismatches: 62, Indels: 34
0.81 0.12 0.07
Matches are distributed among these distances:
23 17 0.04
25 1 0.00
27 11 0.03
28 242 0.58
29 135 0.33
30 9 0.02
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (29 bp):
TGTGGGCTTTGAAAAGGATGCCACTGACT
Found at i:439879 original size:57 final size:57
Alignment explanation
Indices: 439637--440157 Score: 514
Period size: 57 Copynumber: 9.3 Consensus size: 57
439627 CTAACTCATG
* *
439637 TGGGCTTTGAAAAAGG-TAGCCACTGACTTGTGGGATTT-AAAAGTGTGCCACTAACTTA
1 TGGGCTTTG-AAAAGGAT-GCCACTGACTTGTGGGCTTTGAAAAG-GTGCCACTGACTTA
** * *
439695 TGGGCTTTGAAAAGG-TGCCGTTGACTTATGGGCTTTG-AAAGGATGCCACTAACTTA
1 TGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCACTGACTTA
* * * * *
439751 TGGGCTTTGAAAAGG-TGCCACTAACATGTGGGATTTAAAAAGGACGCCACTGAC-T-
1 TGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCACTGACTTA
* * * * *
439806 T--G--TGGAAAAAGATGCCACTGAGTTATGGGCTTTGAAAAGGTGCCACTAACTTA
1 TGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTA
* *
439859 TGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTAACTTG
1 TGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAA-GGTGCCACTGACTTA
* * * * * *
439917 TGCGCTTTAAAAAGG-TGCTACTAACTTGTGGGCTTTGAAAATGATGCCACTGACTTG
1 TGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAA-GGTGCCACTGACTTA
* * * **
439974 TGGACTTTG-AAAGGATGCCACTAATTTACGGGCTTTG-AAAGGATGCCACTGACTTA
1 TGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCACTGACTTA
* * * * *
440030 TGGGCTTTAAAAAGGATGCCAGTAACTTGTGGGCTTTAAAAAGGTGCCGCTGACTTA
1 TGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTA
** * *
440087 TGGGCTTTG-AAAGGATGCCACTGACTCATGGGCTTTGAAAAGGTGCCATTGACTTG
1 TGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTA
*
440143 TGAGCTTTGAAAAGG
1 TGGGCTTTGAAAAGG
440158 TGTCGTATTG
Statistics
Matches: 385, Mismatches: 62, Indels: 33
0.80 0.13 0.07
Matches are distributed among these distances:
51 15 0.04
52 23 0.06
53 2 0.01
55 4 0.01
56 138 0.36
57 162 0.42
58 41 0.11
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (57 bp):
TGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTA
Found at i:445577 original size:21 final size:21
Alignment explanation
Indices: 445551--445597 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
445541 TTGAGTGGTG
445551 ACTTGCAAAGCTCGGGTTATC
1 ACTTGCAAAGCTCGGGTTATC
*
445572 ACTTGCAAAGCTCGGGTTTTC
1 ACTTGCAAAGCTCGGGTTATC
445593 ACTTG
1 ACTTG
445598 GAATCTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.32
Consensus pattern (21 bp):
ACTTGCAAAGCTCGGGTTATC
Found at i:447502 original size:15 final size:15
Alignment explanation
Indices: 447463--447507 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
447453 GTGTATCGAC
*
447463 GATTTTGTGGTGGGT
1 GATTTTGTGGTGGAT
* **
447478 AATTAGGTGGTGGAT
1 GATTTTGTGGTGGAT
447493 GATTTTGTGGTGGAT
1 GATTTTGTGGTGGAT
447508 TTGGTAGAAT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.16, C:0.00, G:0.42, T:0.42
Consensus pattern (15 bp):
GATTTTGTGGTGGAT
Found at i:458080 original size:30 final size:32
Alignment explanation
Indices: 457985--458157 Score: 164
Period size: 32 Copynumber: 5.5 Consensus size: 32
457975 GGGGACGAAT
*
457985 TCCACGACTCAGTGGCAATCTCTG-C-TCAAAG
1 TCCACGACTCAGTGGC-ATCTTTGTCTTCAAAG
*
458016 TCCACGACTCAGTGGCATCTTT-TCCTTTAAAG
1 TCCACGACTCAGTGGCATCTTTGT-CTTCAAAG
458048 TCCACGACTCAGTGGCAT-TTTGTC-TCAAAG
1 TCCACGACTCAGTGGCATCTTTGTCTTCAAAG
*
458078 TCCACGACTCAGTGGCAT-TTTTTCTTCAAAG
1 TCCACGACTCAGTGGCATCTTTGTCTTCAAAG
* * * *
458109 CCCACAACTTC-GTGGCACCTTT-TCCTTTAAAG
1 TCCACGAC-TCAGTGGCATCTTTGT-CTTCAAAG
* * *
458141 CCCACAACTCCGTGGCA
1 TCCACGACTCAGTGGCA
458158 CCTTCTTCTT
Statistics
Matches: 125, Mismatches: 8, Indels: 17
0.83 0.05 0.11
Matches are distributed among these distances:
30 33 0.26
31 42 0.34
32 50 0.40
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.29
Consensus pattern (32 bp):
TCCACGACTCAGTGGCATCTTTGTCTTCAAAG
Found at i:458156 original size:93 final size:96
Alignment explanation
Indices: 458027--458895 Score: 743
Period size: 93 Copynumber: 8.8 Consensus size: 96
458017 CCACGACTCA
* * * * *
458027 GTGGCA-TCTTTTCCTTTAAAGTCCACGACTCAGTGGCA-TTTTGTC-TCAAAGTCCACGACTCA
1 GTGGCACTCTTTTCCTTT-AAGCCCACAACTCCGTGGCACTTTTTTCTTCAAAGTCCACGACTCC
*
458089 GTGGCA-TTTTTTCTTCAAAGCCCACAACTTC
65 GTGGCACTTTTTTCTTTAAAGCCCACAACTTC
* *
458120 GTGGCAC-CTTTTCCTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTT-TTCAAAGCCCACAAC
1 GTGGCACTCTTTTCCTTT-AAGCCCACAACTCCGTGGCA-CTT-TT-TTCTTCAAAGTCCACGAC
* *
458183 TCCGTGGCACTTTCTTCTTTTCAAAGCCCACAACTCC
62 TCCGTGGCACTTTTTTC-TTT-AAAGCCCACAACTTC
* * * * * **
458220 GTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCATAAC
1 GTGGCACTCTTTTC--CTTTAAGCCCACAACTCCGTGGCA-CTTTTT-TCTTCAAAGTCCACGAC
*
458285 TCCGTGGCACCTTTTTCTGTTTAAAGCCCACAA-TTC
62 TCCGTGGCA-CTTTTT-TCTTTAAAGCCCACAACTTC
* * * *
458321 TGCGGCACACTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCC
1 -GTGGCACTC-TTTTC-CTTT-AAGCCCACAACTCCGTGGCACT-TTTTT--C--TTCAAAGTCC
* *
458386 ACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAAC-TC
57 ACGACTCCGTGGCACTTTTTTC-TTTAAAGCCCACAACTTC
* **
458426 TGTGGCACACTTTTCCTTCTAAGCCCACAACTCCGTGGCAC--CCTT-TT--AAGTCCACGACTC
1 -GTGGCACTCTTTTCCTT-TAAGCCCACAACTCCGTGGCACTTTTTTCTTCAAAGTCCACGACTC
*
458486 CGTGGCACTCTTTTCCTTTAAAGCCCACAAC-TC
64 CGTGGCACT-TTTTTCTTTAAAGCCCACAACTTC
* **
458519 TGTGGCACACTTTTCCTTCTAAGCCCACAACTCCGTGGCAC--CCTT-TT--AAGTCCACGACTC
1 -GTGGCACTCTTTTCCTT-TAAGCCCACAACTCCGTGGCACTTTTTTCTTCAAAGTCCACGACTC
* *
458579 CGTGGCACTCTTTTCCTTTAAAGCCCACAACTAC
64 CGTGGCACT-TTTTTCTTTAAAGCCCACAACTTC
**
458613 GTGGCACTCTTTTCCTTCTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACGACT
1 GTGGCACTCTTTTCCTT-TAAGCCCACAACTCCGTGGCACT-TTTTT-CTTCAAAGTCCACGACT
* *
458678 CCGTGGCACTCTTTTCCTTTAAAGCCCACAACTAC
63 CCGTGGCACT-TTTTTCTTTAAAGCCCACAACTTC
* * *
458713 GTGGCACTCTTTTCCTTCTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACT
1 GTGGCACTCTTTTCCTT-TAAGCCCACAACTCCGTGGCACT-TTTTT-CTTCAAAGTCCACGACT
*
458778 CCGTGGCACTCTTTTTCCTTCTAAA-CCCACAACTCC
63 CCGTGGCACT-TTTTT-CTT-TAAAGCCCACAACTTC
* * * **
458814 GTGGCACTCTTTTTTTCCTTTTTAAAGCCCACAACTCTGTGGCACCTTGTTCTTTTTAAGTCCAC
1 GTGGCACTC---TTTTCC--TTT-AAGCCCACAACTCCGTGGCACTTTTTTC-TTCAAAGTCCAC
* *
458879 AACTTCGTGGCATCTTT
59 GACTCCGTGGCA-CTTT
458896 CACCCTTTCT
Statistics
Matches: 680, Mismatches: 50, Indels: 80
0.84 0.06 0.10
Matches are distributed among these distances:
93 200 0.29
94 6 0.01
95 4 0.01
96 4 0.01
97 21 0.03
98 8 0.01
99 2 0.00
100 148 0.22
101 32 0.05
102 73 0.11
103 63 0.09
104 15 0.02
105 58 0.09
106 46 0.07
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.33
Consensus pattern (96 bp):
GTGGCACTCTTTTCCTTTAAGCCCACAACTCCGTGGCACTTTTTTCTTCAAAGTCCACGACTCCG
TGGCACTTTTTTCTTTAAAGCCCACAACTTC
Found at i:458180 original size:34 final size:34
Alignment explanation
Indices: 458012--458895 Score: 830
Period size: 34 Copynumber: 26.8 Consensus size: 34
458002 ATCTCTGCTC
* * * *
458012 AAAGTCCACGACTCAGTGGCA-TC-TTTTCCTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTT
* * * * *
458044 AAAGTCCACGACTCAGTGGCA-T-TTTGTC--TC
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTT
* * * *
458074 AAAGTCCACGACTCAGTGGCA-T-TTTTTC-TTC
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTT
* *
458105 AAAGCCCACAACTTCGTGGCAC-C-TTTTCCTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTT
*
458137 AAAGCCCACAACTCCGTGGCAC-CTTCTTCTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTT
*
458170 CAAAGCCCACAACTCCGTGGCACT-TTCTTCTTTT
1 -AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTT
458204 CAAAGCCCACAACTCCGTGGCACT-TTTTTCATCTTT
1 -AAAGCCCACAACTCCGTGGCACTCTTTTTC-T-TTT
*
458240 -AAGTCCACAACTCCGTGGCAC-CTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTC-TTTT
*
458273 AAAGCCCATAACTCCGTGGCAC-CTTTTTCTGTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCT-TTT
* * * *
458307 AAAGCCCACAATTCTGCGGCACACTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTC-TTTT
458342 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTT--CTTTT
458378 CAAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTT
1 -AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTT
* * * *
458412 AAAGCCCACAACTCTGTGGCACACTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTT
458446 -AAGCCCACAACTCCGTGGCAC-C-----CTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTT
* * *
458473 -AAGTCCACGACTCCGTGGCACTC-TTTTCCTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTT
* * * *
458505 AAAGCCCACAACTCTGTGGCACACTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTT
