Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold96
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: 1013983
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Warning! 499 characters in sequence are not A, C, G, or T
File 4 of 8
Found at i:430576 original size:18 final size:18
Alignment explanation
Indices: 430555--430596 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
430545 CTCTTTAAAT
430555 AAAAAAAGTAAA-AAAAAC
1 AAAAAAAG-AAATAAAAAC
* *
430573 AAAAAATGAAATAAAAAG
1 AAAAAAAGAAATAAAAAC
430591 AAAAAA
1 AAAAAA
430597 GTACAAATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.83, C:0.02, G:0.07, T:0.07
Consensus pattern (18 bp):
AAAAAAAGAAATAAAAAC
Found at i:430604 original size:20 final size:19
Alignment explanation
Indices: 430581--430635 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
430571 ACAAAAAATG
*
430581 AAATAAAAAGAAAAAAGTAC
1 AAATAAAAAGAAAAAAG-AA
**
430601 AAATAGTAAGAAAAAAGAA
1 AAATAAAAAGAAAAAAGAA
* *
430620 AAATGAGAAGAAAAAA
1 AAATAAAAAGAAAAAA
430636 TAGATAAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.75, C:0.02, G:0.15, T:0.09
Consensus pattern (19 bp):
AAATAAAAAGAAAAAAGAA
Found at i:430623 original size:19 final size:20
Alignment explanation
Indices: 430588--430635 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
430578 ATGAAATAAA
*
430588 AAGAAAAAAGTACAAAT-AG
1 AAGAAAAAAGTAAAAATGAG
430607 TAAGAAAAAAG-AAAAATGAG
1 -AAGAAAAAAGTAAAAATGAG
430627 AAGAAAAAA
1 AAGAAAAAA
430636 TAGATAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.73, C:0.02, G:0.17, T:0.08
Consensus pattern (20 bp):
AAGAAAAAAGTAAAAATGAG
Found at i:430882 original size:23 final size:23
Alignment explanation
Indices: 430848--430900 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
430838 TCAAGAAAAG
*
430848 TTTCTTTTGGAAAGGTTATAAGCT
1 TTTC-TTTGGAAAAGTTATAAGCT
* *
430872 TTTCTTTGGAAAAGTTGTGAGCT
1 TTTCTTTGGAAAAGTTATAAGCT
430895 TTTCTT
1 TTTCTT
430901 AAGAGCATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 22 0.85
24 4 0.15
ACGTcount: A:0.21, C:0.09, G:0.21, T:0.49
Consensus pattern (23 bp):
TTTCTTTGGAAAAGTTATAAGCT
Found at i:430958 original size:17 final size:18
Alignment explanation
Indices: 430920--430959 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
430910 ATAAAGCAAT
430920 TGAAAAAAAACAAAGAAA
1 TGAAAAAAAACAAAGAAA
430938 -GAAAAAAGAA-AAA-AAA
1 TGAAAAAA-AACAAAGAAA
430954 TGAAAA
1 TGAAAA
430960 GAATAAAGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 3 0.15
17 15 0.75
18 2 0.10
ACGTcount: A:0.80, C:0.03, G:0.12, T:0.05
Consensus pattern (18 bp):
TGAAAAAAAACAAAGAAA
Found at i:431255 original size:25 final size:24
Alignment explanation
Indices: 431227--431280 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
431217 TCTCTAAATA
*
431227 AAAAACAAAAAAAGTTAAA-AAAAAG
1 AAAAAC-AAAAAA-TGAAATAAAAAG
431252 AAAAACAAAAAATGAAATAAAAAG
1 AAAAACAAAAAATGAAATAAAAAG
431276 AAAAA
1 AAAAA
431281 AGGTATAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 4 0.15
24 17 0.63
25 6 0.22
ACGTcount: A:0.81, C:0.04, G:0.07, T:0.07
Consensus pattern (24 bp):
AAAAACAAAAAATGAAATAAAAAG
Found at i:435346 original size:13 final size:13
Alignment explanation
Indices: 435328--435352 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
435318 CAAAGATCAG
435328 TGTATCGATACAA
1 TGTATCGATACAA
435341 TGTATCGATACA
1 TGTATCGATACA
435353 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:435432 original size:13 final size:13
Alignment explanation
Indices: 435414--435438 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
435404 ACAAAAAATA
435414 TGTATCGATACAT
1 TGTATCGATACAT
435427 TGTATCGATACA
1 TGTATCGATACA
435439 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:436337 original size:67 final size:68
Alignment explanation
Indices: 436215--436341 Score: 186
Period size: 67 Copynumber: 1.9 Consensus size: 68
436205 ATTGGGTTTT
*
436215 AAAGATGATGAAAGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGATGATG
1 AAAGATGATGAAAGTGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGATGATG
436280 AGA
66 AGA
* * * *
436283 AAAG-TGAT-AAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGA
1 AAAGATGATGAAAG-TGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGA
436342 GAAAAAGGAT
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
66 4 0.08
67 45 0.85
68 4 0.08
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.25
Consensus pattern (68 bp):
AAAGATGATGAAAGTGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGATGATG
AGA
Found at i:436391 original size:55 final size:52
Alignment explanation
Indices: 436291--436671 Score: 254
Period size: 43 Copynumber: 7.9 Consensus size: 52
436281 GAAAAGTGAT
* * * * * * * *
436291 AAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATG-G-A
* *
436345 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATT-GAACTTAAAGATGGA
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTACATTAG-ACTTAAAGATGGA
*
436398 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTAGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATGGA
* * * *
436441 AAAGGTGCCAATGTGCTAATTCAAGGTCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATGGA
* * *
436491 -AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATGGA
* * *
436533 AAAGGTGCCAATGTGCTAATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATGGA
* * *
436583 -AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTT----A--G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATGGA
* *
436627 --AGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTAGACTTAAAG
436672 GTGCCAATGT
Statistics
Matches: 274, Mismatches: 31, Indels: 51
0.77 0.09 0.14
Matches are distributed among these distances:
43 113 0.41
44 3 0.01
45 1 0.00
46 1 0.00
48 1 0.00
49 75 0.27
51 1 0.00
52 31 0.11
53 7 0.03
54 6 0.02
55 35 0.13
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (52 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATGGA
Found at i:436463 original size:43 final size:43
Alignment explanation
Indices: 436398--436716 Score: 395
Period size: 43 Copynumber: 7.1 Consensus size: 43
436388 TAAAGATGGA
*
436398 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTAGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * * *
436441 AAAGGTGCCAATGTGCTAATTCAAGGTCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
436484 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTT
1 ----A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
436533 AAAGGTGCCAATGTGCTAATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
436576 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTT
1 ----A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
436625 AGAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
436668 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGGCTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
436711 AGAAGG
1 A-AAGG
436717 GTTGCCACCG
Statistics
Matches: 239, Mismatches: 24, Indels: 25
0.83 0.08 0.09
Matches are distributed among these distances:
43 156 0.65
44 4 0.02
45 2 0.01
47 2 0.01
49 75 0.31
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.26
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
Found at i:436534 original size:92 final size:92
Alignment explanation
Indices: 436345--436716 Score: 549
Period size: 92 Copynumber: 4.1 Consensus size: 92
436335 AAGATGAGAA
* * *
436345 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAAT
1 AAAGG-TGCCAATGTGCTAATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAAT
* *
436410 ATGCTGATTCAAGGCCAGCTATATTAGACTT
62 ATGCTGATTCAAGGCCAGCTATATTGGGCTT
*
436441 AAAGGTGCCAATGTGCTAATTCAAGGTCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTAATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
436506 TGATTCAAGGCCAGCTATATTGGGCTT
66 TGATTCAAGGCCAGCTATATTGGGCTT
436533 AAAGGTGCCAATGTGCTAATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTAATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
436598 TGATTCAAGGCCAGCTATATTGGGCTT
66 TGATTCAAGGCCAGCTATATTGGGCTT
* * * * *
436625 AGAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTAATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
436684 TGATTCAAGGCCAGCTACATTGGGCTT
66 TGATTCAAGGCCAGCTATATTGGGCTT
436711 AGAAGG
1 A-AAGG
436717 GTTGCCACCG
Statistics
Matches: 261, Mismatches: 14, Indels: 11
0.91 0.05 0.04
Matches are distributed among these distances:
86 41 0.16
87 3 0.01
88 1 0.00
92 170 0.65
94 1 0.00
95 40 0.15
96 5 0.02
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTAATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
TGATTCAAGGCCAGCTATATTGGGCTT
Found at i:436640 original size:135 final size:133
Alignment explanation
Indices: 436398--436716 Score: 430
Period size: 135 Copynumber: 2.4 Consensus size: 133
436388 TAAAGATGGA
* * * *
436398 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTAGACTT-AAAGGTGCCAATGTGCTAATT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGGTGCCAATATGCTAATT
*
436462 CAAGGTCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATT
66 CAAGGCCAGCTACATTGGACTT--A-ATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATT
*
436527 GGGCTT
128 GGACTT
*
436533 AAAGGTGCCAATGTGCTAATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT--A-A--AAGGTGCCAATATGC
* * *
436598 TGATTCAAGGCCAGCTATATTGGGCTT-A-G-AGGTGCCAATATGCTGATTCAAGGCCAGCTATA
61 TAATTCAAGGCCAGCTACATTGGACTTAATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATA
436660 TTGGACTT
126 TTGGACTT
* *
436668 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGGCTTAGAAGG
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGG
436717 GTTGCCACCG
Statistics
Matches: 165, Mismatches: 13, Indels: 17
0.85 0.07 0.09
Matches are distributed among these distances:
130 4 0.02
133 1 0.01
135 120 0.73
136 1 0.01
137 1 0.01
139 1 0.01
141 37 0.22
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.26
Consensus pattern (133 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGGTGCCAATATGCTAATT
CAAGGCCAGCTACATTGGACTTAATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA
CTT
Found at i:436790 original size:32 final size:32
Alignment explanation
Indices: 436713--436843 Score: 217
Period size: 32 Copynumber: 4.1 Consensus size: 32
436703 TTGGGCTTAG
*
436713 AAGGGTTGCCACCGACTTGTGTGGGCTTTAGAG
1 AAGGGTTGCCACCGACTTGTGTGGGCTTT-GAA
*
436746 AATGGTTGCCACCGACTTGTGTGGGCTTTGAA
1 AAGGGTTGCCACCGACTTGTGTGGGCTTTGAA
*
436778 AAGGGTTGCCACCGACTTGTGTGGGCTTTGAG
1 AAGGGTTGCCACCGACTTGTGTGGGCTTTGAA
*
436810 AAGGGTTGCCACCAACTTGTGTGGGCTTTGAA
1 AAGGGTTGCCACCGACTTGTGTGGGCTTTGAA
436842 AA
1 AA
436844 TGGTGAAAGA
Statistics
Matches: 92, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
32 64 0.70
33 28 0.30
ACGTcount: A:0.20, C:0.18, G:0.34, T:0.28
Consensus pattern (32 bp):
AAGGGTTGCCACCGACTTGTGTGGGCTTTGAA
Found at i:437023 original size:28 final size:27
Alignment explanation
Indices: 436983--437043 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 27
436973 TTTGAGAAGA
*
436983 AAAAGGTTGCCACGGAATTGTAGG-CTTT
1 AAAAGGGTGCCACGGAATTGT-GGAC-TT
*
437011 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAATTGTGGACTT
437038 AAAAGG
1 AAAAGG
437044 AACAAGGTGC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
27 10 0.33
28 20 0.67
ACGTcount: A:0.31, C:0.13, G:0.33, T:0.23
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAATTGTGGACTT
Found at i:437177 original size:163 final size:164
Alignment explanation
Indices: 436854--437669 Score: 1195
Period size: 163 Copynumber: 5.0 Consensus size: 164
436844 TGGTGAAAGA
* * *
436854 TGCCACGAAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGGCTTTAAAA-AGAAAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGAC-TTAAAAGGGAAAA
436918 AG-GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAGAAG
65 AGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT-AGAAG
*
436982 AAAAAGGTTGCCACGGAATTGTAGGCTTTAAAAGGG
129 AAAAAGGTTGCCACGGAATTGTGGGCTTTAAAAGGG
* *
437018 TGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGAAGTTGTGGACTTAAAAAGGAAAAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAAA
* *
437083 GAGTGCCACGAAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTT-GAAGAA
66 GAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAGAAGAA
437147 AAAGGTTGCCACGGAATTGTGGGCTTTAAAAGGGAAAAAGAG
131 AAAGGTTGCCACGGAATTGTGGGCTTTAAAA--G-----G-G
* * ** * *
437189 TGCCACAGAGTTGTGGGCTTTGAA-GAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGGGAAA
** * *
437253 AAGAGTGCCATAGAGTTGTGGGCTTT-AAAA-AAAAA-GTGCCATGGAGTGGTGGGCTTTGAGAA
64 AAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT-AGAA
437315 GAAAAAGGTTGCCACGGAATTGTGGGCTTTAAAAGGG
128 GAAAAAGGTTGCCACGGAATTGTGGGCTTTAAAAGGG
*
437352 TGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGCACTTAAAAGGGAAAAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAAA
* * *
437417 GAGTGCCACGGAGTTGTGGGCTTT--GAAGAAAAAGGTGCCACGGAGTGGTGGGTTTTGAGAAGA
66 GAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT-AGAAGA
437480 AAAAGGTTGCCACGGAATTGTGGGCTTTAAAAGGG
130 AAAAGGTTGCCACGGAATTGTGGGCTTTAAAAGGG
* *
437515 TACCACAGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAAA
437580 GAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT-GAAGAA
66 GAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAGAAGAA
* *
437644 AAAGG-TGCCACGGAGTTGTGGACTTT
131 AAAGGTTGCCACGGAATTGTGGGCTTT
437670 GAGACAAAAT
Statistics
Matches: 592, Mismatches: 41, Indels: 40
0.88 0.06 0.06
Matches are distributed among these distances:
161 2 0.00
162 58 0.10
163 224 0.38
164 79 0.13
165 84 0.14
169 20 0.03
170 29 0.05
171 64 0.11
172 32 0.05
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.21
Consensus pattern (164 bp):
TGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAAA
GAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAGAAGAA
