Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1101
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: 279791
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.31
File 1 of 2
Found at i:11632 original size:20 final size:20
Alignment explanation
Indices: 11607--11660 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
11597 ATTTGCCTGC
*
11607 ATGTATCGATACTTTTTATA
1 ATGTATCGATACATTTTATA
11627 ATGTATCGATACATTTTATA
1 ATGTATCGATACATTTTATA
*
11647 ATGTTTCGATACAT
1 ATGTATCGATACAT
11661 CTGGGCAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.46
Consensus pattern (20 bp):
ATGTATCGATACATTTTATA
Found at i:11672 original size:72 final size:72
Alignment explanation
Indices: 11555--11690 Score: 236
Period size: 72 Copynumber: 1.9 Consensus size: 72
11545 ATTTGCCTGC
*
11555 ATGTATCGATACATTGAATAGTGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACT
1 ATGTATCGATACATTGAATAATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACT
11620 TTTTATA
66 TTTTATA
** *
11627 ATGTATCGATACATTTTATAATGTTTCGATACATCTGGGCAAATTTGCCTGCATGTATCGATAC
1 ATGTATCGATACATTGAATAATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATAC
11691 AAAGATCAGT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 60 1.00
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.38
Consensus pattern (72 bp):
ATGTATCGATACATTGAATAATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACT
TTTTATA
Found at i:11704 original size:72 final size:72
Alignment explanation
Indices: 11555--11717 Score: 220
Period size: 72 Copynumber: 2.3 Consensus size: 72
11545 ATTTGCCTGC
** *
11555 ATGTATCGATACATTGAATAGTGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACT
1 ATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACT
****
11620 TTTTATA
66 AAAGATA
*
11627 ATGTATCGATACATTTTATAATGTTTCGATACATCTGGGCAAATTTGCCTGCATGTATCGATAC-
1 ATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACT
11691 AAAGATCA
66 AAAGAT-A
* *
11699 GTGTATCGATACAATTTAT
1 ATGTATCGATACATTTTAT
11718 CGATACATTT
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
71 2 0.03
72 78 0.98
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (72 bp):
ATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACT
AAAGATA
Found at i:11802 original size:33 final size:33
Alignment explanation
Indices: 11765--11831 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
11755 AGTAGCTTAA
11765 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
11798 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
11831 A
1 A
11832 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:11805 original size:13 final size:13
Alignment explanation
Indices: 11787--11811 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11777 CAAAAAAATA
11787 TGTATCGATACAT
1 TGTATCGATACAT
11800 TGTATCGATACA
1 TGTATCGATACA
11812 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:15971 original size:19 final size:20
Alignment explanation
Indices: 15943--15995 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
15933 CATATCTAGA
15943 TGTATCGATACATGCTC-AT
1 TGTATCGATACATGCTCAAT
* **
15962 TGTATTGATACACACTCAAT
1 TGTATCGATACATGCTCAAT
15982 TGTATCGATACATG
1 TGTATCGATACATG
15996 AAACTGGCAG
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATGCTCAAT
Found at i:19369 original size:13 final size:13
Alignment explanation
Indices: 19351--19375 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19341 CATAAAATGT
19351 TGTATCGATACAA
1 TGTATCGATACAA
19364 TGTATCGATACA
1 TGTATCGATACA
19376 TATTTTTTGT
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:19391 original size:32 final size:33
Alignment explanation
Indices: 19331--19396 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
19321 TTCAACGATT
19331 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
** *
19364 TGTATCGATACAT-ATTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
19396 T
1 T
19397 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.57
33 13 0.43
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:19457 original size:13 final size:13
Alignment explanation
Indices: 19439--19463 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19429 ATTACTCACA
19439 TGTATCGATACAT
1 TGTATCGATACAT
19452 TGTATCGATACA
1 TGTATCGATACA
19464 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:19528 original size:52 final size:52
Alignment explanation
Indices: 19472--19592 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
19462 CACTGATCTT
*
19472 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
19524 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
19576 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
19593 TAACTTTTCA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:26514 original size:11 final size:10
Alignment explanation
Indices: 26493--26518 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
26483 AAGTAAACAC
26493 AAAAAACAAA
1 AAAAAACAAA
26503 AAAAAACAAA
1 AAAAAACAAA
26513 AAAAAA
1 AAAAAA
26519 GTGCAAAGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAACAAA
Found at i:27998 original size:35 final size:35
Alignment explanation
Indices: 27830--28300 Score: 471
Period size: 35 Copynumber: 13.8 Consensus size: 35
27820 ATTTTGTCTC
* *
27830 AAAGTCCACAACTCCGTGGCACTC-TTTTC-CTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTT
* * *
27863 AAAGCCCACAACTACGTGGCACTC-TTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTT
* * * *
27897 -AAGCCCACAACTCTGTGGCACTATTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTT
27931 -AAGCCCACAACTCCGTGGCACT-TTTTTC-TTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTT
* *
27963 AAAGCCCACAACTCTGTGGCACACTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTT
* *
27998 AAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTC
1 AAAGCCCACAACTCCGTGGCACTCTTTTT--CTTTTT
* * *
28035 AACGCCCACAACTCTGTGGCACACTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTT
28070 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTT--CTTTTT
* *
28107 AAAGCCCACAACTCCGTGGCAC-CTTCTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCACTC-T-TTTTCTTTTT
28143 -AAGCCCACAACTCCGTGGCA-TC-----C-TTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTT
* *
28170 -AAGCCCATAACTCCGTGGCACT-TTTTTCATCTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTC-TTTTT
* * * *
28204 -AAGTCCATAACTCCGTGGCACCTTTTTTTTTCTTTT
1 AAAGCCCACAACTCCGTGGCA-CTCTTTTTCT-TTTT
*
28240 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTT-CTTTTT
*
28276 -AAGTCCACAACTCCGTGGCA-TCTTT
1 AAAGCCCACAACTCCGTGGCACTCTTT
28301 CTCCCTTCCT
Statistics
Matches: 380, Mismatches: 33, Indels: 49
0.82 0.07 0.11
Matches are distributed among these distances:
27 22 0.06
28 2 0.01
32 4 0.01
33 73 0.19
34 66 0.17
35 106 0.28
36 24 0.06
37 79 0.21
38 4 0.01
ACGTcount: A:0.20, C:0.33, G:0.12, T:0.35
Consensus pattern (35 bp):
AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTT
Found at i:28058 original size:72 final size:69
Alignment explanation
Indices: 27830--28320 Score: 503
Period size: 72 Copynumber: 7.1 Consensus size: 69
27820 ATTTTGTCTC
* * * *
27830 AAAGTCCACAACTCCGTGGCACTC-TTTTCCTTTAAAGCCCACAACTACGTGGCACTC-TTTTCC
1 AAAGCCCACAACTCCGTGGCACACTTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCC
*
27893 TTCT
66 TTTT
* *
27897 -AAGCCCACAACTCTGTGGCACTA-TTTTTCCTTCTAAGCCCACAACTCCGTGGCACT-TTTTT-
1 AAAGCCCACAACTCCGTGGCAC-ACTTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTC
27958 CTTTT
65 CTTTT
* * *
27963 AAAGCCCACAACTCTGTGGCACACTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTC
1 AAAGCCCACAACTCCGTGGCACACTTTTTCCTTTT-AAGCCCACAACTCCGTGGCACTCTTTTT-
28028 CCTTTT
64 CCTTTT
* * *
28034 CAACGCCCACAACTCTGTGGCACACTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 -AAAGCCCACAACTCCGTGGCACACTTTTTCCTTTT-AAGCCCACAACTCCGTGGCACTCTTTTT
28099 CCCTTTTT
64 -CC-TTTT
*
28107 AAAGCCCACAACTCCGTGGCAC-CTTCTTTTCCTTCTAAGCCCACAACTCCGTGGCA-------T
1 AAAGCCCACAACTCCGTGGCACAC-T-TTTTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
28164 CCTTTT
64 CCTTTT
* * * * * *
28170 -AAGCCCATAACTCCGTGGCAC-TTTTTTCATCTTTAAGTCCATAACTCCGTGGCACCTTTTTTT
1 AAAGCCCACAACTCCGTGGCACACTTTTTCCT-TTTAAGCCCACAACTCCGTGGCA-C-TCTTTT
*
28233 TTCTTTT
63 TCCTTTT
* * *
28240 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCA-TCTTTCTC
1 AAAGCCCACAACTCCGTGGCACACTTTTT-CCTTTTAAGCCCACAACTCCGTGGCACTCTTT-TT
*
28304 CCTTCCT
64 CCTT-TT
28311 AAAGCCCACA
1 AAAGCCCACA
28321 CAAGTCGGTG
Statistics
Matches: 365, Mismatches: 31, Indels: 52
0.81 0.07 0.12
Matches are distributed among these distances:
60 6 0.02
61 21 0.06
62 20 0.05
63 4 0.01
64 2 0.01
65 1 0.00
66 24 0.07
67 63 0.17
68 21 0.06
69 9 0.02
70 10 0.03
71 37 0.10
72 133 0.36
73 14 0.04
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.34
Consensus pattern (69 bp):
AAAGCCCACAACTCCGTGGCACACTTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCC
TTTT
Found at i:28196 original size:27 final size:27
Alignment explanation
Indices: 28136--28189 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
28126 CACCTTCTTT
*
28136 TCCTTCTAAGCCCACAACTCCGTGGCA
1 TCCTTTTAAGCCCACAACTCCGTGGCA
*
28163 TCCTTTTAAGCCCATAACTCCGTGGCA
1 TCCTTTTAAGCCCACAACTCCGTGGCA
28190 CTTTTTTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.22, C:0.37, G:0.15, T:0.26
Consensus pattern (27 bp):
TCCTTTTAAGCCCACAACTCCGTGGCA
Found at i:28297 original size:133 final size:130
Alignment explanation
Indices: 27830--28296 Score: 487
Period size: 133 Copynumber: 3.4 Consensus size: 130
27820 ATTTTGTCTC
* * *
27830 AAAGTCCACAACTCCGTGGCACTC-TTTTCCTTTAAAGCCCACAACTACGTGGCACTCTTTTCCT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCA-----TTCCT
*
27894 TCTAAGCCCACAACTCTGTGGCACTATTTTTC-CTTCTAAGCCCACAACTCCGTGGCAC--TTTT
61 TTTAAGCCCACAACTCTGTGGCACT-TTTTTCTCTT-TAAGCCCACAACTCCGTGGCACTTTTTT
27956 TTCTTTT
124 TTCTTTT
* * * *
27963 AAAGCCCACAACTCTGTGGCACACTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTC
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT-AAGCCCACAACTCCGTGGCA------TT-
* *
28028 CCTTTTCAACGCCCACAACTCTGTGGCACACTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACT
58 CCTTTT-AA-GCCCACAACTCTGTGGCAC-TTTTTTCTCTTT-AAGCCCACAACTCCGTGGCACT
**
28093 CTTTTTCCCTTTTT
119 -TTTTTTTC-TTTT
*
28107 AAAGCCCACAACTCCGTGGCAC-CTTCTTTTCCTTCTAAGCCCACAACTCCGTGGCA-TCCTTTT
1 AAAGCCCACAACTCCGTGGCACTC-T-TTTTCCTTTTAAGCCCACAACTCCGTGGCATTCCTTTT
* * * *
28170 AAGCCCATAACTCCGTGGCACTTTTTTCATCTTTAAGTCCATAACTCCGTGGCACCTTTTTTTTT
64 AAGCCCACAACTCTGTGGCACTTTTTTC-TCTTTAAGCCCACAACTCCGTGGCA-C-TTTTTTTT
28235 CTTTT
126 CTTTT
*
28240 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCAT
1 AAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTTTAAGCCCACAACTCCGTGGCAT
28297 CTTTCTCCCT
Statistics
Matches: 284, Mismatches: 29, Indels: 41
0.80 0.08 0.12
Matches are distributed among these distances:
132 4 0.01
133 96 0.34
134 37 0.13
135 21 0.07
136 10 0.04
137 6 0.02
138 2 0.01
139 26 0.09
140 23 0.08
143 6 0.02
144 45 0.16
145 8 0.03
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.34
Consensus pattern (130 bp):
AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCATTCCTTTTAA
GCCCACAACTCTGTGGCACTTTTTTCTCTTTAAGCCCACAACTCCGTGGCACTTTTTTTTCTTTT
Found at i:28314 original size:71 final size:70
Alignment explanation
Indices: 28170--28320 Score: 180
Period size: 71 Copynumber: 2.1 Consensus size: 70
28160 GCATCCTTTT
* * ***
28170 AAGCCCATAACTCCGTGGCACTTTTTTCATCTTTAAGTCCATAACTCCGTGGCACCTTTTTTTTT
