Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold158
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: 1811518
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 13
Found at i:1211067 original size:52 final size:52
Alignment explanation
Indices: 1210987--1211134 Score: 163
Period size: 53 Copynumber: 2.8 Consensus size: 52
1210977 AAAAGGATGT
* * * * *
1210987 CAATGTGCTGATTCACGGTCAACGACATTAGACTTGAAGATGA-GAAAAATGC
1 CAATGTGCTGATTCAAGGCCAACAACATTGGACTTAAAGATGATG-AAAATGC
** **
1211039 CAATGTGCTGATTCAAGGCCAACAACATTGGGTTTTAAAGATGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAACAACATT-GGACTTAAAGATGATGAAAATGC
* * *
1211092 CAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGA
1 CAATGTGCTGATTCAAGGCCAACAACATTGGACTTAAAGATGA
1211135 AGGTGAGAAA
Statistics
Matches: 80, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
52 38 0.47
53 41 0.51
54 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (52 bp):
CAATGTGCTGATTCAAGGCCAACAACATTGGACTTAAAGATGATGAAAATGC
Found at i:1211197 original size:67 final size:68
Alignment explanation
Indices: 1211075--1211201 Score: 193
Period size: 67 Copynumber: 1.9 Consensus size: 68
1211065 ATTGGGTTTT
* * *
1211075 AAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGGTG
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGGTG
1211140 AGA
66 AGA
* * *
1211143 AAAG-TGATAAAGATGCCAATATGTTGATTCACGGCCAACAATATTGGGCTTAAAGATGA
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGA
1211202 GAAAAAGGAT
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
67 49 0.92
68 4 0.08
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.24
Consensus pattern (68 bp):
AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGGTG
AGA
Found at i:1211257 original size:445 final size:445
Alignment explanation
Indices: 1210415--1211575 Score: 2011
Period size: 445 Copynumber: 2.6 Consensus size: 445
1210405 TCATTGCAAT
* * * * *
1210415 GTGCCACTGTGCAGATTCAAGGCCTGCCACACTGGACTTAAAGATGATGAGGATAAAGAGTGATA
1 GTGCCACTGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGAGGATGAAGAGTGATA
* * *
1210480 AAAGGACCAATATGTTGATTCATGGCCAACGATATTGGATTTAAAGATGAGAAAAAGGATGTCAA
66 AAAGGACCAATATGTTGATTCACGGCCAACGATATTGGGTTTAAAGATGAAAAAAAGGATGTCAA
* *
1210545 TGTGCTGATTCATGGTTAGCGACATTAGACTTGAAGATGAGAAAAATGCCAATGTGCTGATTCAA
131 TGTGCTGATTCACGGTCAGCGACATTAGACTTGAAGATGAGAAAAATGCCAATGTGCTGATTCAA
*
1210610 GGCCAACAACATTGGGTTTTAAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAACAATAT
196 GGCCAACAACATTGGGTTTTAAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATAT
*
1210675 TGGACTTAAAGATGAAGATGAGAAAAGTGATAAAGATGCCAATATGTTGATTCACGGCCAACGAT
261 TGGACTTAAAGATGAAGATGAGAAAAGTGATAAAGATGCCAATATGTTGATTCACGGCCAACAAT
1210740 ATTGGGCTTAAAGATGAGAAAAAGGATGTCAATGTGCTGATTCAAAGCCAGCTACATTGAACTTA
326 ATTGGGCTTAAAGATGAGAAAAAGGATGTCAATGTGCTGATTCAAAGCCAGCTACATTGAACTTA
1210805 AAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTATATTGGACTTAAAG
391 AAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTATATTGGACTTAAAG
* *
1210860 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGAGCATGAAGAGTGATA
1 GTGCCACTGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGAGGATGAAGAGTGATA
* *
1210925 AAAGGACCAATATGTTGATTCACGGCCAACGATATTGGGTTTACAGATGACAAAAAGGATGTCAA
66 AAAGGACCAATATGTTGATTCACGGCCAACGATATTGGGTTTAAAGATGAAAAAAAGGATGTCAA
*
1210990 TGTGCTGATTCACGGTCAACGACATTAGACTTGAAGATGAGAAAAATGCCAATGTGCTGATTCAA
131 TGTGCTGATTCACGGTCAGCGACATTAGACTTGAAGATGAGAAAAATGCCAATGTGCTGATTCAA
1211055 GGCCAACAACATTGGGTTTTAAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATAT
196 GGCCAACAACATTGGGTTTTAAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATAT
*
1211120 TGGACTTAAAGATGAAGGTGAGAAAAGTGATAAAGATGCCAATATGTTGATTCACGGCCAACAAT
261 TGGACTTAAAGATGAAGATGAGAAAAGTGATAAAGATGCCAATATGTTGATTCACGGCCAACAAT
*
1211185 ATTGGGCTTAAAGATGAGAAAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTA
326 ATTGGGCTTAAAGATGAGAAAAAGGATGTCAATGTGCTGATTCAAAGCCAGCTACATTGAACTTA
*
1211250 AAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
391 AAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTATATTGGACTTAAAG
* *
1211305 GTGCCACTGTG-TAGATTCAAGGCCAGATACATTGGACTTAAAGATGATGAGGATGGAAAAGTGA
1 GTGCCACTGTGCT-GATTCAAGGCCAGCTACATTGGACTTAAAGATGATGAGGAT-GAAGAGTGA
*
1211369 TAAAAGGACCAATATGTTGATTCACGGCCAACGATATTGGGTTTAAAGATGAAAAAAAGGATGTA
64 TAAAAGGACCAATATGTTGATTCACGGCCAACGATATTGGGTTTAAAGATGAAAAAAAGGATGTC
1211434 AATGTGCTGATTCACGGTCAGCGACATTAGACTTGAAGATGAGAAAAATGCCAATGTGCTGATTC
129 AATGTGCTGATTCACGGTCAGCGACATTAGACTTGAAGATGAGAAAAATGCCAATGTGCTGATTC
** ** ** * *
1211499 AAGGCCAACAACATT-GGACTTAAAGATGACAAAGACGCCAATATGCTGATTCAGGGCCAGCGAT
194 AAGGCCAACAACATTGGGTTTTAAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAAT
1211563 ATTGGACTTAAAG
259 ATTGGACTTAAAG
1211576 GTATCAATGT
Statistics
Matches: 679, Mismatches: 35, Indels: 4
0.95 0.05 0.01
Matches are distributed among these distances:
444 1 0.00
445 529 0.78
446 149 0.22
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (445 bp):
GTGCCACTGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGAGGATGAAGAGTGATA
AAAGGACCAATATGTTGATTCACGGCCAACGATATTGGGTTTAAAGATGAAAAAAAGGATGTCAA
TGTGCTGATTCACGGTCAGCGACATTAGACTTGAAGATGAGAAAAATGCCAATGTGCTGATTCAA
GGCCAACAACATTGGGTTTTAAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATAT
TGGACTTAAAGATGAAGATGAGAAAAGTGATAAAGATGCCAATATGTTGATTCACGGCCAACAAT
ATTGGGCTTAAAGATGAGAAAAAGGATGTCAATGTGCTGATTCAAAGCCAGCTACATTGAACTTA
AAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTATATTGGACTTAAAG
Found at i:1211285 original size:52 final size:54
Alignment explanation
Indices: 1211151--1211304 Score: 195
Period size: 52 Copynumber: 2.9 Consensus size: 54
1211141 GAAAAGTGAT
* * * * * *
1211151 AAAGATGCCAATATGTTGATTCACGGCCAACAATATTGGGCTTAAAGATGAGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGAA
* * * *
1211205 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-G-A
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGAA
1211258 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1211305 GTGCCACTGT
Statistics
Matches: 85, Mismatches: 14, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
52 38 0.45
53 6 0.07
54 5 0.06
55 36 0.42
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (54 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGAA
Found at i:1211322 original size:43 final size:43
Alignment explanation
Indices: 1211258--1211347 Score: 128
Period size: 43 Copynumber: 2.1 Consensus size: 43
1211248 TAAAGATGGA
* *
1211258 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGATACATTGGACTT
* *
1211301 AAAGGTGCCACTGTG-TAGATTCAAGGCCAGATACATTGGACTT
1 AAAGGTGCCAATATGCT-GATTCAAGGCCAGATACATTGGACTT
1211344 AAAG
1 AAAG
1211348 ATGATGAGGA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 1 0.02
43 41 0.98
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGATACATTGGACTT
Found at i:1211513 original size:52 final size:52
Alignment explanation
Indices: 1211434--1211575 Score: 149
Period size: 52 Copynumber: 2.7 Consensus size: 52
1211424 AAAGGATGTA
* * * * * * *
1211434 AATGTGCTGATTCACGGTCAGCGACATTAGACTTGAAGATGAGAAAAATGCC
1 AATGTGCTGATTCAAGGCCAACAACATTAGACTTAAAGATGACAAAAACGCC
* *
1211486 AATGTGCTGATTCAAGGCCAACAACATTGGACTTAAAGATGACAAAGACGCC
1 AATGTGCTGATTCAAGGCCAACAACATTAGACTTAAAGATGACAAAAACGCC
* * * * * *
1211538 AATATGCTGATTCAGGGCCAGCGATATTGGACTTAAAG
1 AATGTGCTGATTCAAGGCCAACAACATTAGACTTAAAG
1211576 GTATCAATGT
Statistics
Matches: 76, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
52 76 1.00
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (52 bp):
AATGTGCTGATTCAAGGCCAACAACATTAGACTTAAAGATGACAAAAACGCC
Found at i:1211645 original size:49 final size:49
Alignment explanation
Indices: 1211482--1211759 Score: 294
Period size: 49 Copynumber: 5.9 Consensus size: 49
1211472 ATGAGAAAAA
* * * * *
1211482 TGCCAATGTGCTGATTCAAGGCCAACAACATTGGACTTAAAGATGACAAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG---AAGG
* * * *
1211534 CGCCAATATGCTGATTCAGGGCCAGCGATATTGGACTTAAAG--GTA--
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
*
1211579 T--CAATGTGCTGATTCAAGGCCAGCTACT-TTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTA-TATTGGACTTAAAGATGAAGG
1211626 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
** * * *
1211669 TGCCAACGTGCTGATTCAAGGCCAGCTACATTGGGCTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
1211718 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1211760 GAAGATGCCA
Statistics
Matches: 191, Mismatches: 21, Indels: 31
0.79 0.09 0.13
Matches are distributed among these distances:
43 72 0.38
44 1 0.01
45 3 0.02
47 3 0.02
48 1 0.01
49 74 0.39
50 1 0.01
52 36 0.19
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
Found at i:1211665 original size:92 final size:92
Alignment explanation
Indices: 1211484--1211760 Score: 419
Period size: 92 Copynumber: 3.0 Consensus size: 92
1211474 GAGAAAAATG
* * **
1211484 CCAATGTGCTGATTCAAGGCCAACAACATTGGACTTAAAGATGACAAAGACGCCAATATGCTGAT
1 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG---AAGGTGCCAATATGCTGAT
* *
1211549 TCAGGGCCAGCGATATTGGACTTAAAGGTA
63 TCAAGGCCAGCTATATTGGACTTAAAGGTA
* *
1211579 TCAATGTGCTGATTCAAGGCCAGCTACTTTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCA
1 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCA
*
1211644 AGGCCAGCTATATTGGACTTAAAGGTG
66 AGGCCAGCTATATTGGACTTAAAGGTA
* * *
1211671 CCAACGTGCTGATTCAAGGCCAGCTACATTGGGCTTAAAGATAAAGGTGCCAATATGCTGATTCA
1 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCA
1211736 AGGCCAGCTATATTGGACTTAAAGG
66 AGGCCAGCTATATTGGACTTAAAGG
1211761 AAGATGCCAC
Statistics
Matches: 168, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
92 129 0.77
95 39 0.23
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (92 bp):
CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCA
AGGCCAGCTATATTGGACTTAAAGGTA
Found at i:1211869 original size:32 final size:32
Alignment explanation
Indices: 1211765--1212038 Score: 356
Period size: 33 Copynumber: 8.5 Consensus size: 32
1211755 TAAAGGAAGA
*
1211765 TGCCACCAACTTGTGTGGGCTTTTGAAGAA-GGT
1 TGCCACCGACTTGTGTGGGC-TTTG-AGAAGGGT
* * *
1211798 TGCCACCGACTTGTATGGGCTTTAGAAAAAGGT
1 TGCCACCGACTTGTGTGGGCTTT-GAGAAGGGT
* *
1211831 TGCCACCAACTTGTGTAGGCTTTGAGAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTGAGAAGGGT
1211863 TGCCACCGACTTGTGTGGGCTTTGAGAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTGAGAAGGGT
*
1211895 TGTCACCGACTTGTGTGGGCTTTG-GAAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTGAG-AAGGGT
* *
1211927 TGCCACCGACTTGTGTGGGCTTTGGAAAAAGGT
1 TGCCACCGACTTGTGTGGGCTTT-GAGAAGGGT
* *
1211960 TGCCACCAACTTGTGTGGGCTTTAGAGAATGGT
1 TGCCACCGACTTGTGTGGGCTTT-GAGAAGGGT
*
1211993 TGCCACCGACTTGTGTGGGCTTT-AGAAGGGG
1 TGCCACCGACTTGTGTGGGCTTTGAGAAGGGT
*
1212024 TGCCACCAACTTGTG
1 TGCCACCGACTTGTG
1212039 GGCTTAAAAA
Statistics
Matches: 214, Mismatches: 22, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
31 21 0.10
32 94 0.44
33 99 0.46
ACGTcount: A:0.20, C:0.19, G:0.32, T:0.28
Consensus pattern (32 bp):
TGCCACCGACTTGTGTGGGCTTTGAGAAGGGT
Found at i:1211916 original size:64 final size:65
Alignment explanation
Indices: 1211765--1212038 Score: 387
Period size: 64 Copynumber: 4.2 Consensus size: 65
1211755 TAAAGGAAGA
*
1211765 TGCCACCAACTTGTGTGGGCTTTTGAAGAA-GGTTGCCACCGACTTGTATGGGCTTTAGAAAAAG
1 TGCCACCAACTTGTGTGGGC-TTTG-AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAAG
1211829 GT
64 GT
* * *
1211831 TGCCACCAACTTGTGTAGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTT-GAGAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAAGGT
* * *
1211895 TGTCACCGACTTGTGTGGGCTTTG-GAAAGGGTTGCCACCGACTTGTGTGGGCTTTGGAAAAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAG-AAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAAGG
1211959 T
65 T
* *
1211960 TGCCACCAACTTGTGTGGGCTTTAGAGAATGGTTGCCACCGACTTGTGTGGGCTTTAG--AAGGG
1 TGCCACCAACTTGTGTGGGCTTT-GAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAAGG
*
1212023 G
65 T
1212024 TGCCACCAACTTGTG
1 TGCCACCAACTTGTG
1212039 GGCTTAAAAA
Statistics
