Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1833
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: 94647
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:1960 original size:21 final size:20
Alignment explanation
Indices: 1936--1985 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
1926 TCTACAATTG
*
1936 GTATCGATACAACAAGTTAAT
1 GTATCGATAC-ACAAGTGAAT
* *
1957 GTATCAATACATAAGTGAAT
1 GTATCGATACACAAGTGAAT
1977 GTATCGATA
1 GTATCGATA
1986 TATGCCTATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (20 bp):
GTATCGATACACAAGTGAAT
Found at i:2075 original size:20 final size:19
Alignment explanation
Indices: 2046--2083 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
2036 TCTAAAAAAA
*
2046 ATTGTCTCGATACATCATTC
1 ATTGTATCGATACA-CATTC
2066 ATTGTATCGATACACATT
1 ATTGTATCGATACACATT
2084 TCGTGACATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (19 bp):
ATTGTATCGATACACATTC
Found at i:3693 original size:33 final size:33
Alignment explanation
Indices: 3629--3693 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
3619 TTGGGCATAA
*
3629 TGTATCGATACAATTCTTCATGTATTAATACAC
1 TGTATCGATACAATTCTTCATGTATCAATACAC
* *
3662 TGTATCGATAC-ATTGTCTCATGTATCGATACA
1 TGTATCGATACAATTCT-TCATGTATCAATACA
3694 TTTCACTTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 4 0.14
33 24 0.86
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.38
Consensus pattern (33 bp):
TGTATCGATACAATTCTTCATGTATCAATACAC
Found at i:3767 original size:19 final size:19
Alignment explanation
Indices: 3722--3777 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
3712 CTACCACTTT
* *
3722 CATGTATTGATACAATTGAG
1 CATGTATCGATACAA-TGAA
*
3742 TATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
3761 CATGTATCGATACAATG
1 CATGTATCGATACAATG
3778 TATCGATACT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 19 0.59
20 13 0.41
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:3780 original size:13 final size:13
Alignment explanation
Indices: 3762--3786 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3752 TACAATGAAC
3762 ATGTATCGATACA
1 ATGTATCGATACA
3775 ATGTATCGATAC
1 ATGTATCGATAC
3787 TATCGCAACG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4250 original size:14 final size:15
Alignment explanation
Indices: 4222--4262 Score: 75
Period size: 14 Copynumber: 2.8 Consensus size: 15
4212 ATGATCCCCT
4222 TTGATTACATTGATG
1 TTGATTACATTGATG
4237 TTGATTAC-TTGATG
1 TTGATTACATTGATG
4251 TTGATTACATTG
1 TTGATTACATTG
4263 GTAAAAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.24, C:0.07, G:0.20, T:0.49
Consensus pattern (15 bp):
TTGATTACATTGATG
Found at i:7919 original size:49 final size:49
Alignment explanation
Indices: 7855--8075 Score: 228
Period size: 49 Copynumber: 4.4 Consensus size: 49
7845 ATGTTAAAGA
* * *
7855 TGCCAATATGCTGATTCAAGGCCAATGATATCAGATTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAACGACATCAGATTTAAAGATGAAGG
* * * * *
7904 TGCCAATGTGCTGATTCAAGGCCAGCGATATCGGATTTAAAAATGAAGA
1 TGCCAATGTGCTGATTCAAGGCCAACGACATCAGATTTAAAGATGAAGG
* * ** ** *
7953 TGCCAATGTGCTGATTCATGGTCGGCGACATTGGACTTAAAGATGGTTAAGG
1 TGCCAATGTGCTGATTCAAGGCCAACGACATCAGATTTAAAGAT-G--AAGG
* *
8005 TGCCAATGTGCTGATTCAAGTCCAACAACATCAG-TCTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAACGACATCAGAT-TTAAAGATGAAGG
* *
8054 TGCCAATATGTTGATTCAAGGC
1 TGCCAATGTGCTGATTCAAGGC
8076 TAGCGATATT
Statistics
Matches: 142, Mismatches: 26, Indels: 8
0.81 0.15 0.05
Matches are distributed among these distances:
49 103 0.73
50 1 0.01
51 1 0.01
52 37 0.26
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (49 bp):
TGCCAATGTGCTGATTCAAGGCCAACGACATCAGATTTAAAGATGAAGG
Found at i:8087 original size:101 final size:98
Alignment explanation
Indices: 7851--8087 Score: 253
Period size: 101 Copynumber: 2.4 Consensus size: 98
7841 AGGAATGTTA
* ** ** *
7851 AAGATGCCAATATGCTGATTCAAGGCCAATGATATCAGATTTAAAGATGAAGGTGCCAATGTGCT
1 AAGATGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
* * * *
7916 GATTCAAGGCCAGCGATATCGGATTTAAAAATG
66 GATTCAAGGCCAACAACATCAGATTTAAAAATG
* * * *
7949 AAGATGCCAATGTGCTGATTCATGG-TCGGCGACATTGGACTTAAAGATGGTTAAGGTGCCAATG
1 AAGATGCCAATATGCTGATTCAAGGCT-AGCGATATTGGACTTAAAGAT-G--AAGGTGCCAATG
* *
8013 TGCTGATTCAAGTCCAACAACATCAG-TCTTAAAGATG
62 TGCTGATTCAAGGCCAACAACATCAGAT-TTAAAAATG
* *
8050 AAGGTGCCAATATGTTGATTCAAGGCTAGCGATATTGG
1 AAGATGCCAATATGCTGATTCAAGGCTAGCGATATTGG
8088 GCTGCCAATG
Statistics
Matches: 111, Mismatches: 22, Indels: 9
0.78 0.15 0.06
Matches are distributed among these distances:
98 37 0.33
99 1 0.01
100 1 0.01
101 71 0.64
102 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (98 bp):
AAGATGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
GATTCAAGGCCAACAACATCAGATTTAAAAATG
Found at i:8169 original size:84 final size:85
Alignment explanation
Indices: 8005--8174 Score: 245
Period size: 85 Copynumber: 2.0 Consensus size: 85
7995 ATGGTTAAGG
* *
8005 TGCCAATGTGCTGATTCAAGTCCAACAACATCAGTCTTAAAGATGAAGGTGCCAATATGTTGATT
1 TGCCAATGTGCCGATTCAAGGCCAACAACATCAGTCTTAAAGATGAAGGTGCCAATATGTTGATT
* *
8070 CAAGGCTAGCGATATTGGGC
66 CAAGGCCAACGATATTGGGC
* * **
8090 TGCCAATGTGCCGATTCAAGGCCAGCGACATTGGTCTTAAAGAT-AAGGTGCCAATATGCTT-AT
1 TGCCAATGTGCCGATTCAAGGCCAACAACATCAGTCTTAAAGATGAAGGTGCCAATATG-TTGAT
8153 TCAAGGCCAACGATATTGGGC
65 TCAAGGCCAACGATATTGGGC
8174 T
1 T
8175 TATGATGGTA
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
84 36 0.47
85 40 0.53
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26
Consensus pattern (85 bp):
TGCCAATGTGCCGATTCAAGGCCAACAACATCAGTCTTAAAGATGAAGGTGCCAATATGTTGATT
CAAGGCCAACGATATTGGGC
Found at i:8321 original size:34 final size:33
Alignment explanation
Indices: 8230--9316 Score: 1087
Period size: 34 Copynumber: 33.7 Consensus size: 33
8220 TGGACTTAAT
* * *
8230 GGTGCCACAGAGTTGCGGACTT-ATAGGAAAAA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* * * *
8262 TGGATGCCATGGAGGTATGGGCTTAAAAGGAAAAA
1 -GG-TGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* *
8297 GGGTGCCACGGAGTCGTGGACTTAAAAAG-AAAA
1 -GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* * * *
8330 GGTACCACGAAGTTGTGGACTTAAAACGAACAA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
*
8363 GGTGCCATGGAGTTGTGGACTTAAAAGGAAAAA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
8396 GAGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
1 G-GTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* *
8430 GATGCCATGGAGTTGTGGACTT------AAAAA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* * *
8457 GGTGCGACGGAGTTATGGACTTAAAAGGAATAA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* * * *
8490 GAGTGCCATGGAGTCGTGGGCTTAAAAAG-AAAA
1 G-GTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* * *
8523 GATGCCACTGAGTTGTGGACTTAAAAGGAACAA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
8556 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
8589 GAGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
1 G-GTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* * **
8623 GATGCCACAGAGTTGTGGACTTAAAAGG--TCA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* *
8654 ----CCACGTAGTTGTGGACTTAAATGGAAAAA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
** * *
8683 GAGTGCCACGGAGTCATGGGCTTAAAAAG-AAAA
1 G-GTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* * * *
8716 GATGCCACGAAGCTGTGGACTTAAAAGGAATAA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
8749 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
** * *
8782 GAGTGCCATAGAGTTGTGAACATAAAAGGAAAAA
1 G-GTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
*
8816 GATGCCACGGAGTTGTGGACTT------AAAAA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
*
8843 GGTGCCACAGAGTTGTGGACTTAAAAGGAAAAA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
** * * *
8876 GAGTGCCATAGAGTCGTGGGCTTAAAAAGAAAAA
1 G-GTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* *
8910 -ATGCCATGGAGTTGTGGACTTAAAAGGAAAAA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* *
8942 CAGTGCCACAGAGTTGTGGACTTAAAAGGAAAAA
1 -GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
*
8976 GAGTGCCACAGAGTTGTGGACTTAAAAGGAAAAA
1 G-GTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* *
9010 GATGCCACGGAGTTGTAGACTTAAAA-G-----
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
*
9037 GGTGCCACGGAGTTGTGGACTTAAATGGAAAAA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* * *
9070 GAGTGCCACGGAGTCGTGGGCTTAAAAAG-AAAA
1 G-GTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* * * **
9103 GATGCCATGGAGTTGTGGACATAAAAGGAACCA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
*
9136 GGTGCCACGGAGTTGTGGA-TTAAAAGGAACAA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
*
9168 GGTGCCATGGAGTTGTGGACTTAAAAGGAAAAA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* * *
9201 GATGCCACAGAGTTGTGGACTTAACA-G-----
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
*
9228 GGTGCCACGGAGTTGTGGACTTAAAAAGAAAAA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* ** *
9261 GATGCCACGGAGTTGTGGGTTTTAAAAAGAAAAA
1 GGTGCCACGGAGTTGT-GGACTTAAAAGGAAAAA
* *
9295 GGTGCCACAGAGTCGTGGACTT
1 GGTGCCACGGAGTTGTGGACTT
9317 TGGGAAGAGA
Statistics
Matches: 867, Mismatches: 139, Indels: 96
0.79 0.13 0.09
Matches are distributed among these distances:
27 115 0.13
28 2 0.00
29 1 0.00
31 1 0.00
32 144 0.17
33 285 0.33
34 308 0.36
35 11 0.01
ACGTcount: A:0.37, C:0.13, G:0.31, T:0.20
Consensus pattern (33 bp):
GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
Found at i:8455 original size:26 final size:27
Alignment explanation
Indices: 8425--8482 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
8415 ACTTAAAAGG
* *
8425 AAAAAGATGCCATGGAGTTGTGGACTT
1 AAAAAGATGCCACGGAGTTATGGACTT
* *
8452 AAAAAGGTGCGACGGAGTTATGGACTT
1 AAAAAGATGCCACGGAGTTATGGACTT
8479 AAAA
1 AAAA
8483 GGAATAAGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.38, C:0.10, G:0.29, T:0.22
Consensus pattern (27 bp):
AAAAAGATGCCACGGAGTTATGGACTT
Found at i:8612 original size:193 final size:193
Alignment explanation
Indices: 8283--9316 Score: 1526
Period size: 193 Copynumber: 5.4 Consensus size: 193
8273 GAGGTATGGG
* * * *
8283 CTTAAAAGGAAAAAGGGTGCCACGGAGTCGTGGACTTAAAAAGAAAAGGTACCAC-GAAGTTGTG
1 CTTAAAAGGAAAAAGAGTGCCACGGAGTCGTGGGCTTAAAAAGAAAAGATGCCACTG-AGTTGTG
* *
8347 GACTTAAAACGAACAAGGTGCCATGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTG
65 GACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTG
* * *
8412 TGGACTTAAAAGGAAAAAGATGCCATGGAGTTGTGGACTTAAAAAGGTGCGACGGAGTTATGGA
130 TGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGA
* *
8476 CTTAAAAGGAATAAGAGTGCCATGGAGTCGTGGGCTTAAAAAGAAAAGATGCCACTGAGTTGTGG
1 CTTAAAAGGAAAAAGAGTGCCACGGAGTCGTGGGCTTAAAAAGAAAAGATGCCACTGAGTTGTGG
8541 ACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGT
66 ACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGT
* * *
8606 GGACTTAAAAGGAAAAAGATGCCACAGAGTTGTGGACTT-AAAAGGTCACCACGTAGTTGTGGA
131 GGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAAGGT-GCCACGGAGTTGTGGA
* * *