1 AAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTTTCCCTT
*
28235 CTTTTA
66 C-TCTA
* *
28241 AAGCCCACAACTCCGTGGCACTCTTTTTC-CCTTTTAAGTCCACAACTCCGTGGCATCTTTCTCC
1 AAGCCCACAACTCCGTGGCACT-TTTTTCATC-TTTAAGTCCACAACTCCGTGGCACCTTT-TCC
28305 CTTC-CTA
63 CTTCTCTA
28312 AAGCCCACA
1 AAGCCCACA
28321 CAAGTCGGTG
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
71 33 0.48
72 32 0.46
73 4 0.06
ACGTcount: A:0.21, C:0.33, G:0.11, T:0.35
Consensus pattern (70 bp):
AAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTTTCCCTT
CTCTA
Found at i:28348 original size:33 final size:35
Alignment explanation
Indices: 28305--28374 Score: 126
Period size: 33 Copynumber: 2.1 Consensus size: 35
28295 ATCTTTCTCC
28305 CTTCCTAAAGCCCACACAAGTCGGTGGCAA-CCTT
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
28339 CTTCC-AAAGCCCACACAAGTCGGTGGCAACCCTT
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
28373 CT
1 CT
28375 AAGCCCAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 24 0.69
34 11 0.31
ACGTcount: A:0.26, C:0.37, G:0.17, T:0.20
Consensus pattern (35 bp):
CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
Found at i:28438 original size:49 final size:49
Alignment explanation
Indices: 28374--28939 Score: 663
Period size: 49 Copynumber: 11.6 Consensus size: 49
28364 GCAACCCTTC
*
28374 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
* * * * * * *
28423 TAAGTCCAATGTAGCTGGCCTTGACTCAACACATTGGCACCTTCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
* *
28472 TAAGTCCAATATCGCTGGTCTTGAATCAGCATATTGGCATCATCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
* * **
28521 TAAGTCCAATGTAGCTGGCCTTGACTCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA--TCAT-CATCTT
*
28573 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
* * * * * *
28622 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCATCA-TCTT
* * *
28672 CTAAGCCCAATATAGTTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 -TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
* * *
28722 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGG---CA-C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
* *
28765 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
* *
28814 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG---CA-C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
28857 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CATTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCA---T-CATCTT
* *
28909 TAAGTTCAATGTAGCTGGCCTTGAATCAGCA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCA
28940 CGTTGACATC
Statistics
Matches: 436, Mismatches: 61, Indels: 37
0.82 0.11 0.07
Matches are distributed among these distances:
43 74 0.17
45 4 0.01
46 3 0.01
47 1 0.00
49 230 0.53
50 9 0.02
51 41 0.09
52 74 0.17
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
Found at i:28782 original size:43 final size:43
Alignment explanation
Indices: 28668--28896 Score: 260
Period size: 43 Copynumber: 5.0 Consensus size: 43
28658 GCACCTTCAC
* * *
28668 CCTTCTAAGCCCAATATAGTTGGCCTTGAATCAGCATATTGGCA
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
* *
28712 TCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA
1 ----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
* *
28761 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
*
28804 TCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
1 ----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
*
28853 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
28896 C
1 C
28897 ATTTTCCATC
Statistics
Matches: 159, Mismatches: 14, Indels: 21
0.82 0.07 0.11
Matches are distributed among these distances:
43 79 0.50
45 2 0.01
47 1 0.01
48 1 0.01
49 73 0.46
50 3 0.02
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (43 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
Found at i:28835 original size:92 final size:92
Alignment explanation
Indices: 28668--28940 Score: 456
Period size: 92 Copynumber: 2.9 Consensus size: 92
28658 GCACCTTCAC
* *
28668 CCTTCTAAGCCCAATATAGTTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
*
28733 TAGCTGGCCTTGACTCAGCACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
*
28761 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
28826 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* *
28853 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTCCAA
28918 TGTAGCTGGCCTTGAATCAGCAC
63 TGTAGCTGGCCTTGAATCAGCAC
28941 GTTGACATCC
Statistics
Matches: 170, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
92 124 0.73
93 4 0.02
94 5 0.03
95 37 0.22
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (92 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCA
Found at i:28983 original size:55 final size:55
Alignment explanation
Indices: 28854--29408 Score: 357
Period size: 67 Copynumber: 9.7 Consensus size: 55
28844 ACATTGGCAC
* * *
28854 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA--CATTTTC-CAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * * **
28906 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * * *
28961 CTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCGTTATCACTTTTCTCATCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT-G-A-C---ATC-CTTTT-TC-TCAT
*
29025 CATTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAT-C----T-TCAT
1 C---TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * * **
29077 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * * * *
29132 CTTTAGGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCGTTATCACTTTTCTCATCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT-G-A-C---ATC-CTTTT-TC-TCAT
*
29196 CATTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAT-C----T-TCAT
1 C---TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * * * **
29248 CTTTAAGTTCAATGTAGCTGGCCTTGAATCTGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * * * *
29303 CTTTAGGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT-G-A-C---ATC-C-TTT-T--TC-TC
29368 AT
54 AT
*
29370 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTG
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
29409 GCACCTTCAT
Statistics
Matches: 386, Mismatches: 66, Indels: 88
0.71 0.12 0.16
Matches are distributed among these distances:
49 71 0.18
50 2 0.01
52 47 0.12
54 10 0.03
55 95 0.25
56 3 0.01
57 3 0.01
58 3 0.01
59 2 0.01
61 13 0.03
62 11 0.03
63 7 0.02
64 13 0.03
66 5 0.01
67 101 0.26
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (55 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
Found at i:29144 original size:171 final size:171
Alignment explanation
Indices: 28855--29419 Score: 1022
Period size: 171 Copynumber: 3.3 Consensus size: 171
28845 CATTGGCACC
* *
28855 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTTCAATG
*
28920 TAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCA
63 TAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAGGCCCAATATCGTTGGCCA
28985 TGAATCAACATATTGGCATCGTTATCACTTTTCTCATCATCATT
128 TGAATCAACATATTGGCATCGTTATCACTTTTCTCATCATCATT
29029 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTAG
29094 CTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAGGCCCAATATCGTTGGCCATGA
66 CTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAGGCCCAATATCGTTGGCCATGA
29159 ATCAACATATTGGCATCGTTATCACTTTTCTCATCATCATT
131 ATCAACATATTGGCATCGTTATCACTTTTCTCATCATCATT
29200 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTAG
*
29265 CTGGCCTTGAATCTGCACGTTGACATCCTTTTTCTCATCTTTAGGCCCAATATCGTTGGCCATGA
66 CTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAGGCCCAATATCGTTGGCCATGA
* * *
29330 ATCAACATATTGGCATCTTTATCACTTTTCTCATCTTCATC
131 ATCAACATATTGGCATCGTTATCACTTTTCTCATCATCATT
* *
29371 TTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
29420 ATCTCTAAAA
Statistics
Matches: 382, Mismatches: 9, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
171 339 0.89
172 5 0.01
174 38 0.10
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (171 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTAG
CTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAGGCCCAATATCGTTGGCCATGA
ATCAACATATTGGCATCGTTATCACTTTTCTCATCATCATT
Found at i:31642 original size:13 final size:13
Alignment explanation
Indices: 31624--31648 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31614 CATAAAATGT
31624 TGTATCGATACAA
1 TGTATCGATACAA
31637 TGTATCGATACA
1 TGTATCGATACA
31649 TATTTTTTGT
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:31664 original size:32 final size:33
Alignment explanation
Indices: 31604--31669 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
31594 TTCAACGATT
31604 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
** *
31637 TGTATCGATACAT-ATTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
31669 T
1 T
31670 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.57
33 13 0.43
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:31730 original size:13 final size:13
Alignment explanation
Indices: 31712--31736 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31702 ATTACTCACA
31712 TGTATCGATACAT
1 TGTATCGATACAT
31725 TGTATCGATACA
1 TGTATCGATACA
31737 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:31801 original size:52 final size:52
Alignment explanation
Indices: 31745--31865 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
31735 CACTGATCTT
*
31745 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
31797 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
31849 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
31866 TAACTTTTCA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:36888 original size:98 final size:98
Alignment explanation
Indices: 36683--36930 Score: 293
Period size: 98 Copynumber: 2.5 Consensus size: 98
36673 CCAAAATTCT
* * * * **
36683 ATCGAGGATACTCCAACCCTATTCTTCTGAGGCGATACTCCAA-CCTCGTTTTTAAACTTGTCAA
1 ATCGAAGACACTCCAACCCCATTCTTCTGAGGAGATACTCCAACCCTATTTTTTAAACTTGTCAA
*
36747 GATTTAAATCTTATTTTCATCTAAATTATCATC
66 GATTTAAATCTTATTTTCATCTAAATTATCAAC
* * * *
36780 GTCGAAGACACTCCAACCCCATTCTTCTGAAGAGATACTCTAACCCTTTTTTTTAAACTTGTCAA
1 ATCGAAGACACTCCAACCCCATTCTTCTGAGGAGATACTCCAACCCTATTTTTTAAACTTGTCAA
** *
36845 GATTTAAATCTTATTTTCA-CTTGGATTGTCAAC
66 GATTTAAATCTTATTTTCATC-TAAATTATCAAC
* ** * * *
36878 ATTGGGGACACTCCAATCCCATTCCTCCGAGGAGATACTCCAACCCTATTTTT
1 ATCGAAGACACTCCAACCCCATTCTTCTGAGGAGATACTCCAACCCTATTTTT
36931 CAACTAAAAA
Statistics
Matches: 126, Mismatches: 23, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
97 37 0.29
98 89 0.71
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (98 bp):
ATCGAAGACACTCCAACCCCATTCTTCTGAGGAGATACTCCAACCCTATTTTTTAAACTTGTCAA
GATTTAAATCTTATTTTCATCTAAATTATCAAC
Found at i:40257 original size:2 final size:2
Alignment explanation
Indices: 40250--40274 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
40240 TTTCATATCA
40250 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
40275 AAGTGCAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:40390 original size:2 final size:2
Alignment explanation
Indices: 40378--40442 Score: 57
Period size: 2 Copynumber: 33.5 Consensus size: 2
40368 CAATTACAAG
* * *
40378 AT AT A- AT AT AT AT AT AT AT AT AT AC AT -T TT CAT ACC A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT A-T AT AT AT
40419 AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