Matches: 188, Mismatches: 15, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
63 1 0.01
64 80 0.43
65 57 0.30
66 49 0.26
67 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.32, T:0.28
Consensus pattern (65 bp):
TGCCACCAACTTGTGTGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAAGGT
Found at i:1212090 original size:34 final size:34
Alignment explanation
Indices: 1212051--1212398 Score: 170
Period size: 34 Copynumber: 10.7 Consensus size: 34
1212041 CTTAAAAAGG
*
1212051 TGCCACAGAGTGGTGGACTTAAAAGGAAAAAGAA
1 TGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAA
* * *
1212085 TGCCACGGAGTTGTGGGCTTAAAAGGAAGAAAG-G
1 TGCCACAGAGTTGTGGACTTAAAAGGAA-AAAGAA
* * *
1212119 TGCCACGGAGTTGTGGACTTAGAAGG-AAAAGAT
1 TGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAA
* * *
1212152 TGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAAAA
1 TGCCACAGAGTTGTGGAC-TTAAAAGGAAAAAGAA
* * **
1212187 GGTGCCACTGAGTTGTGGACTT--TA-G---AAGGT
1 --TGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAA
* ** *
1212217 TGCCACTG-GCTTGTGGGTTTTAAAAGG-----G-G
1 TGCCACAGAG-TTGT-GGACTTAAAAGGAAAAAGAA
* *
1212246 TGCCACCA-ACTTGTGGGCTTAAAAGG-----G--
1 TGCCA-CAGAGTTGTGGACTTAAAAGGAAAAAGAA
*
1212273 TGCCACAGAGTGGTGGACTTAAAAGGAAAAAGAA
1 TGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAA
* * *
1212307 TGCCACGGAGTTGTGGGCTTAAAAGGAAGAAAG-G
1 TGCCACAGAGTTGTGGACTTAAAAGGAA-AAAGAA
* ** *
1212341 TGCCACGGAGTTGTGGACTTAGGAGG-AAAAGAG
1 TGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAA
* *
1212374 TACCACAGAGTTGTGGGCTTTAAAA
1 TGCCACAGAGTTGTGGAC-TTAAAA
1212399 AAAGAAAAAA
Statistics
Matches: 248, Mismatches: 42, Indels: 48
0.73 0.12 0.14
Matches are distributed among these distances:
26 2 0.01
27 21 0.08
28 23 0.09
29 13 0.05
30 4 0.02
31 1 0.00
32 10 0.04
33 35 0.14
34 108 0.44
35 13 0.05
36 2 0.01
37 16 0.06
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (34 bp):
TGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAA
Found at i:1212175 original size:68 final size:70
Alignment explanation
Indices: 1212044--1212215 Score: 233
Period size: 68 Copynumber: 2.5 Consensus size: 70
1212034 TTGTGGGCTT
* * *
1212044 AAAAAGGTGCCACAGAGTGGTGGACTTAAAAGGAAAAAGAATGCCACGGAGTTGTGGGCTT-AAA
1 AAAAAGGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAATGCCACAGAGTTGTGGGCTTAAAA
*
1212108 AG-GA
66 AGAAA
* * *
1212112 AGAAAGGTGCCACGGAGTTGTGGACTTAGAAGG-AAAAGATTGCCACAGAGTTGTGGGCTTTAAA
1 AAAAAGGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAATGCCACAGAGTTGTGGGC-TTAAA
1212176 AAGAAA
65 AAGAAA
*
1212182 AAAAAGGTGCCACTGAGTTGTGGACTTTAGAAGG
1 AAAAAGGTGCCACAGAGTTGTGGAC-TTAGAAGG
1212216 TTGCCACTGG
Statistics
Matches: 91, Mismatches: 9, Indels: 5
0.87 0.09 0.05
Matches are distributed among these distances:
67 23 0.25
68 31 0.34
69 5 0.05
70 24 0.26
71 8 0.09
ACGTcount: A:0.37, C:0.12, G:0.32, T:0.19
Consensus pattern (70 bp):
AAAAAGGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAATGCCACAGAGTTGTGGGCTTAAAA
AGAAA
Found at i:1212238 original size:28 final size:27
Alignment explanation
Indices: 1212183--1212298 Score: 85
Period size: 27 Copynumber: 4.2 Consensus size: 27
1212173 AAAAAGAAAA
1212183 AAAAGGTGCCACTGAGTTGTGGACTTT
1 AAAAGGTGCCACTGAGTTGTGGACTTT
* **
1212210 AGAAGGTTGCCACTG-GCTTGTGGGTTTT
1 AAAAGG-TGCCACTGAG-TTGTGGACTTT
** * *
1212238 AAAAGGGGTGCCACCAACTTGTGGGC-TT
1 AAAA--GGTGCCACTGAGTTGTGGACTTT
* *
1212266 AAAAGGGTGCCACAGAGTGGTGGAC-TT
1 AAAA-GGTGCCACTGAGTTGTGGACTTT
1212293 AAAAGG
1 AAAAGG
1212299 AAAAAGAATG
Statistics
Matches: 71, Mismatches: 13, Indels: 11
0.75 0.14 0.12
Matches are distributed among these distances:
26 2 0.03
27 28 0.39
28 26 0.37
29 13 0.18
30 2 0.03
ACGTcount: A:0.26, C:0.16, G:0.34, T:0.25
Consensus pattern (27 bp):
AAAAGGTGCCACTGAGTTGTGGACTTT
Found at i:1212255 original size:222 final size:224
Alignment explanation
Indices: 1212006--1212463 Score: 803
Period size: 222 Copynumber: 2.0 Consensus size: 224
1211996 CACCGACTTG
*
1212006 TGTGGGCTTTAGAAGGGGTGCCACCAACTTGTGGGCTTAAAAAGGTGCCACAGAGTGGTGGACTT
1 TGTGGGCTTTAAAAGGGGTGCCACCAACTTGTGGGCTTAAAAAGGTGCCACAGAGTGGTGGACTT
1212071 AAAAGGAAAAAGAATGCCACGGAGTTGTGGGCTTAAAAGGAAGAAAGGTGCCACGGAGTTGTGGA
66 AAAAGGAAAAAGAATGCCACGGAGTTGTGGGCTTAAAAGGAAGAAAGGTGCCACGGAGTTGTGGA
* *
1212136 CTTAGAAGGAAAAGATTGCCACAGAGTTGTGGGCTTT-AAAAAG-AAAAAAAAGGTGCCACTGAG
131 CTTAGAAGGAAAAGAGTACCACAGAGTTGTGGGCTTTAAAAAAGAAAAAAAAAGGTGCCACTGAG
*
1212199 TTGTGGACTTTAGAAGGTTGCCACTGGCT
196 TTGTGGACTTTAGAAGGTTGCCACTAGCT
* *
1212228 TGTGGGTTTTAAAAGGGGTGCCACCAACTTGTGGGCTTAAAAGGGTGCCACAGAGTGGTGGACTT
1 TGTGGGCTTTAAAAGGGGTGCCACCAACTTGTGGGCTTAAAAAGGTGCCACAGAGTGGTGGACTT
1212293 AAAAGGAAAAAGAATGCCACGGAGTTGTGGGCTTAAAAGGAAGAAAGGTGCCACGGAGTTGTGGA
66 AAAAGGAAAAAGAATGCCACGGAGTTGTGGGCTTAAAAGGAAGAAAGGTGCCACGGAGTTGTGGA
* *
1212358 CTTAGGAGGAAAAGAGTACCACAGAGTTGTGGGCTTTAAAAAAAGAAAAAAAAAAGGTGCCATTG
131 CTTAGAAGGAAAAGAGTACCACAGAGTTGTGGGCTTT-AAAAAAG-AAAAAAAAAGGTGCCACTG
*
1212423 AGTTGTGGACTTTAGACGGTTGCCACTAGCT
194 AGTTGTGGACTTTAGAAGGTTGCCACTAGCT
1212454 TGTGGGCTTT
1 TGTGGGCTTT
1212464 GGAAAAGATG
Statistics
Matches: 222, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
222 161 0.73
224 6 0.03
226 55 0.25
ACGTcount: A:0.32, C:0.14, G:0.32, T:0.22
Consensus pattern (224 bp):
TGTGGGCTTTAAAAGGGGTGCCACCAACTTGTGGGCTTAAAAAGGTGCCACAGAGTGGTGGACTT
AAAAGGAAAAAGAATGCCACGGAGTTGTGGGCTTAAAAGGAAGAAAGGTGCCACGGAGTTGTGGA
CTTAGAAGGAAAAGAGTACCACAGAGTTGTGGGCTTTAAAAAAGAAAAAAAAAGGTGCCACTGAG
TTGTGGACTTTAGAAGGTTGCCACTAGCT
Found at i:1213937 original size:12 final size:11
Alignment explanation
Indices: 1213920--1213975 Score: 71
Period size: 11 Copynumber: 5.1 Consensus size: 11
1213910 ATCCGGACCC
1213920 TTTTTGTTGTTT
1 TTTTTGTT-TTT
1213932 TTTTTGTTTTT
1 TTTTTGTTTTT
*
1213943 TTTGTG-TTTT
1 TTTTTGTTTTT
1213953 TTTTTGTTTTGT
1 TTTTTGTTTT-T
1213965 TTTTT-TTTTT
1 TTTTTGTTTTT
1213975 T
1 T
1213976 GCAGAGGACG
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
10 11 0.28
11 15 0.38
12 14 0.35
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (11 bp):
TTTTTGTTTTT
Found at i:1213938 original size:9 final size:9
Alignment explanation
Indices: 1213920--1213975 Score: 71
Period size: 9 Copynumber: 6.4 Consensus size: 9
1213910 ATCCGGACCC
*
1213920 TTTTTGTTG
1 TTTTTTTTG
1213929 TTTTTTTTG
1 TTTTTTTTG
1213938 TTTTTTTTG
1 TTTTTTTTG
*
1213947 TGTTTTTT-
1 TTTTTTTTG
*
1213955 TTTGTTTTG
1 TTTTTTTTG
1213964 TTTTTTTT-
1 TTTTTTTTG
1213972 TTTT
1 TTTT
1213976 GCAGAGGACG
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
8 10 0.24
9 31 0.76
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:1213945 original size:21 final size:21
Alignment explanation
Indices: 1213920--1213975 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
1213910 ATCCGGACCC
1213920 TTTTTGTTGTTTTTTTTGTTT
1 TTTTTGTTGTTTTTTTTGTTT
1213941 TTTTTG-TGTTTTTTTTTGTTT
1 TTTTTGTTG-TTTTTTTTGTTT
*
1213962 TGTTT-TT-TTTTTTT
1 TTTTTGTTGTTTTTTT
1213976 GCAGAGGACG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 7 0.22
20 2 0.06
21 23 0.72
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (21 bp):
TTTTTGTTGTTTTTTTTGTTT
Found at i:1213952 original size:17 final size:15
Alignment explanation
Indices: 1213931--1213975 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 15
1213921 TTTTGTTGTT
1213931 TTTTTTGTTTTTTTTG
1 TTTTTT-TTTTTTTTG
1213947 TGTTTTTTTTTGTTTTG
1 T-TTTTTTTTT-TTTTG
1213964 TTTTTTTTTTTT
1 TTTTTTTTTTTT
1213976 GCAGAGGACG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 2 0.07
16 14 0.52
17 11 0.41
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (15 bp):
TTTTTTTTTTTTTTG
Found at i:1213960 original size:30 final size:30
Alignment explanation
Indices: 1213920--1213976 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
1213910 ATCCGGACCC
1213920 TTTTTGTTGTTTT-TTTTGTTTTTTTTGTGT
1 TTTTTGTTGTTTTGTTTT-TTTTTTTTGTGT
*
1213950 TTTTTTTTGTTTTGTTTTTTTTTTTTG
1 TTTTTGTTGTTTTGTTTTTTTTTTTTG
1213977 CAGAGGACGC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (30 bp):
TTTTTGTTGTTTTGTTTTTTTTTTTTGTGT
Found at i:1227954 original size:13 final size:13
Alignment explanation
Indices: 1227936--1227960 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1227926 CAAAGATCAG
1227936 TGTATCGATACAA
1 TGTATCGATACAA
1227949 TGTATCGATACA
1 TGTATCGATACA
1227961 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:1228027 original size:19 final size:19
Alignment explanation
Indices: 1228003--1228087 Score: 101
Period size: 19 Copynumber: 4.7 Consensus size: 19
1227993 TAGCTTACAT
1228003 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
1228022 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
1228041 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
1228054 TGTATCGATACAACACTTTA
1 TGTATCGATACAAAAC-TTA
1228074 TGTATCGATACAAA
1 TGTATCGATACAAA
1228088 TCGTTGAAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
13 11 0.19
14 1 0.02
16 2 0.04
19 30 0.53
20 13 0.23
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:1228059 original size:13 final size:13
Alignment explanation
Indices: 1228041--1228065 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1228031 ACAACACTTA
1228041 TGTATCGATACAT
1 TGTATCGATACAT
1228054 TGTATCGATACA
1 TGTATCGATACA
1228066 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:1228063 original size:32 final size:33
Alignment explanation
Indices: 1228022--1228085 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 33
1228012 ACAAAACTTA
1228022 TGTATCGATACAACAC-TTATGTATCGATACAT
1 TGTATCGATACAACACTTTATGTATCGATACAT
1228054 TGTATCGATACAACACTTTATGTATCGATACA
1 TGTATCGATACAACACTTTATGTATCGATACA
1228086 AATCGTTGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 16 0.52
33 15 0.48
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAACACTTTATGTATCGATACAT
Found at i:1231177 original size:13 final size:13
Alignment explanation
Indices: 1231159--1231184 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1231149 ACATTTTATG
1231159 ATGTATCGATACA
1 ATGTATCGATACA
1231172 ATGTATCGATACA
1 ATGTATCGATACA
1231185 TACTGTGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1231179 original size:33 final size:32
Alignment explanation
Indices: 1231137--1231204 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 32
1231127 CGTTACAAGC
**
1231137 CAATGTATCGATACATTTTATGATGTATCGATA
1 CAATGTATCGATACATACTATG-TGTATCGATA
*
1231170 CAATGTATCGATACATACTGTGTGTATCGATA
1 CAATGTATCGATACATACTATGTGTATCGATA
1231202 CAA
1 CAA
1231205 GTTTGGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATACTATGTGTATCGATA
Found at i:1231315 original size:20 final size:20
Alignment explanation
Indices: 1231290--1231340 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
1231280 ATCAATACAA
*
1231290 TGTATCGATACAATGCAATC
1 TGTATCGATACAATGAAATC
* * *
1231310 TGTATCGATACATTTAAATG
1 TGTATCGATACAATGAAATC
1231330 TGTATCGATAC
1 TGTATCGATAC
1231341 TTTTCAGGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (20 bp):
TGTATCGATACAATGAAATC
Found at i:1231945 original size:21 final size:22
Alignment explanation
Indices: 1231919--1231962 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
1231909 TTTTCTTTTC
*
1231919 TCTCCCTCTTAATAAAA-AATT
1 TCTCCCCCTTAATAAAATAATT
*
1231940 TCTCCCCCTTAGTAAAATAATT
1 TCTCCCCCTTAATAAAATAATT
1231962 T
1 T
1231963 AACACTTTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.34, C:0.25, G:0.02, T:0.39
Consensus pattern (22 bp):
TCTCCCCCTTAATAAAATAATT
Found at i:1233830 original size:13 final size:13
Alignment explanation
Indices: 1233812--1233849 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1233802 ATAAACCCCT
*
1233812 TGTATCGATACAC
1 TGTATCGATACAA
1233825 TGTATCGATACAA
1 TGTATCGATACAA
1233838 TGTATCGATACA
1 TGTATCGATACA
1233850 GAGAATGCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1240037 original size:13 final size:13
Alignment explanation
Indices: 1240019--1240044 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1240009 ACATTTTATG
1240019 ATGTATCGATACA
1 ATGTATCGATACA
1240032 ATGTATCGATACA
1 ATGTATCGATACA