AAAGGTTGCCACGGAATTGTGGGCTTTAAAAGGG
Found at i:437357 original size:28 final size:27
Alignment explanation
Indices: 437317--437377 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 27
437307 TTTGAGAAGA
* *
437317 AAAAGGTTGCCACGGAATTGTGGGCTTT
1 AAAAGGGTGCCACGGAATTGTGGAC-TT
*
437345 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAATTGTGGACTT
437372 AAAAGG
1 AAAAGG
437378 AACAAGGTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 8 0.27
28 22 0.73
ACGTcount: A:0.30, C:0.13, G:0.34, T:0.23
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAATTGTGGACTT
Found at i:437407 original size:334 final size:333
Alignment explanation
Indices: 436829--437669 Score: 1250
Period size: 334 Copynumber: 2.5 Consensus size: 333
436819 CACCAACTTG
436829 TGTGGGCTTTGAAAATGGTGAAAGA-TGCCAC-GAAGTTGTGGACTTAAAAGGAACAAGGTGCCA
1 TGTGGGCTTT-AAAA--G-GAAAGAGTGCCACAG-AGTTGTGGACTTAAAAGGAACAAGGTGCCA
*
436892 CGGAGTTGTGGGCTTTAAAA-AGAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGG
61 CGGAGTTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGG
*
436955 TGCCACGGAGTTGTGGGCTTTGAGAAGAAAAAGGTTGCCACGGAATTGTAGGCTTTAAAAGGGTG
126 TGCCACGGAGTTGTGGGCTTTGAGAAGAAAAAGGTTGCCACGGAATTGTGGGCTTTAAAAGGGTG
*
437020 CCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGAAGTTGTGGACTTAAAAAGGAAAAAGA
191 CCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGAAGTTGTGCACTTAAAAAGGAAAAAGA
*
437085 GTGCCACGAAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTT-GAAGAAAA
256 GTGCCACGAAGTTGTGGGCTTT--AAAGAAAAAGGTGCCACAGAGTGGTGGGCTTTAGAAGAAAA
437149 AGGTTGCCACGGAAT
319 AGGTTGCCACGGAAT
* ** *
437164 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAA-GAAAAAGGTGCCACG
1 TGTGGGCTTTAAAA-GG--AAAGAGTGCCACAGAGTTGTGGACTTAAAAGGAACAAGGTGCCACG
**
437228 GAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCATAGAGTTGTGGGCTTT-AAAA-AAAAA-GT
63 GAGTTGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGT
* *
437290 GCCATGGAGTGGTGGGCTTTGAGAAGAAAAAGGTTGCCACGGAATTGTGGGCTTTAAAAGGGTGC
127 GCCACGGAGTTGTGGGCTTTGAGAAGAAAAAGGTTGCCACGGAATTGTGGGCTTTAAAAGGGTGC
* *
437355 CACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGCACTTAAAAGGGAAAAAGAG
192 CACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGAAGTTGTGCACTTAAAAAGGAAAAAGAG
* * * *
437420 TGCCACGGAGTTGTGGGCTTTGAAGAAAAAGGTGCCACGGAGTGGTGGGTTTTGAGAAGAAAAAG
257 TGCCACGAAGTTGTGGGCTTTAAAGAAAAAGGTGCCACAGAGTGGTGGGCTTT-AGAAGAAAAAG
437485 GTTGCCACGGAAT
321 GTTGCCACGGAAT
*
437498 TGTGGGCTTTAAAA-G---G-GTACCACAGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAG
1 TGTGGGCTTTAAAAGGAAAGAGTGCCACAGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAG
*
437558 TTGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCA
66 TTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCA
* *
437622 CGGAGTTGTGGGCTTT--GAAGAAAAAGG-TGCCACGGAGTTGTGGACTTT
131 CGGAGTTGTGGGCTTTGAGAAGAAAAAGGTTGCCACGGAATTGTGGGCTTT
437670 GAGACAAAAT
Statistics
Matches: 463, Mismatches: 30, Indels: 36
0.88 0.06 0.07
Matches are distributed among these distances:
325 53 0.11
326 38 0.08
327 30 0.06
328 20 0.04
332 30 0.06
333 2 0.00
334 220 0.48
335 38 0.08
336 12 0.03
337 20 0.04
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.21
Consensus pattern (333 bp):
TGTGGGCTTTAAAAGGAAAGAGTGCCACAGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAG
TTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCA
CGGAGTTGTGGGCTTTGAGAAGAAAAAGGTTGCCACGGAATTGTGGGCTTTAAAAGGGTGCCACG
GAGTTGTGGACTTAAAAGGAACAAGGTGCCACGAAGTTGTGCACTTAAAAAGGAAAAAGAGTGCC
ACGAAGTTGTGGGCTTTAAAGAAAAAGGTGCCACAGAGTGGTGGGCTTTAGAAGAAAAAGGTTGC
CACGGAAT
Found at i:437520 original size:28 final size:27
Alignment explanation
Indices: 437480--437540 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
437470 TTTGAGAAGA
* * * *
437480 AAAAGGTTGCCACGGAATTGTGGGCTTT
1 AAAAGGGTACCACAGAATTGTGGAC-TT
*
437508 AAAAGGGTACCACAGAGTTGTGGACTT
1 AAAAGGGTACCACAGAATTGTGGACTT
437535 AAAAGG
1 AAAAGG
437541 AACAAGGTGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 8 0.29
28 20 0.71
ACGTcount: A:0.33, C:0.13, G:0.31, T:0.23
Consensus pattern (27 bp):
AAAAGGGTACCACAGAATTGTGGACTT
Found at i:437593 original size:35 final size:33
Alignment explanation
Indices: 436849--437668 Score: 663
Period size: 34 Copynumber: 24.8 Consensus size: 33
436839 GAAAATGGTG
* *
436849 AAAGATGCCACGAAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
436882 CAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGAC-TTAAAAGGAA
* *
436916 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGAC-TTAAAAGGAA
* *
436950 AAAGGTGCCACGGAGTTGTGGGCTTTGAGAA-GAA
1 AAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGGAA
*
436984 AAAGGTTGCCACGGAATTGTAGG-CTTTAAAA-G--
1 AAAGG-TGCCACGGAGTTGT-GGAC-TTAAAAGGAA
437016 ---GGTGCCACGGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
437046 CAAGGTGCCACGAAGTTGTGGACTTAAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTT-AAAAGGAA
* * *
437080 AAAGAGTGCCACGAAGTTGTGGGCTTTAAAAAGAA
1 AAAG-GTGCCACGGAGTTGTGGAC-TTAAAAGGAA
* * **
437115 AAAGGTGCCACAGAGTTGTGGGCTTTGAA-GAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
437147 AAAGGTTGCCACGGAATTGTGGGCTTTAAAAGGGAA
1 AAAGG-TGCCACGGAGTTGTGGAC-TTAAAA-GGAA
* * **
437183 AAAGAGTGCCACAGAGTTGTGGGCTTTGAA-GAA
1 AAAG-GTGCCACGGAGTTGTGGACTTAAAAGGAA
*
437216 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAA
1 AAAGGTGCCACGGAGTTGTGGAC-TT-AAAA-GGAA
** *
437252 AAAGAGTGCCATAGAGTTGTGGGCTTTAAAA--AA
1 AAAG-GTGCCACGGAGTTGTGGAC-TTAAAAGGAA
* * * *
437285 AAA-GTGCCATGGAGTGGTGGGCTTTGAGAA-GAA
1 AAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGGAA
* *
437318 AAAGGTTGCCACGGAATTGTGGGCTTTAAAA-G--
1 AAAGG-TGCCACGGAGTTGTGGAC-TTAAAAGGAA
437350 ---GGTGCCACGGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
437380 CAAGGTGCCACGGAGTTGTGCACTTAAAAGGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAA-GGAA
* **
437414 AAAGAGTGCCACGGAGTTGTGGGCTTTGAA-GAA
1 AAAG-GTGCCACGGAGTTGTGGACTTAAAAGGAA
* ** *
437447 AAAGGTGCCACGGAGTGGTGGGTTTTGAGAA-GAA
1 AAAGGTGCCACGGAGTTGT-GGACTT-AAAAGGAA
* *
437481 AAAGGTTGCCACGGAATTGTGGGCTTTAAAA-G--
1 AAAGG-TGCCACGGAGTTGTGGAC-TTAAAAGGAA
* *
437513 ---GGTACCACAGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
437543 CAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAA-GGAA
* *
437577 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAG-GTGCCACGGAGTTGTGGAC-TTAAAAGGAA
* **
437612 AAAGGTGCCACGGAGTTGTGGGCTTTGAA-GAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
437644 AAAGGTGCCACGGAGTTGTGGACTT
1 AAAGGTGCCACGGAGTTGTGGACTT
437669 TGAGACAAAA
Statistics
Matches: 671, Mismatches: 67, Indels: 99
0.80 0.08 0.12
Matches are distributed among these distances:
27 20 0.03
28 47 0.07
29 6 0.01
31 20 0.03
32 70 0.10
33 143 0.21
34 169 0.25
35 131 0.20
36 44 0.07
37 21 0.03
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.21
Consensus pattern (33 bp):
AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
Found at i:437695 original size:30 final size:30
Alignment explanation
Indices: 437611--437741 Score: 111
Period size: 32 Copynumber: 4.2 Consensus size: 30
437601 TTTAAAAAGA
* ** * *
437611 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAG
1 AAAAGATGCCACTAAGTCGTGGACTTTG-AG
* ** *
437642 AAAAAGGTGCCACGGAGTTGTGGACTTTGAG
1 -AAAAGATGCCACTAAGTCGTGGACTTTGAG
437673 ACAAA-ATGCCACTAAGTCGTGGACTTTGAAG
1 A-AAAGATGCCACTAAGTCGTGGACTTTG-AG
*
437704 AAAAGGATGCCACTGAGTCGTGGACTTTGAG
1 AAAA-GATGCCACTAAGTCGTGGACTTTGAG
*
437735 AAGAGAT
1 AAAAGAT
437742 TTGAAGAATT
Statistics
Matches: 88, Mismatches: 7, Indels: 10
0.84 0.07 0.10
Matches are distributed among these distances:
30 26 0.30
31 13 0.15
32 49 0.56
ACGTcount: A:0.31, C:0.15, G:0.32, T:0.22
Consensus pattern (30 bp):
AAAAGATGCCACTAAGTCGTGGACTTTGAG
Found at i:438446 original size:19 final size:20
Alignment explanation
Indices: 438422--438464 Score: 79
Period size: 19 Copynumber: 2.2 Consensus size: 20
438412 GTTTGATTTA
438422 TTTGACAAGAAAGATAAT-G
1 TTTGACAAGAAAGATAATGG
438441 TTTGACAAGAAAGATAATGG
1 TTTGACAAGAAAGATAATGG
438461 TTTG
1 TTTG
438465 TTTCCAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.42, C:0.05, G:0.23, T:0.30
Consensus pattern (20 bp):
TTTGACAAGAAAGATAATGG
Found at i:438747 original size:17 final size:17
Alignment explanation
Indices: 438708--438758 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 17
438698 TCGCTTCTTC
* *
438708 TCTTTTTTTTTGTTTCT
1 TCTTTTTTTTTCTTTTT
438725 TCTTTTTTTTTCTTTTT
1 TCTTTTTTTTTCTTTTT
* *
438742 T-GTTTTGTTTCTTTTT
1 TCTTTTTTTTTCTTTTT
438758 T
1 T
438759 TGGAAAAGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
16 14 0.47
17 16 0.53
ACGTcount: A:0.00, C:0.10, G:0.06, T:0.84
Consensus pattern (17 bp):
TCTTTTTTTTTCTTTTT
Found at i:438747 original size:29 final size:28
Alignment explanation
Indices: 438705--438759 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 28
438695 TTTTCGCTTC
438705 TTCTCTTTTTTTTTGTTTCTTCTTTTTTT
1 TTCTCTTTTTTTTTGTTTCTT-TTTTTTT
438734 TTCT-TTTTTGTTTTGTTTCTTTTTTT
1 TTCTCTTTTT-TTTTGTTTCTTTTTTT
438760 GGAAAAGAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
28 10 0.40
29 15 0.60
ACGTcount: A:0.00, C:0.11, G:0.05, T:0.84
Consensus pattern (28 bp):
TTCTCTTTTTTTTTGTTTCTTTTTTTTT
Found at i:438760 original size:17 final size:15
Alignment explanation
Indices: 438705--438759 Score: 69
Period size: 16 Copynumber: 3.7 Consensus size: 15
438695 TTTTCGCTTC
438705 TTCTCTTTTTTTTTGT
1 TTCT-TTTTTTTTTGT
*
438721 TTC-TTCTTTTTT-T
1 TTCTTTTTTTTTTGT
438734 TTCTTTTTTGTTTTGT
1 TTCTTTTTT-TTTTGT
438750 TTCTTTTTTT
1 TTCTTTTTTT
438760 GGAAAAGAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
13 4 0.12
14 12 0.35
15 5 0.15
16 13 0.38
ACGTcount: A:0.00, C:0.11, G:0.05, T:0.84
Consensus pattern (15 bp):
TTCTTTTTTTTTTGT
Found at i:445997 original size:13 final size:13
Alignment explanation
Indices: 445979--446003 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
445969 CAAAGATCAG
445979 TGTATCGATACAA
1 TGTATCGATACAA
445992 TGTATCGATACA
1 TGTATCGATACA
446004 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:446594 original size:44 final size:44
Alignment explanation
Indices: 446546--446689 Score: 123
Period size: 44 Copynumber: 3.2 Consensus size: 44
446536 ATATCATGTG
* *
446546 CATTTGCCTTTTTATTAATGCTTGCATTTGTATCATTTCACACA
1 CATTTGCCTTTTTATTGATGCTTGCATTTGTATCATTTCATACA
** * * ***
446590 CATTTG-CAATTTA--GATGACATTGGCATTTGCATCATATCATGTG
1 CATTTGCCTTTTTATTGATG-C-TT-GCATTTGTATCATTTCATACA
* *
446634 CATTTGCCTCTTTATTGATGCTTGCATTTGTATTATTTCATACA
1 CATTTGCCTTTTTATTGATGCTTGCATTTGTATCATTTCATACA
*
446678 CATATGCACTTT
1 CATTTGC-CTTT
446690 AGATGACAGT
Statistics
Matches: 74, Mismatches: 19, Indels: 13
0.70 0.18 0.12
Matches are distributed among these distances:
41 3 0.04
42 1 0.01
43 7 0.09
44 48 0.65
45 10 0.14
46 1 0.01
47 4 0.05
ACGTcount: A:0.24, C:0.19, G:0.12, T:0.45
Consensus pattern (44 bp):
CATTTGCCTTTTTATTGATGCTTGCATTTGTATCATTTCATACA
Found at i:446638 original size:88 final size:88
Alignment explanation
Indices: 446432--447098 Score: 519
Period size: 88 Copynumber: 7.6 Consensus size: 88
446422 GCGTTAGACC
* * ** * * * *** * *
446432 ACATTAGCGTTTGCATCGTATCATCTGCATTTACCTCTTTATTGATACTTATGTTTGCATCGTTC
1 ACATTGGCATTTGCATTATATCATGTGCATTTGCCTCTTTATTGATGCTTGCATTTGCATTGTTT
* * *
446497 CATGCACATATGCACTTAAGATA
66 CATACACATATGCACTTTAGATG
* * * * **
446520 ACATTGGCA-TTGCATCATATCATGTGCATTTGCCTTTTTATTAATGCTTGCATTTGTATCATTT
1 ACATTGGCATTTGCATTATATCATGTGCATTTGCCTCTTTATTGATGCTTGCATTTGCATTGTTT
* * *
446584 CACACACATTTGCAATTTAGATG
66 CATACACATATGCACTTTAGATG
* * *
446607 ACATTGGCATTTGCATCATATCATGTGCATTTGCCTCTTTATTGATGCTTGCATTTGTATTATTT
1 ACATTGGCATTTGCATTATATCATGTGCATTTGCCTCTTTATTGATGCTTGCATTTGCATTGTTT
446672 CATACACATATGCACTTTAGATG
66 CATACACATATGCACTTTAGATG
* * * * *
446695 ACAGTGGTATTTGCAATT-TAT-A--TGCATTTACCACTTTATTGATGCTT--ATTTCTGCATCG
1 ACATTGGCATTTGC-ATTATATCATGTGCATTTGCCTCTTTATTGATGCTTGCA-TT-TGCATTG
* * * **
446754 TTT--TACATGCATTTACATTATTAGACC
63 TTTCATACA--CATATGCACT-TTAGATG
* * * * *
446781 ACATTAGCAGTTACATTGTATCATGTGCATTTGCCTCTTTATTGATGCTTGCTTTTGCATTGTTT
1 ACATTGGCATTTGCATTATATCATGTGCATTTGCCTCTTTATTGATGCTTGCATTTGCATTGTTT
* * * * **
446846 CATGCACATCTACACCATTAGACC
66 CATACACATATGCA-CTTTAGATG
** * *
446870 ACATTGGCATTTGCATTGCATCATGGGCATTTGCCTCTTTGTTGATG-TTGCATTTGCATTGTTT
1 ACATTGGCATTTGCATTATATCATGTGCATTTGCCTCTTTATTGATGCTTGCATTTGCATTGTTT
* *
446934 CATGCACATCTGCACTTTAGATG
66 CATACACATATGCACTTTAGATG
* * * * * ** *
446957 ACATTGACATTTGCATTGTATCGTGTGCCTTTGCCTTTTTATTGATATTTGCATTTACATTGTTT
1 ACATTGGCATTTGCATTATATCATGTGCATTTGCCTCTTTATTGATGCTTGCATTTGCATTGTTT
* * * * *
447022 CATGCACATCTACAATTTAGATC
66 CATACACATATGCACTTTAGATG
* * * * *
447045 ACATTAGTATTTGTATCATTTTAT-ATATGCATTTGCCACTTTATTGATGCTTGC
1 ACATTGGCATTTG---CATTATATCATGTGCATTTGCCTCTTTATTGATGCTTGC
447099 GCTTGTATTG
Statistics
Matches: 473, Mismatches: 86, Indels: 38
0.79 0.14 0.06
Matches are distributed among these distances:
83 5 0.01
84 2 0.00
85 40 0.08
86 17 0.04
87 116 0.25
88 169 0.36
89 89 0.19
90 25 0.05
91 10 0.02
ACGTcount: A:0.23, C:0.19, G:0.15, T:0.43
Consensus pattern (88 bp):
ACATTGGCATTTGCATTATATCATGTGCATTTGCCTCTTTATTGATGCTTGCATTTGCATTGTTT
CATACACATATGCACTTTAGATG
Found at i:446823 original size:89 final size:88
Alignment explanation
Indices: 446717--447097 Score: 260
Period size: 89 Copynumber: 4.3 Consensus size: 88
446707 GCAATTTATA
* * * **
446717 TGCATTTACCACTTTATTGATGCTT-ATTTCTGCATCGTTTTACATG-CATTTACATTATTAGAC
1 TGCATTTGCCTCTTTATTGATGCTTGATTT-TGCATCG-TTT-CATGACATCTACACCATTAGAC
*
446780 CACATTAGCAGTTACATTGTATCATG
63 CACATTAGCAGTTACATTGCATCATG
* *
446806 TGCATTTGCCTCTTTATTGATGCTTGCTTTTGCATTGTTTCATGCACATCTACACCATTAGACCA
1 TGCATTTGCCTCTTTATTGATGCTTGATTTTGCATCGTTTCATG-ACATCTACACCATTAGACCA
* * *
446871 CATTGGCATTTGCATTGCATCATG