40443 AAGTGTAAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
1 4 0.08
2 47 0.89
3 2 0.04
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:40994 original size:15 final size:15
Alignment explanation
Indices: 40976--41013 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
40966 TTAACTAAAT
*
40976 ATTAAATATCAATTA
1 ATTAAATATCAATCA
*
40991 ATTAGATATCAATCA
1 ATTAAATATCAATCA
41006 ATTAAATA
1 ATTAAATA
41014 ACTTGAGATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.53, C:0.08, G:0.03, T:0.37
Consensus pattern (15 bp):
ATTAAATATCAATCA
Found at i:43493 original size:17 final size:19
Alignment explanation
Indices: 43471--43507 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
43461 AGTAAAGAGG
43471 AGAAGAAGAA-AG-GAAGA
1 AGAAGAAGAATAGAGAAGA
43488 AGAAGAAGAATAGAGAAGA
1 AGAAGAAGAATAGAGAAGA
43507 A
1 A
43508 TTTCAACTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.56
18 2 0.11
19 6 0.33
ACGTcount: A:0.65, C:0.00, G:0.32, T:0.03
Consensus pattern (19 bp):
AGAAGAAGAATAGAGAAGA
Found at i:44884 original size:13 final size:11
Alignment explanation
Indices: 44857--44891 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
44847 TAAGAATAAG
44857 AAAAAGAGAAA
1 AAAAAGAGAAA
44868 AAAAAGAGAAGA
1 AAAAAGAGAA-A
44880 AAAAAGA-AAA
1 AAAAAGAGAAA
44890 AA
1 AA
44892 TACATAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 3 0.13
11 12 0.52
12 8 0.35
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
AAAAAGAGAAA
Found at i:45929 original size:14 final size:15
Alignment explanation
Indices: 45901--45929 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
45891 AATTATGACA
45901 TAATAAATATATTTT
1 TAATAAATATATTTT
45916 TAATAAAT-TATTTT
1 TAATAAATATATTTT
45930 ATAGTCGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TAATAAATATATTTT
Found at i:49771 original size:97 final size:97
Alignment explanation
Indices: 49612--49858 Score: 314
Period size: 97 Copynumber: 2.5 Consensus size: 97
49602 AATTTTATTT
* * * * * * *
49612 ATCGGGGATACTCTAACCCTATTCCTCCGAGGGGATACTCCAACCTCGCTTTTAAACACATCAAG
1 ATCGGGGACACTCCAACCCCATTCCTCCGAGGAGATACTCCAACCCCACTTTTAAACACATCAAA
*
49677 GTTTAAATCTTATTCTCACTTAAATTGTCACC
66 GTTTAAATCTTATTCTCACTTAAATTATCACC
* * * **
49709 ATTGGGGACACTTCAACTCCATTCCTCCGAGGAGATACTCCAACCCCACTTTTAAATGCATCAAA
1 ATCGGGGACACTCCAACCCCATTCCTCCGAGGAGATACTCCAACCCCACTTTTAAACACATCAAA
* *
49774 GTTTAAATTTTATTCTCACTTAAATTATCATC
66 GTTTAAATCTTATTCTCACTTAAATTATCACC
* * * * *
49806 ATCGGGGACACTCCAACCCCATTCTTCCTAAGAGATACTCCAATCCCATTTTT
1 ATCGGGGACACTCCAACCCCATTCCTCCGAGGAGATACTCCAACCCCACTTTT
49859 CAATAAAAAA
Statistics
Matches: 127, Mismatches: 23, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
97 127 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (97 bp):
ATCGGGGACACTCCAACCCCATTCCTCCGAGGAGATACTCCAACCCCACTTTTAAACACATCAAA
GTTTAAATCTTATTCTCACTTAAATTATCACC
Found at i:50821 original size:37 final size:39
Alignment explanation
Indices: 50751--50824 Score: 116
Period size: 37 Copynumber: 1.9 Consensus size: 39
50741 GTACGTTGCG
50751 ACACTATGCCACCGGATAAAAATAGTGGTTTTTGTTCCA
1 ACACTATGCCACCGGATAAAAATAGTGGTTTTTGTTCCA
* *
50790 ACAC-ATGCCACCGG-TAAGAATGGTGGTTTTTGTTC
1 ACACTATGCCACCGGATAAAAATAGTGGTTTTTGTTC
50825 TAAATCGTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
37 19 0.58
38 10 0.30
39 4 0.12
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (39 bp):
ACACTATGCCACCGGATAAAAATAGTGGTTTTTGTTCCA
Found at i:53273 original size:79 final size:78
Alignment explanation
Indices: 53049--53277 Score: 264
Period size: 79 Copynumber: 2.9 Consensus size: 78
53039 TGGAGATAAC
* *
53049 AACAGGGCTGGAGTATCCCCGATTATGAAAAATCGGTATTCTGAAAATAAAATCAGGGTTGAAGT
1 AACAGGGTTGGAGTATCCCCGATTATGAAAAATCGGTATT-TGAAAATAAAATCAGGGTTAAAGT
*
53114 ATCCCCTCGGAAAT
65 ATCCCCTCGAAAAT
** * *
53128 AACAGGGTTGGAGTATCCCTAATTAT-AGAAAATCGGTATTTTGAAAATAAAATCAGGATTAGAG
1 AACAGGGTTGGAGTATCCCCGATTATGA-AAAATCGGTA-TTTGAAAATAAAATCAGGGTTAAAG
*
53192 TATCCTCTCGAAAAT
64 TATCCCCTCGAAAAT
** * * ** *
53207 AATGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGATTT-AGAAATAAGGTCGGGGTTAAAG
1 AACAGGGTTGGAGTATCCCCGATTATGAAAAATCGGT-ATTTGA-AAATAAAATCAGGGTTAAAG
53271 TATCCCC
64 TATCCCC
53278 AATTATGAGA
Statistics
Matches: 125, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
78 2 0.02
79 119 0.95
80 4 0.03
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (78 bp):
AACAGGGTTGGAGTATCCCCGATTATGAAAAATCGGTATTTGAAAATAAAATCAGGGTTAAAGTA
TCCCCTCGAAAAT
Found at i:53276 original size:51 final size:51
Alignment explanation
Indices: 53210--53536 Score: 209
Period size: 51 Copynumber: 6.3 Consensus size: 51
53200 CGAAAATAAT
* **
53210 GGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGATTTAGAAATAAGGTC
1 GGGGTTGAAGTATCCCCGATTGTGAAAAATCGATGATTTAGAAATAAAATC
* * * * * *
53261 GGGGTTAAAGTATCCCCAATTATGAGAAATCAAT-ATTTTAGAAATAAAGTC
1 GGGGTTGAAGTATCCCCGATTGTGAAAAATCGATGA-TTTAGAAATAAAATC
* * **** *
53312 GGGGTTGGAGTATCCCC--TTG-GAAATAA-CGGGTTTGAGTGTCCCCAATGAAATAAC
1 GGGGTTGAAGTATCCCCGATTGTGAAA-AATC--G-ATGA-T-TTAGAAAT-AAA-ATC
* * * * * * *
53367 GGGGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATT
1 GGGGTTGAAGTATCCCCGATTGTGAAAAATCGATGATTTAGAAATAAAATC
* * * * *
53418 GGAGTTAAAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAATC
1 GGGGTTGAAGTATCCCCGATTGTGAAAAATCGATGATTTAGAAATAAAATC
* * *
53469 GGGGTTGAAGTATCCCCAATTGTGAAAAA-CTAGTG-TTTTGAGAATAAAATC
1 GGGGTTGAAGTATCCCCGATTGTGAAAAATCGA-TGATTTAGA-AATAAAATC
* *
53520 AGGGTTGGAGTATCCCC
1 GGGGTTGAAGTATCCCC
53537 TCGGAAATAA
Statistics
Matches: 216, Mismatches: 45, Indels: 30
0.74 0.15 0.10
Matches are distributed among these distances:
48 4 0.02
49 4 0.02
50 6 0.03
51 156 0.72
52 5 0.02
53 8 0.04
54 4 0.02
55 19 0.09
56 1 0.00
57 5 0.02
58 4 0.02
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
GGGGTTGAAGTATCCCCGATTGTGAAAAATCGATGATTTAGAAATAAAATC
Found at i:53354 original size:27 final size:27
Alignment explanation
Indices: 53313--53381 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 27
53303 AATAAAGTCG
*
53313 GGGTTGGAGTATCCCC-TTGGAAATAAC
1 GGGTTGGAGTATCCCCAAT-GAAATAAC
* *
53340 GGGTTTGAGTGTCCCCAATGAAATAAC
1 GGGTTGGAGTATCCCCAATGAAATAAC
53367 GGGGTTGGAGTATCC
1 -GGGTTGGAGTATCC
53382 TCGATTGTGA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 22 0.63
28 13 0.37
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.26
Consensus pattern (27 bp):
GGGTTGGAGTATCCCCAATGAAATAAC
Found at i:59440 original size:52 final size:52
Alignment explanation
Indices: 59299--59447 Score: 201
Period size: 52 Copynumber: 2.9 Consensus size: 52
59289 CGAAATATGA
*
59299 AAATTTGCCTACATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
** * * *
59351 AAATTTGCCTGTTTGTATCAATACATTTCATACTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
* **
59403 AAATTTGCCTGCATGTGTCGATACAAAT-ATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTTCAT-AGTGTATCGATACA
59448 ATGTATCGAT
Statistics
Matches: 83, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
51 2 0.02
52 81 0.98
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
Found at i:60436 original size:52 final size:49
Alignment explanation
Indices: 60380--60602 Score: 153
Period size: 49 Copynumber: 4.7 Consensus size: 49
60370 CTGAGACAAA
*
60380 GCCAACGACATTGGGCTT-AGGAATGTTAAAGATGCCAATACGCTGATTCAAG
1 GCCAACGACATTGGACTTAAGG-ATG---AAGATGCCAATACGCTGATTCAAG
* * * **
60432 GCCAACGATATTGGACTTAAGGATGAGGGTGCCAATGTGCTGATTCAAG
1 GCCAACGACATTGGACTTAAGGATGAAGATGCCAATACGCTGATTCAAG
** * ** * *
60481 GCCAACGACATTGGTTTTAAAGACAAAG-TGCCAATATGCTAATTCAAG
1 GCCAACGACATTGGACTTAAGGATGAAGATGCCAATACGCTGATTCAAG
* * * *
60529 GCCAGCGATATTGG-TTTAA--A-G--G-TGCCAATATGCTGATTCAAG
1 GCCAACGACATTGGACTTAAGGATGAAGATGCCAATACGCTGATTCAAG
* * *
60571 GCCAGCGATATTGGACTT-A-GAAGAAGATGCCA
1 GCCAACGACATTGGACTTAAGGATGAAGATGCCA
60603 CCAACTTGTG
Statistics
Matches: 144, Mismatches: 20, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
42 35 0.24
43 3 0.02
44 1 0.01
45 1 0.01
46 1 0.01
47 10 0.07
48 30 0.21
49 41 0.28
52 19 0.13
53 3 0.02
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (49 bp):
GCCAACGACATTGGACTTAAGGATGAAGATGCCAATACGCTGATTCAAG
Found at i:60568 original size:42 final size:43
Alignment explanation
Indices: 60405--60584 Score: 173
Period size: 48 Copynumber: 4.0 Consensus size: 43
60395 CTTAGGAATG
* * * *
60405 TTAAAGATGCCAATACGCTGATTCAAGGCCAACGATATTGGACT
1 TTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGG-TT
* * * *
60449 TAAGGATGAGGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTT
1 TTA--A--A-GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTT
*
60497 TTAAAGACAAAGTGCCAATATGCTAATTCAAGGCCAGCGATATTGG-T
1 TTAAAG-----GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTT
60544 TTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGG
1 TTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGG
60585 ACTTAGAAGA
Statistics
Matches: 114, Mismatches: 12, Indels: 22
0.77 0.08 0.15
Matches are distributed among these distances:
42 34 0.30
43 1 0.01
44 3 0.03
46 2 0.02
47 7 0.06
48 35 0.31
49 32 0.28
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (43 bp):
TTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTT
Found at i:60676 original size:28 final size:28
Alignment explanation
Indices: 60598--60705 Score: 112
Period size: 29 Copynumber: 3.7 Consensus size: 28
60588 TAGAAGAAGA
60598 TGCCACCAACTTGTGTGGGCTTTTGAAAAGGT
1 TGCCACCAAC-T-TGTGGGCTTTTG--AAGGT
*
60630 TG-CACCAACTTGTGTGCTTTTGAAGGT
1 TGCCACCAACTTGTGGGCTTTTGAAGGT
* *
60657 TGCCACTAACTTGTGGGC-TTTGAGAGGGG
1 TGCCACCAACTTGTGGGCTTTTGA-A-GGT
*
60686 TGCCACCGACTTGTGGGCTT
1 TGCCACCAACTTGTGGGCTT
60706 AAAAGGGTGC
Statistics
Matches: 66, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
27 12 0.18
28 14 0.21
29 29 0.44
30 2 0.03
31 7 0.11
32 2 0.03
ACGTcount: A:0.18, C:0.20, G:0.31, T:0.31
Consensus pattern (28 bp):
TGCCACCAACTTGTGGGCTTTTGAAGGT
Found at i:60678 original size:27 final size:28
Alignment explanation
Indices: 60598--60728 Score: 106
Period size: 29 Copynumber: 4.6 Consensus size: 28
60588 TAGAAGAAGA
*
60598 TGCCACCAACTTGTGTGGGCTTTTGAAAAGGT
1 TGCCACCAAC-T-TGTGGGCTTTTG--AAGGG
* *
60630 TG-CACCAACTTGTGTGCTTTTGAAGGT
1 TGCCACCAACTTGTGGGCTTTTGAAGGG
*
60657 TGCCACTAACTTGTGGGC-TTTGAGAGGGG
1 TGCCACCAACTTGTGGGCTTTTGA-A-GGG
* **
60686 TGCCACCGACTTGTGGGC-TTAAAAGGG
1 TGCCACCAACTTGTGGGCTTTTGAAGGG
* *
60713 TGCCACGAAATTGTGG
1 TGCCACCAACTTGTGG
60729 ACTTAAAAGG
Statistics
Matches: 85, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
27 28 0.33
28 15 0.18
29 32 0.38
30 1 0.01
31 7 0.08
32 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.29
Consensus pattern (28 bp):
TGCCACCAACTTGTGGGCTTTTGAAGGG
Found at i:60733 original size:27 final size:27
Alignment explanation
Indices: 60683--60738 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
60673 GCTTTGAGAG
* *
60683 GGGTGCCACCGACTTGTGGGCTTAAAA
1 GGGTGCCACCGAATTGTGGACTTAAAA
60710 GGGTGCCA-CGAAATTGTGGACTTAAAA
1 GGGTGCCACCG-AATTGTGGACTTAAAA
60737 GG
1 GG
60739 AAAAAGAGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 2 0.08
27 24 0.92
ACGTcount: A:0.27, C:0.18, G:0.34, T:0.21
Consensus pattern (27 bp):
GGGTGCCACCGAATTGTGGACTTAAAA
Found at i:60819 original size:35 final size:34
Alignment explanation
Indices: 60706--60835 Score: 172
Period size: 34 Copynumber: 3.8 Consensus size: 34
60696 TTGTGGGCTT
* * *
60706 AAAAGGGTGCCACGAAATTGTGGACTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