458539 -AAGCCCACAACTCCGTGGCAC-C-----CTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTT
* * *
458566 -AAGTCCACGACTCCGTGGCACTC-TTTTCCTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTT
* * *
458598 AAAGCCCACAACTACGTGGCACTCTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTT
458632 -AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTT-CTTTT
* * *
458666 -AAGTCCACGACTCCGTGGCACTC-TTTTCCTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTT
* * *
458698 AAAGCCCACAACTACGTGGCACTCTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTT
*
458732 -AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCACTCTTTTT-CTTTT
*
458766 -AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCACTCTTTTT-CTTTT
458800 AAA-CCCACAACTCCGTGGCACTCTTTTTTTCCTTTTT
1 AAAGCCCACAACTCCGTGGCACTC--TTTTT-C-TTTT
* *
458837 AAAGCCCACAACTCTGTGGCAC-CTTGTTCTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTT
* * *
458870 TAAGTCCACAACTTCGTGGCA-TCTTT
1 AAAGCCCACAACTCCGTGGCACTCTTT
458896 CACCCTTTCT
Statistics
Matches: 737, Mismatches: 72, Indels: 85
0.82 0.08 0.10
Matches are distributed among these distances:
27 46 0.06
28 2 0.00
30 28 0.04
31 24 0.03
32 64 0.09
33 211 0.29
34 252 0.34
35 42 0.06
36 21 0.03
37 30 0.04
38 17 0.02
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.33
Consensus pattern (34 bp):
AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTT
Found at i:458480 original size:27 final size:27
Alignment explanation
Indices: 458371--458592 Score: 120
Period size: 33 Copynumber: 7.3 Consensus size: 27
458361 CACTCTTTTT
458371 CCCTTTTCAAAGCCCACAACTCCGTGGCA
1 CCCTTTT--AAGCCCACAACTCCGTGGCA
*
458400 CCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACA
1 CC-----CTTTT-AAGCCCACAACTCCGTGG--CA
*
458435 CTTTTCCTTCTAAGCCCACAACTCCGTGGCA
1 C----CCTTTTAAGCCCACAACTCCGTGGCA
* *
458466 CCCTTTTAAGTCCACGACTCCGTGGCA
1 CCCTTTTAAGCCCACAACTCCGTGGCA
* *
458493 CTCTTTTCCTTTAAAGCCCACAACTCTGTGGCACA
1 --C----CCTTTTAAGCCCACAACTCCGTGG--CA
*
458528 CTTTTCCTTCTAAGCCCACAACTCCGTGGCA
1 C----CCTTTTAAGCCCACAACTCCGTGGCA
* *
458559 CCCTTTTAAGTCCACGACTCCGTGGCA
1 CCCTTTTAAGCCCACAACTCCGTGGCA
*
458586 CTCTTTT
1 CCCTTTT
458593 CCTTTAAAGC
Statistics
Matches: 157, Mismatches: 17, Indels: 40
0.73 0.08 0.19
Matches are distributed among these distances:
27 52 0.33
29 3 0.02
31 6 0.04
33 81 0.52
34 9 0.06
35 5 0.03
39 1 0.01
ACGTcount: A:0.20, C:0.36, G:0.14, T:0.30
Consensus pattern (27 bp):
CCCTTTTAAGCCCACAACTCCGTGGCA
Found at i:458974 original size:34 final size:33
Alignment explanation
Indices: 458897--459066 Score: 249
Period size: 32 Copynumber: 5.2 Consensus size: 33
458887 GGCATCTTTC
*
458897 ACCCTT-TCTAAAGCCCACACAAGTCGATGGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
*
458929 AACCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGC-A
*
458963 ACCCTTCTCTAAAGCCCACACAAGTTGGTGGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
* *
458996 ACCC-CCTC-AAAGCCCACACAAGTCGATGGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
*
459027 ACCC-TCTCTAAAGCCCACACAAGTCAGTGGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
459059 ACCCTTCT
1 ACCCTTCT
459067 AAGCCCAATA
Statistics
Matches: 124, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
31 28 0.23
32 33 0.27
33 32 0.26
34 31 0.25
ACGTcount: A:0.30, C:0.36, G:0.16, T:0.18
Consensus pattern (33 bp):
ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
Found at i:459045 original size:32 final size:32
Alignment explanation
Indices: 458897--459073 Score: 236
Period size: 33 Copynumber: 5.5 Consensus size: 32
458887 GGCATCTTTC
*
458897 ACCCTTTCTAAAGCCCACACAAGTCGATGGCAA
1 ACCCTCTCTAAAGCCCACACAAGTCGATGGC-A
* *
458930 ACCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
1 ACCCTCTCTAAAGCCCACACAAGTCGATGGC-A
* *
458963 ACCCTTCTCTAAAGCCCACACAAGTTGGTGGCA
1 ACCC-TCTCTAAAGCCCACACAAGTCGATGGCA
*
458996 ACCCCCTC-AAAGCCCACACAAGTCGATGGCA
1 ACCCTCTCTAAAGCCCACACAAGTCGATGGCA
459027 ACCCTCTCTAAAGCCCACACAAGTC-AGTGGCA
1 ACCCTCTCTAAAGCCCACACAAGTCGA-TGGCA
459059 ACCCT-TCT-AAGCCCA
1 ACCCTCTCTAAAGCCCA
459074 ATATAGCTGG
Statistics
Matches: 132, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
30 7 0.05
31 32 0.24
32 29 0.22
33 38 0.29
34 26 0.20
ACGTcount: A:0.31, C:0.37, G:0.16, T:0.17
Consensus pattern (32 bp):
ACCCTCTCTAAAGCCCACACAAGTCGATGGCA
Found at i:459131 original size:49 final size:49
Alignment explanation
Indices: 459066--459838 Score: 785
Period size: 49 Copynumber: 16.0 Consensus size: 49
459056 GCAACCCTTC
*
459066 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * * * * *
459115 TAAGACCAATGA-AGCTGGCCTTGACTCAGCACATTGGCCCCTTCACCTT
1 TAAGTCCAAT-ATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * * * *
459164 TAAGCCCGATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* *
459213 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-----CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * * *
459256 TAAGCCCGATATCGCTGACCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * *
459305 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * * *
459354 TAAGTCCAATGTAGCTGGCCTTGACTCAACACATTGG---C---ATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
*
459397 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * * * * * *
459446 TAAGACCAATGTAGCTGGCCTTGACTCAGCACATTGGCCCCTTCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * * * *
459495 TAAGCCCGATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* *
459544 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-----CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * *
459587 TAAGCCCGATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT-TCCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTAT-CTT
* * * *
459636 TAAGCCCGATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
459685 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTT--ATCTT
* * * *
459737 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC---TT-T-ATCTT
* * * * * * *
459792 TAAGCCCAATATCGTTGGCCGTGAATTAACATATTGGCATCTTTATC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
459839 ACTTTTCTCA
Statistics
Matches: 611, Mismatches: 85, Indels: 56
0.81 0.11 0.07
Matches are distributed among these distances:
43 111 0.18
44 2 0.00
46 2 0.00
48 3 0.00
49 404 0.66
50 6 0.01
51 2 0.00
52 39 0.06
53 2 0.00
54 1 0.00
55 38 0.06
56 1 0.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
Found at i:459331 original size:141 final size:143
Alignment explanation
Indices: 459066--459830 Score: 807
Period size: 141 Copynumber: 5.3 Consensus size: 143
459056 GCAACCCTTC
*
459066 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGA-AGC
1 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC----TCTTTAAGTCCAAT-ATAGC
* * * * * * * *
459130 TGGCCTTGACTCAGCACATTGGCCCCTTCACCTTTAAGCCCGATATCGCTGGCCTTGAATCAGCA
61 TGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGCCCAATGTAGCTGGCCTTGAATCAGCA
* *
459195 TATTGGCATCTTCATCTT
126 CATTGGCACCTTCATCTT
* * * * * * *
459213 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-CTTTAAGCCCGATATCGCTGACC
1 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTCTTTAAGTCCAATATAGCTGGCC
*
459276 TTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
66 TTGAATCAGCATATTGGCACCTTTATCTTTAAGCCCAATGTAGCTGGCCTTGAATCAGCACATTG
459341 GCACCTTCATCTT
131 GCACCTTCATCTT
* * * * *
459354 TAAGTCCAATGTAGCTGGCCTTGACTCAACACATTGGCA--TCTTTAAGTCCAATATAGCTGGCC
1 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTCTTTAAGTCCAATATAGCTGGCC
* * *
459417 TTGAATCAGCATATTGGCACCTTTATCATTAAGACCAATGTAGCTGGCCTTGACTCAGCACATTG
66 TTGAATCAGCATATTGGCACCTTTATCTTTAAGCCCAATGTAGCTGGCCTTGAATCAGCACATTG
* *
459482 GCCCCTTCACCTT
131 GCACCTTCATCTT
* * *
459495 TAAGCCCGATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C--C-TCTTTAAGTCCAATATAGCT
* * * * *
459560 GGCCTTGAATCAGCACATTGGCA-C-----CTTTAAGCCCGATATCGCTGGCCTTGAATCAGCAT
62 GGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGCCCAATGTAGCTGGCCTTGAATCAGCAC
*
459619 ATTGGCACCTT-TTCCTT
127 ATTGGCACCTTCAT-CTT
* *
459636 TAAGCCCGATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTTTAAGTCCAATATAGCT
1 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC----TCTTTAAGTCCAATATAGCT
**
459701 GGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAG
62 GGCCTTGAATCAGCATATTGGCACC-TTT--ATCTTTAAGCCCAATGTAGCTGGCCTTGAATCAG
*
459766 CACATTGACATCCTTTTTCTCATCTT
124 CACATTGGCA-CC----T-TCATCTT
* * * * *
459792 TAAGCCCAATATCGTTGGCCGTGAATTAACATATTGGCA
1 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
459831 TCTTTATCAC
