Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold234
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: 616507
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
File 1 of 5
Found at i:343 original size:13 final size:13
Alignment explanation
Indices: 325--349 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
315 CATTATGCTT
325 TGTATCGATACAA
1 TGTATCGATACAA
338 TGTATCGATACA
1 TGTATCGATACA
350 TGTTCATTAT
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:364 original size:19 final size:20
Alignment explanation
Indices: 340--390 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
330 CGATACAATG
**
340 TATCGATACATGTTC-ATTA
1 TATCGATACATGGACAATTA
*
359 TATCGATACATGGACAATTG
1 TATCGATACATGGACAATTA
379 TATCGATACATG
1 TATCGATACATG
391 AAACTAGCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (20 bp):
TATCGATACATGGACAATTA
Found at i:384 original size:20 final size:20
Alignment explanation
Indices: 334--390 Score: 73
Period size: 19 Copynumber: 3.0 Consensus size: 20
324 TTGTATCGAT
*
334 ACAA-TGTATCGATACATGT
1 ACAATTGTATCGATACATGG
* *
353 TC-ATTATATCGATACATGG
1 ACAATTGTATCGATACATGG
372 ACAATTGTATCGATACATG
1 ACAATTGTATCGATACATG
391 AAACTAGCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 1 0.03
19 15 0.48
20 15 0.48
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (20 bp):
ACAATTGTATCGATACATGG
Found at i:2302 original size:21 final size:21
Alignment explanation
Indices: 2276--2315 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2266 CATGGAGTAT
*
2276 TTGTCAAACTTGAAGAAAAGA
1 TTGTCAAACTTGAAAAAAAGA
2297 TTGTCAAACTTGAAAAAAA
1 TTGTCAAACTTGAAAAAAA
2316 AACTCTCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.10, G:0.15, T:0.25
Consensus pattern (21 bp):
TTGTCAAACTTGAAAAAAAGA
Found at i:6615 original size:13 final size:13
Alignment explanation
Indices: 6597--6654 Score: 62
Period size: 13 Copynumber: 4.0 Consensus size: 13
6587 CAGGATAACC
6597 TTGTATCGATACA
1 TTGTATCGATACA
6610 TTGTATCGATACAACA
1 TTGTATCGAT---ACA
6626 CTTTTGTATCGATACA
1 ---TTGTATCGATACA
6642 TTGTATCGATACA
1 TTGTATCGATACA
6655 ACACTTTTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.59
16 6 0.15
19 10 0.26
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:6638 original size:32 final size:32
Alignment explanation
Indices: 6597--6675 Score: 158
Period size: 32 Copynumber: 2.5 Consensus size: 32
6587 CAGGATAACC
6597 TTGTATCGATACATTGTATCGATACAACACTT
1 TTGTATCGATACATTGTATCGATACAACACTT
6629 TTGTATCGATACATTGTATCGATACAACACTT
1 TTGTATCGATACATTGTATCGATACAACACTT
6661 TTGTATCGATACATT
1 TTGTATCGATACATT
6676 TACTGTTTGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (32 bp):
TTGTATCGATACATTGTATCGATACAACACTT
Found at i:6686 original size:21 final size:19
Alignment explanation
Indices: 6610--6695 Score: 94
Period size: 19 Copynumber: 4.7 Consensus size: 19
6600 TATCGATACA
6610 TTGTATCGATACAACACTT
1 TTGTATCGATACAACACTT
6629 TTGTATCGAT---ACA---
1 TTGTATCGATACAACACTT
6642 TTGTATCGATACAACACTT
1 TTGTATCGATACAACACTT
**
6661 TTGTATCGATACATTTACTGT
1 TTGTATCGATACA-ACACT-T
6682 TTGTATCGATACAA
1 TTGTATCGATACAA
6696 GTTATGAAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
13 10 0.18
16 6 0.11
19 23 0.41
20 3 0.05
21 14 0.25
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (19 bp):
TTGTATCGATACAACACTT
Found at i:7505 original size:52 final size:48
Alignment explanation
Indices: 7397--8390 Score: 469
Period size: 39 Copynumber: 21.8 Consensus size: 48
7387 CGAAGAATGA
* * * * * *
7397 CAATGTGCTGATTCATGGCTAGCGACATTAGACTTGAAGA-AGA-ATGC
1 CAATATGCTGATTCAAGGCCAGCGACATT-GGCTTAAAGATAAAGATGC
* ** * *
7444 CAATGTGCTGAGACAAGGTCAGCGACATTAGGCTTAGGAATGTTAAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGACATT-GGCTTA--AA-GATAAAGATGC
* * * *
7496 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGG-CTTAAAGATAAAGATGC
7545 CAATATGCTGATTCAAGGCCAGCGACATTGGGC-T-----T----ATGC
1 CAATATGCTGATTCAAGGCCAGCGACATT-GGCTTAAAGATAAAGATGC
** * *
7584 CAATATGCTGAGACAAGGTCAGCGACATTAGGCTTAGGAATGTTAAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGACATT-GGCTTA--AA-GATAAAGATGC
* * * *
7636 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGG-CTTAAAGATAAAGATGC
7685 CAATATGCTGATTCAAGGCCAGCGACATTGGGC-T-----T----ATGC
1 CAATATGCTGATTCAAGGCCAGCGACATT-GGCTTAAAGATAAAGATGC
* * *
7724 CAATGTGCTGATTCAAGGCCAGCGACATTAGTCTTAAAGA-CAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGACATT-GGCTTAAAGATAAAGATGC
* *
7772 CAATATGCTGATTCAAGGCCAGCAATATTGGGCTT----AT---G-T--
1 CAATATGCTGATTCAAGGCCAGCGACATT-GGCTTAAAGATAAAGATGC
* * * * *
7811 CAATGTGCTGATTCAAGGCCAGCGGCATTAGTCTTAGAA-A-CAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATT-GGCTTA-AAGATAAAGATGC
* * *
7859 CAATATGCTAATTTAAGGCCAGCGATATTGG------GCAT---G-TGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGCTTAAAG-ATAAAGATGC
* * *
7898 CAATCTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGG-CTTAAAGATAAAGATGC
* * * **
7946 CAATATGCTGATTCAAGGCCAGTGATATTGGAC-TCAAGATGGAGATGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGG-CTTAAAGATAAAGATGC
** * *
7994 CAACGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGG-CTTAAAGATAAAGATGC
* *
8043 CAATGTGCTGATTCAAGGCCAGCGATATTGGGC-T-----T---G-TGC
1 CAATATGCTGATTCAAGGCCAGCGACATT-GGCTTAAAGATAAAGATGC
* * * *
8082 CAATGTGCTGATTTAAGGCTAGCGACATTGGTCTTAAAGAT-AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGG-CTTAAAGATAAAGATGC
* * *
8130 CAATATGTTGATTCAAGGCCAGTGATATTGGGCTT----AT---G-T--
1 CAATATGCTGATTCAAGGCCAGCGACATT-GGCTTAAAGATAAAGATGC
* * *
8169 CAA-AGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGA-CAAGGTGC
1 CAATA-TGCTGATTCAAGGCCAGCGACATTGG-CTTAAAGATAAAGATGC
* ** * *
8217 CAATATGCTGATTCAAGGCCAGCGATATTGGGCTT-GTG-CAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATT-GGCTTAAAGATAAAGATGC
* * *
8264 CAATATGCTAATTCAAGGTCAGCGATATTGGACTT---G-T---G-T--
1 CAATATGCTGATTCAAGGCCAGCGACATTGG-CTTAAAGATAAAGATGC
* * *
8303 CAATGTGCTGATTCAAGGTCAGCGACATTGGTCTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGG-CTTAAAGATAAAGATGC
* ** *
8352 CAATATGTTGATTCAAAACCAGCGATATTGGACTTAAAG
1 CAATATGCTGATTCAAGGCCAGCGACATTGG-CTTAAAG
8391 GTGCCATGGA
Statistics
Matches: 740, Mismatches: 110, Indels: 192
0.71 0.11 0.18
Matches are distributed among these distances:
38 5 0.01
39 212 0.29
40 5 0.01
41 3 0.00
42 5 0.01
43 6 0.01
44 3 0.00
45 5 0.01
46 6 0.01
47 77 0.10
48 184 0.25
49 149 0.20
50 11 0.01
51 6 0.01
52 63 0.09
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (48 bp):
CAATATGCTGATTCAAGGCCAGCGACATTGGCTTAAAGATAAAGATGC
Found at i:7692 original size:140 final size:140
Alignment explanation
Indices: 7440--7807 Score: 620
Period size: 140 Copynumber: 2.7 Consensus size: 140
7430 TTGAAGAAGA
7440 ATGCCAATGTGCTGAGACAAGGTCAGCGACATTAGGCTTAGGAATGTTAAAGATGCCAATATGCT
1 ATGCCAATGTGCTGAGACAAGGTCAGCGACATTAGGCTTAGGAATGTTAAAGATGCCAATATGCT
7505 GATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGA
66 GATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGA
7570 CATTGGGCTT
131 CATTGGGCTT
*
7580 ATGCCAATATGCTGAGACAAGGTCAGCGACATTAGGCTTAGGAATGTTAAAGATGCCAATATGCT
1 ATGCCAATGTGCTGAGACAAGGTCAGCGACATTAGGCTTAGGAATGTTAAAGATGCCAATATGCT
7645 GATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGA
66 GATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGA
7710 CATTGGGCTT
131 CATTGGGCTT
** * *
7720 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTAGTCTTA--AA-G--ACAAGATGCCAATATGC
1 ATGCCAATGTGCTGAGACAAGGTCAGCGACATTAGGCTTAGGAATGTTA-AAGATGCCAATATGC
* * *
7780 TGATTCAAGGCCAGCAATATTGGGCTTA
65 TGATTCAAGGCCAACGATATTGGACTTA
7808 TGTCAATGTG
Statistics
Matches: 218, Mismatches: 9, Indels: 6
0.94 0.04 0.03
Matches are distributed among these distances:
135 1 0.00
136 40 0.18
137 1 0.00
138 2 0.01
140 174 0.80
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.24
Consensus pattern (140 bp):
ATGCCAATGTGCTGAGACAAGGTCAGCGACATTAGGCTTAGGAATGTTAAAGATGCCAATATGCT
GATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGA
CATTGGGCTT
Found at i:7791 original size:48 final size:48
Alignment explanation
Indices: 7720--8390 Score: 396
Period size: 48 Copynumber: 14.9 Consensus size: 48
7710 CATTGGGCTT
* *
7720 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTAGTCTTAAAGACAAG
1 ATGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
* * *
7768 ATGCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTT---------
1 ATGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
* * * *
7807 ATGTCAATGTGCTGATTCAAGGCCAGCGGCATTAGTCTTAGAA-ACAAG
1 ATGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTA-AAGACAAG
* * * * *
7855 GTGCCAATATGCTAATTTAAGGCCAGCGATATTGG-------G-CATG
1 ATGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
*
7895 -TGCCAATCTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
1 ATGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
* * * * * **
7942 GTGCCAATATGCTGATTCAAGGCCAGTGATATTGGAC-TCAAGATGGAG
1 ATGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAG
** * *
7990 ATGCCAACGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGATAAAG
1 ATGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAG
* * * *
8039 GTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTT--------G
1 ATGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
* * * *
8079 -TGCCAATGTGCTGATTTAAGGCTAGCGACATTGGTCTTAAAGATAAG
1 ATGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
* * * * * * *
8126 GTGCCAATATGTTGATTCAAGGCCAGTGATATTGGGCTT-ATGTCAA-
1 ATGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
*
8172 A-G------TGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAG
1 ATGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
* * * **
8213 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT-GTG-CAAAG
1 ATGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAC-AAG
* * * * *
8260 GTGCCAATATGCTAATTCAAGGTCAGCGATATTGGACTT--------G
1 ATGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
* * * *
8300 -TGTCAATGTGCTGATTCAAGGTCAGCGACATTGGTCTTAAAGATAAAG
1 ATGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAG
* * ** * *
8348 GTGCCAATATGTTGATTCAAAACCAGCGATATTGGACTTAAAG
1 ATGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAG
8391 GTGCCATGGA
Statistics
Matches: 483, Mismatches: 90, Indels: 99
0.72 0.13 0.15
Matches are distributed among these distances:
39 155 0.32
40 9 0.02
42 1 0.00
45 1 0.00
46 2 0.00
47 54 0.11
48 185 0.38
49 76 0.16
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (48 bp):
ATGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
Found at i:7803 original size:87 final size:87
Alignment explanation
Indices: 7632--8251 Score: 837
Period size: 87 Copynumber: 7.0 Consensus size: 87
7622 AATGTTAAAG
* * * * *
7632 ATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGAT
1 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGAT
*
7697 TCAAGGCCAGCGACATTGGGCTT
65 TCAAGGCCAGCGATATTGGGCTT
* *
7720 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTAGTCTTAAAGACAAGATGCCAATATGCTGATT
1 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
*
7785 CAAGGCCAGCAATATTGGGCTT
66 CAAGGCCAGCGATATTGGGCTT
* * * *
7807 ATGTCAATGTGCTGATTCAAGGCCAGCGGCATTAGTCTTAGAA-ACAAGGTGCCAATATGCTAAT
1 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA-AAGACAAGGTGCCAATATGCTGAT
* *
7871 TTAAGGCCAGCGATATTGGGCAT
65 TCAAGGCCAGCGATATTGGGCTT
* *
7894 GTGCCAATCTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
1 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
* *
7959 CAAGGCCAGTGATATTGGACTCAAGAT
66 CAAGGCCAGCGATATTGGGCT-----T
* * * *
7986 GGAGATGCCAACGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGATAAAGGTGCCAATGTGC
1 ----ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGC
8051 TGATTCAAGGCCAGCGATATTGGGCTT
61 TGATTCAAGGCCAGCGATATTGGGCTT
* * * * *
8078 GTGCCAATGTGCTGATTTAAGGCTAGCGACATTGGTCTTAAAGATAAGGTGCCAATATGTTGATT
1 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
*