* *
60740 AAAAGAGTGCCATGGAGTTGTGGGCTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
* *
60774 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGA
1 AAAAGAGTGCCACGGAGTTGTGGAC-TTAAAAGGA
60809 AGAAAG-GTGCCACGGAGTTGTGGACTT
1 A-AAAGAGTGCCACGGAGTTGTGGACTT
60836 TTGAAGGTTG
Statistics
Matches: 86, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
34 55 0.64
35 27 0.31
36 4 0.05
ACGTcount: A:0.35, C:0.12, G:0.33, T:0.20
Consensus pattern (34 bp):
AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
Found at i:60857 original size:28 final size:28
Alignment explanation
Indices: 60812--61039 Score: 237
Period size: 28 Copynumber: 8.1 Consensus size: 28
60802 AAAAAGAAGA
* * *
60812 AAGG-TGCCACGGAGTTGTGGACTTTTG
1 AAGGTTGCCACTGACTTGTGGGCTTTTG
* *
60839 AAGGTTGCCACTGGCTTGTGGGCTTTGG
1 AAGGTTGCCACTGACTTGTGGGCTTTTG
* * *
60867 AAAAGATGCCACTGACTTGTGGGCTTTGG
1 -AAGGTTGCCACTGACTTGTGGGCTTTTG
*
60896 AAAAAGG-TGCCACTAACTTGTGGGCTTTTG
1 ---AAGGTTGCCACTGACTTGTGGGCTTTTG
60926 AAGGTTGCCACTGACTTGTGGGCTTTTG
1 AAGGTTGCCACTGACTTGTGGGCTTTTG
* * * *
60954 AAAGGGTGCCATTGACTTATGGGCTTCTG
1 -AAGGTTGCCACTGACTTGTGGGCTTTTG
*
60983 AAGGTTGCCACTGACTTGTGGGC-TTCG
1 AAGGTTGCCACTGACTTGTGGGCTTTTG
* * *
61010 GAGGTTGCCACTAATTTGTGGGCTTTTG
1 AAGGTTGCCACTGACTTGTGGGCTTTTG
61038 AA
1 AA
61040 AAGGTGAGGC
Statistics
Matches: 168, Mismatches: 26, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
27 30 0.18
28 64 0.38
29 49 0.29
30 21 0.12
31 4 0.02
ACGTcount: A:0.19, C:0.17, G:0.32, T:0.32
Consensus pattern (28 bp):
AAGGTTGCCACTGACTTGTGGGCTTTTG
Found at i:60918 original size:87 final size:85
Alignment explanation
Indices: 60810--61042 Score: 283
Period size: 87 Copynumber: 2.7 Consensus size: 85
60800 TTAAAAAGAA
* * * * *
60810 GAAAGGTGCCACGGAGTTGTGGACTTTTGAAGGTTGCCACTGGCTTGTGGGCTTTGGAAAAGATG
1 GAAAGGTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGATG
*
60875 CCACTGACTTGTGGGCTT-T
66 CCACTGACTTATGGGCTTCT
* *
60894 GGAAAAAGGTGCCACTAACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTTGAAAGG
1 -G--AAAGGTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAG
* *
60959 GTGCCATTGACTTATGGGCTTCT
63 ATGCCACTGACTTATGGGCTTCT
* * * *
60982 G-AAGGTTGCCACTGACTTGTGGGC-TTCGGAGGTTGCCACTAATTTGTGGGCTTTTGAAAAG
1 GAAAGG-TGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAG
61043 GTGAGGCATG
Statistics
Matches: 128, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
84 36 0.28
85 18 0.14
87 73 0.57
88 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.31
Consensus pattern (85 bp):
GAAAGGTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGATG
CCACTGACTTATGGGCTTCT
Found at i:60987 original size:57 final size:56
Alignment explanation
Indices: 60812--61007 Score: 225
Period size: 57 Copynumber: 3.4 Consensus size: 56
60802 AAAAAGAAGA
* * * * *
60812 AAGG-TGCCACGGAGTTGTGGACTTTTG-AAGGTTGCCACTGGCTTGTGGGCTTTGG
1 AAGGTTGCCACTGACTTGTGGGCTTTTGAAAGGGTGCCACTGACTTGTGGGCTTT-G
* * * * *
60867 AAAAGATGCCACTGACTTGTGGGCTTTGGAAAAAGGTGCCACTAACTTGTGGGCTTTTG
1 -AAGGTTGCCACTGACTTGTGGGCTTTTG-AAAGGGTGCCACTGACTTGTGGGC-TTTG
* *
60926 AAGGTTGCCACTGACTTGTGGGCTTTTGAAAGGGTGCCATTGACTTATGGGCTTCTG
1 AAGGTTGCCACTGACTTGTGGGCTTTTGAAAGGGTGCCACTGACTTGTGGGCTT-TG
60983 AAGGTTGCCACTGACTTGTGGGCTT
1 AAGGTTGCCACTGACTTGTGGGCTT
61008 CGGAGGTTGC
Statistics
Matches: 119, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
56 5 0.04
57 66 0.55
58 25 0.21
59 20 0.17
60 3 0.03
ACGTcount: A:0.19, C:0.17, G:0.33, T:0.31
Consensus pattern (56 bp):
AAGGTTGCCACTGACTTGTGGGCTTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG
Found at i:61044 original size:57 final size:55
Alignment explanation
Indices: 60812--61039 Score: 217
Period size: 57 Copynumber: 4.0 Consensus size: 55
60802 AAAAAGAAGA
* * * * ** *
60812 AAGG-TGCCACGGAGTTGTGGACTTTTGAAGGTTGCCACTGGCTTGTGGGCTTTGG
1 AAGGTTGCCACTGACTTGTGGGC-TTTGGAGGTTGCCACTAACTTGTGGGCTTTTG
* *
60867 AAAAGATGCCACTGACTTGTGGGCTTTGGAAAAAGG-TGCCACTAACTTGTGGGCTTTTG
1 -AAGGTTGCCACTGACTTGTGGGCTTTGG----AGGTTGCCACTAACTTGTGGGCTTTTG
* * * * * *
60926 AAGGTTGCCACTGACTTGTGGGCTTTTGAAAGGGTGCCATTGACTTATGGGCTTCTG
1 AAGGTTGCCACTGACTTGTGGGC-TTTG-GAGGTTGCCACTAACTTGTGGGCTTTTG
* *
60983 AAGGTTGCCACTGACTTGTGGGCTTCGGAGGTTGCCACTAATTTGTGGGCTTTTG
1 AAGGTTGCCACTGACTTGTGGGCTTTGGAGGTTGCCACTAACTTGTGGGCTTTTG
61038 AA
1 AA
61040 AAGGTGAGGC
Statistics
Matches: 141, Mismatches: 23, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
55 23 0.16
56 13 0.09
57 57 0.40
58 21 0.15
59 24 0.17
60 3 0.02
ACGTcount: A:0.19, C:0.17, G:0.32, T:0.32
Consensus pattern (55 bp):
AAGGTTGCCACTGACTTGTGGGCTTTGGAGGTTGCCACTAACTTGTGGGCTTTTG
Found at i:62490 original size:1 final size:1
Alignment explanation
Indices: 62486--62577 Score: 58
Period size: 1 Copynumber: 92.0 Consensus size: 1
62476 TTTGTTGTTG
* * * * * * * * * *
62486 TTTTTTTGTTTTTTTGTTTGTTTTTTTTCTTTTTTTGTTTTGTTGTTGTTTTTTTTTCTTCTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * *
62551 TTTTTTGTTTGTTTGTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
62578 GTGGGAGATG
Statistics
Matches: 63, Mismatches: 28, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
1 63 1.00
ACGTcount: A:0.00, C:0.03, G:0.12, T:0.85
Consensus pattern (1 bp):
T
Found at i:62496 original size:8 final size:8
Alignment explanation
Indices: 62483--62576 Score: 81
Period size: 8 Copynumber: 12.2 Consensus size: 8
62473 CTTTTTGTTG
62483 TTGTTTTT
1 TTGTTTTT
62491 TTGTTTTT
1 TTGTTTTT
62499 TTG--TTT
1 TTGTTTTT
*
62505 GT-TTTTT
1 TTGTTTTT
*
62512 TTCTTTTT
1 TTGTTTTT
*
62520 TTGTTTTG
1 TTGTTTTT
62528 TTGTTGTTT
1 TTGTT-TTT
*
62537 TT-TTTTC
1 TTGTTTTT
*
62544 TTCTTTTT
1 TTGTTTTT
*
62552 TT-TTTGT
1 TTGTTTTT
*
62559 TTGTTTGT
1 TTGTTTTT
62567 TTGTTTTT
1 TTGTTTTT
62575 TT
1 TT
62577 TGTGGGAGAT
Statistics
Matches: 71, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
6 4 0.06
7 14 0.20
8 49 0.69
9 4 0.06
ACGTcount: A:0.00, C:0.03, G:0.13, T:0.84
Consensus pattern (8 bp):
TTGTTTTT
Found at i:76489 original size:52 final size:52
Alignment explanation
Indices: 76411--76538 Score: 229
Period size: 52 Copynumber: 2.5 Consensus size: 52
76401 CGAAATATGA
76411 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
* * *
76463 AAATTTACCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
76515 AAATTTGCCTGCATGTATCGATAC
1 AAATTTGCCTGCATGTATCGATAC
76539 GAAGATCAGT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
Found at i:76609 original size:13 final size:13
Alignment explanation
Indices: 76591--76673 Score: 67
Period size: 13 Copynumber: 5.5 Consensus size: 13
76581 AGCTTCGTAG
76591 CGATACATTGTAT
1 CGATACATTGTAT
76604 CGATACAAAACTATGTAT
1 CGATAC---A-T-TGTAT
76622 CGATACATTGTAT
1 CGATACATTGTAT
76635 CGATACAACACTTATGTAT
1 CGAT---ACA--T-TGTAT
76654 CGATACATTGTAT
1 CGATACATTGTAT
76667 CGATACA
1 CGATACA
76674 AATCATTGAA
Statistics
Matches: 59, Mismatches: 0, Indels: 22
0.73 0.00 0.27
Matches are distributed among these distances:
13 27 0.46
14 2 0.03
15 1 0.02
16 7 0.12
17 1 0.02
18 12 0.20
19 9 0.15
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:76656 original size:32 final size:31
Alignment explanation
Indices: 76591--76675 Score: 152
Period size: 32 Copynumber: 2.7 Consensus size: 31
76581 AGCTTCGTAG
76591 CGATACATTGTATCGATACAAAACTATGTAT
1 CGATACATTGTATCGATACAAAACTATGTAT
*
76622 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAAC-TATGTAT
76654 CGATACATTGTATCGATACAAA
1 CGATACATTGTATCGATACAAA
76676 TCATTGAAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
31 23 0.45
32 28 0.55
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.32
Consensus pattern (31 bp):
CGATACATTGTATCGATACAAAACTATGTAT
Found at i:77145 original size:33 final size:32
Alignment explanation
Indices: 77090--77154 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
77080 TTTGGGACAA
77090 TGTATCGATACAATTCTTCATGTATCAATACAT
1 TGTATCGATACAATTC-TCATGTATCAATACAT
*
77123 TGTATCGATACAATGTGC-CATGTATCGATACA
1 TGTATCGATACAAT-T-CTCATGTATCAATACA
77155 AACAGTGGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAATTCTCATGTATCAATACAT
Found at i:81902 original size:22 final size:21
Alignment explanation
Indices: 81872--81917 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
81862 CTAGATAAGT
81872 ATAAATG-TTTTCAAGGCTTAAA
1 ATAAATGTTTTTCAA-G-TTAAA
*
81894 ATAAGTGTTTTTCAAGTTAAA
1 ATAAATGTTTTTCAAGTTAAA
81915 ATA
1 ATA
81918 TATCAAAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 8 0.36
22 7 0.32
23 7 0.32
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.39
Consensus pattern (21 bp):
ATAAATGTTTTTCAAGTTAAA
Found at i:82019 original size:20 final size:20
Alignment explanation
Indices: 81986--82026 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
81976 AAAGGTCAAA
*
81986 ACCTTGAAAAGTATCGATAC
1 ACCTTCAAAAGTATCGATAC
*
82006 ACCTTCAAATGTATCGATAC
1 ACCTTCAAAAGTATCGATAC
82026 A
1 A
82027 GATTGCACAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (20 bp):
ACCTTCAAAAGTATCGATAC
Found at i:82054 original size:13 final size:13
Alignment explanation
Indices: 82036--82060 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
82026 AGATTGCACA
82036 GTATCGATACATT
1 GTATCGATACATT
82049 GTATCGATACAT
1 GTATCGATACAT
82061 GACCAAATGT
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):
GTATCGATACATT
Found at i:82073 original size:20 final size:21
Alignment explanation
Indices: 82048--82100 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
82038 ATCGATACAT
*
82048 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGTA-AAGAA
*
82068 TGTATCGATACTTGTAAAGAA
1 TGTATCGATACATGTAAAGAA
82089 TGTATCGATACA
1 TGTATCGATACA
82101 GGTCATTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATGTAAAGAA
Found at i:82178 original size:13 final size:13
Alignment explanation
Indices: 82160--82185 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
82150 TACACACAAG
82160 ATGTATCGATACA
1 ATGTATCGATACA
82173 ATGTATCGATACA
1 ATGTATCGATACA
82186 TCCCAAAATG
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:82202 original size:33 final size:32
Alignment explanation
Indices: 82142--82205 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
82132 CTTAACTGTT
*
82142 TGTATCGATACACACAAGATGTATCGATACAA
1 TGTATCGATACACACAAAATGTATCGATACAA
*
82174 TGTATCGATACATCCCAAAATGTATCGATACA
1 TGTATCGATACA-CACAAAATGTATCGATACA
82206 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (32 bp):
TGTATCGATACACACAAAATGTATCGATACAA
Found at i:84828 original size:20 final size:20
Alignment explanation
Indices: 84781--84855 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
84771 AAAAAGACAT
*
84781 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
84800 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
84821 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
84841 AATGTATCGATACAT
1 AATGTATCGATACAT
84856 CAAGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:84828 original size:40 final size:39
Alignment explanation
Indices: 84778--84855 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
84768 GGTAAAAAGA
* *
84778 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
84817 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
84856 CAAGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:85341 original size:45 final size:46
Alignment explanation
Indices: 85225--85348 Score: 142
Period size: 49 Copynumber: 2.7 Consensus size: 46
85215 AGATGAAAGG
