Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold468
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: 1127621
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 7
Found at i:131241 original size:33 final size:33
Alignment explanation
Indices: 131199--131268 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
131189 GGCAGTAGCT
131199 TACATTGTATCGATACAAAAAAATATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
* ***
131232 TACATTGTATCGATACAACATTTTATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
131265 TACA
1 TACA
131269 AATCGTTGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.34
Consensus pattern (33 bp):
TACATTGTATCGATACAAAAAAATATGTATCGA
Found at i:131242 original size:13 final size:13
Alignment explanation
Indices: 131224--131248 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
131214 CAAAAAAATA
131224 TGTATCGATACAT
1 TGTATCGATACAT
131237 TGTATCGATACA
1 TGTATCGATACA
131249 ACATTTTATG
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:132186 original size:67 final size:68
Alignment explanation
Indices: 132060--132186 Score: 159
Period size: 67 Copynumber: 1.9 Consensus size: 68
132050 ATTGGGTTTT
* * *
132060 AAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATG
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
132125 AGA
66 AGA
* * * * *
132128 AAAG-TGATAAAGATGCTAATATGTTGATTCACA-GCCAACGATATTGGGCTTAATGATGA
1 AAAGATGATAAAGATGCCAATATGCTGATTCA-AGGCCAACAATATTGGACTTAAAGATGA
132187 GAAAAAGGAT
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
67 45 0.90
68 5 0.10
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.25
Consensus pattern (68 bp):
AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
AGA
Found at i:132290 original size:22 final size:21
Alignment explanation
Indices: 132265--132333 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 21
132255 ATGCTGATTC
132265 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTA-ATTGGACTTA
* *
132287 AAGG--TGCTAATGTGCTGA-TTC
1 AAGGCCAGCTAAT-TG--GACTTA
132308 AAGGCCAGCTACATTGGACTTA
1 AAGGCCAGCTA-ATTGGACTTA
132330 AAGG
1 AAGG
132334 TGAGGTGCCA
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
19 2 0.06
20 6 0.17
21 8 0.22
22 12 0.33
23 6 0.17
24 2 0.06
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (21 bp):
AAGGCCAGCTAATTGGACTTA
Found at i:132317 original size:43 final size:43
Alignment explanation
Indices: 132247--132789 Score: 609
Period size: 43 Copynumber: 11.8 Consensus size: 43
132237 GATGGAAAAT
132247 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
* * *
132290 GTGCTAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA----AG
* *
132338 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAG
* * * *
132387 GTGCCAATGTGCTGAGTCAAGGCCAACTACATTGGACGTAAAGATAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----TAAAG
132436 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAG
*
132485 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
*
132528 GTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAG
*
132577 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
* *
132620 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
*
132663 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
* *
132706 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAG
*
132755 GTGCCAATATGATGATTCAAGGCCAGCTATATTGG
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGG
132790 GGTTAGAAGG
Statistics
Matches: 438, Mismatches: 28, Indels: 62
0.83 0.05 0.12
Matches are distributed among these distances:
43 196 0.45
44 2 0.00
45 2 0.00
47 3 0.01
48 41 0.09
49 189 0.43
50 1 0.00
51 2 0.00
53 1 0.00
55 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (43 bp):
GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
Found at i:132408 original size:49 final size:49
Alignment explanation
Indices: 132199--132789 Score: 722
Period size: 49 Copynumber: 12.6 Consensus size: 49
132189 AAAAGGATGT
* * *
132199 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGGTGC
*
132251 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* * *
132294 TAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
*
132342 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* * * * *
132391 CAATGTGCTGAGTCAAGGCCAACTACATTGGACGTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
*
132440 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* *
132489 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
132532 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* *
132581 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
*
132624 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* *