8669 CTTAAATGGAAAAAGAGTGCCACGGAGTCATGGGCTTAAAAAGAAAAGATGCCAC-GAAGCTGTG
1 CTTAAAAGGAAAAAGAGTGCCACGGAGTCGTGGGCTTAAAAAGAAAAGATGCCACTG-AGTTGTG
* **
8733 GACTTAAAAGGAATAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCATAGAGTTG
65 GACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTG
* * *
8798 TGAACATAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAAGGTGCCACAGAGTTGTGGA
130 TGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGA
** *
8862 CTTAAAAGGAAAAAGAGTGCCATAGAGTCGTGGGCTTAAAAAGAAAAAATGCCA-TGGAGTTGTG
1 CTTAAAAGGAAAAAGAGTGCCACGGAGTCGTGGGCTTAAAAAGAAAAGATGCCACT-GAGTTGTG
* * * *
8926 GACTTAAAAGGAAAAACAGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTT
65 GACTTAAAAGGAACAA-GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTT
* *
8991 GTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTAGACTTAAAAGGGTGCCACGGAGTTGTGGA
129 GTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGA
*
9056 CTTAAATGGAAAAAGAGTGCCACGGAGTCGTGGGCTTAAAAAGAAAAGATGCCA-TGGAGTTGTG
1 CTTAAAAGGAAAAAGAGTGCCACGGAGTCGTGGGCTTAAAAAGAAAAGATGCCACT-GAGTTGTG
* * * *
9120 GACATAAAAGGAACCAGGTGCCACGGAGTTGTGGA-TTAAAAGGAACAAG-GTGCCATGGAGTTG
65 GACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTG
* * *
9183 TGGACTTAAAAGGAAAAAGATGCCACAGAGTTGTGGACTTAACAGGGTGCCACGGAGTTGTGGA
130 TGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGA
* * * * * *
9247 CTTAAAAAGAAAAAGA-TGCCACGGAGTTGTGGGTTTTAAAAAGAAAAAGGTGCCACAGAGTCGT
1 CTTAAAAGGAAAAAGAGTGCCACGGAGTCGTGGG-CTTAAAAAG-AAAAGATGCCACTGAGTTGT
9311 GGACTT
64 GGACTT
9317 TGGGAAGAGA
Statistics
Matches: 765, Mismatches: 66, Indels: 21
0.90 0.08 0.02
Matches are distributed among these distances:
190 16 0.02
191 95 0.12
192 42 0.05
193 425 0.56
194 187 0.24
ACGTcount: A:0.37, C:0.13, G:0.30, T:0.19
Consensus pattern (193 bp):
CTTAAAAGGAAAAAGAGTGCCACGGAGTCGTGGGCTTAAAAAGAAAAGATGCCACTGAGTTGTGG
ACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGT
GGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGA
Found at i:9357 original size:95 final size:92
Alignment explanation
Indices: 9291--9760 Score: 505
Period size: 95 Copynumber: 5.0 Consensus size: 92
9281 TTTAAAAAGA
* * *
9291 AAAAGGTGCCACAGAGTCGTGGACTTTGGGAAGAGATGTCACTGAGTCGTGGACTTTGAAGAAAA
1 AAAAGGTGCCACTGAGTCGTGGACTTTGAGAAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAA
* *
9356 GATGCCACTAAGTCGTGGACTTGGAAG
66 GATGCCACTGAGTCGTGGACTTTGAAG
* * * ** *
9383 AAAAGGATGCCACTAAGTCGTGGACTTAGAAAAGAGATATCACTGAGTTGTGGACTTTGAAGAAA
1 AAAAGG-TGCCACTGAGTCGTGGACTTTGAGAAGAGATGCCACTGAGTCGTGGACTTTGAAG--A
*
9448 AAAGATGCCACTGAGTCGTGGACTTTGATG
63 AAAGATGCCACTGAGTCGTGGACTTTGAAG
* * * * * * * * *
9478 AAAGAAGATGCCACTGAGTCGTAGACTTGGAAGAAAAGAATGCTACTAAGTCATGGACCTAGAA-
1 -AA-AAGGTGCCACTGAGTCGTGGACTTTG-AGAAGAG-ATGCCACTGAGTCGTGGACTTTGAAG
* *
9542 AAGAGATGCCACTGAGTTGTGGACTTTGAAG
62 AAAAGATGCCACTGAGTCGTGGACTTTGAAG
**
9573 AAAAGAAGCCACTGAGTCATGGTGGACTTTGAGAAGAGATTGCCACTGAGTCGTGGACTTTGAAG
1 AAAAGGTGCCACTGAGTC---GTGGACTTTGAGAAGAGA-TGCCACTGAGTCGTGGACTTTGAAG
9638 AAAAGATGCCACTGAGTCGTGGACTTTG--G
62 AAAAGATGCCACTGAGTCGTGGACTTTGAAG
* * **
9667 GAAGGGATGCCACTGAGTCGTGGACTTTGAGAAGAGATTGCCACTGAGTATTGGACTTTGAAGAA
1 AAAAGG-TGCCACTGAGTCGTGGACTTTGAGAAGAGA-TGCCACTGAGTCGTGGACTTTGAAG--
* *
9732 AAAAGATGCCACTGGGTCATGGACTTTGA
62 AAAAGATGCCACTGAGTCGTGGACTTTGA
9761 GAATAGAGAT
Statistics
Matches: 316, Mismatches: 46, Indels: 29
0.81 0.12 0.07
Matches are distributed among these distances:
92 48 0.15
93 63 0.20
94 33 0.10
95 92 0.29
96 55 0.17
97 8 0.03
98 17 0.05
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.23
Consensus pattern (92 bp):
AAAAGGTGCCACTGAGTCGTGGACTTTGAGAAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAA
GATGCCACTGAGTCGTGGACTTTGAAG
Found at i:9370 original size:31 final size:31
Alignment explanation
Indices: 9291--9760 Score: 484
Period size: 31 Copynumber: 14.9 Consensus size: 31
9281 TTTAAAAAGA
* * *
9291 AAAAGGTGCCACAGAGTCGTGGACTTTG-GG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAAG
* *
9321 AAGAGATGTCACTGAGTCGTGGACTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAAG
* *
9352 AAAAGATGCCACTAAGTCGTGGACTTGGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAAG
* *
9383 AAAAGGATGCCACTAAGTCGTGGACTTAGAA-
1 AAAA-GATGCCACTGAGTCGTGGACTTTGAAG
* ** *
9414 AAGAGATATCACTGAGTTGTGGACTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAAG
*
9445 AAAAAAGATGCCACTGAGTCGTGGACTTTGATG
1 --AAAAGATGCCACTGAGTCGTGGACTTTGAAG
* *
9478 AAAGAAGATGCCACTGAGTCGTAGACTTGGAAG
1 -AA-AAGATGCCACTGAGTCGTGGACTTTGAAG
* * * * *
9511 AAAAGAATGCTACTAAGTCATGGACCTAGAA-
1 AAAAG-ATGCCACTGAGTCGTGGACTTTGAAG
* *
9542 AAGAGATGCCACTGAGTTGTGGACTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAAG
*
9573 AAAAGAAGCCACTGAGTCATGGTGGACTTTG-AG
1 AAAAGATGCCACTGAGTC---GTGGACTTTGAAG
*
9606 AAGAGATTGCCACTGAGTCGTGGACTTTGAAG
1 AAAAGA-TGCCACTGAGTCGTGGACTTTGAAG
*
9638 AAAAGATGCCACTGAGTCGTGGACTTTG-GG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAAG
**
9668 AAGGGATGCCACTGAGTCGTGGACTTTG-AG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAAG
* **
9698 AAGAGATTGCCACTGAGTATTGGACTTTGAAG
1 AAAAGA-TGCCACTGAGTCGTGGACTTTGAAG
* *
9730 AAAAAAGATGCCACTGGGTCATGGACTTTGA
1 --AAAAGATGCCACTGAGTCGTGGACTTTGA
9761 GAATAGAGAT
Statistics
Matches: 369, Mismatches: 54, Indels: 31
0.81 0.12 0.07
Matches are distributed among these distances:
30 97 0.26
31 109 0.30
32 58 0.16
33 79 0.21
34 26 0.07
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.23
Consensus pattern (31 bp):
AAAAGATGCCACTGAGTCGTGGACTTTGAAG
Found at i:9460 original size:33 final size:32
Alignment explanation
Indices: 8519--9760 Score: 484
Period size: 33 Copynumber: 38.9 Consensus size: 32
8509 GCTTAAAAAG
* **
8519 AAAAGATGCCACTGAGTTGTGGACTTAAAAGGA
1 AAAAGATGCCACTGAGTCGTGGACTTTGAA-GA
* * * * **
8552 ACAAGGTGCCACGGAGTTGTGGACTTAAAAGGA
1 AAAAGATGCCACTGAGTCGTGGACTTTGAA-GA
* * **
8585 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
1 AAAAGA-TGCCACTGAGTCGTGGACTTTGAA-GA
* *
8619 AAAAGATGCCACAGAGTTGTGGAC-TT-----
1 AAAAGATGCCACTGAGTCGTGGACTTTGAAGA
* * * *
8645 AAAAGGTCACCAC-GTAGTTGTGGAC-TTAAATGGA
1 AAAAGAT-GCCACTG-AGTCGTGGACTTTGAA--GA
* * * * *
8679 AAAAGAGTGCCACGGAGTCATGGGC-TTAAAAA
1 AAAAGA-TGCCACTGAGTCGTGGACTTTGAAGA
**
8711 GAAAAGATGCCAC-GAAG-CTGTGGACTTAAAAGGA
1 -AAAAGATGCCACTG-AGTC-GTGGACTTTGAA-GA
* * * * **
8745 ATAAGGTGCCACGGAGTTGTGGACTTAAAAGGA
1 AAAAGATGCCACTGAGTCGTGGACTTTGAA-GA
* * * **
8778 AAAAGAGTGCCA-TAGAGTTGTGAACATAAAAGGA
1 AAAAGA-TGCCACT-GAGTCGTGGACTTTGAA-GA
* *
8812 AAAAGATGCCACGGAGTTGTGGAC-TT----A
1 AAAAGATGCCACTGAGTCGTGGACTTTGAAGA
* * * **
8839 AAAAGGTGCCACAGAGTTGTGGACTTAAAAGGA
1 AAAAGATGCCACTGAGTCGTGGACTTTGAA-GA
* **
8872 AAAAGAGTGCCA-TAGAGTCGTGGGCTTAAAAAGA
1 AAAAGA-TGCCACT-GAGTCGTGGACTT-TGAAGA
* **
8906 AAAA-ATGCCA-TGGAGTTGTGGACTTAAAAGGA
1 AAAAGATGCCACT-GAGTCGTGGACTTTGAA-GA
* * * **
8938 AAAACAGTGCCACAGAGTTGTGGACTTAAAAGGA
1 AAAAGA-TGCCACTGAGTCGTGGACTTTGAA-GA
* * **
8972 AAAAGAGTGCCACAGAGTTGTGGACTTAAAAGGA
1 AAAAGA-TGCCACTGAGTCGTGGACTTTGAA-GA
* * *
9006 AAAAGATGCCACGGAGTTGTAGAC-TT----A
1 AAAAGATGCCACTGAGTCGTGGACTTTGAAGA
* * * * *
9033 AAAGGGTGCCACGGAGTTGTGGAC-TTAAATGGA
1 AAAAGATGCCACTGAGTCGTGGACTTTGAA--GA
* * * *
9066 AAAAGAGTGCCACGGAGTCGTGGGC-TTAAAAA
1 AAAAGA-TGCCACTGAGTCGTGGACTTTGAAGA
* * **
9098 GAAAAGATGCCA-TGGAGTTGTGGACATAAAAGGA
1 -AAAAGATGCCACT-GAGTCGTGGACTTTGAA-GA
** * * * **
9132 ACCAGGTGCCACGGAGTTGTGGA-TTAAAAGGA
1 AAAAGATGCCACTGAGTCGTGGACTTTGAA-GA
* * * **
9164 ACAAGGTGCCA-TGGAGTTGTGGACTTAAAAGGA
1 AAAAGATGCCACT-GAGTCGTGGACTTTGAA-GA
* *
9197 AAAAGATGCCACAGAGTTGTGGAC-TT----A
1 AAAAGATGCCACTGAGTCGTGGACTTTGAAGA
* * * * * **
9224 ACAGGGTGCCACGGAGTTGTGGACTTAAAAAGA
1 AAAAGATGCCACTGAGTCGTGGACTT-TGAAGA
* * ** *
9257 AAAAGATGCCACGGAGTTGTGGGTTTTAAAAAGA
1 AAAAGATGCCACTGAGTCGTGGACTTT--GAAGA
* * *
9291 AAAAGGTGCCACAGAGTCGTGGACTTTG--GG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAAGA
* *
9321 AAGAGATGTCACTGAGTCGTGGACTTTGAAG-
1 AAAAGATGCCACTGAGTCGTGGACTTTGAAGA
* *
9352 AAAAGATGCCACTAAGTCGTGGACTTGGAAGA
1 AAAAGATGCCACTGAGTCGTGGACTTTGAAGA
* *
9384 AAAGGATGCCACTAAGTCGTGGAC-TT--AGA
1 AAAAGATGCCACTGAGTCGTGGACTTTGAAGA
** *
9413 AAAGAGATATCACTGAGTTGTGGACTTTGAAGAA
1 AAA-AGATGCCACTGAGTCGTGGACTTTGAAG-A
*
9447 AAAAGATGCCACTGAGTCGTGGACTTTGATGA
1 AAAAGATGCCACTGAGTCGTGGACTTTGAAGA
* *
9479 AAGAAGATGCCACTGAGTCGTAGACTTGGAAG-
1 AA-AAGATGCCACTGAGTCGTGGACTTTGAAGA
* * * *
9511 AAAAGAATGCTACTAAGTCATGGAC-CT--AGA
1 AAAAG-ATGCCACTGAGTCGTGGACTTTGAAGA
*
9541 AAAGAGATGCCACTGAGTTGTGGACTTTGAAG-
1 AAA-AGATGCCACTGAGTCGTGGACTTTGAAGA
*
9573 AAAAGAAGCCACTGAGTCATGGTGGACTTTG-AG-
1 AAAAGATGCCACTGAGTC---GTGGACTTTGAAGA
*
9606 AAGAGATTGCCACTGAGTCGTGGACTTTGAAG-
1 AAAAGA-TGCCACTGAGTCGTGGACTTTGAAGA
*
9638 AAAAGATGCCACTGAGTCGTGGACTTTG--GG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAAGA
**
9668 AAGGGATGCCACTGAGTCGTGGACTTTG-AG-
1 AAAAGATGCCACTGAGTCGTGGACTTTGAAGA
* **
9698 AAGAGATTGCCACTGAGTATTGGACTTTGAAGAA
1 AAAAGA-TGCCACTGAGTCGTGGACTTTGAAG-A
* *
9732 AAAAGATGCCACTGGGTCATGGACTTTGA
1 AAAAGATGCCACTGAGTCGTGGACTTTGA
9761 GAATAGAGAT
Statistics
Matches: 991, Mismatches: 134, Indels: 168
0.77 0.10 0.13
Matches are distributed among these distances:
26 7 0.01
27 84 0.08
28 2 0.00
29 9 0.01
30 90 0.09
31 108 0.11
32 139 0.14
33 296 0.30
34 250 0.25
35 6 0.01
ACGTcount: A:0.36, C:0.14, G:0.30, T:0.21
Consensus pattern (32 bp):
AAAAGATGCCACTGAGTCGTGGACTTTGAAGA
Found at i:9466 original size:126 final size:125
Alignment explanation
Indices: 9288--9757 Score: 549
Period size: 126 Copynumber: 3.7 Consensus size: 125
9278 GGTTTTAAAA
* * * * * *
9288 AGAAAA-AGGTGCCACAGAGTCGTGGACTTTG-GGAAGAGATGTCACTGAGTCGTGGACTTTGAA
1 AGAAAAGAGATGCCACTGAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAA
*
9351 G-AAAAGATGCCACTAAGTCGTGGACTTGGAAGAAAAGGATGCCACTAAGTCGTGGACTT
66 GAAAAAGATGCCACTGAGTCGTGGACTTGGAAGAAAAGGATGCCACTAAGTCGTGGACTT
**
9410 AGAAAAGAGATATCACTGAGTTGTGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGACTTTG
1 AGAAAAGAGATGCCACTGAGTTGTGGACTTTGAAG--AAAAGATGCCACTGAGTCGTGGACTTTG
* * * * * *
9475 ATGAAAGAAGATGCCACTGAGTCGTAGACTTGGAAGAAAAGAATGCTACTAAGTCATGGACCT
64 AAGAAA-AAGATGCCACTGAGTCGTGGACTTGGAAGAAAAGGATGCCACTAAGTCGTGGACTT
*
9538 AGAAAAGAGATGCCACTGAGTTGTGGACTTTGAAGAAAAGAAGCCACTGAGTCATGGTGGACTTT
1 AGAAAAGAGATGCCACTGAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTC---GTGGACTTT
* * *
9603 G-AG-AAGAGATTGCCACTGAGTCGTGGACTTTGAAGAAAA-GATGCCACTGAGTCGTGGACTT
63 GAAGAAAAAGA-TGCCACTGAGTCGTGGACTTGGAAGAAAAGGATGCCACTAAGTCGTGGACTT
* ** * * * **
9664 TGGGAAGGGATGCCACTGAGTCGTGGACTTTG-AGAAGAGATTGCCACTGAGTATTGGACTTTGA
1 AGAAAAGAGATGCCACTGAGTTGTGGACTTTGAAGAAAAGA-TGCCACTGAGTCGTGGACTTTGA
* *
9728 AGAAAAAAGATGCCACTGGGTCATGGACTT
65 AG-AAAAAGATGCCACTGAGTCGTGGACTT
9758 TGAGAATAGA
Statistics
Matches: 295, Mismatches: 39, Indels: 25
0.82 0.11 0.07
Matches are distributed among these distances:
122 6 0.02
123 29 0.10
124 3 0.01
125 25 0.08
126 107 0.36
127 31 0.11
128 84 0.28
129 10 0.03
ACGTcount: A:0.33, C:0.15, G:0.30, T:0.23
Consensus pattern (125 bp):
AGAAAAGAGATGCCACTGAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAA
GAAAAAGATGCCACTGAGTCGTGGACTTGGAAGAAAAGGATGCCACTAAGTCGTGGACTT
Found at i:11074 original size:22 final size:21
Alignment explanation
Indices: 11041--11088 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 21
11031 TTGCACACTT
*
11041 TTTTTGTGTGTTTTTTTTTTG
1 TTTTTGTGTGTTTTTTTTGTG
*
11062 TTTTTGTTTTGTTTTTTTTGTG
1 TTTTTG-TGTGTTTTTTTTGTG
11084 TTTTT
1 TTTTT
11089 ACTTTTGACT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (21 bp):
TTTTTGTGTGTTTTTTTTGTG
Found at i:18987 original size:49 final size:49
Alignment explanation
Indices: 18927--19293 Score: 366
Period size: 49 Copynumber: 7.4 Consensus size: 49
18917 TGTTAAAGAC
** * *
18927 GCCAATATGCTGATTCAAGGCCAATGATATCAGATTTAAAGATGAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATCGGATTTAAAGATGAAGGT
* * *
18976 GCCAATGTGCTGATTCAAGGCCAGCGACATTGG-TCTTAAAGATAAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATCGGAT-TTAAAGATGAAGGT
* * *
19025 GCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAAATGAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATCGGATTTAAAGATGAAGGT
* * * *
19074 GCCAATGTGCTGATTCAAGGCCAGCGAAATTGG-TCTTAAAGATAAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATCGGAT-TTAAAGATGAAGGT
* * * * *
19123 GCCGATAT-CTTGATTCAAGGCCAGTGATATCGGACTTAAAGATGAAGAT
1 GCCAATATGC-TGATTCAAGGCCAGCGACATCGGATTTAAAGATGAAGGT
* * * *
19172 GCCAATGTGCTGATTCAAGGTC-GACGACATTGGACTTAAAGATGGTTAAGGT
1 GCCAATATGCTGATTCAAGGCCAG-CGACATCGGATTTAAAGAT-G--AAGGT
* * * *
19224 GCCAATGTGTTGATTCAAGGCCAACGGCATCGG-TCTTAAAGATGAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATCGGAT-TTAAAGATGAAGGT
* *
19273 GCAAATATGTTGATTCAAGGC
1 GCCAATATGCTGATTCAAGGC
19294 TATCGATATT
Statistics
Matches: 264, Mismatches: 42, Indels: 24
0.80 0.13 0.07
Matches are distributed among these distances:
48 3 0.01
49 219 0.83
50 2 0.01
51 1 0.00
52 39 0.15
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (49 bp):
GCCAATATGCTGATTCAAGGCCAGCGACATCGGATTTAAAGATGAAGGT
Found at i:19046 original size:98 final size:98
Alignment explanation
Indices: 18861--19293 Score: 496
Period size: 98 Copynumber: 4.4 Consensus size: 98
18851 GAGACATTAA
* * ** * * *
18861 ACTTAAAGAAGAA--TGCTAATGTGCTGAGACAAGGTCAGCGACATTGGGCTTAGGAATGTTAAA
1 ACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA--AA-GATAAA
** * *
18924 GACGCCAATATGCTGATTCAAGGCCAATGATATCAG
63 GGTGCCAATATGCTGATTCAAGGCCAACGATATCGG
*
18960 ATTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGT
1 ACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGT
*
19025 GCCAATATGCTGATTCAAGGCCAGCGATATCGG
66 GCCAATATGCTGATTCAAGGCCAACGATATCGG
* *
19058 ACTTAAAAATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGAAATTGGTCTTAAAGATAAAGGT
1 ACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGT
* **
19123 GCCGATAT-CTTGATTCAAGGCCAGTGATATCGG
66 GCCAATATGC-TGATTCAAGGCCAACGATATCGG
* * * *
19156 ACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGTC-GACGACATTGGACTTAAAGATGGTTA
1 ACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAG-CGACATTGGTCTTAAAGA---TAA
* * **
19220 AGGTGCCAATGTGTTGATTCAAGGCCAACGGCATCGG
62 AGGTGCCAATATGCTGATTCAAGGCCAACGATATCGG
* * * *
19257 TCTTAAAGATGAAGGTGCAAATATGTTGATTCAAGGC
1 ACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGC
19294 TATCGATATT
Statistics
Matches: 289, Mismatches: 37, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
97 2 0.01
98 178 0.62
99 13 0.04
101 96 0.33
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (98 bp):
ACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGT
GCCAATATGCTGATTCAAGGCCAACGATATCGG
Found at i:19122 original size:147 final size:149
Alignment explanation
Indices: 18927--19293 Score: 429
Period size: 147 Copynumber: 2.5 Consensus size: 149
18917 TGTTAAAGAC
* * * * *
18927 GCCAATATGCTGATTCAAGGCCAATGATATCAGAT-TTAAAGATGAAGGTGCCAATGTGCTGATT
1 GCCAATGTGCTGATTCAAGGCCAACGAAAT-AGGTCTTAAAGATGAAGGTGCCAATATGCTGATT
* * * *
18991 CAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCC-AGCGATAT
65 CAAGGCCAGCGACATCGGACTTAAAGATAAAGATGCCAATATGCTGATTCAAGGCCGA-CGACAT
19055 CGGACTTAAAAAT-G-AAGGT
129 CGGACTTAAAAATGGTAAGGT
* * * *
19074 GCCAATGTGCTGATTCAAGGCCAGCGAAATTGGTCTTAAAGATAAAGGTGCCGATAT-CTTGATT
1 GCCAATGTGCTGATTCAAGGCCAACGAAATAGGTCTTAAAGATGAAGGTGCCAATATGC-TGATT
* * * * * *
19138 CAAGGCCAGTGATATCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGTCGACGACATT
65 CAAGGCCAGCGACATCGGACTTAAAGATAAAGATGCCAATATGCTGATTCAAGGCCGACGACATC
*
19203 GGACTTAAAGATGGTTAAGGT
130 GGACTTAAAAATGG-TAAGGT
* ** * * *
19224 GCCAATGTGTTGATTCAAGGCCAACGGCATCGGTCTTAAAGATGAAGGTGCAAATATGTTGATTC
1 GCCAATGTGCTGATTCAAGGCCAACGAAATAGGTCTTAAAGATGAAGGTGCCAATATGCTGATTC
19289 AAGGC
66 AAGGC
19294 TATCGATATT
Statistics
Matches: 184, Mismatches: 29, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
146 3 0.02
147 114 0.62
148 2 0.01
150 65 0.35
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (149 bp):
GCCAATGTGCTGATTCAAGGCCAACGAAATAGGTCTTAAAGATGAAGGTGCCAATATGCTGATTC
AAGGCCAGCGACATCGGACTTAAAGATAAAGATGCCAATATGCTGATTCAAGGCCGACGACATCG
GACTTAAAAATGGTAAGGT
Found at i:19392 original size:84 final size:85
Alignment explanation
Indices: 19223--19392 Score: 252
Period size: 85 Copynumber: 2.0 Consensus size: 85
19213 ATGGTTAAGG
** * * *
19223 TGCCAATGTGTTGATTCAAGGCCAACGGCATCGGTCTTAAAGATGAAGGTGCAAATATGTTGATT
1 TGCCAATGTACTGATTCAAGGCCAACGACATCAGTCTTAAAGATGAAGGTGCAAATATGCTGATT
* *
19288 CAAGGCTATCGATATTGGGC
66 CAAGGCCAGCGATATTGGGC
* *
19308 TGCCAATGTACTGATTCAAGGCCAACGACATTAGTCTTAAAGAT-AAGGTGCCAATATGCTGATT
1 TGCCAATGTACTGATTCAAGGCCAACGACATCAGTCTTAAAGATGAAGGTGCAAATATGCTGATT
19372 CAAGGCCAGCGATATTGGGC
66 CAAGGCCAGCGATATTGGGC
19392 T
1 T
19393 TATGATGGTA
Statistics
Matches: 76, Mismatches: 9, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
84 37 0.49
85 39 0.51
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (85 bp):
TGCCAATGTACTGATTCAAGGCCAACGACATCAGTCTTAAAGATGAAGGTGCAAATATGCTGATT
CAAGGCCAGCGATATTGGGC
Found at i:19589 original size:33 final size:33
Alignment explanation
Indices: 19445--20166 Score: 750
Period size: 33 Copynumber: 22.3 Consensus size: 33
19435 TATTGGACTT
* * * * *
19445 AAAGGAGCCATGGAGTTGCGAACTT-ATAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
19477 AAAGGGATGCCATGGAGGTGTGGGCTTAAAAGGGAA
1 AAA-GG-TGCCACGGAGTTGTGGACTTAAAA-GGAA
* * * *
19513 AAGGGTGCCACGGTGTCGTGGACTTAAAAAG-A
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
19545 AAAGGTACCACGGAGTCGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
19578 CAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
19611 AAAGAGTGCCATGGAGTTGTGAACTTAAAAGGAA
1 AAAG-GTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
19645 AAAGATGCCACGGAGTTATGGACTT------AA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
19672 AAAGGTGCCACGGAGTTGTGGACTTAAAAGAAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* ** * *
19705 AAAGAGTGCCATGGAGTCATGGGCTTAAAAAG-A
1 AAAG-GTGCCACGGAGTTGTGGACTTAAAAGGAA
*
19738 AAAGATGCCACGGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
19771 CAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
19804 AAAGGTACCACGGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
19837 AAAGAGTGCCATGGAGTTGTGGACTTAAAAGGAA
1 AAAG-GTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
19871 AAAGATGCCACAGAGTTGTAGACTTAAAA-G--
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
19901 ---GGTGCCACAGAGTTGTGGACTTAAATGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * * *
19931 AAAGAGTGCCACAGAGTCGTGGGCTTAAAAAG-A
1 AAAG-GTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
19964 AAAGATGCCACGGAGTTGTGGACATAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
19997 TAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
20030 CAAGGTGCCACGAAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * * *
20063 AAAGATACCACGGAGTTGTTGACTTAACA-G--
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
20093 ---GGTGCCACGGAATTATGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
20123 AAAGATGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGAC-TTAAAAGGAA
20157 AAAGGTGCCA
1 AAAGGTGCCA
20167 TAGAGTCGTG
Statistics
Matches: 573, Mismatches: 87, Indels: 58
0.80 0.12 0.08
Matches are distributed among these distances:
27 68 0.12
28 2 0.00
32 75 0.13
33 260 0.45
34 158 0.28
35 4 0.01
36 6 0.01
ACGTcount: A:0.37, C:0.13, G:0.31, T:0.19
Consensus pattern (33 bp):
AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
Found at i:19831 original size:226 final size:224
Alignment explanation
Indices: 19475--20089 Score: 919
Period size: 226 Copynumber: 2.7 Consensus size: 224
19465 AACTTATAGG
* * * * *
19475 AAAAAGGGATGCCATGGAGGT-GTGGGCTTAAAAGGGAAAAGGGTGCCACGGTGTCGTGGACTTA
1 AAAAAGAG-TGCCATGGA-GTCGTGGGCTTAAAA-AGAAAA-GATGCCACGGAGTTGTGGACTTA
* * *
19539 AAAAGAAAAGGTACCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTA
62 AAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTA
* *
19604 AAAGGAAAAAGAGTGCCATGGAGTTGTGAACTTAAAAGGAAAAAGATGCCACGGAGTTATGGACT
127 AAAGGAAAAAGAGTGCCATGGAGTTGTG-ACTTAAAAGGAAAAAGATGCCACAGAGTTATAGACT
*
19669 TAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGA
191 TAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGA
*
19703 AAAAAGAGTGCCATGGAGTCATGGGCTTAAAAAGAAAAGATGCCACGGAGTTGTGGACTTAAAAG
1 AAAAAGAGTGCCATGGAGTCGTGGGCTTAAAAAGAAAAGATGCCACGGAGTTGTGGACTTAAAAG
* *
19768 GAACAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGTACCACGGAGTTGTGGACTTAAAA
66 GAA-AAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAA
*
19833 GGAAAAAGAGTGCCATGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACAGAGTTGTAGACTTAA
130 GGAAAAAGAGTGCCATGGAGTTGT-GACTTAAAAGGAAAAAGATGCCACAGAGTTATAGACTTAA
* * *
19898 AAGGGTGCCACAGAGTTGTGGACTTAAATGG
194 AAAGGTGCCACAGAGTTGTGGACTTAAAAGA
** *
19929 AAAAAGAGTGCCACAGAGTCGTGGGCTTAAAAAGAAAAGATGCCACGGAGTTGTGGACATAAAAG
1 AAAAAGAGTGCCATGGAGTCGTGGGCTTAAAAAGAAAAGATGCCACGGAGTTGTGGACTTAAAAG
*
19994 GAATAAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGAAGTTGTGGACTTAAAA
66 GAA-AAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAA
* *
20059 GGAAAAAGA-TACCACGGAGTTGTTGACTTAA
130 GGAAAAAGAGTGCCATGGAGTTG-TGACTTAA
20090 CAGGGTGCCA
Statistics
Matches: 355, Mismatches: 28, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
225 44 0.12
226 283 0.80
227 21 0.06
228 7 0.02
ACGTcount: A:0.37, C:0.13, G:0.31, T:0.19
Consensus pattern (224 bp):
AAAAAGAGTGCCATGGAGTCGTGGGCTTAAAAAGAAAAGATGCCACGGAGTTGTGGACTTAAAAG
GAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAG
GAAAAAGAGTGCCATGGAGTTGTGACTTAAAAGGAAAAAGATGCCACAGAGTTATAGACTTAAAA
AGGTGCCACAGAGTTGTGGACTTAAAAGA
Found at i:19862 original size:193 final size:190
Alignment explanation
Indices: 19475--20337 Score: 711
Period size: 193 Copynumber: 4.5 Consensus size: 190
19465 AACTTATAGG
* * * *
19475 AAAAAGGGATGCCATGGAGGTGTGGGCTTAAAAGGGAAAAGGGTGCCACGGTGTCGTGGACTTAA
1 AAAAA-GG-TGCCACGGAGTTGTGGACTTAAAA--GAAAA-GGTGCCACGGAGTCGTGGACTTAA
* *
19540 AAAGAAAAGGTACCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAA
61 AAAGAAAAGATGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAA
* * *
19605 AAGGAAAAAGAGTGCCATGGAGTTGTGAACTTAAAAGGAAAAAGA-TGCCACGGAGTTATGGACT
126 AAGGAAAAAG-GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACT
19669 T
190 T
* * *
19670 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGAAAAAAGAGTGCCATGGAGTCATGGGCTTAAAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAG--AAAAG-GTGCCACGGAGTCGTGGACTTAAAA
*
19735 AGAAAAGATGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAA
63 AGAAAAGATGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAA
* *
19800 GGAAAAAGGTACCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCATGGAGTTGTGGACTT
128 GGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTT
* * * * *
19863 AAAAGGAAAAAGATGCCACAGAGTTGTAGACTTAAAAG----GGTGCCACAGAGTTGTGGACTTA
1 ------AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGAAAAGGTGCCACGGAGTCGTGGACTTA
** * * * * *
19924 AATGGAAAAAGAGTGCCACAGAGTCGTGGGCTTAAAAAGAA-AAGATGCCACGGAGTTGTGGACA
60 AAAAG-AAAAGA-TGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACT
* * *
19988 TAAAAGGAATAAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAG-GTGCCACGAAGTTGTGGA
123 TAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGA
20052 CTT
188 CTT
* * * * * **
20055 AAAAGGAAAAAGATACCACGGAGTTGTTGACTTAACAG----GGTGCCACGGAATTATGGACTTA
1 ------AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGAAAAGGTGCCACGGAGTCGTGGACTTA
* * * * * ** * *
20116 AAAGGAAAAAGATGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCATAGAGTCGTGGAGT
60 AAAAG-AAAAGATGCCACGGAGTCGTGGAC-TTAAAAGGAACAAGGTGCCACGGAGTTGTGGACT
* * * * * * * ** * *
20181 T---TGGGAAGAGATGTCACTGAGTAGTGGACTTTGAA--AAAAAGA-TGCCACTGAGTCGTGGA
123 TAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGA
20240 CTT
188 CTT
* * * * * * *
20243 GGAAGAAAAGGATGCCACTGAGTCGTGGACTTAGAA-AAGAGATGCCACTGAGTTGTGGACTTTG
1 ---A-AAAAGG-TGCCACGGAGTTGTGGACTTAAAAGAAAAGGTGCCACGGAGTCGTGGAC-TT-
* *
20307 AAGAA-AAAAGATGCCACTGAGTCGTGGACTT
59 AAAAAGAAAAGATGCCACGGAGTCGTGGACTT
20338 TGATGAAAAA
Statistics
Matches: 561, Mismatches: 84, Indels: 52
0.80 0.12 0.07
Matches are distributed among these distances:
185 2 0.00
186 5 0.01
187 18 0.03
188 22 0.04
189 2 0.00
190 61 0.11
191 19 0.03
192 149 0.27
193 223 0.40
194 26 0.05
195 5 0.01
199 29 0.05
ACGTcount: A:0.36, C:0.13, G:0.31, T:0.20
Consensus pattern (190 bp):
AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGAAAAGGTGCCACGGAGTCGTGGACTTAAAAAGA
AAAGATGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAGGA
AAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTT
Found at i:20160 original size:226 final size:226
Alignment explanation
Indices: 19474--20177 Score: 866
Period size: 226 Copynumber: 3.1 Consensus size: 226
19464 GAACTTATAG
* * * * * *
19474 GAAAAAGGGATGCCATGGAGGT-GTGGGCTTAAAAGGGAAAAGGGTGCCACGGTGTCGTGGACTT
1 GAAAAAGAG-TGCCATAGA-GTCGTGGGCTTAAAA-AGAAAA-GATGCCACGGAGTTGTGGACTT
* * *
19538 AAAAAGAAAAGGTACCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTT
62 AAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTT
19603 AAAAGGAAAAAGAGTGCCATGGAGTTG-TGAACTTAAAAGGAAAAAGATGCCACGGAGTTATGGA
127 AAAAGGAAAAAGAGTGCCATGGAGTTGTTG-ACTTAAAAGG----AGATGCCACGGAGTTATGGA
*
19667 CTT---A--AAAAGGTGCCACGGAGTTGTGGACTT-AAAA
187 CTTAAAAGGAAAAAGTGCCACGGAGTTGTGGACTTAAAAA
* *
19701 GAAAAAAGAGTGCCATGGAGTCATGGGCTTAAAAAGAAAAGATGCCACGGAGTTGTGGACTTAAA
1 G-AAAAAGAGTGCCATAGAGTCGTGGGCTTAAAAAGAAAAGATGCCACGGAGTTGTGGACTTAAA
* *
19766 AGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGTACCACGGAGTTGTGGACTTAA
65 AGGAA-AAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAA
* * * *
19831 AAGGAAAAAGAGTGCCATGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACAGAGTTGTAGACTT
129 AAGGAAAAAGAGTGCCATGGAGTTGTTGACTTAAAAGG----AGATGCCACGGAGTTATGGACTT
* **
19896 AAAAGG-----GTGCCACAGAGTTGTGGACTTAAATG
190 AAAAGGAAAAAGTGCCACGGAGTTGTGGACTTAAAAA
* *
19928 GAAAAAGAGTGCCACAGAGTCGTGGGCTTAAAAAGAAAAGATGCCACGGAGTTGTGGACATAAAA
1 GAAAAAGAGTGCCATAGAGTCGTGGGCTTAAAAAGAAAAGATGCCACGGAGTTGTGGACTTAAAA
*
19993 GGAATAAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGAAGTTGTGGACTTAAA
66 GGAA-AAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAA
* * * *
20058 AGGAAAAAGA-TACCACGGAGTTGTTGACTTAACAGG-G-TGCCACGGAATTATGGACTTAAAAG
130 AGGAAAAAGAGTGCCATGGAGTTGTTGACTTAAAAGGAGATGCCACGGAGTTATGGACTTAAAAG
*
20120 GAAAAAGATGCCACGGAGTTGTGGGCTTTAAAAA
195 GAAAAAG-TGCCACGGAGTTGTGGAC-TTAAAAA
20154 GAAAAAG-GTGCCATAGAGTCGTGG
1 GAAAAAGAGTGCCATAGAGTCGTGG
20178 AGTTTGGGAA
Statistics
Matches: 421, Mismatches: 39, Indels: 36
0.85 0.08 0.07
Matches are distributed among these distances:
219 22 0.05
220 1 0.00
224 1 0.00
225 80 0.19
226 284 0.67
227 25 0.06
228 7 0.02
229 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.31, T:0.19
Consensus pattern (226 bp):
GAAAAAGAGTGCCATAGAGTCGTGGGCTTAAAAAGAAAAGATGCCACGGAGTTGTGGACTTAAAA
GGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAA
GGAAAAAGAGTGCCATGGAGTTGTTGACTTAAAAGGAGATGCCACGGAGTTATGGACTTAAAAGG
AAAAAGTGCCACGGAGTTGTGGACTTAAAAA
Found at i:20228 original size:95 final size:92
Alignment explanation
Indices: 20121--20620 Score: 515
Period size: 93 Copynumber: 5.3 Consensus size: 92
20111 ACTTAAAAGG
* * * * * *
20121 AAAAAGATGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCA-TAGAGTCGTGGAGTTTGG
1 AAAAAGATGCCACTGAGTCGTGGACTTT--GAAG-AAAAGGTGCCACT-GAGTCGTGGACTTTGA
*
20185 GAAGAGATGTCACTGAGTAGTGGACTTTGAA
62 GAAGAGATGCCACTGAGTAGTGGACTTTGAA
* * *
20216 AAAAAGATGCCACTGAGTCGTGGACTTGGAAGAAAAGGATGCCACTGAGTCGTGGACTTAGAAAA
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGG-TGCCACTGAGTCGTGGACTTTGAGAA
*
20281 GAGATGCCACTGAGTTGTGGACTTTGAAGA
65 GAGATGCCACTGAGTAGTGGACTTTG-A-A
* * * * *
20311 AAAAAGATGCCACTGAGTCGTGGACTTTGATGAAAAAAGATGCCATTGAGTCGTAGACTTGGAAG
1 AAAAAGATGCCACTGAGTCGTGGACTTTGA--AGAAAAGGTGCCACTGAGTCGTGGACTTTG-AG
* * * *
20376 AAAAGAATGCCACTAAGTCGTGGACTTAG-A
63 AAGAG-ATGCCACTGAGTAGTGGACTTTGAA
* ** **
20406 AAATAGATGCCACTGAGTTATGGACTTTGAAGAAAAGAAGCCACTGAGTCGTGGACTTTGAGAAG
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGGTGCCACTGAGTCGTGGACTTTGAGAAG
* * *
20471 AGATTGCCACTAAGTCGTGGATTTTGAA
66 AGA-TGCCACTGAGTAGTGGACTTTGAA
* * *
20499 GAAAAGATGCCACTGAGTCGTGGACTTT--AGGAAGGGATGCCACTGAGTCGTGGACTTTGAGAA
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGG-TGCCACTGAGTCGTGGACTTTGAGAA
*
20562 GAGATTACCACTGAGTCA-TGGACTTTGAAGA
65 GAGA-TGCCACTGAGT-AGTGGACTTTG-A-A
*
20593 AAAAAGATGCCACTGGGTCGTGGACTTT
1 AAAAAGATGCCACTGAGTCGTGGACTTT
20621 TAGAAGAGAG
Statistics
Matches: 344, Mismatches: 47, Indels: 29
0.82 0.11 0.07
Matches are distributed among these distances:
91 6 0.02
92 79 0.23
93 98 0.28
94 29 0.08
95 82 0.24
96 19 0.06
97 11 0.03
98 20 0.06
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.23
Consensus pattern (92 bp):
AAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGGTGCCACTGAGTCGTGGACTTTGAGAAG
AGATGCCACTGAGTAGTGGACTTTGAA
Found at i:20319 original size:33 final size:33
Alignment explanation
Indices: 20121--20620 Score: 460
Period size: 31 Copynumber: 15.8 Consensus size: 33
20111 ACTTAAAAGG
* * * * *
20121 AAAAAGATGCCACGGAGTTGTGGGCTTTAAAAA
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAAGA
* *
20154 GAAAAAGGTGCCA-TAGAGTCGTGGAGTTTG--G-
1 -AAAAAGATGCCACT-GAGTCGTGGACTTTGAAGA
* * * *
20185 GAAGAGATGTCACTGAGTAGTGGACTTTG-A-A
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAAGA
*
20216 AAAAAGATGCCACTGAGTCGTGGACTTGGAAG-
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAAGA
*
20248 AAAAGGATGCCACTGAGTCGTGGAC-TT--AGA
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAAGA
* *
20278 AAAGAGATGCCACTGAGTTGTGGACTTTGAAGA
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAAGA
*
20311 AAAAAGATGCCACTGAGTCGTGGACTTTGATGA
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAAGA
* * *
20344 AAAAAGATGCCATTGAGTCGTAGACTTGGAAGA
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAAGA
* *
20377 AAAGA-ATGCCACTAAGTCGTGGAC-TT--AGA
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAAGA
* **
20406 AAATAGATGCCACTGAGTTATGGACTTTGAAG-
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAAGA
*
20438 -AAAAGAAGCCACTGAGTCGTGGACTTTG-AG-
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAAGA
* * *
20468 -AAGAGATTGCCACTAAGTCGTGGATTTTGAAG-
1 AAAAAGA-TGCCACTGAGTCGTGGACTTTGAAGA
20500 -AAAAGATGCCACTGAGTCGTGGACTTT--AG-
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAAGA
* **
20529 GAAGGGATGCCACTGAGTCGTGGACTTTG-AG-
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAAGA
* * *
20560 -AAGAGATTACCACTGAGTCATGGACTTTGAAGA
1 AAAAAGA-TGCCACTGAGTCGTGGACTTTGAAGA
*
20593 AAAAAGATGCCACTGGGTCGTGGACTTT
1 AAAAAGATGCCACTGAGTCGTGGACTTT
20621 TAGAAGAGAG
Statistics
Matches: 385, Mismatches: 59, Indels: 45
0.79 0.12 0.09
Matches are distributed among these distances:
29 11 0.03
30 96 0.25
31 115 0.30
32 50 0.13
33 86 0.22
34 27 0.07
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.23
Consensus pattern (33 bp):
AAAAAGATGCCACTGAGTCGTGGACTTTGAAGA
Found at i:20373 original size:128 final size:125
Alignment explanation
Indices: 20189--20619 Score: 577
Period size: 128 Copynumber: 3.4 Consensus size: 125
20179 GTTTGGGAAG
* *
20189 AGATGTCACTGAGTAGTGGACTTTGA-AAAAAAGATGCCACTGAGTCGTGGACTTGGAAGAAAAG
1 AGATGCCACTGAGTCGTGGACTTTGAGAAAAAAGATGCCACTGAGTCGTGGACTTGGAAGAAAAG
20253 GATGCCACTGAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTTGTGGACTTTGAAGAAAAA
66 GATGCCACTGAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTTGTGGACTTTGAAG--AAA
* *
20315 AGATGCCACTGAGTCGTGGACTTTGATGAAAAAAGATGCCATTGAGTCGTAGACTTGGAAGAAAA
1 AGATGCCACTGAGTCGTGGACTTTGA-GAAAAAAGATGCCACTGAGTCGTGGACTTGGAAGAAAA
* * * *
20380 GAATGCCACTAAGTCGTGGACTTAGAAAATAGATGCCACTGAGTTATGGACTTTGAAGAAA
65 GGATGCCACTGAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTTGTGGACTTTGAAGAAA
* * * * *
20441 AGAAGCCACTGAGTCGTGGACTTTGAG--AAGAGATTGCCACTAAGTCGTGGATTTTGAAGAAAA
1 AGATGCCACTGAGTCGTGGACTTTGAGAAAAAAGA-TGCCACTGAGTCGTGGACTTGGAAGAAAA
* * * *
20504 -GATGCCACTGAGTCGTGGACTTTAG-GAAGGGATGCCACTGAGTCGTGGACTTTG-AGAAG
65 GGATGCCACTGAGTCGTGGAC-TTAGAAAAGAGATGCCACTGAGTTGTGGACTTTGAAGAAA
* * *
20563 AGATTACCACTGAGTCATGGACTTTGAAGAAAAAAGATGCCACTGGGTCGTGGACTT
1 AGA-TGCCACTGAGTCGTGGACTTTG-AGAAAAAAGATGCCACTGAGTCGTGGACTT
20620 TTAGAAGAGA
Statistics
Matches: 267, Mismatches: 30, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
122 7 0.03
123 66 0.25
124 30 0.11
125 18 0.07
126 57 0.21
128 89 0.33
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.23
Consensus pattern (125 bp):
AGATGCCACTGAGTCGTGGACTTTGAGAAAAAAGATGCCACTGAGTCGTGGACTTGGAAGAAAAG
GATGCCACTGAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTTGTGGACTTTGAAGAAA
Found at i:21919 original size:12 final size:11
Alignment explanation
Indices: 21902--21940 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
21892 CTTTGCACGC
21902 TTTTTTTGTGTG
1 TTTTTTT-TGTG
21914 TTTTTTTTG-G
1 TTTTTTTTGTG
21924 TTTTGTTTTGTG
1 TTTT-TTTTGTG
21936 TTTTT