65 CATTAGCAGTTACATTGCATCATG
* * * * * **
446895 GGCATTTGCCTCTTTGTTGATG-TTGCA-TTTGCATTGTTTCATGCACATCTGCA-CTTTAGATG
1 TGCATTTGCCTCTTTATTGATGCTTG-ATTTTGCATCGTTTCATG-ACATCTACACCATTAGACC
* * * *
446957 ACATT-GACATTTGCATTGTATCGTG
64 ACATTAG-CAGTTACATTGCATCATG
* * ** * * *
446982 TGCCTTTGCCTTTTTATTGATATTTGCA-TTTACATTGTTTCATGCACATCTACA--ATTTAGAT
1 TGCATTTGCCTCTTTATTGATGCTTG-ATTTTGCATCGTTTCATG-ACATCTACACCA-TTAGAC
* * ** *
447044 CACATTAGTATTTGTATCATTTTAT-ATA
63 CACATTAGCA-GT-TA-CATTGCATCATG
*
447072 TGCATTTGCCACTTTATTGATGCTTG
1 TGCATTTGCCTCTTTATTGATGCTTG
447098 CGCTTGTATT
Statistics
Matches: 242, Mismatches: 39, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
86 1 0.00
87 48 0.20
88 72 0.30
89 88 0.36
90 26 0.11
91 7 0.03
ACGTcount: A:0.22, C:0.19, G:0.15, T:0.44
Consensus pattern (88 bp):
TGCATTTGCCTCTTTATTGATGCTTGATTTTGCATCGTTTCATGACATCTACACCATTAGACCAC
ATTAGCAGTTACATTGCATCATG
Found at i:447662 original size:29 final size:30
Alignment explanation
Indices: 447617--447673 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
447607 TCTAGTGCTT
447617 TCATTTCTTAGAATTTTGGTTTTT-TCCAAG
1 TCATTTCTTAGAATTTT-GTTTTTGTCCAAG
*
447647 TCATTT-TTAGATTTTTGTTTTTGTCCA
1 TCATTTCTTAGAATTTTGTTTTTGTCCA
447674 GACCATATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 6 0.24
29 13 0.52
30 6 0.24
ACGTcount: A:0.18, C:0.12, G:0.12, T:0.58
Consensus pattern (30 bp):
TCATTTCTTAGAATTTTGTTTTTGTCCAAG
Found at i:452621 original size:51 final size:51
Alignment explanation
Indices: 452545--452672 Score: 204
Period size: 51 Copynumber: 2.5 Consensus size: 51
452535 CCAAAATCTT
*
452545 TAAGGCTTAACC-TCTTTAGATAGGTGATATCTAAAATGGGTTTTGGTTTTC
1 TAAGGCTTGACCTTC-TTAGATAGGTGATATCTAAAATGGGTTTTGGTTTTC
*
452596 TAAGGCTTGACCTTCTTAGATAGGTGTTATCTAAAATGGGTTTTGGTTTTC
1 TAAGGCTTGACCTTCTTAGATAGGTGATATCTAAAATGGGTTTTGGTTTTC
* *
452647 TAAGGCTTGATCTCCTTAGATAGGTG
1 TAAGGCTTGACCTTCTTAGATAGGTG
452673 CCAACTAATT
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
51 70 0.97
52 2 0.03
ACGTcount: A:0.23, C:0.12, G:0.23, T:0.41
Consensus pattern (51 bp):
TAAGGCTTGACCTTCTTAGATAGGTGATATCTAAAATGGGTTTTGGTTTTC
Found at i:452755 original size:31 final size:31
Alignment explanation
Indices: 452716--452822 Score: 110
Period size: 31 Copynumber: 3.5 Consensus size: 31
452706 CCACTAGCTT
*
452716 GTGTGGGCTTTGAATCAGGTGCCGCCAACTC
1 GTGTGGGCTTTGACTCAGGTGCCGCCAACTC
* * * * * *
452747 GTGCGGGCTTAGACTC-GAGTGTCACCAGCTT
1 GTGTGGGCTTTGACTCAG-GTGCCGCCAACTC
*
452778 GTGTGGGCTTTGACT-AGGGTGCCGGCAACTC
1 GTGTGGGCTTTGACTCA-GGTGCCGCCAACTC
452809 GTGTGGGCTTTGAC
1 GTGTGGGCTTTGAC
452823 ATTCTAAGGC
Statistics
Matches: 59, Mismatches: 14, Indels: 6
0.75 0.18 0.08
Matches are distributed among these distances:
30 1 0.02
31 57 0.97
32 1 0.02
ACGTcount: A:0.14, C:0.23, G:0.36, T:0.27
Consensus pattern (31 bp):
GTGTGGGCTTTGACTCAGGTGCCGCCAACTC
Found at i:452779 original size:62 final size:62
Alignment explanation
Indices: 452702--452818 Score: 173
Period size: 62 Copynumber: 1.9 Consensus size: 62
452692 CTCAAACTTA
*
452702 AGTGCCACTAGCTTGTGTGGGCTTTGAATCA-GGTGCCGCCAACTCGTGCGGGCTTAGACTCG
1 AGTGCCACCAGCTTGTGTGGGCTTTGAAT-AGGGTGCCGCCAACTCGTGCGGGCTTAGACTCG
* * * *
452764 AGTGTCACCAGCTTGTGTGGGCTTTGACTAGGGTGCCGGCAACTCGTGTGGGCTT
1 AGTGCCACCAGCTTGTGTGGGCTTTGAATAGGGTGCCGCCAACTCGTGCGGGCTT
452819 TGACATTCTA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
61 1 0.02
62 48 0.98
ACGTcount: A:0.15, C:0.24, G:0.34, T:0.27
Consensus pattern (62 bp):
AGTGCCACCAGCTTGTGTGGGCTTTGAATAGGGTGCCGCCAACTCGTGCGGGCTTAGACTCG
Found at i:453065 original size:41 final size:40
Alignment explanation
Indices: 453008--453517 Score: 321
Period size: 41 Copynumber: 12.4 Consensus size: 40
452998 GTCCTACTTT
*
453008 TTGAGGACAAAGGGAAAAGAAGAATGAAATGGTTCCTGCTCT
1 TTGAGGACAAA-GGAAAAGAAGAATGAAATGG-TCCTGCTCC
* * * *
453050 TTGAGGACAAAGGAAAAAGGACA-AAAGGAATGTGTTCTACTCC
1 TTGAGGACAAAGG-AAAA-GA-AGAATGAAATG-GTCCTGCTCC
* * *
453093 TTGAGGACAAAGGAAAA-AGGAAAT-AAAGTTCGTCCTACTCC
1 TTGAGGACAAAGGAAAAGAAG-AATGAAA--TGGTCCTGCTCC
*
453134 TTGAGGACAAAGGGAAAAGAAG-ATGAAATGGGTCCTGCTCT
1 TTGAGGACAAA-GGAAAAGAAGAATGAAAT-GGTCCTGCTCC
* *
453175 TTAAGGACAAAGG-AAA-AAGAGATGAAATGCGTCCCGCTCC
1 TTGAGGACAAAGGAAAAGAAGA-ATGAAATG-GTCCTGCTCC
** * * **
453215 TTGAGGATGAAGGGAAA-AAGAGATAAAATGAGTCCTATTCC
1 TTGAGGACAAAGGAAAAGAAGA-ATGAAATG-GTCCTGCTCC
* * * **
453256 TTGAGGATAAAGGAAAA-AAAAGATGAAGTGCGTCCCACTCC
1 TTGAGGACAAAGGAAAAGAAGA-ATGAAATG-GTCCTGCTCC
* ** *
453297 TTAAGGACAAAGGGAAAAGGTG-ATGAACTGGGTCCTGCTCC
1 TTGAGGACAAA-GGAAAAGAAGAATGAAAT-GGTCCTGCTCC
* * *
453338 TTGAGGACAAAGGAAAAAGAAG-ATGAACTACGTCCTGCTCT
1 TTGAGGACAAAGG-AAAAGAAGAATGAAAT-GGTCCTGCTCC
*
453379 TTGAGGACAAA--AAGAAAAAGAGATGAAATGGGTCCTGCTCC
1 TTGAGGACAAAGGAA-AAGAAGA-ATGAAAT-GGTCCTGCTCC
* * * *
453420 TTGA-AAAAAAAGAAAA-AAGAGATGAAGTGCGTCCTGCTCC
1 TTGAGGACAAAGGAAAAGAAGA-ATGAAATG-GTCCTGCTCC
* * * *
453460 TTAAGGACAAAAGGAAAAGGAG-ATGAAATGGGTCTTGCTCA
1 TTGAGGAC-AAAGGAAAAGAAGAATGAAAT-GGTCCTGCTCC
453501 TTGAGGACAAAGGAAAA
1 TTGAGGACAAAGGAAAA
453518 AGGAAAAAAG
Statistics
Matches: 374, Mismatches: 64, Indels: 62
0.75 0.13 0.12
Matches are distributed among these distances:
38 5 0.01
39 10 0.03
40 70 0.19
41 208 0.56
42 47 0.13
43 32 0.09
44 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.27, T:0.19
Consensus pattern (40 bp):
TTGAGGACAAAGGAAAAGAAGAATGAAATGGTCCTGCTCC
Found at i:453270 original size:163 final size:162
Alignment explanation
Indices: 453008--453519 Score: 596
Period size: 163 Copynumber: 3.1 Consensus size: 162
452998 GTCCTACTTT
* * *
453008 TTGAGGACAAAGGGAAAAGAAGAATGAAATG-GTTCCTGCTCTTTGAGGACAAAGGAAAAAGGAC
1 TTGAGGACAAAGGAAAAAGAAG-ATGAAATGCG-TCCTGCTCTTTGAGGAAAAAGGAAAAA-GAG
* * * * * * *
453072 AAAAGGAATGTGTTCTACTCCTTGAGGACAAAGGAAAAAGGAAATAAAGTTCGTCCTACTCCTTG
63 ATAA--AATGAGTCCTACTCCTTGAGGAAAAAGGAAAAA-GAAATGAAGTGCGTCCTACTCCTTA
* *
453137 AGGACAAAGGGAAAAGAAGATGAAATGGGTCCTGCTCT
125 AGGACAAAGGGAAAAGGAGATGAAATGGGTCCTGCTCA
* * * * *
453175 TTAAGGACAAAGGAAAAAG-AGATGAAATGCGTCCCGCTCCTTGAGGATGAAGGGAAAAAGAGAT
1 TTGAGGACAAAGGAAAAAGAAGATGAAATGCGTCCTGCTCTTTGAGGA-AAAAGGAAAAAGAGAT
* * * *
453239 AAAATGAGTCCTATTCCTTGAGGATAAAGGAAAAAAAAGATGAAGTGCGTCCCACTCCTTAAGGA
65 AAAATGAGTCCTACTCCTTGAGGAAAAAGGAAAAAGAA-ATGAAGTGCGTCCTACTCCTTAAGGA
* * *
453304 CAAAGGGAAAAGGTGATGAACTGGGTCCTGCTCC
129 CAAAGGGAAAAGGAGATGAAATGGGTCCTGCTCA
* * *
453338 TTGAGGACAAAGGAAAAAGAAGATGAACTACGTCCTGCTCTTTGAGGACAAAAAGAAAAAGAGAT
1 TTGAGGACAAAGGAAAAAGAAGATGAAATGCGTCCTGCTCTTTGAGGA-AAAAGGAAAAAGAGAT
* * * ** * * *
453403 GAAATGGGTCCTGCTCCTTGAAAAAAAAGAAAAAAGAGATGAAGTGCGTCCTGCTCCTTAAGGAC
65 AAAATGAGTCCTACTCCTTGAGGAAAAAGGAAAAAGAAATGAAGTGCGTCCTACTCCTTAAGGAC
* *
453468 AAAAGGAAAAGGAGATGAAATGGGTCTTGCTCA
130 AAAGGGAAAAGGAGATGAAATGGGTCCTGCTCA
453501 TTGAGGACAAAGGAAAAAG
1 TTGAGGACAAAGGAAAAAG
453520 GAAAAAAGGA
Statistics
Matches: 294, Mismatches: 47, Indels: 12
0.83 0.13 0.03
Matches are distributed among these distances:
162 2 0.01
163 171 0.58
164 65 0.22
165 27 0.09
166 12 0.04
167 17 0.06
ACGTcount: A:0.40, C:0.14, G:0.27, T:0.19
Consensus pattern (162 bp):
TTGAGGACAAAGGAAAAAGAAGATGAAATGCGTCCTGCTCTTTGAGGAAAAAGGAAAAAGAGATA
AAATGAGTCCTACTCCTTGAGGAAAAAGGAAAAAGAAATGAAGTGCGTCCTACTCCTTAAGGACA
AAGGGAAAAGGAGATGAAATGGGTCCTGCTCA
Found at i:453297 original size:82 final size:82
Alignment explanation
Indices: 453089--453518 Score: 481
Period size: 82 Copynumber: 5.3 Consensus size: 82
453079 ATGTGTTCTA
* * * *
453089 CTCCTTGAGGACAAAGGAAAAAGGAA-ATAAAGTTCGTCCTACTCCTTGAGGACAAAGGG-AAAA
1 CTCCTTGAGGACAAAGGAAAAA-AAAGATGAAGTGCGTCCTGCTCCTTGAGGACAAAGGGAAAAA
453152 GAAGATGAAATGGGTCCTG
65 G-AGATGAAATGGGTCCTG
* * * * * **
453171 CTCTTTAAGGACAAAGG-AAAAAGAGATGAAATGCGTCCCGCTCCTTGAGGATGAAGGGAAAAAG
1 CTCCTTGAGGACAAAGGAAAAAAAAGATGAAGTGCGTCCTGCTCCTTGAGGACAAAGGGAAAAAG
* * *
453235 AGATAAAATGAGTCCTA
66 AGATGAAATGGGTCCTG
* * ** * *
453252 TTCCTTGAGGATAAAGGAAAAAAAAGATGAAGTGCGTCCCACTCCTTAAGGACAAAGGGAAAAGG
1 CTCCTTGAGGACAAAGGAAAAAAAAGATGAAGTGCGTCCTGCTCCTTGAGGACAAAGGGAAAAAG
* *
453317 TGATGAACTGGGTCCTG
66 AGATGAAATGGGTCCTG
* * * * **
453334 CTCCTTGAGGACAAAGGAAAAAGAAGATGAACTACGTCCTGCTCTTTGAGGACAAAAAGAAAAAG
1 CTCCTTGAGGACAAAGGAAAAAAAAGATGAAGTGCGTCCTGCTCCTTGAGGACAAAGGGAAAAAG
453399 AGATGAAATGGGTCCTG
66 AGATGAAATGGGTCCTG
* * * * * * *
453416 CTCCTTGA-AAAAAAAGAAAAAAGAGATGAAGTGCGTCCTGCTCCTTAAGGACAAAAGGAAAAGG
1 CTCCTTGAGGACAAAGGAAAAAAAAGATGAAGTGCGTCCTGCTCCTTGAGGACAAAGGGAAAAAG
*
453480 AGATGAAATGGGTCTTG
66 AGATGAAATGGGTCCTG
*
453497 CTCATTGAGGACAAAGGAAAAA
1 CTCCTTGAGGACAAAGGAAAAA
453519 GGAAAAAAGG
Statistics
Matches: 284, Mismatches: 60, Indels: 8
0.81 0.17 0.02
Matches are distributed among these distances:
80 1 0.00
81 125 0.44
82 158 0.56
ACGTcount: A:0.40, C:0.15, G:0.26, T:0.18
Consensus pattern (82 bp):
CTCCTTGAGGACAAAGGAAAAAAAAGATGAAGTGCGTCCTGCTCCTTGAGGACAAAGGGAAAAAG
AGATGAAATGGGTCCTG
Found at i:453519 original size:41 final size:41
Alignment explanation
Indices: 453089--453521 Score: 419
Period size: 41 Copynumber: 10.6 Consensus size: 41
453079 ATGTGTTCTA
* * *
453089 CTCCTTGAGGACAAAGGAAAAAGGAAAT-AAAGTTCGTCCTA
1 CTCCTTGAGGACAAAGGAAAAAGGAGATGAAA-TGCGTCCTG
* * *
453130 CTCCTTGAGGACAAAGGGAAAAGAAGATGAAATGGGTCCTG
1 CTCCTTGAGGACAAAGGAAAAAGGAGATGAAATGCGTCCTG
* * *
453171 CTCTTTAAGGACAAAGGAAAAA-GAGATGAAATGCGTCCCG
1 CTCCTTGAGGACAAAGGAAAAAGGAGATGAAATGCGTCCTG
* * * * *
453211 CTCCTTGAGGATGAAGGGAAAAA-GAGATAAAATGAGTCCTA
1 CTCCTTGAGGA-CAAAGGAAAAAGGAGATGAAATGCGTCCTG
* * ** * **
453252 TTCCTTGAGGATAAAGGAAAAAAAAGATGAAGTGCGTCCCA
1 CTCCTTGAGGACAAAGGAAAAAGGAGATGAAATGCGTCCTG
* * * * *
453293 CTCCTTAAGGACAAAGGGAAAAGGTGATGAACTGGGTCCTG
1 CTCCTTGAGGACAAAGGAAAAAGGAGATGAAATGCGTCCTG
* * *
453334 CTCCTTGAGGACAAAGGAAAAAGAAGATGAACTACGTCCTG
1 CTCCTTGAGGACAAAGGAAAAAGGAGATGAAATGCGTCCTG
* * *
453375 CTCTTTGAGGACAAAAAGAAAAA-GAGATGAAATGGGTCCTG
1 CTCCTTGAGGAC-AAAGGAAAAAGGAGATGAAATGCGTCCTG
* * * * *
453416 CTCCTTGA-AAAAAAAGAAAAAAGAGATGAAGTGCGTCCTG
1 CTCCTTGAGGACAAAGGAAAAAGGAGATGAAATGCGTCCTG
* * *
453456 CTCCTTAAGGACAAAAGG-AAAAGGAGATGAAATGGGTCTTG
1 CTCCTTGAGGAC-AAAGGAAAAAGGAGATGAAATGCGTCCTG
*
453497 CTCATTGAGGACAAAGGAAAAAGGA
1 CTCCTTGAGGACAAAGGAAAAAGGA
453522 AAAAAGGAAT
Statistics
Matches: 318, Mismatches: 66, Indels: 16
0.80 0.17 0.04
Matches are distributed among these distances:
39 10 0.03
40 62 0.19
41 230 0.72
42 16 0.05
ACGTcount: A:0.40, C:0.15, G:0.27, T:0.18
Consensus pattern (41 bp):
CTCCTTGAGGACAAAGGAAAAAGGAGATGAAATGCGTCCTG
Found at i:462125 original size:13 final size:13
Alignment explanation
Indices: 462109--462138 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
462099 ATACATTGTT
462109 CATTGTATCGATA
1 CATTGTATCGATA
462122 CATTGTATCGATA
1 CATTGTATCGATA
462135 CATT
1 CATT
462139 TTGGGTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:462179 original size:20 final size:20
Alignment explanation
Indices: 462154--462208 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
462144 TTTACCCAGA
*
462154 TGTATCGATACATT-TTGCAT
1 TGTATCGATACATTGCT-CAT
462174 TGTATCGATACATTGCTCAT
1 TGTATCGATACATTGCTCAT
*
462194 TGTATTGATACATTG
1 TGTATCGATACATTG
462209 TATCGATACA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.44
Consensus pattern (20 bp):
TGTATCGATACATTGCTCAT
Found at i:462213 original size:33 final size:33
Alignment explanation
Indices: 462171--462236 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
462161 ATACATTTTG
* *
462171 CATTGTATCGATACATTGCTCATTGTATTGATA
1 CATTGTATCGATACATGGCTCATTGTATCGATA
462204 CATTGTATCGATACATGGCTCATTGTATCGATA
1 CATTGTATCGATACATGGCTCATTGTATCGATA
462237 GATTTTATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (33 bp):
CATTGTATCGATACATGGCTCATTGTATCGATA
Found at i:464825 original size:51 final size:51
Alignment explanation
Indices: 464768--464887 Score: 156
Period size: 51 Copynumber: 2.4 Consensus size: 51
464758 CTATTTCCGA
* *
464768 AGGGATACTACAACCCTGATTTTA-TTTCTAAAATACCAATTTT-TCACAATC
1 AGGGATACTCCAACCCTGATTTTATTTTC-AAAACACCAATTTTCT-ACAATC
* *
464819 GGGGATACTCCAACTCC-GATTTTATTTTCAAAACACCAATTTTCTATAATC
1 AGGGATACTCCAAC-CCTGATTTTATTTTCAAAACACCAATTTTCTACAATC
464870 AGGGATACTCCAACCCTG
1 AGGGATACTCCAACCCTG
464888 TTATTTCCGA
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
50 2 0.03
51 51 0.85
52 7 0.12
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.33
Consensus pattern (51 bp):
AGGGATACTCCAACCCTGATTTTATTTTCAAAACACCAATTTTCTACAATC
Found at i:464902 original size:79 final size:78
Alignment explanation
Indices: 464819--465050 Score: 322
Period size: 79 Copynumber: 2.9 Consensus size: 78
464809 TTTCACAATC
* *
464819 GGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCAGGGATACTCCAAC
1 GGGGATACTCCAAC-CCGATTTTACTTTCAAAACACCGATTTTCTATAATCAGGGATACTCCAAC
464884 CCTGTTATTTCCGA
65 CCTGTTATTTCCGA
* * * *
464898 GGGGATACTCCAACCTCGATTTTAGTTTCAGAATACCGATTTTCTATAATCAGGGATATTCCAAC
1 GGGGATACTCCAACC-CGATTTTACTTTCAAAACACCGATTTTCTATAATCAGGGATACTCCAAC
464963 CCTGTTATTTCCGA
65 CCTGTTATTTCCGA
* * * *
464977 GGGAATACTCCAACCCCGATTTTACTTTCAAAACATCGATTTT-TCATAATCGGGGATACTCCAG
1 GGGGATACTCCAA-CCCGATTTTACTTTCAAAACACCGATTTTCT-ATAATCAGGGATACTCCAA
*
465041 CCCCGTTATT
64 CCCTGTTATT
465051 ATCTCCAAAA
Statistics
Matches: 136, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
78 2 0.01
79 132 0.97
80 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.33
Consensus pattern (78 bp):
GGGGATACTCCAACCCGATTTTACTTTCAAAACACCGATTTTCTATAATCAGGGATACTCCAACC
CTGTTATTTCCGA
Found at i:477364 original size:8 final size:8
Alignment explanation
Indices: 477351--477426 Score: 88
Period size: 8 Copynumber: 9.9 Consensus size: 8
477341 TCTTTTTCAA
477351 AAAAAAAC
1 AAAAAAAC
477359 AAAAAAAC
1 AAAAAAAC
477367 -AAAAAA-
1 AAAAAAAC
*
477373 AAACAAA-
1 AAAAAAAC
477380 AAAAAAAC
1 AAAAAAAC
477388 AAAAAAAC
1 AAAAAAAC
*
477396 AAAGAAAC
1 AAAAAAAC
477404 AAAAAAA-
1 AAAAAAAC
*
477411 AACAAAAC