8143 CAAGGCCAGTGATATTGGGCTT
66 CAAGGCCAGCGATATTGGGCTT
* * *
8165 ATGTCAAAGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATT
1 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
8230 CAAGGCCAGCGATATTGGGCTT
66 CAAGGCCAGCGATATTGGGCTT
8252 GTGCAAAGGT
Statistics
Matches: 470, Mismatches: 50, Indels: 25
0.86 0.09 0.05
Matches are distributed among these distances:
86 2 0.00
87 306 0.65
88 82 0.17
92 2 0.00
96 40 0.09
97 38 0.08
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (87 bp):
ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
CAAGGCCAGCGATATTGGGCTT
Found at i:8088 original size:271 final size:261
Alignment explanation
Indices: 7632--8247 Score: 831
Period size: 271 Copynumber: 2.3 Consensus size: 261
7622 AATGTTAAAG
* * * *
7632 ATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGAT
1 ATGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGAT
* * *
7697 TCAAGGCCAGCGACATTGGGCTTATGCCAATGTGCTGATTCAAGGCCAGCGACATTAGTCTTAAA
65 TCAAGGCCAGCGATATTGGACTTATGCCAACGTGCTGATTCAAGGCCAGCGACATTAGTCTTAAA
* *
7762 GACAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTTATGTCAATGTGCTGATTCAA
130 GAAAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTTATGCCAATGTGCTGATTCAA
* *
7827 GGCCAGCGGCATTAGTCTTAGAA-ACAAGGTGCCAATATGCTAATTTAAGGCCAGCGATATTGGG
195 GGCCAGCGACATTAGTCTTA-AAGACAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGG
7891 CAT
259 CAT
* *
7894 GTGCCAATCTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
1 ATGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
* * *
7959 CAAGGCCAGTGATATTGGACTCAAGATGGAGATGCCAACGTGCTGATTCAAGGCTAGCGACATTG
66 CAAGGCCAGCGATATTGGACT-----T----ATGCCAACGTGCTGATTCAAGGCCAGCGACATTA
* * * *
8024 GTCTTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTGTGCCAATGTG
122 GTCTTAAAGA-AAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTTATGCCAATGTG
* * * * * * *
8089 CTGATTTAAGGCTAGCGACATTGGTCTTAAAGATAAGGTGCCAATATGTTGATTCAAGGCCAGTG
186 CTGATTCAAGGCCAGCGACATTAGTCTTAAAGACAAGGTGCCAATATGCTAATTCAAGGCCAGCG
*
8154 ATATTGGGCTT
251 ATATTGGGCAT
* *
8165 ATGTCAA-AGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGAT
1 ATGCCAATA-TGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGAT
8229 TCAAGGCCAGCGATATTGG
65 TCAAGGCCAGCGATATTGG
8248 GCTTGTGCAA
Statistics
Matches: 309, Mismatches: 33, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
261 38 0.12
262 39 0.13
266 1 0.00
270 43 0.14
271 188 0.61
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (261 bp):
ATGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
CAAGGCCAGCGATATTGGACTTATGCCAACGTGCTGATTCAAGGCCAGCGACATTAGTCTTAAAG
AAAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTTATGCCAATGTGCTGATTCAAG
GCCAGCGACATTAGTCTTAAAGACAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGGCA
T
Found at i:8279 original size:47 final size:47
Alignment explanation
Indices: 8174--8386 Score: 183
Period size: 47 Copynumber: 4.6 Consensus size: 47
8164 TATGTCAAAG
* * *
8174 TGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGATATTGGACTT-GTGACAAGGTGCCAATA
*
8222 TGCTGATTCAAGGCCAGCGATATTGGGCTTGTG-CAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTGTGAC-AAGGTGCCAATA
* * *
8269 TGCTAATTCAAGGTCAGCGATATTGGACTTGT------GT--CAATG
1 TGCTGATTCAAGGCCAGCGATATTGGACTTGTGACAAGGTGCCAATA
* * * ** *
8308 TGCTGATTCAAGGTCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGATATTGGACTT-GTGA-CAAGGTGCCAATA
* **
8357 TGTTGATTCAAAACCAGCGATATTGGACTT
1 TGCTGATTCAAGGCCAGCGATATTGGACTT
8387 AAAGGTGCCA
Statistics
Matches: 135, Mismatches: 19, Indels: 21
0.77 0.11 0.12
Matches are distributed among these distances:
39 31 0.23
41 2 0.01
46 1 0.01
47 45 0.33
48 28 0.21
49 28 0.21
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.28
Consensus pattern (47 bp):
TGCTGATTCAAGGCCAGCGATATTGGACTTGTGACAAGGTGCCAATA
Found at i:8366 original size:358 final size:356
Alignment explanation
Indices: 7493--8390 Score: 1112
Period size: 358 Copynumber: 2.5 Consensus size: 356
7483 ATGTTAAAGA
* *
7493 TGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATG-AAGGTGCCAATATGCTGAT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT---G-TGCAAGGTGCCAATATGCTGAT
* * **
7557 TCAAGGCCAGCGACATTGGGCTTATGCCAATATGCTGAGACAAGGTCAGCGACATTAGGCTTAGG
62 TCAAGGCCAGCGACATTGGACTTGTGCCAATATGCTGATTCAAGGTCAGCGACATT-GGCTTA--
* * *
7622 AATGTTAAAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCA
124 AA-GATAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGGTGCCA
7687 ATATGCTGATTCAAGGCCAGCGACATTGGGCTTATGCCAATGTGCTGATTCAAGGCCAGCGACAT
188 ATATGCTGATTCAAGGCCAGCGACATTGGGCTTATGCCAATGTGCTGATTCAAGGCCAGCGACAT
*
7752 TAGTCTTAAAGACAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTTATGTCAATGT
253 TAGTCTTAAAGACAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTTATGTCAAAGT
*
7817 GCTGATTCAAGGCCAGCGGCATTAGTCTTAGAAACAAGG
318 GCTGATTCAAGGCCAGCGACATTAGTCTTAGAAACAAGG
* * * *
7856 TGCCAATATGCTAATTTAAGGCCAGCGATATT--G---G-GC-ATGTGCCAATCTGCTGATTCAA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTGTGCAAGGTGCCAATATGCTGATTCAA
* * * *
7914 GGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGAC
66 GGCCAGCGACATTGGACTT---------GTGCCAATATGCTGATTCAAGGTCAGCGACATTGG-C
* ** ** * * *
7979 -TCAAGATGGAGATGCCAACGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGATAAAGGTGC
121 TTAAAGATAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGGTGC
* * * * *
8043 CAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTGTGCCAATGTGCTGATTTAAGGCTAGCGAC
186 CAATATGCTGATTCAAGGCCAGCGACATTGGGCTTATGCCAATGTGCTGATTCAAGGCCAGCGAC
* * * * **
8108 ATTGGTCTTAAAGATAAGGTGCCAATATGTTGATTCAAGGCCAGTGATATTGGGCTTATGTCAAA
251 ATTAGTCTTAAAGACAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTTATGTCAAA
* *
8173 GTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGG
316 GTGCTGATTCAAGGCCAGCGACATTAGTCTTAGAAACAAGG
*
8214 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTGTGCAAAGGTGCCAATATGCTAATTCA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTGTGC-AAGGTGCCAATATGCTGATTCA
* * * *
8279 AGGTCAGCGATATTGGACTTGTGTCAATGTGCTGATTCAAGGTCAGCGACATTGGTCTTAAAGAT
65 AGGCCAGCGACATTGGACTTGTGCCAATATGCTGATTCAAGGTCAGCGACATTGG-CTTAAAGAT
* * **
8344 AAAGGTGCCAATATGTTGATTCAAAACCAGCGATATTGGACTTAAAG
129 AAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
8391 GTGCCATGGA
Statistics
Matches: 450, Mismatches: 65, Indels: 45
0.80 0.12 0.08
Matches are distributed among these distances:
353 39 0.09
355 1 0.00
357 31 0.07
358 278 0.62
359 2 0.00
360 1 0.00
361 3 0.01
362 28 0.06
363 30 0.07
364 2 0.00
366 35 0.08
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (356 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTGTGCAAGGTGCCAATATGCTGATTCAA
GGCCAGCGACATTGGACTTGTGCCAATATGCTGATTCAAGGTCAGCGACATTGGCTTAAAGATAA
AGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGGTGCCAATATGCTG
ATTCAAGGCCAGCGACATTGGGCTTATGCCAATGTGCTGATTCAAGGCCAGCGACATTAGTCTTA
AAGACAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTTATGTCAAAGTGCTGATTC
AAGGCCAGCGACATTAGTCTTAGAAACAAGG
Found at i:8375 original size:88 final size:86
Alignment explanation
Indices: 8217--8386 Score: 214
Period size: 88 Copynumber: 2.0 Consensus size: 86
8207 GACAAGGTGC
* ** **
8217 CAATATGCTGATTCAAGGCCAGCGATATTGGGCTTGTGCAAAGGTGCCAATATGCTAATTCAAGG
1 CAATATGCTGATTCAAGGCCAGCGACATTGGGCTTAAGCAAAGGTGCCAATATGCTAATTCAAAA
*
8282 TCAGCGATATTGGACTTGTGT
66 CCAGCGATATTGGACTTGTGT
* * * * * *
8303 CAATGTGCTGATTCAAGGTCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGTTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGACATTGGGCTT-AAG-CAAAGGTGCCAATATGCTAATTCAA
8368 AACCAGCGATATTGGACTT
64 AACCAGCGATATTGGACTT
8387 AAAGGTGCCA
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
86 31 0.44
87 1 0.01
88 38 0.54
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (86 bp):
CAATATGCTGATTCAAGGCCAGCGACATTGGGCTTAAGCAAAGGTGCCAATATGCTAATTCAAAA
CCAGCGATATTGGACTTGTGT
Found at i:8478 original size:37 final size:34
Alignment explanation
Indices: 8390--8522 Score: 144
Period size: 37 Copynumber: 3.9 Consensus size: 34
8380 TGGACTTAAA
** * *
8390 GGTGCCATGGAGTTGTGGACTT-ACAGGAAAAAGG
1 GGTGCCACAGAGTTGTGGACTTAAAAGGGAAAA-G
* *
8424 GGTGCCACAGAGGTGTGGGCTTAAAAGGGAAAATG
1 GGTGCCACAGAGTTGTGGACTTAAAAGGGAAAA-G
8459 GGTGCCACACAGAGTTGTGGACTTAAAAGGGAAAA-
1 GGTG-C-CACAGAGTTGTGGACTTAAAAGGGAAAAG
* *
8494 GATGCCACAGAGTTATGGACTTAAAAGGG
1 GGTGCCACAGAGTTGTGGACTTAAAAGGG
8523 TGCCACAAAG
Statistics
Matches: 85, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
33 23 0.27
34 19 0.22
35 16 0.19
36 1 0.01
37 26 0.31
ACGTcount: A:0.33, C:0.13, G:0.35, T:0.19
Consensus pattern (34 bp):
GGTGCCACAGAGTTGTGGACTTAAAAGGGAAAAG
Found at i:8513 original size:33 final size:33
Alignment explanation
Indices: 8399--8930 Score: 435
Period size: 34 Copynumber: 16.4 Consensus size: 33
8389 AGGTGCCATG
* *
8399 GAGTTGTGGACTT-ACAGGAAAAAGGGGTGCCACA
1 GAGTTGTGGACTTAAAAGGAAAAA--GATGCCACA
* * * *
8433 GAGGTGTGGGCTTAAAAGGGAAAATGGGTGCCACACA
1 GAGTTGTGGACTTAAAA-GGAAAA-AGATG-C-CACA
*
8470 GAGTTGTGGACTTAAAAGGGAAAAGATGCCACA
1 GAGTTGTGGACTTAAAAGGAAAAAGATGCCACA
*
8503 GAGTTATGGACTTAAAAGG-----G-TGCCACA
1 GAGTTGTGGACTTAAAAGGAAAAAGATGCCACA
* *
8530 AAGTTATGGACTTAAAAGGAAAAAGAGTGCCAC-
1 GAGTTGTGGACTTAAAAGGAAAAAGA-TGCCACA
* * *
8563 GAAGTTATGGGCTTAAAAAGAAAAAGATGCCAC-
1 G-AGTTGTGGACTTAAAAGGAAAAAGATGCCACA
*
8596 GAAGTTATGGACTTAAAAGG-----G-TGCCACA
1 G-AGTTGTGGACTTAAAAGGAAAAAGATGCCACA
*
8624 GAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACG
1 GAGTTGTGGACTTAAAAGGAAAAAGA-TGCCACA
* * * **
8658 GAATTGTGGGCTTAAAAAGAAAAAGATGCCATG
1 GAGTTGTGGACTTAAAAGGAAAAAGATGCCACA
* *
8691 GAGTTGTGGACTT------AAAAAGGTGCCACG
1 GAGTTGTGGACTTAAAAGGAAAAAGATGCCACA
* * **
8718 GAGTTGTGGGCTTGAAAGGAAAAAGAGTGCCATG
1 GAGTTGTGGACTTAAAAGGAAAAAGA-TGCCACA
8752 GAGTTGT-GAGCTTAAAAGGAAAAAGATGCCACA
1 GAGTTGTGGA-CTTAAAAGGAAAAAGATGCCACA
* *
8785 GAGTTGTGGACTTAAAAAG-AAAAGGTGCCACA
1 GAGTTGTGGACTTAAAAGGAAAAAGATGCCACA
* * * *
8817 GAGTTGTGGACTTAAATGGAACAAGGTGCCACG
1 GAGTTGTGGACTTAAAAGGAAAAAGATGCCACA
*
8850 GAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACG
1 GAGTTGTGGACTTAAAAGGAAAAAGA-TGCCACA
* * * *
8884 GAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACT
1 GAGTTGTGGAC-TTAAAAGGAAAAAGATGCCACA
*
8918 GAGTCGTGGACTT
1 GAGTTGTGGACTT
8931 TGGGAAAAGA
Statistics
Matches: 417, Mismatches: 48, Indels: 67
0.78 0.09 0.13
Matches are distributed among these distances:
27 72 0.17
28 3 0.01
32 31 0.07
33 126 0.30
34 132 0.32
35 22 0.05
36 12 0.03
37 19 0.05
ACGTcount: A:0.37, C:0.13, G:0.31, T:0.20
Consensus pattern (33 bp):
GAGTTGTGGACTTAAAAGGAAAAAGATGCCACA
Found at i:8527 original size:27 final size:27
Alignment explanation
Indices: 8496--8642 Score: 109
Period size: 27 Copynumber: 5.0 Consensus size: 27
8486 AGGGAAAAGA
8496 TGCCACAGAGTTATGGACTTAAAAGGG
1 TGCCACAGAGTTATGGACTTAAAAGGG
*
8523 TGCCACAAAGTTATGGACTTAAAAGGAAAAAGAG
1 TGCCACAGAGTTATGGACTTAAAA-G-----G-G
* *
8557 TGCCAC-GAAGTTATGGGCTTAAAAAGAAAAAGA
1 TGCCACAG-AGTTATGGACTT-AAAAG-----GG
8590 TGCCAC-GAAGTTATGGACTTAAAAGGG
1 TGCCACAG-AGTTATGGACTTAAAAGGG
*
8617 TGCCACAGAGTTGTGGACTTAAAAGG
1 TGCCACAGAGTTATGGACTTAAAAGG
8643 AAAAAGAGTG
Statistics
Matches: 103, Mismatches: 7, Indels: 20
0.79 0.05 0.15
Matches are distributed among these distances:
27 47 0.46
28 2 0.02
32 5 0.05
33 20 0.19
34 25 0.24
35 4 0.04
ACGTcount: A:0.39, C:0.14, G:0.27, T:0.20
Consensus pattern (27 bp):
TGCCACAGAGTTATGGACTTAAAAGGG
Found at i:8595 original size:94 final size:94
Alignment explanation
Indices: 8418--8888 Score: 561
Period size: 94 Copynumber: 4.9 Consensus size: 94
8408 ACTTACAGGA
* * * * * *
8418 AAAAGGGGTGCCACAGAGGTGTGGGCTTAAAAGGGAAAATGGGTGCCACACAGAGTTGTGGACTT
1 AAAA-GGGTGCCACAGAGTTGTGGACTTAAAA-GGAAAAAGAGTGCCAC-GA-AGTTGTGGGCTT
*
8483 AAAAGGGAAAAGATGCCACAGAGTTATGGACTT
62 AAAAGGAAAAAGATGCCACAGAGTTATGGACTT
* * *
8516 AAAAGGGTGCCACAAAGTTATGGACTTAAAAGGAAAAAGAGTGCCACGAAGTTATGGGCTTAAAA