** *
85225 AGTGCCAATGTGCCAATTCAAAGCCAGCGACATTGGGCTAAGGGAAA
1 AGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTAA-GGAAA
* *
85272 AGTGGACCAATGTGCTGACTCAAGGCCAGCGACATTGGGCTTA-GAAA
1 AGT-G-CCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTAAGGAAA
* * *
85319 GGTGCCAATATGCTGATTCAAGGCTAGCGA
1 AGTGCCAATGTGCTGATTCAAGGCCAGCGA
85349 TATCGGACTT
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
45 23 0.35
46 1 0.02
47 9 0.14
48 1 0.02
49 32 0.48
ACGTcount: A:0.31, C:0.21, G:0.29, T:0.19
Consensus pattern (46 bp):
AGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTAAGGAAA
Found at i:85493 original size:64 final size:64
Alignment explanation
Indices: 85379--85956 Score: 460
Period size: 64 Copynumber: 9.1 Consensus size: 64
85369 AAAATGGTGA
* * * * * * * ** *
85379 TTTGAAAAGGGTTGCCACTGACTTGCGTGGGTTTTTAAAAGGGTTTCCACCGA-AAGTATGGAC
1 TTTGAAATGGGTTACCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTATGGGC
* * * * *
85442 TTTTGAAA-GAGGTTCCCATCAACTTGTGTGGGCTTTGAAAATGGTTGCCACCGACTTGTGTGGG
1 -TTTGAAATG-GGTTACCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTATGGG
85506 C
64 C
* * * *
85507 TTTGAAATGGGTTACCACCGACTTGTGTGGGGTTTGAAATGGGTTGCCATCGACTTCTATGGGC
1 TTTGAAATGGGTTACCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTATGGGC
* *
85571 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTACCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTATGGGC
* * * *
85635 TTTGAAATGGGTTGCCACCGACTTATGTGGGCTTTGAAATGGGTTACCACCGA-TT-TACGTGGG
1 TTTGAAATGGGTTACCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTA--TGGG
85698 C
64 C
* * *
85699 TTTGAAAT-AGTGT--CACCGACTTGTGTGGGCTTTG-AAATGG-TGCCACTGACTTG--TGGGC
1 TTTGAAATGGGT-TACCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTATGGGC
* * * * * *
85757 TTTAAAAAAGGTTGCCACCGACTTGCCACCGACTTGTGTAGGATTTGAAATGGGTTGCCACCGAC
1 TTT--GAAA---TG-----G-GTTACCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGAC
*
85822 TTGTGTGGGC
55 TTGTATGGGC
* * * *
85832 TTTGAAAT-AG-TGCCACCGACTTGTGTGGGCTTTG-AAATGG-TGCCACTGACTTG--TGGGC
1 TTTGAAATGGGTTACCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTATGGGC
* * * * * *
85890 TTTGAAAAGGGTTGCCACCGAC-T-TGTGGGCTTTG-AAA-GGATGCCACCAACTTGTGTGGAC
1 TTTGAAATGGGTTACCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTATGGGC
85950 TTTGAAA
1 TTTGAAA
85957 AGATGCCACT
Statistics
Matches: 424, Mismatches: 59, Indels: 66
0.77 0.11 0.12
Matches are distributed among these distances:
57 2 0.00
58 45 0.11
59 2 0.00
60 43 0.10
61 10 0.02
62 43 0.10
63 6 0.01
64 217 0.51
65 7 0.02
69 1 0.00
70 2 0.00
71 19 0.04
72 4 0.01
73 15 0.04
75 8 0.02
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (64 bp):
TTTGAAATGGGTTACCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTATGGGC
Found at i:85499 original size:32 final size:31
Alignment explanation
Indices: 85463--85781 Score: 394
Period size: 32 Copynumber: 10.2 Consensus size: 31
85453 GTTCCCATCA
85463 ACTTGTGTGGGCTTTGAAAATGGTTGCCACCG
1 ACTTGTGTGGGCTTTG-AAATGGTTGCCACCG
*
85495 ACTTGTGTGGGCTTTGAAATGGGTTACCACCG
1 ACTTGTGTGGGCTTTGAAAT-GGTTGCCACCG
* *
85527 ACTTGTGTGGGGTTTGAAATGGGTTGCCATCG
1 ACTTGTGTGGGCTTTGAAAT-GGTTGCCACCG
* *
85559 ACTTCTATGGGCTTTGAAATGGGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAAT-GGTTGCCACCG
*
85591 ACTTGTGTGGGCTTTGAAAAGGGTTGCCACCG
1 ACTTGTGTGGGCTTTG-AAATGGTTGCCACCG
85623 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAAT-GGTTGCCACCG
* *
85655 ACTTATGTGGGCTTTGAAATGGGTTACCACCG
1 ACTTGTGTGGGCTTTGAAAT-GGTTGCCACCG
* ** * *
85687 ATTTACGTGGGCTTTGAAATAG-TGTCACCG
1 ACTTGTGTGGGCTTTGAAATGGTTGCCACCG
*
85717 ACTTGTGTGGGCTTTGAAATGG-TGCCACTG
1 ACTTGTGTGGGCTTTGAAATGGTTGCCACCG
* *
85747 AC-T-TGTGGGCTTTAAAAAAGGTTGCCACCG
1 ACTTGTGTGGGCTTT-GAAATGGTTGCCACCG
85777 ACTTG
1 ACTTG
85782 CCACCGACTT
Statistics
Matches: 252, Mismatches: 28, Indels: 14
0.86 0.10 0.05
Matches are distributed among these distances:
28 10 0.04
29 6 0.02
30 41 0.16
31 9 0.04
32 183 0.73
33 3 0.01
ACGTcount: A:0.19, C:0.18, G:0.31, T:0.31
Consensus pattern (31 bp):
ACTTGTGTGGGCTTTGAAATGGTTGCCACCG
Found at i:85543 original size:96 final size:96
Alignment explanation
Indices: 85379--86031 Score: 540
Period size: 96 Copynumber: 6.9 Consensus size: 96
85369 AAAATGGTGA
* * * * * * ** * *
85379 TTTGAAAAGGGTTGCCACTGACTTGCGTGGGTTTTTAAAAGGGTTTCCACCGA-AAGTATGGACT
1 TTTGAAAATGGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTGTGGGC-
* * *
85443 TTTGAAAGAGGTTCCCATCAACTTGTGTGGGC
65 TTTGAAAGAGGTTGCCACCGACTTGTGTGGGC
* * *
85475 TTTGAAAATGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTACCACCGACTTGTGTGGGGT
1 TTTGAAAATGGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTGTGGGCT
* * *
85540 TTGAAATG-GGTTGCCATCGACTTCTATGGGC
66 TTGAAA-GAGGTTGCCACCGACTTGTGTGGGC
85571 TTTG-AAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAAAT-GGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
*
85635 TTTGAAATG-GGTTGCCACCGACTTATGTGGGC
65 TTTGAAA-GAGGTTGCCACCGACTTGTGTGGGC
* * ** *
85667 TTTG-AAATGGGTTACCACCGATTTACGTGGGCTTTGAAATA--G-TGTCACCGACTTGTGTGGG
1 TTTGAAAAT-GGTTGCCACCGACTTGTGTGGGCTTTGAAA-AGGGTTGCCACCGACTTGTGTGGG
* *
85728 CTTTGAAA-TGG-TGCCACTGAC-T-TGTGGGC
64 CTTTGAAAGAGGTTGCCACCGACTTGTGTGGGC
* * * *
85757 TTTAAAAAAGGTTGCCACCGACTTGCCACCGACTTGTGTAGGATTTGAAATGGGTTGCCACCGAC
1 TTT-GAAAA---TG-----G--TTGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGAC
*
85822 TTGTGTGGGCTTTGAAATA-G-TGCCACCGACTTGTGTGGGC
55 TTGTGTGGGCTTTGAAAGAGGTTGCCACCGACTTGTGTGGGC
*
85862 TTTG-AAATGG-TGCCACTGAC-T-TGTGGGCTTTGAAAAGGGTTGCCACCGAC-T-TGTGGGCT
1 TTTGAAAATGGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTGTGGGCT
* * *
85921 TTG-AA-AGGATGCCACCAACTTGTGTGGAC
66 TTGAAAGAGGTTGCCACCGACTTGTGTGGGC
* * * **
85950 TTTGAAAA--GATGCCACTGAC-T-TGTGGGCTTTGAAAA--GATGCCACTAAC-T-TGTGGGCT
1 TTTGAAAATGGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTGTGGGCT
* **
86007 TTGAAAAAGG-TGCCACTAACTTGTG
66 TTGAAAGAGGTTGCCACCGACTTGTG
86032 GGCTTTAGAA
Statistics
Matches: 478, Mismatches: 50, Indels: 67
0.80 0.08 0.11
Matches are distributed among these distances:
86 22 0.05
87 20 0.04
88 62 0.13
89 4 0.01
90 36 0.08
91 2 0.00
92 21 0.04
93 2 0.00
94 27 0.06
95 7 0.01
96 192 0.40
97 7 0.01
99 1 0.00
100 2 0.00
101 22 0.05
102 1 0.00
103 39 0.08
104 1 0.00
105 10 0.02
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (96 bp):
TTTGAAAATGGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTGTGGGCT
TTGAAAGAGGTTGCCACCGACTTGTGTGGGC
Found at i:85784 original size:11 final size:11
Alignment explanation
Indices: 85768--85792 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
85758 TTAAAAAAGG
85768 TTGCCACCGAC
1 TTGCCACCGAC
85779 TTGCCACCGAC
1 TTGCCACCGAC
85790 TTG
1 TTG
85793 TGTAGGATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.40, G:0.20, T:0.24
Consensus pattern (11 bp):
TTGCCACCGAC
Found at i:85810 original size:133 final size:133
Alignment explanation
Indices: 85646--85914 Score: 448
Period size: 133 Copynumber: 2.0 Consensus size: 133
85636 TTGAAATGGG
* * *
85646 TTGCCACCGACTTATGTGGGCTTTGAAATGGGTTACCACCGATTTACGTGGGCTTTGAAATAGTG
1 TTGCCACCGACTTATGTAGGATTTGAAATGGGTTACCACCGACTTACGTGGGCTTTGAAATAGTG
*
85711 TCACCGACTTGTGTGGGCTTTGAAATGGTGCCACTGACTTGTGGGCTTTAAAAAAGGTTGCCACC
66 CCACCGACTTGTGTGGGCTTTGAAATGGTGCCACTGACTTGTGGGCTTTAAAAAAGGTTGCCACC
85776 GAC
131 GAC
* * **
85779 TTGCCACCGACTTGTGTAGGATTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATAGTG
1 TTGCCACCGACTTATGTAGGATTTGAAATGGGTTACCACCGACTTACGTGGGCTTTGAAATAGTG
* *
85844 CCACCGACTTGTGTGGGCTTTGAAATGGTGCCACTGACTTGTGGGCTTTGAAAAGGGTTGCCACC
66 CCACCGACTTGTGTGGGCTTTGAAATGGTGCCACTGACTTGTGGGCTTTAAAAAAGGTTGCCACC
85909 GAC
131 GAC
85912 TTG
1 TTG
85915 TGGGCTTTGA
Statistics
Matches: 126, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
133 126 1.00
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.30
Consensus pattern (133 bp):
TTGCCACCGACTTATGTAGGATTTGAAATGGGTTACCACCGACTTACGTGGGCTTTGAAATAGTG
CCACCGACTTGTGTGGGCTTTGAAATGGTGCCACTGACTTGTGGGCTTTAAAAAAGGTTGCCACC
GAC
Found at i:85848 original size:30 final size:30
Alignment explanation
Indices: 85780--86061 Score: 235
Period size: 30 Copynumber: 9.5 Consensus size: 30
85770 GCCACCGACT
* * * *
85780 TGCCACCGACTTGTGTAGGATTTGAAATGGGT
1 TGCCACCGACTTGTGTGGGCTTTGAAA--AGA
85812 TGCCACCGACTTGTGTGGGCTTTGAAATAG-
1 TGCCACCGACTTGTGTGGGCTTTGAAA-AGA
* *
85842 TGCCACCGACTTGTGTGGGCTTTGAAATGG
1 TGCCACCGACTTGTGTGGGCTTTGAAAAGA
* *
85872 TGCCACTGAC-T-TGTGGGCTTTGAAAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTGAAAA--GA
*
85902 TGCCACCGAC-T-TGTGGGCTTTGAAAGGA
1 TGCCACCGACTTGTGTGGGCTTTGAAAAGA
* *
85930 TGCCACCAACTTGTGTGGACTTTGAAAAGA
1 TGCCACCGACTTGTGTGGGCTTTGAAAAGA
*
85960 TGCCACTGAC-T-TGTGGGCTTTGAAAAGA
1 TGCCACCGACTTGTGTGGGCTTTGAAAAGA
** *
85988 TGCCACTAAC-T-TGTGGGCTTTGAAAAAGG
1 TGCCACCGACTTGTGTGGGCTTTG-AAAAGA
** **
86017 TGCCACTAAC-T-TGTGGGCTTTAGAAGGGAA
1 TGCCACCGACTTGTGTGGGCTTT-GAAAAG-A
*
86047 TGCCACCGCCTTGTG
1 TGCCACCGACTTGTG
86062 GACTTAAAAA
Statistics
Matches: 215, Mismatches: 25, Indels: 20
0.83 0.10 0.08
Matches are distributed among these distances:
28 61 0.28
29 33 0.15
30 92 0.43
31 2 0.01
32 27 0.13
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (30 bp):
TGCCACCGACTTGTGTGGGCTTTGAAAAGA
Found at i:85850 original size:73 final size:71
Alignment explanation
Indices: 85712--85914 Score: 198
Period size: 71 Copynumber: 3.0 Consensus size: 71
85702 GAAATAGTGT
* * *
85712 CACCGACTTGTGTGGGCTTTGAAATGGTGCCACTGACTTGTGGGCTTTAAAAAAGGTTGCCACCG
1 CACCGACTTGTGTAGGATTTGAAATGGTGCCACCGACTTGTGGGCTTTAAAAAAGGTTGCCACCG
85777 ACTTGC
66 ACTTGC
* *
85783 CACCGACTTGTGTAGGATTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATA-G-TGCC
1 CACCGACTTGTGTAGGATTTGAAAT-GG-TGCCACCGAC-T-TGTGGGCTTTAAAAAAGGTTGCC
85846 ACCGACTT--
62 ACCGACTTGC
* * * *
85854 ----G---TGTG--GGCTTTGAAATGGTGCCACTGACTTGTGGGCTTTGAAAAGGGTTGCCACCG
1 CACCGACTTGTGTAGGATTTGAAATGGTGCCACCGACTTGTGGGCTTTAAAAAAGGTTGCCACCG
85910 ACTTG
66 ACTTG
85915 TGGGCTTTGA
Statistics
Matches: 116, Mismatches: 9, Indels: 24
0.78 0.06 0.16
Matches are distributed among these distances:
58 14 0.12
59 2 0.02
60 21 0.18
61 2 0.02
62 10 0.09
64 4 0.03
67 1 0.01
71 23 0.20
72 2 0.02
73 21 0.18
74 2 0.02
75 14 0.12
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (71 bp):
CACCGACTTGTGTAGGATTTGAAATGGTGCCACCGACTTGTGGGCTTTAAAAAAGGTTGCCACCG
ACTTGC
Found at i:85942 original size:88 final size:88
Alignment explanation
Indices: 85780--86031 Score: 305
Period size: 88 Copynumber: 2.8 Consensus size: 88
85770 GCCACCGACT
* * * *
85780 TGCCACCGACTTGTGTAGGATTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAA-TAGTG
1 TGCCACTGACTTGTG--GGCTTTGAAAAGGGTTGCCACCGAC-T-TGTGGGCTTTGAAAGGA-TG
* * * *
85844 CCACCGACTTGTGTGGGCTTTGAAATGG
61 CCACCAACTTGTGTGGACTTTGAAAAGA
85872 TGCCACTGACTTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTGGGCTTTGAAAGGATGCCACC
1 TGCCACTGACTTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTGGGCTTTGAAAGGATGCCACC
85937 AACTTGTGTGGACTTTGAAAAGA
66 AACTTGTGTGGACTTTGAAAAGA
* **
85960 TGCCACTGACTTGTGGGCTTTGAAAA--GATGCCACTAACTTGTGGGCTTTGAAAAAGG-TGCCA
1 TGCCACTGACTTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTGGGCTTTG--AAAGGATGCCA
*
86022 CTAACTTGTG
64 CCAACTTGTG
86032 GGCTTTAGAA
Statistics
Matches: 145, Mismatches: 12, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
86 21 0.14
87 14 0.10
88 71 0.49
89 2 0.01
90 23 0.16