132667 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
*
132710 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* *
132759 CAATATGATGATTCAAGGCCAGCTATATTGG
1 CAATGTGCTGATTCAAGGCCAGCTATATTGG
132790 GGTTAGAAGG
Statistics
Matches: 483, Mismatches: 37, Indels: 41
0.86 0.07 0.07
Matches are distributed among these distances:
43 197 0.41
45 2 0.00
47 2 0.00
48 47 0.10
49 203 0.42
52 32 0.07
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.26
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
Found at i:132577 original size:92 final size:92
Alignment explanation
Indices: 132247--132789 Score: 759
Period size: 92 Copynumber: 5.9 Consensus size: 92
132237 GATGGAAAAT
* * * *
132247 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCTAATGTGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGAT
* *
132306 TCAAGGCCAGCTACATTGGACTTAAAGGTGAG
66 TCAAGGCCAGCGATATTGGACTT-AA----AG
* *
132338 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGAT
* * *
132403 TCAAGGCCAACTACATTGGACGTAAAGATAAAG
66 TCAAGGCCAGCGATATTGGAC-T-----TAAAG
* *
132436 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGAT
132501 TCAAGGCCAGCGATATTGGACTTAAAG
66 TCAAGGCCAGCGATATTGGACTTAAAG
*
132528 GTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGAT
132593 TCAAGGCCAGCGATATTGGACTTAAAG
66 TCAAGGCCAGCGATATTGGACTTAAAG
132620 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT----A--AAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGAT
132679 TCAAGGCCAGCGATATTGGACTTAAAG
66 TCAAGGCCAGCGATATTGGACTTAAAG
*
132706 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGATGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGAT
*
132771 TCAAGGCCAGCTATATTGG
66 TCAAGGCCAGCGATATTGG
132790 GGTTAGAAGG
Statistics
Matches: 418, Mismatches: 16, Indels: 35
0.89 0.03 0.07
Matches are distributed among these distances:
86 85 0.20
88 1 0.00
90 1 0.00
91 37 0.09
92 170 0.41
95 1 0.00
97 38 0.09
98 82 0.20
102 2 0.00
103 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (92 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGAT
TCAAGGCCAGCGATATTGGACTTAAAG
Found at i:132836 original size:33 final size:32
Alignment explanation
Indices: 132794--132914 Score: 181
Period size: 33 Copynumber: 3.7 Consensus size: 32
132784 TATTGGGGTT
132794 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTAG
*
132827 AGAATGGTTGCCACCGACTTGTGTCGGCTTT-G
1 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTAG
132859 AGAAAGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AG-AAGGTTGCCACCGACTTGTGTGGGCTTTAG
*
132892 AAGAAGGTTGCCACTGACTTGTG
1 -AGAAGGTTGCCACCGACTTGTG
132915 GACTTAAAAG
Statistics
Matches: 81, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
32 28 0.35
33 51 0.63
34 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.28
Consensus pattern (32 bp):
AGAAGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:132993 original size:35 final size:33
Alignment explanation
Indices: 132912--132993 Score: 94
Period size: 35 Copynumber: 2.4 Consensus size: 33
132902 CCACTGACTT
*
132912 GTGGACTTAAAAGGAAAAGAGTGCCACGTAGTT
1 GTGGACTTAAAAGGAAAAGAGTGCCACGTAGTC
* * *
132945 GTGGGCTTTAAAGGAAAAAAGGGTGCCACAG-AGTC
1 GTGGACTTAAAAGG--AAAAGAGTGCCAC-GTAGTC
132980 GTGGACTTAAAAGG
1 GTGGACTTAAAAGG
132994 GTGCCACAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
33 12 0.30
35 27 0.68
36 1 0.03
ACGTcount: A:0.35, C:0.12, G:0.33, T:0.20
Consensus pattern (33 bp):
GTGGACTTAAAAGGAAAAGAGTGCCACGTAGTC
Found at i:132999 original size:27 final size:27
Alignment explanation
Indices: 132961--133472 Score: 190
Period size: 27 Copynumber: 17.1 Consensus size: 27
132951 TTTAAAGGAA
*
132961 AAAAGGGTGCCACAGAGTCGTGGACTT
1 AAAAGGGTGCCACAGAGTTGTGGACTT
*
132988 AAAAGGGTGCCACAGAGTTGTGGGCTT
1 AAAAGGGTGCCACAGAGTTGTGGACTT
* *
133015 AAACGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACAGAGTTGTGGACTT
* * *
133042 AGAAGGAAAACGAGTGCCACAAAGTTGTGGGCTTT
1 ------AAAA-GGGTGCCACAGAGTTGTGGAC-TT
133077 AAAAGGGTGCCAC-GAAGTTGTGGACTTT
1 AAAAGGGTGCCACAG-AGTTGTGGAC-TT
*
133105 GATGAGAA-GGTGCCACTGAGTTGTGGACTT
1 -A--A-AAGGGTGCCACAGAGTTGTGGACTT
* *
133135 AAAAGGGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACAGAGTTGTGGACTT
* * * *
133162 AAACGGGAAAAGAGTGCCACGGAGCTGTGGGCTT
1 -------AAAAGGGTGCCACAGAGTTGTGGACTT
* * *
133196 AGAAGGAAAACGAGTGCCACAAAGTTGTGGGCTTT
1 ------AAAA-GGGTGCCACAGAGTTGTGGAC-TT
**
133231 AAAATTGTGCCAC-GAAGTTGTGGACTTT
1 AAAAGGGTGCCACAG-AGTTGTGGAC-TT
*
133259 GATGAGAA-GGTGCCACTGAGTTGTGGACTT
1 -A--A-AAGGGTGCCACAGAGTTGTGGACTT
* *
133289 AAAAGGGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACAGAGTTGTGGACTT
* * * *
133316 AAACGGGAAAAGAGTGCCACGGAGCTGTGGGCTT
1 -------AAAAGGGTGCCACAGAGTTGTGGACTT