1 TTTTT
21941 ACTTTTGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 5 0.20
11 8 0.32
12 12 0.48
ACGTcount: A:0.00, C:0.00, G:0.21, T:0.79
Consensus pattern (11 bp):
TTTTTTTTGTG
Found at i:23232 original size:49 final size:49
Alignment explanation
Indices: 23160--23460 Score: 323
Period size: 49 Copynumber: 5.9 Consensus size: 49
23150 TGGGATATCA
*
23160 GACTTAAAAATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATCG
1 GACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATCG
** * * *
23209 GACTTAAAGATGAAGGTGCCAATGTATTGATTCGAGGCCAGCAACATCA
1 GACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATCG
* *
23258 GACTTAAAGGTGAAGATGATAGAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCG
1 GACTT--A----AAGATG--A-AGGTGCCAATGTGCTGATTCAAGGCCAGCGACATCG
* * * *
23316 GACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGTCGGCGACATTG
1 GACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATCG
* *
23365 GACTTAAAGATGGTTAAGGTGCCAATGTGCTGACTCAAGGCCAACGACATCG
1 GACTTAAAGAT-G--AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATCG
* * * * *
23417 GTCTTAAAGACGAAGGTGCCAATATGTTGATTCAAGGCTAGCGA
1 GACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGA
23461 TATTGGGCTG
Statistics
Matches: 208, Mismatches: 32, Indels: 24
0.79 0.12 0.09
Matches are distributed among these distances:
49 116 0.56
50 2 0.01
51 2 0.01
52 46 0.22
55 6 0.03
56 1 0.00
57 1 0.00
58 34 0.16
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (49 bp):
GACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATCG
Found at i:23305 original size:58 final size:58
Alignment explanation
Indices: 23222--23333 Score: 152
Period size: 58 Copynumber: 1.9 Consensus size: 58
23212 TTAAAGATGA
* * * *
23222 AGGTGCCAATGTATTGATTCGAGGCCAGCAACATCAGACTTAAAGGTGAAGATGATAG
1 AGGTGCCAATATACTGATTCAAGGCCAGCAACATCAGACTTAAAGATGAAGATGATAG
* * * *
23280 AGGTGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGATG
1 AGGTGCCAATATACTGATTCAAGGCCAGCAACATCAGACTTAAAGATGAAGATG
23334 CCAATGTGCT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
58 46 1.00
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (58 bp):
AGGTGCCAATATACTGATTCAAGGCCAGCAACATCAGACTTAAAGATGAAGATGATAG
Found at i:23425 original size:101 final size:104
Alignment explanation
Indices: 23172--23454 Score: 365
Period size: 107 Copynumber: 2.7 Consensus size: 104
23162 CTTAAAAATG
*
23172 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGGTGCCAATGTATT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGGTGCCAATGTGTT
* *
23237 GATTCGAGGCCAGCAACATCAGACTTAAAGGTGAAGATGAT
66 GATTCAAGGCCAGCAACATCAGACTTAAAGATG-AGAT-AT
* * * *
23278 AGAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGATGCCAATGTGC
1 A-AGGTGCCAATGTGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGGTGCCAATGTGT
* * * **
23343 TGATTCAAGGTCGGCGACATTGGACTTAAAGATG-G-T-T
65 TGATTCAAGGCCAGCAACATCAGACTTAAAGATGAGATAT
* * * * *
23380 AAGGTGCCAATGTGCTGACTCAAGGCCAACGACATCGGTCTTAAAGACGAAGGTGCCAATATGTT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGGTGCCAATGTGTT
23445 GATTCAAGGC
66 GATTCAAGGC
23455 TAGCGATATT
Statistics
Matches: 154, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
101 64 0.42
102 2 0.01
104 1 0.01
105 1 0.01
106 1 0.01
107 85 0.55
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (104 bp):
AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGGTGCCAATGTGTT
GATTCAAGGCCAGCAACATCAGACTTAAAGATGAGATAT
Found at i:23502 original size:36 final size:36
Alignment explanation
Indices: 23433--23502 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
23423 AAGACGAAGG
* * * *
23433 TGCCAATATGTTGATTCAAGGCTAGCGATATTGGGC
1 TGCCAATATCTTGATTCAAGGCCAACGACATTGGGC
*
23469 TGCCAATGTCTTGATTCAAGGCCAACGACATTGG
1 TGCCAATATCTTGATTCAAGGCCAACGACATTGG
23503 TCTTAAGGAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (36 bp):
TGCCAATATCTTGATTCAAGGCCAACGACATTGGGC
Found at i:23761 original size:33 final size:33
Alignment explanation
Indices: 23606--24183 Score: 592
Period size: 33 Copynumber: 17.8 Consensus size: 33
23596 TATTGGACTT
* *
23606 AAAGGTGCCACGGAGTTGCGGACTT-ACAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
23638 AAAGGGATGCCATGGAGGTGTGGGCTTAAAAGGGAA
1 AAA-GG-TGCCACGGAGTTGTGGACTTAAAA-GGAA
* * * *
23674 AAGGGTGCCACAGAGTCGTGGACTTAAAAAG-A
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * **
23706 AGAGGTACCACAAAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
23739 CAAGGTGCCACGGAGTTGTGGACTTAAAAGAAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
23772 AAAGAGTGCCACGAAGTTGTGGACTTAAAGGGAA
1 AAAG-GTGCCACGGAGTTGTGGACTTAAAAGGAA
*
23806 AAAGGTGCCATGGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
23839 AAAGAGTGCCACGGAGTTGTGGTCTTAAAAGGAA
1 AAAG-GTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
23873 AAAGATACCATGGAGTTGTGGACTTAAAA-G--
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
23903 ---GGTGCCACGGAGTTGTGGGCTTAAATGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
23933 AAAGAGTGCCACGGAGTCGTGGGCTTAAAAAG-A
1 AAAG-GTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
23966 AAAGATGCCACTGAGTTGTGGACATAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
23999 CAAGGTGCCACGGAGTTGCGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
24032 CAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
24065 AAAGATGCCACGGAGTTGTTGACTTAAAA-G--
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
24095 ---GGTGCCACGAAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * * *
24125 AAAGATGCCACGGTGTTGTGGGCTTTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGAC-TTAAAAGGAA
* ** *
24159 AAAGGCGCCACAAAGTCGTGGACTT
1 AAAGGTGCCACGGAGTTGTGGACTT
24184 TGGGAAGAGA
Statistics
Matches: 449, Mismatches: 75, Indels: 43
0.79 0.13 0.08
Matches are distributed among these distances:
27 44 0.10
28 2 0.00
32 52 0.12
33 196 0.44
34 145 0.32
35 4 0.01
36 6 0.01
ACGTcount: A:0.35, C:0.14, G:0.32, T:0.19
Consensus pattern (33 bp):
AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
Found at i:23811 original size:67 final size:66
Alignment explanation
Indices: 23606--24183 Score: 567
Period size: 67 Copynumber: 8.9 Consensus size: 66
23596 TATTGGACTT
* * * * * * * *
23606 AAAGGTGCCACGGAGTTGCGGACTTACAGGAAAAAGGGATGCCATGGAGGTGTGGGCTTAAAAGG
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGAAAAAAGG-TGCCACGAAGTTGTGGACTTAAAA-G
23671 GAA
64 GAA
* * * * * * *
23674 AAGGGTGCCACAGAGTCGTGGACTTAAAA-AGAAGAGGTACCACAAAGTTGTGGACTTAAAAGGA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGAAAAAAGGTGCCACGAAGTTGTGGACTTAAAAGGA
23738 A
66 A
* *
23739 CAAGGTGCCACGGAGTTGTGGACTTAAAAGAAAAAAGAGTGCCACGAAGTTGTGGACTTAAAGGG
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGAAAAAAG-GTGCCACGAAGTTGTGGACTTAAAAGG
23804 AA
65 AA
* * * *
23806 AAAGGTGCCATGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGTCTTAAAAGG
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGAAAAAAG-GTGCCACGAAGTTGTGGACTTAAAAGG
23871 AA
65 AA
* * * * * *
23873 AAAGATACCATGGAGTTGTGGACTTAAAAG------GGTGCCACGGAGTTGTGGGCTTAAATGGA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGAAAAAAGGTGCCACGAAGTTGTGGACTTAAAAGGA
23932 A
66 A
* * * * *
23933 AAAGAGTGCCACGGAGTCGTGGGCTTAAAA-AGAAAAGATGCCACTG-AGTTGTGGACATAAAAG
1 AAAG-GTGCCACGGAGTTGTGGACTTAAAAGAAAAAAGGTGCCAC-GAAGTTGTGGACTTAAAAG
23996 GAA
64 GAA
* * * * *
23999 CAAGGTGCCACGGAGTTGCGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAGGA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGAAAAAAGGTGCCACGAAGTTGTGGACTTAAAAGGA
24064 A
66 A
* *
24065 AAAGATGCCACGGAGTTGTTGACTTAAAAG------GGTGCCACGAAGTTGTGGACTTAAAAGGA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGAAAAAAGGTGCCACGAAGTTGTGGACTTAAAAGGA
24124 A
66 A
* * * * * *
24125 AAAGATGCCACGGTGTTGTGGGCTTTAAAA-AGAAAAAGGCGCCACAAAGTCGTGGACTT
1 AAAGGTGCCACGGAGTTGTGGAC-TTAAAAGA-AAAAAGGTGCCACGAAGTTGTGGACTT
24184 TGGGAAGAGA
Statistics
Matches: 427, Mismatches: 63, Indels: 41
0.80 0.12 0.08
Matches are distributed among these distances:
60 80 0.19
61 27 0.06
65 52 0.12
66 105 0.25
67 140 0.33
68 23 0.05
ACGTcount: A:0.35, C:0.14, G:0.32, T:0.19
Consensus pattern (66 bp):
AAAGGTGCCACGGAGTTGTGGACTTAAAAGAAAAAAGGTGCCACGAAGTTGTGGACTTAAAAGGA
A
Found at i:24122 original size:27 final size:27
Alignment explanation
Indices: 24070--24122 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
24060 AGGAAAAAGA
* *
24070 TGCCACGGAGTTGTTGACTTAAAAGGG
1 TGCCACGAAGTTGTGGACTTAAAAGGG
24097 TGCCACGAAGTTGTGGACTTAAAAGG
1 TGCCACGAAGTTGTGGACTTAAAAGG
24123 AAAAAGATGC
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:0.28, C:0.15, G:0.32, T:0.25
Consensus pattern (27 bp):
TGCCACGAAGTTGTGGACTTAAAAGGG
Found at i:24229 original size:31 final size:31
Alignment explanation
Indices: 24172--24566 Score: 428
Period size: 31 Copynumber: 12.7 Consensus size: 31
24162 GGCGCCACAA
* * *
24172 AGTCGTGGACTTTG-GGAAGAGATGCCACTA
1 AGTCGTGGACTTTGAAGAAAAGATGCCACTG
*
24202 AGTCGTGGACTTCGAAGAAAAGATGCCACTG
1 AGTCGTGGACTTTGAAGAAAAGATGCCACTG
* *
24233 AGTCATGGACTTGGAAGAAAAGGATGCCACTG
1 AGTCGTGGACTTTGAAGAAAA-GATGCCACTG
* * * *
24265 AGTCGTGGACTTAGAA-AAGAGATACCACTC
1 AGTCGTGGACTTTGAAGAAAAGATGCCACTG
*
24295 AGTTGTGGACTTTGAAGAAAAAAGATGCCACTG
1 AGTCGTGGACTTTGAAG--AAAAGATGCCACTG
24328 AGTCGTGGACTTTGAAGAAAGAAGATGCCACTG
1 AGTCGTGGACTTTGAAG-AA-AAGATGCCACTG
* *
24361 AGTCGTGGACTTGGAAGAAAAGAATGCCACTA
1 AGTCGTGGACTTTGAAGAAAAG-ATGCCACTG
*
24393 AGTCGTGGA-TTTAGAA-AAGAGATGCCACT-
1 AGTCGTGGACTTT-GAAGAAAAGATGCCACTG
* *
24422 AGGTTGTGGACTTTG-AGAAGAGATTGCCACTG
1 A-GTCGTGGACTTTGAAGAAAAGA-TGCCACTG
*
24454 AGTCATGGACTTTGAAGAAAAGATGCCACTG
1 AGTCGTGGACTTTGAAGAAAAGATGCCACTG
* ** *
24485 AGTCGTGGACTTTG-GGAAGGGATGCCTCTG
1 AGTCGTGGACTTTGAAGAAAAGATGCCACTG
* *
24515 AGTCGTAGACTTTG-AGAAGAGATTGCCACTG
1 AGTCGTGGACTTTGAAGAAAAGA-TGCCACTG
*
24546 AGTCATGGACTTTGAAGAAAA
1 AGTCGTGGACTTTGAAGAAAA
24567 AAAAGATGAA
Statistics
Matches: 312, Mismatches: 37, Indels: 30
0.82 0.10 0.08
Matches are distributed among these distances:
29 2 0.01
30 88 0.28
31 105 0.34
32 62 0.20
33 55 0.18
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.23
Consensus pattern (31 bp):
AGTCGTGGACTTTGAAGAAAAGATGCCACTG
Found at i:24321 original size:190 final size:189
Alignment explanation
Indices: 24105--24498 Score: 440
Period size: 190 Copynumber: 2.1 Consensus size: 189
24095 GGTGCCACGA
** * * * * *
24105 AGTTGTGGACTTAAAAGGAAAAAGATGCCACGGTGTTGTGGGCTTTAAAAAGAAA-AAGGCGCCA
1 AGTTGTGGACTTTGAAGAAAAAAGATGCCACGGAGTCGTGGACTTT--AAAGAAAGAAGACGCCA
* *
24169 CAAAGTCGTGGACTTTGG-GAAGAG-ATGCCACTAAGTCGTGGACTTCGAAGAAAAGATGCCACT
64 CAAAGTCGTGGAC-TTGGAGAAAAGAATGCCACTAAGTCGTGGACTTAGAA-AAAAGATGCCACT
* *
24232 -GAGTCATGGACTTGGAAGAAAAGGA-TGCCACTGAGTCGTGGACTTAGAA-AAGAGATACCACT
127 AG-GTCATGGACTTGG-AGAAAA-GATTGCCACTGAGTCATGGACTTAGAAGAAAAGATACCACT
24294 C
189 C
* * * *
24295 AGTTGTGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAGAAGATGCCACT
1 AGTTGTGGACTTTGAAGAAAAAAGATGCCACGGAGTCGTGGACTTTAAAGAAAGAAGACGCCACA
* * *
24360 GAGTCGTGGACTTGGAAGAAAAGAATGCCACTAAGTCGTGGATTTAGAAAAGAGATGCCACTAGG