Statistics
Matches: 526, Mismatches: 64, Indels: 47
0.83 0.10 0.07
Matches are distributed among these distances:
138 1 0.00
140 2 0.00
141 366 0.70
142 1 0.00
146 2 0.00
147 77 0.15
150 35 0.07
151 2 0.00
155 1 0.00
156 38 0.07
157 1 0.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.31
Consensus pattern (143 bp):
TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTCTTTAAGTCCAATATAGCTGGCC
TTGAATCAGCATATTGGCACCTTTATCTTTAAGCCCAATGTAGCTGGCCTTGAATCAGCACATTG
GCACCTTCATCTT
Found at i:459392 original size:190 final size:186
Alignment explanation
Indices: 459061--459772 Score: 867
Period size: 190 Copynumber: 3.7 Consensus size: 186
459051 CAGTGGCAAC
*
459061 CCTTCTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATG
1 CCTT-TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAAT-
* * * * * * *
459126 A-AGCTGGCCTTGACTCAGCACATTGGCCCCTTCACCTTTAAGCCCGATATCGCTGGCCTTGAAT
64 ATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAAT
* * *
459190 CAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
129 CAGCACATTGGCA----CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
* * * *
459252 CCTTTAAGCCCGATATCGCTGACCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
1 CCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATAT
*
459317 AGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCA
66 AGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCA
*
459382 ACACATTGG--CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
131 GCACATTGGCACATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
* * * * * * * *
459436 CCTTTATCATTAAGACCAATGTAGCTGGCCTTGACTCAGCACATTGGCCCCTTCACCTTTAAGCC
1 CC----T--TTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTC
* * * *
459501 CGATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTT
60 CAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTT
* * *
459566 GAATCAGCACATTGGCAC--CTTTAAGCCCGATATCGCTGGCCTTGAATCAGCATATTGGCA
125 GAATCAGCACATTGGCACATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
* * *
459626 CCTTTTCCTTTAAGCCCGATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTTTAAGTC
1 ------CCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTC
* *
459691 CAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGC
60 CAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTTTAAGTCCAATGTAGCTGGC
459756 CTTGAATCAGCACATTG
122 CTTGAATCAGCACATTG
459773 ACATCCTTTT
Statistics
Matches: 450, Mismatches: 53, Indels: 34
0.84 0.10 0.06
Matches are distributed among these distances:
184 45 0.10
188 1 0.00
190 353 0.78
191 4 0.01
192 4 0.01
193 41 0.09
196 2 0.00
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (186 bp):
CCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATAT
AGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCA
GCACATTGGCACATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
Found at i:459923 original size:49 final size:49
Alignment explanation
Indices: 459847--460135 Score: 403
Period size: 49 Copynumber: 6.0 Consensus size: 49
459837 TCACTTTTCT
*
459847 CACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGG
1 CACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
* * * * *
459896 CACCTTCACCATTAAGTCCAATATAGCTGGCCTTGAATGAGCATATTGG
1 CACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
459945 CACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
1 CACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
459994 CACC-TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATT-G
1 CACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
* * * *
460041 -A----CACCTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGG
1 CACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
*
460085 CACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 CACC--TT-CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
460136 ACATCTTTTT
Statistics
Matches: 211, Mismatches: 20, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
43 37 0.18
44 1 0.00
45 1 0.00
46 1 0.00
47 1 0.00
48 42 0.20
49 91 0.43
52 37 0.18
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (49 bp):
CACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
Found at i:459958 original size:122 final size:119
Alignment explanation
Indices: 459731--459946 Score: 285
Period size: 122 Copynumber: 1.8 Consensus size: 119
459721 GCACCTTTTC
* * *
459731 CATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAG
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACATCC---TTCTCACCATTAAG
* * *
459796 CCCAATATCGTTGGCCGTGAATTAACATATTGGCATCTTTATCACTTTTCTCACCTT
63 CCCAATATAGCTGGCCGTGAATGAACATATTGGCATCTTTATCACTTTTCTCACCTT
* * *
459853 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-CC-T-TCACCATTAAGTCC
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTCTCACCATTAAGCCC
* *
459915 AATATAGCTGGCCTTGAATGAGCATATTGGCA
66 AATATAGCTGGCCGTGAATGAACATATTGGCA
459947 CCTTCATCTT
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
116 38 0.46
117 1 0.01
121 2 0.02
122 42 0.51
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (119 bp):
CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTCTCACCATTAAGCCC
AATATAGCTGGCCGTGAATGAACATATTGGCATCTTTATCACTTTTCTCACCTT
Found at i:460063 original size:43 final size:43
Alignment explanation
Indices: 459954--460143 Score: 191
Period size: 43 Copynumber: 4.1 Consensus size: 43
459944 GCACCTTCAT
*
459954 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATT-G-A---CAC
460002 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACAC
* * * *
460045 CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTTCCAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATT-G-A-------CAC
* *
460097 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACAC
460140 CTTT
1 CTTT
460144 TTTCTCATCT
Statistics
Matches: 124, Mismatches: 9, Indels: 23
0.79 0.06 0.15
Matches are distributed among these distances:
43 44 0.35
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 38 0.31
50 1 0.01
51 1 0.01
52 36 0.29
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (43 bp):
CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACAC
Found at i:460136 original size:95 final size:91
Alignment explanation
Indices: 459954--460143 Score: 299
Period size: 95 Copynumber: 2.0 Consensus size: 91
459944 GCACCTTCAT
* *
459954 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGTCCAATGTAG
1 CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGTCCAATGTAG
460019 CTGGCCTTGAATCAGCACATTGACAC
66 CTGGCCTTGAATCAGCACATTGACAC
* *
460045 CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCACATTGGCACC---T-CATCTTTAAGTCCAAT
*
460110 GTAGCTGGCCTTGAATCAGCACATTGACAT
62 GTAGCTGGCCTTGAATCAGCACATTGACAC
460140 CTTT
1 CTTT
460144 TTTCTCATCT
Statistics
Matches: 90, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
91 41 0.46
94 1 0.01
95 48 0.53
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (91 bp):
CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGTCCAATGTAG
CTGGCCTTGAATCAGCACATTGACAC
Found at i:460174 original size:55 final size:54
Alignment explanation
Indices: 460045--460198 Score: 163
Period size: 55 Copynumber: 2.9 Consensus size: 54
460035 ACATTGACAC
* *
460045 CTTTAAG-TCCAATATAGCTAGCCTTGAATCAGCATATTGGCA-C-CTTTTCCAT
1 CTTTAAGCT-CAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTTCCAT
* * * *
460097 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCTTTTTTCTCAT
1 CTTTAAGCTCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTTC-CAT
* * * *
460152 CTTTAAGC-CTAATATCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 CTTTAAGCTC-AATATAGCTGGCCTTGAATCAGCATATTGGCATCTTT
460199 ATCACTTTTC
Statistics
Matches: 84, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
52 36 0.43
53 2 0.02
54 6 0.07
55 40 0.48
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (54 bp):
CTTTAAGCTCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTTCCAT
Found at i:460260 original size:363 final size:360
Alignment explanation
Indices: 459492--460266 Score: 1151
Period size: 363 Copynumber: 2.1 Consensus size: 360
459482 GCCCCTTCAC
* * * * * * *
459492 CTTTAAGCCCGATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCACCATTAAGTCCAATATA
* * *
459557 GCTGGCCTTGAATCAGCACATTGGCACCTTTAAGCCCGATATCGCTGGCCTTGAATCAGCATATT
66 GCTGGCCTTGAATCAGCACATTGGCACCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCACATT
** * * * *
459622 GGCACCTTTTCCTTTAAGCCCGATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTTTA
131 GGCACCTCATCCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCACATTGACACC----TCTTTA
*