* * *
133350 AGAAGGAAAACGAGTGCCACAAAGTTGTGGGCTTT
1 ------AAAA-GGGTGCCACAGAGTTGTGGAC-TT
133385 AAAAGGGTGCCAC-GAAGTTGTGGACTTT
1 AAAAGGGTGCCACAG-AGTTGTGGAC-TT
*
133413 GATGAGAA-GGTGCCACTGAGTTGTGGACTT
1 -A--A-AAGGGTGCCACAGAGTTGTGGACTT
* *
133443 AAAAGGGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACAGAGTTGTGGACTT
133470 AAA
1 AAA
133473 CGGGAAAAGA
Statistics
Matches: 395, Mismatches: 43, Indels: 94
0.74 0.08 0.18
Matches are distributed among these distances:
26 6 0.02
27 115 0.29
28 59 0.15
29 18 0.05
30 6 0.02
31 56 0.14
32 9 0.02
33 17 0.04
34 103 0.26
35 6 0.02
ACGTcount: A:0.28, C:0.15, G:0.35, T:0.22
Consensus pattern (27 bp):
AAAAGGGTGCCACAGAGTTGTGGACTT
Found at i:133059 original size:34 final size:31
Alignment explanation
Indices: 132922--133538 Score: 292
Period size: 34 Copynumber: 20.0 Consensus size: 31
132912 GTGGACTTAA
*
132922 AAGGAAAAGAGTGCCACGTAGTTGTGGGCTTT
1 AAGGAAAAGAGTGCCACGGAGTTGTGGGC-TT
* * * *
132954 AAAGGAAAAAAGGGTGCCACAGAGTCGTGGACTT
1 -AAGG--AAAAGAGTGCCACGGAGTTGTGGGCTT
* *
132988 ----AAAAGGGTGCCACAGAGTTGTGGGCTT
1 AAGGAAAAGAGTGCCACGGAGTTGTGGGCTT
* * *
133015 ----AAACGGGTGCCACGGAGTTGTGGACTT
1 AAGGAAAAGAGTGCCACGGAGTTGTGGGCTT
**
133042 AGAAGGAAAACGAGTGCCACAAAGTTGTGGGCTT
1 --AAGGAAAA-GAGTGCCACGGAGTTGTGGGCTT
* * * *
133076 ---TAAAAGGGTGCCACGAAGTTGTGGACTTT
1 AAGGAAAAGAGTGCCACGGAGTTGTGGGC-TT
* * * * *
133105 GATGAGAAG-GTGCCACTGAGTTGTGGACTT
1 AAGGAAAAGAGTGCCACGGAGTTGTGGGCTT
*
133135 ----AAAAGGGTGCCACGGAGTTGTGGGCTT
1 AAGGAAAAGAGTGCCACGGAGTTGTGGGCTT
*
133162 AAACGGGAAAAGAGTGCCACGGAGCTGTGGGCTT
1 -AA--GGAAAAGAGTGCCACGGAGTTGTGGGCTT
**
133196 AGAAGGAAAACGAGTGCCACAAAGTTGTGGGCTT
1 --AAGGAAAA-GAGTGCCACGGAGTTGTGGGCTT
* ** * *
133230 ---TAAAATTGTGCCACGAAGTTGTGGACTTT
1 AAGGAAAAGAGTGCCACGGAGTTGTGGGC-TT
* * * * *
133259 GATGAGAAG-GTGCCACTGAGTTGTGGACTT
1 AAGGAAAAGAGTGCCACGGAGTTGTGGGCTT
*
133289 ----AAAAGGGTGCCACGGAGTTGTGGGCTT
1 AAGGAAAAGAGTGCCACGGAGTTGTGGGCTT
*
133316 AAACGGGAAAAGAGTGCCACGGAGCTGTGGGCTT
1 -AA--GGAAAAGAGTGCCACGGAGTTGTGGGCTT
**
133350 AGAAGGAAAACGAGTGCCACAAAGTTGTGGGCTT
1 --AAGGAAAA-GAGTGCCACGGAGTTGTGGGCTT
* * * *
133384 ---TAAAAGGGTGCCACGAAGTTGTGGACTTT
1 AAGGAAAAGAGTGCCACGGAGTTGTGGGC-TT
* * * * *
133413 GATGAGAAG-GTGCCACTGAGTTGTGGACTT
1 AAGGAAAAGAGTGCCACGGAGTTGTGGGCTT
*
133443 ----AAAAGGGTGCCACGGAGTTGTGGGCTT
1 AAGGAAAAGAGTGCCACGGAGTTGTGGGCTT
133470 AAACGGGAAAAGAGTGCCACGGAGTTGTGGGCTTT
1 -AA--GGAAAAGAGTGCCACGGAGTTGTGGGC-TT
*
133505 AAAAAGAAAA-AGGTGCCACGGAGTTGTGGGCTT
1 --AAGGAAAAGA-GTGCCACGGAGTTGTGGGCTT
133538 A
1 A
133539 GAAGGGTGCC
Statistics
Matches: 468, Mismatches: 64, Indels: 106
0.73 0.10 0.17
Matches are distributed among these distances:
26 12 0.03
27 106 0.23
28 53 0.11
29 18 0.04
30 6 0.01
31 52 0.11
32 11 0.02
33 22 0.05
34 159 0.34
35 26 0.06
36 3 0.01
ACGTcount: A:0.29, C:0.15, G:0.35, T:0.22
Consensus pattern (31 bp):
AAGGAAAAGAGTGCCACGGAGTTGTGGGCTT
Found at i:133079 original size:89 final size:89
Alignment explanation
Indices: 132932--133099 Score: 225
Period size: 89 Copynumber: 1.9 Consensus size: 89
132922 AAGGAAAAGA
* * * *
132932 GTGCCACGTAGTTGTGGGCTTTAAAGGAAAAAAGGGTGCCACAGAGTCGTGGACTTAAAAGGGTG
1 GTGCCACGGAGTTGTGGACTTTAAAGGAAAAAAGAGTGCCACAAAGTCGTGGACTTAAAAGGGTG
132997 CCAC-AGAGTTGTGGGCTTAAACGG
66 CCACGA-AGTTGTGGGCTTAAACGG
* * *
133021 GTGCCACGGAGTTGTGGAC-TTAGAAGG-AAAACGAGTGCCACAAAGTTGTGGGCTTTAAAAGGG
1 GTGCCACGGAGTTGTGGACTTTA-AAGGAAAAAAGAGTGCCACAAAGTCGTGGAC-TTAAAAGGG
133084 TGCCACGAAGTTGTGG
64 TGCCACGAAGTTGTGG
133100 ACTTTGATGA
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
88 24 0.35
89 44 0.64
90 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.35, T:0.21
Consensus pattern (89 bp):
GTGCCACGGAGTTGTGGACTTTAAAGGAAAAAAGAGTGCCACAAAGTCGTGGACTTAAAAGGGTG
CCACGAAGTTGTGGGCTTAAACGG
Found at i:133143 original size:120 final size:115
Alignment explanation
Indices: 132895--133195 Score: 320
Period size: 120 Copynumber: 2.5 Consensus size: 115
132885 GCTTTAGAAG
* * * *
132895 AAGGTTGCCACTGACTTGTGGACTTAAAAGGAAAAGAGTGCCACGTAGTTGTGGGCTTTAAAGGA
1 AAGGGTGCCACGGAGTTGTGGACTT-AAAGGAAAAGAGTGCCACGAAGTTGTGGGCTTT------
*
132960 AAAAAGGGTGCCACAGAGTCGTGGACTTAAAAGGGTGCCACAGAGTTGTGGGCTTAA
59 AAAAAGGGTGCCACAGAGTCGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAA
* *
133017 ACGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAACGAGTGCCACAAAGTTGTGGGCTTT-AAAA
1 AAGGGTGCCACGGAGTTGTGGACTTA-AAGGAAAA-GAGTGCCACGAAGTTGTGGGCTTTAAAAA
* *
133081 GGGTGCCAC-GAAGTTGTGGACTTTGATGAGAA-GGTGCCACTGAGTTGTGGACTTAA
64 GGGTGCCACAG-AGTCGTGGAC-TT-A--A-AAGGGTGCCACAGAGTTGTGGACTTAA
* * *
133137 AAGGGTGCCACGGAGTTGTGGGCTTAAACGGGAAAAGAGTGCCACGGAGCTGTGGGCTT
1 AAGGGTGCCACGGAGTTGTGGACTTAAA--GGAAAAGAGTGCCACGAAGTTGTGGGCTT