1 AAAAAAAC
477419 AAAGAAAA
1 AAA-AAAA
477427 AAGAGAGAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
7 23 0.40
8 31 0.53
9 4 0.07
ACGTcount: A:0.87, C:0.11, G:0.03, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:477373 original size:19 final size:18
Alignment explanation
Indices: 477348--477428 Score: 117
Period size: 18 Copynumber: 4.4 Consensus size: 18
477338 CATTCTTTTT
477348 CAAAAAAAAACAAAAAAA
1 CAAAAAAAAACAAAAAAA
477366 CAAAAAAAAACAAAAAAA
1 CAAAAAAAAACAAAAAAA
* *
477384 AAACAAAAAAACAAAGAAA
1 CAA-AAAAAAACAAAAAAA
477403 CAAAAAAAAACAAAACAAA
1 CAAAAAAAAACAAAA-AAA
*
477422 GAAAAAA
1 CAAAAAA
477429 GAGAGAAAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
18 31 0.55
19 25 0.45
ACGTcount: A:0.86, C:0.11, G:0.02, T:0.00
Consensus pattern (18 bp):
CAAAAAAAAACAAAAAAA
Found at i:477417 original size:23 final size:23
Alignment explanation
Indices: 477355--477425 Score: 94
Period size: 23 Copynumber: 3.1 Consensus size: 23
477345 TTTCAAAAAA
*
477355 AAACAAAAAAACAAAAAA-AAAC
1 AAACAAAAAAACAAAAAACAAAG
477377 AAA-AAAAAAACAAAAAAACAAAG
1 AAACAAAAAAAC-AAAAAACAAAG
477400 AAACAAAAAAA-AACAAAACAAAG
1 AAACAAAAAAACAA-AAAACAAAG
477423 AAA
1 AAA
477426 AAAGAGAGAA
Statistics
Matches: 44, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
21 8 0.18
22 11 0.25
23 18 0.41
24 7 0.16
ACGTcount: A:0.86, C:0.11, G:0.03, T:0.00
Consensus pattern (23 bp):
AAACAAAAAAACAAAAAACAAAG
Found at i:477437 original size:29 final size:27
Alignment explanation
Indices: 477349--477441 Score: 84
Period size: 25 Copynumber: 3.3 Consensus size: 27
477339 ATTCTTTTTC
*
477349 AAAAAAAAACAAAA-AAACAAAAAA-A
1 AAAAAAAAACAAAACAAAAAAAAAAGA
*
477374 AACAAAAAA-AAAACAAAAAAACAAAGAAA
1 AAAAAAAAACAAAACAAAAAAA-AAAG--A
477403 CAAAAAAAAACAAAACAAAGAAAAAAGAGA
1 -AAAAAAAAACAAAACAAA-AAAAAA-AGA
*
477433 GAAAAAAAA
1 AAAAAAAAA
477442 GAACCTGCTT
Statistics
Matches: 55, Mismatches: 4, Indels: 14
0.75 0.05 0.19
Matches are distributed among these distances:
24 4 0.07
25 14 0.25
26 3 0.05
29 9 0.16
30 9 0.16
31 10 0.18
32 6 0.11
ACGTcount: A:0.86, C:0.09, G:0.05, T:0.00
Consensus pattern (27 bp):
AAAAAAAAACAAAACAAAAAAAAAAGA
Found at i:477441 original size:1 final size:1
Alignment explanation
Indices: 477349--477428 Score: 70
Period size: 1 Copynumber: 80.0 Consensus size: 1
477339 ATTCTTTTTC
* * * * * * * *
477349 AAAAAAAAACAAAAAAACAAAAAAAAACAAAAAAAAAACAAAAAAACAAAGAAACAAAAAAAAAC
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
477414 AAAACAAAGAAAAAA
1 AAAAAAAAAAAAAAA
477429 GAGAGAAAAA
Statistics
Matches: 59, Mismatches: 20, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 59 1.00
ACGTcount: A:0.88, C:0.10, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:478505 original size:27 final size:27
Alignment explanation
Indices: 478475--478560 Score: 73
Period size: 27 Copynumber: 3.1 Consensus size: 27
478465 CACCTTTTCC
478475 TTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTAAAGCCCACACAAGTTGGTGGCA
** * * * * ** *
478502 TTTTCTAGTCCTCAAAGAGTAGGACGCC
1 TTTTAAAGCCCACACA-AGTTGGTGGCA
*
478530 TTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTAAAGCCCACACAAGTTGGTGGCA
478557 TTTT
1 TTTT
478561 CCAGTCCTCA
Statistics
Matches: 38, Mismatches: 20, Indels: 2
0.63 0.33 0.03
Matches are distributed among these distances:
27 21 0.55
28 17 0.45
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (27 bp):
TTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:478682 original size:61 final size:61
Alignment explanation
Indices: 478447--478771 Score: 458
Period size: 61 Copynumber: 5.5 Consensus size: 61
478437 TTCGCCCTTT
* * * * * *
478447 AGTCCTCAAAGAGCATGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCT
1 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCC
* * *
478508 AGTCCTCAAAGAGTAGGACGCCTT-T-C----AAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCC
478563 AGTCCTCAAAGAGCAGGACG-C--CT-C--TTAAAGCCCACACAAGTTGGTGGCACTTCCC
1 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCC
478618 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCC
1 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCC
* *
478679 AGTCCTCAAAGAGCAGGACACCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCT
1 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCC
*
478740 AGTCCTCAAAGAGCAGGACGCTTTCTCCTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTT
478772 GCCCTTTAGT
Statistics
Matches: 244, Mismatches: 11, Indels: 18
0.89 0.04 0.07
Matches are distributed among these distances:
53 2 0.01
54 1 0.00
55 94 0.39
56 1 0.00
58 2 0.01
59 2 0.01
60 1 0.00
61 141 0.58
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (61 bp):
AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCC
Found at i:478917 original size:61 final size:60
Alignment explanation
Indices: 478799--479150 Score: 342
Period size: 61 Copynumber: 5.9 Consensus size: 60
478789 GAGCAGGACG
478799 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAGCAGGATG-CTTTT
*
478861 CCTTTTAAAGCCCACATAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATG-----
1 CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTT
* * * * * *
478916 CCTTTCAAATCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGGGGAGGATGCTTTAT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTT-T
* * * * ** * * *
478977 CCTTTTAATGACCACTCAAGTTGGTGGTACCTTCGAGACCTCAAAAAGCAGGATGC-TTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTT
* * ** * *
479036 CTCTTTGCAAAGCCTACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCTTTT
1 C-CTTT-TAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTT
* * * * *
479098 -TTTTTCAAAGCCCACACGAGTTGGTGACACTTTT-TTGTCCTCAAAAAGCAGGA
1 CCTTTT-AAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAGCAGGA
479151 CGCACTTTAT
Statistics
Matches: 237, Mismatches: 42, Indels: 24
0.78 0.14 0.08
Matches are distributed among these distances:
55 48 0.20
59 2 0.01
60 45 0.19
61 111 0.47
62 31 0.13
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (60 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTT
Found at i:478999 original size:272 final size:268
Alignment explanation
Indices: 478507--479038 Score: 694
Period size: 272 Copynumber: 2.0 Consensus size: 268
478497 TGGCATTTTC
*
478507 TAGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAA
1 TAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAA
478572 AGAGCAGGACGCCTCTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGAC
66 AGAGCAGGACGCCTCTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGAC
*
478637 GCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACACCT
131 GCCTTCTCC---TAAAGCCCACACAAGTTGGTGGCACTTCCCAATCCTCAAAGAGCAGGACACCT
* * * * *
478702 TCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGACGCTTTCT
193 TATCCTTTTAAAGACCACACAAGTTGGTGGCACCTT-CGAGACCTCAAAAAGCAGGACGCTTTCT
478766 CCTTTTGCCCTT
257 CCTTTTGCCCTT
* *
478778 TAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCA
1 TAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCA
* * * * *
478843 AAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACATAAGTTGGTGGCATTTTCTAGTCCTCAAAGA
65 AAGAGCAGGACGCC---T-C--TTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGA
* * * * * * *
478908 GCAGGATGCCTT-T-C-AAATCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGGGGAGGAT
124 GCAGGACGCCTTCTCCTAAAGCCCACACAAGTTGGTGGCACTTCCCAATCCTCAAAGAGCAGGAC
* * * * * *
478970 GCTTTATCCTTTTAATGACCACTCAAGTTGGTGGTACCTTCGAGACCTCAAAAAGCAGGATGCTT
189 ACCTTATCCTTTTAAAGACCACACAAGTTGGTGGCACCTTCGAGACCTCAAAAAGCAGGACGCTT
479035 TCTC
254 TCTC
479039 TTTGCAAAGC
Statistics
Matches: 226, Mismatches: 27, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
271 48 0.21
272 121 0.54
273 3 0.01
275 1 0.00
276 2 0.01
277 1 0.00
278 50 0.22
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (268 bp):
TAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAA
AGAGCAGGACGCCTCTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGAC
GCCTTCTCCTAAAGCCCACACAAGTTGGTGGCACTTCCCAATCCTCAAAGAGCAGGACACCTTAT
CCTTTTAAAGACCACACAAGTTGGTGGCACCTTCGAGACCTCAAAAAGCAGGACGCTTTCTCCTT
TTGCCCTT
Found at i:479019 original size:116 final size:116
Alignment explanation
Indices: 478782--479090 Score: 361
Period size: 116 Copynumber: 2.6 Consensus size: 116
478772 GCCCTTTAGT
* * *
478782 CCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGA
1 CCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGA
* ** * *
478847 GCAGGATGCCTTTTCCTTTTAAAGCCCACATAAGTTGGTGGCATTTTCTAGT
65 GCAGGATGCCTTTTCCTTTTAAAGACCACATAAGTTGGTGGCACCTTCGAGA
* * *
478899 CCTCAAAGAGCAGGATGCCTTTCAAATCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGGG
1 CCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAG
* * *
478964 GAGGATG-CTTTATCCTTTTAATGACCAC-TCAAGTTGGTGGTACCTTCGAGA
66 CAGGATGCCTTT-TCCTTTTAAAGACCACAT-AAGTTGGTGGCACCTTCGAGA
* * **
479015 CCTCAAAAAGCAGGATGCTTTCTCTTTGCAAAGCCTACACAAGTTGGTGGCACCTTCCAGTCCTC
1 CCTCAAAGAGCAGGATG----C-CTTT-CAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
479080 AAAGAGCAGGA
60 AAAGAGCAGGA
479091 CGCTTTTTTT
Statistics
Matches: 162, Mismatches: 22, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
115 5 0.03
116 68 0.42
117 43 0.27
120 1 0.01
121 4 0.02
122 41 0.25
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (116 bp):
CCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAG
CAGGATGCCTTTTCCTTTTAAAGACCACATAAGTTGGTGGCACCTTCGAGA
Found at i:479021 original size:333 final size:330
Alignment explanation
Indices: 478400--479096 Score: 910
Period size: 333 Copynumber: 2.1 Consensus size: 330
478390 TTTCTCCTTT
* *
478400 CACTTTCTAGTCCTCAAAGAGCATGG-C-ATTCTCTCCTTTCGCCCTTTAGTCCTCAAAGAGCAT
1 CACTTCCTAGTCCTCAAAGAGCA-GGACGCTT-TCTCCTTTCGCCCTTTAGTCCTCAAAGAGCAT
* *
478463 GACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGTAGGACG
64 GACACC--TGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACG
478528 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTCTTAAAG
127 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTCTTAAAG
* * *
478593 CCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCA
192 CCCACACAAGTTGGTGGCACTTCCCAATCCTCAAAGAGCAGGACGCCTTATCCTTTTAAAGACCA
* * *
478658 CACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACACCTTCTCCTTT-TAAAGCCCACAC
257 CACAAGTTGGTGGCACTTCCCAGACCTCAAAAAGCAGGACACCTTCT-CTTTGCAAAGCCCACAC
478722 AAGTTGGTGG
321 AAGTTGGTGG
*
478732 CACTTCCTAGTCCTCAAAGAGCAGGACGCTTTCTCCTTTTGCCCTTTAGTCCTCAAAGAGCA-G-
1 CACTTCCTAGTCCTCAAAGAGCAGGACGCTTTCTCCTTTCGCCCTTTAGTCCTCAAAGAGCATGA
* *
478795 GA-C-GCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCT
66 CACCTGCCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAGCAGGACGCC-
* * *
478858 TTTCCTTTTAAAGCCCACATAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCCT-TTC
129 TTT-C----AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTCTT-
* * * * * * * *
478922 AAATCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGGGGAGGATGCTTTATCCTTTTAATG
188 AAAGCCCACACAAGTTGGTGGCACTTCCCAATCCTCAAAGAGCAGGACGCCTTATCCTTTTAAAG
* * * ** * *
478987 ACCACTCAAGTTGGTGGTACCTT-CGAGACCTCAAAAAGCAGGATGCTTTCTCTTTGCAAAGCCT
253 ACCACACAAGTTGGTGGCA-CTTCCCAGACCTCAAAAAGCAGGACACCTTCTCTTTGCAAAGCCC
479051 ACACAAGTTGGTGG
317 ACACAAGTTGGTGG
479065 CACCTTCC-AGTCCTCAAAGAGCAGGACGCTTT
1 CA-CTTCCTAGTCCTCAAAGAGCAGGACGCTTT
479097 TTTTTTCAAA
Statistics
Matches: 321, Mismatches: 31, Indels: 25
0.85 0.08 0.07
Matches are distributed among these distances:
326 29 0.09
327 26 0.08
328 3 0.01
329 2 0.01
330 1 0.00
331 3 0.01
332 59 0.18
333 190 0.59
334 8 0.02
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (330 bp):
CACTTCCTAGTCCTCAAAGAGCAGGACGCTTTCTCCTTTCGCCCTTTAGTCCTCAAAGAGCATGA
CACCTGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACGCCTT
TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTCTTAAAGCCCA
CACAAGTTGGTGGCACTTCCCAATCCTCAAAGAGCAGGACGCCTTATCCTTTTAAAGACCACACA
AGTTGGTGGCACTTCCCAGACCTCAAAAAGCAGGACACCTTCTCTTTGCAAAGCCCACACAAGTT
GGTGG
Found at i:479178 original size:42 final size:42
Alignment explanation
Indices: 479131--479322 Score: 188
Period size: 42 Copynumber: 4.5 Consensus size: 42
479121 GTGACACTTT
* *
479131 TTTGTCCTCAAAAAGCAGGACGCACTTTATTTTCCTCTCTCC
1 TTTGTCCTCAAAGAGCAGGACGCACTTCATTTTCCTCTCTCC
* ** * *
479173 TTTGTCCTCAAAGAGCAGGACACACTTCATTCCCTTATTTTCTCT
1 TTTGTCCTCAAAGAGCAGGACGCACTTCATT---TTCCTCTCTCC
* * * * *
479218 TTTATCCTCAAAGAGCAGGTCGTACTTCATTTTCCTCTTTCT
1 TTTGTCCTCAAAGAGCAGGACGCACTTCATTTTCCTCTCTCC
* * * *
479260 TTTGTCTTCAAAGAGCAGGACGCATTTCATTTTCCTTTTTTCC
1 TTTGTCCTCAAAGAGCAGGACGCACTTCATTTTCC-TCTCTCC
479303 TTTGTCCTCGAAA-AGCAGGA
1 TTTGTCCTC-AAAGAGCAGGA
479323 TGTACTCTTT
Statistics
Matches: 122, Mismatches: 23, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
42 65 0.53
43 20 0.16
44 3 0.02
45 34 0.28
ACGTcount: A:0.21, C:0.27, G:0.14, T:0.39
Consensus pattern (42 bp):
TTTGTCCTCAAAGAGCAGGACGCACTTCATTTTCCTCTCTCC
Found at i:479289 original size:87 final size:87
Alignment explanation
Indices: 479130--479322 Score: 239
Period size: 87 Copynumber: 2.2 Consensus size: 87
479120 GGTGACACTT
* *
479130 TTTTGTCCTCAAAAAGCAGGACGCACTTTATTTTCCTCTCTCCTTTGTCCTCAAAGAGCAGGACA
1 TTTTATCCTCAAAAAGCAGGACGCACTTCATTTTCCTCTCTCCTTTGTCCTCAAAGAGCAGGACA
479195 CACTTCATTCCCTTATTTTCTC
66 CACTTCATTCCCTTATTTTCTC
* * * * * * *
479217 TTTTATCCTCAAAGAGCAGGTCGTACTTCATTTTCCTCTTTCTTTTGTCTTCAAAGAGCAGGACG
1 TTTTATCCTCAAAAAGCAGGACGCACTTCATTTTCCTCTCTCCTTTGTCCTCAAAGAGCAGGACA
* *
479282 CATTTCATTTTCCTT-TTTTC-C
66 CACTTCA-TTCCCTTATTTTCTC
* *
479303 -TTTGTCCTCGAAAAGCAGGA
1 TTTTATCCTCAAAAAGCAGGA
479323 TGTACTCTTT
Statistics
Matches: 90, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
85 16 0.18
86 1 0.01
87 67 0.74
88 6 0.07
ACGTcount: A:0.21, C:0.26, G:0.13, T:0.39
Consensus pattern (87 bp):
TTTTATCCTCAAAAAGCAGGACGCACTTCATTTTCCTCTCTCCTTTGTCCTCAAAGAGCAGGACA