66 AAGTCGTGGACTTGG-AGAAAAGAATGCCACTAAGTCGTGGACTTAGAAAAAAGATGCCACTAGG
** * * * * *
24425 TTGTGGACTTTGAGAAGAGATTGCCACTGAGTCATGGACTTTGAAGAAAAGATGCCACTG
130 TCATGGACTTGGAGAAAAGATTGCCACTGAGTCATGGACTTAGAAGAAAAGATACCACTC
*
24485 AGTCGTGGACTTTG
1 AGTTGTGGACTTTG
24499 GGAAGGGATG
Statistics
Matches: 171, Mismatches: 26, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
188 12 0.07
189 45 0.26
190 90 0.53
191 24 0.14
ACGTcount: A:0.34, C:0.15, G:0.29, T:0.22
Consensus pattern (189 bp):
AGTTGTGGACTTTGAAGAAAAAAGATGCCACGGAGTCGTGGACTTTAAAGAAAGAAGACGCCACA
AAGTCGTGGACTTGGAGAAAAGAATGCCACTAAGTCGTGGACTTAGAAAAAAGATGCCACTAGGT
CATGGACTTGGAGAAAAGATTGCCACTGAGTCATGGACTTAGAAGAAAAGATACCACTC
Found at i:24380 original size:128 final size:125
Alignment explanation
Indices: 24191--24568 Score: 498
Period size: 128 Copynumber: 3.0 Consensus size: 125
24181 CTTTGGGAAG
* * *
24191 AGATGCCACTAAGTCGTGGACTTCGAAGAAAAGATGCCACTGAGTCATGGACTTGGAAGAAAAGG
1 AGATGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTGGAAGAAAAGG
*
24256 ATGCCACTGAGTCGTGGACTTAGAAAAGAGATACCACTCAGTTGTGGACTTTGAAGAAAAA
66 ATGCCACTGAGTCGTGGACTTAGAAAAGAGATGCCACT-AGTTGTGGACTTTGAAGAAAAA
24317 AGATGCCACTGAGTCGTGGACTTTGAAGAAAGAAGATGCCACTGAGTCGTGGACTTGGAAGAAAA
1 AGATGCCACTGAGTCGTGGACTTTGAAG-AA-AAGATGCCACTGAGTCGTGGACTTGGAAGAAAA
* * * *
24382 GAATGCCACTAAGTCGTGGATTTAGAAAAGAGATGCCACTAGGTTGTGGACTTTG-AG--AAG
64 GGATGCCACTGAGTCGTGGACTTAGAAAAGAGATGCCACTA-GTTGTGGACTTTGAAGAAAAA
* *
24442 AGATTGCCACTGAGTCATGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGG--G-AAG
1 AGA-TGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGAC-TTGGAAGAAAA
* * * * **
24504 GGATGCCTCTGAGTCGTAGACTTTGAGAAGAGATTGCCACTGAGTCATGGACTTTGAAGAAAAA
64 GGATGCCACTGAGTCGTGGACTTAGAAAAGAGA-TGCCACT-AGTTGTGGACTTTGAAGAAAAA
24568 A
1 A
24569 AAGATGAAAA
Statistics
Matches: 222, Mismatches: 20, Indels: 20
0.85 0.08 0.08
Matches are distributed among these distances:
122 28 0.13
123 19 0.09
124 25 0.11
125 11 0.05
126 53 0.24
127 5 0.02
128 81 0.36
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (125 bp):
AGATGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTGGAAGAAAAGG
ATGCCACTGAGTCGTGGACTTAGAAAAGAGATGCCACTAGTTGTGGACTTTGAAGAAAAA
Found at i:24527 original size:92 final size:93
Alignment explanation
Indices: 24172--24566 Score: 428
Period size: 92 Copynumber: 4.2 Consensus size: 93
24162 GGCGCCACAA
* * * *
24172 AGTCGTGGACTTTG-GGAAGAGATGCCACTAAGTCGTGGACTTCGAAGAAAAGATGCCACTGAGT
1 AGTCGTGGACTTTGAAGAAAAGATGCCACTAAGTCGTGGACTTTGAAAAAAAGATGCCACTGAGT
* * *
24236 CATGGACTTGGAAGAAAAGGATGCCACTG
66 CGTGGACTTTGAAGAAGA-GATGCCACTG
* * * * *
24265 AGTCGTGGACTTAGAA-AAGAGATACCACTCAGTTGTGGACTTTGAAGAAAAAAGATGCCACTGA
1 AGTCGTGGACTTTGAAGAAAAGATGCCACTAAGTCGTGGACTTTG-A-AAAAAAGATGCCACTGA
24329 GTCGTGGACTTTGAAGAAAGAAGATGCCACTG
64 GTCGTGGACTTTGAAG-AAG-AGATGCCACTG
* *
24361 AGTCGTGGACTTGGAAGAAAAGAATGCCACTAAGTCGTGGA-TTT-AGAAAAGAGATGCCACT-A
1 AGTCGTGGACTTTGAAGAAAAG-ATGCCACTAAGTCGTGGACTTTGA-AAAAAAGATGCCACTGA
*
24423 GGTTGTGGACTTTG-AGAAGAGATTGCCACTG
64 -GTCGTGGACTTTGAAGAAGAGA-TGCCACTG
* * ** ** *
24454 AGTCATGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTG-GGAAGGGATGCCTCTGAGT
1 AGTCGTGGACTTTGAAGAAAAGATGCCACTAAGTCGTGGACTTTGAAAAAAAGATGCCACTGAGT
*
24518 CGTAGACTTTG-AGAAGAGATTGCCACTG
66 CGTGGACTTTGAAGAAGAGA-TGCCACTG
*
24546 AGTCATGGACTTTGAAGAAAA
1 AGTCGTGGACTTTGAAGAAAA
24567 AAAAGATGAA
Statistics
Matches: 264, Mismatches: 26, Indels: 25
0.84 0.08 0.08
Matches are distributed among these distances:
92 80 0.30
93 72 0.27
94 4 0.02
95 58 0.22
96 27 0.10
97 8 0.03
98 15 0.06
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.23
Consensus pattern (93 bp):
AGTCGTGGACTTTGAAGAAAAGATGCCACTAAGTCGTGGACTTTGAAAAAAAGATGCCACTGAGT
CGTGGACTTTGAAGAAGAGATGCCACTG
Found at i:25229 original size:13 final size:13
Alignment explanation
Indices: 25211--25235 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25201 AAAGATCAAT
25211 GTATCGATACATG
1 GTATCGATACATG
25224 GTATCGATACAT
1 GTATCGATACAT
25236 TGAATAATGT
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:0.20, T:0.32
Consensus pattern (13 bp):
GTATCGATACATG
Found at i:27158 original size:19 final size:19
Alignment explanation
Indices: 27134--27196 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
27124 AAACAGTAAC
27134 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
27153 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
*
27166 TGTATCGTTACATAAGTGT
1 TGTATCGATACATAAGTGT
27185 TGTATCGATACA
1 TGTATCGATACA
27197 ATGTATCGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 10 0.28
15 2 0.06
17 2 0.06
19 22 0.61
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.37
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:27178 original size:32 final size:32
Alignment explanation
Indices: 27134--27208 Score: 141
Period size: 32 Copynumber: 2.3 Consensus size: 32
27124 AAACAGTAAC
27134 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
27166 TGTATCGTTACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
27198 TGTATCGATAC
1 TGTATCGATAC
27209 GAAGCTACTG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:28349 original size:20 final size:20
Alignment explanation
Indices: 28326--28398 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
28316 ACAATTCAAA
28326 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
28346 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
28367 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
28387 GTATCGATACAT
1 GTATCGATACAT
28399 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:28370 original size:21 final size:21
Alignment explanation
Indices: 28344--28419 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
28334 ACATGTTGCA
28344 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
28365 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
28385 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
28406 ATGTATCGATACAT
1 ATGTATCGATACAT
28420 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:28377 original size:41 final size:41
Alignment explanation
Indices: 28326--28419 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
28316 ACAATTCAAA
*
28326 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
28367 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
28408 GTATCGATACAT
1 GTATCGATACAT
28420 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:28476 original size:13 final size:13
Alignment explanation
Indices: 28458--28483 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
28448 TACAGCAAGT
28458 ATGTATCGATACA
1 ATGTATCGATACA
28471 ATGTATCGATACA
1 ATGTATCGATACA
28484 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:32566 original size:15 final size:15
Alignment explanation
Indices: 32546--32576 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
32536 TAAAAATGTC
*
32546 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
32561 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
32576 C
1 C
32577 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:34669 original size:20 final size:21
Alignment explanation
Indices: 34590--34668 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 21
34580 AATGTCCAAA
*
34590 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
34610 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
34635 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
34655 TTGTATCGATACAT
1 ATGTATCGATACAT
34669 TGTATCGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
20 31 0.65
24 3 0.06
25 14 0.29
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:34673 original size:13 final size:13
Alignment explanation
Indices: 34655--34693 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
34645 ACATTTTTCT
34655 TTGTATCGATACA
1 TTGTATCGATACA
34668 TTGTATCGATACA
1 TTGTATCGATACA
*
34681 CTGTATCGATACA
1 TTGTATCGATACA
34694 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:37157 original size:20 final size:20
Alignment explanation
Indices: 37134--37206 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
37124 ACAATTCAAA
37134 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
37154 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
37175 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
37195 GTATCGATACAT
1 GTATCGATACAT
37207 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:37178 original size:21 final size:21
Alignment explanation
Indices: 37152--37227 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
37142 ACATGTTGCA
37152 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
37173 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
37193 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
37214 ATGTATCGATACAT
1 ATGTATCGATACAT
37228 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:37185 original size:41 final size:41
Alignment explanation
Indices: 37134--37227 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
37124 ACAATTCAAA
*
37134 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
37175 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
37216 GTATCGATACAT
1 GTATCGATACAT
37228 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:37284 original size:13 final size:13
Alignment explanation
Indices: 37266--37291 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37256 TACAGCAAGT
37266 ATGTATCGATACA
1 ATGTATCGATACA
37279 ATGTATCGATACA
1 ATGTATCGATACA
37292 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:42654 original size:20 final size:20
Alignment explanation
Indices: 42629--42666 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
42619 ATAAATGTTC
42629 ATTGTATCAATACATGCATA
1 ATTGTATCAATACATGCATA
*
42649 ATTGTATCGATACATGCA
1 ATTGTATCAATACATGCA
42667 ACTGGCAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (20 bp):
ATTGTATCAATACATGCATA
Found at i:42718 original size:20 final size:19
Alignment explanation
Indices: 42693--42746 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 19
42683 CTACCACTAT
42693 TTGTATCGATACATG-GCACA
1 TTGTATCGATACATGAG-A-A
42713 TTGTATCGATACATGAAGAA
1 TTGTATCGATACATG-AGAA
42733 TTGTATCGATACAT
1 TTGTATCGATACAT
42747 TGCCTCAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 30 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (19 bp):
TTGTATCGATACATGAGAA
Found at i:45533 original size:35 final size:35
Alignment explanation
Indices: 45487--45558 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 35
45477 CTAGAGACAA
*
45487 GAGCTTATTCTCAGAAATCAAATCAAATA-AAGGTG
1 GAGCTTATTCTCAAAAATCAAATCAAA-AGAAGGTG
45522 GAGCTTATTCTCAAAAATCAAATCAAAAGAAGGTG
1 GAGCTTATTCTCAAAAATCAAATCAAAAGAAGGTG
45557 GA
1 GA
45559 TGTGTCACCT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
34 1 0.03
35 34 0.97
ACGTcount: A:0.44, C:0.14, G:0.18, T:0.24
Consensus pattern (35 bp):
GAGCTTATTCTCAAAAATCAAATCAAAAGAAGGTG
Found at i:51318 original size:19 final size:20
Alignment explanation
Indices: 51294--51349 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 20
51284 TGTATCAATA
*