133196 AGAAGGAAAA
Statistics
Matches: 155, Mismatches: 14, Indels: 22
0.81 0.07 0.12
Matches are distributed among these distances:
115 1 0.01
116 22 0.14
117 2 0.01
118 1 0.01
119 2 0.01
120 67 0.43
121 9 0.06
122 29 0.19
123 22 0.14
ACGTcount: A:0.28, C:0.15, G:0.35, T:0.22
Consensus pattern (115 bp):
AAGGGTGCCACGGAGTTGTGGACTTAAAGGAAAAGAGTGCCACGAAGTTGTGGGCTTTAAAAAGG
GTGCCACAGAGTCGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAA
Found at i:133225 original size:154 final size:154
Alignment explanation
Indices: 132966--133595 Score: 999
Period size: 154 Copynumber: 4.1 Consensus size: 154
132956 AGGAAAAAAG
* * *
132966 GGTGCCACAGAGTCGTGGACTTAAAAGGGTGCCACAGAGTTGTGGGCTTAAAC--G----G-GTG
1 GGTGCCACTGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGGCTTAAACGGGAAAAGAGTG
* *
133024 CCACGGAGTTGTGGACTTAGAAGGAAAACGAGTGCCACAAAGTTGTGGGCTTTAAAAGGGTGCCA
66 CCACGGAGCTGTGGGCTTAGAAGGAAAACGAGTGCCACAAAGTTGTGGGCTTTAAAAGGGTGCCA
133089 CGAAGTTGTGGACTTTGATGAGAA
131 CGAAGTTGTGGACTTTGATGAGAA
133113 GGTGCCACTGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGGCTTAAACGGGAAAAGAGTG
1 GGTGCCACTGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGGCTTAAACGGGAAAAGAGTG
**
133178 CCACGGAGCTGTGGGCTTAGAAGGAAAACGAGTGCCACAAAGTTGTGGGCTTTAAAATTGTGCCA
66 CCACGGAGCTGTGGGCTTAGAAGGAAAACGAGTGCCACAAAGTTGTGGGCTTTAAAAGGGTGCCA
133243 CGAAGTTGTGGACTTTGATGAGAA
131 CGAAGTTGTGGACTTTGATGAGAA
133267 GGTGCCACTGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGGCTTAAACGGGAAAAGAGTG
1 GGTGCCACTGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGGCTTAAACGGGAAAAGAGTG
133332 CCACGGAGCTGTGGGCTTAGAAGGAAAACGAGTGCCACAAAGTTGTGGGCTTTAAAAGGGTGCCA
66 CCACGGAGCTGTGGGCTTAGAAGGAAAACGAGTGCCACAAAGTTGTGGGCTTTAAAAGGGTGCCA
133397 CGAAGTTGTGGACTTTGATGAGAA
131 CGAAGTTGTGGACTTTGATGAGAA
133421 GGTGCCACTGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGGCTTAAACGGGAAAAGAGTG
1 GGTGCCACTGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGGCTTAAACGGGAAAAGAGTG
* * * * ** *
133486 CCACGGAGTTGTGGGCTTTAAAAAGAAAAAG-GTGCCACGGAGTTGTGGGC-TTAGAAGGGTGCC
66 CCACGGAGCTGTGGGC-TTAGAAGGAAAACGAGTGCCACAAAGTTGTGGGCTTTAAAAGGGTGCC
* * * *
133549 ACGGAGTCGTGGACTTTGAAGAAAA
130 ACGAAGTTGTGGACTTTGATGAGAA
** *
133574 AATGCCACTGAGTCGTGGACTT
1 GGTGCCACTGAGTTGTGGACTT
133596 TAAGAAGGTA
Statistics
Matches: 452, Mismatches: 23, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
147 50 0.11
149 1 0.00
153 53 0.12
154 337 0.75
155 11 0.02
ACGTcount: A:0.28, C:0.15, G:0.35, T:0.22
Consensus pattern (154 bp):
GGTGCCACTGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGGCTTAAACGGGAAAAGAGTG
CCACGGAGCTGTGGGCTTAGAAGGAAAACGAGTGCCACAAAGTTGTGGGCTTTAAAAGGGTGCCA
CGAAGTTGTGGACTTTGATGAGAA
Found at i:133549 original size:27 final size:27
Alignment explanation
Indices: 133516--133569 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
133506 AAAAGAAAAA
* *
133516 GGTGCCACGGAGTTGTGGGCTTAGAAG
1 GGTGCCACGGAGTCGTGGACTTAGAAG
*
133543 GGTGCCACGGAGTCGTGGACTTTGAAG
1 GGTGCCACGGAGTCGTGGACTTAGAAG
133570 AAAAAATGCC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.19, C:0.17, G:0.43, T:0.22
Consensus pattern (27 bp):
GGTGCCACGGAGTCGTGGACTTAGAAG
Found at i:149639 original size:52 final size:52
Alignment explanation
Indices: 149491--149619 Score: 195
Period size: 52 Copynumber: 2.5 Consensus size: 52
149481 TGAAATATGA
*
149491 AAATTTGCTTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
* * * * *
149543 AAATTTGCCTGCCTGTATCGATACATTTTATAGTTTATTGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
*
149595 AAATTTGCCTGTATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
149620 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
Found at i:149646 original size:13 final size:13
Alignment explanation
Indices: 149628--149652 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
149618 CAAAGATCAG
149628 TGTATCGATACAA
1 TGTATCGATACAA
149641 TGTATCGATACA
1 TGTATCGATACA
149653 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:149731 original size:32 final size:33
Alignment explanation
Indices: 149690--149758 Score: 113
Period size: 32 Copynumber: 2.1 Consensus size: 33
149680 GGCAGTACCT
149690 TACATTGTATCGATACAAAAC-GTATGTATCGA
1 TACATTGTATCGATACAAAACTGTATGTATCGA
* *
149722 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAAAACTGTATGTATCGA
149755 TACA
1 TACA
149759 AATCGTTGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 20 0.59
33 14 0.41
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.33
Consensus pattern (33 bp):
TACATTGTATCGATACAAAACTGTATGTATCGA
Found at i:149732 original size:13 final size:13
Alignment explanation