459687 AGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAATGTAGC
192 AGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAATGTAGC
459752 TGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCGTGAA
257 TGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCGTGAA
* *
459817 TTAACATATTGGCATCTTTATCACTTTTCTCACCTTCAT
322 TCAACATATTGGCATCTTTATCACTTTTCTCACCATCAT
* * *
459856 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCACCATTAAGTCCAATATA
* * * *
459921 GCTGGCCTTGAATGAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
66 GCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGCCCAATATAGCTGGCCTTGAATCAG
* *
459986 CACATTGGCACCTCAT-CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACA-C-CTT
125 CACATTGGCACCTCATCCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCACATTGACACCTCTT
460048 TAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAATGTA
190 TAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAATGTA
* *
460113 GCTGGCCTTGAATCAGCACATTGACATCTTTTTTCTCATCTTTAAGCCTAATATCGTTGGCCGTG
255 GCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCGTG
*
460178 AATCAACATATTGGCATCTTTATCACTTTTCTCATCATCAT
320 AATCAACATATTGGCATCTTTATCACTTTTCTCACCATCAT
*
460219 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCA
460267 TCATCTCTAA
Statistics
Matches: 370, Mismatches: 35, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
363 212 0.57
364 79 0.21
368 2 0.01
369 36 0.10
370 41 0.11
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.34
Consensus pattern (360 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCACCATTAAGTCCAATATA
GCTGGCCTTGAATCAGCACATTGGCACCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCACATT
GGCACCTCATCCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCACATTGACACCTCTTTAAGTC
CAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGC
CTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAA
CATATTGGCATCTTTATCACTTTTCTCACCATCAT
Found at i:461048 original size:13 final size:13
Alignment explanation
Indices: 461030--461054 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
461020 CATAAAATGT
461030 TGTATCGATACAA
1 TGTATCGATACAA
461043 TGTATCGATACA
1 TGTATCGATACA
461055 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:461052 original size:33 final size:33
Alignment explanation
Indices: 461010--461079 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
461000 TTCAACGATT
461010 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
461043 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
461076 TGTA
1 TGTA
461080 AGCTACTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:461175 original size:52 final size:52
Alignment explanation
Indices: 461119--461243 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 52
461109 CACTGATCTT
*
461119 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
* * *
461171 TGTATCGATACATGTAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
*
461223 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
461244 CTTTTCATAT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
Found at i:468609 original size:19 final size:19
Alignment explanation
Indices: 468585--468630 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
468575 TTCAGATATT
*
468585 TCGATATAAAAAAATTGTA
1 TCGATACAAAAAAATTGTA
**
468604 TCGATACATTAAAATTGTA
1 TCGATACAAAAAAATTGTA
*
468623 TAGATACA
1 TCGATACA
468631 TTTTGACTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.48, C:0.09, G:0.11, T:0.33
Consensus pattern (19 bp):
TCGATACAAAAAAATTGTA
Found at i:468631 original size:19 final size:19
Alignment explanation
Indices: 468595--468632 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
468585 TCGATATAAA
*
468595 AAAATTGTATCGATACATT
1 AAAATTGTATAGATACATT
468614 AAAATTGTATAGATACATT
1 AAAATTGTATAGATACATT
468633 TTGACTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.08, G:0.11, T:0.37
Consensus pattern (19 bp):
AAAATTGTATAGATACATT
Found at i:471164 original size:32 final size:33
Alignment explanation
Indices: 471102--471165 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
471092 ACAGACCAGA
471102 TATATCAATACATACTACTTAGTATCGATACAT
1 TATATCAATACATACTACTTAGTATCGATACAT
* * *
471135 TATATCAATACAT-GTTCTTTGTATCGATACA
1 TATATCAATACATACTACTTAGTATCGATACA
471166 CCATAAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.54
33 13 0.46
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.39
Consensus pattern (33 bp):
TATATCAATACATACTACTTAGTATCGATACAT
Found at i:475810 original size:13 final size:13
Alignment explanation
Indices: 475792--475828 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
475782 ACATTTTACC
475792 ATGTATCGATACA
1 ATGTATCGATACA
475805 ATGTATCGATACA
1 ATGTATCGATACA
* *
475818 CTATATCGATA
1 ATGTATCGATA
475829 TTGAGTAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:475914 original size:13 final size:13
Alignment explanation
Indices: 475896--475922 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
475886 TACCAAGAAC
475896 ATGTATCAATACA
1 ATGTATCAATACA
475909 ATGTATCAATACA
1 ATGTATCAATACA
475922 A
1 A
475923 AGCAATATGT
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:0.48, C:0.15, G:0.07, T:0.30
Consensus pattern (13 bp):
ATGTATCAATACA
Found at i:475935 original size:33 final size:32
Alignment explanation
Indices: 475877--475941 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
475867 ACAATTCAGT
* *
475877 ATGTATCGATACCAAGAACATGTATCAATACA
1 ATGTATCAATACAAAGAACATGTATCAATACA
*
475909 ATGTATCAATACAAAGCAATATGTATCAATACA
1 ATGTATCAATACAAAG-AACATGTATCAATACA
475942 TCTGGGTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.46, C:0.17, G:0.11, T:0.26
Consensus pattern (32 bp):
ATGTATCAATACAAAGAACATGTATCAATACA
Found at i:481192 original size:17 final size:17
Alignment explanation
Indices: 481170--481203 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
481160 AATGTGCCAT
481170 TGACTTGTTGGCTTTTG
1 TGACTTGTTGGCTTTTG
481187 TGACTTGTTGGCTTTTG
1 TGACTTGTTGGCTTTTG
481204 AAAGGTGCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.29, T:0.53
Consensus pattern (17 bp):
TGACTTGTTGGCTTTTG
Found at i:481227 original size:28 final size:29
Alignment explanation
Indices: 481187--481575 Score: 445
Period size: 29 Copynumber: 13.7 Consensus size: 29
481177 TTGGCTTTTG
*
481187 TGACTTGTTGGCTTTTGAAAGG-TGCCAC
1 TGACTTGTGGGCTTTTGAAAGGATGCCAC
* *
481215 TGACTTATAGGCTTTTGAAAGG-TGCCAC
1 TGACTTGTGGGCTTTTGAAAGGATGCCAC
* *
481243 TAACTTGTGGGC-TTGGAAAGGATGCCAC
1 TGACTTGTGGGCTTTTGAAAGGATGCCAC
* * *
481271 -GAACTTGTGGGTTTTTGGAAGGATGCCAT
1 TG-ACTTGTGGGCTTTTGAAAGGATGCCAC
* * * *
481300 TAACTTGTGGGCTTTTAAAAAGATGCCAT
1 TGACTTGTGGGCTTTTGAAAGGATGCCAC
*
481329 TGACTTGTGGGC-TTTGAAAAGATGCCAC
1 TGACTTGTGGGCTTTTGAAAGGATGCCAC
*
481357 TGACTTATGGGC-TTTGAAAGGATGCCAC
1 TGACTTGTGGGCTTTTGAAAGGATGCCAC
*
481385 TGACTTGTGGGCTTTTGAAAGGATACCAC
1 TGACTTGTGGGCTTTTGAAAGGATGCCAC
* *
481414 TAACTTGTGGACTTTTGAAAGGATGCCAC
1 TGACTTGTGGGCTTTTGAAAGGATGCCAC
*
481443 TAACTTGTGGGCTTTTGAAAGGATGCCAC
1 TGACTTGTGGGCTTTTGAAAGGATGCCAC
* *
481472 TAACTTGTGGACTTTTGAAAGGATGCCAC
1 TGACTTGTGGGCTTTTGAAAGGATGCCAC
** *
481501 TGACTTGTGGGCTTTAAAAAGG-TGCCAT
1 TGACTTGTGGGCTTTTGAAAGGATGCCAC
* * * *
481529 TGCCTTGT-AGCCTTTGAAATGATGCCAC
1 TGACTTGTGGGCTTTTGAAAGGATGCCAC
* *
481557 TAACTTATGGGC-TTTGAAA
1 TGACTTGTGGGCTTTTGAAA
481576 AAGGGTCATA
Statistics
Matches: 310, Mismatches: 44, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
27 16 0.05
28 130 0.42
29 164 0.53
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.32
Consensus pattern (29 bp):
TGACTTGTGGGCTTTTGAAAGGATGCCAC
Found at i:481391 original size:114 final size:114
Alignment explanation
Indices: 481189--481576 Score: 426
Period size: 114 Copynumber: 3.4 Consensus size: 114
481179 GGCTTTTGTG
* * * * * *
481189 ACTTGTTGGCTTTTGAAAGGTGCCACTGACTTATAGGCTTTTG-AAAGGTGCCACTAACTTGTGG
1 ACTTGTGGGCTTTTAAAAGATGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTAACTTGTGG
* * * * *
481253 GCTTGGAAAGGATGCCAC-GAACTTGTGGGTTTTTGGAAGGATGCCATTA
66 GCTTTGAAAGGATGCCACTG-ACTTGTGGGCTTTTGAAAGGATACCACTA
* * *
481302 ACTTGTGGGCTTTTAAAAAGATGCCATTGACTTGTGGGC-TTTGAAAAGATGCCACTGACTTATG
1 ACTTGTGGGCTTTT-AAAAGATGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTAACTTGTG
481366 GGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTTGAAAGGATACCACTA
65 GGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTTGAAAGGATACCACTA
* * * *
481416 ACTTGTGGACTTTTGAAAGGATGCCACTAACTTGTGGGCTTTTGAAAGGATGCCACTAACTTGTG
1 ACTTGTGGGCTTTT-AAAAGATGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTAACTTGTG
* ** * * *
481481 GACTTTTGAAAGGATGCCACTGACTTGTGGGCTTTAAAAAGG-TGCCATTG
65 GGC-TTTGAAAGGATGCCACTGACTTGTGGGCTTTTGAAAGGATACCACTA
* * * * * * *
481531 CCTTGTAGCCTTTGAAATGATGCCACTAACTTATGGGC-TTTGAAAA
1 ACTTGTGGGCTTTTAAAAGATGCCACTGACTTGTGGGCTTTTGAAAA
481577 AGGGTCATAT
Statistics
Matches: 235, Mismatches: 35, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
113 24 0.10
114 135 0.57
115 40 0.17
116 36 0.15
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (114 bp):
ACTTGTGGGCTTTTAAAAGATGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTAACTTGTGG
GCTTTGAAAGGATGCCACTGACTTGTGGGCTTTTGAAAGGATACCACTA
Found at i:485944 original size:52 final size:52
Alignment explanation
Indices: 485744--485924 Score: 353
Period size: 52 Copynumber: 3.5 Consensus size: 52
485734 CGAAATATGA
485744 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
485796 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
485848 AAATTTTCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
485900 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
485925 AAGATCAGTG
Statistics
Matches: 127, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 127 1.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:485951 original size:13 final size:13
Alignment explanation
Indices: 485933--485957 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
485923 CAAAGATCAG
485933 TGTATCGATACAA
1 TGTATCGATACAA
485946 TGTATCGATACA
1 TGTATCGATACA
485958 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:486024 original size:19 final size:18
Alignment explanation
Indices: 486000--486062 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
485990 TAGCTTACAT
486000 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
486019 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
486032 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
486051 TGTATCGATACA
1 TGTATCGATACA
486063 GATCGTTGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
16 2 0.05
18 1 0.03
19 23 0.61
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:486036 original size:32 final size:32
Alignment explanation
Indices: 485995--486062 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
485985 GGCAGTAGCT
485995 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAAAACTTATGTATCGA
*
486027 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAAAACTTATGTATCGA
486059 TACA
1 TACA
486063 GATCGTTGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.34
Consensus pattern (32 bp):
TACATTGTATCGATACAAAACTTATGTATCGA
Found at i:486037 original size:13 final size:13
Alignment explanation
Indices: 486019--486043 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
486009 ACAAAACTTA
486019 TGTATCGATACAT
1 TGTATCGATACAT
486032 TGTATCGATACA
1 TGTATCGATACA
486044 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:491305 original size:93 final size:93
Alignment explanation
Indices: 491146--491332 Score: 356
Period size: 93 Copynumber: 2.0 Consensus size: 93
491136 TAGTCATGGG
*
491146 CATTACATGAAGGGCCGACCCATTGTCTATGAGTACTTTAGGTAAAATGCGTCCCTTACAATGGG
1 CATTACATGAAGGGCCGACCCATTGTCTATGAGCACTTTAGGTAAAATGCGTCCCTTACAATGGG
491211 TAGTGATGTGCAAAGCCTTATAACTGGC
66 TAGTGATGTGCAAAGCCTTATAACTGGC
*
491239 CATTACATTAAGGGCCGACCCATTGTCTATGAGCACTTTAGGTAAAATGCGTCCCTTACAATGGG
1 CATTACATGAAGGGCCGACCCATTGTCTATGAGCACTTTAGGTAAAATGCGTCCCTTACAATGGG
491304 TAGTGATGTGCAAAGCCTTATAACTGGC
66 TAGTGATGTGCAAAGCCTTATAACTGGC
491332 C
1 C
491333 CTACCTCCAC
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 92 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (93 bp):
CATTACATGAAGGGCCGACCCATTGTCTATGAGCACTTTAGGTAAAATGCGTCCCTTACAATGGG
TAGTGATGTGCAAAGCCTTATAACTGGC
Found at i:501110 original size:20 final size:21
Alignment explanation
Indices: 501085--501138 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
501075 GTTACAAGTA
*
501085 ATGTATCGATACAATT-CATC
1 ATGTATCGATACAATTGCACC
*
501105 ATGTATCGATAC-ATTGTACC
1 ATGTATCGATACAATTGCACC
501125 ATGTATCGATACAA
1 ATGTATCGATACAA
501139 ACAGTGGTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 3 0.10
20 26 0.87
21 1 0.03
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACAATTGCACC
Found at i:502209 original size:18 final size:19
Alignment explanation
Indices: 502188--502223 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
502178 AAAAATCAAA
502188 AACTTATGAAAA-TGAATG
1 AACTTATGAAAACTGAATG
*
502206 AACTTTTGAAAACTGAAT
1 AACTTATGAAAACTGAAT
502224 TAATATGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.47, C:0.08, G:0.14, T:0.31
Consensus pattern (19 bp):
AACTTATGAAAACTGAATG
Found at i:502231 original size:168 final size:165
Alignment explanation
Indices: 501825--502258 Score: 559
Period size: 165 Copynumber: 2.6 Consensus size: 165
501815 CAGTTTTTTC
* * * * * * * *
501825 AAAAAAAGAGATTTTCAAAGAAAAATTC-AAAACTCATGAAAATAAATTAATTTTTTAAAAATGA
1 AAAAAAAG-GAATTTCAAGGAAAAAATCAAAAACTAATGAAAATGAATGAATTTTTGAAAACTGA
* *
501889 ATTAATATGAATCAAATGATGATATTTGATGAATTTTAAAAATTAAAAACCGAGAAAAATCTCCT
65 ATTAATATGAATCAAATGATGATATTTGATGAATTTTAAAAATGAAAAACCGAGAAAAATCCCCT
* ** *
501954 CAAAAAAATTTACGGAGTTGCAAACACCGTATTGCG
130 CAAAAAAATTTACAGAGTTAAAAACACCGTATTGCA
*
501990 AAAAAAAGAAATTTCAAGGAAAAAATCAAAAA-TGAATGAAAATGAATGAATTTTTGAAAACTGA
1 AAAAAAAGGAATTTCAAGGAAAAAATCAAAAACT-AATGAAAATGAATGAATTTTTGAAAACTGA
* * *
502054 ATTAATATGAATCGAATGATGATATTTGATGAATTTTAAAAATGGAAAACTGAGAAAAATCCCCT
65 ATTAATATGAATCAAATGATGATATTTGATGAATTTTAAAAATGAAAAACCGAGAAAAATCCCCT
* * *
502119 CAAAATAAATTTACAGTGTTAAAAATACCGTATTTCAAA
130 CAAAA-AAATTTACAGAGTTAAAAACACCGTATTGC--A
* *
502158 AAAAAAAGGAATTTCAAGGAAAAAATCAAAAACTTATGAAAATGAATGAACTTTTGAAAACTGAA
1 AAAAAAAGGAATTTCAAGGAAAAAATCAAAAACTAATGAAAATGAATGAATTTTTGAAAACTGAA
* * *
502223 TTAATATGAAAT-AAATGCTAATATTTGATTAATTTT
66 TTAATATG-AATCAAATGATGATATTTGATGAATTTT
502259 TATGTTTGAA
Statistics
Matches: 234, Mismatches: 28, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
164 16 0.07
165 102 0.44
166 24 0.10
168 88 0.38
169 4 0.02
ACGTcount: A:0.51, C:0.09, G:0.12, T:0.29
Consensus pattern (165 bp):
AAAAAAAGGAATTTCAAGGAAAAAATCAAAAACTAATGAAAATGAATGAATTTTTGAAAACTGAA
TTAATATGAATCAAATGATGATATTTGATGAATTTTAAAAATGAAAAACCGAGAAAAATCCCCTC
AAAAAAATTTACAGAGTTAAAAACACCGTATTGCA
Found at i:504046 original size:13 final size:13
Alignment explanation
Indices: 504028--504053 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
504018 TACACAAAGT
504028 ATGTATCGATACA
1 ATGTATCGATACA
504041 ATGTATCGATACA
1 ATGTATCGATACA
504054 CAAAAAATTG
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:504051 original size:32 final size:33
Alignment explanation
Indices: 504010--504073 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
504000 TAGCCAAACT
**
504010 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
504042 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
504074 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:505691 original size:20 final size:19
Alignment explanation
Indices: 505640--505716 Score: 82
Period size: 20 Copynumber: 3.9 Consensus size: 19
505630 CTTTTACCCA
* *
505640 AATGTATCGATATATTTTT
1 AATGTATCGATACATTTTC
** * *
505659 AATGTATTAATACATGTATG
1 AATGTATCGATACAT-TTTC
505679 AATGTATCGATACATTCTTC
1 AATGTATCGATACATT-TTC
505699 AATGTATCGATACATTTT
1 AATGTATCGATACATTTT
505717 ATCTTTTTAC
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
19 15 0.32
20 32 0.68
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.44
Consensus pattern (19 bp):
AATGTATCGATACATTTTC
Found at i:516062 original size:19 final size:20
Alignment explanation
Indices: 516038--516088 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
516028 CAATTCAATG
*
516038 TGTATCGATACCAAG-AACA
1 TGTATCGATACAAAGCAACA
*
516057 TGTATCGATACAAAGCAATA
1 TGTATCGATACAAAGCAACA
*
516077 TGTATCGCTACA
1 TGTATCGATACA
516089 TCTGGGGTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (20 bp):
TGTATCGATACAAAGCAACA
Found at i:516081 original size:20 final size:20
Alignment explanation
Indices: 516020--516088 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
516010 TAGTTTCATA
** *
516020 TATCGATACAATTCAATGTG
1 TATCGATACAAAGCAATATG
* *
516040 TATCGATACCAAG-AACATG
1 TATCGATACAAAGCAATATG
516059 TATCGATACAAAGCAATATG
1 TATCGATACAAAGCAATATG
*
516079 TATCGCTACA
1 TATCGATACA
516089 TCTGGGGTGT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
19 16 0.40
20 24 0.60
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (20 bp):
TATCGATACAAAGCAATATG
Found at i:517172 original size:27 final size:27
Alignment explanation