1240045 TACTGTGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1240039 original size:33 final size:32
Alignment explanation
Indices: 1239997--1240064 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 32
1239987 CGTTACAAGC
**
1239997 CAATGTATCGATACATTTTATGATGTATCGATA
1 CAATGTATCGATACATACTATG-TGTATCGATA
*
1240030 CAATGTATCGATACATACTGTGTGTATCGATA
1 CAATGTATCGATACATACTATGTGTATCGATA
1240062 CAA
1 CAA
1240065 GTTTGGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATACTATGTGTATCGATA
Found at i:1240143 original size:20 final size:21
Alignment explanation
Indices: 1240096--1240148 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
1240086 ACCAATGACT
**
1240096 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTGGTCA
*
1240117 AGTATCGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
1240137 TGTATCGATACA
1 TGTATCGATACA
1240149 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:1240154 original size:13 final size:13
Alignment explanation
Indices: 1240136--1240164 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1240126 ACATTTGGTC
1240136 ATGTATCGATACA
1 ATGTATCGATACA
1240149 ATGTATCGATACA
1 ATGTATCGATACA
1240162 ATG
1 ATG
1240165 CAATCTGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1245861 original size:17 final size:16
Alignment explanation
Indices: 1245839--1245877 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
1245829 CTCTGCTAAT
*
1245839 TTTTGTTGTCTTTTTA
1 TTTTGTTGTATTTTTA
*
1245855 GTTTTGTTTTATTTTTA
1 -TTTTGTTGTATTTTTA
1245872 TTTTGT
1 TTTTGT
1245878 AATTTTCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.08, C:0.03, G:0.13, T:0.77
Consensus pattern (16 bp):
TTTTGTTGTATTTTTA
Found at i:1248035 original size:13 final size:13
Alignment explanation
Indices: 1248017--1248042 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1248007 CAATTTTTTG
1248017 TGTATCGATACAT
1 TGTATCGATACAT
1248030 TGTATCGATACAT
1 TGTATCGATACAT
1248043 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1250607 original size:13 final size:13
Alignment explanation
Indices: 1250589--1250625 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
1250579 AATCACCCTA
1250589 TATCGATACAATG
1 TATCGATACAATG
1250602 TATCGATACAATG
1 TATCGATACAATG
1250615 TATCGATACAA
1 TATCGATACAA
1250626 AGAAAAATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.30
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:1252730 original size:15 final size:15
Alignment explanation
Indices: 1252710--1252740 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1252700 ATTTCGTTTG
*
1252710 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1252725 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1252740 G
1 G
1252741 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:1254573 original size:21 final size:21
Alignment explanation
Indices: 1254544--1254588 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1254534 AAGTTTTCAT
*
1254544 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1254564 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1254586 TTT
1 TTT
1254589 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1256821 original size:13 final size:13
Alignment explanation
Indices: 1256803--1256828 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1256793 CAATTTTTTG
1256803 TGTATCGATACAT
1 TGTATCGATACAT
1256816 TGTATCGATACAT
1 TGTATCGATACAT
1256829 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1264181 original size:21 final size:22
Alignment explanation
Indices: 1264157--1264207 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
1264147 ATCAAATCTT
* *
1264157 CTTCAAATTTCTT-ATTTTTCA
1 CTTCAAAATACTTCATTTTTCA
1264178 CTTCAAAATACTTCATTTTTCA
1 CTTCAAAATACTTCATTTTTCA
1264200 --TCAAAATA
1 CTTCAAAATA
1264208 ATCAACAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 8 0.30
21 11 0.41
22 8 0.30
ACGTcount: A:0.33, C:0.20, G:0.00, T:0.47
Consensus pattern (22 bp):
CTTCAAAATACTTCATTTTTCA
Found at i:1264524 original size:23 final size:22
Alignment explanation
Indices: 1264498--1264544 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
1264488 TTTTAACTGA
*
1264498 TTATCAAGGGAGAGAATT-TTTTT
1 TTATCAAAGG-GA-AATTGTTTTT
1264521 TTATCAAAGGGAAATTGTTTTT
1 TTATCAAAGGGAAATTGTTTTT
1264543 TT
1 TT
1264545 TAACAAGAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 4 0.18
22 9 0.41
23 9 0.41
ACGTcount: A:0.30, C:0.04, G:0.19, T:0.47
Consensus pattern (22 bp):
TTATCAAAGGGAAATTGTTTTT
Found at i:1265155 original size:19 final size:19
Alignment explanation
Indices: 1265127--1265189 Score: 67
Period size: 20 Copynumber: 3.4 Consensus size: 19
1265117 TTGTATCGAT
1265127 ATAA-TGTATCGATACATG
1 ATAACTGTATCGATACATG
* * * *
1265145 TTCATTGTATCAATACATGG
1 ATAACTGTATCGATACAT-G
1265165 ATAACTGTATCGATACATG
1 ATAACTGTATCGATACATG
1265184 A-AACTG
1 ATAACTG
1265190 GCAGTAGCTA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
18 7 0.19
19 14 0.39
20 15 0.42
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (19 bp):
ATAACTGTATCGATACATG
Found at i:1270734 original size:13 final size:13
Alignment explanation
Indices: 1270716--1270740 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1270706 CATAAAATGT
1270716 TGTATCGATACAA
1 TGTATCGATACAA
1270729 TGTATCGATACA
1 TGTATCGATACA
1270741 TTTTTTTTGT
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:1270820 original size:13 final size:13
Alignment explanation
Indices: 1270802--1270826 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1270792 ATTACTCAAA
1270802 TGTATCGATACAT
1 TGTATCGATACAT
1270815 TGTATCGATACA
1 TGTATCGATACA
1270827 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1270928 original size:52 final size:52
Alignment explanation
Indices: 1270835--1270958 Score: 196
Period size: 52 Copynumber: 2.4 Consensus size: 52
1270825 CACTGATCTT
* *
1270835 TGTATCGATACATGCAGG-TAATTTACCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
* *
1270886 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
*
1270938 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
1270959 CTTTTCATAT
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
51 18 0.27
52 49 0.73
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
Found at i:1271765 original size:19 final size:19
Alignment explanation
Indices: 1271741--1271784 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
1271731 ATTATTGTGA
1271741 TGATTTTGATGATTTGAAG
1 TGATTTTGATGATTTGAAG
1271760 TGATTTTGATGATTTGAAG
1 TGATTTTGATGATTTGAAG
*
1271779 TCATTT
1 TGATTT
1271785 GTATGCCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.25, C:0.02, G:0.23, T:0.50
Consensus pattern (19 bp):
TGATTTTGATGATTTGAAG
Found at i:1277868 original size:13 final size:13
Alignment explanation
Indices: 1277851--1277904 Score: 56
Period size: 13 Copynumber: 4.1 Consensus size: 13
1277841 TGATGAAAAA
1277851 AAAAACAAACAAAC
1 AAAAA-AAACAAAC
*
1277865 AAAAAAAACACAC
1 AAAAAAAACAAAC
*
1277878 AAAAAAAATAAA-
1 AAAAAAAACAAAC
*
1277890 AAAATAAAAAAAAC
1 AAAA-AAAACAAAC
1277904 A
1 A
1277905 CCAAAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
12 4 0.12
13 24 0.71
14 6 0.18
ACGTcount: A:0.83, C:0.13, G:0.00, T:0.04
Consensus pattern (13 bp):
AAAAAAAACAAAC
Found at i:1277868 original size:17 final size:16
Alignment explanation
Indices: 1277846--1277915 Score: 74
Period size: 17 Copynumber: 4.5 Consensus size: 16
1277836 AAAAGTGATG
1277846 AAAAAAAAAACAAACA
1 AAAAAAAAAACAAACA
*
1277862 AACAAAAAAAACACACA
1 AA-AAAAAAAACAAACA
*
1277879 AAAAAAATAA-AAA-A
1 AAAAAAAAAACAAACA
* *
1277893 ATAAAAAAAAC-ACCA
1 AAAAAAAAAACAAACA
1277908 AAAAAAAA
1 AAAAAAAA
1277916 TGCAAAGGCA
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
14 10 0.23
15 10 0.23
16 9 0.20
17 15 0.34
ACGTcount: A:0.84, C:0.13, G:0.00, T:0.03
Consensus pattern (16 bp):
AAAAAAAAAACAAACA
Found at i:1277882 original size:30 final size:29
Alignment explanation
Indices: 1277848--1277914 Score: 98
Period size: 30 Copynumber: 2.3 Consensus size: 29
1277838 AAGTGATGAA
*
1277848 AAAAAAAACAAACAAACAAAAAAAACACAC
1 AAAAAAAACAAAAAAACAAAAAAAACAC-C
* *
1277878 AAAAAAAATAAAAAAATAAAAAAAACACC
1 AAAAAAAACAAAAAAACAAAAAAAACACC
1277907 AAAAAAAA
1 AAAAAAAA
1277915 ATGCAAAGGC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 9 0.26
30 25 0.74
ACGTcount: A:0.84, C:0.13, G:0.00, T:0.03
Consensus pattern (29 bp):
AAAAAAAACAAAAAAACAAAAAAAACACC
Found at i:1278267 original size:18 final size:18
Alignment explanation
Indices: 1278234--1278268 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1278224 TAATCTTCAT
*
1278234 AAAAAAAGATGCAAAAAA
1 AAAAAAAGAAGCAAAAAA
*
1278252 AAAAAAAGAAGGAAAAA
1 AAAAAAAGAAGCAAAAA
1278269 CCCCTTTTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.80, C:0.03, G:0.14, T:0.03
Consensus pattern (18 bp):
AAAAAAAGAAGCAAAAAA
Found at i:1279250 original size:31 final size:31
Alignment explanation
Indices: 1279212--1279293 Score: 114
Period size: 30 Copynumber: 2.7 Consensus size: 31
1279202 ATACCTTTTT
1279212 AAAGTCCACGACTCAGTGGCAATCTCT-TCTC
1 AAAGTCCACGACTCAGTGGCAAT-TCTATCTC
*
1279243 AAAGTCCACGACTCAGTGGC-ATTTTATCTC
1 AAAGTCCACGACTCAGTGGCAATTCTATCTC
* *
1279273 AAAGTCCACAACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCA
1279294 CCTCCTTTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
29 2 0.04
30 24 0.52
31 20 0.43
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.24
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCAATTCTATCTC
Found at i:1279446 original size:34 final size:34
Alignment explanation
Indices: 1279273--1279654 Score: 406
Period size: 34 Copynumber: 11.3 Consensus size: 34
1279263 ATTTTATCTC
* *
1279273 AAAGTCCACAACTCCGTGGCACC----TCCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* * *
1279303 AAAGCCCACAATTCCGTGGCAGCCTATTTCTTTTC
1 AAAGCCCACAACTCCGTGGCA-CCTTTTTCTTTTT
* *
1279338 AAAGCCCACCACTCCGTGGC-CCTTTTTCTTTTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
1279371 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTC
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTTT
* *
1279408 AAAGCCCATAATTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
1279442 AAAGCCCATAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
** *
1279476 AAAATCCACAACTCCGTGGCACCTTGTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* * *
1279510 -AAGTCCACAACTCCGTGGCA---TCTTCTTTTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
1279540 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT-CTTTTT
*
1279576 AAAGCCCACAACTCCGTGGCACCTTGTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* * * **
1279610 -AAGTCCACAACTTCGTGGCATCTTTCACCTTTTCT
1 AAAGCCCACAACTCCGTGGCACCTTT-TTCTTTT-T
1279645 AAAGCCCACA
1 AAAGCCCACA
1279655 CAAGTAGGTG
Statistics
Matches: 302, Mismatches: 32, Indels: 30
0.83 0.09 0.08
Matches are distributed among these distances:
30 27 0.09
31 21 0.07
33 71 0.24
34 79 0.26
35 38 0.13
36 40 0.13
37 26 0.09
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.33
Consensus pattern (34 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
Found at i:1279673 original size:100 final size:94
Alignment explanation
Indices: 1279472--1279687 Score: 227
Period size: 100 Copynumber: 2.1 Consensus size: 94
1279462 ACCTTTTTCT
**
1279472 TTTTAAAATCCACAACTCCGTGGCACCTTGTTCTTTTTAAGTCCACAACTCCGTGGCATCTTCTT
1 TTTTAAAGCCCACAACTCCGTGGCACCTTGTTCTTTTTAAGTCCACAACTCCGTGGCATCTTCTT
* *
1279537 TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
66 TTCAAAGCCCACAACTACGTGGCA------TACCC
*
1279572 TTTTAAAGCCCACAACTCCGTGGCACCTTGTTCTTTTTAAGTCCACAACTTCGTGGCATCTTTCA
1 TTTTAAAGCCCACAACTCCGTGGCACCTTGTTCTTTTTAAGTCCACAACTCCGTGGCATC-TT--
* *
1279637 CCTTTTCTAAAGCCCACACAAGTAGGTGGCA-ACCC
63 -CTTTTC-AAAG-CC-CACAACTACGTGGCATACCC
1279672 TTCTCTAAAGCCCACA
1 TT-T-TAAAGCCCACA
1279688 CAAGTCGGTG
Statistics
Matches: 100, Mismatches: 7, Indels: 16
0.81 0.06 0.13
Matches are distributed among these distances:
100 62 0.62
101 3 0.03
102 11 0.11
104 6 0.06
105 4 0.04
106 2 0.02
107 12 0.12
ACGTcount: A:0.23, C:0.32, G:0.13, T:0.31
Consensus pattern (94 bp):
TTTTAAAGCCCACAACTCCGTGGCACCTTGTTCTTTTTAAGTCCACAACTCCGTGGCATCTTCTT