Indices: 149714--149738 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
149704 ACAAAACGTA
149714 TGTATCGATACAT
1 TGTATCGATACAT
149727 TGTATCGATACA
1 TGTATCGATACA
149739 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:152308 original size:44 final size:42
Alignment explanation
Indices: 152196--152308 Score: 104
Period size: 44 Copynumber: 2.6 Consensus size: 42
152186 CCGTATTCAC
152196 ATTTGCATCATTTCATGTGCATTTGCTATTTTATTAATGCTTGT
1 ATTTGCATCATTTCAT-TGCATTTGCTATTTTA-TAATGCTTGT
* ** *
152240 GTTTGCATCATTTCACTTAAATTTGC-ATTTTA-GATGACATTAGT
1 ATTTGCATCATTTCA-TTGCATTTGCTATTTTATAATG-C-TT-GT
*
152284 ATTTGCATCATTGCATATGCATTTG
1 ATTTGCATCATTTCAT-TGCATTTG
152309 TCCCTTTATG
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
41 3 0.05
42 1 0.02
43 9 0.16
44 42 0.75
45 1 0.02
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.48
Consensus pattern (42 bp):
ATTTGCATCATTTCATTGCATTTGCTATTTTATAATGCTTGT
Found at i:152589 original size:88 final size:88
Alignment explanation
Indices: 152195--152591 Score: 259
Period size: 88 Copynumber: 4.5 Consensus size: 88
152185 ACCGTATTCA
* * ** *
152195 CATTTGCATCATTTCAT-GTGCATTTGCTATTTTATTAATGCTTGTGTTTGCATCATTTCACT-T
1 CATTTGCATCATTTCATAG-GCATTTGCTACTTTATTGATGCTTGTGGATGCATCATTTCA-TGC
* *
152258 AAATTTGCATTTTAGATGACATTAG
64 ACATTTGCACTTTAGATGACATTAG
* * * * * * * *
152283 TATTTGCATCATTGCATATGCATTTG-TCCCTTTATGGATGCTTAT-GATTACATCGTTTCATGC
1 CATTTGCATCATTTCATAGGCATTTGCT-ACTTTATTGATGCTTGTGGA-TGCATCATTTCATGC
** *
152346 ACATTTGCACTTTAGATGATGTTGG
64 ACATTTGCACTTTAGATGACATTAG
* * * * * * ** * *
152371 CATGTACATCATTTTATAGGTATTT-CTTACCTGATTGATGCTTACGGTTGCATCATTCCATGCA
1 CATTTGCATCATTTCATAGGCATTTGC-TACTTTATTGATGCTTGTGGATGCATCATTTCATGCA
* * * **
152435 CATCTGCACCATTAAACCACATTAG
65 CATTTGCA-CTTTAGATGACATTAG
* * * * * * * * *
152460 TATTTACACCATTTCAT-GTTCACTGGCCT-TTTTATTGATGCTTGTGGATGCATTATTGCATGC
1 CATTTGCATCATTTCATAG-GCATTTG-CTACTTTATTGATGCTTGTGGATGCATCATTTCATGC
* * *
152523 ACATTTACATTTTAGATGACATTGG
64 ACATTTGCACTTTAGATGACATTAG
*
152548 CATTTGCATCATTTCATAGGCATTTGCTACTTTATTAATGCTTG
1 CATTTGCATCATTTCATAGGCATTTGCTACTTTATTGATGCTTG
152592 CATTTGCATT
Statistics
Matches: 222, Mismatches: 74, Indels: 26
0.69 0.23 0.08
Matches are distributed among these distances:
87 4 0.02
88 156 0.70
89 60 0.27
90 1 0.00
91 1 0.00
ACGTcount: A:0.24, C:0.18, G:0.15, T:0.43
Consensus pattern (88 bp):
CATTTGCATCATTTCATAGGCATTTGCTACTTTATTGATGCTTGTGGATGCATCATTTCATGCAC
ATTTGCACTTTAGATGACATTAG
Found at i:153165 original size:59 final size:55
Alignment explanation
Indices: 153031--153171 Score: 147
Period size: 55 Copynumber: 2.5 Consensus size: 55
153021 AACTATTCTG
* * * * * *
153031 GTTTCACCTATATCATTTTTTAGGTCTTTGGTTTTATCCAAGCTATTTAGTCTTG
1 GTTTCACCTAAATCATTATTTAGGTTTTTGGTTTCATCCAAGCCATTTAGTCTTA
** * * *
153086 GTTTCAGTTAAGTCATTATTTAGGTTTTTGGTTTCATCTAAGCCATTTAGTTAAGTTCA
1 GTTTCACCTAAATCATTATTTAGGTTTTTGGTTTCATCCAAGCCATTTAG-T--CTT-A
153145 GTTTCACCTAAATCATTATTTAGGTTT
1 GTTTCACCTAAATCATTATTTAGGTTT
153172 CTTTAGGTTT
Statistics
Matches: 68, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
55 41 0.60
56 1 0.01
58 2 0.03
59 24 0.35
ACGTcount: A:0.22, C:0.14, G:0.15, T:0.49
Consensus pattern (55 bp):
GTTTCACCTAAATCATTATTTAGGTTTTTGGTTTCATCCAAGCCATTTAGTCTTA
Found at i:153599 original size:75 final size:75
Alignment explanation
Indices: 153435--154101 Score: 346
Period size: 75 Copynumber: 9.0 Consensus size: 75
153425 TATTCATCAC
* * * * * * * * *
153435 TCTTATCAATTTGTTTCGGCCT-TTAATGAAAATTTTAAAAATCACATATTTCCCATTACGATTA
1 TCTTGTCAATTTGTTT-TGACTATTAATGGAAATTTT-AGAACCACATATTTCCCATCATGATCA
*
153499 TCTTCTTCAGCC
64 TCTTCTTCAGCT
* * * *
153511 TCTTATGAGTTTGTTTTGACTATTAATGGAAATTTTAGAACCACATATTTGCCATCATGATCATC
1 TCTTGTCAATTTGTTTTGACTATTAATGGAAATTTTAGAACCACATATTTCCCATCATGATCATC
153576 TTCTTCAGCT
66 TTCTTCAGCT
* ** * * * * ** *
153586 TCTTGTCAATTTGTTTCGGTTTTTAATGAAAATTTTAGAAACTACATATTTCCTATTGTAATCAT
1 TCTTGTCAATTTGTTTTGACTATTAATGGAAATTTTAG-AACCACATATTTCCCATCATGATCAT
* * *
153651 CTTTTTCAACC
65 CTTCTTCAGCT
** * * * *
153662 TCTTGTCAATTTGTTTCAACTTTTAATCGAAATTTTAAAACCACATATTTCCCATCATGATCGTC
1 TCTTGTCAATTTGTTTTGACTATTAATGGAAATTTTAGAACCACATATTTCCCATCATGATCATC
***
153727 TTCTTTTTCT
66 TTCTTCAGCT
* * * * *
153737 TCTTGTCAATTTATTTTGATTTTTAATGGAAATTTTAAAACCACGTATTTCCCATCATGATCATC
1 TCTTGTCAATTTGTTTTGACTATTAATGGAAATTTTAGAACCACATATTTCCCATCATGATCATC
* *
153802 TTTTTCAACT
66 TTCTTCAGCT
* * * ** * *
153812 TTTTGTCAGTTTATTTTGGTTATTGATAGGAAATTATAG-A--ACATA-TT-CCAT-ACTGA-CT
1 TCTTGTCAATTTGTTTTGACTATTAAT-GGAAATTTTAGAACCACATATTTCCCATCA-TGATC-
* *
153870 AT-TT-TCCAGTT
63 ATCTTCTTCAGCT
* * * * * * * ** * * *
153881 TGTTGTTACTTT-ATTTCATCTATTGATGGGAGATCGTAGAACCACATATTTGCTATCGTGATCA