1 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGAAGTTGTGGGCTTAAAA
*
8581 AGAAAAAGATGCCAC-GAAGTTATGGACTT
66 GGAAAAAGATGCCACAG-AGTTATGGACTT
8610 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAA-TTGTGGGCTTAAA
1 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCAC-GAAGTTGTGGGCTTAAA
* ** *
8674 AAGAAAAAGATGCCATGGAGTTGTGGACTT
65 AGGAAAAAGATGCCACAGAGTTATGGACTT
* * * * * * *
8704 AAAAAGGTGCCACGGAGTTGTGGGCTTGAAAGGAAAAAGAGTGCCATGGAGTTGTGAGCTTAAAA
1 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGAAGTTGTGGGCTTAAAA
*
8769 GGAAAAAGATGCCACAGAGTTGTGGACTT
66 GGAAAAAGATGCCACAGAGTTATGGACTT
* * * *
8798 AAAAAGAAAAGGTGCCACAGAGTTGTGGACTTAAATGGAACAAG-GTGCCACGGAGTTGTGGACT
1 -AAAAG----GGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGAAGTTGTGGGCT
*
8862 TAAAAGGAAAAAGAGTGCCACGGAGTT
61 TAAAAGGAAAAAGA-TGCCACAGAGTT
8889 GTGGGCTTTA
Statistics
Matches: 327, Mismatches: 36, Indels: 19
0.86 0.09 0.05
Matches are distributed among these distances:
93 3 0.01
94 203 0.62
95 9 0.03
96 14 0.04
97 23 0.07
98 35 0.11
99 40 0.12
ACGTcount: A:0.38, C:0.13, G:0.31, T:0.19
Consensus pattern (94 bp):
AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGAAGTTGTGGGCTTAAAA
GGAAAAAGATGCCACAGAGTTATGGACTT
Found at i:8948 original size:30 final size:30
Alignment explanation
Indices: 8905--9370 Score: 492
Period size: 30 Copynumber: 15.2 Consensus size: 30
8895 TTTAAAAAGA
*
8905 AAAAGGTGCCACTGAGTCGTGGACTTTGGG
1 AAAAGATGCCACTGAGTCGTGGACTTTGGG
* *
8935 AAAAGATGTCACTGAGTCGTGGACTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTG-GG
*
8966 AAAAGATACCACTGAGTCGTGGACTTTGGG
1 AAAAGATGCCACTGAGTCGTGGACTTTGGG
* * * *
8996 AAGAGATGCCACTAAGTCGTGGAC-TTAGA
1 AAAAGATGCCACTGAGTCGTGGACTTTGGG
9025 AAAGAGATGCCACTGAGTCGTGGACTTTGGG
1 AAA-AGATGCCACTGAGTCGTGGACTTTGGG
* *
9056 ACAAGATGCCACTGAGTCGTGGACTTTGAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGGG
* *
9086 AAGAGATTGCCACTGAGTCGTGGACTTTGAAG
1 AAAAGA-TGCCACTGAGTCGTGGACTTTG-GG
*
9118 AAAAGATGCCACTAAGTCGTGGACTTT-GG
1 AAAAGATGCCACTGAGTCGTGGACTTTGGG
* *
9147 AACTAGATGCCACTGAGTCGTGGACTTTGAG
1 AA-AAGATGCCACTGAGTCGTGGACTTTGGG
* *
9178 AAGAGATTGCCACTGAGTCGTAGAC-TTGGAAG
1 AAAAGA-TGCCACTGAGTCGTGGACTTTGG--G
* * *
9210 AAAAGATGCCACTGAGTCATGGAC-TTAGA
1 AAAAGATGCCACTGAGTCGTGGACTTTGGG
* * *
9239 AAAGAGATGCCACTGAGTTGTGGGCTTTGAAG
1 AAA-AGATGCCACTGAGTCGTGGACTTTG-GG
* * **
9271 AAAAGATGCCACTAAATCGTGGACTTTGAAAAAA
1 AAAAGATGCCACTGAGTCGTGGACTTTG----GG
* *
9305 AAAAGATGCCACTGAGTTGTGGACTTT-GA
1 AAAAGATGCCACTGAGTCGTGGACTTTGGG
*
9334 AAAGAGATGCCACTGAGTCGTGGACTTTGAG
1 AAA-AGATGCCACTGAGTCGTGGACTTTGGG
9365 AAAAGA
1 AAAAGA
9371 GATTTGAAGA
Statistics
Matches: 367, Mismatches: 51, Indels: 36
0.81 0.11 0.08
Matches are distributed among these distances:
29 15 0.04
30 171 0.47
31 139 0.38
32 16 0.04
34 26 0.07
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (30 bp):
AAAAGATGCCACTGAGTCGTGGACTTTGGG
Found at i:8978 original size:61 final size:61
Alignment explanation
Indices: 8905--9370 Score: 575
Period size: 61 Copynumber: 7.6 Consensus size: 61
8895 TTTAAAAAGA
* * *
8905 AAAAGGTGCCACTGAGTCGTGGACTTTGGGAAAAGATGTCACTGAGTCGTGGACTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAGAAAAGATGCCACTGAGTCGTGGACTTTGAAG
* * * * *
8966 AAAAGATACCACTGAGTCGTGGACTTTGGGAAGAGATGCCACTAAGTCGTGGACTTAGAA-
1 AAAAGATGCCACTGAGTCGTGGACTTTGAGAAAAGATGCCACTGAGTCGTGGACTTTGAAG
* * *
9026 AAGAGATGCCACTGAGTCGTGGACTTTGGGACAAGATGCCACTGAGTCGTGGACTTTG-AG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAGAAAAGATGCCACTGAGTCGTGGACTTTGAAG
* *
9086 AAGAGATTGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTAAGTCGTGGACTTTG--G
1 AAAAGA-TGCCACTGAGTCGTGGACTTTG-AGAAAAGATGCCACTGAGTCGTGGACTTTGAAG
* * * *
9147 AACTAGATGCCACTGAGTCGTGGACTTTGAGAAGAGATTGCCACTGAGTCGTAGACTTGGAAG
1 AA-AAGATGCCACTGAGTCGTGGACTTTGAGAAAAGA-TGCCACTGAGTCGTGGACTTTGAAG
* * * *
9210 AAAAGATGCCACTGAGTCATGGACTTAGA-AAAGAGATGCCACTGAGTTGTGGGCTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAGAAA-AGATGCCACTGAGTCGTGGACTTTGAAG
* * * *
9271 AAAAGATGCCACTAAATCGTGGACTTTGAAAAAAAAAAGATGCCACTGAGTTGTGGACTTTGAA-
1 AAAAGATGCCACTGAGTCGTGGACTTTG----AGAAAAGATGCCACTGAGTCGTGGACTTTGAAG
*
9335 AAGAGATGCCACTGAGTCGTGGACTTTGAGAAAAGA
1 AAAAGATGCCACTGAGTCGTGGACTTTGAGAAAAGA
9371 GATTTGAAGA
Statistics
Matches: 355, Mismatches: 37, Indels: 27
0.85 0.09 0.06
Matches are distributed among these distances:
59 1 0.00
60 72 0.20
61 167 0.47
62 57 0.16
63 3 0.01
64 25 0.07
65 27 0.08
66 3 0.01
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (61 bp):
AAAAGATGCCACTGAGTCGTGGACTTTGAGAAAAGATGCCACTGAGTCGTGGACTTTGAAG
Found at i:9155 original size:92 final size:91
Alignment explanation
Indices: 8911--9366 Score: 587
Period size: 92 Copynumber: 5.0 Consensus size: 91
8901 AAGAAAAAGG
* * * *
8911 TGCCACTGAGTCGTGGACTTTG-GGAAAAGATGTCACTGAGTCGTGGACTTTGAAGAAAAGATAC
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGGA-AAAAGATGC
*
8975 CACTGAGTCGTGGACTTTGGGAAGAGA
65 CACTGAGTCGTGGACTTTGAGAAGAGA
* * * * *
9002 TGCCACTAAGTCGTGGACTTAGAA-AAGAGATGCCACTGAGTCGTGGACTTTGGGACAAGATGCC
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGGAAAAAGATGCC
9066 ACTGAGTCGTGGACTTTGAGAAGAGA
66 ACTGAGTCGTGGACTTTGAGAAGAGA
* **
9092 TTGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTAAGTCGTGGACTTTGGAACTAGATGC
1 -TGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGGAAAAAGATGC
9157 CACTGAGTCGTGGACTTTGAGAAGAGA
65 CACTGAGTCGTGGACTTTGAGAAGAGA
* * * *
9184 TTGCCACTGAGTCGTAGACTTGGAAGAAAAGATGCCACTGAGTCATGGAC-TTAGAAAAGAGATG
1 -TGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGGAAAA-AGATG
* * *
9248 CCACTGAGTTGTGGGCTTTGAAGAAAAGA
64 CCACTGAGTCGTGGACTTTG-AGAAGAGA
* * * *
9277 TGCCACTAAATCGTGGACTTTGAAAAAAAAAAGATGCCACTGAGTTGTGGACTTT-GAAAAGAGA
1 TGCCACTGAGTCGTGGACTTTG---AAGAAAAGATGCCACTGAGTCGTGGACTTTGGAAAA-AGA
9341 TGCCACTGAGTCGTGGACTTTGAGAA
62 TGCCACTGAGTCGTGGACTTTGAGAA
9367 AAGAGATTTG
Statistics
Matches: 321, Mismatches: 35, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
90 33 0.10
91 73 0.23
92 149 0.46
93 7 0.02
94 4 0.01
95 53 0.17
96 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (91 bp):
TGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGGAAAAAGATGCC
ACTGAGTCGTGGACTTTGAGAAGAGA
Found at i:9314 original size:34 final size:33
Alignment explanation
Indices: 8771--9368 Score: 351
Period size: 30 Copynumber: 19.1 Consensus size: 33
8761 GCTTAAAAGG
* *
8771 AAAAAGATGCCACAGAGTTGTGGAC-TT-AAAA
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAAAA
* * * *
8802 AGAAAAGGTGCCACAGAGTTGTGGAC-TT-AAATGG
1 A-AAAAGATGCCACTGAGTCGTGGACTTTGAAA--A
* * * *
8836 AACAAGGTGCCACGGAGTTGTGGAC-TT-AAAA
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAAAA
* * * *
8867 GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA
1 --AAAAAGA-TGCCACTGAGTCGTGGACTTTGAAAA
* *
8903 GAAAAAGGTGCCACTGAGTCGTGGACTTTG---G
1 -AAAAAGATGCCACTGAGTCGTGGACTTTGAAAA
* *
8934 GAAAAGATGTCACTGAGTCGTGGACTTTG--AA
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAAAA
* * *
8965 GAAAAGATACCACTGAGTCGTGGACTTTG---G
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAAAA
* * * *
8995 GAAGAGATGCCACTAAGTCGTGGAC-TT--AGA
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAAAA
* *
9025 AAAGAGATGCCACTGAGTCGTGGACTTTG---G
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAAAA
* *
9055 GACAAGATGCCACTGAGTCGTGGACTTTG---A
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAAAA
* *
9085 GAAGAGATTGCCACTGAGTCGTGGACTTTG--AA
1 AAAAAGA-TGCCACTGAGTCGTGGACTTTGAAAA
* * *
9117 GAAAAGATGCCACTAAGTCGTGGACTTTG---G
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAAAA
**
9147 AACTAGATGCCACTGAGTCGTGGACTTTG---A
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAAAA
* * * *
9177 GAAGAGATTGCCACTGAGTCGTAGAC-TTG-GAA
1 AAAAAGA-TGCCACTGAGTCGTGGACTTTGAAAA
* * *
9209 GAAAAGATGCCACTGAGTCATGGAC-TT--AGA
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAAAA
* * *
9239 AAAGAGATGCCACTGAGTTGTGGGCTTTG--AA
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAAAA
* * *
9270 GAAAAGATGCCACTAAATCGTGGACTTTGAAAAA
1 AAAAAGATGCCACTGAGTCGTGGACTTTG-AAAA
*
9304 AAAAAGATGCCACTGAGTTGTGGACTTTG---A
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAAAA
* *
9334 AAAGAGATGCCACTGAGTCGTGGACTTTGAGAA
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAAAA
9367 AA
1 AA
9369 GAGATTTGAA
Statistics
Matches: 472, Mismatches: 69, Indels: 50
0.80 0.12 0.08
Matches are distributed among these distances:
29 2 0.00
30 183 0.39
31 134 0.28
32 42 0.09
33 35 0.07
34 63 0.13
35 9 0.02
36 4 0.01
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.22
Consensus pattern (33 bp):
AAAAAGATGCCACTGAGTCGTGGACTTTGAAAA
Found at i:12837 original size:52 final size:52
Alignment explanation
Indices: 12759--12887 Score: 249
Period size: 52 Copynumber: 2.5 Consensus size: 52
12749 CGAAATATGA
12759 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
*
12811 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
12863 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
12888 AAGATCAGTG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 76 1.00
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
Found at i:12898 original size:52 final size:51
Alignment explanation
Indices: 12759--12907 Score: 237
Period size: 52 Copynumber: 2.9 Consensus size: 51
12749 CGAAATATGA
12759 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
12811 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
12863 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
12908 ATGTATCGAT
Statistics
Matches: 92, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
51 2 0.02
52 90 0.98
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:12914 original size:13 final size:13
Alignment explanation
Indices: 12896--12920 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12886 CAAAGATCAG
12896 TGTATCGATACAA
1 TGTATCGATACAA
12909 TGTATCGATACA
1 TGTATCGATACA
12921 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:12994 original size:32 final size:32
Alignment explanation
Indices: 12958--13122 Score: 294
Period size: 32 Copynumber: 5.1 Consensus size: 32
12948 GGCAGTAGCT
* *
12958 TACATTGTATTGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
*
12990 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
13022 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
13054 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
13086 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
13119 TACA
1 TACA
13123 AATCGTTGAA
Statistics
Matches: 130, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
32 115 0.88
33 15 0.12
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:13000 original size:13 final size:13
Alignment explanation
Indices: 12982--13102 Score: 80
Period size: 13 Copynumber: 7.9 Consensus size: 13
12972 ACAAAACTTA
12982 TGTATCGATACAT
1 TGTATCGATACAT
12995 TGTATCGATACAAAACTT
1 TGTATCGATAC---A--T
13013 ATGTATCGATACAT
1 -TGTATCGATACAT
13027 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
13045 ATGTATCGATACAT
1 -TGTATCGATACAT
13059 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
13077 ATGTATCGATACAT
1 -TGTATCGATACAT
13091 TGTATCGATACA
1 TGTATCGATACA
13103 ACACTTTATG
Statistics
Matches: 90, Mismatches: 0, Indels: 36
0.71 0.00 0.29
Matches are distributed among these distances:
13 41 0.46
14 3 0.03
16 14 0.16
18 3 0.03
19 29 0.32
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:13305 original size:18 final size:18
Alignment explanation
Indices: 13282--13316 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
13272 CGGGCTTAAC
13282 AAAAAGTTATAAAAATCT
1 AAAAAGTTATAAAAATCT
13300 AAAAAGTTATAAAAATC
1 AAAAAGTTATAAAAATC
13317 GGCCCGGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.63, C:0.06, G:0.06, T:0.26
Consensus pattern (18 bp):
AAAAAGTTATAAAAATCT
Found at i:14356 original size:13 final size:13
Alignment explanation