CACTTCATTCCCTTATTTTCTC
Found at i:479380 original size:37 final size:39
Alignment explanation
Indices: 479327--479422 Score: 99
Period size: 37 Copynumber: 2.4 Consensus size: 39
479317 GCAGGATGTA
*
479327 CTCTTTTTCACTTTGTCCTAAAGAAGCAGGA-CACTTTC-TT
1 CTCTTTTT--CTTTGTCCTAAAGAAGCAAGACCA-TTTCATT
* * *
479367 -TTTTTTTCTTTGTCCTCAAGGAGCAAGACCTATTTCATT
1 CTCTTTTTCTTTGTCCTAAAGAAGCAAGACC-ATTTCATT
479406 CTCTTTTTCTTTGTCCT
1 CTCTTTTTCTTTGTCCT
479423 CAAAAAGTGG
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
37 18 0.38
38 5 0.11
39 9 0.19
40 15 0.32
ACGTcount: A:0.18, C:0.24, G:0.11, T:0.47
Consensus pattern (39 bp):
CTCTTTTTCTTTGTCCTAAAGAAGCAAGACCATTTCATT
Found at i:480012 original size:20 final size:20
Alignment explanation
Indices: 479985--480040 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
479975 GGTTTACCCA
* *
479985 AATGTATCGATATATTTTGC
1 AATGTATCGATACATTTTAC
*
480005 ATTGTATCGATACATTTTAC
1 AATGTATCGATACATTTTAC
480025 AATGTATCGATACATT
1 AATGTATCGATACATT
480041 CAGGCATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.43
Consensus pattern (20 bp):
AATGTATCGATACATTTTAC
Found at i:482533 original size:28 final size:29
Alignment explanation
Indices: 482493--482567 Score: 84
Period size: 28 Copynumber: 2.7 Consensus size: 29
482483 ATTTTTCACA
482493 ATTGGGGATACTCAAACCTCGTTA-TGTC
1 ATTGGGGATACTCAAACCTCGTTATTGTC
* *
482521 ATTGGGGATACTCTAATCC-CGTTATTTTC
1 ATTGGGGATACTC-AAACCTCGTTATTGTC
* *
482550 A-AGGGGATACTCTAACCT
1 ATTGGGGATACTCAAACCT
482568 TGATTTTATT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
27 3 0.08
28 28 0.72
29 8 0.21
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.33
Consensus pattern (29 bp):
ATTGGGGATACTCAAACCTCGTTATTGTC
Found at i:482623 original size:51 final size:51
Alignment explanation
Indices: 482367--482645 Score: 172
Period size: 51 Copynumber: 5.4 Consensus size: 51
482357 TCCCGGTTCC
* * **
482367 ATTTCCAAAACATCAATTTTTCTTAATCGGGGATACTCCAACTCTGATTTT
1 ATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAACTCTGATTTT
* * * ** * *
482418 -TTTCTAAAGCATCGATTTACCGCAATCGGGGATACTCCAACTCCGATTTT
1 ATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAACTCTGATTTT
* * * * * * *
482468 ATTTCCAAAACACTAATTTTTCACAATTGGGGATACTCAAACCTCGTTATGTC
1 ATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAA-CTC-TGATTTT
**** * * * ** *
482521 ATTGGGGATACTCTAATCCCGTTATTTTCAA--GGGGATACTCTAAC-CTTGATTTT
1 ATTTCTAAAACACCAAT----TT-TTCACAATCGGGGATACTCCAACTC-TGATTTT
*
482575 ATTTCTAAAATACCAATTTTTCACAATCGGGGATACTCCAACTCTGATTTT
1 ATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAACTCTGATTTT
*
482626 ATTT-TCAAAACACTAATTTT
1 ATTTCT-AAAACACCAATTTT
482646 CTATAATAAT
Statistics
Matches: 168, Mismatches: 48, Indels: 24
0.70 0.20 0.10
Matches are distributed among these distances:
49 5 0.03
50 45 0.27
51 66 0.39
52 4 0.02
53 14 0.08
54 14 0.08
55 1 0.01
56 12 0.07
57 2 0.01
58 5 0.03
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (51 bp):
ATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAACTCTGATTTT
Found at i:482834 original size:79 final size:79
Alignment explanation
Indices: 482603--482834 Score: 304
Period size: 79 Copynumber: 2.9 Consensus size: 79
482593 TTTCACAATC
* * * *
482603 GGGGATACTCCAA-CTCTGATTTTATTTTCAAAACACTAATTTTCTATAATAATGGATACTCCAA
1 GGGGATACTCCAACCTC-GATTTTAATTTCAAAACACTGATTTTCTATAATCAGGGATACTCCAA
* *
482667 CCTTGTTATTTTCGA
65 CCCTGTTATTTCCGA
* * *
482682 GGGGATACTCCAACCTCGATTTTAATTTCAAAATACCGATTTTCTATAATCAGGGATATTCCAAC
1 GGGGATACTCCAACCTCGATTTTAATTTCAAAACACTGATTTTCTATAATCAGGGATACTCCAAC
*
482747 CCTATTATTTCCGA
66 CCTGTTATTTCCGA
* * * * *
482761 GGGGATACTCCAACCTCGATTTTACTTCCAAAACACTGATTTTCCATAATCGGGGATACTCCAGC
1 GGGGATACTCCAACCTCGATTTTAATTTCAAAACACTGATTTTCTATAATCAGGGATACTCCAAC
*
482826 CCCGTTATT
66 CCTGTTATT
482835 ATCTCCAAAA
Statistics
Matches: 132, Mismatches: 20, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
79 129 0.98
80 3 0.02
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.34
Consensus pattern (79 bp):
GGGGATACTCCAACCTCGATTTTAATTTCAAAACACTGATTTTCTATAATCAGGGATACTCCAAC
CCTGTTATTTCCGA
Found at i:491819 original size:29 final size:30
Alignment explanation
Indices: 491776--491865 Score: 125
Period size: 29 Copynumber: 3.1 Consensus size: 30
491766 TTCCTCACCC
491776 TTCAAAAGCCCACAAGTCAGTGGCATCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTT
* *
491806 TTC-AAAGCCCACAAGTCAGTGGCAAC--C
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTT
491833 TTCAAAAGCCCACAAGTTC-GTGGCATCTTT
1 TTCAAAAGCCCACAAG-TCAGTGGCATCTTT
491863 TTC
1 TTC
491866 CTTTTAAGCC
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
27 3 0.06
28 19 0.37
29 24 0.46
30 6 0.12
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (30 bp):
TTCAAAAGCCCACAAGTCAGTGGCATCTTT
Found at i:491880 original size:33 final size:33
Alignment explanation
Indices: 491838--492037 Score: 148
Period size: 34 Copynumber: 6.2 Consensus size: 33
491828 CAACCTTCAA
* *
491838 AAGCCCACAAGTTCGTGGCATCTTTTTCCTTTT
1 AAGCCCACAACTTCGTGGCATCCTTTTCCTTTT
*
491871 AAGCCCACAACTCCGTGGCA-CTCTTTTACCTTTT
1 AAGCCCACAACTTCGTGGCATC-CTTTT-CCTTTT
* *
491905 AAGTCCACAACTCCGTGGCA--C----CCTTTT
1 AAGCCCACAACTTCGTGGCATCCTTTTCCTTTT
* * * *
491932 AAGTCCACAACTTCATGGCA-CATTTTCTTTTT
1 AAGCCCACAACTTCGTGGCATCCTTTTCCTTTT
* ** * *
491964 AAGTCCATGACTTTGTGGCACCCTTTTCTCTTTT
1 AAGCCCACAACTTCGTGGCATCCTTTTC-CTTTT
* * *
491998 AAGCCCACACCTCCGTGGCATCCCTTTTCC-TGT
1 AAGCCCACAACTTCGTGGCAT-CCTTTTCCTTTT
492031 AAGCCCA
1 AAGCCCA
492038 TAAGTCGGTG
Statistics
Matches: 135, Mismatches: 22, Indels: 20
0.76 0.12 0.11
Matches are distributed among these distances:
27 24 0.18
32 23 0.17
33 37 0.27
34 44 0.33
35 7 0.05
ACGTcount: A:0.20, C:0.33, G:0.14, T:0.34
Consensus pattern (33 bp):
AAGCCCACAACTTCGTGGCATCCTTTTCCTTTT
Found at i:491929 original size:27 final size:27
Alignment explanation
Indices: 491899--491952 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
491889 CACTCTTTTA
*
491899 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCATGGCAC
*
491926 CCTTTTAAGTCCACAACTTCATGGCAC
1 CCTTTTAAGTCCACAACTCCATGGCAC
491953 ATTTTCTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.24, C:0.35, G:0.13, T:0.28
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCCATGGCAC
Found at i:491989 original size:59 final size:61
Alignment explanation
Indices: 491865--491990 Score: 157
Period size: 59 Copynumber: 2.1 Consensus size: 61
491855 GCATCTTTTT
* *
491865 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTACCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCATGGCACTATTTTACCTTTTAAGTCCACAACTCCGTGGCAC
* * * ** **
491926 CCTTTTAAGTCCACAACTTCATGGCAC-ATTTT-CTTTTTAAGTCCATGACTTTGTGGCAC
1 CCTTTTAAGCCCACAACTCCATGGCACTATTTTACCTTTTAAGTCCACAACTCCGTGGCAC
491985 CCTTTT
1 CCTTTT
491991 CTCTTTTAAG
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
59 28 0.50
60 4 0.07
61 24 0.43
ACGTcount: A:0.21, C:0.31, G:0.13, T:0.36
Consensus pattern (61 bp):
CCTTTTAAGCCCACAACTCCATGGCACTATTTTACCTTTTAAGTCCACAACTCCGTGGCAC
Found at i:492113 original size:28 final size:30
Alignment explanation
Indices: 492053--492138 Score: 92
Period size: 28 Copynumber: 2.9 Consensus size: 30
492043 CGGTGGCACC
* *
492053 CCTTTCAAAAGCCCACAAG-TCAGTGGCAA
1 CCTTTCAAAAGCACACAAGTTGAGTGGCAA
492082 CC-TTCAAAAGCACACAAGTTGA-T-GCAA
1 CCTTTCAAAAGCACACAAGTTGAGTGGCAA
492109 CCCTTTCAAAAGCCCACACAAGTTG-GTGGC
1 -CCTTTCAAAAG--CACACAAGTTGAGTGGC
492139 GTCTTCTTCT
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
27 4 0.08
28 18 0.38
29 12 0.25
31 12 0.25
32 2 0.04
ACGTcount: A:0.34, C:0.30, G:0.17, T:0.19
Consensus pattern (30 bp):
CCTTTCAAAAGCACACAAGTTGAGTGGCAA
Found at i:492126 original size:29 final size:30
Alignment explanation
Indices: 492031--492126 Score: 110
Period size: 28 Copynumber: 3.3 Consensus size: 30
492021 CTTTTCCTGT
* * *
492031 AAGCCCATAAGTCGGTGGCACCCCTTTCAA
1 AAGCCCACAAGTCAGTGGCAACCCTTTCAA
492061 AAGCCCACAAGTCAGTGGCAA-CC-TTCAA
1 AAGCCCACAAGTCAGTGGCAACCCTTTCAA
* *
492089 AAGCACACAAGT-TGAT-GCAACCCTTTCAA
1 AAGCCCACAAGTCAG-TGGCAACCCTTTCAA
492118 AAGCCCACA
1 AAGCCCACA
492127 CAAGTTGGTG
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
27 5 0.09
28 19 0.33
29 15 0.26
30 18 0.32
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (30 bp):
AAGCCCACAAGTCAGTGGCAACCCTTTCAA
Found at i:492221 original size:49 final size:49
Alignment explanation
Indices: 492148--492591 Score: 288
Period size: 49 Copynumber: 9.5 Consensus size: 49
492138 CGTCTTCTTC
* * * * *
492148 TAAGTCCAATATCGCTAGCTTTGAATCAGCATATTGGCGCCTTTAACTT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTAACTT
* * *
492197 TAAGACCAATGTCACTGGCCTTGAATCAGTACATTGG---C----AC--
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTAACTT
* * * * *
492237 -AAGCCCAATATCGCTGGCCGTAAATCAGTATATTGGCACCTTGT--CTT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT-TAACTT
* * * *
492284 TGAGACCAATGTCACTAGCCTTGAATCA--ACATTGG---C----AC--
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTAACTT
* * * *
492322 -AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTAACTT
* * * * * *
492370 TAAGTCCGATATCGTTGGCCTTGAATCAACATATTGGCACCTTTATCTT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTAACTT
* * * *
492419 TATGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTAACTT
* * * * *
492468 TAAGACTAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTAACTT
* * * ** *
492517 TAAGTCCAATATCGTTGGCCTTGAATCAAAATATTGGCATCTTTAACATT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAC-TT
* *
492567 CCTAAGCCCAATGTCACTGGCCTTG
1 --TAAGACCAATGTCGCTGGCCTTG
492592 TCTCAGCACA
Statistics
Matches: 312, Mismatches: 57, Indels: 49
0.75 0.14 0.12
Matches are distributed among these distances:
37 22 0.07
39 36 0.12
40 1 0.00
42 4 0.01
43 1 0.00
45 1 0.00
46 8 0.03
48 20 0.06
49 198 0.63
50 2 0.01
52 19 0.06
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (49 bp):
TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTAACTT
Found at i:492336 original size:85 final size:86
Alignment explanation
Indices: 492153--492507 Score: 320
Period size: 98 Copynumber: 4.0 Consensus size: 86
492143 TCTTCTAAGT
* * * *
492153 CCAATATCGCTAGCTTTGAATCAGCATATTGGCGCCTTTAACTTTAAGACCAATGTCACTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT-ACTTTAAGACCAATGTCACTAGCCT
492218 TGAATCAGTACATTGGCACAAGC
65 TGAATCAG-ACATTGGCACAAGC
* * * *
492241 CCAATATCGCTGGCCGTAAATCAGTATATTGGCACCTTGT-CTTTGAGACCAATGTCACTAGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-TACTTTAAGACCAATGTCACTAGCCT
492305 TGAATCA-ACATTGGCACAAGC
65 TGAATCAGACATTGGCACAAGC
* * * * ** *
492326 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCGATATCGTTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA-CTTTAAGACCAATGTCACTAGCCT
*
492391 TGAATCA-ACATATTGGCACCTTTATCTTTATGA
65 TGAATCAGAC--ATTGGCA-C---A-----A-GC
* * * * ** *
492424 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACTAATGTCGTTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA-CTTTAAGACCAATGTCACTAGCCT
492489 TGAATCAGCACATTGGCAC
65 TGAATCAG-ACATTGGCAC
492508 CTTCATCTTT
Statistics
Matches: 224, Mismatches: 26, Indels: 25
0.81 0.09 0.09
Matches are distributed among these distances:
85 49 0.22
86 26 0.12
87 29 0.13
88 39 0.17
89 2 0.01
92 1 0.00
97 2 0.01
98 74 0.33
100 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (86 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACTTTAAGACCAATGTCACTAGCCTT
GAATCAGACATTGGCACAAGC
Found at i:492553 original size:98 final size:98
Alignment explanation
Indices: 492326--492555 Score: 334
Period size: 98 Copynumber: 2.3 Consensus size: 98
492316 TGGCACAAGC
* *
492326 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCGATATCGTTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATATCGTTGGCCT
* * *
492391 TGAATCAACATATTGGCACCTTTATCTTTATGA
66 TGAATCAACACATTGGCACCTTCATCTTTAAGA
* * * *
492424 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACTAATGTCGTTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATATCGTTGGCCT
* *
492489 TGAATCAGCACATTGGCACCTTCATCTTTAAGT
66 TGAATCAACACATTGGCACCTTCATCTTTAAGA
* **
492522 CCAATATCGTTGGCCTTGAATCAAAATATTGGCA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA
492556 TCTTTAACAT
Statistics
Matches: 116, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
98 116 1.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (98 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATATCGTTGGCCT
TGAATCAACACATTGGCACCTTCATCTTTAAGA
Found at i:493479 original size:19 final size:18
Alignment explanation
Indices: 493432--493516 Score: 65
Period size: 19 Copynumber: 4.8 Consensus size: 18
493422 ATTTCAGCAA
*
493432 TTTGTATCGATACAAACAG
1 TTTGTATCGATACATA-AG
*
493451 TAAATGTATCGATACATAAG
1 T--TTGTATCGATACATAAG
493471 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
493487 --TGTAT-GATACATAAG
1 TTTGTATCGATACATAAG
493502 TCTTGTATCGATACA
1 T-TTGTATCGATACA
493517 ATCTATCGCT
Statistics
Matches: 53, Mismatches: 4, Indels: 18
0.71 0.05 0.24
Matches are distributed among these distances:
12 5 0.09
13 5 0.09
14 2 0.04
17 2 0.04
18 5 0.09
19 18 0.34
20 3 0.06
21 13 0.25
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.34
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:493498 original size:31 final size:32
Alignment explanation
Indices: 493453--493612 Score: 123
Period size: 31 Copynumber: 5.0 Consensus size: 32
493443 ACAAACAGTA
*
493453 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTCTTGTATCGATAC
493485 AATGTAT-GATACATAAGTCTTGTATCGATAC
1 AATGTATCGATACATAAGTCTTGTATCGATAC
* * ** * * *
493516 AATCTATCGCTACA-AAG-CTACTACCAAGGA-
1 AATGTATCGATACATAAGTCTTGTATCGA-TAC
* * * *
493546 AATGTATCGATACATTATTCAATGTATTGATAC
1 AATGTATCGATACATAAGTC-TTGTATCGATAC
* *
493579 ATTGTATCGATACAT-TGATCTTTGTATCGATAC