1 TCTTGTCAATTTGTTTTGA-CTATTAAT-GGAAATTTTAGAACCACATATTTCCCATCATGATCA
*
153945 TC-TATTCAGCT
64 TCTTCTTCAGCT
* * * * * * * *
153956 TTTTGTCAGTTTATTTT-AGCTATTAATGGGAAATTGTACAAATCACATATTCCCCATC--GATT
1 TCTTGTCAATTTGTTTTGA-CTATTAAT-GGAAATTTTA-GAACCACATATTTCCCATCATGATC
*
154018 ATTTTC-T-AGCT
63 ATCTTCTTCAGCT
* * * * * * * *
154029 TATTATCAGTTTGTCTTT-ACTGTTGATGGGAGATTGTAGAACCACATATTT-CCATCTTGATCA
1 TCTTGTCAATTTGT-TTTGACTATTAAT-GGAAATTTTAGAACCACATATTTCCCATCATGATCA
154092 TCTTCTTCAG
64 TCTTCTTCAG
154102 GCTATTAGTT
Statistics
Matches: 458, Mismatches: 110, Indels: 47
0.74 0.18 0.08
Matches are distributed among these distances:
68 3 0.01
69 28 0.06
70 5 0.01
71 14 0.03
72 17 0.04
73 45 0.10
74 20 0.04
75 213 0.47
76 113 0.25
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.44
Consensus pattern (75 bp):
TCTTGTCAATTTGTTTTGACTATTAATGGAAATTTTAGAACCACATATTTCCCATCATGATCATC
TTCTTCAGCT
Found at i:153717 original size:151 final size:150
Alignment explanation
Indices: 153435--153819 Score: 455
Period size: 151 Copynumber: 2.6 Consensus size: 150
153425 TATTCATCAC
* ** * * *
153435 TCTTATCAATTTGTTTCGGCCTTTAATGAAAATTTTAAAAATCACATATTTCCCATTACGATTAT
1 TCTTGTCAATTTGTTTCGGTTTTTAATGAAAATTTTAAAACT-ACATATTTCCCATTATGATCAT
* * * * * ** * * *
153500 CTTCTTCAGCCTCTTATGAGTTTGTTTTGACTATTAATGGAAATTTTAGAACCACATATTTGCCA
65 CTTTTTCAACCTCTTGTCAATTTGTTTCAACTATTAATCGAAATTTTAAAACCACATATTTCCCA
153565 TCATGATCATCTTCTTCAGCT
130 TCATGATCATCTTCTTCAGCT
* * *
153586 TCTTGTCAATTTGTTTCGGTTTTTAATGAAAATTTTAGAAACTACATATTTCCTATTGTAATCAT
1 TCTTGTCAATTTGTTTCGGTTTTTAATGAAAATTTTA-AAACTACATATTTCCCATTATGATCAT
*
153651 CTTTTTCAACCTCTTGTCAATTTGTTTCAACTTTTAATCGAAATTTTAAAACCACATATTTCCCA
65 CTTTTTCAACCTCTTGTCAATTTGTTTCAACTATTAATCGAAATTTTAAAACCACATATTTCCCA
* ***
153716 TCATGATCGTCTTCTTTTTCT
130 TCATGATCATCTTCTTCAGCT
* * * * * * *
153737 TCTTGTCAATTTATTTTGATTTTTAATGGAAATTTTAAAACCACGTATTTCCCATCATGATCATC
1 TCTTGTCAATTTGTTTCGGTTTTTAATGAAAATTTTAAAACTACATATTTCCCATTATGATCATC
* *
153802 TTTTTCAACTTTTTGTCA
66 TTTTTCAACCTCTTGTCA
153820 GTTTATTTTG
Statistics
Matches: 197, Mismatches: 36, Indels: 3
0.83 0.15 0.01
Matches are distributed among these distances:
150 38 0.19
151 155 0.79
152 4 0.02
ACGTcount: A:0.27, C:0.18, G:0.09, T:0.45
Consensus pattern (150 bp):
TCTTGTCAATTTGTTTCGGTTTTTAATGAAAATTTTAAAACTACATATTTCCCATTATGATCATC
TTTTTCAACCTCTTGTCAATTTGTTTCAACTATTAATCGAAATTTTAAAACCACATATTTCCCAT
CATGATCATCTTCTTCAGCT
Found at i:154888 original size:81 final size:80
Alignment explanation
Indices: 154771--154919 Score: 199
Period size: 81 Copynumber: 1.9 Consensus size: 80
154761 GGCCAACACC
* ** * * **
154771 TTTAATTGGTTGGCTTTATCGGTTTTGCATTGGTCAACCCCTCAAAGGTGTTGGCTTTATCAATT
1 TTTAATTGGTTGACTTTATCGGTTTCACACTAGTCAA-CCCTCAAACATGTTGGCTTTATCAATT
154836 TTGCACTAGCTTACCT
65 TTGCACTAGCTTACCT
* * *
154852 TTTAATTGGTTGACTTTATCGGTTTCACCCTAGTCAACCTTCAAACATGTTGGCTTTATCGATTT
1 TTTAATTGGTTGACTTTATCGGTTTCACACTAGTCAACCCTCAAACATGTTGGCTTTATCAATTT
154917 TGC
66 TGC
154920 CTTGACCAAC
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
80 27 0.47
81 31 0.53
ACGTcount: A:0.19, C:0.20, G:0.18, T:0.42
Consensus pattern (80 bp):
TTTAATTGGTTGACTTTATCGGTTTCACACTAGTCAACCCTCAAACATGTTGGCTTTATCAATTT
TGCACTAGCTTACCT
Found at i:154892 original size:40 final size:39
Alignment explanation
Indices: 154848--155048 Score: 93
Period size: 40 Copynumber: 5.0 Consensus size: 39
154838 GCACTAGCTT
154848 ACCTTTTAATTGGTTGACTTTATCGGTTTCACCCTAGTCA
1 ACCTTTTAATT-GTTGACTTTATCGGTTTCACCCTAGTCA
** * * * ** * *
154888 ACCTTCAAACATGTTGGCTTTATCGATTT-TGCCTTGACCA
1 ACCTTTTAA-TTGTTGACTTTATCGGTTTCACCCTAG-TCA
* * * * *
154928 ACCTTCTAATTAGTTAATTTTATCAGTTTCA-CCTAATCA
1 ACCTTTTAATT-GTTGACTTTATCGGTTTCACCCTAGTCA
* * * * * *
154967 GCCTTTCTAACCTGTT-AGCTTTATTGGTTTCATCCTGGCCA
1 ACCTTT-TAA-TTGTTGA-CTTTATCGGTTTCACCCTAGTCA
** *
155008 ACCTCTTTAATTGGTTGACTTTATTAGTTTCACCTTAGTCA
1 ACCT-TTTAATT-GTTGACTTTATCGGTTTCACCCTAGTCA
155049 GCCCTTCTAA
Statistics
Matches: 114, Mismatches: 36, Indels: 21
0.67 0.21 0.12
Matches are distributed among these distances:
39 12 0.11
40 65 0.57
41 34 0.30
42 3 0.03
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.42
Consensus pattern (39 bp):
ACCTTTTAATTGTTGACTTTATCGGTTTCACCCTAGTCA
Found at i:154917 original size:80 final size:80
Alignment explanation
Indices: 154819--155114 Score: 242
Period size: 80 Copynumber: 3.7 Consensus size: 80
154809 CCCTCAAAGG
* ** *
154819 TGTTGGCTTTATCAATTTTGCACTAGCTTACCTTTTAATTGGTTGACTTTATCGGTTTCACCCTA
1 TGTTGGCTTTATCGATTTTGCACTAGCCAACCTTTTAATTGGTTGACTTTATCAGTTTCACCCTA
*
154884 GTCAACCTTCAAACA
66 GTCAACCTTCAAACC
* * * * *
154899 TGTTGGCTTTATCGATTTTGC-CTTGACCAACCTTCTAATTAGTTAATTTTATCAGTTTCA-CCT