92 14 0.10
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (88 bp):
TGCCACTGACTTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTGGGCTTTGAAAGGATGCCACC
AACTTGTGTGGACTTTGAAAAGA
Found at i:86062 original size:30 final size:28
Alignment explanation
Indices: 85780--86653 Score: 267
Period size: 28 Copynumber: 30.9 Consensus size: 28
85770 GCCACCGACT
* * *
85780 TGCCACCGACTTGTGTAGGATTTGAAATGGGT
1 TGCCACTGACTTGTG--GGCTTTGAAA--GGA
* *
85812 TGCCACCGACTTGTGTGGGCTTTGAAA-TA
1 TGCCACTGAC-T-TGTGGGCTTTGAAAGGA
*
85841 GTGCCACCGACTTGTGTGGGCTTTGAAATGG-
1 -TGCCACTGAC-T-TGTGGGCTTTGAAA-GGA
*
85872 TGCCACTGACTTGTGGGCTTTGAAAAGGGT
1 TGCCACTGACTTGTGGGCTTTG-AAA-GGA
*
85902 TGCCACCGACTTGTGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
** *
85930 TGCCACCAACTTGTGTGGACTTTGAAAAGA
1 TGCCACTGACTTGTG-GG-CTTTGAAAGGA
*
85960 TGCCACTGACTTGTGGGCTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
*
85988 TGCCACTAACTTGTGGGCTTTGAAAAAGG-
1 TGCCACTGACTTGTGGGCTTTG--AAAGGA
* *
86017 TGCCACTAACTTGTGGGCTTTAGAAGGGAA
1 TGCCACTGACTTGTGGGCTTT-GAAAGG-A
* * * ** *
86047 TGCCACCGCCTTGTGGACTTAAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* ** *
86075 TGCCAC-GAAGTTGTGAAC-TTAAAAGGGA
1 TGCCACTG-ACTTGTGGGCTTTGAAA-GGA
* * * *
86103 TGCCACGGAGTTGT-GGATTTAAAAGGGA
1 TGCCACTGACTTGTGGGCTTTGAAA-GGA
* * * * *** *
86131 TGCCACGGAGTTGTAGACTCAAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * * *
86159 TGCCACGGAGTTGTGGACTTTAAAAGTG-
1 TGCCACTGACTTGTGGGCTTTGAAAG-GA
* * * **
86187 TGCCACAGAGTTGTGGACTTAAAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * * *** *
86215 TGCCACGGAGTTGTGGACTCAAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * * * *
86243 TGCCACGGAGTTGTGGACTTTAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * * *
86271 TGCCACAGAGTTGTGGAC-TTAAAAGGGA
1 TGCCACTGACTTGTGGGCTTTGAAA-GGA
* * * * * *
86299 TGCCACAGAGTTATGGAC-TTAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * * * *
86326 TGCCACGGAGTTGTGGAC-TTAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * * *
86353 TGCCACGGAGTTGTGGAC-TTAAAAGGGA
1 TGCCACTGACTTGTGGGCTTTGAAA-GGA
* * * *
86381 TGCCACGGAGTTGTGGAC-TTAAAAGGGA
1 TGCCACTGACTTGTGGGCTTTGAAA-GGA
* * * * *
86409 TGCCACGGAGTTGTGGACTTTAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * * *
86437 TGCCACGGAGTTGTGGAC-TTAAAAGGGA
1 TGCCACTGACTTGTGGGCTTTGAAA-GGA
* * * * *
86465 TGCCACGGAGTTGTGGAC-TTAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * * * *
86492 TGCCACGGAGTTGTGGAC-TTAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * * *
86519 TGCCACGGAGTTGTGGAC-TTAAAAGGGA
1 TGCCACTGACTTGTGGGCTTTGAAA-GGA
* * * *
86547 TGCCACGGAGTTGTGGAC-TTAAAAGGGA
1 TGCCACTGACTTGTGGGCTTTGAAA-GGA
* * * * *
86575 TGCCACGGAGTTGTGGAC-TTAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * * * *
86602 TGCCACGGAATTGTGGAC-TTAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
86629 TGCCACGGAGTTGTGGACTTT-AAAG
1 TGCCACTGACTTGTGGGCTTTGAAAG
86654 AGGTCACAGT
Statistics
Matches: 755, Mismatches: 60, Indels: 59
0.86 0.07 0.07
Matches are distributed among these distances:
27 172 0.23
28 406 0.54
29 52 0.07
30 101 0.13
32 19 0.03
33 1 0.00
34 4 0.01
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (28 bp):
TGCCACTGACTTGTGGGCTTTGAAAGGA
Found at i:86088 original size:28 final size:27
Alignment explanation
Indices: 86057--86653 Score: 933
Period size: 28 Copynumber: 21.6 Consensus size: 27
86047 TGCCACCGCC
*
86057 TTGTGGACTTAAAAAGGGTGCCACGAAG
1 TTGTGGACTT-AAAAGGGTGCCACGGAG
*
86085 TTGTGAACTTAAAAGGGATGCCACGGAG
1 TTGTGGACTTAAAAGGG-TGCCACGGAG
*
86113 TTGTGGATTTAAAAGGGATGCCACGGAG
1 TTGTGGACTTAAAAGGG-TGCCACGGAG
* *
86141 TTGTAGACTCAAAAAGGGTGCCACGGAG
1 TTGTGGACT-TAAAAGGGTGCCACGGAG
* *
86169 TTGTGGACTTTAAAAGTGTGCCACAGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
*
86197 TTGTGGACTTAAAAAGGATGCCACGGAG
1 TTGTGGACTT-AAAAGGGTGCCACGGAG
*
86225 TTGTGGACTCAAAAAGGGTGCCACGGAG
1 TTGTGGACT-TAAAAGGGTGCCACGGAG
*
86253 TTGTGGACTTTAAAAGGGTGCCACAGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
*
86281 TTGTGGACTTAAAAGGGATGCCACAGAG
1 TTGTGGACTTAAAAGGG-TGCCACGGAG
*
86309 TTATGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
86336 TTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
86363 TTGTGGACTTAAAAGGGATGCCACGGAG
1 TTGTGGACTTAAAAGGG-TGCCACGGAG
86391 TTGTGGACTTAAAAGGGATGCCACGGAG
1 TTGTGGACTTAAAAGGG-TGCCACGGAG
86419 TTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
86447 TTGTGGACTTAAAAGGGATGCCACGGAG
1 TTGTGGACTTAAAAGGG-TGCCACGGAG
86475 TTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
86502 TTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
86529 TTGTGGACTTAAAAGGGATGCCACGGAG
1 TTGTGGACTTAAAAGGG-TGCCACGGAG
86557 TTGTGGACTTAAAAGGGATGCCACGGAG
1 TTGTGGACTTAAAAGGG-TGCCACGGAG
*
86585 TTGTGGACTTAAAAGGGTGCCACGGAA
1 TTGTGGACTTAAAAGGGTGCCACGGAG
86612 TTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
*
86639 TTGTGGACTTTAAAG
1 TTGTGGACTTAAAAG
86654 AGGTCACAGT
Statistics
Matches: 534, Mismatches: 24, Indels: 23
0.92 0.04 0.04
Matches are distributed among these distances:
27 182 0.34
28 334 0.63
29 18 0.03
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.23
Consensus pattern (27 bp):
TTGTGGACTTAAAAGGGTGCCACGGAG
Found at i:86415 original size:166 final size:164
Alignment explanation
Indices: 86057--86653 Score: 980
Period size: 166 Copynumber: 3.6 Consensus size: 164
86047 TGCCACCGCC
* * *
86057 TTGTGGACTTAAAAAGGGTGCCACGAAGTTGTGAACTTAAAAGGGATGCCACGGAGTTGTGGATT
1 TTGTGGACTT-AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACT
* * *
86122 TAAAAGGGATGCCACGGAGTTGTAGACTCAAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGTG
64 TAAAAGGGATGCCACGGAGTTGTGGACT-TAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGG
* *
86187 TGCCACAGAGTTGTGGACTTAAAAAGGATGCCACGGAG
127 TGCCACGGAGTTGTGGACTTAAAAGGGATGCCACGGAG
* *
86225 TTGTGGACTCAAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACT
1 TTGTGGACT-TAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACT
* *
86290 TAAAAGGGATGCCACAGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTG
64 TAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTG
86355 CCACGGAGTTGTGGACTTAAAAGGGATGCCACGGAG
129 CCACGGAGTTGTGGACTTAAAAGGGATGCCACGGAG
86391 TTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACT
1 TTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACT
86456 TAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTG
64 TAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTG
86521 CCACGGAGTTGTGGACTTAAAAGGGATGCCACGGAG
129 CCACGGAGTTGTGGACTTAAAAGGGATGCCACGGAG
*
86557 TTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAATTGTGGACTT
1 TTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT
*
86622 AAAAGGG-TGCCACGGAGTTGTGGACTTTAAAG
65 AAAAGGGATGCCACGGAGTTGTGGACTTAAAAG
86654 AGGTCACAGT
Statistics
Matches: 408, Mismatches: 18, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
164 24 0.06
165 42 0.10
166 234 0.57
167 25 0.06
168 74 0.18
169 9 0.02
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.23
Consensus pattern (164 bp):
TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTA
AAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
ACGGAGTTGTGGACTTAAAAGGGATGCCACGGAG
Found at i:89442 original size:15 final size:15
Alignment explanation
Indices: 89422--89452 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
89412 TAAAAATGTC
*
89422 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
89437 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
89452 C
1 C
89453 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:91536 original size:20 final size:21
Alignment explanation
Indices: 91466--91542 Score: 68
Period size: 20 Copynumber: 3.6 Consensus size: 21
91456 ATGTCCAAAA
*
91466 TGTATCGATACATGTTTTTG-
1 TGTATCGATACATCTTTTTGT
** *
91486 TGTATCGATACATCTGGAAATTCT
1 TGTATCGATACATCT---TTTTGT
91510 ATGTATCGATACAT-TTTTTGT
1 -TGTATCGATACATCTTTTTGT
91531 TGTATCGATACA
1 TGTATCGATACA
91543 ATGTATCGAT
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
20 26 0.58
21 3 0.07
23 2 0.04
24 1 0.02
25 13 0.29
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.44
Consensus pattern (21 bp):
TGTATCGATACATCTTTTTGT
Found at i:91549 original size:13 final size:13
Alignment explanation
Indices: 91531--91568 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
91521 CATTTTTTGT
91531 TGTATCGATACAA
1 TGTATCGATACAA
*
91544 TGTATCGATACAC
1 TGTATCGATACAA
91557 TGTATCGATACA
1 TGTATCGATACA
91569 GGGTGATTAT
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:94034 original size:20 final size:20
Alignment explanation
Indices: 94011--94084 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
94001 ACAATTCAAA
94011 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
94031 GTATCGATACATGAAAAAAAAT
1 GTATCGATACATG--TTGCAAT
94053 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
*
94073 GTATCAATACAT
1 GTATCGATACAT
94085 AAAAAAGATG
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
20 27 0.63
22 16 0.37
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:94101 original size:41 final size:42
Alignment explanation
Indices: 94011--94105 Score: 165
Period size: 42 Copynumber: 2.3 Consensus size: 42
94001 ACAATTCAAA
*
94011 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAAAAT
1 GTATCGATACATGTTGCAATGTATCAATACATGAAAAAAAAT
*
94053 GTATCGATACATGTTGCAATGTATCAATACAT-AAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCAATACATGAAAAAAAAT
94094 GTATCGATACAT
1 GTATCGATACAT
94106 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
41 20 0.39
42 31 0.61
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (42 bp):
GTATCGATACATGTTGCAATGTATCAATACATGAAAAAAAAT
Found at i:94162 original size:13 final size:13
Alignment explanation
Indices: 94144--94169 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
94134 TACAGCAAGT
94144 ATGTATCGATACA
1 ATGTATCGATACA
94157 ATGTATCGATACA
1 ATGTATCGATACA
94170 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:95138 original size:16 final size:17
Alignment explanation
Indices: 95097--95141 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
95087 TCCCTTTTTA
95097 TTTTGCTTTTGCACTTT
1 TTTTGCTTTTGCACTTT
*
95114 TTTTTCTTTT-CA-TTT
1 TTTTGCTTTTGCACTTT
95129 TTTATGCTTTTGC
1 TTT-TGCTTTTGC
95142 TTTTGACTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 6 0.25
16 8 0.33
17 10 0.42
ACGTcount: A:0.07, C:0.16, G:0.09, T:0.69
Consensus pattern (17 bp):
TTTTGCTTTTGCACTTT
Found at i:102242 original size:20 final size:20
Alignment explanation
Indices: 102195--102269 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
102185 AAAAAGACAT
*
102195 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
102214 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
102235 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
102255 AATGTATCGATACAT
1 AATGTATCGATACAT
102270 CAAGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:102263 original size:40 final size:39
Alignment explanation
Indices: 102192--102269 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
102182 GGTAAAAAGA
* *
102192 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
102231 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
102270 CAAGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:107770 original size:8 final size:8
Alignment explanation
Indices: 107757--107782 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