Indices: 14338--14362 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14328 ATTACTCAAA
14338 TGTATCGATACAT
1 TGTATCGATACAT
14351 TGTATCGATACA
1 TGTATCGATACA
14363 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:14411 original size:52 final size:52
Alignment explanation
Indices: 14371--14498 Score: 240
Period size: 51 Copynumber: 2.5 Consensus size: 52
14361 CACTGATCTT
14371 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
14423 TG-ATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
14474 TATATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
14499 TCATATTTCG
Statistics
Matches: 74, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
51 50 0.68
52 24 0.32
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:20116 original size:52 final size:52
Alignment explanation
Indices: 20045--20166 Score: 217
Period size: 52 Copynumber: 2.3 Consensus size: 52
20035 TGAAATTTTG
20045 CCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTAGGCAAATTTA
1 CCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTAGGCAAATTTA
* * *
20097 CCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGCAAATTTG
1 CCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTAGGCAAATTTA
20149 CCTGCATGTATCGATACA
1 CCTGCATGTATCGATACA
20167 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (52 bp):
CCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTAGGCAAATTTA
Found at i:20177 original size:52 final size:51
Alignment explanation
Indices: 20041--20186 Score: 213
Period size: 52 Copynumber: 2.8 Consensus size: 51
20031 AATATGAAAT
20041 TTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTAGGCAAA
1 TTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTAGGCAAA
* * *
20093 TTTACCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGCAAA
1 TTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTAGGCAAA
*
20145 TTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
20187 GTTGAGTAAT
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 84 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (51 bp):
TTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTAGGCAAA
Found at i:20253 original size:19 final size:18
Alignment explanation
Indices: 20229--20290 Score: 62
Period size: 19 Copynumber: 3.6 Consensus size: 18
20219 TAGCTTAAAT
20229 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
20248 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
20261 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
20281 TGTATCGATA
1 TGTATCGATA
20291 TAAATCATTG
Statistics
Matches: 36, Mismatches: 0, Indels: 13
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.31
14 1 0.03
16 2 0.06
19 12 0.33
20 10 0.28
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:20266 original size:13 final size:13
Alignment explanation
Indices: 20248--20272 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20238 ACAAAACTTA
20248 TGTATCGATACAT
1 TGTATCGATACAT
20261 TGTATCGATACA
1 TGTATCGATACA
20273 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:20268 original size:32 final size:33
Alignment explanation
Indices: 20227--20290 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
20217 AGTAGCTTAA
20227 ATTGTATCGATACAAAAC-TTATGTATCGATAC
1 ATTGTATCGATACAAAACTTTATGTATCGATAC
*
20259 ATTGTATCGATACAACACTTTATGTATCGATA
1 ATTGTATCGATACAAAACTTTATGTATCGATA
20291 TAAATCATTG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 17 0.57
33 13 0.43
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (33 bp):
ATTGTATCGATACAAAACTTTATGTATCGATAC
Found at i:20371 original size:21 final size:22
Alignment explanation
Indices: 20324--20371 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
20314 TTAACCGTTG
*
20324 GGACCATGTATCGATACATTCT
1 GGACAATGTATCGATACATTCT
*
20346 -AACAATGTATCGATACATT-T
1 GGACAATGTATCGATACATTCT
20366 GGACAA
1 GGACAA
20372 AAATGTAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (22 bp):
GGACAATGTATCGATACATTCT
Found at i:21087 original size:48 final size:49
Alignment explanation
Indices: 21020--21438 Score: 415
Period size: 48 Copynumber: 8.7 Consensus size: 49
21010 CAGTTAGACT
* * * * *
21020 TGAAGGTGACATTGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGA
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA
* * * * *
21069 -CAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGG
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA
* *
21117 TG-AGGTACCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA
* * * *
21165 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTAGACTTAAAGG
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA
** * * *
21214 TGCCAAAGACGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGA
1 TG---AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA
* *
21266 TGAA-GTGCCAATGTGCTGATTCAAGGCCAACTACATTGGAC-T-----
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA
* * *
21308 TGAAGGTGCCAATGTGCTGATTCCAGGCCGGCTACATTGGACTTAAAGA
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA
* ** * * **
21357 TGAAGGTACCAATGCGCTGATTCAAGGCCAACTATATTGGGTTTAAAAGA
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT-AAAGA
* * *
21407 TAAAGGCGCCAATATGCTGGTTCAAGGCCAGC
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGC
21439 GATATCAGAC
Statistics
Matches: 307, Mismatches: 50, Indels: 25
0.80 0.13 0.07
Matches are distributed among these distances:
42 4 0.01
43 34 0.11
44 1 0.00
47 1 0.00
48 112 0.36
49 80 0.26
50 30 0.10
52 45 0.15
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (49 bp):
TGAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA
Found at i:21326 original size:43 final size:45
Alignment explanation
Indices: 21224--21396 Score: 154
Period size: 43 Copynumber: 3.7 Consensus size: 45
21214 TGCCAAAGAC
* * * * *
21224 GCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAA-GT
1 GCCAATGTGCTGATTCAAGGCCAACTACATTGGACTT----ATGAAGGT
21272 GCCAATGTGCTGATTCAAGGCCAACTACATTGGAC-T-TGAAGGT
1 GCCAATGTGCTGATTCAAGGCCAACTACATTGGACTTATGAAGGT
* **
21315 GCCAATGTGCTGATTCCAGGCCGGCTACATTGGACTTAAAGATGAAGGT
1 GCCAATGTGCTGATTCAAGGCCAACTACATTGGACTT----ATGAAGGT
* * *
21364 ACCAATGCGCTGATTCAAGGCCAACTATATTGG
1 GCCAATGTGCTGATTCAAGGCCAACTACATTGG
21397 GTTTAAAAGA
Statistics
Matches: 104, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
42 4 0.04
43 34 0.33
44 1 0.01
47 1 0.01
48 30 0.29
49 34 0.33
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (45 bp):
GCCAATGTGCTGATTCAAGGCCAACTACATTGGACTTATGAAGGT
Found at i:21363 original size:149 final size:145
Alignment explanation
Indices: 21020--21355 Score: 414
Period size: 149 Copynumber: 2.3 Consensus size: 145
21010 CAGTTAGACT
* * * * * **
21020 TGAAGGTGACATTGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAA-G-A-C-AAGGTGCCAAT
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCAACATTAGACTTAAAGGTACCAAAGACGCCAAT
* * * *
21081 ATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGGTGAGGTACCAATGTGCTGATTCAAGGCCA
66 ATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGTACCAATGTGCTGATTCAAGGCCA
*
21146 GCTACATTGGACTTAAAGA
131 ACTACATTGGACTT----A
* *
21165 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTAGACTTAAAGGTGCCAAAGACGCCAAT
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCAACATTAGACTTAAAGGTACCAAAGACGCCAAT
*
21230 ATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGTGCCAATGTGCTGATTCAAGGCCA
66 ATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGTACCAATGTGCTGATTCAAGGCCA
21295 ACTACATTGGAC-T-
131 ACTACATTGGACTTA
* * * * *
21308 TGAAGGTGCCAATGTGCTGATTCCAGGCCGGCTACATTGGACTTAAAG
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCAACATTAGACTTAAAG
21356 ATGAAGGTAC
Statistics
Matches: 166, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
143 42 0.25
145 41 0.25
146 1 0.01
148 2 0.01
149 80 0.48
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (145 bp):
TGAAGGTGCCAATATGCTGATTCAAGGCCAGCAACATTAGACTTAAAGGTACCAAAGACGCCAAT
ATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGTACCAATGTGCTGATTCAAGGCCA
ACTACATTGGACTTA
Found at i:21380 original size:192 final size:192
Alignment explanation
Indices: 21034--21456 Score: 521
Period size: 192 Copynumber: 2.2 Consensus size: 192
21024 GGTGACATTG
* * * * *
21034 TGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAAGGCCAG
1 TGCTGATTCAAGGCCAGCGATATTAGACTTAAAGACAAGGTGCCAATATGCTGATTCAAGGCCAA
* *
21099 CGATATTGGGCTTAAAGGTGAGGTACCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
66 CGACATTGGACTTAAAGGT--GG-ACCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
* * * *
21164 ATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTAGACTT-AAAGGTGCCAAAGACGCCA
128 ATGAAGGTACCAATACGCTGATTCAAGGCCAACAATATTAGACTTAAAAGAT---AAAGACGCCA
21228 ATA
190 ATA
* *
21231 TGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAA-GTGCCAATGTGCTGATTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTAGACTTAAAGA-CAAGGTGCCAATATGCTGATTCAAGGCCA
* * * *
21295 ACTACATTGGACTTGAAGGT-G-CCAATGTGCTGATTCCAGGCCGGCTACATTGGACTTAAAGAT
65 ACGACATTGGACTTAAAGGTGGACCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
* * * ** *
21358 GAAGGTACCAATGCGCTGATTCAAGGCCAACTATATTGGGTTTAAAAGATAAAGGCGCCAATA
130 GAAGGTACCAATACGCTGATTCAAGGCCAACAATATTAGACTTAAAAGATAAAGACGCCAATA
* *
21421 TGCTGGTTCAAGGCCAGCGATATCAGACTTAGAAGA
1 TGCTGATTCAAGGCCAGCGATATTAGACTTA-AAGA
21457 AGATGCCACC
Statistics
Matches: 198, Mismatches: 25, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
190 41 0.21
191 4 0.02
192 75 0.38
193 5 0.03
194 1 0.01
197 70 0.35
198 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (192 bp):
TGCTGATTCAAGGCCAGCGATATTAGACTTAAAGACAAGGTGCCAATATGCTGATTCAAGGCCAA
CGACATTGGACTTAAAGGTGGACCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
AAGGTACCAATACGCTGATTCAAGGCCAACAATATTAGACTTAAAAGATAAAGACGCCAATA
Found at i:21609 original size:30 final size:28
Alignment explanation
Indices: 21473--21624 Score: 182
Period size: 28 Copynumber: 5.3 Consensus size: 28
21463 CACCAACTTG
21473 TGTGGGCTTTTGAAAGGTTTG-CA-TCAACT
1 TGTGGGCTTTT-AAAGG-TTGCCACT-AACT
* * *
21502 TGTGTGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTAAAGGTTGCCACTAACT
* *
21530 TGTGGGCTTTTAAAGATTGCCACTGACT
1 TGTGGGCTTTTAAAGGTTGCCACTAACT
21558 TGTGGGCTTTTAAAGGTTGCCACTAACT
1 TGTGGGCTTTTAAAGGTTGCCACTAACT
* *
21586 TATGGGCTTTTGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTT--AAAGGTTGCCACTAACT
21616 TGTGGGCTT
1 TGTGGGCTT
21625 AAAAGGAAAA
Statistics
Matches: 108, Mismatches: 11, Indels: 7
0.86 0.09 0.06
Matches are distributed among these distances:
27 3 0.03
28 70 0.65
29 11 0.10
30 24 0.22
ACGTcount: A:0.20, C:0.16, G:0.28, T:0.36
Consensus pattern (28 bp):
TGTGGGCTTTTAAAGGTTGCCACTAACT
Found at i:21627 original size:84 final size:84
Alignment explanation
Indices: 21473--21629 Score: 203
Period size: 84 Copynumber: 1.8 Consensus size: 84
21463 CACCAACTTG
* * * *
21473 TGTGGGCTTTTGAAAGGTTTGCATCAACTTGTGTGCTTTTGAAGGTTGCCACTGACTTGTGGGCT
1 TGTGGGCTTTTGAAAGGTTTGCATCAACTTATGGGCTTTTGAAGGGTGCCACTAACTTGTGGGC-
21538 TTTAAAGATTGCCACTGACT
65 TTTAAAGATTGCCACTGACT
21558 TGTGGGCTTTT-AAAGG-TTGCCA-CTAACTTATGGGCTTTTGAAAAGGGTGCCACTAACTTGTG
1 TGTGGGCTTTTGAAAGGTTTG-CATC-AACTTATGGGCTTTTG--AAGGGTGCCACTAACTTGTG
*
21620 GGCTTAAAAG
62 GGCTTTAAAG
21630 GAAAAAGAGT
Statistics
Matches: 63, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
83 4 0.06
84 21 0.33
85 17 0.27
86 21 0.33
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (84 bp):
TGTGGGCTTTTGAAAGGTTTGCATCAACTTATGGGCTTTTGAAGGGTGCCACTAACTTGTGGGCT
TTAAAGATTGCCACTGACT
Found at i:21716 original size:29 final size:29
Alignment explanation
Indices: 21684--21982 Score: 383
Period size: 29 Copynumber: 10.4 Consensus size: 29
21674 TGCCATGGAG
* * * *
21684 TTGTGGACTTTGGAAATGATGCCACCGAC
1 TTGTGGGCTTTGAAAAAGATGCCACTGAC
* * * * *
21713 TTGTGGGCTTCGGAAAAGGGTGCCATTGAT
1 TTGTGGGCTT-TGAAAAAGATGCCACTGAC
* *
21743 TTGTGGGCTTTG--AAGGTTGCCACTGAC
1 TTGTGGGCTTTGAAAAAGATGCCACTGAC