1 AATGTATCGATACATAAG-TC-TTGTATCGATAC
493612 A
1 A
493613 TATGGGAATT
Statistics
Matches: 96, Mismatches: 25, Indels: 13
0.72 0.19 0.10
Matches are distributed among these distances:
30 18 0.19
31 34 0.35
32 14 0.15
33 30 0.31
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (32 bp):
AATGTATCGATACATAAGTCTTGTATCGATAC
Found at i:493605 original size:33 final size:33
Alignment explanation
Indices: 493548--493613 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
493538 ACCAAGGAAA
*
493548 TGTATCGATACATTATTCAATGTATTGATACAT
1 TGTATCGATACATTATTCAATGTATCGATACAT
**
493581 TGTATCGATACATTGA-TCTTTGTATCGATACAT
1 TGTATCGATACATT-ATTCAATGTATCGATACAT
493614 ATGGGAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATTATTCAATGTATCGATACAT
Found at i:508873 original size:52 final size:52
Alignment explanation
Indices: 508795--508923 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
508785 AGAAATATGA
508795 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
508847 AAATTTGCCTGTATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
508899 AAATTTGCCTGCATGTATTGATACA
1 AAATTTGCCTGCATGTATCGATACA
508924 AAGATTAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:508933 original size:52 final size:52
Alignment explanation
Indices: 508795--508943 Score: 203
Period size: 52 Copynumber: 2.9 Consensus size: 52
508785 AGAAATATGA
*
508795 AAATTTGCCTGCATGTATCGATACATTTCA-TAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-ATCATTAGTGTATCGATACATCTGGGC
* **
508847 AAATTTGCCTGTATGTATCGATAC-ATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACAATCAT-TAGTGTATCGATACATCTGGGC
* **
508899 AAATTTGCCTGCATGTATTGATACAAAGATTAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACAATCATTAGTGTATCGATACA
508944 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
50 1 0.01
52 82 0.96
53 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACAATCATTAGTGTATCGATACATCTGGGC
Found at i:508950 original size:13 final size:13
Alignment explanation
Indices: 508932--508956 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
508922 CAAAGATTAG
508932 TGTATCGATACAA
1 TGTATCGATACAA
508945 TGTATCGATACA
1 TGTATCGATACA
508957 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:509035 original size:32 final size:33
Alignment explanation
Indices: 508994--509062 Score: 122
Period size: 32 Copynumber: 2.1 Consensus size: 33
508984 GGCAGTAGCT
508994 TACATTGTATCGATACAAAAC-TTATGTATCGA
1 TACATTGTATCGATACAAAACTTTATGTATCGA
*
509026 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAAAACTTTATGTATCGA
509059 TACA
1 TACA
509063 AATCATTGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 20 0.57
33 15 0.43
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (33 bp):
TACATTGTATCGATACAAAACTTTATGTATCGA
Found at i:509036 original size:13 final size:13
Alignment explanation
Indices: 509018--509042 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
509008 ACAAAACTTA
509018 TGTATCGATACAT
1 TGTATCGATACAT
509031 TGTATCGATACA
1 TGTATCGATACA
509043 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:511092 original size:9 final size:9
Alignment explanation
Indices: 511078--511153 Score: 91
Period size: 11 Copynumber: 7.9 Consensus size: 9
511068 GTCCTCCGCA
511078 AAAAAAAAC
1 AAAAAAAAC
511087 -AAAAAAAC
1 AAAAAAAAC
511095 AAAAAAAAC
1 AAAAAAAAC
511104 ACAAAACAAAC
1 A-AAAA-AAAC
511115 AAAAAACAAAC
1 -AAAAA-AAAC
511126 AAAAAAAACCC
1 AAAAAAAA--C
511137 AAAAAAAAC
1 AAAAAAAAC
511146 AAAAAAAA
1 AAAAAAAA
511154 AACAACAAAA
Statistics
Matches: 61, Mismatches: 0, Indels: 12
0.84 0.00 0.16
Matches are distributed among these distances:
8 8 0.13
9 21 0.34
10 9 0.15
11 22 0.36
12 1 0.02
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:511093 original size:11 final size:11
Alignment explanation
Indices: 511077--511164 Score: 88
Period size: 11 Copynumber: 7.6 Consensus size: 11
511067 CGTCCTCCGC
511077 AAAAAAAAACA
1 AAAAAAAAACA
511088 AAAAAACAAA-A
1 AAAAAA-AAACA
511099 AAAACACAAAACA
1 AAAA-A-AAAACA
*
511112 AACAAAAAACAA
1 AAAAAAAAAC-A
*
511124 ACAAAAAAAACC
1 A-AAAAAAAACA
*
511136 CAAAAAAAACA
1 AAAAAAAAACA
511147 AAAAAAAAACA
1 AAAAAAAAACA
*
511158 ACAAAAA
1 AAAAAAA
511165 GGATCTGAAT
Statistics
Matches: 64, Mismatches: 7, Indels: 12
0.77 0.08 0.14
Matches are distributed among these distances:
11 41 0.64
12 10 0.16
13 13 0.20
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAAACA
Found at i:511129 original size:31 final size:30
Alignment explanation
Indices: 511076--511164 Score: 117
Period size: 31 Copynumber: 2.9 Consensus size: 30
511066 ACGTCCTCCG
*
511076 CAAAAAAAA-ACAAAAAAACAAAAAAAACA
1 CAAAAAAAACAAAAAAAAACAAAAAAAACA
* *
511105 CAAAACAAACAAAAAACAAACAAAAAAAACC
1 CAAAAAAAACAAAAAA-AAACAAAAAAAACA
*
511136 CAAAAAAAACAAAAAAAAAACAACAAAAA
1 CAAAAAAAAC-AAAAAAAAACAAAAAAAA
511165 GGATCTGAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
29 8 0.15
30 5 0.10
31 33 0.63
32 6 0.12
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (30 bp):
CAAAAAAAACAAAAAAAAACAAAAAAAACA
Found at i:511164 original size:1 final size:1
Alignment explanation
Indices: 511077--511155 Score: 50
Period size: 1 Copynumber: 79.0 Consensus size: 1
511067 CGTCCTCCGC
* * * * * * * * ***
511077 AAAAAAAAACAAAAAAACAAAAAAAACACAAAACAAACAAAAAACAAACAAAAAAAACCCAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
511142 AAACAAAAAAAAAA
1 AAAAAAAAAAAAAA
511156 CAACAAAAAG
Statistics
Matches: 58, Mismatches: 20, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 58 1.00
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:511164 original size:20 final size:20
Alignment explanation
Indices: 511077--511153 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
511067 CGTCCTCCGC
511077 AAAAAAAAAC-AAAAAAACA
1 AAAAAAAAACAAAAAAAACA
* *
511096 AAAAAAACACAAAACAAACA
1 AAAAAAAAACAAAAAAAACA
* *
511116 AAAAACAAACAAAAAAAACC
1 AAAAAAAAACAAAAAAAACA
*
511136 CAAAAAAAACAAAAAAAA
1 AAAAAAAAACAAAAAAAA
511154 AACAACAAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
19 9 0.18
20 40 0.82
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (20 bp):
AAAAAAAAACAAAAAAAACA
Found at i:512640 original size:29 final size:30
Alignment explanation
Indices: 512597--512686 Score: 132
Period size: 29 Copynumber: 3.1 Consensus size: 30
512587 TTCCTCACCC
512597 TTCAAAAGCCCACAAGTCAGTGGCATCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTT
* *
512627 TTCAAAA-CCCACAAGTCAGTGGCAAC--C
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTT
*
512654 TTCAAAAGCCCACAAGTCCGTGGCATCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTT
512684 TTC
1 TTC
512687 CTTTTAAGCC
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
27 7 0.13
28 17 0.33
29 18 0.35
30 10 0.19
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (30 bp):
TTCAAAAGCCCACAAGTCAGTGGCATCTTT
Found at i:512722 original size:34 final size:33
Alignment explanation
Indices: 512659--512862 Score: 172
Period size: 34 Copynumber: 6.3 Consensus size: 33
512649 CAACCTTCAA
* *
512659 AAGCCCACAAGTCCGTGGCATCTTTTTCCTTTT
1 AAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
512692 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
1 AAGCCCACAACTCCGTGGCAC-CTTTTTCCTTTT
* * *
512726 AAGTCTATAACTCCGTGGCA-C-----CCTTTT
1 AAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
* * *
512753 AAGTCCACAACTTCGTGGCACC-TTTTCTTTTT
1 AAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
* ** * *
512785 AAGTCCATGACTCTGTGGCACCATTTTCCCTTTT
1 AAGCCCACAACTCCGTGGCACC-TTTTTCCTTTT
* * *
512819 AAGCCCACACCTCTGTGGCATCCCTTTTTCC-TGT
1 AAGCCCACAACTCCGTGGCA--CCTTTTTCCTTTT
512853 AAGCCCACAA
1 AAGCCCACAA
512863 GTCGGCGGCA
Statistics
Matches: 139, Mismatches: 22, Indels: 19
0.77 0.12 0.11
Matches are distributed among these distances:
27 23 0.17
28 1 0.01
32 24 0.17
33 19 0.14
34 64 0.46
35 6 0.04
36 2 0.01
ACGTcount: A:0.20, C:0.32, G:0.14, T:0.34
Consensus pattern (33 bp):
AAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
Found at i:512750 original size:27 final size:26
Alignment explanation
Indices: 512720--512778 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 26
512710 CACTCTTTTT
* *
512720 CCTTTTAAGTCTATAACTCCGTGGCA
1 CCTTTTAAGTCCACAACTCCGTGGCA
*
512746 CCCTTTTAAGTCCACAACTTCGTGGCA
1 -CCTTTTAAGTCCACAACTCCGTGGCA
512773 CCTTTT
1 CCTTTT
512779 CTTTTTAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 6 0.21
27 23 0.79
ACGTcount: A:0.20, C:0.31, G:0.14, T:0.36
Consensus pattern (26 bp):
CCTTTTAAGTCCACAACTCCGTGGCA
Found at i:512751 original size:61 final size:59
Alignment explanation
Indices: 512686--512811 Score: 171
Period size: 59 Copynumber: 2.1 Consensus size: 59
512676 GCATCTTTTT
*
512686 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCTATAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC-C-TTTTCCTTTTAAGTCCATAACTCCGTGGCAC
* * * * *
512747 CCTTTTAAGTCCACAACTTCGTGGCACCTTTTCTTTTTAAGTCCATGACTCTGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCACCTTTTCCTTTTAAGTCCATAACTCCGTGGCAC
*
512806 CATTTT
1 CCTTTT
512812 CCCTTTTAAG
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
59 32 0.55
60 1 0.02
61 25 0.43
ACGTcount: A:0.19, C:0.30, G:0.13, T:0.37
Consensus pattern (59 bp):
CCTTTTAAGCCCACAACTCCGTGGCACCTTTTCCTTTTAAGTCCATAACTCCGTGGCAC
Found at i:512837 original size:93 final size:95
Alignment explanation
Indices: 512663--512846 Score: 212
Period size: 93 Copynumber: 2.0 Consensus size: 95
512653 CTTCAAAAGC
* * *
512663 CCACAAGTCCGTGGCATCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAA
1 CCACAACTCCGTGGCATCCTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTCCCTTTTAA
* * *
512728 GTCTATAACTCCGTGGCA-CCCTTTTAAGT
66 GCCCACAACTCCGTGGCATCCCTTTTAAGT
* * * ** *
512757 CCACAACTTCGTGGCA-CCTTTTCTTTTTAAGTCCATGACTCTGTGGCAC-CATTTTCCCTTTTA
1 CCACAACTCCGTGGCATCCTTTTCCTTTTAAGCCCACAACTCCGTGGCACTC-TTTTCCCTTTTA
* *
512820 AGCCCACACCTCTGTGGCATCCCTTTT
65 AGCCCACAACTCCGTGGCATCCCTTTT
512847 TCCTGTAAGC
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
92 1 0.01
93 52 0.70
94 21 0.28
ACGTcount: A:0.18, C:0.32, G:0.14, T:0.36
Consensus pattern (95 bp):
CCACAACTCCGTGGCATCCTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTCCCTTTTAA
GCCCACAACTCCGTGGCATCCCTTTTAAGT
Found at i:512889 original size:30 final size:29
Alignment explanation
Indices: 512853--512946 Score: 93
Period size: 28 Copynumber: 3.2 Consensus size: 29
512843 TTTTTCCTGT
* *
512853 AAGCCCACAAGTCGGCGGCACCCCTTTCAA
1 AAGCCCACAAGTCAGAGGCA-CCCTTTCAA
* *
512883 AAGCCCACAAGTCAGTGGCAACC-TTCAA
1 AAGCCCACAAGTCAGAGGCACCCTTTCAA
* * *
512911 AAGCACACAAGT-TGATGCAACCCTTTCAA
1 AAGCCCACAAGTCAGAGGC-ACCCTTTCAA
512940 AAGCCCA
1 AAGCCCA
512947 TACAAGTTGG
Statistics
Matches: 53, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
27 3 0.06
28 19 0.36
29 13 0.25
30 18 0.34
ACGTcount: A:0.34, C:0.34, G:0.17, T:0.15
Consensus pattern (29 bp):
AAGCCCACAAGTCAGAGGCACCCTTTCAA
Found at i:513221 original size:49 final size:49
Alignment explanation
Indices: 513146--513375 Score: 334
Period size: 49 Copynumber: 4.7 Consensus size: 49
513136 TGGCACAAGC
* ** *
513146 CCAATATCGCTGGCCTTGAATCAGCATATTGGTGCCTTCATCTTTAAGT
1 CCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGA
* * * * *
513195 CCGATATCATTGGCCTTGAATTAGCATATTGGCACCTTTATCTTTATGA
1 CCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGA
* *
513244 CCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCATCTTTAAGA
1 CCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGA
* * *
513293 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
1 CCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGA
513342 CCAATATCGTTGGCCTTGAATCAGCATATTGGCA
1 CCAATATCGTTGGCCTTGAATCAGCATATTGGCA
513376 TCTTTAACAT
Statistics
Matches: 158, Mismatches: 23, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 158 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.33
Consensus pattern (49 bp):
CCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGA
Found at i:514336 original size:32 final size:32
Alignment explanation
Indices: 514287--514359 Score: 110
Period size: 32 Copynumber: 2.3 Consensus size: 32
514277 ACAAACAGTA
*
514287 AATGTATCGATAAATAAGTGTTATATCGATAC
1 AATGTATCGATAAATAAGTGTTATATCGAGAC
* * *
514319 AATGTATTGATACATAAGTGTTGTATCGAGAC
1 AATGTATCGATAAATAAGTGTTATATCGAGAC
514351 AATGTATCG
1 AATGTATCG
514360 CTACAAAGCT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.34
Consensus pattern (32 bp):
AATGTATCGATAAATAAGTGTTATATCGAGAC
Found at i:514440 original size:33 final size:33
Alignment explanation
Indices: 514383--514448 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
514373 ACCAAGGAAA
*
514383 TGTATCGATACATTATTCAATGTATTGATACAT
1 TGTATCGATACATTATTCAATGTATCGATACAT
**
514416 TGTATCGATACATTGA-TCTTTGTATCGATACAT
1 TGTATCGATACATT-ATTCAATGTATCGATACAT
514449 CTGGGAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATTATTCAATGTATCGATACAT
Found at i:519883 original size:20 final size:20
Alignment explanation
Indices: 519858--519911 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
519848 CATTTGAAAC
* **
519858 ATGTATCGATATATTCACTT
1 ATGTATCGATACATTCACCA
*
519878 ATGTATCAATACATTCACCA
1 ATGTATCGATACATTCACCA
519898 ATTGTATCGATACA
1 A-TGTATCGATACA
519912 AATTGTAGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTCACCA
Found at i:521033 original size:408 final size:407
Alignment explanation
Indices: 520245--521054 Score: 1176
Period size: 408 Copynumber: 2.0 Consensus size: 407
520235 GATCCCAGCA
* * * *
520245 TTCCAATTTTGTGCCTTCGCTACCTTAGATCCAAATCTATACCAAGATTGGATATGTGGTCATCA
1 TTCCAATTTTATGCCTTCACTACCTTAGATCCAAATCCATACCAAGATTGGATATGTGGTAATCA
* * * * * *
520310 ATGGATCTTTGGTGTCTAAAAAGCAAACTGGCTCACAACCATTGAAAGAACAACCTGAGATCCTA
66 ATAGATCTTTGGTGTCTAAAAAGAAAACTAGCTCACAACCATTAAAAGAACAACCCGAGATCCCA
* * * * *
520375 ACGATGATGCTATGGAGCTTGATGTGCCTCCTCTACCACTAACCACCGCCTAGACTTCTTCTATG