107747 ATTTGATTAA
107757 ATTTTGTG
1 ATTTTGTG
107765 ATTTTGTG
1 ATTTTGTG
107773 ATTTTGTG
1 ATTTTGTG
107781 AT
1 AT
107783 GAATGATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.23, T:0.62
Consensus pattern (8 bp):
ATTTTGTG
Found at i:107988 original size:47 final size:50
Alignment explanation
Indices: 107899--107996 Score: 132
Period size: 47 Copynumber: 2.0 Consensus size: 50
107889 AGGGTCAAAT
*
107899 TCTGGAAAAATTCTAGAATGTATCGATACAGGTTCAAATGTATCGATACA
1 TCTGGAAAAATTCTAGAATGTATCGATACAGATTCAAATGTATCGATACA
**
107949 TCTGGAAAAA-TC-AGAA-GTATCGATACAGCATTC-TCTGTATCGATACA
1 TCTGGAAAAATTCTAGAATGTATCGATACAG-ATTCAAATGTATCGATACA
107996 T
1 T
107997 TGTATCGATA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
47 25 0.57
48 7 0.16
49 2 0.05
50 10 0.23
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (50 bp):
TCTGGAAAAATTCTAGAATGTATCGATACAGATTCAAATGTATCGATACA
Found at i:108002 original size:13 final size:13
Alignment explanation
Indices: 107984--108021 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
107974 CAGCATTCTC
*
107984 TGTATCGATACAT
1 TGTATCGATACAG
107997 TGTATCGATACAG
1 TGTATCGATACAG
*
108010 TGTGTCGATACA
1 TGTATCGATACA
108022 AAGGGTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:110348 original size:22 final size:21
Alignment explanation
Indices: 110318--110363 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
110308 CTAGATAAGT
110318 ATAAATG-TTTTCAAGGCTTAAA
1 ATAAATGTTTTTCAA-G-TTAAA
*
110340 ATAAGTGTTTTTCAAGTTAAA
1 ATAAATGTTTTTCAAGTTAAA
110361 ATA
1 ATA
110364 TATCAAAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 8 0.36
22 7 0.32
23 7 0.32
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.39
Consensus pattern (21 bp):
ATAAATGTTTTTCAAGTTAAA
Found at i:110465 original size:20 final size:20
Alignment explanation
Indices: 110432--110472 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
110422 AAAGGTCAAA
*
110432 ACCTTGAAAAGTATCGATAC
1 ACCTTCAAAAGTATCGATAC
*
110452 ACCTTCAAATGTATCGATAC
1 ACCTTCAAAAGTATCGATAC
110472 A
1 A
110473 GATTGCACAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (20 bp):
ACCTTCAAAAGTATCGATAC
Found at i:110505 original size:20 final size:21
Alignment explanation
Indices: 110482--110533 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
110472 AGATTGCACA
**
110482 GTATCGATACATG-ACCAAAT
1 GTATCGATACATGTAAAAAAT
*
110502 GTATCGATACTTGTAAAAAAT
1 GTATCGATACATGTAAAAAAT
110523 GTATCGATACA
1 GTATCGATACA
110534 GGTCATTGGC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 12 0.44
21 15 0.56
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.29
Consensus pattern (21 bp):
GTATCGATACATGTAAAAAAT
Found at i:110611 original size:13 final size:13
Alignment explanation
Indices: 110593--110618 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
110583 TACACACAAG
110593 ATGTATCGATACA
1 ATGTATCGATACA
110606 ATGTATCGATACA
1 ATGTATCGATACA
110619 TCCCAAAATG
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:110635 original size:33 final size:32
Alignment explanation
Indices: 110575--110638 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
110565 CTTAACTGTT
*
110575 TGTATCGATACACACAAGATGTATCGATACAA
1 TGTATCGATACACACAAAATGTATCGATACAA
*
110607 TGTATCGATACATCCCAAAATGTATCGATACA
1 TGTATCGATACA-CACAAAATGTATCGATACA
110639 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (32 bp):
TGTATCGATACACACAAAATGTATCGATACAA
Found at i:112989 original size:12 final size:10
Alignment explanation
Indices: 112957--112998 Score: 61
Period size: 10 Copynumber: 4.4 Consensus size: 10
112947 AAGAAAGAAT
112957 AAGAGAAAAG
1 AAGAGAAAAG
112967 AAGAGAAAAG
1 AAGAGAAAAG
*
112977 AAGAGGAAA-
1 AAGAGAAAAG
112986 AAGA-AAAAG
1 AAGAGAAAAG
112995 AAGA
1 AAGA
112999 ACACAGAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 3 0.10
9 8 0.28
10 18 0.62
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (10 bp):
AAGAGAAAAG
Found at i:112995 original size:18 final size:19
Alignment explanation
Indices: 112947--112998 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
112937 AGAGAGGATT
*
112947 AAGAAAGAATAAGAGAAAAG
1 AAGAAA-AAGAAGAGAAAAG
*
112967 AAGAGAAAAGAAGAGGAAA-
1 AAGA-AAAAGAAGAGAAAAG
112986 AAGAAAAAGAAGA
1 AAGAAAAAGAAGA
112999 ACACAGAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 9 0.31
19 4 0.14
20 14 0.48
21 2 0.07
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.02
Consensus pattern (19 bp):
AAGAAAAAGAAGAGAAAAG
Found at i:118148 original size:11 final size:11
Alignment explanation
Indices: 118134--118167 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
118124 AAAAGAATAT
118134 AAAAAAATAAA
1 AAAAAAATAAA
*
118145 AAAAAAAGAAA
1 AAAAAAATAAA
118156 AGAAAAAATAAA
1 A-AAAAAATAAA
118168 TGGCATAGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.88, C:0.00, G:0.06, T:0.06
Consensus pattern (11 bp):
AAAAAAATAAA
Found at i:118290 original size:16 final size:16
Alignment explanation
Indices: 118269--118303 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
118259 AAAAAGTTAT
*
118269 AAAAAATAGAAAAATA
1 AAAAAAGAGAAAAATA
*
118285 AAAAAAGATAAAAATA
1 AAAAAAGAGAAAAATA
118301 AAA
1 AAA
118304 CAACTTTCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.06, T:0.11
Consensus pattern (16 bp):
AAAAAAGAGAAAAATA
Found at i:120169 original size:20 final size:20
Alignment explanation
Indices: 120139--120188 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
120129 ATAATGAAGA
*
120139 TTATGACAGAATGTCACAAG
1 TTATAACAGAATGTCACAAG
* *
120159 TTGTAACAGAATGTTACAAG
1 TTATAACAGAATGTCACAAG
120179 TTATAACAGA
1 TTATAACAGA
120189 TTCAGTGACA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.28
Consensus pattern (20 bp):
TTATAACAGAATGTCACAAG
Found at i:120491 original size:18 final size:18
Alignment explanation
Indices: 120464--120500 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
120454 TGCCTATTGC
120464 TGCCTAATTTTCAAGGAT
1 TGCCTAATTTTCAAGGAT
*
120482 TGCCTGATTTTCAAGGAT
1 TGCCTAATTTTCAAGGAT
120500 T
1 T
120501 TAGTTTTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (18 bp):
TGCCTAATTTTCAAGGAT
Found at i:120577 original size:13 final size:13
Alignment explanation
Indices: 120559--120585 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
120549 AAGATTTGAG
120559 ATTTTTTTATTTT
1 ATTTTTTTATTTT
120572 ATTTTTTTATTTT
1 ATTTTTTTATTTT
120585 A
1 A
120586 ATTGAGTTTA
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:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (13 bp):
ATTTTTTTATTTT
Found at i:120684 original size:23 final size:24
Alignment explanation
Indices: 120638--120685 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
120628 TTTAGTTAAA
*
120638 ATTAAATAGATTTTTAAATATTTT
1 ATTAAATAGATTTTAAAATATTTT
*
120662 ATTAAATATATTTTAAAAT-TTTT
1 ATTAAATAGATTTTAAAATATTTT
120685 A
1 A
120686 AATATTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
ATTAAATAGATTTTAAAATATTTT
Found at i:121087 original size:16 final size:16
Alignment explanation
Indices: 121049--121108 Score: 50
Period size: 16 Copynumber: 3.8 Consensus size: 16
121039 CAAACTCGAA
* * *
121049 CCCGAACTTGAAAAAA
1 CCCGAACTCGAATAAG
*
121065 CCTGAACTCGAATAAG
1 CCCGAACTCGAATAAG
* *
121081 TCCGAACAT-GTATAAG
1 CCCGAAC-TCGAATAAG
121097 CCCGAACTCGAA
1 CCCGAACTCGAA
121109 CGAGCTCGAA
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
15 1 0.03
16 31 0.94
17 1 0.03
ACGTcount: A:0.40, C:0.27, G:0.17, T:0.17
Consensus pattern (16 bp):
CCCGAACTCGAATAAG
Found at i:121118 original size:16 final size:16
Alignment explanation
Indices: 121107--121178 Score: 72
Period size: 16 Copynumber: 4.5 Consensus size: 16
121097 CCCGAACTCG
* * *
121107 AACGAGCTCGAATCTA
1 AACGAACTCGAACCCA
*
121123 AACGAGCTCGAACCCA
1 AACGAACTCGAACCCA
* *
121139 AACGAATTCGAACCCG
1 AACGAACTCGAACCCA
* *
121155 AATGAACTCGAACCTA
1 AACGAACTCGAACCCA
121171 AACGAACT
1 AACGAACT
121179 TAAATCCAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.40, C:0.29, G:0.17, T:0.14
Consensus pattern (16 bp):
AACGAACTCGAACCCA
Found at i:122006 original size:2 final size:2
Alignment explanation
Indices: 121999--122038 Score: 62
Period size: 2 Copynumber: 19.5 Consensus size: 2
121989 ATTTTCCAGT
*
121999 TA TA TA TA TA TA TA CA TA TA TA TA TA TA TA TA TA TGA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
122039 TGAACCATTG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 33 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:122465 original size:26 final size:27
Alignment explanation
Indices: 122410--122479 Score: 67
Period size: 27 Copynumber: 2.6 Consensus size: 27
122400 TAATTTTATT
*
122410 TATTTA-ATATATAAAATATTATATATA
1 TATTTATATAT-TAAAATATTATATAAA
122437 TATTTATATATTAAAAGTATT-TA-AAA
1 TATTTATATATTAAAA-TATTATATAAA
122463 TA-TTACTATATTTAAAA
1 TATTTA-TATA-TTAAAA
122480 AAATACGTCA
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
25 3 0.08
26 8 0.21
27 19 0.50
28 8 0.21
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (27 bp):
TATTTATATATTAAAATATTATATAAA
Found at i:123007 original size:2 final size:2
Alignment explanation
Indices: 123000--123033 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
122990 TCTTTCATTA
123000 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
123034 TCTACACTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:127818 original size:13 final size:14
Alignment explanation
Indices: 127795--127830 Score: 51
Period size: 11 Copynumber: 2.8 Consensus size: 14
127785 ACATAGATTA
127795 ATTATTTTAAATAT
1 ATTATTTTAAATAT
127809 ATTA-TTT-AA-AT
1 ATTATTTTAAATAT
127820 ATTATTTTAAA
1 ATTATTTTAAA
127831 ATAAAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
11 6 0.30
12 5 0.25
13 5 0.25
14 4 0.20
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
ATTATTTTAAATAT
Found at i:127832 original size:13 final size:13
Alignment explanation
Indices: 127795--127833 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
127785 ACATAGATTA
127795 ATTATTTTAAATAT
1 ATTATTTTAAA-AT
127809 ATTA-TTT-AAAT
1 ATTATTTTAAAAT
127820 ATTATTTTAAAAT
1 ATTATTTTAAAAT
127833 A
1 A
127834 AAAAAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
11 6 0.26
12 5 0.22
13 8 0.35
14 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTATTTTAAAAT
Found at i:129718 original size:22 final size:22
Alignment explanation
Indices: 129689--129742 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
129679 TACTATTCAC
*
129689 CACTGTTCATGTATCGATACAT
1 CACTGTTCATGCATCGATACAT
*
129711 TACTGTTCATGCATCGATACAT
1 CACTGTTCATGCATCGATACAT
129733 CACTGTTCAT
1 CACTGTTCAT
129743 CACTAGACAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (22 bp):
CACTGTTCATGCATCGATACAT
Found at i:129801 original size:85 final size:84
Alignment explanation
Indices: 129689--129878 Score: 238
Period size: 85 Copynumber: 2.3 Consensus size: 84
129679 TACTATTCAC
* *
129689 CACTGTTCATGTATCGATACATTACTGTTCATGCATCGATACATCACTGTTCATCACTAGACATT
1 CACTATTCATGTATCGATACATCACTGTTCATGCATCGATACATCACTGTTCATCA-TAGACATT
* *
129754 GAGCCCAATGGCTATAATTT
65 GAGCCCAACGGCGATAATTT
* * * * **
129774 CACTATTCATGTATCGATACATCACTGTTCATGTATTGATACATCATTGTTCATTATATCCATTG
1 CACTATTCATGTATCGATACATCACTGTTCATGCATCGATACATCACTGTTCATCATAGACATTG
*
129839 AGCCTAACGGCGATAATTT
66 AGCCCAACGGCGATAATTT
* * *
129858 CA-AATACATGTATTGATACAT
1 CACTATTCATGTATCGATACAT
129879 TATGAATTGT
Statistics
Matches: 91, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
83 16 0.18
84 25 0.27