51294 CATTGTATCGATACATG-TT
1 CATTGTATCGATACATGCAT
51313 CATTGTATCGATACATGCAT
1 CATTGTATCGATACATGCAT
*
51333 AATTGTATCGATACATG
1 CATTGTATCGATACATG
51350 AAACTGGCAG
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (20 bp):
CATTGTATCGATACATGCAT
Found at i:55084 original size:20 final size:20
Alignment explanation
Indices: 55031--55087 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
55021 GTTGGGCATA
* *
55031 ATGTATCGATACAATTCTTC
1 ATGTATCGATACATTTCTCC
55051 ATGTATCGATACATTGTC-CC
1 ATGTATCGATACATT-TCTCC
55071 ATGTATCGATACATTTC
1 ATGTATCGATACATTTC
55088 ACTTAGGGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 2 0.06
20 30 0.88
21 2 0.06
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTTCTCC
Found at i:55151 original size:13 final size:13
Alignment explanation
Indices: 55133--55159 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
55123 ACAATGGAGT
55133 ATGTATCGATACA
1 ATGTATCGATACA
55146 ATGTATCGATACA
1 ATGTATCGATACA
55159 A
1 A
55160 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:59225 original size:163 final size:164
Alignment explanation
Indices: 58993--59410 Score: 488
Period size: 165 Copynumber: 2.5 Consensus size: 164
58983 ATTAATTTTT
* ** * * *
58993 TTGAAATTTCTTCTATTTGCAAAATACAAAGTTTTTTACTCCGTAAATGTTTTCAAGGGTAATTT
1 TTGAAATTT-TTCTATTTTCAAAATACGCAGTTTTCTACTCC-TAAATATTTTCGAGGG--ATTT
*
59058 TTCTTAGTTTTTAATTTTTAAAATTAATAAAATATTATTATTTAATTCATATT-AA-TCAATTTT
62 TTCTT-GTTTTTAATTTTTAAAATTAATAAAATATTATTATTTAATTAATATTAAATTC-ATTTT
*
59121 CAAAAATTTATTTATTTTCAAGAG-TTTTCATTTTTTT-C
125 CAAAAATTTATTCATTTTCAAGAGTTTTTCATTTTTTTCC
* * * *
59159 TTGAAATTTTTTTATTTTCGAAATATGGAGTTTTCTACTCCTAAATATTTTCGGAGGGATTTTTC
1 TTGAAATTTTTCTATTTTCAAAATACGCAGTTTTCTACTCCTAAATATTTTC-GAGGGATTTTTC
* * * * * *
59224 TTGGTTTTTAATTTTCAAAACTCATCAAATATTATTATTTAATTAATATTAAATTCGTTTTTAAA
65 TT-GTTTTTAATTTTTAAAATTAATAAAATATTATTATTTAATTAATATTAAATTCATTTTCAAA
* *
59289 AATTTATTCATTTTCATGAGTTTTTCGTTTTTTTCC
129 AATTTATTCATTTTCAAGAGTTTTTCATTTTTTTCC
* * *
59325 TTGAAATTTTTCTATTTTCAAAATACGCAGTTTTCTACTTCGTAAATCTTTT-TAGAGGA-TTTT
1 TTGAAATTTTTCTATTTTCAAAATACGCAGTTTTCTAC-TCCTAAATATTTTCGAG-GGATTTTT
59388 CTTGATTTTTAATTTTTAAAATT
64 CTTG-TTTTTAATTTTTAAAATT
59411 TCATAGTAAA
Statistics
Matches: 215, Mismatches: 29, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
163 51 0.24
164 38 0.18
165 68 0.32
166 47 0.22
167 11 0.05
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.52
Consensus pattern (164 bp):
TTGAAATTTTTCTATTTTCAAAATACGCAGTTTTCTACTCCTAAATATTTTCGAGGGATTTTTCT
TGTTTTTAATTTTTAAAATTAATAAAATATTATTATTTAATTAATATTAAATTCATTTTCAAAAA
TTTATTCATTTTCAAGAGTTTTTCATTTTTTTCC
Found at i:59434 original size:144 final size:143
Alignment explanation
Indices: 59281--59559 Score: 370
Period size: 143 Copynumber: 1.9 Consensus size: 143
59271 ATTAAATTCG
* * *
59281 TTTTTAAAAATTTATTCATTTTCATG-AGTTTTTCGTTTTTTTCCTTGAAATTTT-TCTATTTTC
1 TTTTTAAAAATTCATTCATTTTCATGCA-TTTTTC-ATTTTTTCCTTAAAATTTTCTCTATTTTC
* *
59344 AAA-ATACGCAGTTTTCTACTTCGTAAATCTTTTTAG-AGGA-TTTTCTTGATTTTTAATTTTTA
64 AAATATA-G-AGTTTTCTACTCCGTAAATCTTTTCAGAAGGATTTTTCTTGATTTTTAATTTTTA
59406 AAATTTCATAGTAAATTA
127 AAA-TTCATAGTAAATTA
* * *
59424 TTTTTCAAAAATTCATTCATTTTCATGCATTTTTCATTTTTTCCTTAAAATTTTCTTTGTTTTGA
1 TTTTT-AAAAATTCATTCATTTTCATGCATTTTTCATTTTTTCCTTAAAATTTTCTCTATTTTCA
* * *
59489 AATATAGAGTTTTCTACTCCGTAAATGTTTTCAGAAGGATTTTTCTTGGTTTTTAATTTTTCAAA
65 AATATAGAGTTTTCTACTCCGTAAATCTTTTCAGAAGGATTTTTCTTGATTTTTAATTTTTAAAA
59554 TTCATA
130 TTCATA
59560 AAATACTCTT
Statistics
Matches: 119, Mismatches: 11, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
143 46 0.39
144 46 0.39
145 27 0.23
ACGTcount: A:0.27, C:0.11, G:0.09, T:0.53
Consensus pattern (143 bp):
TTTTTAAAAATTCATTCATTTTCATGCATTTTTCATTTTTTCCTTAAAATTTTCTCTATTTTCAA
ATATAGAGTTTTCTACTCCGTAAATCTTTTCAGAAGGATTTTTCTTGATTTTTAATTTTTAAAAT
TCATAGTAAATTA
Found at i:59698 original size:166 final size:165
Alignment explanation
Indices: 59410--59723 Score: 373
Period size: 166 Copynumber: 1.9 Consensus size: 165
59400 TTTTTAAAAT
* * * **
59410 TTCATAGTAAATTATTTTTCAAAAATTCATTCATTTTCATGCATTTTTCATTTTTTCCTTAAAAT
1 TTCATAGTAAATTAGTTTTAAAAAATTAATTCATTTTCATGCATTTTGAATTTTTTCCTTAAAAT
* * * **
59475 TTTCTTTGTTTTGAAATATAGAGTTTTCTACTCCGTAAATGTTTTCAGAAGGATTTTTCTTGGTT
66 TTTCTTTGTTTTAAAAAATAGAGTTTTCTACTCCATAAATGTTTTCAGAAGGATTTTTC-TCATT
* *
59540 TTTAATTTTTCAAATTCATAAAATACTCTTATTTAA
130 TTAAATTTTTAAAATTCATAAAATACTCTTATTTAA
* * ** *
59576 TTCATATTAAATTAGTTTTAAAAAATTAATTTATTTTCATGGGTTTTGAATTTTTTTCTT-AAAT
1 TTCATAGTAAATTAGTTTTAAAAAATTAATTCATTTTCATGCATTTTGAATTTTTTCCTTAAAAT
* * * * *
59640 TTTTTTTGTTTTTAAAAAATCA-AGTTTTTTATTCTATAAATGTTTTC-GAGGAGATTTTTCTCA
66 TTTCTTTG-TTTTAAAAAAT-AGAGTTTTCTACTCCATAAATGTTTTCAGAAG-GATTTTTCTCA
59703 TTTTAAATTTTTAAAATTCAT
128 TTTTAAATTTTTAAAATTCAT
59724 CTAATATTGT
Statistics
Matches: 123, Mismatches: 22, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
165 34 0.28
166 88 0.72
167 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.08, T:0.53
Consensus pattern (165 bp):
TTCATAGTAAATTAGTTTTAAAAAATTAATTCATTTTCATGCATTTTGAATTTTTTCCTTAAAAT
TTTCTTTGTTTTAAAAAATAGAGTTTTCTACTCCATAAATGTTTTCAGAAGGATTTTTCTCATTT
TAAATTTTTAAAATTCATAAAATACTCTTATTTAA
Found at i:59714 original size:310 final size:308
Alignment explanation
Indices: 59117--59720 Score: 747
Period size: 310 Copynumber: 2.0 Consensus size: 308
59107 TATTAATCAA
* * * *
59117 TTTTCAAAAATTTATTTATTTTCAAGAGTTTTCATTTTTTTCTTGAAATTTTTTTATTTTCGAAA
1 TTTTCAAAAATTCATTCATTTTCAAGAGTTTTCATTTTTTCCTTAAAATTTTTTTATTTTCGAAA
* * *
59182 TATGGAGTTTTCTACTCCTAAATATTTTCGGAGGGATTTTTCTTGGTTTTTAATTTTCAAAACTC
66 TATAGAGTTTTCTACTCCTAAATATTTTCAGAAGGATTTTTCTTGGTTTTTAATTTTCAAAACTC
* * * * *
59247 ATCAAATATTATTATTTAATTAATATTAAATTCGTTTTTAAAAATTTATTCATTTTCATGAGTTT
131 ATAAAATACTATTATTTAATTAATATTAAATTAGTTTTAAAAAATTAATTCATTTTCATGAGTTT
*** * * *
59312 TTCGTTTTTTTCCTTGAAATTTTTCTATTTTCAAAATACGCAGTTTTCTACTTCGTAAATCTTTT
196 TGAATTTTTTTCCTTGAAATTTTTCTATTTTCAAAAAACGAAGTTTTCTACTTCATAAATCTTTT
* * *
59377 TAGAGGATTTTCTTGATTTTTAATTTTTAAAATTTCATAGTAAATTAT
261 GAGAGGATTTTCTTCATTTTAAATTTTTAAAATTTCATAGTAAATTAT
* * *
59425 TTTTCAAAAATTCATTCATTTTCATGCATTTTTCATTTTTTCCTTAAAATTTTCTTTGTTTT-GA
1 TTTTCAAAAATTCATTCATTTTCAAG-AGTTTTCATTTTTTCCTTAAAATTTT-TTTATTTTCGA
*
59489 AATATAGAGTTTTCTACTCCGTAAATGTTTTCAGAAGGATTTTTCTTGGTTTTTAATTTTTC-AA
64 AATATAGAGTTTTCTACTCC-TAAATATTTTCAGAAGGATTTTTCTTGGTTTTTAA-TTTTCAAA
* * * * *
59553 ATTCATAAAATACTCTTATTTAATTCATATTAAATTAGTTTTAAAAAATTAATTTATTTTCATGG
127 ACTCATAAAATACTATTATTTAATTAATATTAAATTAGTTTTAAAAAATTAATTCATTTTCATGA
* * * *
59618 GTTTTGAATTTTTTT-CTT-AAATTTTTTTTGTTTTTAAAAAATC-AAGTTTTTTA-TTCTATAA
192 GTTTTGAATTTTTTTCCTTGAAA-TTTTTCTATTTTCAAAAAA-CGAAGTTTTCTACTTC-ATAA
*
59679 ATGTTTTCGAG-GAGATTTT-TCTCATTTTAAATTTTTAAAATT
254 ATCTTTT-GAGAG-GATTTTCT-TCATTTTAAATTTTTAAAATT
59721 CATCTAATAT
Statistics
Matches: 251, Mismatches: 35, Indels: 18
0.83 0.12 0.06
Matches are distributed among these distances:
308 29 0.12
309 81 0.32
310 136 0.54
311 5 0.02
ACGTcount: A:0.29, C:0.10, G:0.08, T:0.53
Consensus pattern (308 bp):
TTTTCAAAAATTCATTCATTTTCAAGAGTTTTCATTTTTTCCTTAAAATTTTTTTATTTTCGAAA
TATAGAGTTTTCTACTCCTAAATATTTTCAGAAGGATTTTTCTTGGTTTTTAATTTTCAAAACTC
ATAAAATACTATTATTTAATTAATATTAAATTAGTTTTAAAAAATTAATTCATTTTCATGAGTTT
TGAATTTTTTTCCTTGAAATTTTTCTATTTTCAAAAAACGAAGTTTTCTACTTCATAAATCTTTT
GAGAGGATTTTCTTCATTTTAAATTTTTAAAATTTCATAGTAAATTAT
Found at i:60134 original size:14 final size:14
Alignment explanation
Indices: 60115--60151 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
60105 TTGGGCAAGT
60115 AAAAAAAGAGAGAA
1 AAAAAAAGAGAGAA
60129 AAAAAAAGAGAGAA
1 AAAAAAAGAGAGAA
*
60143 GAAAAAAGA
1 AAAAAAAGA
60152 AAAAATAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (14 bp):
AAAAAAAGAGAGAA
Found at i:60140 original size:16 final size:16
Alignment explanation
Indices: 60115--60166 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
60105 TTGGGCAAGT
60115 AAAAAAAGAG-AGAAA
1 AAAAAAAGAGAAGAAA
60130 AAAAAAGAGAGAAGAAA
1 AAAAAA-AGAGAAGAAA
60147 AAAGAAAA-A-ATAGAAA
1 AAA-AAAAGAGA-AGAAA
60163 AAAA
1 AAAA
60167 CTAGTTAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
15 8 0.24
16 13 0.39
17 9 0.27
18 3 0.09
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (16 bp):
AAAAAAAGAGAAGAAA
Found at i:60166 original size:12 final size:12
Alignment explanation
Indices: 60115--60156 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
60105 TTGGGCAAGT
*
60115 AAAAAAAGAGAG
1 AAAAAAAAAGAG
60127 AAAAAAAAAGAG
1 AAAAAAAAAGAG
60139 AGAAGAAAAAAGA-
1 A-AA-AAAAAAGAG
60152 AAAAA
1 AAAAA
60157 TAGAAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 2 0.07
12 14 0.52
13 3 0.11
14 8 0.30
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAGAG
Found at i:63236 original size:35 final size:36
Alignment explanation
Indices: 63187--63283 Score: 103
Period size: 35 Copynumber: 2.8 Consensus size: 36
63177 CCCTAAAAAA
*
63187 AAAAAT-CCTT-AAGAGAGGTTTTAGAACA-CTTTG
1 AAAAATACCTTCAAGAGAGGTTTTAGAAAAGCTTTG
** * * *
63220 AAAAATTTCTTCAAGAGTGGTTTT-GAAAAGGTTTT
1 AAAAATACCTTCAAGAGAGGTTTTAGAAAAGCTTTG
63255 AAAAATACCTTCAAGAGAGGTTTCTAGAA
1 AAAAATACCTTCAAGAGAGGTTT-TAGAA
63284 TCCTTGGAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
33 6 0.12
34 7 0.14
35 34 0.67
36 1 0.02
37 3 0.06
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (36 bp):
AAAAATACCTTCAAGAGAGGTTTTAGAAAAGCTTTG
Found at i:65576 original size:989 final size:989
Alignment explanation
Indices: 64127--66097 Score: 3569
Period size: 989 Copynumber: 2.0 Consensus size: 989
64117 TCAATCATGT
*
64127 ATCATTTCTGCAGGTGGTTTTTATTCTTTTATAAAAAATCCATGCCCTGATTTTTCATATTTTGT
1 ATCATTTCTGCAGGTGGTTTCTATTCTTTTATAAAAAATCCATGCCCTGATTTTTCATATTTTGT
64192 TTTCTTATATAAGGAAGAGGATTCATATTACTTTTGTCCCTTAATTCAAGAGAGCATATCTTTTA
66 TTTCTTATATAAGGAAGAGGATTCATATTACTTTTGTCCCTTAATTCAAGAGAGCATATCTTTTA
*
64257 CTCATAACATTATTTTCTTAAAACAATCATTCCTTTGAAAAATATATTTTACTTAAAATGCTTAT
131 CTCATAACATCATTTTCTTAAAACAATCATTCCTTTGAAAAATATATTTTACTTAAAATGCTTAT
*
64322 TTAGGGGAAATTTTTGGGTTTTAAAACATTTCCTCCAGTAGCATATAATATTCAAAGTTCTTGAA
196 TTAGGGGAAATTTTTGGGTTTTAAAACATTTCCTCCAGTAGCATATAATATTCAAAGATCTTGAA
*
64387 GACCAATGATCCATTGCTAGAAAATTTCCTAAATAGTGATTTGGACTTTTAAAAATTTGGTTGAA
261 GACCAATGATCCATTGCTAGAAAATTTCCTAAATAGTGATTTGGACTTTTAAAAATTTGGCTGAA
*
64452 AGACTTAACACAAAAGGAGTTTCAATTGGTATAAGAAGATTATTAAAAGAAATGAAACATATGCC
326 AGACTTAACACAAAAAGAGTTTCAATTGGTATAAGAAGATTATTAAAAGAAATGAAACATATGCC
* *
64517 TTATTCTCTTAGACTCTCGAGTGGATTAGGCTTTACAAAACATGGATTCCGCATGAATTACACAA
391 CTATTCTCTTAGACTCTCGAGTGGATTAGGCTTTACAAAACATGGATTCCCCATGAATTACACAA
*
64582 AATTGATATTATCATAAGTTTCTTTTTTAATAACCTTATTGGCACTAAGAT-AGGTTATTATAAG
456 AATTGATATTATCATAAGTTTCTTTTTTAATAACCTTATTGGCACTAAGATCA-GCTATTATAAG
64646 TTCAGATTATAAGATTAATTTAGGGTAGAAAAGTCTAATTTTCTAAGTCAAACCCTCTAGATGAG
520 TTCAGATTATAAGATTAATTTAGGGTAGAAAAGTCTAATTTTCTAAGTCAAACCCTCTAGATGAG
64711 AGCCAACACCTTAGGACAGTTAGGAAATTTTTGGTGTCCCTTGATTTTTTTCTTCTTGATAAAAT