* *
21770 TTGTGGACTTTGAAAAAGATGCCACTAAC
1 TTGTGGGCTTTGAAAAAGATGCCACTGAC
21799 TTGTGGGCTTTGAAAAAGATGCCACTGAC
1 TTGTGGGCTTTGAAAAAGATGCCACTGAC
*
21828 TTGTGGGCTTTGAAAAA-ATGTGCCACTGAT
1 TTGTGGGCTTTGAAAAAGA--TGCCACTGAC
* *
21858 TTGTGGGCTTTG--AAGGTTGCCACTGAC
1 TTGTGGGCTTTGAAAAAGATGCCACTGAC
*
21885 TTGTGGACTTTGAAAAAGATGCCACTGAC
1 TTGTGGGCTTTGAAAAAGATGCCACTGAC
21914 TTGTGGGCTTTGAAAAAGATGCCACTGAC
1 TTGTGGGCTTTGAAAAAGATGCCACTGAC
21943 TTGTGGGCTTTGAAAAAGATGCCACTGAC
1 TTGTGGGCTTTGAAAAAGATGCCACTGAC
21972 TTGTGGGCTTT
1 TTGTGGGCTTT
21983 TGAAGGGTGA
Statistics
Matches: 236, Mismatches: 26, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
27 43 0.18
28 3 0.01
29 147 0.62
30 43 0.18
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (29 bp):
TTGTGGGCTTTGAAAAAGATGCCACTGAC
Found at i:21876 original size:115 final size:113
Alignment explanation
Indices: 21684--21988 Score: 475
Period size: 115 Copynumber: 2.6 Consensus size: 113
21674 TGCCATGGAG
* * * * * * *
21684 TTGTGGACTTTGGAAATGATGCCACCGACTTGTGGGCTTCGGAAAAGGGTGCCATTGATTTGTGG
1 TTGTGGGCTTTGAAAAAGATGCCACTGACTTGTGGGCTT-TGAAAA-AGTGCCACTGATTTGTGG
21749 GCTTTGAAGGTTGCCACTGACTTGTGGACTTTGAAAAAGATGCCACTAAC
64 GCTTTGAAGGTTGCCACTGACTTGTGGACTTTGAAAAAGATGCCACTAAC
21799 TTGTGGGCTTTGAAAAAGATGCCACTGACTTGTGGGCTTTGAAAAAATGTGCCACTGATTTGTGG
1 TTGTGGGCTTTGAAAAAGATGCCACTGACTTGTGGGCTTTG-AAAAA-GTGCCACTGATTTGTGG
*
21864 GCTTTGAAGGTTGCCACTGACTTGTGGACTTTGAAAAAGATGCCACTGAC
64 GCTTTGAAGGTTGCCACTGACTTGTGGACTTTGAAAAAGATGCCACTAAC
*
21914 TTGTGGGCTTTGAAAAAGATGCCACTGACTTGTGGGCTTTGAAAAAGATGCCACTGACTTGTGGG
1 TTGTGGGCTTTGAAAAAGATGCCACTGACTTGTGGGCTTTGAAAAAG-TGCCACTGATTTGTGGG
21979 CTTTTGAAGG
65 C-TTTGAAGG
21989 GTGAGGAATG
Statistics
Matches: 177, Mismatches: 9, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
113 1 0.01
114 23 0.13
115 153 0.86
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.30
Consensus pattern (113 bp):
TTGTGGGCTTTGAAAAAGATGCCACTGACTTGTGGGCTTTGAAAAAGTGCCACTGATTTGTGGGC
TTTGAAGGTTGCCACTGACTTGTGGACTTTGAAAAAGATGCCACTAAC
Found at i:21879 original size:86 final size:86
Alignment explanation
Indices: 21499--21982 Score: 385
Period size: 86 Copynumber: 5.5 Consensus size: 86
21489 GTTTGCATCA
* * *
21499 ACTTGTGTGCTTTTG-AAGGTTGCCACTGACTTGTGGGCTTT--TAAAGATTGCCACTGACTTGT
1 ACTTGTGGGC-TTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAAGA-TGCCACTGACTTGT
* ** *
21561 GGGCTTTTAAAGGT-TGCCACTA
64 GGGCTTTGAAAAATGTGCCACTG
* * * * * *
21583 ACTTATGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTAAAAGGAAAAAGAGTGCTACAGA
1 ACTTGTGGGC-TTTG-AAAGGATGCCACTGACTTGTGGGCTT----TGAAAAAGA-TGCCACTGA
* * *
21648 GTTGTGAGCTTACACAAGACAAAGA-GTGCCA-TGG
59 CTTGTGGGCTT-----TGA-AAA-ATGTGCCACT-G
* * * * * * * * *
21682 AGTTGTGGACTTTGGAAATGATGCCACCGACTTGTGGGCTTCGGAAAAGGGTGCCATTGATTTGT
1 ACTTGTGGGCTTT-GAAAGGATGCCACTGACTTGTGGGCTT-TGAAAAAGATGCCACTGACTTGT
**
21747 GGGCTTTG-AAGGT-TGCCACTG
64 GGGCTTTGAAAAATGTGCCACTG
* * *
21768 ACTTGTGGACTTTGAAAAAGATGCCACTAACTTGTGGGCTTTGAAAAAGATGCCACTGACTTGTG
1 ACTTGTGGGCTTTG-AAAGGATGCCACTGACTTGTGGGCTTTGAAAAAGATGCCACTGACTTGTG
21833 GGCTTTGAAAAAATGTGCCACTG
65 GGCTTTG-AAAAATGTGCCACTG
* * *
21856 ATTTGTGGGCTTTG-AAGGTTGCCACTGACTTGTGGACTTTGAAAAAGATGCCACTGACTTGTGG
1 ACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAAGATGCCACTGACTTGTGG
21920 GCTTTGAAAAA-GATGCCACTG
66 GCTTTGAAAAATG-TGCCACTG
*
21941 ACTTGTGGGCTTTGAAAAAGATGCCACTGACTTGTGGGCTTT
1 ACTTGTGGGCTTTG-AAAGGATGCCACTGACTTGTGGGCTTT
21983 TGAAGGGTGA
Statistics
Matches: 318, Mismatches: 55, Indels: 51
0.75 0.13 0.12
Matches are distributed among these distances:
84 14 0.04
85 53 0.17
86 116 0.36
87 29 0.09
88 20 0.06
89 1 0.00
92 21 0.07
94 15 0.05
95 7 0.02
97 1 0.00
98 28 0.09
99 13 0.04
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (86 bp):
ACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAAGATGCCACTGACTTGTGG
GCTTTGAAAAATGTGCCACTG
Found at i:23458 original size:25 final size:25
Alignment explanation
Indices: 23421--23512 Score: 100
Period size: 24 Copynumber: 3.6 Consensus size: 25
23411 CTTTTTGTTG
23421 TTGTTGTTGTTTTTTTTTG-GTTTGT
1 TTGTT-TTGTTTTTTTTTGTGTTTGT
*
23446 TTGTTTTGTTTTTTTTTGTTTTTGT
1 TTGTTTTGTTTTTTTTTGTGTTTGT
*
23471 TT-TTTTGTTTTTTTTTTTCGTTT-T
1 TTGTTTTGTTTTTTTTTGT-GTTTGT
*
23495 TTTTCTTTCGTTTTTTTT
1 TTGT-TTT-GTTTTTTTT
23513 AGAGGATACC
Statistics
Matches: 59, Mismatches: 3, Indels: 8
0.84 0.04 0.11
Matches are distributed among these distances:
24 31 0.53
25 16 0.27
26 3 0.05
27 9 0.15
ACGTcount: A:0.00, C:0.03, G:0.14, T:0.83
Consensus pattern (25 bp):
TTGTTTTGTTTTTTTTTGTGTTTGT
Found at i:23474 original size:37 final size:37
Alignment explanation
Indices: 23424--23512 Score: 103
Period size: 37 Copynumber: 2.4 Consensus size: 37
23414 TTTGTTGTTG
23424 TTGTTGTTTTTTTTTGGTTTGTTTGTTTT-GTTTTTTT
1 TTGTTGTTTTTTTTTGGTTT-TTTGTTTTCGTTTTTTT
* *
23461 TTGTT-TTTGTTTTTTTGTTTTTTTTTTTCGTTTTTTT
1 TTGTTGTTT-TTTTTTGGTTTTTTGTTTTCGTTTTTTT
23498 TCT-TTCGTTTTTTTT
1 T-TGTT-GTTTTTTTT
23513 AGAGGATACC
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
36 10 0.22
37 26 0.58
38 6 0.13
39 3 0.07
ACGTcount: A:0.00, C:0.03, G:0.13, T:0.83
Consensus pattern (37 bp):
TTGTTGTTTTTTTTTGGTTTTTTGTTTTCGTTTTTTT
Found at i:23475 original size:14 final size:14
Alignment explanation
Indices: 23412--23509 Score: 85
Period size: 14 Copynumber: 6.9 Consensus size: 14
23402 ATCCGGACCC
*
23412 TTTTTGTTGTTGTTG
1 TTTTT-TTGTTTTTG
*
23427 TTGTTTTT-TTTTGG
1 TT-TTTTTGTTTTTG
* *
23441 TTTGTTTGTTTTGTT
1 TTTTTTTGTTTT-TG
23456 TTTTTTTGTTTTTG
1 TTTTTTTGTTTTTG
23470 TTTTTTTGTTTTT-
1 TTTTTTTGTTTTTG
*
23483 TTTTTTCGTTTTT-
1 TTTTTTTGTTTTTG
*
23496 TTTCTTTCGTTTTT
1 TTT-TTTTGTTTTT
23510 TTTAGAGGAT
Statistics
Matches: 71, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
13 19 0.27
14 34 0.48
15 15 0.21
16 3 0.04
ACGTcount: A:0.00, C:0.03, G:0.15, T:0.82
Consensus pattern (14 bp):
TTTTTTTGTTTTTG
Found at i:23499 original size:10 final size:9
Alignment explanation
Indices: 23412--23498 Score: 63
Period size: 9 Copynumber: 9.6 Consensus size: 9
23402 ATCCGGACCC
*
23412 TTTTTGTTG
1 TTTTTGTTT
*
23421 TTGTTGTTGT
1 TTTTTGTT-T
23431 TTTTT-TTT
1 TTTTTGTTT
**
23439 GGTTTGTTT
1 TTTTTGTTT
*
23448 GTTTTGTTTT
1 TTTTTG-TTT
23458 TTTTTGTTT
1 TTTTTGTTT
23467 TTGTTT-TTT
1 TT-TTTGTTT
23476 TGTTTT-TTT
1 T-TTTTGTTT
*
23485 TTTTCGTTT
1 TTTTTGTTT
23494 TTTTT
1 TTTTT
23499 CTTTCGTTTT
Statistics
Matches: 63, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
8 7 0.11
9 40 0.63
10 16 0.25
ACGTcount: A:0.00, C:0.01, G:0.16, T:0.83
Consensus pattern (9 bp):
TTTTTGTTT
Found at i:23510 original size:14 final size:13
Alignment explanation
Indices: 23454--23512 Score: 84
Period size: 13 Copynumber: 4.5 Consensus size: 13
23444 GTTTGTTTTG
23454 TTTTTTTTT-GTT
1 TTTTTTTTTCGTT
*
23466 TTTGTTTTTTTGTT
1 TTT-TTTTTTCGTT
23480 TTTTTTTTTCGTT
1 TTTTTTTTTCGTT
23493 TTTTTTCTTTCGTT
1 TTTTTT-TTTCGTT
23507 TTTTTT
1 TTTTTT
23513 AGAGGATACC
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
12 3 0.07
13 21 0.49
14 19 0.44
ACGTcount: A:0.00, C:0.05, G:0.08, T:0.86
Consensus pattern (13 bp):
TTTTTTTTTCGTT
Found at i:26971 original size:52 final size:52
Alignment explanation
Indices: 26900--27021 Score: 217
Period size: 52 Copynumber: 2.3 Consensus size: 52
26890 TGAAATTTTG
*
26900 CCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGTAAATTTA
1 CCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTA
* *
26952 CCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGCAAATTTG
1 CCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTA
27004 CCTGCATGTATCGATACA
1 CCTGCATGTATCGATACA
27022 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTA
Found at i:27032 original size:52 final size:51
Alignment explanation
Indices: 26896--27041 Score: 213
Period size: 52 Copynumber: 2.8 Consensus size: 51
26886 AATATGAAAT
*
26896 TTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGTAAA
1 TTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAA
* *
26948 TTTACCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGCAAA
1 TTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAA
*
27000 TTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
27042 GTTGAGTAAT
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 84 0.98
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.35
Consensus pattern (51 bp):
TTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAA
Found at i:27108 original size:19 final size:18
Alignment explanation
Indices: 27084--27145 Score: 62
Period size: 19 Copynumber: 3.6 Consensus size: 18
27074 TAGCTTAAAT
27084 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
27103 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
27116 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
27136 TGTATCGATA
1 TGTATCGATA
27146 TAAATCATTG
Statistics
Matches: 36, Mismatches: 0, Indels: 13
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.31
14 1 0.03
16 2 0.06
19 12 0.33
20 10 0.28
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:27121 original size:13 final size:13
Alignment explanation
Indices: 27103--27127 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27093 ACAAAACTTA
27103 TGTATCGATACAT
1 TGTATCGATACAT
27116 TGTATCGATACA
1 TGTATCGATACA
27128 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:27123 original size:32 final size:33
Alignment explanation
Indices: 27082--27145 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
27072 AGTAGCTTAA
27082 ATTGTATCGATACAAAAC-TTATGTATCGATAC
1 ATTGTATCGATACAAAACTTTATGTATCGATAC
*
27114 ATTGTATCGATACAACACTTTATGTATCGATA
1 ATTGTATCGATACAAAACTTTATGTATCGATA
27146 TAAATCATTG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 17 0.57
33 13 0.43
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (33 bp):
ATTGTATCGATACAAAACTTTATGTATCGATAC
Found at i:27226 original size:21 final size:22
Alignment explanation
Indices: 27179--27226 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
27169 TTAACCGTTG
*
27179 GGACCATGTATCGATACATTCT
1 GGACAATGTATCGATACATTCT
*
27201 -AACAATGTATCGATACATT-T
1 GGACAATGTATCGATACATTCT
27221 GGACAA
1 GGACAA
27227 AAATGTAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (22 bp):
GGACAATGTATCGATACATTCT
Found at i:30144 original size:20 final size:20
Alignment explanation
Indices: 30121--30185 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
30111 CACACCCAGA
30121 TGTATCGATACATTATGCTT
1 TGTATCGATACATTATGCTT
30141 TGTATCGATACA--A-----
1 TGTATCGATACATTATGCTT
30154 TGTATCGATACATTATGCTT
1 TGTATCGATACATTATGCTT
30174 TGTATCGATACA
1 TGTATCGATACA
30186 ATGTATCAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 12 0.32
15 1 0.03
18 1 0.03
20 24 0.63
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.40
Consensus pattern (20 bp):
TGTATCGATACATTATGCTT
Found at i:30159 original size:13 final size:13
Alignment explanation
Indices: 30141--30165 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30131 CATTATGCTT
30141 TGTATCGATACAA
1 TGTATCGATACAA
30154 TGTATCGATACA
1 TGTATCGATACA
30166 TTATGCTTTG
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:30162 original size:33 final size:33
Alignment explanation
Indices: 30120--30199 Score: 151
Period size: 33 Copynumber: 2.4 Consensus size: 33
30110 ACACACCCAG
30120 ATGTATCGATACATTATGCTTTGTATCGATACA
1 ATGTATCGATACATTATGCTTTGTATCGATACA
30153 ATGTATCGATACATTATGCTTTGTATCGATACA
1 ATGTATCGATACATTATGCTTTGTATCGATACA
*
30186 ATGTATCAATACAT
1 ATGTATCGATACAT
30200 GTTCATTATA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.39
Consensus pattern (33 bp):
ATGTATCGATACATTATGCTTTGTATCGATACA
Found at i:30216 original size:19 final size:19
Alignment explanation
Indices: 30187--30258 Score: 90
Period size: 19 Copynumber: 3.7 Consensus size: 19
30177 ATCGATACAA
*
30187 TGTATCAATACATGTTCAT
1 TGTATCGATACATGTTCAT
* *
30206 TATATCGATACATATTCAT
1 TGTATCGATACATGTTCAT
**
30225 TGTATCGATACATGAACAAT