85 50 0.55
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (84 bp):
CACTATTCATGTATCGATACATCACTGTTCATGCATCGATACATCACTGTTCATCATAGACATTG
AGCCCAACGGCGATAATTT
Found at i:129804 original size:22 final size:22
Alignment explanation
Indices: 129773--129827 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
129763 GGCTATAATT
*
129773 TCACTATTCATGTATCGATACA
1 TCACTGTTCATGTATCGATACA
*
129795 TCACTGTTCATGTATTGATACA
1 TCACTGTTCATGTATCGATACA
*
129817 TCATTGTTCAT
1 TCACTGTTCAT
129828 TATATCCATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.42
Consensus pattern (22 bp):
TCACTGTTCATGTATCGATACA
Found at i:130306 original size:31 final size:31
Alignment explanation
Indices: 130267--130380 Score: 115
Period size: 31 Copynumber: 3.5 Consensus size: 31
130257 AAGTGATTGA
*
130267 GAGG-TCTATCTTAGCCCGTGAAAATATAGG
1 GAGGTTCTATCTTAGCCCGTGAAAAGATAGG
***
130297 GAGGTTCTATCTTAGCTTTTGAAAAAGATAGGGAG
1 GAGGTTCTATCTTAGCCCGTG-AAAAGATA--G-G
*
130332 AGAGGTTCTATCTTAGCTCGTGAAAAGATA-G
1 -GAGGTTCTATCTTAGCCCGTGAAAAGATAGG
130363 GAGGTTTCTATCTTAGCC
1 GAGG-TTCTATCTTAGCC
130381 TTGAAAGATA
Statistics
Matches: 70, Mismatches: 7, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
30 8 0.11
31 26 0.37
32 7 0.10
34 1 0.01
35 9 0.13
36 19 0.27
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (31 bp):
GAGGTTCTATCTTAGCCCGTGAAAAGATAGG
Found at i:131995 original size:21 final size:21
Alignment explanation
Indices: 131971--132028 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
131961 GAACTAGAGG
*
131971 AGAAAATGAATGAGTTGGAAA
1 AGAAAATGAATGAGTTGCAAA
131992 AGAAAA-GAAATGAGTTGCAAA
1 AGAAAATG-AATGAGTTGCAAA
132013 ATGAAAATG-ATGAGTT
1 A-GAAAATGAATGAGTT
132029 AACTAATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 1 0.03
21 26 0.79
22 5 0.15
23 1 0.03
ACGTcount: A:0.52, C:0.02, G:0.26, T:0.21
Consensus pattern (21 bp):
AGAAAATGAATGAGTTGCAAA
Found at i:139986 original size:19 final size:19
Alignment explanation
Indices: 139941--139987 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
139931 TGTCTATTTT
*
139941 CTTTTGTACCTTTATTCAA
1 CTTTTGTCCCTTTATTCAA
139960 CTTTTGTCCCTTTATTCAA
1 CTTTTGTCCCTTTATTCAA
139979 CTTTTGTCC
1 CTTTTGTCC
139988 ATACACATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.15, C:0.26, G:0.06, T:0.53
Consensus pattern (19 bp):
CTTTTGTCCCTTTATTCAA
Found at i:141775 original size:31 final size:31
Alignment explanation
Indices: 141702--142048 Score: 351
Period size: 31 Copynumber: 10.9 Consensus size: 31
141692 ATCTCTCTTC
* * * *
141702 TCAAAGTCCAAGACTCACTAGCATCTTTTTTT
1 TCAAAGTCCACGACTCAGTGGCATC-TTTTCT
*
141734 TCAAAGTCCACGACTCAGTGGCAATCTCTTC-
1 TCAAAGTCCACGACTCAGTGGC-ATCTTTTCT
*
141765 TCCAAGTCCACGACTCAGTGGCATCTTTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATC--TTTTCT
*
141798 TCAAAGTCCACGACTCAGTGGCATCTCTTC-
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* *
141828 CCAAAGTCCAC-AGCTTAGTGGCATCTTTTCT
1 TCAAAGTCCACGA-CTCAGTGGCATCTTTTCT
141859 TCAAAGTCCACGACTCAGTGGCATCTTTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATC--TTTTCT
* *
141892 TCAAAGTCCATGACTTAGTGGCATCTTTTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATC---TTTTCT
*
141926 TCAAAGTCCACGACTCAGTGGAATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* * *
141957 TCAAAGTCCATGACTTAGTGGCAATCTCTTC-
1 TCAAAGTCCACGACTCAGTGGC-ATCTTTTCT
* * * *
141988 TCAAAGTCCATGACTCTGTGGCACCCTTTCTT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTC-T
** * *
142020 TTTAAGTCCACGACTCCGTGGCACCTTTT
1 TCAAAGTCCACGACTCAGTGGCATCTTTT
142049 TCCCTTTTAA
Statistics
Matches: 269, Mismatches: 33, Indels: 26
0.82 0.10 0.08
Matches are distributed among these distances:
29 1 0.00
30 33 0.12
31 91 0.34
32 58 0.22
33 56 0.21
34 30 0.11
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.34
Consensus pattern (31 bp):
TCAAAGTCCACGACTCAGTGGCATCTTTTCT
Found at i:141871 original size:94 final size:96
Alignment explanation
Indices: 141702--142010 Score: 362
Period size: 94 Copynumber: 3.2 Consensus size: 96
141692 ATCTCTCTTC
* * * * * * *
141702 TCAAAGTCCAAGACTCACTAGCATCTTTTTTTTCAAAGTCCACGACTCAGTGGCAATCTCTTC-T
1 TCAAAGTCCATGACTCAGTGGCATCTTCTTCTCCAAAGTCCACGACTCAGTGGC-ATCTTTTCTT
*
141766 CCAAGTCCACGACTCAGTGGCATCTTTTTTCT
65 CAAAGTCCACGACTCAGTGGCATCTTTTTTCT
* *
141798 TCAAAGTCCACGACTCAGTGGCATC-TCTTC-CCAAAGTCCAC-AGCTTAGTGGCATCTTTTCTT
1 TCAAAGTCCATGACTCAGTGGCATCTTCTTCTCCAAAGTCCACGA-CTCAGTGGCATCTTTTCTT
141860 CAAAGTCCACGACTCAGTGGCATCTTTTTTCT
65 CAAAGTCCACGACTCAGTGGCATCTTTTTTCT
* * * *
141892 TCAAAGTCCATGACTTAGTGGCATCTTTTTTTCTTCAAAGTCCACGACTCAGTGGAATCTTTTCT
1 TCAAAGTCCATGACTCAGTGGCATC--TTCTTCTCCAAAGTCCACGACTCAGTGGCATCTTTTCT
* * *
141957 TCAAAGTCCATGACTTAGTGGCAATC--TCTTC-
64 TCAAAGTCCACGACTCAGTGGC-ATCTTTTTTCT
*
141988 TCAAAGTCCATGACTCTGTGGCA
1 TCAAAGTCCATGACTCAGTGGCA
142011 CCCTTTCTTT
Statistics
Matches: 185, Mismatches: 20, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
93 8 0.04
94 73 0.39
95 3 0.02
96 43 0.23
97 8 0.04
98 46 0.25
99 4 0.02
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.33
Consensus pattern (96 bp):
TCAAAGTCCATGACTCAGTGGCATCTTCTTCTCCAAAGTCCACGACTCAGTGGCATCTTTTCTTC
AAAGTCCACGACTCAGTGGCATCTTTTTTCT
Found at i:142070 original size:34 final size:34
Alignment explanation
Indices: 142019--142427 Score: 382
Period size: 34 Copynumber: 12.4 Consensus size: 34
142009 CACCCTTTCT
*
142019 TTTTAAGTCCACGACTCCGTGGCACCTTTTTCCC
1 TTTTAAGTCCACAACTCCGTGGCACCTTTTTCCC
* * * * **
142053 TTTTAAGCCCACAACTCCATGACATCTTTTTCTT
1 TTTTAAGTCCACAACTCCGTGGCACCTTTTTCCC
*
142087 TTTTAAGTCCACAACTCTGTGGCA-------CCC
1 TTTTAAGTCCACAACTCCGTGGCACCTTTTTCCC
* **
142114 TTTTAAGTCTACAACTCCGTGGCACCTTTTTCTT
1 TTTTAAGTCCACAACTCCGTGGCACCTTTTTCCC
*
142148 TTTTAAG-CTCGCAACTCCGTGGCACTCTTTTT-CC
1 TTTTAAGTC-CACAACTCCGTGGCAC-CTTTTTCCC
142182 TTTTAAGTCCACAACTCCGTGGCACCTTTTAT---
1 TTTTAAGTCCACAACTCCGTGGCACCTTTT-TCCC
** * *
142214 TTTTAAGTCCATGACTCTGTGGCACCCTTTTCCC
1 TTTTAAGTCCACAACTCCGTGGCACCTTTTTCCC
* * * *
142248 TTTTAAGCCCACAATTTCATGGCACTCTTTTT-CC
1 TTTTAAGTCCACAACTCCGTGGCAC-CTTTTTCCC
* * *
142282 TTTTTAGTCCACAACTCCGTGGCATCTTTTTTCC
1 TTTTAAGTCCACAACTCCGTGGCACCTTTTTCCC
* *
142316 TTTTAAGTCCATAACTCCGTGGCACCTTGTT-CC
1 TTTTAAGTCCACAACTCCGTGGCACCTTTTTCCC
* * *
142349 TTTTAAGTCCACAACTCCATGGTACC-TTTT-CT
1 TTTTAAGTCCACAACTCCGTGGCACCTTTTTCCC
* * *
142381 TTTTAAGTCCACGACTTCGTGGCACCCTTTTCCC
1 TTTTAAGTCCACAACTCCGTGGCACCTTTTTCCC
*
142415 TTTTAAGCCCACA
1 TTTTAAGTCCACA
142428 CCTCTATGGC
Statistics
Matches: 301, Mismatches: 56, Indels: 36
0.77 0.14 0.09
Matches are distributed among these distances:
27 23 0.08
31 1 0.00
32 52 0.17
33 41 0.14
34 172 0.57
35 12 0.04
ACGTcount: A:0.19, C:0.31, G:0.12, T:0.38
Consensus pattern (34 bp):
TTTTAAGTCCACAACTCCGTGGCACCTTTTTCCC
Found at i:142105 original size:100 final size:100
Alignment explanation
Indices: 141991--142410 Score: 457
Period size: 100 Copynumber: 4.3 Consensus size: 100
141981 TCTCTTCTCA
** *
141991 AAGTCCATGACTCTGTGGCACCCTTTCTTTTTAAGTCCACGACTCCGTGGCACCTTTTTCCCTTT
1 AAGTCCACAACTCTGTGGCACCCTTTCTTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCCTTT
*
142056 TAAGCCCACAACTCCATGACA-TCTTTTTCTTTTTT
66 TAAGCCCACAACTCCATGGCACTCTTTTTC-TTTTT
* **
142091 AAGTCCACAACTCTGTGGCA-CC---C-TTTTAAGTCTACAACTCCGTGGCACCTTTTTCTTTTT
1 AAGTCCACAACTCTGTGGCACCCTTTCTTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCCTTT
* * * *
142151 TAAGCTCGCAACTCCGTGGCACTCTTTTTCCTTTT
66 TAAGCCCACAACTCCATGGCACTCTTTTTCTTTTT
* * * ** * *
142186 AAGTCCACAACTCCGTGGCACCTTTTATTTTTAAGTCCATGACTCTGTGGCACCCTTTTCCCTTT
1 AAGTCCACAACTCTGTGGCACCCTTTCTTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCCTTT
* *
142251 TAAGCCCACAATTTCATGGCACTCTTTTTCCTTTTT
66 TAAGCCCACAACTCCATGGCACTCTTTTT-CTTTTT
* ** * * *
142287 -AGTCCACAACTCCGTGGCATCTTTTTTCCTTTTAAGTCCATAACTCCGTGGCACCTTGTT-CCT
1 AAGTCCACAACTCTGTGGCA-C-CCTTTCTTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCCT
* *
142350 TTTAAGTCCACAACTCCATGGTAC-C-TTTTCTTTTT
64 TTTAAGCCCACAACTCCATGGCACTCTTTTTCTTTTT
*
142385 AAGTCCACGACT-TCGTGGCACCCTTT
1 AAGTCCACAACTCT-GTGGCACCCTTT
142411 TCCCTTTTAA
Statistics
Matches: 267, Mismatches: 42, Indels: 25
0.80 0.13 0.07
Matches are distributed among these distances:
95 73 0.27
96 10 0.04
97 3 0.01
98 7 0.03
99 22 0.08
100 92 0.34
101 29 0.11
102 31 0.12
ACGTcount: A:0.18, C:0.30, G:0.13, T:0.38
Consensus pattern (100 bp):
AAGTCCACAACTCTGTGGCACCCTTTCTTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCCTTT
TAAGCCCACAACTCCATGGCACTCTTTTTCTTTTT
Found at i:142117 original size:27 final size:27
Alignment explanation
Indices: 142087--142144 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
142077 TCTTTTTCTT
*
142087 TTTTAAGTCCACAACTCTGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* *
142114 TTTTAAGTCTACAACTCCGTGGCACCT
1 TTTTAAGTCCACAACTCCGTGGCACCC
142141 TTTT
1 TTTT
142145 CTTTTTTAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.21, C:0.29, G:0.14, T:0.36
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCCGTGGCACCC
Found at i:142128 original size:61 final size:60
Alignment explanation
Indices: 142050--142244 Score: 196
Period size: 61 Copynumber: 3.1 Consensus size: 60
142040 GCACCTTTTT
* * *
142050 CCCTTTTAAGCCCACAACTCCATGACATCTTTTTCTTTTTTAAGTCCACAACTCTGTGGCA
1 CCCTTTTAAGTCCACAACTCCGTGGCA-CTTTTTCTTTTTTAAGTCCACAACTCTGTGGCA
* * *
142111 CCCTTTTAAGTCTACAACTCCGTGGCACCTTTTTCTTTTTTAAG-CTCGCAACTCCGTGGCA
1 CCCTTTTAAGTCCACAACTCCGTGGCA-CTTTTTCTTTTTTAAGTC-CACAACTCTGTGGCA
* * **
142172 CTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTT-ATTTTTAAGTCCATGACTCTGTGG
1 --C-----CCTTTTAAGTCCACAACTCCGTGGCACTTTTTCTTTTTTAAGTCCACAACTCTGTGG
142236 CA
59 CA
142238 CCCTTTT
1 CCCTTTT
142245 CCCTTTTAAG
Statistics
Matches: 111, Mismatches: 14, Indels: 20
0.77 0.10 0.14
Matches are distributed among these distances:
59 6 0.05
60 1 0.01
61 52 0.47
63 1 0.01
64 1 0.01
66 19 0.17
67 6 0.05
68 25 0.23
ACGTcount: A:0.19, C:0.30, G:0.12, T:0.38
Consensus pattern (60 bp):
CCCTTTTAAGTCCACAACTCCGTGGCACTTTTTCTTTTTTAAGTCCACAACTCTGTGGCA
Found at i:142405 original size:167 final size:168
Alignment explanation
Indices: 142112--142427 Score: 480
Period size: 167 Copynumber: 1.9 Consensus size: 168
142102 TCTGTGGCAC
* *
142112 CCTTTTAAGTCTACAACTCCGTGGCACCTTTTTCTTTTTTAAGCTCGCAACTCCGTGGCACTCTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTCTTTTAAGCTCGCAACTCCGTGGCACTCTT
* * *
142177 TTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTATTTTTAAGTCCATGACTCTGTGGCACCCT
66 GTTCCTTTTAAGTCCACAACTCCATGGCACCTTTTATTTTTAAGTCCACGACTCTGTGGCACCCT
142242 TTTCCCTTTTAAGCCCACAATTTCATGGCACTCTTTTT
131 TTTCCCTTTTAAGCCCACAATTTCATGGCACTCTTTTT
* *
142280 CCTTTTTAGTCCACAACTCCGTGGCATCTTTTT-TCCTTTTAAG-TC-CATAACTCCGTGGCAC-
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCT-CTTTTAAGCTCGC--AACTCCGTGGCACT
* *
142341 CTTGTTCCTTTTAAGTCCACAACTCCATGGTACCTTTTCTTTTTAAGTCCACGACT-TCGTGGCA
63 CTTGTTCCTTTTAAGTCCACAACTCCATGGCACCTTTTATTTTTAAGTCCACGACTCT-GTGGCA
142405 CCCTTTTCCCTTTTAAGCCCACA
127 CCCTTTTCCCTTTTAAGCCCACA
142428 CCTCTATGGC
Statistics
Matches: 135, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
166 2 0.01
167 83 0.61
168 50 0.37
ACGTcount: A:0.18, C:0.31, G:0.12, T:0.39
Consensus pattern (168 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTCTTTTAAGCTCGCAACTCCGTGGCACTCTT
GTTCCTTTTAAGTCCACAACTCCATGGCACCTTTTATTTTTAAGTCCACGACTCTGTGGCACCCT
TTTCCCTTTTAAGCCCACAATTTCATGGCACTCTTTTT
Done.