131 ACGATGATGCTATAGAGCTTGATGTGCCTCATCCACCACCAACCACCACCTAGACTTCTTCTATG
* * *
520440 CCCTTGGACACCCATGGAATGTTTAATACAATTATGGGTCACATTGATATTATTTTTGATCACAT
196 CCCTTGGACACCCATGGAATGTTTAAAACAATTATAGGTCACATTAATATTATTTTTGATCACAT
* *
520505 CGATGCATGGGAATAACATTTCTGTCACCATCTCGACTCTATTGACACTCGATTTTCCAATCTAG
261 CGATGCATGGGAACAACATTTCTGTCACCATCTCGACTCTATTGACACTCGACTTTCCAATCTAG
* *
520570 AGCATAGTCACCAAAAAATGACTCAACAATTTCAAATATTTTCCATTAGATTTCTTCATGCTCTG
326 AGCATAGTCACCAAAAAATGACTCAACAATTCCAAATATTTTCAATTAGATTTCTTCATGCTCTG
520635 CCTACTTCTTCTACTTT
391 CCTACTTCTTCTACTTT
* * * *
520652 TTCCACTTTTATGCCTTCACTACCTTTAGATCCAAATCCATGCTATGATTGGATATGTGGTAATC
1 TTCCAATTTTATGCCTTCACTACC-TTAGATCCAAATCCATACCAAGATTGGATATGTGGTAATC
* *
520717 AATAGATCTTTGGTGTCTGAAAAGAAAA-TCAGCTCACAACCGTTAAAAGAACAACCCGAGATCC
65 AATAGATCTTTGGTGTCTAAAAAGAAAACT-AGCTCACAACCATTAAAAGAACAACCCGAGATCC
* ** *
520781 CAATGATGATGCTATAGAGCTTGATGTGCCTCATCCATTACCAACCACTACCGT-GACTTCTTCT
129 CAACGATGATGCTATAGAGCTTGATGTGCCTCATCCACCACCAACCACCACC-TAGACTTCTTCT
* * *
520845 ATGCCCTTGGACACCCATGGAATGTTTAAAACAATTATAGGTCGCATTAATATTATTTTTTATCG
193 ATGCCCTTGGACACCCATGGAATGTTTAAAACAATTATAGGTCACATTAATATTATTTTTGATCA
* * *
520910 CATTGATGCATGGGAACAACGTTTC-GATCACCATCTCGACTCTATTGACACTCGACTTTCCGAT
258 CATCGATGCATGGGAACAACATTTCTG-TCACCATCTCGACTCTATTGACACTCGACTTTCCAAT
* ** * *
520974 CTAGAGCATAGTCACCAAGAAATGACTCGGCAATTCCAAATTTTTTCAATTATATTTCTTCATGC
322 CTAGAGCATAGTCACCAAAAAATGACTCAACAATTCCAAATATTTTCAATTAGATTTCTTCATGC
521039 TCTGCCTACTTCTTCT
387 TCTGCCTACTTCTTCT
521055 TCTCCGACTA
Statistics
Matches: 356, Mismatches: 43, Indels: 7
0.88 0.11 0.02
Matches are distributed among these distances:
407 23 0.06
408 332 0.93
409 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.33
Consensus pattern (407 bp):
TTCCAATTTTATGCCTTCACTACCTTAGATCCAAATCCATACCAAGATTGGATATGTGGTAATCA
ATAGATCTTTGGTGTCTAAAAAGAAAACTAGCTCACAACCATTAAAAGAACAACCCGAGATCCCA
ACGATGATGCTATAGAGCTTGATGTGCCTCATCCACCACCAACCACCACCTAGACTTCTTCTATG
CCCTTGGACACCCATGGAATGTTTAAAACAATTATAGGTCACATTAATATTATTTTTGATCACAT
CGATGCATGGGAACAACATTTCTGTCACCATCTCGACTCTATTGACACTCGACTTTCCAATCTAG
AGCATAGTCACCAAAAAATGACTCAACAATTCCAAATATTTTCAATTAGATTTCTTCATGCTCTG
CCTACTTCTTCTACTTT
Found at i:522988 original size:2 final size:2
Alignment explanation
Indices: 522983--523008 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
522973 AACATGTTAA
522983 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
523009 TATTGTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:524867 original size:123 final size:122
Alignment explanation
Indices: 524644--524891 Score: 397
Period size: 123 Copynumber: 2.0 Consensus size: 122
524634 CAGACCAAGC
* *
524644 TTCTTCAATTTTATTACTCAAATCTAGTATTCAAAATGATAATACTATATTATTTACTTACAATA
1 TTCTTCAATTGTATTACTCAAATCTAGTATTCAAAATGATAATACTATATTATTTACCTACAATA
* * ** *
524709 TTTCTCTGGGTTATGTGGTGATTAACTAAATCTTCCTTTCTCTCTTAATTTTAACAT
66 TTTCTCCGGCTTATGTACTGATCAACTAAATCTTCCTTTCTCTCTTAATTTTAACAT
*
524766 TTCTATCAATTGTATTACTCAAATCTAGTATTCAAAATGATAATACTATATTATTTACCTACTAT
1 TTCT-TCAATTGTATTACTCAAATCTAGTATTCAAAATGATAATACTATATTATTTACCTACAAT
* *
524831 ATTTCTCCGGCTTATGTACTGATCATCTAAATCTTCCTTTCTTTCTTAATTTTAACAT
65 ATTTCTCCGGCTTATGTACTGATCAACTAAATCTTCCTTTCTCTCTTAATTTTAACAT
524889 TTC
1 TTC
524892 CAATTCACCA
Statistics
Matches: 115, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
122 4 0.03
123 111 0.97
ACGTcount: A:0.30, C:0.17, G:0.06, T:0.46
Consensus pattern (122 bp):
TTCTTCAATTGTATTACTCAAATCTAGTATTCAAAATGATAATACTATATTATTTACCTACAATA
TTTCTCCGGCTTATGTACTGATCAACTAAATCTTCCTTTCTCTCTTAATTTTAACAT
Found at i:526177 original size:32 final size:32
Alignment explanation
Indices: 526139--526205 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
526129 TTCATTTTAC
526139 TTAGTTTATTTATGAAATCTAAAAATATTAAT
1 TTAGTTTATTTATGAAATCTAAAAATATTAAT
526171 TTAGTTTATTTATGAAATCTAAAAATATTAAT
1 TTAGTTTATTTATGAAATCTAAAAATATTAAT
526203 TTA
1 TTA
526206 AAAAAAATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (32 bp):
TTAGTTTATTTATGAAATCTAAAAATATTAAT
Found at i:526672 original size:20 final size:23
Alignment explanation
Indices: 526625--526672 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 23
526615 ATACAAAAAG
526625 GTTATTAATAATGATATTTATAT
1 GTTATTAATAATGATATTTATAT
* *
526648 TTTATTAA-AAT-A-ATTTGTAT
1 GTTATTAATAATGATATTTATAT
526668 GTTAT
1 GTTAT
526673 GTTATTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 11 0.50
21 1 0.05
22 3 0.14
23 7 0.32
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (23 bp):
GTTATTAATAATGATATTTATAT
Found at i:528847 original size:32 final size:30
Alignment explanation
Indices: 528811--528869 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
528801 GAAATCAAAT
528811 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
528843 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
528870 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:529168 original size:13 final size:13
Alignment explanation
Indices: 529150--529175 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
529140 CAATTTTTTG
529150 TGTATCGATACAT
1 TGTATCGATACAT
529163 TGTATCGATACAT
1 TGTATCGATACAT
529176 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:529190 original size:32 final size:33
Alignment explanation
Indices: 529130--529193 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
529120 TACAAGCCAA
** *
529130 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
529163 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
529194 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:531783 original size:13 final size:13
Alignment explanation
Indices: 531765--531789 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
531755 CAAAGAAAAA
531765 TGTATCGATACAT
1 TGTATCGATACAT
531778 TGTATCGATACA
1 TGTATCGATACA
531790 AAGAAAAATG
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:531810 original size:33 final size:33
Alignment explanation
Indices: 531732--531812 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
531722 ATAATCCCCC
* *
531732 TGTATCGATACAGTGTATTGATACAAAGAAAAA
1 TGTATCGATACATTGTATCGATACAAAGAAAAA
531765 TGTATCGATACATTGTATCGATACAAAGAAAAA
1 TGTATCGATACATTGTATCGATACAAAGAAAAA
531798 TGTATCGATACATTG
1 TGTATCGATACATTG
531813 AATTTCCAGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.30
Consensus pattern (33 bp):
TGTATCGATACATTGTATCGATACAAAGAAAAA
Found at i:533887 original size:15 final size:15
Alignment explanation
Indices: 533867--533897 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
533857 ATTTCGTTTG
*
533867 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
533882 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
533897 G
1 G
533898 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:537665 original size:32 final size:30
Alignment explanation
Indices: 537629--537687 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
537619 GAAATCAAAT
537629 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
537661 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
537688 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:537986 original size:13 final size:13
Alignment explanation
Indices: 537968--537993 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
537958 CAATTTTTTG
537968 TGTATCGATACAT
1 TGTATCGATACAT
537981 TGTATCGATACAT
1 TGTATCGATACAT
537994 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:538008 original size:32 final size:33
Alignment explanation
Indices: 537948--538011 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
537938 TACAAGCCAA
** *
537948 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
537981 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
538012 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:538911 original size:13 final size:13
Alignment explanation
Indices: 538893--538932 Score: 80
Period size: 13 Copynumber: 3.1 Consensus size: 13
538883 ACAATTGTCT
538893 ATGTATCGATACA
1 ATGTATCGATACA
538906 ATGTATCGATACA
1 ATGTATCGATACA
538919 ATGTATCGATACA
1 ATGTATCGATACA
538932 A
1 A
538933 AGCATAATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:539542 original size:24 final size:24
Alignment explanation
Indices: 539510--539563 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
539500 CTAAAAAAAA
*
539510 AATT-TCTCCTCCTTAATCAAAGC
1 AATTCTCTCCCCCTTAATCAAAGC
539533 AATTCTCTCCCCCTTAATCAAAGC
1 AATTCTCTCCCCCTTAATCAAAGC
539557 AATTCTC
1 AATTCTC
539564 CCCTTTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 4 0.14
24 25 0.86
ACGTcount: A:0.30, C:0.33, G:0.04, T:0.33
Consensus pattern (24 bp):
AATTCTCTCCCCCTTAATCAAAGC
Found at i:541602 original size:428 final size:429
Alignment explanation
Indices: 540790--541602 Score: 1224
Period size: 428 Copynumber: 1.9 Consensus size: 429
540780 GATAAGGCAA
* * * * * *
540790 ATGAGGCACGCTCGACTTAATATCCCTCGTGATTGGGGATTTCTATGGCATGATGGGAAGTGTGT
1 ATGAGGCACGCCCGACTTAATATCCCTCGCGATTGGGGATTTCCATGGCATGATGAGAAATATGT
* * *
540855 TGATTAAAGAGGGAAGATCAGTAGATGAATCGCCCATCTAATTGATCTTTAATGGTCACTATGAA
66 TGATTAAAGAGGGAAGATCAGTAGATGAATCGCCCATCTAATCGATCTTTAACGGTCACTACGAA
*
540920 GTGACCGAGATTTTGGAGTCACCACCGATCATTTCGGGCTAGGCATGATCGAATGCCTATTGAAA
131 GTGACCGAAATTTTGGAGTCACCACCGATCATTTCGGGCTAGGCATGATCGAATGCCTATTGAAA
* * * * *
540985 CCTGTGTCTTGAGTTACGAAACTCAAAATATCGATCCCGTGGTCTACGTACTTTAGAGATTTGCC
196 CCTATGTCTTGAGTTACGAAACTCAAAACATCGATCCCGTGGTCTACGTAATTCAAAGATTTGCC
* *
541050 AGTTGGGTTCAGGAGTTGGTTACGCGCAAAGAGGTACGATCTTCCTCGCGACGCCCGAAATCGGT
261 AGTTGGGTCCAGGAGTTGGTTACGCGCAAAGAGGTACGATCCTCCTCGCGACGCCCGAAATCGGT
**
541115 ACCTTACTAGCAACATTTTGACTCGATATTGGTTGCATTGATTTCGATTTATCATTATTTTGATA
326 ACCTTACTAGCAACATTTTGACTCGATATTGGTTGCATTGATTTCGATCGATCATTATTTTGATA
541180 TTGTCGCGACGTGTGCTCGGACCCCGGCGATAGGGACAG
391 TTGTCGCGACGTGTGCTCGGACCCCGGCGATAGGGACAG
*
541219 ATGAGGCATGCCCGACTTAATATCCCTCGCGATTGGGGATTTCCATGGCATGATGAGAAATATGT
1 ATGAGGCACGCCCGACTTAATATCCCTCGCGATTGGGGATTTCCATGGCATGATGAGAAATATGT
* *
541284 TGATTAAAGGGGGAAGATC-GATAGATGAATCGCCCATCTAATCGATC-TTCACGGTCACTACGA
66 TGATTAAAGAGGGAAGATCAG-TAGATGAATCGCCCATCTAATCGATCTTTAACGGTCACTACGA
* *
541347 AGTGACCGAAATTTTGGAGTCGCCACCGATCATTTCGGGCTAGGCATGATCGGATGCCTATTGAA
130 AGTGACCGAAATTTTGGAGTCACCACCGATCATTTCGGGCTAGGCATGATCGAATGCCTATTGAA
* * *
541412 ACCTATGTCTTGAGTTACGAAACTCGAGACATCGATCTCGTGGTCTACGTAATTCAAAGATTCAT
195 ACCTATGTCTTGAGTTACGAAACTCAAAACATCGATCCCGTGGTCTACGTAATTCAAAGATT--T
* * *
541477 -CGA-TTGGGTCCGGGAGTTGGTTACGCGCAAAGAGGTATGGA-CCTCCTCGCGACGCCCGAAAT
258 GCCAGTTGGGTCCAGGAGTTGGTTACGCGCAAAGAGGTA-CGATCCTCCTCGCGACGCCCGAAAT
* * * * *
541539 CGGTACCTTACTAGCTACATTTTGACTTGATATTGGTTTCATTGGTTTTGACTCGAT-ATTATTT
322 CGGTACCTTACTAGCAACATTTTGACTCGATATTGGTTGCATTGATTTCGA-TCGATCATTATTT
541603 CAATATAATT
Statistics
Matches: 344, Mismatches: 35, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
428 235 0.68
429 108 0.31
430 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (429 bp):
ATGAGGCACGCCCGACTTAATATCCCTCGCGATTGGGGATTTCCATGGCATGATGAGAAATATGT
TGATTAAAGAGGGAAGATCAGTAGATGAATCGCCCATCTAATCGATCTTTAACGGTCACTACGAA
GTGACCGAAATTTTGGAGTCACCACCGATCATTTCGGGCTAGGCATGATCGAATGCCTATTGAAA
CCTATGTCTTGAGTTACGAAACTCAAAACATCGATCCCGTGGTCTACGTAATTCAAAGATTTGCC
AGTTGGGTCCAGGAGTTGGTTACGCGCAAAGAGGTACGATCCTCCTCGCGACGCCCGAAATCGGT
ACCTTACTAGCAACATTTTGACTCGATATTGGTTGCATTGATTTCGATCGATCATTATTTTGATA
TTGTCGCGACGTGTGCTCGGACCCCGGCGATAGGGACAG
Found at i:543354 original size:2 final size:2
Alignment explanation
Indices: 543347--543417 Score: 106
Period size: 2 Copynumber: 35.5 Consensus size: 2
543337 GATTTTTAAA
* *
543347 AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
543389 AT AT AT AC AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
543418 AATAAAATAA
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:543801 original size:9 final size:9
Alignment explanation
Indices: 543787--543816 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
543777 CCATTTCATA
543787 TTTTTTTCT
1 TTTTTTTCT
543796 TTTTTTTCT
1 TTTTTTTCT
543805 TTTTCTTTCT
1 TTTT-TTTCT
543815 TT
1 TT
543817 CTTCTTCATC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.65
10 7 0.35
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:545124 original size:32 final size:32
Alignment explanation
Indices: 545075--545580 Score: 773
Period size: 32 Copynumber: 15.8 Consensus size: 32
545065 AAAATGGTGA
* * *
545075 TTTGAAAAGGGTTGCCACTGACTTGCGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
545107 TTTTAAATGGGTTGCCACCGACTTGCGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
545139 TTTTAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
** * *
545171 TTTGAAAAAGGTTGCCATCGACTTATGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
545203 TTTGAAATGGGTTGCCACCTACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
545235 TTT-AGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGA-AATGGGTTGCCACCGACTTGTGTGGGC
*
545267 TTTGAAATGGGTTGCCATCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
545299 TTTGAAATGGGTTGCCACCGACTTGTGTAGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
545331 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
545363 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
545395 TTTAAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
545427 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
545459 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
545491 TTTGGAATGGGTTGCCACCGATTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
545523 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
545555 TTTGAAAAGGGTT-CCACAGAGTTGTG
1 TTTGAAATGGGTTGCCACCGACTTGTG
545581 AATTTAAAAG
Statistics
Matches: 442, Mismatches: 30, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
31 12 0.03
32 429 0.97
33 1 0.00
ACGTcount: A:0.17, C:0.18, G:0.34, T:0.31
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:545589 original size:27 final size:27