Indices: 517142--517198 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
517132 ATATTTAATT
*
517142 AAAATTTTATTAAA-ATATAAAAAAATA
1 AAAATATT-TTAAATATATAAAAAAATA
* *
517169 AAAATATTTTAAATATATATAAAAGTA
1 AAAATATTTTAAATATATAAAAAAATA
517196 AAA
1 AAA
517199 GTAAACATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (27 bp):
AAAATATTTTAAATATATAAAAAAATA
Found at i:518107 original size:16 final size:16
Alignment explanation
Indices: 518086--518142 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
518076 ATTCCGATTT
*
518086 AAGTCATTTCAAGTTC
1 AAGTCATTTCGAGTTC
* *
518102 AAGTCATTTTGGGTTTC
1 AAGTCATTTCGAG-TTC
*
518119 GA-TCATTTCGAGTTC
1 AAGTCATTTCGAGTTC
518134 AAGTCATTT
1 AAGTCATTT
518143 TGGATTCGAG
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
15 4 0.12
16 24 0.75
17 4 0.12
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.42
Consensus pattern (16 bp):
AAGTCATTTCGAGTTC
Found at i:518421 original size:51 final size:51
Alignment explanation
Indices: 518336--518458 Score: 201
Period size: 51 Copynumber: 2.4 Consensus size: 51
518326 TATGGAAAGG
518336 TACCCAGATGTATCGATACATTCTTCAATATATCGATACATTCTATCCTTT
1 TACCCAGATGTATCGATACATTCTTCAATATATCGATACATTCTATCCTTT
* * * * *
518387 TACCTAGATGTATCGATACATTCTTCAATGTATCGATACATTTTGTCTTTT
1 TACCCAGATGTATCGATACATTCTTCAATATATCGATACATTCTATCCTTT
518438 TACCCAGATGTATCGATACAT
1 TACCCAGATGTATCGATACAT
518459 CTAGTTAAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 66 1.00
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.40
Consensus pattern (51 bp):
TACCCAGATGTATCGATACATTCTTCAATATATCGATACATTCTATCCTTT
Found at i:530441 original size:32 final size:32
Alignment explanation
Indices: 530391--530468 Score: 102
Period size: 32 Copynumber: 2.4 Consensus size: 32
530381 ACAAATAGTA
* *
530391 AATGTATCAATACATAAGTTTTGCATCGATAC
1 AATGTATCGATACATAAGTGTTGCATCGATAC
* * *
530423 AATGTATCGATACGTAAGTGTTGTATCGTTAC
1 AATGTATCGATACATAAGTGTTGCATCGATAC
*
530455 AATGTATCGCTACA
1 AATGTATCGATACA
530469 AAGCTACTGC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGCATCGATAC
Found at i:531725 original size:12 final size:11
Alignment explanation
Indices: 531710--531748 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
531700 GTAAAAACAC
531710 AAAAAAGAAAGA
1 AAAAAAGAAA-A
531722 AAAAAAGAAAA
1 AAAAAAGAAAA
* *
531733 AAAAAACACAA
1 AAAAAAGAAAA
531744 AAAAA
1 AAAAA
531749 GAGTGCAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.87, C:0.05, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:531738 original size:11 final size:11
Alignment explanation
Indices: 531710--531748 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
531700 GTAAAAACAC
531710 AAAAAAGAAAGA
1 AAAAAAGAAA-A
531722 AAAAAAGAAAA
1 AAAAAAGAAAA
*
531733 AAAAAACACAAA
1 AAAAAAGA-AAA
531745 AAAA
1 AAAA
531749 GAGTGCAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 8 0.32
12 17 0.68
ACGTcount: A:0.87, C:0.05, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:533113 original size:31 final size:32
Alignment explanation
Indices: 533036--533190 Score: 196
Period size: 31 Copynumber: 5.0 Consensus size: 32
533026 CAATTCTTCA
*
533036 AATCTCTCTTCTCAAAGTCCACGATTAAGTGGC
1 AATCTC-CTTCTCAAAGTCCACGATTCAGTGGC
* * *
533069 -ATCT-CTTCCCAAAGTCCATGATTTAGTGGC
1 AATCTCCTTCTCAAAGTCCACGATTCAGTGGC
533099 AATCTCCTT-TCAAAGTCCACGATTCAGTGGC
1 AATCTCCTTCTCAAAGTCCACGATTCAGTGGC
533130 AATCTCCTT-TCAAAGTCCACGATTCAGTGGC
1 AATCTCCTTCTCAAAGTCCACGATTCAGTGGC
* * *
533161 -ATCT-CTTCCCAAAGTCCACGACTCAATGGC
1 AATCTCCTTCTCAAAGTCCACGATTCAGTGGC
533191 GTCTTTTCTC
Statistics
Matches: 110, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
29 3 0.03
30 46 0.42
31 54 0.49
32 7 0.06
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (32 bp):
AATCTCCTTCTCAAAGTCCACGATTCAGTGGC
Found at i:533165 original size:61 final size:62
Alignment explanation
Indices: 533036--533211 Score: 198
Period size: 61 Copynumber: 2.8 Consensus size: 62
533026 CAATTCTTCA
* * *
533036 AATCTCTCTTCTCAAAGTCCACGATTAAGTGGCATCTCTTCCCAAAGTCCATGATTTAGTGGC
1 AATCTC-CTTCTCAAAGTCCACGATTCAGTGGCATCTCTTCCCAAAGTCCACGATTCAGTGGC
*
533099 AATCTCCTT-TCAAAGTCCACGATTCAGTGGCAATCTCCTT-TCAAAGTCCACGATTCAGTGGC
1 AATCTCCTTCTCAAAGTCCACGATTCAGTGGC-ATCT-CTTCCCAAAGTCCACGATTCAGTGGC
* * * * *
533161 -ATCT-CTTCCCAAAGTCCACGACTCAATGGCGTCTTTTCTCCCAAAGTCCAC
1 AATCTCCTTCTCAAAGTCCACGATTCAGTGGCATC-TCT-TCCCAAAGTCCAC
533212 AACTCCGTGG
Statistics
Matches: 97, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
60 6 0.06
61 46 0.47
62 36 0.37
63 9 0.09
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.30
Consensus pattern (62 bp):
AATCTCCTTCTCAAAGTCCACGATTCAGTGGCATCTCTTCCCAAAGTCCACGATTCAGTGGC
Found at i:533208 original size:32 final size:30
Alignment explanation
Indices: 533040--533216 Score: 135
Period size: 31 Copynumber: 5.8 Consensus size: 30
533030 TCTTCAAATC
* *
533040 TCTCTTCTCAAAGTCCACGA-TTAAGTGGCA
1 TCTCTTCCCAAAGTCCACGACTCAA-TGGCA
* * * *
533070 TCTCTTCCCAAAGTCCATGATTTAGTGGCAA
1 TCTCTTCCCAAAGTCCACGACTCAATGGC-A
* * *
533101 TCTCCTT-TCAAAGTCCACGATTCAGTGGCAA
1 TCT-CTTCCCAAAGTCCACGACTCAATGGC-A
* * *
533132 TCTCCTT-TCAAAGTCCACGATTCAGTGGCA
1 TCT-CTTCCCAAAGTCCACGACTCAATGGCA
*
533162 TCTCTTCCCAAAGTCCACGACTCAATGGCG
1 TCTCTTCCCAAAGTCCACGACTCAATGGCA
* *
533192 TCTTTTCTCCCAAAGTCCACAACTC
1 TC-TCT-TCCCAAAGTCCACGACTC
533217 CGTGGCACCT
Statistics
Matches: 129, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
29 3 0.02
30 47 0.36
31 59 0.46
32 20 0.16
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (30 bp):
TCTCTTCCCAAAGTCCACGACTCAATGGCA
Found at i:533300 original size:34 final size:33
Alignment explanation
Indices: 533204--533690 Score: 541
Period size: 34 Copynumber: 14.8 Consensus size: 33
533194 TTTTCTCCCA
*
533204 AAGTCCACAACTCCGTGGCA-CC-TTTCCTTTT
1 AAGTCCACAACTCTGTGGCACCCTTTTCCTTTT
* *
533235 AAGTCCACAACTCCGTGACA-CC-TTTCCTTTT
1 AAGTCCACAACTCTGTGGCACCCTTTTCCTTTT
*
533266 AAGCCCACAACTCTGTGGCACCCTTATTCCTTTT
1 AAGTCCACAACTCTGTGGCACCCTT-TTCCTTTT
* *
533300 AAGTCCACAACTCCGTGGCA-GC-TTTCCTTTT
1 AAGTCCACAACTCTGTGGCACCCTTTTCCTTTT
* *
533331 AAG-CCGACAACTTTGTGGCACTCTTTTTCCTTTT
1 AAGTCC-ACAACTCTGTGGCAC-CCTTTTCCTTTT
* *
533365 AAGTCCACAACT-TCATGGCACTCTTTTTCCTTTT
1 AAGTCCACAACTCT-GTGGCAC-CCTTTTCCTTTT
* * *
533399 AAGCCCACAACTCTATGGCACTCTTTTCCTTTT
1 AAGTCCACAACTCTGTGGCACCCTTTTCCTTTT
533432 AAGTCCACAACTCTGTGGCA-CC-TTTCCTTTT
1 AAGTCCACAACTCTGTGGCACCCTTTTCCTTTT
*
533463 AA-TCCCACAACTTTGTGGCACCCTTATTCCTTTT
1 AAGT-CCACAACTCTGTGGCACCCTT-TTCCTTTT
* *
533497 AAGTCCACAGCTCCGTGGCA-CC-TTTCCTTTT
1 AAGTCCACAACTCTGTGGCACCCTTTTCCTTTT
* * *
533528 AAGCCCACAACTTTGTGGCACTCTTTTTCCTTTT
1 AAGTCCACAACTCTGTGGCAC-CCTTTTCCTTTT
*
533562 AAGTCCACAACTCTGTGGCACTCTTTTTCCTTTT
1 AAGTCCACAACTCTGTGGCAC-CCTTTTCCTTTT
* *
533596 AAGCCCACAACTCTGTGGCACTCTTTTTCCTTTT
1 AAGTCCACAACTCTGTGGCAC-CCTTTTCCTTTT
* * *
533630 AGGTCCACAACTCTGTAGCACTCTTTTTCCTTTT
1 AAGTCCACAACTCTGTGGCAC-CCTTTTCCTTTT
* *
533664 AAGTTCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCTGTGGCACCCTTTT
533691 AAGTCCACAA
Statistics
Matches: 400, Mismatches: 38, Indels: 34
0.85 0.08 0.07
Matches are distributed among these distances:
30 3 0.01
31 120 0.30
32 7 0.02
33 40 0.10
34 226 0.56
35 4 0.01
ACGTcount: A:0.19, C:0.32, G:0.12, T:0.37
Consensus pattern (33 bp):
AAGTCCACAACTCTGTGGCACCCTTTTCCTTTT
Found at i:533308 original size:65 final size:65
Alignment explanation
Indices: 533208--533690 Score: 623
Period size: 65 Copynumber: 7.4 Consensus size: 65
533198 CTCCCAAAGT
* *
533208 CCACAACTCCGTGGCA-CC--TTTCCTTTTAAGTCCACAACTCCGTGACACCTTTCCTTTTAAGC
1 CCACAACTCTGTGGCACCCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTCCTTTTAAGC
* *
533270 CCACAACTCTGTGGCACCCTTATTCCTTTTAAGTCCACAACTCCGTGGCAGCTTTCCTTTTAAGC
1 CCACAACTCTGTGGCACCCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTCCTTTTAAGC
* * * * *
533335 CGACAACTTTGTGGCACTCTTTTTCCTTTTAAGTCCACAACTTCATGGCACTCTTTTTCCTTTTA
1 CCACAACTCTGTGGCACCCTTTTTCCTTTTAAGTCCACAACTCCGTGGCAC-C--TTTCCTTTTA
533400 AGC
63 AGC
* * * *
533403 CCACAACTCTATGGCACTC-TTTTCCTTTTAAGTCCACAACTCTGTGGCACCTTTCCTTTTAATC
1 CCACAACTCTGTGGCACCCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTCCTTTTAAGC
* * *
533467 CCACAACTTTGTGGCACCCTTATTCCTTTTAAGTCCACAGCTCCGTGGCACCTTTCCTTTTAAGC
1 CCACAACTCTGTGGCACCCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTCCTTTTAAGC
* * *
533532 CCACAACTTTGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACTCTTTTTCCTTTTA
1 CCACAACTCTGTGGCACCCTTTTTCCTTTTAAGTCCACAACTCCGTGGCAC-C--TTTCCTTTTA
533597 AGC
63 AGC
* * * *
533600 CCACAACTCTGTGGCACTCTTTTTCCTTTTAGGTCCACAACTCTGTAGCACTCTTTTTCCTTTTA