TTCAAAGCCCACAACTACGTGGCATACCC
Found at i:1279684 original size:33 final size:33
Alignment explanation
Indices: 1279637--1279708 Score: 126
Period size: 33 Copynumber: 2.2 Consensus size: 33
1279627 GCATCTTTCA
*
1279637 CCTTTTCTAAAGCCCACACAAGTAGGTGGCAAC
1 CCTTCTCTAAAGCCCACACAAGTAGGTGGCAAC
*
1279670 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAC
1 CCTTCTCTAAAGCCCACACAAGTAGGTGGCAAC
1279703 CCTTCT
1 CCTTCT
1279709 AAGCCCAATG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.26, C:0.35, G:0.17, T:0.22
Consensus pattern (33 bp):
CCTTCTCTAAAGCCCACACAAGTAGGTGGCAAC
Found at i:1279820 original size:49 final size:48
Alignment explanation
Indices: 1279708--1280395 Score: 783
Period size: 49 Copynumber: 14.8 Consensus size: 48
1279698 GCAACCCTTC
* * *
1279708 TAAGCCCAATGTAGCTGGCCTTGAATCAGTACATTGGC-A---C-CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAACTTCTCTT
* *
1279751 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCAACTTCTTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAACTTC-TCTT
* *
1279800 TAAGTCCAATGTAGCTGGCCTTGAATCAGTACATTGGC-A---C-CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAACTTCTCTT
*
1279843 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAACTTCTTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAACTTC-TCTT
*
1279892 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGC-A---C-CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAACTTCTCTT
*
1279935 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAACTTCTTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAACTTC-TCTT
*
1279984 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGC-A---C-CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAACTTCTCTT
* *
1280027 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAACTTC-TCTT
* *
1280076 TAAATCCAATATAGCTGGCCTTGACTCAGCACATTGGC-A---C-CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAACTTCTCTT
* * *
1280119 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAAC-TTCTCTT
* * *
1280168 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAACTTC-TCTT
* * *
1280217 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG-TACCTCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAACTTC-TCTT
* *
1280265 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATAGGC-A---C-CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAACTTCTCTT
* *
1280308 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAAC--TT-C-TCTT
*
1280360 TAAGTTCAA-AGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATA-TAGCTGGCCTTGAATCAGCACATTG
1280396 ACATCCTTTT
Statistics
Matches: 555, Mismatches: 48, Indels: 75
0.82 0.07 0.11
Matches are distributed among these distances:
43 225 0.41
44 3 0.01
45 5 0.01
47 4 0.01
48 48 0.09
49 233 0.42
50 1 0.00
51 1 0.00
52 35 0.06
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (48 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAACTTCTCTT
Found at i:1279864 original size:22 final size:22
Alignment explanation
Indices: 1279797--1279864 Score: 52
Period size: 22 Copynumber: 3.1 Consensus size: 22
1279787 GCAACTTCTT
*
1279797 CTTTAAGTCCAATGTAGCTGGC
1 CTTTAAGTCCAATATAGCTGGC
* * * *
1279819 CTTGAA-T-CAGTACA-TTGGCAC
1 CTTTAAGTCCAATATAGCTGG--C
1279840 CTTTAAGTCCAATATAGCTGGC
1 CTTTAAGTCCAATATAGCTGGC
1279862 CTT
1 CTT
1279865 GAATCAGCAT
Statistics
Matches: 32, Mismatches: 9, Indels: 10
0.63 0.18 0.20
Matches are distributed among these distances:
19 3 0.09
20 4 0.12
21 7 0.22
22 10 0.31
23 5 0.16
24 3 0.09
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (22 bp):
CTTTAAGTCCAATATAGCTGGC
Found at i:1279870 original size:92 final size:92
Alignment explanation
Indices: 1279708--1280404 Score: 1092
Period size: 92 Copynumber: 7.5 Consensus size: 92
1279698 GCAACCCTTC
* *
1279708 TAAGCCCAATGTAGCTGGCCTTGAATCAGTACATTGGCACCTTTAAGTCCAATATAGCTGGCCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTT
*
1279773 GAATCAGCATATTAGCAACTTCTTCTT
66 GAATCAGCATATTGGCAACTTCTTCTT
*
1279800 TAAGTCCAATGTAGCTGGCCTTGAATCAGTACATTGGCACCTTTAAGTCCAATATAGCTGGCCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTT
1279865 GAATCAGCATATTGGCAACTTCTTCTT
66 GAATCAGCATATTGGCAACTTCTTCTT
1279892 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTT
1279957 GAATCAGCATATTGGCAACTTCTTCTT
66 GAATCAGCATATTGGCAACTTCTTCTT
1279984 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTT
*
1280049 GAATCAGCATATTGGCACCTTCTTCTT
66 GAATCAGCATATTGGCAACTTCTTCTT
* * *
1280076 TAAATCCAATATAGCTGGCCTTGACTCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTT
*
1280141 GAATCAGCATATTGGCACCTT-TATCTT
66 GAATCAGCATATTGGCAACTTCT-TCTT
*
1280168 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATAGCT
* * * **
1280233 GGCCTTGAATCAGCACATTGG-TACCTCACCTT
60 GGCCTTGAATCAGCATATTGGCAACTTCTTCTT
*
1280265 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATAGGCACCTTTAAGTCCAATATAGCTGGCCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTT
* *
1280330 GAATCAGCATATTGGCACCTTTTCCATCTT
66 GAATCAGCATATTGGCAAC--TT-CTTCTT
* * *
1280360 TAAGTTCAAAGTAGCTGGCCTTGAATCAGCACATTGACATCCTTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CCTTT
1280405 TTCTCATCTT
Statistics
Matches: 566, Mismatches: 26, Indels: 22
0.92 0.04 0.04
Matches are distributed among these distances:
91 40 0.07
92 397 0.70
93 1 0.00
94 1 0.00
95 40 0.07
96 6 0.01
97 42 0.07
98 39 0.07
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (92 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTT
GAATCAGCATATTGGCAACTTCTTCTT
Found at i:1280383 original size:52 final size:53
Alignment explanation
Indices: 1280305--1280458 Score: 177
Period size: 52 Copynumber: 2.9 Consensus size: 53
1280295 ACATAGGCAC
1280305 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
* * *
1280357 CTTTAAGTTCAA-AGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATA-TAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTCTCAT
* * * * * * *
1280412 CTTCAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
1280459 ATCACTTTTC
Statistics
Matches: 84, Mismatches: 13, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
51 1 0.01
52 37 0.44
53 5 0.06
54 6 0.07
55 34 0.40
56 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
Found at i:1280516 original size:67 final size:68
Alignment explanation
Indices: 1280408--1280534 Score: 184
Period size: 67 Copynumber: 1.9 Consensus size: 68
1280398 ATCCTTTTTC
* * *
1280408 TCATCTTCAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCA-CTTTTCTCA
1 TCATCTTCAAGCCCAATATCGGTGGCCATGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
1280472 TCT
66 TCT
* * * *
1280475 TCATCTTTAAGTCCAATATTGGTGGCCTTGAATCAACATATTGGCACCTTCATCATCTTT
1 TCATCTTCAAGCCCAATATCGGTGGCCATGAATCAACATATTGGCACCTTCATCATCTTT
1280535 AAAACCCAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
67 48 0.92
68 4 0.08
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (68 bp):
TCATCTTCAAGCCCAATATCGGTGGCCATGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
TCT
Found at i:1281346 original size:13 final size:13
Alignment explanation
Indices: 1281328--1281352 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1281318 CATAAAATGT
1281328 TGTATCGATACAA
1 TGTATCGATACAA
1281341 TGTATCGATACA
1 TGTATCGATACA
1281353 TTTTTTTTGT
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:1281540 original size:52 final size:52
Alignment explanation
Indices: 1281447--1281570 Score: 196
Period size: 52 Copynumber: 2.4 Consensus size: 52
1281437 CACTGATCTT
* *
1281447 TGTAACGATACATGCAGGC-AATTTACCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
* *
1281498 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
*
1281550 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
1281571 CTTTTCATAT
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
51 18 0.27
52 49 0.73
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
Found at i:1282376 original size:19 final size:19
Alignment explanation
Indices: 1282352--1282395 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
1282342 ATTATTGTGA
1282352 TGATTTTGATGATTTGAAG
1 TGATTTTGATGATTTGAAG
1282371 TGATTTTGATGATTTGAAG
1 TGATTTTGATGATTTGAAG
*
1282390 TCATTT
1 TGATTT
1282396 GTATGCCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.25, C:0.02, G:0.23, T:0.50
Consensus pattern (19 bp):
TGATTTTGATGATTTGAAG
Found at i:1288459 original size:10 final size:10
Alignment explanation
Indices: 1288444--1288479 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
1288434 CAAACAAACA
1288444 AAAAAAATAT
1 AAAAAAATAT
*
1288454 AAAAAAAAAT
1 AAAAAAATAT
1288464 AAAAAAATA-
1 AAAAAAATAT
1288473 AAAAAAA
1 AAAAAAA
1288480 CACCCAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 7 0.29
10 17 0.71
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (10 bp):
AAAAAAATAT
Found at i:1288751 original size:11 final size:11
Alignment explanation
Indices: 1288735--1288766 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
1288725 TTCCAAACAC
1288735 AAAAAAAAAGA
1 AAAAAAAAAGA
1288746 AAAAAAAAAGA
1 AAAAAAAAAGA
1288757 AAAGAAAAAA
1 AAA-AAAAAA
1288767 ACAAAACAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.70
12 6 0.30
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:1288759 original size:16 final size:15
Alignment explanation
Indices: 1288735--1288779 Score: 63
Period size: 16 Copynumber: 2.9 Consensus size: 15
1288725 TTCCAAACAC
1288735 AAAAAAAAAGAAAAA
1 AAAAAAAAAGAAAAA
1288750 AAAAAGAAAAGAAAAA
1 AAAAA-AAAAGAAAAA
* *
1288766 AACAAAACAGAAAA
1 AAAAAAAAAGAAAA
1288780 GTTCGATAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 13 0.48
16 14 0.52
ACGTcount: A:0.87, C:0.04, G:0.09, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAGAAAAA
Found at i:1288772 original size:20 final size:21
Alignment explanation
Indices: 1288735--1288780 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
1288725 TTCCAAACAC
*
1288735 AAAAAAAAAGAAAAAAAAAAG
1 AAAAGAAAAGAAAAAAAAAAG
* *
1288756 AAAAGAAAA-AAACAAAACAG
1 AAAAGAAAAGAAAAAAAAAAG
1288776 AAAAG
1 AAAAG
1288781 TTCGATAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.85, C:0.04, G:0.11, T:0.00
Consensus pattern (21 bp):
AAAAGAAAAGAAAAAAAAAAG
Found at i:1288853 original size:17 final size:17
Alignment explanation
Indices: 1288821--1288854 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1288811 TAATCTTCAT
*
1288821 AAAAAAAGATGCAAAAA
1 AAAAAAAGAAGCAAAAA
*
1288838 AAAAAAAGAAGGAAAAA
1 AAAAAAAGAAGCAAAAA
1288855 CCCCTTTTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.79, C:0.03, G:0.15, T:0.03
Consensus pattern (17 bp):
AAAAAAAGAAGCAAAAA
Found at i:1289836 original size:31 final size:31
Alignment explanation
Indices: 1289798--1289879 Score: 114
Period size: 30 Copynumber: 2.7 Consensus size: 31
1289788 ATACCTTTTT
1289798 AAAGTCCACGACTCAGTGGCAATCTCT-TCTC
1 AAAGTCCACGACTCAGTGGCAAT-TCTATCTC
*
1289829 AAAGTCCACGACTCAGTGGC-ATTTTATCTC
1 AAAGTCCACGACTCAGTGGCAATTCTATCTC
* *
1289859 AAAGTCCACAACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCA
1289880 CCTCCTTTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
29 2 0.04
30 24 0.52
31 20 0.43
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.24
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCAATTCTATCTC
Found at i:1290032 original size:34 final size:34
Alignment explanation
Indices: 1289859--1290273 Score: 438
Period size: 33 Copynumber: 12.3 Consensus size: 34
1289849 ATTTTATCTC
* *
1289859 AAAGTCCACAACTCCGTGGCACC----TCCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* * *
1289889 AAAGCCCACAATTCCGTGGCAGCCTATTTCTTTTC
1 AAAGCCCACAACTCCGTGGCA-CCTTTTTCTTTTT
* *
1289924 AAAGCCCACCACTCCGTGGC-CCTTTTTCTTTTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* *
1289957 AAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTC
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTTT
*
1289994 AAAGCCCACAATTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
1290028 AAAGCCCATAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
** *
1290062 AAAATCCACAACTCCGTGGCACCTTGTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* *