1 TGTATCGATACATGTTC-AT
30245 TGTATCGATACATG
1 TGTATCGATACATG
30259 AAACTGGCAG
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
19 29 0.64
20 16 0.36
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:30248 original size:20 final size:20
Alignment explanation
Indices: 30223--30260 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
30213 ATACATATTC
30223 ATTGTATCGATACATGAACA
1 ATTGTATCGATACATGAACA
30243 ATTGTATCGATACATGAA
1 ATTGTATCGATACATGAA
30261 ACTGGCAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (20 bp):
ATTGTATCGATACATGAACA
Found at i:30312 original size:20 final size:19
Alignment explanation
Indices: 30287--30340 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 19
30277 CTACCACTAT
30287 TTGTATCGATACATG-GCACA
1 TTGTATCGATACATGAG-A-A
*
30307 TTGTATCCATACATGATGAA
1 TTGTATCGATACATGA-GAA
30327 TTGTATCGATACAT
1 TTGTATCGATACAT
30341 TGCTTCCAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 28 0.93
21 1 0.03
22 1 0.03
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (19 bp):
TTGTATCGATACATGAGAA
Found at i:31277 original size:35 final size:35
Alignment explanation
Indices: 31189--31299 Score: 118
Period size: 35 Copynumber: 3.2 Consensus size: 35
31179 AAAAAATAAG
* * *
31189 TAATTAAATATGATTAAAATTATATTTATATTAAA
1 TAATAAAATATAATTAAAATTATATTTATGTTAAA
* * *
31224 TGATAAAATATAAATAAAATTATATTTATGTGAAA
1 TAATAAAATATAATTAAAATTATATTTATGTTAAA
* *
31259 TAACTAAAAGT-T-ATTAAAATAACATTTATGTTAAA
1 TAA-TAAAA-TATAATTAAAATTATATTTATGTTAAA
31294 TAATAA
1 TAATAA
31300 TTTAATTAAT
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
34 3 0.05
35 53 0.84
36 6 0.10
37 1 0.02
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (35 bp):
TAATAAAATATAATTAAAATTATATTTATGTTAAA
Found at i:31961 original size:37 final size:34
Alignment explanation
Indices: 31916--32011 Score: 106
Period size: 32 Copynumber: 2.8 Consensus size: 34
31906 AAGTATAACA
31916 TAAAATTATATTTATTTAAATAATAATTAAAAATCAC
1 TAAAATTATATTTATTTAAATAATAA-T--AAATCAC
* * * *
31953 TAAAATTATATTTATAT-AATAA-AATAAGTTAT
1 TAAAATTATATTTATTTAAATAATAATAAATCAC
31985 TAAAATTATATTTATATTAAATAATAA
1 TAAAATTATATTTAT-TTAAATAATAA
32012 AATATATGTT
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
32 19 0.37
33 1 0.02
34 6 0.12
35 4 0.08
36 5 0.10
37 16 0.31
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (34 bp):
TAAAATTATATTTATTTAAATAATAATAAATCAC
Found at i:32011 original size:32 final size:31
Alignment explanation
Indices: 31953--32086 Score: 96
Period size: 32 Copynumber: 4.2 Consensus size: 31
31943 TAAAAATCAC
*
31953 TAAAATTATATTTATA-TAATAAAATAAGTTAT
1 TAAAATTATATTTATATTAA-ATAATAA-TTAT
31985 TAAAATTATATTTATATTAAATAATAAAATATATGT
1 TAAAATTATATTTATATTAAATAAT--AAT-TA--T
* * * *
32021 TAAAATTATA-TTATAATCAATAGTTA-TAT
1 TAAAATTATATTTATATTAAATAATAATTAT
* *
32050 TAAAATTTATAATTATATTAAA-AATAAATAT
1 TAAAA-TTATATTTATATTAAATAATAATTAT
*
32081 AAAAAT
1 TAAAAT
32087 ATTAAAAAAT
Statistics
Matches: 83, Mismatches: 10, Indels: 20
0.73 0.09 0.18
Matches are distributed among these distances:
29 6 0.07
30 9 0.11
31 17 0.20
32 20 0.24
33 5 0.06
34 4 0.05
35 11 0.13
36 11 0.13
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (31 bp):
TAAAATTATATTTATATTAAATAATAATTAT
Found at i:32065 original size:18 final size:18
Alignment explanation
Indices: 32024--32072 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
32014 TATATGTTAA
*
32024 AATTATATTATAATCAAT
1 AATTATATTAAAATCAAT
* **
32042 AGTTATATTAAAATTTAT
1 AATTATATTAAAATCAAT
32060 AATTATATTAAAA
1 AATTATATTAAAA
32073 ATAAATATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
AATTATATTAAAATCAAT
Found at i:36433 original size:92 final size:92
Alignment explanation
Indices: 36276--36459 Score: 359
Period size: 92 Copynumber: 2.0 Consensus size: 92
36266 GAACTACAAA
36276 CCCTTCCGCTTGTTCCATATAGATTTCTTCATCTAATTCACAATTTAGGAAAGTAGTTTTAACAT
1 CCCTTCCGCTTGTTCCATATAGATTTCTTCATCTAATTCACAATTTAGGAAAGTAGTTTTAACAT
36341 CCATTTGGTGTTAACATTTGAATGGAT
66 CCATTTGGTGTTAACATTTGAATGGAT
*
36368 CCCTTCGGCTTGTTCCATATAGATTTCTTCATCTAATTCACAATTTAGGAAAGTAGTTTTAACAT
1 CCCTTCCGCTTGTTCCATATAGATTTCTTCATCTAATTCACAATTTAGGAAAGTAGTTTTAACAT
36433 CCATTTGGTGTTAACATTTGAATGGAT
66 CCATTTGGTGTTAACATTTGAATGGAT
36460 ATTATTCTTG
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 91 1.00
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (92 bp):
CCCTTCCGCTTGTTCCATATAGATTTCTTCATCTAATTCACAATTTAGGAAAGTAGTTTTAACAT
CCATTTGGTGTTAACATTTGAATGGAT
Found at i:37814 original size:22 final size:22
Alignment explanation
Indices: 37755--37801 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
37745 CTACCATGCT
*
37755 ATAGATTAGAAGACTCAAGTAA
1 ATAGATTAGAAGACTCAAGCAA
37777 ATAGATTAGAAGACTCAAGCAA
1 ATAGATTAGAAGACTCAAGCAA
37799 ATA
1 ATA
37802 AGTTGAAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.51, C:0.11, G:0.17, T:0.21
Consensus pattern (22 bp):
ATAGATTAGAAGACTCAAGCAA
Found at i:39602 original size:20 final size:20
Alignment explanation
Indices: 39560--39613 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
39550 TTCAACAATT
39560 TGTATCGATACAATAAGGTAA
1 TGTATCGATAC-ATAAGGTAA
*
39581 TGTGTCGATACATAA-GTGAA
1 TGTATCGATACATAAGGT-AA
39601 TGTATCGATACAT
1 TGTATCGATACAT
39614 GCTTGAAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 18 0.60
21 10 0.33
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATAAGGTAA
Found at i:39730 original size:51 final size:52
Alignment explanation
Indices: 39669--39805 Score: 177
Period size: 52 Copynumber: 2.7 Consensus size: 52
39659 TCTAAAAAGA
* *
39669 AAATGTATCGATACATTTTTCATTGTATCGATACATT-TTGGCTTTTGACGC
1 AAATGTATCGATACATTTTTCATTGTATCGATACATTCTGGGCTTTTGACCC
* * * *
39720 AAATGGATCGATACATTTTTCATTATATCGATATATTCTGGGTTTTTGACCC
1 AAATGTATCGATACATTTTTCATTGTATCGATACATTCTGGGCTTTTGACCC
* * * *
39772 AAATGTATTGATACATATTTCAATGGATCGATAC
1 AAATGTATCGATACATTTTTCATTGTATCGATAC
39806 GTGCAGGCTA
Statistics
Matches: 72, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
51 34 0.47
52 38 0.53
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (52 bp):
AAATGTATCGATACATTTTTCATTGTATCGATACATTCTGGGCTTTTGACCC
Found at i:39793 original size:52 final size:51
Alignment explanation
Indices: 39669--39793 Score: 169
Period size: 51 Copynumber: 2.4 Consensus size: 51
39659 TCTAAAAAGA
* * *
39669 AAATGTATCGATACATTTTTCATTGTATCGATACATTTTGGCTTTTGACGC
1 AAATGTATCGATACATTTTTCATTATATCGATACATTTGGGCTTTTGACCC
* * *
39720 AAATGGATCGATACATTTTTCATTATATCGATATATTCTGGGTTTTTGACCC
1 AAATGTATCGATACATTTTTCATTATATCGATACATT-TGGGCTTTTGACCC
* *
39772 AAATGTATTGATACATATTTCA
1 AAATGTATCGATACATTTTTCA
39794 ATGGATCGAT
Statistics
Matches: 64, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
51 34 0.53
52 30 0.47
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.42
Consensus pattern (51 bp):
AAATGTATCGATACATTTTTCATTATATCGATACATTTGGGCTTTTGACCC
Found at i:42150 original size:81 final size:79
Alignment explanation
Indices: 42038--42238 Score: 237
Period size: 81 Copynumber: 2.5 Consensus size: 79
42028 AATTTCTCTG
* *
42038 TCTAAAACATCAACATTTTCCATGTTAGGGGATACTCTAACCT-TATCAATTTTGAAGAGATACT
1 TCTAAAACATCAAAATTTT-CATCTTAGGGGATACTCTAACCTCTATCAATTTTGAAGAGATACT
**
42102 TTAACCCCGTTTTTACT
65 GCAACCCCGTTTTT--T
** * * * * *
42119 TCTAAAACATTGAATTTCTTCATCTCT-GGGGATACTCCAA-CTCTATCATTTTTGAGGGGATAC
1 TCTAAAACATCAAAATT-TTCATCT-TAGGGGATACTCTAACCTCTATCAATTTTGAAGAGATAC
42182 TGCAACCCCGTTTTTT
64 TGCAACCCCGTTTTTT
42198 TCTAAAACATCAAAATTTTCATCTTAGGGGATACTCTAACC
1 TCTAAAACATCAAAATTTTCATCTTAGGGGATACTCTAACC
42239 CCGATTTTCA
Statistics
Matches: 100, Mismatches: 15, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
77 1 0.01
78 19 0.19
79 16 0.16
80 2 0.02
81 59 0.59
82 3 0.03
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.36
Consensus pattern (79 bp):
TCTAAAACATCAAAATTTTCATCTTAGGGGATACTCTAACCTCTATCAATTTTGAAGAGATACTG
CAACCCCGTTTTTT
Found at i:44271 original size:39 final size:39
Alignment explanation
Indices: 44220--44310 Score: 164
Period size: 39 Copynumber: 2.3 Consensus size: 39
44210 TACATGCCTA
*
44220 AAATGTATCGATACAAAATCACCCTGCATTTTGGAAAGG
1 AAATGTATCGATACAAAATCACCCTACATTTTGGAAAGG
*
44259 AAATGTATCGATACAAAATCACCTTACATTTTGGAAAGG
1 AAATGTATCGATACAAAATCACCCTACATTTTGGAAAGG
44298 AAATGTATCGATA
1 AAATGTATCGATA
44311 TATTTACTGT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 50 1.00
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.27
Consensus pattern (39 bp):
AAATGTATCGATACAAAATCACCCTACATTTTGGAAAGG
Found at i:45413 original size:35 final size:34
Alignment explanation
Indices: 45367--45432 Score: 123
Period size: 35 Copynumber: 1.9 Consensus size: 34
45357 GAAGTGGTTG
45367 AGAGGTTCTATCTTAGCCTTTGTAAAAGATAAAGA
1 AGAGGTTCTATCTTAGCCTTTG-AAAAGATAAAGA
45402 AGAGGTTCTATCTTAGCCTTTGAAAAGATAA
1 AGAGGTTCTATCTTAGCCTTTGAAAAGATAA
45433 TGTTGTAAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 9 0.29
35 22 0.71
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (34 bp):
AGAGGTTCTATCTTAGCCTTTGAAAAGATAAAGA
Found at i:50905 original size:18 final size:19
Alignment explanation
Indices: 50882--50919 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
50872 ATTATATTGA
50882 TAAAA-TGTATCGATACAT
1 TAAAATTGTATCGATACAT
*
50900 TAAAATTGTATCGATGCAT
1 TAAAATTGTATCGATACAT
50919 T
1 T
50920 TCCACTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (19 bp):
TAAAATTGTATCGATACAT
Found at i:52712 original size:26 final size:26
Alignment explanation
Indices: 52683--52739 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
52673 AAATGTTGTT
*
52683 AAATTTGGTTAAATCGAAATAAGGTA
1 AAATTTGGCTAAATCGAAATAAGGTA
*
52709 AAATTTGGCTAAATTGAAATAAGGTA
1 AAATTTGGCTAAATCGAAATAAGGTA
52735 AAATT
1 AAATT
52740 CACTAACAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.47, C:0.04, G:0.18, T:0.32
Consensus pattern (26 bp):
AAATTTGGCTAAATCGAAATAAGGTA
Found at i:53154 original size:213 final size:213
Alignment explanation
Indices: 52782--53214 Score: 821
Period size: 213 Copynumber: 2.0 Consensus size: 213
52772 ATTAAAGGGG
52782 AATATTTCATTAAGGGGAGTATATTCTATGAAATGTATAAAAGGGAGATTGTTTTAAAGGATTGC
1 AATA-TTCATTAAGGGGAGTATATTCTATGAAATGTATAAAAGGGAGATTGTTTTAAAGGATTGC
*
52847 ATAAATTTGTTAAAATGAAAACAATAAGGAAGAAAGAGGAAATTTTATAAGATTTTTATTTTTTC
65 ATAAATTTGTTAAAATGAAAACAATAAGGAAGAAAGAGAAAATTTTATAAGATTTTTATTTTTTC
52912 TAATATGTTTCTTGAGCTATGAATGATAGATTACAGGTTATGAATTTTGAAAAGTCTAAGACAAT
130 TAATATGTTTCTTGAGCTATGAATGATAGATTACAGGTTATGAATTTTGAAAAGTCTAAGACAAT
52977 GATTGTTCACTAGCTTGAA
195 GATTGTTCACTAGCTTGAA
* *
52996 AATATTCATTAAGGGGAGTGTATTCTTTGAAATGTATAAAAGGGAGATTGTTTTAAAGGATTGCA
1 AATATTCATTAAGGGGAGTATATTCTATGAAATGTATAAAAGGGAGATTGTTTTAAAGGATTGCA
53061 TAAATTTGTTAAAATGAAAACAATAAGGAAGAAAGAGAAAATTTTATAAGATTTTTATTTTTTCT
66 TAAATTTGTTAAAATGAAAACAATAAGGAAGAAAGAGAAAATTTTATAAGATTTTTATTTTTTCT
*
53126 AATGTGTTTCTTGAGCTATGAATGATAGATTACAGGTTATGAATTTTGAAAAGTCTAAGACAATG
131 AATATGTTTCTTGAGCTATGAATGATAGATTACAGGTTATGAATTTTGAAAAGTCTAAGACAATG
53191 ATTGTTCACTAGCTTGAA
196 ATTGTTCACTAGCTTGAA
53209 AATATT
1 AATATT
53215 AGTAAGGTCA
Statistics
Matches: 215, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
213 211 0.98
214 4 0.02
ACGTcount: A:0.39, C:0.06, G:0.19, T:0.37
Consensus pattern (213 bp):
AATATTCATTAAGGGGAGTATATTCTATGAAATGTATAAAAGGGAGATTGTTTTAAAGGATTGCA
TAAATTTGTTAAAATGAAAACAATAAGGAAGAAAGAGAAAATTTTATAAGATTTTTATTTTTTCT
AATATGTTTCTTGAGCTATGAATGATAGATTACAGGTTATGAATTTTGAAAAGTCTAAGACAATG
ATTGTTCACTAGCTTGAA
Found at i:55715 original size:25 final size:26
Alignment explanation
Indices: 55668--55716 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
55658 ATTTTGAAGT
55668 AAAAACGGGGTTAGAGTATCCCCTCA
1 AAAAACGGGGTTAGAGTATCCCCTCA
* *
55694 AAAAATGGGGTTGGAGTA-CCCCT
1 AAAAACGGGGTTAGAGTATCCCCT
55717 GATAATGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (26 bp):
AAAAACGGGGTTAGAGTATCCCCTCA
Found at i:58030 original size:52 final size:50