1 CCACAACTCTGTGGCACCCTTTTTCCTTTTAAGTCCACAACTCCGTGGCAC-C--TTTCCTTTTA
*
533665 AGT
63 AGC
* *
533668 TCACAACTCCGTGGCACCCTTTT
1 CCACAACTCTGTGGCACCCTTTT
533691 AAGTCCACAA
Statistics
Matches: 375, Mismatches: 36, Indels: 14
0.88 0.08 0.03
Matches are distributed among these distances:
62 15 0.04
63 2 0.01
64 28 0.07
65 173 0.46
66 3 0.01
67 28 0.07
68 126 0.34
ACGTcount: A:0.19, C:0.32, G:0.12, T:0.37
Consensus pattern (65 bp):
CCACAACTCTGTGGCACCCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTCCTTTTAAGC
Found at i:533561 original size:197 final size:197
Alignment explanation
Indices: 533208--533744 Score: 754
Period size: 197 Copynumber: 2.7 Consensus size: 197
533198 CTCCCAAAGT
* * * *
533208 CCACAACTCCGTGGCAC-C-TTTCCTTTTAAGTCCACAACTCCGTGACACCTTTCCTTTTAAGCC
1 CCACAACTCTGTGGCACTCTTTTCCTTTTAAGTCCACAACTCTGTGGCACCTTTCCTTTTAATCC
*
533271 CACAACTCTGTGGCACCCTTATTCCTTTTAAGTCCACAACTCCGTGGCAGCTTTCCTTTTAAGCC
66 CACAACTCTGTGGCACCCTTATTCCTTTTAAGTCCACAACTCCGTGGCACCTTTCCTTTTAAGCC
*
533336 GACAACTTTGTGGCACTCTTTTTCCTTTTAAGTCCACAACT-TCATGGCACTCTTTTTCCTTTTA
131 CACAACTTTGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCT-ATGGCACTCTTTTTCCTTTTA
533400 AGC
195 AGC
*
533403 CCACAACTCTATGGCACTCTTTTCCTTTTAAGTCCACAACTCTGTGGCACCTTTCCTTTTAATCC
1 CCACAACTCTGTGGCACTCTTTTCCTTTTAAGTCCACAACTCTGTGGCACCTTTCCTTTTAATCC
* *
533468 CACAACTTTGTGGCACCCTTATTCCTTTTAAGTCCACAGCTCCGTGGCACCTTTCCTTTTAAGCC
66 CACAACTCTGTGGCACCCTTATTCCTTTTAAGTCCACAACTCCGTGGCACCTTTCCTTTTAAGCC
*
533533 CACAACTTTGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACTCTTTTTCCTTTTAA
131 CACAACTTTGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCTATGGCACTCTTTTTCCTTTTAA
533598 GC
196 GC
* *
533600 CCACAACTCTGTGGCACTCTTTTTCCTTTTAGGTCCACAACTCTGTAGCACTCTTTTTCCTTTTA
1 CCACAACTCTGTGGCACTC-TTTTCCTTTTAAGTCCACAACTCTGTGGCAC-C--TTTCCTTTTA
* * * *
533665 AGT-TCACAACTCCGTGGCA--C-----CCTTTTAAGTCCACAACTTCGTGGCATCTTTCTCCTT
62 A-TCCCACAACTCTGTGGCACCCTTATTCCTTTTAAGTCCACAACTCCGTGGCA-CCTT-TCCTT
** *
533722 TTAAGCCCATGAGTTTGTGGCAC
124 TTAAGCCCACAACTTTGTGGCAC
533745 CATTTTCAAA
Statistics
Matches: 310, Mismatches: 22, Indels: 19
0.88 0.06 0.05
Matches are distributed among these distances:
194 24 0.08
195 18 0.06
196 26 0.08
197 185 0.60
198 30 0.10
199 2 0.01
201 24 0.08
202 1 0.00
ACGTcount: A:0.19, C:0.32, G:0.13, T:0.36
Consensus pattern (197 bp):
CCACAACTCTGTGGCACTCTTTTCCTTTTAAGTCCACAACTCTGTGGCACCTTTCCTTTTAATCC
CACAACTCTGTGGCACCCTTATTCCTTTTAAGTCCACAACTCCGTGGCACCTTTCCTTTTAAGCC
CACAACTTTGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCTATGGCACTCTTTTTCCTTTTAA
GC
Found at i:533688 original size:27 final size:27
Alignment explanation
Indices: 533658--533710 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
533648 CACTCTTTTT
*
533658 CCTTTTAAGTTCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
533685 CCTTTTAAGTCCACAACTTCGTGGCA
1 CCTTTTAAGTCCACAACTCCGTGGCA
533711 TCTTTCTCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.23, C:0.32, G:0.15, T:0.30
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCCGTGGCAC
Found at i:533772 original size:30 final size:28
Alignment explanation
Indices: 533738--533819 Score: 87
Period size: 29 Copynumber: 2.8 Consensus size: 28
533728 CCATGAGTTT
*
533738 GTGGCACCATTTTCAAAAGCCCACAAGTCG
1 GTGGCACC--TTTCAAAAGCCCACAAGTCA
*
533768 GTGGCACCCCTTTC-AAAGCCCATAAGTCA
1 GTGGCA--CCTTTCAAAAGCCCACAAGTCA
533797 GTGGCAACC-TTCAAAAGCCCACA
1 GTGGC-ACCTTTCAAAAGCCCACA
533820 CAAGTTGGTG
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
27 3 0.07
28 11 0.24
29 18 0.40
30 11 0.24
32 2 0.04
ACGTcount: A:0.30, C:0.33, G:0.18, T:0.18
Consensus pattern (28 bp):
GTGGCACCTTTCAAAAGCCCACAAGTCA
Found at i:533795 original size:29 final size:30
Alignment explanation
Indices: 533724--533817 Score: 95
Period size: 30 Copynumber: 3.2 Consensus size: 30
533714 TTCTCCTTTT
* ** *
533724 AAGCCCATGAGTTTGTGGCACCATTTTCAA
1 AAGCCCATAAGTCAGTGGCACCACTTTCAA
* * *
533754 AAGCCCACAAGTCGGTGGCACCCCTTTC-A
1 AAGCCCATAAGTCAGTGGCACCACTTTCAA
*
533783 AAGCCCATAAGTCAGTGGCA--ACCTTCAA
1 AAGCCCATAAGTCAGTGGCACCACTTTCAA
533811 AAGCCCA
1 AAGCCCA
533818 CACAAGTTGG
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
27 4 0.08
28 8 0.15
29 19 0.36
30 22 0.42
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (30 bp):
AAGCCCATAAGTCAGTGGCACCACTTTCAA
Found at i:533816 original size:28 final size:30
Alignment explanation
Indices: 533748--533819 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
533738 GTGGCACCAT
* *
533748 TTTCAAAAGCCCACAAGTCGGTGGCACCCC
1 TTTCAAAAGCCCACAAGTCAGTGGCACACC
*
533778 TTTC-AAAGCCCATAAGTCAGTGGCA-ACC
1 TTTCAAAAGCCCACAAGTCAGTGGCACACC
533806 -TTCAAAAGCCCACA
1 TTTCAAAAGCCCACA
533820 CAAGTTGGTG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
27 3 0.08
28 11 0.30
29 19 0.51
30 4 0.11
ACGTcount: A:0.32, C:0.33, G:0.17, T:0.18
Consensus pattern (30 bp):
TTTCAAAAGCCCACAAGTCAGTGGCACACC
Found at i:534016 original size:91 final size:87
Alignment explanation
Indices: 533848--534019 Score: 227
Period size: 91 Copynumber: 1.9 Consensus size: 87
533838 TTCTAAGTCT
* * *
533848 AATATCGTTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGATGGCCTTGA
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAAACCAATGTCCATGGCCTTGA
*
533913 ATTAGCACATTGGCACAAGCCC
66 ATCAGCACATTGGCACAAGCCC
* * * *
533935 AATATCGCTGGTCTTGAATCATCATATTGGTACCTTCGTCATCTTTAAAACCAATGTCCCTGGCC
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-G---TCTTTAAAACCAATGTCCATGGCC
*
534000 TTGAATCAGCATATTGGCAC
62 TTGAATCAGCACATTGGCAC
534020 CATCATCTTT
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
87 32 0.44
88 1 0.01
91 39 0.54
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (87 bp):
AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAAACCAATGTCCATGGCCTTGA
ATCAGCACATTGGCACAAGCCC
Found at i:534041 original size:49 final size:48
Alignment explanation
Indices: 533933--534597 Score: 488
Period size: 49 Copynumber: 13.8 Consensus size: 48
533923 TGGCACAAGC
* * * * **
533933 CCAATATCGCTGGTCTTGAATCATCATATTGGTACCTTCGTCATCTTTAAAA
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCA-C--C-TCATCTTTAAGT
*
533985 CCAATGTCCCTGGCCTTGAATCAGCATATTGGCACCATCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC-TCATCTTTAAGT
* * *
534034 CCAATGTCGCTGGCCTTGAATCAGCACATTGACATCTTCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCA-CCTCATCTTTAAGT
* * * * *
534083 CCAATATCGTTGGCCTTAAATCAACATATTGGCGCCTTTGTCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC----TCATCTTTAAGT
* ** *
534135 CCAATGTCGCTGGCCTCGAATCAATACATTGGCACCGTCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC-TCATCTTTAAGT
* **
534184 CCAATATCGCTGGCCTTGAATCAGCATATTGGTGC-CTTCATCATCTTTAAAC
1 CCAATGTCGCTGGCCTTGAATCAGCATATT-G-GCAC--C-TCATCTTTAAGT
** * * *
534236 CCAATGTCATTGACCTTGAATCAGCACATTGG-----CA----TAAGC
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGT
* * * ** **
534275 CCAATATCGCTGGCCGTGAATCAGCATATTGCCACCTTGTCTTTAAAAC
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTT-AAGT
* * *
534324 CCAATGTTGCTGGCCTTGAATCAGCACATTGG-----CA----TAAGC
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGT
* ** *
534363 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGT
* * * *
534411 CCAATGTCACTAGCCTTGAATCAGCACATCGGCACCTCAACCATCTTTAAG-
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCT----CATCTTTAAGT
* * *
534462 CCTAATATCACTGGCCTTGAATCAGCATATTGGCACGTCATCTTTAAGT
1 CC-AATGTCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGT
* * * * *
534511 CCAATGTCGCTAGCTTTGAATCAACACAATGGCACCGTCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC-TCATCTTTAAGT
* *
534560 CCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTC
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTC
534598 CGTCATCTTT
Statistics
Matches: 486, Mismatches: 92, Indels: 74
0.75 0.14 0.11
Matches are distributed among these distances:
39 61 0.13
40 1 0.00
43 2 0.00
48 76 0.16
49 192 0.40
50 4 0.01
51 6 0.01
52 144 0.30
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (48 bp):
CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGT
Found at i:534137 original size:101 final size:97
Alignment explanation
Indices: 533973--534609 Score: 550
Period size: 101 Copynumber: 6.6 Consensus size: 97
533963 GGTACCTTCG
** * * * *
533973 TCATCTTTAAAACCAATGTCCCTGGCCTTGAATCAGCATATTGGCACC--ATCATCTTTAAGTCC
1 TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTGTCATCTTTAAGTCC
534036 AATGTCGCTGGCCTTGAATCAGCACATTGACATC
66 AATGTCGCTGGCCTTGAATCAGCACATTG-CA-C