1290096 -AAGTCCACAACTCCGTGGCACCTTGTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* * *
1290129 -AAGTCCACAACTCCGTGGCA---TCTTCTTTTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* *
1290159 AAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT-CTTTTT
*
1290195 AAAGCCCACAACTCCGTGGCACCTTGTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* * * **
1290229 -AAGTCCACAACTTCGTGGCATCTTTCACCTTTTCT
1 AAAGCCCACAACTCCGTGGCACCTTT-TTCTTTT-T
1290264 AAAGCCCACA
1 AAAGCCCACA
1290274 CAAGTAGGTG
Statistics
Matches: 331, Mismatches: 36, Indels: 30
0.83 0.09 0.08
Matches are distributed among these distances:
30 27 0.08
31 20 0.06
33 103 0.31
34 78 0.24
35 38 0.11
36 39 0.12
37 26 0.08
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.34
Consensus pattern (34 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
Found at i:1290206 original size:100 final size:100
Alignment explanation
Indices: 1289883--1290252 Score: 451
Period size: 100 Copynumber: 3.6 Consensus size: 100
1289873 CGTGGCACCT
* * * *
1289883 CCTTTTAAAGCCCACAATTCCGTGGCAGCCTAT-TTCTTTTCAAAGCCCACCACTCCGTGGCCCT
1 CCTTTTAAAGCCCACAACTCCGTGGCA-CCT-TGTTCTTTT-TAAGCCCACAACTCCGTGG--CA
*
1289947 TTTTCTTTTCAAAGCCCACAACTCTGTGGCACTCTTTTTC
61 TCTTCTTTTCAAAGCCCACAACTCTGTGGCACTCTTTTTC
* * *
1289987 CCTTTTCAAAGCCCACAATTCCGTGGCACCTTTTTCTTTTTAAAGCCCATAACTCCGTGGCACCT
1 CCTTTT-AAAGCCCACAACTCCGTGGCACCTTGTTCTTTTT-AAGCCCACAACTCCGTGGCA---
* * ** * *
1290052 TTTTCTTTTTAAAATCCACAACTCCGTGGCAC-CTTGTT-
61 TCTTCTTTTCAAAGCCCACAACTCTGTGGCACTCTTTTTC
* * *
1290090 -CTTTTTAAGTCCACAACTCCGTGGCACCTTGTTCTTTTTAAGTCCACAACTCCGTGGCATCTTC
1 CCTTTTAAAGCCCACAACTCCGTGGCACCTTGTTCTTTTTAAGCCCACAACTCCGTGGCATCTTC
1290154 TTTTCAAAGCCCACAACTCTGTGGCACTCTTTTTC
66 TTTTCAAAGCCCACAACTCTGTGGCACTCTTTTTC
* *
1290189 CCTTTTAAAGCCCACAACTCCGTGGCACCTTGTTCTTTTTAAGTCCACAACTTCGTGGCATCTT
1 CCTTTTAAAGCCCACAACTCCGTGGCACCTTGTTCTTTTTAAGCCCACAACTCCGTGGCATCTT
1290253 TCACCTTTTC
Statistics
Matches: 233, Mismatches: 24, Indels: 22
0.84 0.09 0.08
Matches are distributed among these distances:
97 27 0.12
98 5 0.02
100 78 0.33
101 30 0.13
102 6 0.03
103 1 0.00
104 37 0.16
105 49 0.21
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.35
Consensus pattern (100 bp):
CCTTTTAAAGCCCACAACTCCGTGGCACCTTGTTCTTTTTAAGCCCACAACTCCGTGGCATCTTC
TTTTCAAAGCCCACAACTCTGTGGCACTCTTTTTC
Found at i:1290270 original size:69 final size:67
Alignment explanation
Indices: 1289859--1290273 Score: 257
Period size: 68 Copynumber: 6.1 Consensus size: 67
1289849 ATTTTATCTC
* * * * * *
1289859 AAAGTCCACAACTCCGTGGCACCTCCTTTT-AAAGCCCACAATTCCGTGGCAGC-CTATT---TC
1 AAAGCCCACAACTCCGTGGCATCTTCTTTTCAAAGCCCACAACTCTGTGGCA-CTCT-TTCACCC
1289919 TTTT
64 TTTT
* * * **
1289923 CAAAGCCCACCACTCCGTGGCCCTTTTTCTTTTCAAAGCCCACAACTCTGTGGCACTCTTTTTCC
1 -AAAGCCCACAACTCCGTGG--CATCTTCTTTTCAAAGCCCACAACTCTGTGGCACTCTTTCACC
1289988 CTTTT
63 CTTTT
* * * * * **
1289993 CAAAGCCCACAATTCCGTGGCACCTTTTTCTTTTTAAAGCCCATAACTCCGTGGCAC-CTTT-TT
1 -AAAGCCCACAACTCCGTGGCA---TCTTCTTTTCAAAGCCCACAACTCTGTGGCACTCTTTCAC
*
1290056 CTTTTT
62 CCTTTT
** * * * *
1290062 AAAATCCACAACTCCGTGGCACCTTGTTCTTTT-TAAGTCCACAACTCCGTGGCAC-CTTGT---
1 AAAGCCCACAACTCCGTGGCA---TCTTCTTTTCAAAGCCCACAACTCTGTGGCACTCTT-TCAC
*
1290122 TCTTTT
62 CCTTTT
* * **
1290128 TAAGTCCACAACTCCGTGGCATCTTCTTTTCAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTT
1 AAAGCCCACAACTCCGTGGCATCTTCTTTTCAAAGCCCACAACTCTGTGGCACTCTTTCACCCTT
1290193 TT
66 TT
* * *
1290195 AAAGCCCACAACTCCGTGGCACCTTGTTCTTTT-TAAGTCCACAACT-TCGTGGCA-TCTTTCAC
1 AAAGCCCACAACTCCGTGGCA---TCTTCTTTTCAAAGCCCACAACTCT-GTGGCACTCTTTCAC
*
1290257 CTTTTCT
62 CCTTT-T
1290264 AAAGCCCACA
1 AAAGCCCACA
1290274 CAAGTAGGTG
Statistics
Matches: 288, Mismatches: 41, Indels: 38
0.78 0.11 0.10
Matches are distributed among these distances:
63 8 0.03
64 20 0.07
65 20 0.07
66 23 0.08
67 56 0.19
68 63 0.22
69 34 0.12
70 35 0.12
71 29 0.10
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.34
Consensus pattern (67 bp):
AAAGCCCACAACTCCGTGGCATCTTCTTTTCAAAGCCCACAACTCTGTGGCACTCTTTCACCCTT
TT
Found at i:1290292 original size:100 final size:94
Alignment explanation
Indices: 1289830--1290306 Score: 271
Period size: 100 Copynumber: 4.7 Consensus size: 94
1289820 TCTCTTCTCA
* * * * ** *
1289830 AAGTCCACGACTCAGTGGCAT-TT-TATCTCAAAGTCCACAACTCCGTGGCA-CCTCCTTTTAAA
1 AAGTCCACAACTCCGTGGCATCTTCT-TTTCAAAGCCCACAACTAGGTGGCATAC-CCTTTTAAA
* *
1289892 GCCCACAATTCCGTGGCAGCCTAT-TTCTTTTCA
64 GCCCACAACTCCGTGGCA-CCT-TGTTCTTTT-T
* * * * ** *
1289925 AAGCCCACCACTCCGTGGCCCTTTTTCTTTTCAAAGCCCACAACTCTGTGGCACTCTTTTTCCCT
1 AAGTCCACAACTCCGTGG--CATCTTCTTTTCAAAGCCCACAACTAGGTGGCA------TACCCT
* *
1289990 TTTCAAAGCCCACAATTCCGTGGCACCTTTTTCTTTTT
58 TTT-AAAGCCCACAACTCCGTGGCACCTTGTTCTTTTT
* * * * ** ** ***
1290028 AAAGCCCATAACTCCGTGGCACCTTTTTCTTTTTAAAATCCACAACTCCGTGGCACCTTGTTCTT
1 -AAGTCCACAACTCCGTGGCA---TCTTCTTTTCAAAGCCCACAACTAGGTGGCA---TACCCTT
* *
1290093 TTTAAGTCCACAACTCCGTGGCACCTTGTTCTTTTT
59 TTAAAGCCCACAACTCCGTGGCACCTTGTTCTTTTT
** *
1290129 AAGTCCACAACTCCGTGGCATCTTCTTTTCAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTT
1 AAGTCCACAACTCCGTGGCATCTTCTTTTCAAAGCCCACAACTAGGTGGCA------TACCCTTT
1290194 TAAAGCCCACAACTCCGTGGCACCTTGTTCTTTTT
60 TAAAGCCCACAACTCCGTGGCACCTTGTTCTTTTT
* *
1290229 AAGTCCACAACTTCGTGGCATCTTTCACCTTTTCTAAAGCCCACACAAGTAGGTGGCA-ACCCTT
1 AAGTCCACAACTCCGTGGCATC-TT---CTTTTC-AAAG-CC-CACAACTAGGTGGCATACCCTT
1290293 CTCTAAAGCCCACA
59 -T-TAAAGCCCACA
1290307 CAAGTCGGTG
Statistics
Matches: 309, Mismatches: 44, Indels: 51
0.76 0.11 0.13
Matches are distributed among these distances:
95 15 0.05
97 28 0.09
98 24 0.08
99 1 0.00
100 83 0.27
101 33 0.11
102 19 0.06
103 1 0.00
104 38 0.12
105 53 0.17
106 2 0.01
107 12 0.04
ACGTcount: A:0.22, C:0.32, G:0.13, T:0.32
Consensus pattern (94 bp):
AAGTCCACAACTCCGTGGCATCTTCTTTTCAAAGCCCACAACTAGGTGGCATACCCTTTTAAAGC
CCACAACTCCGTGGCACCTTGTTCTTTTT
Found at i:1290303 original size:33 final size:33
Alignment explanation
Indices: 1290256--1290327 Score: 126
Period size: 33 Copynumber: 2.2 Consensus size: 33
1290246 GCATCTTTCA
*
1290256 CCTTTTCTAAAGCCCACACAAGTAGGTGGCAAC
1 CCTTCTCTAAAGCCCACACAAGTAGGTGGCAAC
*
1290289 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAC
1 CCTTCTCTAAAGCCCACACAAGTAGGTGGCAAC
1290322 CCTTCT
1 CCTTCT
1290328 AAGCCCAATG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.26, C:0.35, G:0.17, T:0.22
Consensus pattern (33 bp):
CCTTCTCTAAAGCCCACACAAGTAGGTGGCAAC
Found at i:1290385 original size:43 final size:43
Alignment explanation
Indices: 1290322--1290786 Score: 516
Period size: 43 Copynumber: 10.1 Consensus size: 43
1290312 CGGTGGCAAC
* * *
1290322 CCTTCTAAGCCCAATGTAGCTGGCCTTGAATCAGTACATTGGCA
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
* *
1290366 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCAA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGC-A
*
1290410 CTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
1 ---C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
*
1290458 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
* *
1290501 CCTTCTTCTTTAAGTCCAATATAGCTGGCCTTGACTCAGCATATTGGCA
1 ----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
*
1290550 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
* *
1290593 CCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA
1 -C-----CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
*
1290642 CCTTCATCTTTAAGTCCAATATAGCTGGCCTTAAATCAGCACATTGGTACCTCA
1 ----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG-----CA
* *
1290696 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATAGGCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
*
1290739 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
1290782 CCTTT
1 CCTTT
1290787 TCCATCTTTA
Statistics
Matches: 370, Mismatches: 25, Indels: 53
0.83 0.06 0.12
Matches are distributed among these distances:
43 161 0.44
44 6 0.02
45 2 0.01
47 2 0.01
48 38 0.10
49 157 0.42
50 1 0.00
52 1 0.00
54 2 0.01
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (43 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
Found at i:1290439 original size:49 final size:48
Alignment explanation
Indices: 1290327--1290830 Score: 539
Period size: 49 Copynumber: 10.8 Consensus size: 48
1290317 GCAACCCTTC
* * *
1290327 TAAGCCCAATGTAGCTGGCCTTGAATCAGTACATTGGC-A---C-CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAACTTCTCTT
* *
1290370 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCAACTTCTTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAACTTC-TCTT
*
1290419 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGC-A---C-CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAACTTCTCTT
* *
1290462 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAACTTC-TCTT
* *
1290511 TAAGTCCAATATAGCTGGCCTTGACTCAGCATATTGGC-A---C-CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAACTTCTCTT
* * *
1290554 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAAC-TTCTCTT
* * *
1290603 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAACTTC-TCTT
* * * *
1290652 TAAGTCCAATATAGCTGGCCTTAAATCAGCACATTGG-TACCTCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAACTTC-TCTT
* *
1290700 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATAGGC-A---C-CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAACTTCTCTT
* *
1290743 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAAC--TT-C-TCTT
*
1290795 TAAGTTCAA-AGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATA-TAGCTGGCCTTGAATCAGCACATTG
1290831 ACATCCTTTT
Statistics
Matches: 395, Mismatches: 36, Indels: 51
0.82 0.07 0.11
Matches are distributed among these distances:
43 150 0.38
44 1 0.00
45 3 0.01
47 2 0.01
48 45 0.11
49 157 0.40
50 1 0.00
51 1 0.00
52 35 0.09
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (48 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAACTTCTCTT
Found at i:1290489 original size:92 final size:92
Alignment explanation
Indices: 1290327--1290839 Score: 751
Period size: 92 Copynumber: 5.5 Consensus size: 92
1290317 GCAACCCTTC
* *
1290327 TAAGCCCAATGTAGCTGGCCTTGAATCAGTACATTGGCACCTTTAAGTCCAATATAGCTGGCCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTT
* *
1290392 GAATCAGCATATTAGCAACTTCTTCTT
66 GAATCAGCATATTGGCACCTTCTTCTT
1290419 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTT
1290484 GAATCAGCATATTGGCACCTTCTTCTT
66 GAATCAGCATATTGGCACCTTCTTCTT
* * *
1290511 TAAGTCCAATATAGCTGGCCTTGACTCAGCATATTGGCACCTTTAAGTCCAATATAGCTGGCCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTT
1290576 GAATCAGCATATTGGCACCTT-TATCTT
66 GAATCAGCATATTGGCACCTTCT-TCTT
*
1290603 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATAGCT
* * * **
1290668 GGCCTTAAATCAGCACATTGGTACC-TCACCTT
60 GGCCTTGAATCAGCATATTGGCACCTTCTTCTT
*
1290700 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATAGGCACCTTTAAGTCCAATATAGCTGGCCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTT
*
1290765 GAATCAGCATATTGGCACCTTTTCCATCTT
66 GAATCAGCATATTGGCACC--TT-CTTCTT
* * *
1290795 TAAGTTCAAAGTAGCTGGCCTTGAATCAGCACATTGACATCCTTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CCTTT
1290840 TTCTCATCTT
Statistics
Matches: 384, Mismatches: 24, Indels: 22
0.89 0.06 0.05
Matches are distributed among these distances:
91 42 0.11
92 212 0.55
93 1 0.00
94 1 0.00
95 40 0.10
96 6 0.02
97 41 0.11
98 41 0.11
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (92 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTT
GAATCAGCATATTGGCACCTTCTTCTT
Found at i:1290575 original size:22 final size:22
Alignment explanation
Indices: 1290508--1290575 Score: 52
Period size: 22 Copynumber: 3.1 Consensus size: 22
1290498 GCACCTTCTT
1290508 CTTTAAGTCCAATATAGCTGGC
1 CTTTAAGTCCAATATAGCTGGC
* * ** *
1290530 C-TTGACT-CAGCATA-TTGGCAC
1 CTTTAAGTCCAATATAGCTGG--C
1290551 CTTTAAGTCCAATATAGCTGGC
1 CTTTAAGTCCAATATAGCTGGC
1290573 CTT
1 CTT
1290576 GAATCAGCAT
Statistics
Matches: 31, Mismatches: 10, Indels: 10
0.61 0.20 0.20
Matches are distributed among these distances:
19 3 0.10
20 5 0.16
21 6 0.19
22 9 0.29
23 5 0.16
24 3 0.10
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (22 bp):
CTTTAAGTCCAATATAGCTGGC
Found at i:1290818 original size:52 final size:53
Alignment explanation
Indices: 1290740--1290893 Score: 177
Period size: 52 Copynumber: 2.9 Consensus size: 53
1290730 ACATAGGCAC
1290740 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
* * *
1290792 CTTTAAGTTCAA-AGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATA-TAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTCTCAT
* * * * * * *
1290847 CTTCAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
1290894 ATCACTTTTC
Statistics
Matches: 84, Mismatches: 13, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
51 1 0.01
52 37 0.44
53 5 0.06
54 6 0.07
55 34 0.40
56 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
Found at i:1290951 original size:67 final size:68
Alignment explanation
Indices: 1290843--1290969 Score: 175
Period size: 67 Copynumber: 1.9 Consensus size: 68
1290833 ATCCTTTTTC
* * *
1290843 TCATCTTCAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCA-CTTTTCTCA
1 TCATCTTCAAGCCCAATATCGGTGGCCATGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
1290907 TCT
66 TCT
* * * * *
1290910 TCATCTTTAAGTCCAATATTGGTGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTT
1 TCATCTTCAAGCCCAATATCGGTGGCCATGAATCAACATATTGGCACCTTCATCATCTTT
1290970 AAAACCCAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
67 47 0.92
68 4 0.08
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.38
Consensus pattern (68 bp):
TCATCTTCAAGCCCAATATCGGTGGCCATGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
TCT
Found at i:1291867 original size:13 final size:13
Alignment explanation
Indices: 1291849--1291873 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1291839 ATTACTCAAA
1291849 TGTATCGATACAT
1 TGTATCGATACAT
1291862 TGTATCGATACA
1 TGTATCGATACA
1291874 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1291975 original size:52 final size:52
Alignment explanation
Indices: 1291882--1292005 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 52
1291872 CACTGATCTT
*
1291882 TGTATCGATACATGCAGGC-AATTTACCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
* *
1291933 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
*
1291985 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
1292006 CTTTTCATAT
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
51 19 0.28
52 49 0.72
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
Found at i:1295319 original size:21 final size:20
Alignment explanation
Indices: 1295272--1295325 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
1295262 CATTTGTAAC
* * *
1295272 ATGTATTGATATATTCACTG
1 ATGTATCGATACATTCACTA
1295292 ATGTATCGATACATTCACTA
1 ATGTATCGATACATTCACTA
*
1295312 ATTGTATCAATACA
1 A-TGTATCGATACA
1295326 AATTGTAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 18 0.62
21 11 0.38
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTCACTA
Found at i:1302814 original size:13 final size:13
Alignment explanation
Indices: 1302791--1302854 Score: 52
Period size: 13 Copynumber: 5.5 Consensus size: 13
1302781 ATACATAGAG
1302791 ACATT-TATCGAT
1 ACATTGTATCGAT
1302803 ACATTGTATCGAT
1 ACATTGTATCGAT
1302816 ACA----A-C-AT
1 ACATTGTATCGAT
* *
1302823 TCCTTGTATCGAT
1 ACATTGTATCGAT
1302836 ACATTGTATCGAT
1 ACATTGTATCGAT
*
1302849 ATATTG
1 ACATTG
1302855 GGTACTATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 13
0.69 0.09 0.22
Matches are distributed among these distances:
7 3 0.08
8 1 0.03
9 1 0.03
11 1 0.03
12 6 0.15
13 28 0.70
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.39
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:1302816 original size:33 final size:33
Alignment explanation
Indices: 1302774--1302849 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 33
1302764 TTTTCCAGAA
*
1302774 TGTATCGATACATAGAGACATT-TATCGATACAT
1 TGTATCGATACA-ACAGACATTGTATCGATACAT
** *
1302807 TGTATCGATACAACATTCCTTGTATCGATACAT
1 TGTATCGATACAACAGACATTGTATCGATACAT
1302840 TGTATCGATA
1 TGTATCGATA
1302850 TATTGGGTAC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
32 5 0.13
33 33 0.87
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (33 bp):
TGTATCGATACAACAGACATTGTATCGATACAT
Found at i:1304962 original size:13 final size:13
Alignment explanation
Indices: 1304941--1304971 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1304931 CGATACATGG
*
1304941 TACAATGTATCGA
1 TACATTGTATCGA
1304954 TACATTGTATCGA
1 TACATTGTATCGA
1304967 TACAT
1 TACAT
1304972 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:1304967 original size:33 final size:32
Alignment explanation
Indices: 1304925--1304991 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 32
1304915 CTATCACTAT
1304925 TTGTATCGATACATG-GTACAATGTATCGATACA
1 TTGTATCGATACATGAG-A-AATGTATCGATACA
1304958 TTGTATCGATACATGAAGAAATGTATCGATACA
1 TTGTATCGATACATG-AGAAATGTATCGATACA
1304991 T
1 T
1304992 AGCTTGTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (32 bp):
TTGTATCGATACATGAGAAATGTATCGATACA
Found at i:1308223 original size:49 final size:48
Alignment explanation
Indices: 1308135--1308732 Score: 612
Period size: 49 Copynumber: 12.4 Consensus size: 48
1308125 TTCAATAATG
* *
1308135 TGGCACCTTGTCTTTAAGTCCAATATCACTGGCCTTGAATCAGCATAT
1 TGGCACCTTGTCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
** *
1308183 TGGCACCTTGTCTTTAAAACCCAATGTCGCTGGCCTTGAATCAGCACAT
1 TGGCACCTTGTCTTT-AAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* *
1308232 TGGCA---------TAAGCCCAATATCGCTGGCCTTGAATCAGCATAT
1 TGGCACCTTGTCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* * * *
1308271 TGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAACGCAT
1 TGGCACCTTGTCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* *
1308319 TGACA-C----CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
1 TGGCACCTTGTCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* * * *
1308362 TGGCACTTTTGTCTTTAAGACCAATGTCACTGGCCTTGAATCAGCACAT
1 TGGCAC-CTTGTCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* * *
1308411 TGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
1 TGGCACCTT-GTCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* * *
1308460 TGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCTTCAATCAGCACAT
1 TGGCACC-TTG---TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* **
1308512 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATGT
1 TGGCACCTT-GTCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* *
1308561 TGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
1 TGGCACC-TTG---TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* * *
1308613 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAC
1 TGGCACCTT-GTCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* * *
1308662 TGGCGCCTTTGTCATCTTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACAT
1 TGGCACC-TTG---TC-TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
*
1308715 TGGCACCTTCATCTTTAA
1 TGGCACCTT-GTCTTTAA
1308733 CATTCCTAAG
Statistics
Matches: 455, Mismatches: 62, Indels: 65
0.78 0.11 0.11
Matches are distributed among these distances:
39 35 0.08
40 1 0.00
43 36 0.08
47 1 0.00
48 50 0.11
49 196 0.43
50 8 0.02
51 4 0.01
52 86 0.19
53 38 0.08
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.32
Consensus pattern (48 bp):
TGGCACCTTGTCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
Found at i:1308256 original size:39 final size:40
Alignment explanation
Indices: 1308202--1308366 Score: 143
Period size: 43 Copynumber: 3.9 Consensus size: 40
1308192 GTCTTTAAAA
*
1308202 CCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-TAAG
1 CCCAATATCGCTGGCCTTGAATCAGCACATTGGCATTAAG
*
1308241 CCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAG
1 CCCAATATCGCTGGCCTTGAATCAGCACATTGGCA--------TTAAG
* * * * *
1308289 ACCAATGTCGCTGGCCTTGAATCAACGCATTGACACCTTTAAG
1 CCCAATATCGCTGGCCTTGAATCAGCACATTGGCA---TTAAG
* *
1308332 TCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
1 CCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
1308367 CTTTTGTCTT
Statistics
Matches: 102, Mismatches: 15, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
39 33 0.32
43 36 0.35
48 33 0.32
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.27
Consensus pattern (40 bp):
CCCAATATCGCTGGCCTTGAATCAGCACATTGGCATTAAG
Found at i:1308524 original size:101 final size:101
Alignment explanation
Indices: 1308237--1308732 Score: 757
Period size: 101 Copynumber: 5.0 Consensus size: 101
1308227 CACATTGGCA
* * *
1308237 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTG---TCTTTAAGACCAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
* * *
1308298 GCTGGCCTTGAATCAACGCATT-G-A----CACCTT
66 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1308328 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC-ACTTT-T-GTCTTTAAGACCAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
* *
1308390 ACTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
66 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1308426 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
*
1308491 GCTGGCCTTCAATCAGCACATTGGCACCTTCATCTT
66 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1308527 TAAGTCCAATATCGCTGGCCTTGAATCAGCATGTTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
1308592 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
66 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1308628 TAAGTCCAATATCGCTGGCCTTGAATCAGCATACTGGCGCCTTTGTCATCTTTTAAGTCCAATGT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATC-TTTAAGTCCAATGT
*
1308693 TGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
65 CGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1308730 TAA
1 TAA
1308733 CATTCCTAAG
Statistics
Matches: 375, Mismatches: 17, Indels: 15
0.92 0.04 0.04
Matches are distributed among these distances:
90 1 0.00
91 39 0.10
92 36 0.10
93 1 0.00
94 1 0.00
98 43 0.11
99 4 0.01
100 1 0.00
101 196 0.52
102 53 0.14
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.32
Consensus pattern (101 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:1308625 original size:150 final size:150
Alignment explanation
Indices: 1308237--1308723 Score: 568
Period size: 150 Copynumber: 3.3 Consensus size: 150
1308227 CACATTGGCA
* * *
1308237 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTG---TCTTTAAGACCAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
* * *
1308298 GCTGGCCTTGAATCAACGCATT-G-A----CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
66 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
* **
1308357 CATATTGGCACTTTTGTCTT
131 CATATTGGCACCTTCATCTT
* * * * * * *
1308377 TAAGACCAATGTCACTGGCCTTGAATCAGCACATT-G-GCATCT-TCATCTTTAAGTCCAATATC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
* * * *
1308439 GCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCTTCAAT
66 GCTGGCCTTGAATCAGCACATTGGCACC--T-TCATCTTTAAGTCCAATATCGCTGGCCTTGAAT
*
1308504 CAGCACATTGGCACCTTCATCTT
128 CAGCATATTGGCACCTTCATCTT
*
1308527 TAAGTCCAATATCGCTGGCCTTGAATCAGCATGTTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
1308592 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
66 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
* *
1308657 CATACTGGCGCCTTTGTCATCTTT
131 CATATTGGCACC--T-TCATC-TT
* * * *
1308681 TAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTT
1308724 CATCTTTAAC
Statistics
Matches: 287, Mismatches: 40, Indels: 26
0.81 0.11 0.07
Matches are distributed among these distances:
138 1 0.00
139 2 0.01
140 31 0.11
141 34 0.12
142 1 0.00
150 121 0.42
151 2 0.01
152 5 0.02
153 50 0.17
154 40 0.14
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (150 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
CATATTGGCACCTTCATCTT
Found at i:1309610 original size:13 final size:13
Alignment explanation
Indices: 1309592--1309618 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1309582 TTTTAACAAT
1309592 TTGTATCGATACA
1 TTGTATCGATACA
1309605 TTGTATCGATACA