585 AGCCAACACCTTAGGACAGTTAGGAAATTTTTGGTGTCCCTTGATTTTTTTCTTCTTGATAAAAT
64776 CTTGGTAATCTTATAAGTGACACCAAAAATTTTTGT-ATTTTGCTTTAGACTGCTTGTTTTCAGG
650 CTTGGTAATCTTATAAGTGACACC-AAAATTTTTGTCATTTTGCTTTAGACTGCTTGTTTTCAGG
64840 TTTTCACTTTAGAGCTCCATTTTTTTCCATTTTTTTCATTTCTTTTTTTTTAA-TGTTTTTTTCT
714 TTTTCACTTTAGAGCTCCA-TTTTTTCCATTTTTTTCATTTCTTTTTTTTTAATTGTTTTTTTCT
* * *
64904 TTGCTTCATCATGCTATTAGGAATACAGAAAATCTATCCTAAAAACAATTTCACAAAGAATGGGC
778 TTCCTTCATCATGCTATTAGAAATACACAAAATCTATCCTAAAAACAATTTCACAAAGAATGGGC
64969 TTATCAACTCAAATAACTACACTTGATGAAAATAGACTTTTCGAGGGACATAATGTAGATCATGG
843 TTATCAACTCAAATAACTACACTTGATGAAAATAGACTTTTCGAGGGACATAATGTAGATCATGG
65034 TTCAGGGTTTAAAAAGAAAA-AGATATATAGGCTTAAATCGAATGTTTAAAGGTGATTAATCAAG
908 TTCAGGGTTTAAAAA-AAAAGAGATATATAGGCTTAAATCGAATGTTTAAAGGTGATTAATCAAG
65098 GATCATTTCTTTTATAGA
972 GATCATTTCTTTTATAGA
*
65116 ATCATTTCTTCAGGTGGTTTCTATTCTTTTATAAAAAATCCATGCCCT-AGTTTTTCATATTTTG
1 ATCATTTCTGCAGGTGGTTTCTATTCTTTTATAAAAAATCCATGCCCTGA-TTTTTCATATTTTG
* *
65180 TTTTCTTATTTAAGGAAGAGGATTCATATTACTTTTGTCCCTTAATTCAGGAGAGCATATCTTTT
65 TTTTCTTATATAAGGAAGAGGATTCATATTACTTTTGTCCCTTAATTCAAGAGAGCATATCTTTT
*
65245 ACTCGTAACATCATTTTCTT-AAACAATCATTCCTTTGAAAAATATATTTTACTTAAAATGCTTA
130 ACTCATAACATCATTTTCTTAAAACAATCATTCCTTTGAAAAATATATTTTACTTAAAATGCTTA
*
65309 TTTA-GGGAATATTTTTGGGTTTTAAAACATTTCCTCCTGTAGCATATAATATTCAAAGATCTTG
195 TTTAGGGGAA-ATTTTTGGGTTTTAAAACATTTCCTCCAGTAGCATATAATATTCAAAGATCTTG
65373 AAGACCAATGATCCATTGCTAGAAAATTTCCTAAATAGTGATTTGGACTTTTAAAAAATTTGGCT
259 AAGACCAATGATCCATTGCTAGAAAATTTCCTAAATAGTGATTTGGACTTTT-AAAAATTTGGCT
* *
65438 GAAAGACTTAACACAAAAAGAGTTTCAATTGGTCTAAGAAGATTATTAAAAGAAATGAAGCATAT
323 GAAAGACTTAACACAAAAAGAGTTTCAATTGGTATAAGAAGATTATTAAAAGAAATGAAACATAT
*
65503 GCCCTATTCTCTTAGGCTCTCGAGTGGATTAGGCTTTACAAAACATGGATTCCCCATGAATTACA
388 GCCCTATTCTCTTAGACTCTCGAGTGGATTAGGCTTTACAAAACATGGATTCCCCATGAATTACA
65568 CAAAATTGATATTATCATAAGTTTCTTTTTTAATAACCTTATTGGCACTAAGATCAGCTATTATA
453 CAAAATTGATATTATCATAAGTTTCTTTTTTAATAACCTTATTGGCACTAAGATCAGCTATTATA
* *
65633 AGTTCAGATTATAAGGTTAATTTAGGGTAGAAAAGTCTAATTTTCTGAGTCAAACCCTCTAGATG
518 AGTTCAGATTATAAGATTAATTTAGGGTAGAAAAGTCTAATTTTCTAAGTCAAACCCTCTAGATG
*
65698 AGAGCCAACACCTTAGGACATTTAGGAAATTTTTGGTGTCCCTTGATTTTTTTCTTCTTGATAAA
583 AGAGCCAACACCTTAGGACAGTTAGGAAATTTTTGGTGTCCCTTGATTTTTTTCTTCTTGATAAA
* *
65763 ATCTTGGTAATCTTATAAGTGACACCGAAATTTTTTTCATTTTGCTTTAGACTGCTTGTTTTCAG
648 ATCTTGGTAATCTTATAAGTGACACCAAAATTTTTGTCATTTTGCTTTAGACTGCTTGTTTTCAG
* *
65828 GTTTTCACTTTAGAGCTCCATTTTTTCCTTTTTTTTCATTTCTTTTTTTTTAATTTTTTTTTTCT
713 GTTTTCACTTTAGAGCTCCATTTTTTCCATTTTTTTCATTTCTTTTTTTTTAATTGTTTTTTTCT
* *
65893 TTCCTTCATCATGCTATTAGAAATACTCAAAATGTATCCTAAAAACAATTTCACAAAGAATGGGC
778 TTCCTTCATCATGCTATTAGAAATACACAAAATCTATCCTAAAAACAATTTCACAAAGAATGGGC
*
65958 TTATCAACTCAAATAACTACACTTGATGAAAATAGACTTTTCGAGGTACATAATGTAGATCATGG
843 TTATCAACTCAAATAACTACACTTGATGAAAATAGACTTTTCGAGGGACATAATGTAGATCATGG
66023 TTCAGGGTTTAAAAAAAAAGAGATATATAGGCTTAAATCGAATGTTTAAAGGTGATTAATCAAGG
908 TTCAGGGTTTAAAAAAAAAGAGATATATAGGCTTAAATCGAATGTTTAAAGGTGATTAATCAAGG
66088 ATCATTTCTT
973 ATCATTTCTT
66098 CCTATGAAGG
Statistics
Matches: 946, Mismatches: 29, Indels: 14
0.96 0.03 0.01
Matches are distributed among these distances:
987 5 0.01
988 198 0.21
989 742 0.78
990 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (989 bp):
ATCATTTCTGCAGGTGGTTTCTATTCTTTTATAAAAAATCCATGCCCTGATTTTTCATATTTTGT
TTTCTTATATAAGGAAGAGGATTCATATTACTTTTGTCCCTTAATTCAAGAGAGCATATCTTTTA
CTCATAACATCATTTTCTTAAAACAATCATTCCTTTGAAAAATATATTTTACTTAAAATGCTTAT
TTAGGGGAAATTTTTGGGTTTTAAAACATTTCCTCCAGTAGCATATAATATTCAAAGATCTTGAA
GACCAATGATCCATTGCTAGAAAATTTCCTAAATAGTGATTTGGACTTTTAAAAATTTGGCTGAA
AGACTTAACACAAAAAGAGTTTCAATTGGTATAAGAAGATTATTAAAAGAAATGAAACATATGCC
CTATTCTCTTAGACTCTCGAGTGGATTAGGCTTTACAAAACATGGATTCCCCATGAATTACACAA
AATTGATATTATCATAAGTTTCTTTTTTAATAACCTTATTGGCACTAAGATCAGCTATTATAAGT
TCAGATTATAAGATTAATTTAGGGTAGAAAAGTCTAATTTTCTAAGTCAAACCCTCTAGATGAGA
GCCAACACCTTAGGACAGTTAGGAAATTTTTGGTGTCCCTTGATTTTTTTCTTCTTGATAAAATC
TTGGTAATCTTATAAGTGACACCAAAATTTTTGTCATTTTGCTTTAGACTGCTTGTTTTCAGGTT
TTCACTTTAGAGCTCCATTTTTTCCATTTTTTTCATTTCTTTTTTTTTAATTGTTTTTTTCTTTC
CTTCATCATGCTATTAGAAATACACAAAATCTATCCTAAAAACAATTTCACAAAGAATGGGCTTA
TCAACTCAAATAACTACACTTGATGAAAATAGACTTTTCGAGGGACATAATGTAGATCATGGTTC
AGGGTTTAAAAAAAAAGAGATATATAGGCTTAAATCGAATGTTTAAAGGTGATTAATCAAGGATC
ATTTCTTTTATAGA
Found at i:65874 original size:15 final size:15
Alignment explanation
Indices: 65851--65890 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
65841 AGCTCCATTT
* *
65851 TTTCCTTTTTTTTCA
1 TTTCTTTTTTTTTAA
65866 TTTCTTTTTTTTTAA
1 TTTCTTTTTTTTTAA
65881 TTT-TTTTTTT
1 TTTCTTTTTTT
65891 CTTTCCTTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 7 0.30
15 16 0.70
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTCTTTTTTTTTAA
Found at i:69981 original size:166 final size:165
Alignment explanation
Indices: 69697--70088 Score: 416
Period size: 167 Copynumber: 2.4 Consensus size: 165
69687 AAATAATTTT
* * ** * * * * **
69697 AATTTTTCAAAACAAATTAAATGGGAGTTTAATAACAATATTAGATGAATTTTAAAAATTTTAAA
1 AATTTTTCAAAACTAATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAA
** * * * * *
69762 CCGAGAAAAATCTCCACGAAAACATTTATGGAATAAAAAATTTGATTTTTCAAAAA-TAGAGAAA
66 CAAAAAAAAATCTCCACGAAAACATTTACGGAATAAAAAATCTGATATTTCAAAAACAAG-GAAA
*
69826 TTTCAA-AGAAAAAATCAAAACTCG-TGAAAATAAATA
130 TTTCAAGA-AAAAAATCAAAAAT-GATGAAAATAAATA
* * * *
69862 AATTTTTCAAAACTGATTTAGTATGAATTAAATGATGATATTTGATGAATTTTAAAAATTAAAAA
1 AATTTTTCAAAACTAATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAA
* * *
69927 CAAAAAAAAAATC-CCTCTGAAAACATTTACGGAGTAGAAAACTCT-ATATTTCAAAAACAAGGA
66 C-AAAAAAAAATCTCCAC-GAAAACATTTACGGAATA-AAAAATCTGATATTTCAAAAACAAGGA
* * *
69990 AATTTCAAGAAAAAAATGAAAAATGAATGAAAATGAATG
128 AATTTCAAGAAAAAAATCAAAAATG-ATGAAAATAAATA
* *
70029 AATTTTTGAAAACTAATTTAATATGAATTAAATAATAATATTTGATAAATTTTAAAAATT
1 AATTTTTCAAAACTAATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATT
70089 TTGGATTATT
Statistics
Matches: 186, Mismatches: 34, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
165 56 0.30
166 57 0.31
167 73 0.39
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (165 bp):
AATTTTTCAAAACTAATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAA
CAAAAAAAAATCTCCACGAAAACATTTACGGAATAAAAAATCTGATATTTCAAAAACAAGGAAAT
TTCAAGAAAAAAATCAAAAATGATGAAAATAAATA
Found at i:73909 original size:13 final size:13
Alignment explanation
Indices: 73891--73916 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
73881 CAATTTTTTG
73891 TGTATCGATACAT
1 TGTATCGATACAT
73904 TGTATCGATACAT
1 TGTATCGATACAT
73917 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:76462 original size:13 final size:13
Alignment explanation
Indices: 76444--76469 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
76434 ATAATCACCC
76444 TGTATCGATACAA
1 TGTATCGATACAA
76457 TGTATCGATACAA
1 TGTATCGATACAA
76470 AGAAAAATGT
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:78570 original size:15 final size:15
Alignment explanation
Indices: 78550--78580 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
78540 ATTTCGTTTG
*
78550 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
78565 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
78580 G
1 G
78581 GACATTTTTA
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:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:80413 original size:21 final size:21
Alignment explanation
Indices: 80384--80428 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
80374 AAGTTTTCAT
*
80384 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
80404 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
80426 TTT
1 TTT
80429 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:82654 original size:13 final size:13
Alignment explanation
Indices: 82636--82661 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
82626 CAATTTTTTG
82636 TGTATCGATACAT
1 TGTATCGATACAT
82649 TGTATCGATACAT
1 TGTATCGATACAT
82662 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:82765 original size:20 final size:20
Alignment explanation
Indices: 82742--82795 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
82732 CATTGCAACA
*
82742 TGTATCAATACTTTGAATTG
1 TGTATCGATACTTTGAATTG
82762 TGTATCGATACTTTGAATTG
1 TGTATCGATACTTTGAATTG
82782 TGTATCGATACTTT
1 TGTATCGATACTTT
82796 TAAGGATTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.11, G:0.17, T:0.46
Consensus pattern (20 bp):
TGTATCGATACTTTGAATTG
Found at i:84530 original size:13 final size:13
Alignment explanation
Indices: 84512--84537 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
84502 TACAGCAAGT
84512 ATGTATCGATACA
1 ATGTATCGATACA
84525 ATGTATCGATACA
1 ATGTATCGATACA
84538 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:86788 original size:21 final size:21
Alignment explanation
Indices: 86755--86799 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
86745 TTGCAAGTTG
*
86755 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
86777 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
86797 AAA
1 AAA
86800 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:88623 original size:15 final size:15
Alignment explanation
Indices: 88603--88633 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
88593 TAAAAATGTC
*
88603 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
88618 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
88633 C
1 C
88634 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:90725 original size:20 final size:20
Alignment explanation
Indices: 90646--90725 Score: 70
Period size: 20 Copynumber: 3.8 Consensus size: 20
90636 AATGTCCAAA
*
90646 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
90666 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
*
90691 AGGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
90711 TTGTATCGATACATT
1 ATGTATCGATACATT
90726 GTATCGATAC
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
20 30 0.64
24 1 0.02
25 16 0.34
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:90729 original size:13 final size:13
Alignment explanation
Indices: 90711--90749 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
90701 ACATTTTTCT
90711 TTGTATCGATACA
1 TTGTATCGATACA
90724 TTGTATCGATACA
1 TTGTATCGATACA
90737 TTGTATCGATACA
1 TTGTATCGATACA
90750 GGGTGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:93202 original size:20 final size:20
Alignment explanation
Indices: 93179--93231 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
93169 ACAATTCAAA
93179 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
93199 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
93219 GTATCGATACATG
1 GTATCGATACATG
93232 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:93308 original size:13 final size:13
Alignment explanation
Indices: 93290--93315 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
93280 TACAGCAAGT
93290 ATGTATCGATACA
1 ATGTATCGATACA
93303 ATGTATCGATACA
1 ATGTATCGATACA
93316 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
Done.