Alignment explanation
Indices: 57967--58082 Score: 151
Period size: 52 Copynumber: 2.3 Consensus size: 50
57957 AATTAATAAG
* * * * *
57967 ATGTATGGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAAAATAGA
1 ATGTATCGATACATTAAAAAATGTATCAATACATCTAGGT--AAAAAACAGA
* *
58019 ATGTATCGATACATTAAAAAATGTATTAATATATCTAGGTAAAAAACAGA
1 ATGTATCGATACATTAAAAAATGTATCAATACATCTAGGTAAAAAACAGA
58069 ATGTATCGATACAT
1 ATGTATCGATACAT
58083 GTACTGTTCA
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 23 0.40
52 34 0.60
ACGTcount: A:0.47, C:0.09, G:0.16, T:0.29
Consensus pattern (50 bp):
ATGTATCGATACATTAAAAAATGTATCAATACATCTAGGTAAAAAACAGA
Found at i:59310 original size:35 final size:34
Alignment explanation
Indices: 59263--59328 Score: 114
Period size: 35 Copynumber: 1.9 Consensus size: 34
59253 GAAGTGATTG
*
59263 AGAGGTTTTATCTTAGCCTTTGTAAAAGATAGGGA
1 AGAGGTTCTATCTTAGCCTTTG-AAAAGATAGGGA
59298 AGAGGTTCTATCTTAGCCTTTGAAAAGATAG
1 AGAGGTTCTATCTTAGCCTTTGAAAAGATAG
59329 TTTTGTAAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 9 0.30
35 21 0.70
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (34 bp):
AGAGGTTCTATCTTAGCCTTTGAAAAGATAGGGA
Found at i:60377 original size:13 final size:13
Alignment explanation
Indices: 60359--60388 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
60349 ACAATTCTTC
60359 ATGTATTGATACA
1 ATGTATTGATACA
*
60372 ATGTATTGATGCA
1 ATGTATTGATACA
60385 ATGT
1 ATGT
60389 CCCATGTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (13 bp):
ATGTATTGATACA
Found at i:60485 original size:19 final size:18
Alignment explanation
Indices: 60433--60488 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
60423 CTACCAGTTT
60433 CATGTATCGATACAATTTGG
1 CATGTATCGATACAA--TGG
* * *
60453 TATATATTGATACAATGAG
1 CATGTATCGATACAATG-G
60472 CATGTATCGATACAATG
1 CATGTATCGATACAATG
60489 TATCTATACA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
18 2 0.07
19 15 0.52
20 12 0.41
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (18 bp):
CATGTATCGATACAATGG
Found at i:60510 original size:20 final size:20
Alignment explanation
Indices: 60485--60538 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
60475 GTATCGATAC
*
60485 AATGTATCTATACAAAACAT
1 AATGTATCGATACAAAACAT
60505 AATGTATCGATACAAAACAT
1 AATGTATCGATACAAAACAT
60525 AATGTATCGATACA
1 AATGTATCGATACA
60539 TCTGGGTGTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.48, C:0.15, G:0.09, T:0.28
Consensus pattern (20 bp):
AATGTATCGATACAAAACAT
Found at i:69308 original size:20 final size:20
Alignment explanation
Indices: 69283--69341 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
69273 GTTGGGCTCA
*
69283 ATGTATCGATACAATTCTTC
1 ATGTATCGATACAATTCTCC
69303 ATGTATCGATACAATGTC-CC
1 ATGTATCGATACAAT-TCTCC
* *
69323 ATTTATCGATACATTTCTC
1 ATGTATCGATACAATTCTC
69342 TTAGGGTAGC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.06
20 30 0.88
21 2 0.06
ACGTcount: A:0.29, C:0.22, G:0.10, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACAATTCTCC
Found at i:69390 original size:20 final size:19
Alignment explanation
Indices: 69364--69416 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
69354 CTGCTAGTTT
69364 CATGTATCGATACAATTTG-G
1 CATGTATCGATACAA--TGAG
* *
69384 TATGTATCGGTACAATGAG
1 CATGTATCGATACAATGAG
69403 CATGTATCGATACA
1 CATGTATCGATACA
69417 TTGTATCGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
18 2 0.07
19 13 0.46
20 13 0.46
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAG
Found at i:69423 original size:13 final size:13
Alignment explanation
Indices: 69405--69429 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
69395 ACAATGAGCA
69405 TGTATCGATACAT
1 TGTATCGATACAT
69418 TGTATCGATACA
1 TGTATCGATACA
69430 AAGCATAATG
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:73159 original size:28 final size:29
Alignment explanation
Indices: 73069--73350 Score: 177
Period size: 28 Copynumber: 9.7 Consensus size: 29
73059 CCAACTTGTA
* * *
73069 TGGGCTTTAAAGAAGGTTGCCACCAACTTGTG
1 TGGGCTTTGAA-AAGGATGCCACTAA-TT-TG
* * * *
73101 TGGGCTTTGGAAGGGTTGCCACTAATATG
1 TGGGCTTTGAAAAGGATGCCACTAATTTG
73130 TGGGCTTT-AAAAGGATGCCACTAATTTG
1 TGGGCTTTGAAAAGGATGCCACTAATTTG
* * * *
73158 TGGGCTTCG-AAAGGGTGCCACTGATTTA
1 TGGGCTTTGAAAAGGATGCCACTAATTTG
* * *
73186 TGGGCTTTGAGAGAGGTTGCCACCAACTTATG
1 TGGGCTTTGA-AAAGGATGCCACTAA-TT-TG
* * * * *
73218 TGGGCTTT--AAGGGGTGCCACTGACTTA
1 TGGGCTTTGAAAAGGATGCCACTAATTTG
* ** *
73245 TGGGCTTTGAGAGAGG-TGGCCACCGACTTG
1 TGGGCTTTGA-AAAGGAT-GCCACTAATTTG
* *
73275 TGGGCTTTGAAAAGG-TGCCACTGACTTG
1 TGGGCTTTGAAAAGGATGCCACTAATTTG
* *
73303 TGGGC-TTGAAAA-AAGTGCCACTAATTTA
1 TGGGCTTTGAAAAGGA-TGCCACTAATTTG
73331 TGGGCTTTG-AAAGGATGCCA
1 TGGGCTTTGAAAAGGATGCCA
73351 TTGACAGGTG
Statistics
Matches: 200, Mismatches: 37, Indels: 30
0.75 0.14 0.11
Matches are distributed among these distances:
27 16 0.08
28 87 0.44
29 30 0.15
30 35 0.17
31 14 0.07
32 18 0.09
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.28
Consensus pattern (29 bp):
TGGGCTTTGAAAAGGATGCCACTAATTTG
Found at i:73239 original size:59 final size:58
Alignment explanation
Indices: 73067--73355 Score: 268
Period size: 59 Copynumber: 5.0 Consensus size: 58
73057 CACCAACTTG
* * *
73067 TATGGGCTTTAAAGAAGGTTGCCACCAACTTGTGTGGGCTTTGGAAGGGTTGCCACT-AAT
1 TATGGGCTTTAGAG-AGGTTGCCACCAACTT-TGTGGGCTTTGAAAGGG-TGCCACTGACT
* * * * * *
73127 ATGTGGGCTTTA-AAAGGATGCCACTAA-TTTGTGGGCTTCGAAAGGGTGCCACTGATT
1 -TATGGGCTTTAGAGAGGTTGCCACCAACTTTGTGGGCTTTGAAAGGGTGCCACTGACT
*
73184 TATGGGCTTTGAGAGAGGTTGCCACCAACTTATGTGGGCTTT-AAGGGGTGCCACTGACT
1 TATGGGCTTT-AGAGAGGTTGCCACCAACTT-TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
73243 TATGGGCTTTGAGAGAGGTGGCCACCGAC-TTGTGGGCTTTGAAAAGGTGCCACTGACT
1 TATGGGCTTT-AGAGAGGTTGCCACCAACTTTGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * * * * * *
73301 TGTGGGCTTGAAAAAAG-TGCCACTAA-TTTATGGGCTTTGAAAGGATGCCATTGAC
1 TATGGGCTTTAGAGAGGTTGCCACCAACTTTGTGGGCTTTGAAAGGGTGCCACTGAC
73356 AGGTGGGCTT
Statistics
Matches: 191, Mismatches: 30, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
56 46 0.24
57 32 0.17
58 38 0.20
59 55 0.29
60 10 0.05
61 10 0.05
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.29
Consensus pattern (58 bp):
TATGGGCTTTAGAGAGGTTGCCACCAACTTTGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:73276 original size:117 final size:116
Alignment explanation
Indices: 73067--73350 Score: 287
Period size: 117 Copynumber: 2.5 Consensus size: 116
73057 CACCAACTTG
* * *
73067 TATGGGCTTTAAAGAAGGTTGCCACCAACTTGTGTGGGCTTTGGAAGGGTTGCCACTAATATGTG
1 TATGGGCTTTAAAGAAGGTTGCCACCAACTTATGTGGGCTTT-GAAGGGGTGCCACTAATATATG
* * * *
73132 GGCTTTAAAAGGATGCCACTAATTTGTGGGCTTCGAAAGGGTGCCACTGATT
65 GGCTTTAAAAGGATGCCACCAACTTGTGGGCTTCGAAAAGGTGCCACTGACT
* *
73184 TATGGGCTTT-GAGAGAGGTTGCCACCAACTTATGTGGGCTTT-AAGGGGTGCCACTGACT-TAT
1 TATGGGCTTTAAAGA-AGGTTGCCACCAACTTATGTGGGCTTTGAAGGGGTGCCACT-AATATAT
* * *
73246 GGGCTTTGAGAGAGG-TGGCCACCGACTTGTGGGCTTTGAAAAGGTGCCACTGACT
64 GGGCTTT-A-AAAGGAT-GCCACCAACTTGTGGGCTTCGAAAAGGTGCCACTGACT
* * * * * * *
73301 TGTGGGCTTGAAA-AAAG-TGCCACTAA-TT-TATGGGCTTTGAAAGGATGCCA
1 TATGGGCTTTAAAGAAGGTTGCCACCAACTTATGTGGGCTTTGAAGGGGTGCCA
73351 TTGACAGGTG
Statistics
Matches: 140, Mismatches: 20, Indels: 17
0.79 0.11 0.10
Matches are distributed among these distances:
113 9 0.06
114 11 0.08
115 29 0.21
116 9 0.06
117 81 0.58
118 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.29
Consensus pattern (116 bp):
TATGGGCTTTAAAGAAGGTTGCCACCAACTTATGTGGGCTTTGAAGGGGTGCCACTAATATATGG
GCTTTAAAAGGATGCCACCAACTTGTGGGCTTCGAAAAGGTGCCACTGACT
Found at i:74650 original size:1 final size:1
Alignment explanation
Indices: 74644--74705 Score: 61
Period size: 1 Copynumber: 62.0 Consensus size: 1
74634 TTGACCCTTC
* * * * * * *
74644 TTTTTTTGTTTTTTTTTATTTTTGTTATTTTTTTTATTTTTTTTGTTTTTTTTTTGTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
74706 GTTTAAGAAG
Statistics
Matches: 47, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.05, C:0.00, G:0.06, T:0.89
Consensus pattern (1 bp):
T
Found at i:74658 original size:9 final size:9
Alignment explanation
Indices: 74644--74709 Score: 73
Period size: 9 Copynumber: 7.2 Consensus size: 9
74634 TTGACCCTTC
74644 TTTTTTTGT
1 TTTTTTTGT
74653 TTTTTTT-T
1 TTTTTTTGT
*
74661 ATTTTTGTTAT
1 -TTTTT-TTGT
*
74672 TTTTTTTAT
1 TTTTTTTGT
74681 TTTTTTTGT
1 TTTTTTTGT
74690 TTTTTTT-T
1 TTTTTTTGT
74698 TGTTTTTTGT
1 T-TTTTTTGT
74708 TT
1 TT
74710 AAGAAGGATG
Statistics
Matches: 51, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
8 3 0.06
9 38 0.75
10 9 0.18
11 1 0.02
ACGTcount: A:0.05, C:0.00, G:0.08, T:0.88
Consensus pattern (9 bp):
TTTTTTTGT
Found at i:74665 original size:18 final size:18
Alignment explanation
Indices: 74644--74709 Score: 82
Period size: 18 Copynumber: 3.6 Consensus size: 18
74634 TTGACCCTTC
74644 TTTTTTTGTTTTTTTTTA
1 TTTTTTTGTTTTTTTTTA
*
74662 TTTTTGTT-ATTTTTTTTA
1 TTTTT-TTGTTTTTTTTTA
74680 TTTTTTTTGTTTTTTTTT-
1 -TTTTTTTGTTTTTTTTTA
74698 TGTTTTTTGTTT
1 T-TTTTTTGTTT
74710 AAGAAGGATG
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.02
18 26 0.62
19 15 0.36
ACGTcount: A:0.05, C:0.00, G:0.08, T:0.88
Consensus pattern (18 bp):
TTTTTTTGTTTTTTTTTA
Found at i:93963 original size:27 final size:28
Alignment explanation
Indices: 93929--93994 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 28
93919 CTCACTTTCC
* *
93929 AAAGCCCACAAGTCAGTGGCATCCTTTT
1 AAAGCCCACAACTCAGTGGCACCCTTTT
*
93957 -AAGCCCACAACTCCGTGGCACCCTTTT
1 AAAGCCCACAACTCAGTGGCACCCTTTT
93984 CAAAGCCCACA
1 -AAAGCCCACA
93995 CAAGTTGGTG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
27 24 0.73
29 9 0.27
ACGTcount: A:0.29, C:0.36, G:0.15, T:0.20
Consensus pattern (28 bp):
AAAGCCCACAACTCAGTGGCACCCTTTT
Found at i:94283 original size:61 final size:61
Alignment explanation
Indices: 94179--94315 Score: 170
Period size: 61 Copynumber: 2.2 Consensus size: 61
94169 AGCACATTGG
* * * * * *
94179 CATTCTTCGCATCTTTAAGCCCAATATTGCTAGCCTTGAATCAGCATGTTGGTAGCTTTAT
1 CATTTTTCTCATCTTTAAGCCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTAT
*
94240 CATTTTTCTCATCTTTAAGCCCAATATCGCT-GGCTGTGAATCAGCATATTGGCACCTTTAT
1 CATTTTTCTCATCTTTAAGCCCAATATCGCTAGCCT-TGAATCAGCATATTGGCACCTTTAT
*
94301 CACTCTTT-TCATCTT
1 CA-TTTTTCTCATCTT
94316 CATCATCTTT
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
60 3 0.05
61 59 0.89
62 4 0.06
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.39
Consensus pattern (61 bp):
CATTTTTCTCATCTTTAAGCCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTAT
Found at i:108816 original size:242 final size:242
Alignment explanation
Indices: 108391--108874 Score: 869
Period size: 242 Copynumber: 2.0 Consensus size: 242
108381 CAAATATAAC
*
108391 CAACTCAACCTCATCGAAGAGAAACGCTTGAAAGCCATTTGCCTTGGTTAATGTATTAGAGACGC
1 CAACTCAACCTCATCGAAGAGAAACGCCTGAAAGCCATTTGCCTTGGTTAATGTATTAGAGACGC
* * * *
108456 TTGATTTGTGCCGACGGCAAAAAGGTGCAACCACAACATTTCTACCTGGCTGAATCAGTATTGAA
66 ATGATTTGTGCCGACGGAAAAAAGGTGCAACCACAACATTTCCACCTAGCTGAATCAGTATTGAA
108521 GAAAATCCTCCCAATTCACAAAAATGCACAAGGCAAGTGGACCCCTAATTGGGAAATGCCATATT
131 GAAAATCCTCCCAATTCACAAAAATGCACAAGGCAAGTGGACCCCTAATTGGGAAATGCCATATT
*
108586 TCATAAAGCAAGCTTTCTCCGGAGAGGCCCTAATATTGACAGAAATG
196 TCATAAAGCAAGCTTTCTCCAGAGAGGCCCTAATATTGACAGAAATG
*
108633 CAACTCAACTTCATCGAAGAGAAACGCCTGAAAGCCATTTGCCTTGGTTAATGTATTAGAGACGC
1 CAACTCAACCTCATCGAAGAGAAACGCCTGAAAGCCATTTGCCTTGGTTAATGTATTAGAGACGC
*
108698 ATGATTTGTGCCGACGGAAAAAAGGTGCAACCACGACATTTCCACCTAGCTGAATCAGTATTGAA
66 ATGATTTGTGCCGACGGAAAAAAGGTGCAACCACAACATTTCCACCTAGCTGAATCAGTATTGAA
* * *
108763 GAAAATCCTCTCAATTCACAAAGATGCACGAGGCAAGTGGACCCCTAATTGGGAAATGCCATATT
131 GAAAATCCTCCCAATTCACAAAAATGCACAAGGCAAGTGGACCCCTAATTGGGAAATGCCATATT
108828 TCATAAAGCAAGCTTTCTCCAGAGAGGCCCTAATATTGACAGAAATG
196 TCATAAAGCAAGCTTTCTCCAGAGAGGCCCTAATATTGACAGAAATG
108875 GAAGGTAATG
Statistics
Matches: 231, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