1 TTGTATCGATACA
1309618 T
1 T
1309619 AAGTGTTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1309689 original size:20 final size:20
Alignment explanation
Indices: 1309664--1309702 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1309654 TACTGCCAAG
*
1309664 GAAATGTATTGATACATTAA
1 GAAATGTATCGATACATTAA
1309684 GAAATGTATCGATACATTA
1 GAAATGTATCGATACATTA
1309703 TATCGATACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (20 bp):
GAAATGTATCGATACATTAA
Found at i:1318006 original size:31 final size:30
Alignment explanation
Indices: 1317960--1318167 Score: 174
Period size: 31 Copynumber: 6.9 Consensus size: 30
1317950 CTTCAAATAC
*
1317960 CTTCTTAAAGTCCACGACTCAGTGGCACTCT
1 CTTCTCAAAGTCCACGACTCAGTGGCA-TCT
*
1317991 CTTCTCAAAGCCCACGACTCAGTGGCAT-T
1 CTTCTCAAAGTCCACGACTCAGTGGCATCT
* *
1318020 TTGTCCCAAAGTCCACGACTCAGTGGCAATCT
1 CT-TCTCAAAGTCCACGACTCAGTGGC-ATCT
* *
1318052 CTTTTCAAAGTCCACGACTCAGGGGCAT-T
1 CTTCTCAAAGTCCACGACTCAGTGGCATCT
* * *
1318081 TTGTCCCAAAGTACACGACTCAGTGGCATCT
1 CT-TCTCAAAGTCCACGACTCAGTGGCATCT
* * * *
1318112 TTTATTCAAAGCCCACAACTTC-GTGGCA-CT
1 CTT-CTCAAAGTCCACGAC-TCAGTGGCATCT
* * * *
1318142 CTT-TTAAAGCCCACAACTCTGTGGCA
1 CTTCTCAAAGTCCACGACTCAGTGGCA
1318168 CCTTTTTCTT
Statistics
Matches: 148, Mismatches: 21, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
27 2 0.01
28 19 0.13
29 4 0.03
30 52 0.35
31 67 0.45
32 4 0.03
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (30 bp):
CTTCTCAAAGTCCACGACTCAGTGGCATCT
Found at i:1318036 original size:30 final size:30
Alignment explanation
Indices: 1317966--1318114 Score: 178
Period size: 30 Copynumber: 4.9 Consensus size: 30
1317956 ATACCTTCTT
* *
1317966 AAAGTCCACGACTCAGTGGCACTCTCTTCTC
1 AAAGTCCACGACTCAGTGGCA-TCTTTTCCC
*
1317997 AAAGCCCACGACTCAGTGGCAT-TTTGTCCC
1 AAAGTCCACGACTCAGTGGCATCTTT-TCCC
*
1318027 AAAGTCCACGACTCAGTGGCAATCTCTTT-TC
1 AAAGTCCACGACTCAGTGGC-ATCT-TTTCCC
*
1318058 AAAGTCCACGACTCAGGGGCAT-TTTGTCCC
1 AAAGTCCACGACTCAGTGGCATCTTT-TCCC
*
1318088 AAAGTACACGACTCAGTGGCATCTTTT
1 AAAGTCCACGACTCAGTGGCATCTTTT
1318115 ATTCAAAGCC
Statistics
Matches: 102, Mismatches: 9, Indels: 15
0.81 0.07 0.12
Matches are distributed among these distances:
28 2 0.02
29 4 0.04
30 47 0.46
31 45 0.44
32 2 0.02
33 2 0.02
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (30 bp):
AAAGTCCACGACTCAGTGGCATCTTTTCCC
Found at i:1318061 original size:61 final size:61
Alignment explanation
Indices: 1317966--1318127 Score: 254
Period size: 61 Copynumber: 2.7 Consensus size: 61
1317956 ATACCTTCTT
* * *
1317966 AAAGTCCACGACTCAGTGGCACTCTCTTCTCAAAGCCCACGACTCAGTGGCATTTTGTCCC
1 AAAGTCCACGACTCAGTGGCAATCTCTTTTCAAAGCCCACGACTCAGGGGCATTTTGTCCC
*
1318027 AAAGTCCACGACTCAGTGGCAATCTCTTTTCAAAGTCCACGACTCAGGGGCATTTTGTCCC
1 AAAGTCCACGACTCAGTGGCAATCTCTTTTCAAAGCCCACGACTCAGGGGCATTTTGTCCC
* *
1318088 AAAGTACACGACTCAGTGGC-ATCTTTTATTCAAAGCCCAC
1 AAAGTCCACGACTCAGTGGCAATCTCTT-TTCAAAGCCCAC
1318128 AACTTCGTGG
Statistics
Matches: 93, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
60 6 0.06
61 87 0.94
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (61 bp):
AAAGTCCACGACTCAGTGGCAATCTCTTTTCAAAGCCCACGACTCAGGGGCATTTTGTCCC
Found at i:1318153 original size:28 final size:27
Alignment explanation
Indices: 1318119--1318173 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 27
1318109 TCTTTTATTC
1318119 AAAGCCCACAACT-TCGTGGCACTCTTTT
1 AAAGCCCACAACTCT-GTGGCAC-CTTTT
1318147 AAAGCCCACAACTCTGTGGCACCTTTT
1 AAAGCCCACAACTCTGTGGCACCTTTT
1318174 TCTTTTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
27 5 0.19
28 20 0.77
29 1 0.04
ACGTcount: A:0.25, C:0.33, G:0.15, T:0.27
Consensus pattern (27 bp):
AAAGCCCACAACTCTGTGGCACCTTTT
Found at i:1318174 original size:28 final size:28
Alignment explanation
Indices: 1318119--1318233 Score: 83
Period size: 28 Copynumber: 3.9 Consensus size: 28
1318109 TCTTTTATTC
1318119 AAAGCCCACAACT-TCGTGGCA-CTCTTTT
1 AAAGCCCACAACTCT-GTGGCACCT-TTTT
1318147 AAAGCCCACAACTCTGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCTGTGGCA-C-----CTTTTT
* * *
1318181 AAAGCCTATAACTCTGTGGCACCCTTTT
1 AAAGCCCACAACTCTGTGGCACCTTTTT
* * *
1318209 -AAGTCCACAACTCCGTGGCATCTTT
1 AAAGCCCACAACTCTGTGGCACCTTT
1318234 CTCCTTTGCA
Statistics
Matches: 70, Mismatches: 9, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
27 19 0.27
28 24 0.34
29 1 0.01
33 1 0.01
34 23 0.33
35 2 0.03
ACGTcount: A:0.23, C:0.30, G:0.14, T:0.32
Consensus pattern (28 bp):
AAAGCCCACAACTCTGTGGCACCTTTTT
Found at i:1318183 original size:34 final size:34
Alignment explanation
Indices: 1318143--1318208 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
1318133 CGTGGCACTC
*
1318143 TTTTAAAGCCCACAACTCTGTGGCACCTTTTTCT
1 TTTTAAAGCCCACAACTCTGTGGCACCCTTTTCT
* *
1318177 TTTTAAAGCCTATAACTCTGTGGCACCCTTTT
1 TTTTAAAGCCCACAACTCTGTGGCACCCTTTT
1318209 AAGTCCACAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.21, C:0.27, G:0.12, T:0.39
Consensus pattern (34 bp):
TTTTAAAGCCCACAACTCTGTGGCACCCTTTTCT
Found at i:1318361 original size:49 final size:49
Alignment explanation
Indices: 1318301--1318532 Score: 280
Period size: 49 Copynumber: 4.8 Consensus size: 49
1318291 GGCATCTTCT
* *
1318301 TTTAAGCCCAATATCGCTGGCCTTGAATCAGCATGTTGGCACCTTTGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
* * *
1318350 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C-----C
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
* *
1318393 TTTAAGTCCAATATCGCTGCCCTTGAATCAGCATATTGGCACCTTCGTCACC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGT---C
1318445 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
** * *
1318493 TTTAAAACCCAATGTCGCTGGCCTTGAATCAGCACATTGG
1 TTT-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
1318533 TCCAATATCG
Statistics
Matches: 159, Mismatches: 14, Indels: 20
0.82 0.07 0.10
Matches are distributed among these distances:
43 38 0.24
44 1 0.01
48 5 0.03
49 69 0.43
51 3 0.02
52 43 0.27
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (49 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
Found at i:1318469 original size:52 final size:51
Alignment explanation
Indices: 1318380--1318532 Score: 204
Period size: 52 Copynumber: 3.0 Consensus size: 51
1318370 CCTTGAATCA
* * *
1318380 GCACATTGGCACCTTTAAGTCCAATATCGCTGCCCTTGAATCAGCATATTG
1 GCACCTTGTCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
1318431 GCACCTTCGTCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
1 GCACCTT-GTCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
** * *
1318483 GCACCTTGT---CTTTAAAACCCAATGTCGCTGGCCTTGAATCAGCACATTG
1 GCACCTTGTCACCTTT-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
1318532 G
1 G
1318533 TCCAATATCG
Statistics
Matches: 93, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
48 4 0.04
49 32 0.34
51 8 0.09
52 49 0.53
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.29
Consensus pattern (51 bp):
GCACCTTGTCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
Found at i:1318544 original size:33 final size:33
Alignment explanation
Indices: 1318501--1318565 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
1318491 TCTTTAAAAC
*
1318501 CCAATGTCGCTGGCCTTGAATCAGCACATTGGT
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGT
*
1318534 CCAATATCGCTGGCCTTGAATCAGCATATTGG
1 CCAATATCGCTGGCCTTGAATCAGCACATTGG
1318566 CACCTTGTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (33 bp):
CCAATATCGCTGGCCTTGAATCAGCACATTGGT
Found at i:1318587 original size:82 final size:82
Alignment explanation
Indices: 1318450--1318791 Score: 416
Period size: 82 Copynumber: 4.0 Consensus size: 82
1318440 TCACCTTTAA
1318450 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAAACCCAATGTCGCTGGC
1 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAAA-CCAATGTCGCTGGC
1318515 CTTGAATCAGCACATT-G
65 CTTGAATCAGCACATTAG
* *
1318532 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTCAAAACCCAATGTCGATGGC
1 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAAA-CCAATGTCGCTGGC
* *
1318597 CTTGAATTAGCACATTGG
65 CTTGAATCAGCACATTAG
* * * *
1318615 CGTAAGCCTAATATCGTTGGCCTCGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGT
1 -GT---CC-AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAAACCAATGTCGC
*
1318680 TGGCCTTGAATCAGCGCACTGGCACCTTTAA
61 TGGCCTTGAATCA--GCA----CA---TTAG
* * *
1318711 GTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCATTTTCTTTAAGACCAATGTCGCTGGC
1 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGTCTTTAAAACCAATGTCGCTGGC
1318776 CTTGAATCAGCACATT
65 CTTGAATCAGCACATT
1318792 GGCATCTTCA
Statistics
Matches: 230, Mismatches: 14, Indels: 31
0.84 0.05 0.11
Matches are distributed among these distances:
82 78 0.34
83 3 0.01
84 2 0.01
86 2 0.01
87 23 0.10
88 42 0.18
89 3 0.01
90 3 0.01
91 33 0.14
92 35 0.15
93 2 0.01
95 2 0.01
96 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.30
Consensus pattern (82 bp):
GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAAACCAATGTCGCTGGCC
TTGAATCAGCACATTAG
Found at i:1318597 original size:49 final size:48
Alignment explanation
Indices: 1318532--1319111 Score: 526
Period size: 49 Copynumber: 12.0 Consensus size: 48
1318522 CAGCACATTG
*
1318532 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTCAAA
1 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTT-TAA
** * * * *
1318581 ACCCAATGTCGATGGCCTTGAATTAGCACATTGG---C--G----TAA
1 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAA
* *
1318620 G-CCTAATATCGTTGGCCTCGAATCAGCATATTGGCACCTTGTCTTTAA
1 GTCC-AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAA
* * * ** *
1318668 GACCAATGTCGTTGGCCTTGAATCAGCGCACTGGCA-C----CTTTAA
1 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAA
* *
1318711 GTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCATTTTCTTTAA
1 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGTCTTTAA
* * * * *
1318760 GACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAA
1 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCTTTAA
*
1318809 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAA
1 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTG---TCTTTAA
* * * *
1318861 GTCCAATGTCGCTGGCCTTCAATCAGCACATTGGCACCTTCATCTTTAA
1 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCTTTAA
*
1318910 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATTTGTCATCTTTAA
1 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC-CTTG---TCTTTAA
* * * *
1318962 AT-CAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAA
1 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCTTTAA
* * *
1319010 GTCCAATATCCCTGGCCTTGAATTAGCATATTGGCGCCTTTGTCATCTTTTAA
1 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTG---TC-TTTAA
* * *
1319063 GTCCAATATCGCTGGCCTTGAATCAGAACATTGGCACCTTCATCTTTAA
1 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCTTTAA
1319112 CATTCCTAAG
Statistics
Matches: 433, Mismatches: 63, Indels: 70
0.77 0.11 0.12
Matches are distributed among these distances:
38 2 0.00
39 27 0.06
42 1 0.00
43 37 0.09
44 3 0.01
46 1 0.00
47 1 0.00
48 41 0.09
49 185 0.43
50 10 0.02
51 34 0.08
52 53 0.12
53 38 0.09
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (48 bp):
GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAA
Found at i:1318895 original size:101 final size:101
Alignment explanation
Indices: 1318624--1319111 Score: 698
Period size: 101 Copynumber: 5.0 Consensus size: 101
1318614 GCGTAAGCCT
* * * *
1318624 AATATCGTTGGCCTCGAATCAGCATATTGGCACC-TTG---TCTTTAAGACCAATGTCGTTGGCC
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCCAATGTCGCTGGCC
* *
1318685 TTGAATCAGCGCACTGGCA----C--CTTTAAGTCC
66 TTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
* * *
1318715 AATATCGTTGGCCTTGAATCAGCATATTGGCACCATT-T--TCTTTAAGACCAATGTCGCTGGCC
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCCAATGTCGCTGGCC
*
1318777 TTGAATCAGCACATTGGCATCTTCATCTTTAAGTCC
66 TTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
*
1318813 AATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCTGGCC
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCCAATGTCGCTGGCC
*