* * *
534070 TTCATCTTTAAGTCCAATATCGTTGGCCTTAAATCAACATATTGGCGCCTTTGTCATCTTTAAGT
1 -TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCC-TTGTCATCTTTAAGT
* **
534135 CCAATGTCGCTGGCCTCGAATCAATACATTGGCACC
64 CCAATGTCGCTGGCCTTGAATCAGCACATT-GCA-C
* * **
534171 GTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTGCCTTCATCATCTTTAAAC
1 -TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTT-GTCATCTTTAAGT
** *
534236 CCAATGTCATTGACCTTGAATCAGCACATTG---
64 CCAATGTCGCTGGCCTTGAATCAGCACATTGCAC
* * * * * * **
534267 GCA----TAAGCCCAATATCGCTGGCCGTGAATCAGCATATTGCCACCTTGTC-T-TTAAAACCC
1 TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTGTCATCTTTAAGTCC
*
534326 AATGTTGCTGGCCTTGAATCAGCACATTG---
66 AATGTCGCTGGCCTTGAATCAGCACATTGCAC
* * * *
534355 GCA----TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTG---TCTTTAAGACC
1 TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTGTCATCTTTAAGTCC
* * *
534413 AATGTCACTAGCCTTGAATCAGCACATCGGCACC
66 AATGTCGCTGGCCTTGAATCAGCACAT-TGCA-C
* *
534447 TCAACCATCTTTAAG-CCTAATATCACTGGCCTTGAATCAGCATATTGGC-AC--GTCATCTTTA
1 T----CATCTTTAAGTCC-AATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTGTCATCTTTA
* * * *
534508 AGTCCAATGTCGCTAGCTTTGAATCAACACAATGGCACC
61 AGTCCAATGTCGCTGGCCTTGAATCAGCAC-ATTGCA-C
*
534547 GTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTCCGTCATCTTTAA
1 -TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCT-TGTCATCTTTAA
534610 AACCCAATAT
Statistics
Matches: 452, Mismatches: 57, Indels: 57
0.80 0.10 0.10
Matches are distributed among these distances:
86 1 0.00
87 30 0.07
88 79 0.17
89 1 0.00
90 2 0.00
91 38 0.08
95 2 0.00
96 2 0.00
97 41 0.09
98 43 0.10
99 3 0.01
100 75 0.17
101 134 0.30
102 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (97 bp):
TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTGTCATCTTTAAGTCC
AATGTCGCTGGCCTTGAATCAGCACATTGCAC
Found at i:534204 original size:150 final size:150
Alignment explanation
Indices: 533933--534214 Score: 411
Period size: 150 Copynumber: 1.9 Consensus size: 150
533923 TGGCACAAGC
* * * *
533933 CCAATATCGCTGGTCTTGAATCATCATATTGGTACCTTCGTCATCTTTAAAACCAATGTCCCTGG
1 CCAATATCGCTGGCCTTAAATCAACATATTGGCACCTTCGTCATCTTTAAAACCAATGTCCCTGG
* * * *
533998 CCTTGAATCAGCATATTGGCACCATCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
66 CCTCGAATCAACACATTGGCACCATCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
534063 TGACATCTTCATCTTTAAGT
131 TGACATCTTCATCTTTAAGT
* * * ** *
534083 CCAATATCGTTGGCCTTAAATCAACATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCTGG
1 CCAATATCGCTGGCCTTAAATCAACATATTGGCACCTTCGTCATCTTTAAAACCAATGTCCCTGG
* * *
534148 CCTCGAATCAATACATTGGCACCGTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
66 CCTCGAATCAACACATTGGCACCATCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
534213 TG
131 TG
534215 GTGCCTTCAT
Statistics
Matches: 115, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
150 115 1.00
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (150 bp):
CCAATATCGCTGGCCTTAAATCAACATATTGGCACCTTCGTCATCTTTAAAACCAATGTCCCTGG
CCTCGAATCAACACATTGGCACCATCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
TGACATCTTCATCTTTAAGT
Found at i:534295 original size:39 final size:39
Alignment explanation
Indices: 534249--534396 Score: 143
Period size: 39 Copynumber: 3.5 Consensus size: 39
534239 ATGTCATTGA
534249 CCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGG
1 CCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGG
* * * * * *
534288 CCGTGAATCAGCATATTGCCACCTTGTCTTTAAAACCCAATGTTGCTGG
1 CCTTGAATCAGC--A----CA--TTGGC-AT-AAGCCCAATATCGCTGG
534337 CCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGG
1 CCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGG
*
534376 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAGCACATTGGCA
534397 CCTTGTCTTT
Statistics
Matches: 86, Mismatches: 13, Indels: 20
0.72 0.11 0.17
Matches are distributed among these distances:
39 45 0.52
40 1 0.01
41 5 0.06
43 2 0.02
45 2 0.02
47 5 0.06
48 1 0.01
49 25 0.29
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (39 bp):
CCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGG
Found at i:534355 original size:88 final size:88
Alignment explanation
Indices: 534179--534444 Score: 372
Period size: 88 Copynumber: 3.0 Consensus size: 88
534169 CCGTCATCTT
* ** * *
534179 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTGCCTTCATCATCTTTAAACCCAATGTC
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTC-T-TTAAAACCCAATGTC
* *
534244 ATTGACCTTGAATCAGCACATTGGCA
63 ACTGGCCTTGAATCAGCACATTGGCA
* * **
534270 TAAGCCCAATATCGCTGGCCGTGAATCAGCATATTGCCACCTTGTCTTTAAAACCCAATGTTGCT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAAACCCAATGTCACT
534335 GGCCTTGAATCAGCACATTGGCA
66 GGCCTTGAATCAGCACATTGGCA
*
534358 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGA-CCAATGTCACT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAAACCCAATGTCACT
* *
534422 AGCCTTGAATCAGCACATCGGCA
66 GGCCTTGAATCAGCACATTGGCA
534445 CCTCAACCAT
Statistics
Matches: 157, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
87 30 0.19
88 86 0.55
89 1 0.01
90 2 0.01
91 38 0.24
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (88 bp):
TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAAACCCAATGTCACT
GGCCTTGAATCAGCACATTGGCA
Found at i:534480 original size:52 final size:48
Alignment explanation
Indices: 534358--534644 Score: 252
Period size: 48 Copynumber: 5.8 Consensus size: 48
534348 CACATTGGCA
* * **
534358 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTT
1 TAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTCATCTT
* * * * *
534406 TAAGACCAATGTCACTAGCCTTGAATCAGCACATCGGCACCTCAACCATCTT
1 TAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACCT----CATCTT
*
534458 TAAG-CCTAATATCACTGGCCTTGAATCAGCATATTGGCACGTCATCTT
1 TAAGTCC-AATATCACTGGCCTTGAATCAGCATATTGGCACCTCATCTT
* * * * * * *
534506 TAAGTCCAATGTCGCTAGCTTTGAATCAACACAATGGCACCGTCATCTT
1 TAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACC-TCATCTT
* *
534555 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTCCGTCATCTT
1 TAAGTCCAATATCACTGGCCTTGAATCAGCATATT-G-G-CACC-TCATCTT
** * * *
534607 TAAAACCCAATATCATTGGCCGTGAATCAGCGTATTGG
1 T-AAGTCCAATATCACTGGCCTTGAATCAGCATATTGG
534645 TCCTTTTATC
Statistics
Matches: 194, Mismatches: 34, Indels: 19
0.79 0.14 0.08
Matches are distributed among these distances:
48 72 0.37
49 38 0.20
50 1 0.01
51 4 0.02
52 51 0.26
53 28 0.14
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (48 bp):
TAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTCATCTT
Found at i:534531 original size:100 final size:96
Alignment explanation
Indices: 534358--534597 Score: 313
Period size: 100 Copynumber: 2.4 Consensus size: 96
534348 CACATTGGCA
**
534358 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCACTA
1 TAAG-CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGACCAATGTCACTA
*
534423 GCCTTGAATCAGCAC-ATCGGCACC-TCAACCATCTT
65 GCCTTGAATCAACACAAT-GGCACCGT----CATCTT
* * * *
534458 TAAGCCTAATATCACTGGCCTTGAATCAGCATATTGGCACGTCATCTTTAAGTCCAATGTCGCTA
1 TAAGCC-AATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGACCAATGTCACTA
*
534523 GCTTTGAATCAACACAATGGCACCGTCATCTT
65 GCCTTGAATCAACACAATGGCACCGTCATCTT
*
534555 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTC
1 TAAG-CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTC
534598 CGTCATCTTT
Statistics
Matches: 125, Mismatches: 11, Indels: 11
0.85 0.07 0.07
Matches are distributed among these distances:
97 43 0.34
98 2 0.02
99 2 0.02
100 75 0.60
101 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (96 bp):
TAAGCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGACCAATGTCACTAG
CCTTGAATCAACACAATGGCACCGTCATCTT
Found at i:535326 original size:32 final size:32
Alignment explanation
Indices: 535285--535362 Score: 111
Period size: 32 Copynumber: 2.4 Consensus size: 32
535275 ACAAACAGTA
* * *
535285 AATGTATCGATACATAAGTTTTTTATTGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
535317 AATGTATCGATACGTAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
535349 AATGTATCGCTACA
1 AATGTATCGATACA
535363 AAGCTATTGC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:540415 original size:11 final size:11
Alignment explanation
Indices: 540399--540424 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
540389 TTTTACACCC
540399 AAAAAAACAAA
1 AAAAAAACAAA
540410 AAAAAAACAAA
1 AAAAAAACAAA
540421 AAAA
1 AAAA
540425 CAAAAAGACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAACAAA
Done.