242 231 1.00
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (242 bp):
CAACTCAACCTCATCGAAGAGAAACGCCTGAAAGCCATTTGCCTTGGTTAATGTATTAGAGACGC
ATGATTTGTGCCGACGGAAAAAAGGTGCAACCACAACATTTCCACCTAGCTGAATCAGTATTGAA
GAAAATCCTCCCAATTCACAAAAATGCACAAGGCAAGTGGACCCCTAATTGGGAAATGCCATATT
TCATAAAGCAAGCTTTCTCCAGAGAGGCCCTAATATTGACAGAAATG
Found at i:109247 original size:13 final size:13
Alignment explanation
Indices: 109229--109253 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
109219 CATAAAGTGT
109229 TGTATCGATACAA
1 TGTATCGATACAA
109242 TGTATCGATACA
1 TGTATCGATACA
109254 TAAGTTTTGT
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:109269 original size:32 final size:33
Alignment explanation
Indices: 109209--109274 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
109199 TTCAACGATT
109209 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
109242 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
109274 T
1 T
109275 TTAAGCTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.59
33 13 0.41
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:109333 original size:13 final size:13
Alignment explanation
Indices: 109315--109339 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
109305 ATTACTCAAA
109315 TGTATCGATACAT
1 TGTATCGATACAT
109328 TGTATCGATACA
1 TGTATCGATACA
109340 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:109392 original size:52 final size:52
Alignment explanation
Indices: 109348--109521 Score: 285
Period size: 52 Copynumber: 3.3 Consensus size: 52
109338 CACTGATCTT
109348 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* * *
109400 TGTATCGATACATGCAAGCAAATTTACCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* * *
109452 TGGATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
109504 TGTATCGATACATACAGG
1 TGTATCGATACATGCAGG
109522 TAAAATTTCA
Statistics
Matches: 112, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 112 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:114082 original size:27 final size:28
Alignment explanation
Indices: 114021--114082 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 28
114011 ACTAATTAGC
114021 GGCACCTCTTCGAAGTCCATAAGTCAGT
1 GGCACCTCTTCGAAGTCCATAAGTCAGT
*
114049 GGCACCTTTTCGAAGTCCATAA-TCAGT
1 GGCACCTCTTCGAAGTCCATAAGTCAGT
114076 GGCACCT
1 GGCACCT
114083 ACTGTATATA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 12 0.36
28 21 0.64
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (28 bp):
GGCACCTCTTCGAAGTCCATAAGTCAGT
Found at i:114399 original size:32 final size:31
Alignment explanation
Indices: 114301--114415 Score: 137
Period size: 32 Copynumber: 3.7 Consensus size: 31
114291 TTTCTCTTCA
114301 AAAGCCCACACAAGTCGGTGGCAACCTTTTTCC
1 AAAGCCCACACAAGTCGGTGGCAACC-TTTT-C
* *
114334 AAAGCCCATAGAAG-C--TGGCAACCTTCTTC
1 AAAGCCCACACAAGTCGGTGGCAACCTT-TTC
* *
114363 AAAGCCCACACAAGTTGGTGGCAACCCTTTC
1 AAAGCCCACACAAGTCGGTGGCAACCTTTTC
114394 TAAAGCCCACACAAGTCGGTGG
1 -AAAGCCCACACAAGTCGGTGG
114416 TATCTCCTTA
Statistics
Matches: 70, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
29 15 0.21
30 10 0.14
31 3 0.04
32 30 0.43
33 12 0.17
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.19
Consensus pattern (31 bp):
AAAGCCCACACAAGTCGGTGGCAACCTTTTC
Found at i:114596 original size:52 final size:52
Alignment explanation
Indices: 114540--114667 Score: 134
Period size: 52 Copynumber: 2.5 Consensus size: 52
114530 TCTTTCTTAT
* * * *
114540 GTCCAATATCTCTGGTCTTGAATCAGCATTTTGGCAGCTTTGA-CA-TCTTTAA
1 GTCCAATATCACTGGTCTTGAATCAACATATTGGCAGCTTT-ATCATTC-CTAA
* * *
114592 GTCCAATATCACTAGTCTTAAATCAACATATTGGCATCTTTATCATTCCTAA
1 GTCCAATATCACTGGTCTTGAATCAACATATTGGCAGCTTTATCATTCCTAA
* * *
114644 GCCCAATGTCGCTGGTCTTGAATC
1 GTCCAATATCACTGGTCTTGAATC
114668 CGATATCACT
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
51 1 0.02
52 59 0.95
53 2 0.03
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (52 bp):
GTCCAATATCACTGGTCTTGAATCAACATATTGGCAGCTTTATCATTCCTAA
Found at i:114716 original size:73 final size:73
Alignment explanation
Indices: 114597--114740 Score: 279
Period size: 73 Copynumber: 2.0 Consensus size: 73
114587 TTTAAGTCCA
*
114597 ATATCACTAGTCTTAAATCAACATATTGGCATCTTTATCATTCCTAAGCCCAATGTCGCTGGTCT
1 ATATCACTAGTCTTAAATCAACATATTGGCATCTTTATCATTCCTAAGCCCAATGTCGCTGGCCT
114662 TGAATCCG
66 TGAATCCG
114670 ATATCACTAGTCTTAAATCAACATATTGGCATCTTTATCATTCCTAAGCCCAATGTCGCTGGCCT
1 ATATCACTAGTCTTAAATCAACATATTGGCATCTTTATCATTCCTAAGCCCAATGTCGCTGGCCT
114735 TGAATC
66 TGAATC
114741 AGCACATTGG
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 70 1.00
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (73 bp):
ATATCACTAGTCTTAAATCAACATATTGGCATCTTTATCATTCCTAAGCCCAATGTCGCTGGCCT
TGAATCCG
Found at i:115041 original size:52 final size:52
Alignment explanation
Indices: 114949--115087 Score: 179
Period size: 52 Copynumber: 2.7 Consensus size: 52
114939 AATTTTACTA
* * * * *
114949 GCCTTGAATCAGCACATTGGCACCCTTGTTATTTTTAAGTCTAATGTTATTG
1 GCCTTGAATCAGCACATTAGCACCCTTCTTATCTTCAAGTCCAATGTTATTG
*** *
115001 GCCTTGAATCAGCACATTAGCTTTCTTCTTATCTTCAAGTCCAATGTTGTTG
1 GCCTTGAATCAGCACATTAGCACCCTTCTTATCTTCAAGTCCAATGTTATTG
* *
115053 GCCTTGAATCAGCACATTGGCACCCTTCTCATCTT
1 GCCTTGAATCAGCACATTAGCACCCTTCTTATCTT
115088 TCGATCTAAA
Statistics
Matches: 73, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (52 bp):
GCCTTGAATCAGCACATTAGCACCCTTCTTATCTTCAAGTCCAATGTTATTG
Found at i:115739 original size:21 final size:20
Alignment explanation
Indices: 115713--115761 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
115703 TTTTACAATT
115713 TGTATCGACACAAACAGTAAA
1 TGTATCGACACAAA-AGTAAA
* * *
115734 TGTATCGATACATAAGTGAA
1 TGTATCGACACAAAAGTAAA
115754 TGTATCGA
1 TGTATCGA
115762 TACATGTCTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (20 bp):
TGTATCGACACAAAAGTAAA
Found at i:115778 original size:21 final size:21
Alignment explanation
Indices: 115713--115786 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 21
115703 TTTTACAATT
* *
115713 TGTATCGACACA-AACAGTAAA
1 TGTATCGATACATAACTG-AAA
*
115734 TGTATCGATACATAAGTG-AA
1 TGTATCGATACATAACTGAAA
**
115754 TGTATCGATACATGTCTGAAA
1 TGTATCGATACATAACTGAAA
115775 TGTATCGATACA
1 TGTATCGATACA
115787 AAACCACTTG
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
20 17 0.38
21 25 0.56
22 3 0.07
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATAACTGAAA
Found at i:119922 original size:21 final size:21
Alignment explanation
Indices: 119889--119929 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
119879 CTAAGTAAAA
119889 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
119910 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
119930 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:119994 original size:20 final size:19
Alignment explanation
Indices: 119969--120039 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
119959 ACCCTGAAAA
119969 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
119989 GTATCGATACAGATTGCAT
1 GTATCGATACACATTAAAT
**
120008 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
120029 GTATCGATACA
1 GTATCGATACA
120040 GGACATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:120092 original size:53 final size:53
Alignment explanation
Indices: 120009--120145 Score: 247
Period size: 53 Copynumber: 2.6 Consensus size: 53
119999 AGATTGCATA
120009 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
120063 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
120116 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
120146 TTGAAAGTAG
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
53 67 0.83
54 14 0.17
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
Found at i:120329 original size:13 final size:13
Alignment explanation
Indices: 120311--120336 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
120301 ACATATTTGT
120311 GTGTATCGATACA
1 GTGTATCGATACA
120324 GTGTATCGATACA
1 GTGTATCGATACA
120337 TCATAAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Found at i:120878 original size:34 final size:35
Alignment explanation
Indices: 120815--120881 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
120805 CTAAGTGATT
120815 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
120851 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
120882 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:122565 original size:84 final size:84
Alignment explanation
Indices: 122405--122565 Score: 186
Period size: 84 Copynumber: 1.9 Consensus size: 84
122395 ACTCAAAGAA
* * * *
122405 GAAAATAAATCAATAAGTGTAGAGAATCATATTCTTGAAAAGAAATTAAGTGAATTAGAGAAGAG
1 GAAAATAAATCAATAAGTGTAGAAAATCATATTCTTAAAAAGAAAATAAATGAATTAGAGAAGAG
* *
122470 TATGAAAGAGTTACAAAAT
66 AAAGAAAGAGTTACAAAAT
* *
122489 GAAAATAAATCAATGAGTTTAGAAAAT-A-ATTCTTTTAAAAAGAAAATAAATGAATT--AGAAG
1 GAAAATAAATCAATAAGTGTAGAAAATCATATTC--TTAAAAAGAAAATAAATGAATTAGAGAAG
122550 AGAAAAGAAATGAGTT
64 AG-AAAGAAA-GAGTT
122566 GCAAGTCGAA
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
82 11 0.17
83 6 0.09
84 48 0.74
ACGTcount: A:0.53, C:0.04, G:0.17, T:0.25
Consensus pattern (84 bp):
GAAAATAAATCAATAAGTGTAGAAAATCATATTCTTAAAAAGAAAATAAATGAATTAGAGAAGAG
AAAGAAAGAGTTACAAAAT
Found at i:124100 original size:13 final size:13
Alignment explanation
Indices: 124082--124106 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
124072 TTTTCCAGAT
124082 TGTATCGATACAA
1 TGTATCGATACAA
124095 TGTATCGATACA
1 TGTATCGATACA
124107 TTGCTTCAGT
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:125748 original size:21 final size:21
Alignment explanation
Indices: 125715--125755 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
125705 CTAAGTAAAA
125715 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
125736 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
125756 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:125820 original size:20 final size:19
Alignment explanation
Indices: 125795--125865 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
125785 ACCCTGAAAA
125795 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
125815 GTATCGATACAGATTGCAT
1 GTATCGATACACATTAAAT
**
125834 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
125855 GTATCGATACA
1 GTATCGATACA
125866 GGACATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:125918 original size:53 final size:53
Alignment explanation
Indices: 125835--125971 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
125825 AGATTGCATA
125835 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
125889 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
* *
125942 GTATCGATACATAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
125972 TTGAAAGTAG
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 66 0.82
54 14 0.17
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.28
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
Found at i:125963 original size:19 final size:19
Alignment explanation
Indices: 125936--125972 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
125926 GGCAGTAGCC
*
125936 AAATTTGTATCGATACATA
1 AAATATGTATCGATACATA
125955 AAATATGTATCGATACAT
1 AAATATGTATCGATACAT
125973 TGAAAGTAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (19 bp):
AAATATGTATCGATACATA
Found at i:126155 original size:13 final size:13
Alignment explanation
Indices: 126137--126162 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
126127 ACATATTTGT
126137 GTGTATCGATACA
1 GTGTATCGATACA
126150 GTGTATCGATACA
1 GTGTATCGATACA
126163 TCATAAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Found at i:126704 original size:34 final size:35
Alignment explanation
Indices: 126641--126707 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
126631 CTAAGTGATT
126641 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
126677 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
126708 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Done.