1318878 TTCAATCAGCACATTGGCACCTTCATCTTTAAGTCC
66 TTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
* *
1318914 AATATCGCTGGCCTTGAATCAGCATATTGGCACATTTGTCATCTTTAAAT-CAATGTCGCTGGCC
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCCAATGTCGCTGGCC
1318978 TTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
66 TTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
* * * *
1319014 AATATCCCTGGCCTTGAATTAGCATATTGGCGCCTTTGTCATCTTTTAAGTCCAATATCGCTGGC
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATC-TTTAAGTCCAATGTCGCTGGC
*
1319079 CTTGAATCAGAACATTGGCACCTTCATCTTTAA
65 CTTGAATCAGCACATTGGCACCTTCATCTTTAA
1319112 CATTCCTAAG
Statistics
Matches: 363, Mismatches: 21, Indels: 15
0.91 0.05 0.04
Matches are distributed among these distances:
91 33 0.09
92 42 0.12
96 1 0.00
98 44 0.12
99 1 0.00
100 88 0.24
101 110 0.30
102 44 0.12
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.33
Consensus pattern (101 bp):
AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCCAATGTCGCTGGCC
TTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
Found at i:1319006 original size:201 final size:198
Alignment explanation
Indices: 1318532--1319111 Score: 738
Period size: 201 Copynumber: 3.0 Consensus size: 198
1318522 CAGCACATTG
* ** *
1318532 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCT-TCAAAACCCAATGTCGATGG
1 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATTGTCTCTTTAAA-CCAATGTCGCTGG
* * * *
1318596 CCTTGAATTAGCACATTGG--------C-GTAAG-CCTAATATCGTTGGCCTCGAATCAGCATAT
65 CCTTGAATCAGCACATTGGCACTTCATCTTTAAGTCC-AATATCGCTGGCCTTGAATCAGCATAT
* * * * *
1318651 TGGCACC-TTG---TCTTTAAGACCAATGTCGTTGGCCTTGAATCAGCGCACTGGCA----C--C
129 TGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
1318706 TTTAA
194 TTTAA
*
1318711 GTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCATT-T-TCTTTAAGACCAATGTCGCTG
1 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CATTGTCTCTTTAA-ACCAATGTCGCTG
1318774 GCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
64 GCCTTGAATCAGCACATTGGCA-CTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
*
1318839 TTGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCTTCAATCAGCACATTGGCACCTTCAT
128 TTGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
1318904 CTTTAA
193 CTTTAA
*
1318910 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATTTGTCATCTTTAAATCAATGTCGCTG
1 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACA-TTGTC-TCTTTAAACCAATGTCGCTG
* *
1318975 GCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCCCTGGCCTTGAATTAGCATA
64 GCCTTGAATCAGCACATTGGCA-CTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
* *
1319040 TTGGCGCCTTTGTCATCTTTTAAGTCCAATATCGCTGGCCTTGAATCAGAACATTGGCACCTTCA
128 TTGGCGCCTTTGTCATC-TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
1319105 TCTTTAA
192 TCTTTAA
1319112 CATTCCTAAG
Statistics
Matches: 349, Mismatches: 23, Indels: 35
0.86 0.06 0.09
Matches are distributed among these distances:
178 1 0.00
179 69 0.20
180 4 0.01
188 1 0.00
189 35 0.10
190 5 0.01
193 38 0.11
197 1 0.00
198 2 0.01
199 43 0.12
200 1 0.00
201 91 0.26
202 58 0.17
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (198 bp):
GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATTGTCTCTTTAAACCAATGTCGCTGGC
CTTGAATCAGCACATTGGCACTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
GCGCCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
TAA
Found at i:1319968 original size:13 final size:13
Alignment explanation
Indices: 1319950--1319976 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1319940 TTTCAACAAT
1319950 TTGTATCGATACA
1 TTGTATCGATACA
1319963 TTGTATCGATACA
1 TTGTATCGATACA
1319976 T
1 T
1319977 AAGTGTTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1320051 original size:20 final size:20
Alignment explanation
Indices: 1320026--1320078 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
1320016 GCCAAGGAAA
1320026 TGTATCGATACATGAATCTT
1 TGTATCGATACATGAATCTT
*
1320046 TGTATCGATACATGGATCTT
1 TGTATCGATACATGAATCTT
1320066 TGTATCGATACAT
1 TGTATCGATACAT
1320079 ATGGAAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (20 bp):
TGTATCGATACATGAATCTT
Found at i:1321139 original size:13 final size:13
Alignment explanation
Indices: 1321121--1321145 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1321111 CATAAAGTGT
1321121 TGTATCGATACAA
1 TGTATCGATACAA
1321134 TGTATCGATACA
1 TGTATCGATACA
1321146 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1321144 original size:33 final size:33
Alignment explanation
Indices: 1321101--1321167 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
1321091 TTCAACGATT
*
1321101 TGTATTGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
1321134 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
1321167 T
1 T
1321168 TTAAGCTACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:1321226 original size:13 final size:13
Alignment explanation
Indices: 1321208--1321232 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1321198 ATTACTCAAA
1321208 TGTATCGATACAT
1 TGTATCGATACAT
1321221 TGTATCGATACA
1 TGTATCGATACA
1321233 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1321297 original size:52 final size:52
Alignment explanation
Indices: 1321241--1321369 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
1321231 CACTGATCTT
*
1321241 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* **
1321293 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATTGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1321345 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1321370 TCATATTTCG
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:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1334635 original size:28 final size:28
Alignment explanation
Indices: 1334579--1334655 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
1334569 GGAATAAAGC
*** *
1334579 CGAGGTTGGAGTATCCCCTCGGAAGTAA
1 CGAGGTTGGAGTATCCCCGATGAAATAA
*
1334607 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGAGGTTGGAGTATCCCCGATGAAATAA
* *
1334635 CGAGGTTGGAGCATCCTCGAT
1 CGAGGTTGGAGTATCCCCGAT
1334656 TGTGAAAATT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.25, C:0.21, G:0.32, T:0.22
Consensus pattern (28 bp):
CGAGGTTGGAGTATCCCCGATGAAATAA
Found at i:1336883 original size:13 final size:13
Alignment explanation
Indices: 1336865--1336890 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1336855 ACAAAGATCC
1336865 ATGTATCGATACA
1 ATGTATCGATACA
1336878 ATGTATCGATACA
1 ATGTATCGATACA
1336891 CAAAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1336954 original size:19 final size:18
Alignment explanation
Indices: 1336930--1336997 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
1336920 CAGTAGCTAA
1336930 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
1336949 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
1336964 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
1336981 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
1336998 TCGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:1336970 original size:13 final size:13
Alignment explanation
Indices: 1336952--1336976 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1336942 ACAATACTTA
1336952 TGTATCGATACAT
1 TGTATCGATACAT
1336965 TGTATCGATACA
1 TGTATCGATACA
1336977 AAACTTATGT
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:1336974 original size:32 final size:32
Alignment explanation
Indices: 1336933--1336995 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1336923 TAGCTAATTA
*
1336933 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
1336965 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
1336996 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:1337076 original size:20 final size:20
Alignment explanation
Indices: 1337033--1337175 Score: 198
Period size: 20 Copynumber: 7.0 Consensus size: 20
1337023 GTTGGGACCC
1337033 TGTATCGATACATTTGTAGAA
1 TGTATCGATACATTTGT-GAA
1337054 TGTATCGATACATTTGTGAA
1 TGTATCGATACATTTGTGAA
1337074 TGTATCGATACATTTGTGAA
1 TGTATCGATACATTTGTGAA
***
1337094 TGTATCGATACATTCTACAAA
1 TGTATCGATACATT-TGTGAA
1337115 TGTATCGATACATTTGTGAA
1 TGTATCGATACATTTGTGAA
***
1337135 TGTATCGATACATTCTACAAA
1 TGTATCGATACATT-TGTGAA
1337156 TGTATCGATACATTTG-GAA
1 TGTATCGATACATTTGTGAA
1337175 T
1 T
1337176 TTTTTTTTTT
Statistics
Matches: 109, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
19 3 0.03
20 55 0.50
21 51 0.47
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATTTGTGAA
Found at i:1337090 original size:41 final size:41
Alignment explanation
Indices: 1337033--1337175 Score: 236
Period size: 41 Copynumber: 3.5 Consensus size: 41
1337023 GTTGGGACCC
***
1337033 TGTATCGATACATTTGTAGAATGTATCGATACATT-TGTGAA
1 TGTATCGATACATTTGT-GAATGTATCGATACATTCTACAAA
1337074 TGTATCGATACATTTGTGAATGTATCGATACATTCTACAAA
1 TGTATCGATACATTTGTGAATGTATCGATACATTCTACAAA
1337115 TGTATCGATACATTTGTGAATGTATCGATACATTCTACAAA
1 TGTATCGATACATTTGTGAATGTATCGATACATTCTACAAA
1337156 TGTATCGATACATTTG-GAAT
1 TGTATCGATACATTTGTGAAT
1337176 TTTTTTTTTT
Statistics
Matches: 98, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
40 21 0.21
41 77 0.79
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.38
Consensus pattern (41 bp):
TGTATCGATACATTTGTGAATGTATCGATACATTCTACAAA
Found at i:1337128 original size:61 final size:61
Alignment explanation
Indices: 1337033--1337169 Score: 204
Period size: 61 Copynumber: 2.2 Consensus size: 61
1337023 GTTGGGACCC
* * ***
1337033 TGTATCGATACATTTGTAGAATGTATCGATACATTTGTGAATGTATCGATACATT-TGTGAA
1 TGTATCGATACA-TTCTAAAATGTATCGATACATTTGTGAATGTATCGATACATTCTACAAA
1337094 TGTATCGATACATTCTACAAATGTATCGATACATTTGTGAATGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTA-AAATGTATCGATACATTTGTGAATGTATCGATACATTCTACAAA
1337156 TGTATCGATACATT
1 TGTATCGATACATT
1337170 TGGAATTTTT
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
60 4 0.06
61 48 0.70
62 17 0.25
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (61 bp):
TGTATCGATACATTCTAAAATGTATCGATACATTTGTGAATGTATCGATACATTCTACAAA
Found at i:1337877 original size:55 final size:55
Alignment explanation
Indices: 1337782--1338249 Score: 599
Period size: 55 Copynumber: 8.4 Consensus size: 55
1337772 ATAAACTGTA
* * * * * *
1337782 TCCTTCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1337837 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* * * **
1337892 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACCTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTG
* * *
1337953 TCCTGCTCTTTGAGGACTGAAAA-ATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1338008 TCCTGCTCTTTGAGGACTGGAAAA--TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT--AAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * *
1338063 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1338118 TCCTGCTCTTTGAGGACTGGAAAA--TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT--AAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
1338173 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1338228 TCCTGCTCTTTGAGGACTAAAA
1 TCCTGCTCTTTGAGGACTAAAA
1338250 AGCGGAAGGA
Statistics
Matches: 367, Mismatches: 29, Indels: 34
0.85 0.07 0.08
Matches are distributed among these distances:
53 6 0.02
54 4 0.01
55 297 0.81
56 7 0.02
57 5 0.01
60 4 0.01
61 41 0.11
62 3 0.01
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
Found at i:1338076 original size:26 final size:26
Alignment explanation
Indices: 1338047--1338129 Score: 60
Period size: 26 Copynumber: 3.1 Consensus size: 26
1338037 CCAACTTGTG
1338047 TGGGCTTTGAAAGGTGTCCTGCTCTT
1 TGGGCTTTGAAAGGTGTCCTGCTCTT
*** ** *
1338073 TGGGGACTGAAAGGTG-CCACCAACTTGT
1 TGGGCTTTGAAAGGTGTCCTGC-TC-T-T
*
1338101 GTGGGCTTTAAAAGGTGTCCTGCTCTT
1 -TGGGCTTTGAAAGGTGTCCTGCTCTT
1338128 TG
1 TG
1338130 AGGACTGGAA
Statistics
Matches: 39, Mismatches: 13, Indels: 10
0.63 0.21 0.16
Matches are distributed among these distances:
25 3 0.08
26 16 0.41
27 2 0.05
28 2 0.05
29 13 0.33
30 3 0.08
ACGTcount: A:0.17, C:0.19, G:0.31, T:0.33
Consensus pattern (26 bp):
TGGGCTTTGAAAGGTGTCCTGCTCTT
Done.