Alignment explanation
Indices: 545559--546392 Score: 1030
Period size: 27 Copynumber: 30.2 Consensus size: 27
545549 GTGGGCTTTG
* * *
545559 AAAAGGGTTCCACAGAGTTGTGAATTT
1 AAAAGGGTGCCACGGAGTTGTGGATTT
* *
545586 AAAAGGATGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGATTT
*
545613 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGATTT
*
545640 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGATTT
*
545667 AAAAGGGTGCCACGGAGTTATGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGA-TTT
545695 AAAAGGGTGCCACGGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGA-TTT
** * *
545723 AAAAGGGTGCCATAGAATTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGATTT
* * * *
545750 AAAAGAGATGCCACGAAGTTATGGACTT
1 AAAAG-GGTGCCACGGAGTTGTGGATTT
* *
545778 AAAAGGGTGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGATTT
545805 AAAAGGGTGCCACGGAGTTGTGG-TCTT
1 AAAAGGGTGCCACGGAGTTGTGGAT-TT
545832 AAAAGGGTGCCACGGAGTTGTGG-TCTT
1 AAAAGGGTGCCACGGAGTTGTGGAT-TT
545859 AAAAGGGTGCCACGGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGA-TTT
*
545887 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGATTT
*
545914 AAAAAGGTGCCACGGAGTTGTGG-TCTT
1 AAAAGGGTGCCACGGAGTTGTGGAT-TT
545941 AAAAGGGTGCCACGGAGTTGTGG-TCTT
1 AAAAGGGTGCCACGGAGTTGTGGAT-TT
545968 AAAAGGGTGCCACGGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGA-TTT
*
545996 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGATTT
546023 AAAAGGGTGCCACGGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGA-TTT
*
546051 AAAAGGGTGCCACGAAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGA-TTT
*
546079 AAAAGGGTGCCACAGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGA-TTT
** * *
546107 AAAAGGGTGCCACAAAATTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGATTT
* * *
546134 AAAAGAGATGCCACGGAGTTATGGACTT
1 AAAAG-GGTGCCACGGAGTTGTGGATTT
* *
546162 AAAAGGGTGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGATTT
546189 AAAAGGGTGCCACGGAGTTGTGG-TCTT
1 AAAAGGGTGCCACGGAGTTGTGGAT-TT
*
546216 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGATTT
546243 AAAAGGGTGCCACGGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGA-TTT
* *
546271 AAAAGGGTGCCACGAAGTTGTGGAATT
1 AAAAGGGTGCCACGGAGTTGTGGATTT
* * **
546298 AAAAGAGATGCCACGGAGTTATGGGCTT
1 AAAAG-GGTGCCACGGAGTTGTGGATTT
*
546326 AAAAGGGTGCGGTGCCACGGAGTTGTGGACTTAA
1 AAAA----G-GGTGCCACGGAGTTGTGGA-TT-T
* * *
546360 AAAAAGATGCCACAGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGA-TTT
546388 AAAAG
1 AAAAG
546393 AAAATACCAC
Statistics
Matches: 720, Mismatches: 67, Indels: 39
0.87 0.08 0.05
Matches are distributed among these distances:
27 404 0.56
28 272 0.38
29 22 0.03
32 17 0.02
33 1 0.00
34 4 0.01
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.24
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTTGTGGATTT
Found at i:545752 original size:55 final size:54
Alignment explanation
Indices: 545559--546392 Score: 1182
Period size: 55 Copynumber: 15.1 Consensus size: 54
545549 GTGGGCTTTG
* * * * *
545559 AAAAGGGTTCCACAGAGTTGTGAATTTAAAAGGATGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT
545613 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT
*
545667 AAAAGGGTGCCACGGAGTTATGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGAC-TT
** * * * *
545723 AAAAGGGTGCCATAGAATTGTGGACTTAAAAGAGATGCCACGAAGTTATGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGACTT
* *
545778 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT
*
545832 AAAAGGGTGCCACGGAGTTGTGGTCTTAAAAGGGTGCCACGGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TT
* *
545887 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGTCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT
*
545941 AAAAGGGTGCCACGGAGTTGTGGTCTTAAAAGGGTGCCACGGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TT
545996 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TT
* *
546051 AAAAGGGTGCCACGAAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGAC-TT
** * * *
546107 AAAAGGGTGCCACAAAATTGTGGACTTAAAAGAGATGCCACGGAGTTATGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGACTT
* *
546162 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT
546216 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TT
* * * * *
546271 AAAAGGGTGCCACGAAGTTGTGGAATTAAAAGAGATGCCACGGAGTTATGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGACTT
* * *
546326 AAAAGGGTGCGGTGCCACGGAGTTGTGGACTTAAAAAAAGATGCCACAGAGTTGTGGACTTT
1 AAAA----G-GGTGCCACGGAGTTGTGGACTT--AAAAGGGTGCCACGGAGTTGTGGAC-TT
546388 AAAAG
1 AAAAG
546393 AAAATACCAC
Statistics
Matches: 709, Mismatches: 54, Indels: 30
0.89 0.07 0.04
Matches are distributed among these distances:
54 260 0.37
55 274 0.39
56 126 0.18
58 1 0.00
59 1 0.00
60 20 0.03
61 17 0.02
62 10 0.01
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.24
Consensus pattern (54 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT
Found at i:545889 original size:109 final size:108
Alignment explanation
Indices: 545559--546392 Score: 1182
Period size: 109 Copynumber: 7.5 Consensus size: 108
545549 GTGGGCTTTG
* * * * *
545559 AAAAGGGTTCCACAGAGTTGTGAATTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCC
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
545624 ACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT
66 ACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT
*
545667 AAAAGGGTGCCACGGAGTTATGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTG
1 AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTG
** * * * *
545732 CCATAGAATTGTGGACTTAAAAGAGATGCCACGAAGTTATGGACTT
64 CCACGGAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGACTT
* *
545778 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAAGGGTGCC
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
*
545843 ACGGAGTTGTGGTCTTAAAAGGGTGCCACGGAGTTGTGGACTTT
66 ACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TT
* *
545887 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGTCTTAAAAGGGTGCC
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
*
545952 ACGGAGTTGTGGTCTTAAAAGGGTGCCACGGAGTTGTGGACTTT
66 ACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TT
545996 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGC
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGC
* *
546061 CACGAAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTT
65 CACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGAC-TT
** * * *
546107 AAAAGGGTGCCACAAAATTGTGGACTTAAAAGAGATGCCACGGAGTTATGGACTTAAAAGGGTGC
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGC
* *
546172 CACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTT
65 CACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT
546216 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGC
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGC
* * * * *
546281 CACGAAGTTGTGGAATTAAAAGAGATGCCACGGAGTTATGGGCTT
65 CACGGAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGACTT
* * *
546326 AAAAGGGTGCGGTGCCACGGAGTTGTGGACTTAAAAAAAGATGCCACAGAGTTGTGGACTTTAAA
1 AAAA----G-GGTGCCACGGAGTTGTGGACTT--AAAAGGGTGCCACGGAGTTGTGGAC-TTAAA
546391 AG
58 AG
546393 AAAATACCAC
Statistics
Matches: 658, Mismatches: 52, Indels: 23
0.90 0.07 0.03
Matches are distributed among these distances:
108 55 0.08
109 277 0.42
110 130 0.20
111 125 0.19
112 18 0.03
114 1 0.00
115 22 0.03
117 30 0.05
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.24
Consensus pattern (108 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
ACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT
Found at i:551046 original size:12 final size:12
Alignment explanation
Indices: 551029--551059 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
551019 CCTTCTCTTC
551029 AAAAAAAAAGCA
1 AAAAAAAAAGCA
*
551041 AAAAAAAAAGGA
1 AAAAAAAAAGCA
551053 AAAAAAA
1 AAAAAAA
551060 CAAAAAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.87, C:0.03, G:0.10, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAGCA
Found at i:552148 original size:55 final size:55
Alignment explanation
Indices: 552064--552586 Score: 615
Period size: 55 Copynumber: 9.3 Consensus size: 55
552054 TCCGCTTTTT
* *
552064 AGTCCTCAAAGAGTAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
*
552119 AGTCCTCAAAGAGTAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA--TTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-C
* * **
552173 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
552228 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAGGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
552289 AGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACATAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-C
* * **
552344 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
552399 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
*
552460 AGTCCCCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * * * *
552515 AGTCTTCAAAGAGCAGGACGCCTTTCAAA-CCCTCACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
552569 ACTCCTCAATGAGAAGGA
1 AGTCCTCAAAGAGCAGGA
552587 TACACTTTAT
Statistics
Matches: 410, Mismatches: 39, Indels: 39
0.84 0.08 0.08
Matches are distributed among these distances:
53 3 0.01
54 87 0.21
55 212 0.52
56 9 0.02
57 2 0.00
59 2 0.00
61 95 0.23
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
Found at i:552319 original size:116 final size:110
Alignment explanation
Indices: 552064--552586 Score: 622
Period size: 116 Copynumber: 4.7 Consensus size: 110
552054 TCCGCTTTTT
* * **
552064 AGTCCTCAAAGAGTAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAA
* *
552129 GAGTAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA--TTTCC
66 GAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
* *
552173 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTCAGTCCTCAAA
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAA
** *
552238 GAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAGGTTGGTGGCACCTTTC
66 GAGCAGGA--C---ACCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
552289 AGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACATAAGTTGGTGGCATTTTCCAGTCCTCAAA
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAA
* **
552354 GAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTC
66 GAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * **
552399 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
1 AGTCCTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTC
* *
552464 CCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
60 CTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * * *
552515 AGTCTTCAAAGAGCAGGACGCCTTTCAAA-CCCTCACGAGTTGGTGGCACTTTTT-ACTCCTCAA
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTTCAGTCCTCAA
* *
552578 TGAGAAGGA
65 AGAGCAGGA
552587 TACACTTTAT
Statistics
Matches: 356, Mismatches: 43, Indels: 30
0.83 0.10 0.07
Matches are distributed among these distances:
109 97 0.27
110 55 0.15
111 6 0.02
112 1 0.00
114 6 0.02
115 22 0.06
116 166 0.47
117 3 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (110 bp):
AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAA
GAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
Found at i:552417 original size:171 final size:170
Alignment explanation
Indices: 552088--552587 Score: 812
Period size: 171 Copynumber: 2.9 Consensus size: 170
552078 AGGACACCTC
* *
552088 TCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAGGACACCTTTCAAAGCCCA
1 TCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCA
552153 CACAAGTTGGTGGCATTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGT
66 CACAAGTTGGTGGCATTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGT
552218 GGCATTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTT
131 GGCATTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTT
*
552258 TCAAAGCCCACACAGGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCA
1 TCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCA
*
552323 CATAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGG
66 CACAAGTTGGTGGCA-TTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGG
552388 TGGCATTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTT
130 TGGCATTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTT
552429 TCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTCTT-AAAGCCC
1 TCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCT-TTCAAAGCCC
* * * *
552493 ACACAAGTTGGTGGCACCTTT-CAGTCTTCAAAGAGCAGGACGCCTTTCAAA-CCCTCAC-GAGT
65 ACACAAGTTGGTGGCA--TTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAG-GT
* * *
552555 TGGTGGCACTTTTT-ACTCCTCAATGAGAAGGAT
127 TGGTGGCA-TTTTTCAGTCCTCAAAGAGCAGGAT
552588 ACACTTTATT
Statistics
Matches: 311, Mismatches: 14, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
169 1 0.00
170 108 0.35
171 197 0.63
172 5 0.02
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (170 bp):
TCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCA
CACAAGTTGGTGGCATTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGT
GGCATTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTT
Found at i:552511 original size:29 final size:28
Alignment explanation
Indices: 552431--552513 Score: 75
Period size: 27 Copynumber: 3.0 Consensus size: 28
552421 TTTTCTTTTC
552431 AAAGCCCACACAAGTTGGTGGCACCTTT
1 AAAGCCCACACAAGTTGGTGGCACCTTT
* * **
552459 -CAGTCCC-CA-AAG-AGCAGGACACCTCTT
1 AAAG-CCCACACAAGTTGGTGG-CACCT-TT
552486 AAAGCCCACACAAGTTGGTGGCACCTTT
1 AAAGCCCACACAAGTTGGTGGCACCTTT
552514 CAGTCTTCAA
Statistics
Matches: 40, Mismatches: 8, Indels: 14
0.65 0.13 0.23
Matches are distributed among these distances:
25 3 0.08
26 8 0.20
27 9 0.22
28 9 0.22
29 8 0.20
30 3 0.08
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.19
Consensus pattern (28 bp):
AAAGCCCACACAAGTTGGTGGCACCTTT
Done.