1 TGTTGGCTTTATCGATTTTGCACTAG-CCAACCTTTTAATTGGTTGACTTTATCAGTTTCACCCT
* * *
154962 AATCAGCCTTTCTAACC
65 AGTCAACC-TTCAAACC
* * * * *
154979 TGTTAGCTTTATTG-GTTT-CATCCTGGCCAACCTCTTTAATTGGTTGACTTTATTAGTTTCACC
1 TGTTGGCTTTATCGATTTTGCA--CTAGCCAACCT-TTTAATTGGTTGACTTTATCAGTTTCACC
* * *
155042 TTAGTCAGCCCTTCTAACC
63 CTAGTCA-ACCTTCAAACC
* * * * * *
155061 TATTGCCTTTATCGATTTTGC-CTTGGCCAACCCCTCTAATTTGTTGACTTTATC
1 TGTTGGCTTTATCGATTTTGCAC-TAGCCAA-CCTTTTAATTGGTTGACTTTATC
155115 GATTTTGCCT
Statistics
Matches: 170, Mismatches: 34, Indels: 22
0.75 0.15 0.10
Matches are distributed among these distances:
78 1 0.01
79 15 0.09
80 72 0.42
81 26 0.15
82 48 0.28
83 7 0.04
84 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.43
Consensus pattern (80 bp):
TGTTGGCTTTATCGATTTTGCACTAGCCAACCTTTTAATTGGTTGACTTTATCAGTTTCACCCTA
GTCAACCTTCAAACC
Found at i:155071 original size:82 final size:80
Alignment explanation
Indices: 154848--155147 Score: 268
Period size: 82 Copynumber: 3.7 Consensus size: 80
154838 GCACTAGCTT
* * * * * * *
154848 ACCTTTTAATTGGTTGACTTTATCGGTTTCACCCTAGTCA-ACCTTCAAACATGTTGGCTTTATC
1 ACCTTCTAATTGGTTGACTTTATCAGTTTCACCTTAGTCAGCCCTTCTAACCTATT-GCTTTATC
*
154912 GATTTTGCCTTGACCA
65 GATTTTGCCTTGGCCA
* * * * * * *
154928 ACCTTCTAATTAGTTAATTTTATCAGTTTCACC-TAATCAGCCTTTCTAACCTGTTAGCTTTATT
1 ACCTTCTAATTGGTTGACTTTATCAGTTTCACCTTAGTCAGCCCTTCTAACCTATT-GCTTTATC
*
154992 GGTTTCAT-CC-TGGCCA
65 GATTT--TGCCTTGGCCA
* *
155008 ACCTCTTTAATTGGTTGACTTTATTAGTTTCACCTTAGTCAGCCCTTCTAACCTATTGCCTTTAT
1 ACCT-TCTAATTGGTTGACTTTATCAGTTTCACCTTAGTCAGCCCTTCTAACCTATTG-CTTTAT
155073 CGATTTTGCCTTGGCCA
64 CGATTTTGCCTTGGCCA
* * ** * * *
155090 ACCCCTCTAATTTGTTGACTTTATC-GATTTTGCCTTAGTCAACCCCTCTAACTTATTG
1 A-CCTTCTAATTGGTTGACTTTATCAG-TTTCACCTTAGTCAGCCCTTCTAACCTATTG
155148 GTACATATGG
Statistics
Matches: 177, Mismatches: 33, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
79 5 0.03
80 60 0.34
81 30 0.17
82 80 0.45
83 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.13, T:0.42
Consensus pattern (80 bp):
ACCTTCTAATTGGTTGACTTTATCAGTTTCACCTTAGTCAGCCCTTCTAACCTATTGCTTTATCG
ATTTTGCCTTGGCCA
Found at i:155099 original size:41 final size:41
Alignment explanation
Indices: 155040--155147 Score: 135
Period size: 41 Copynumber: 2.6 Consensus size: 41
155030 ATTAGTTTCA
* * * * *
155040 CCTTAGTCAGCCCTTCTAACCTATTGCCTTTATCGATTTTG
1 CCTTAGCCAACCCCTCTAACTTATTGACTTTATCGATTTTG
* * *
155081 CCTTGGCCAACCCCTCTAATTTGTTGACTTTATCGATTTTG
1 CCTTAGCCAACCCCTCTAACTTATTGACTTTATCGATTTTG
*
155122 CCTTAGTCAACCCCTCTAACTTATTG
1 CCTTAGCCAACCCCTCTAACTTATTG
155148 GTACATATGG
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.19, C:0.30, G:0.12, T:0.40
Consensus pattern (41 bp):
CCTTAGCCAACCCCTCTAACTTATTGACTTTATCGATTTTG
Found at i:155200 original size:43 final size:43
Alignment explanation
Indices: 155153--155783 Score: 495
Period size: 43 Copynumber: 14.7 Consensus size: 43
155143 TATTGGTACA
* * * *
155153 TATGGTTTCATCCTGGCCAATACCCTTTTAACTCATTGGTATG
1 TATGGTTTCGTCCTGGCCAACACCCTTCTAACTCGTTGGTATG
155196 TATGGTTTCGTCCTGGCCAACACCCTTCTAACTCGTTGGT-TCG
1 TATGGTTTCGTCCTGGCCAACACCCTTCTAACTCGTTGGTAT-G
* * * *
155239 TATAGTTTTGTCCTGGCCAATACCCTTCAAACTCGTTGGTATG
1 TATGGTTTCGTCCTGGCCAACACCCTTCTAACTCGTTGGTATG
* *
155282 TATGGTTTTGTCCTGGCCAACACCCTTCTAACTCGTTGGTATT
1 TATGGTTTCGTCCTGGCCAACACCCTTCTAACTCGTTGGTATG
* * *
155325 TATAGTTTCAT-CTCGGCCAACACCCTCCTAACTCGTTGGTATG
1 TATGGTTTCGTCCT-GGCCAACACCCTTCTAACTCGTTGGTATG
* * * **
155368 TATGGTTTCGTCTTGGCCAACACCATTCTAACTTGTTGGTACA
1 TATGGTTTCGTCCTGGCCAACACCCTTCTAACTCGTTGGTATG
* *** * * *
155411 TATGGTTTCATCCCAACCAACACCCTTCTAATTCATTAGTTCATG
1 TATGGTTTCGTCCTGGCCAACACCCTTCTAACTCGTT-GGT-ATG
* * ** *
155456 --TGGTTTCGTCTTAGCCAACACCCTTCTAACTTTTTAGCGCA--
1 TATGGTTTCGTCCTGGCCAACACCCTTCTAACTCGTT-G-GTATG
* * * **
155497 TATGGTTTCATCCTGGCTAACACCCTTCTAACTCATTGGTACA
1 TATGGTTTCGTCCTGGCCAACACCCTTCTAACTCGTTGGTATG
* * * * * *
155540 TATGGTTTCGTCCCGGCTAATACCCTTTTAACTTGTTGGTACG
1 TATGGTTTCGTCCTGGCCAACACCCTTCTAACTCGTTGGTATG
* * * * ** *
155583 TATGGTTTTGTCCTAGCTAATACATTTCTAACTCATTGGTATG
1 TATGGTTTCGTCCTGGCCAACACCCTTCTAACTCGTTGGTATG
* *** ** * * *
155626 TATGGTTTCATCCCAACCAATTCCCTTCTAACTTGTTAGTGTG
1 TATGGTTTCGTCCTGGCCAACACCCTTCTAACTCGTTGGTATG
* ** * * * *
155669 TATGGTTTTGTCCCAGCTAACATCTTTCTAACTCATTGGT-TCG
1 TATGGTTTCGTCCTGGCCAACACCCTTCTAACTCGTTGGTAT-G
* * * * *
155712 TATGGTTTCATCCTGGCCAACACCCCTCTTACTTGTTGCTATG
1 TATGGTTTCGTCCTGGCCAACACCCTTCTAACTCGTTGGTATG
* *
155755 TATGGTTTCAT-CTCGGCCAACACCTTTCT
1 TATGGTTTCGTCCT-GGCCAACACCCTTCT
155784 TACTTATTGA
Statistics
Matches: 468, Mismatches: 106, Indels: 28
0.78 0.18 0.05
Matches are distributed among these distances:
41 2 0.00
42 7 0.01
43 453 0.97
44 5 0.01
45 1 0.00
ACGTcount: A:0.20, C:0.26, G:0.16, T:0.38
Consensus pattern (43 bp):
TATGGTTTCGTCCTGGCCAACACCCTTCTAACTCGTTGGTATG
Found at i:155281 original size:86 final size:86
Alignment explanation
Indices: 155131--155792 Score: 557
Period size: 86 Copynumber: 7.7 Consensus size: 86
155121 GCCTTAGTCA
* * * * * *
155131 ACCCCTCTAACTTATTGGTACATATGGTTTCATCCTGGCCAATACCCTTTTAACTCATTGGTATG
1 ACCCTTCTAACTTGTTGGTTCGTATGGTTTCATCCTGGCCAACACCCTTCTAACTCATTGGTATG
155196 TATGGTTTCGTCCTGGCCAAC
66 TATGGTTTCGTCCTGGCCAAC
* * ** * * *
155217 ACCCTTCTAACTCGTTGGTTCGTATAGTTTTGTCCTGGCCAATACCCTTCAAACTCGTTGGTATG
1 ACCCTTCTAACTTGTTGGTTCGTATGGTTTCATCCTGGCCAACACCCTTCTAACTCATTGGTATG
*
155282 TATGGTTTTGTCCTGGCCAAC
66 TATGGTTTCGTCCTGGCCAAC
* * * * *
155303 ACCCTTCTAACTCGTTGGTAT-TTATAGTTTCAT-CTCGGCCAACACCCTCCTAACTCGTTGGTA
1 ACCCTTCTAACTTGTTGGT-TCGTATGGTTTCATCCT-GGCCAACACCCTTCTAACTCATTGGTA
*
155366 TGTATGGTTTCGTCTTGGCCAAC
64 TGTATGGTTTCGTCCTGGCCAAC
* * * *** * *
155389 ACCATTCTAACTTGTTGGTACATATGGTTTCATCCCAACCAACACCCTTCTAATTCATTAGTTCA
1 ACCCTTCTAACTTGTTGGTTCGTATGGTTTCATCCTGGCCAACACCCTTCTAACTCATT-GGT-A
* *
155454 TG--TGGTTTCGTCTTAGCCAAC
64 TGTATGGTTTCGTCCTGGCCAAC
* * ** * * **
155475 ACCCTTCTAACTTTTTAGCGCATATGGTTTCATCCTGGCTAACACCCTTCTAACTCATTGGTACA
1 ACCCTTCTAACTTGTTGGTTCGTATGGTTTCATCCTGGCCAACACCCTTCTAACTCATTGGTATG
* * *
155540 TATGGTTTCGTCCCGGCTAAT
66 TATGGTTTCGTCCTGGCCAAC
* * ** * * * **
155561 ACCCTTTTAACTTGTTGGTACGTATGGTTTTGTCCTAGCTAATACATTTCTAACTCATTGGTATG
1 ACCCTTCTAACTTGTTGGTTCGTATGGTTTCATCCTGGCCAACACCCTTCTAACTCATTGGTATG
* *** *
155626 TATGGTTTCATCCCAACCAAT
66 TATGGTTTCGTCCTGGCCAAC
* * ** ** * * *
155647 TCCCTTCTAACTTGTTAGTGT-GTATGGTTTTGTCCCAGCTAACATCTTTCTAACTCATTGGT-T
1 ACCCTTCTAACTTGTTGGT-TCGTATGGTTTCATCCTGGCCAACACCCTTCTAACTCATTGGTAT
*
155710 CGTATGGTTTCATCCTGGCCAAC
65 -GTATGGTTTCGTCCTGGCCAAC
* * * * * *
155733 ACCCCTCTTACTTGTTGCTAT-GTATGGTTTCAT-CTCGGCCAACACCTTTCTTACTTATTG
1 ACCCTTCTAACTTGTTGGT-TCGTATGGTTTCATCCT-GGCCAACACCCTTCTAACTCATTG
155793 ACTTTTATGG
Statistics
Matches: 470, Mismatches: 95, Indels: 22
0.80 0.16 0.04
Matches are distributed among these distances:
84 1 0.00
85 6 0.01
86 456 0.97
87 4 0.01
88 3 0.01
ACGTcount: A:0.20, C:0.26, G:0.16, T:0.38
Consensus pattern (86 bp):
ACCCTTCTAACTTGTTGGTTCGTATGGTTTCATCCTGGCCAACACCCTTCTAACTCATTGGTATG
TATGGTTTCGTCCTGGCCAAC
Found at i:155905 original size:79 final size:79
Alignment explanation
Indices: 155814--156006 Score: 219
Period size: 79 Copynumber: 2.4 Consensus size: 79
155804 TTCATCCTGG
* *
155814 TCAATTTTTCTTTATTGGCTCATATGGTTTCATCCCAGCCAACA-TTTTTCCTTTGTTGACTCAT
1 TCAACTTTTCTTTGTTGGCTCATATGGTTTCATCCCAGCCAACACTTTTT-CTTTGTTGACTCAT
*
155878 ATGGTTTCGTCATAA
65 ATGGTTTCGTCACAA
* ** * * *
155893 TCAACTTTTCTTTGTTAGCTCGAT-TGGTTTTGTCTCGGCTAACACTTTTTCTTTGTTGACTCAT
1 TCAACTTTTCTTTGTTGGCTC-ATATGGTTTCATCCCAGCCAACACTTTTTCTTTGTTGACTCAT
* * *
155957 ATGGTTTTGTCCCGA
65 ATGGTTTCGTCACAA
* * *
155972 TCAACTTTCCTTTGTTGGTTCGTATGGTTTCATCC
1 TCAACTTTTCTTTGTTGGCTCATATGGTTTCATCC
156007 TGACTAACTA
Statistics
Matches: 92, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
78 1 0.01
79 84 0.91
80 7 0.08
ACGTcount: A:0.16, C:0.21, G:0.16, T:0.47
Consensus pattern (79 bp):
TCAACTTTTCTTTGTTGGCTCATATGGTTTCATCCCAGCCAACACTTTTTCTTTGTTGACTCATA
TGGTTTCGTCACAA
Found at i:156014 original size:79 final size:78
Alignment explanation
Indices: 155836--156080 Score: 228
Period size: 79 Copynumber: 3.1 Consensus size: 78
155826 TATTGGCTCA
* * ***
155836 TATGGTTTCATCC-CAGCCAACATTTTTCCTTTGTTGACTCATATGGTTTCGTCATAATCAACTT
1 TATGGTTTCATCCTGA-CTAACATTTTT-CTTTGTTGACTCATATGGTTTCGTCCCGATCAACTT
*
155900 TTCTTTGTTAGCTCG
64 TTCTTTGTTAGTTCG
** * *
155915 -ATTGGTTTTGT-CTCGGCTAACACTTTTTCTTTGTTGACTCATATGGTTTTGTCCCGATCAACT
1 TA-TGGTTTCATCCT-GACTAACA-TTTTTCTTTGTTGACTCATATGGTTTCGTCCCGATCAACT
* *
155978 TTCCTTTGTTGGTTCG
63 TTTCTTTGTTAGTTCG
** * * * *
155994 TATGGTTTCATCCTGACTAACTATTTACCTTTGTTAACTTATATGGTTTCATCCTCG-TCAATTT
1 TATGGTTTCATCCTGACTAAC-ATTTTTCTTTGTTGACTCATATGGTTTCGTCC-CGATCAACTT
*
156058 TTCTTTGTTAGTACG
64 TTCTTTGTTAGTTCG
156073 TATGGTTT
1 TATGGTTT
156081 GTATCGACCA
Statistics
Matches: 133, Mismatches: 25, Indels: 16
0.76 0.14 0.09
Matches are distributed among these distances:
78 2 0.02
79 120 0.90
80 11 0.08
ACGTcount: A:0.17, C:0.20, G:0.16, T:0.47
Consensus pattern (78 bp):
TATGGTTTCATCCTGACTAACATTTTTCTTTGTTGACTCATATGGTTTCGTCCCGATCAACTTTT
CTTTGTTAGTTCG
Found at i:156152 original size:43 final size:42
Alignment explanation
Indices: 156062--156292 Score: 191
Period size: 43 Copynumber: 5.4 Consensus size: 42
156052 CAATTTTTCT
* *
156062 TTGTTAGTACGTATGGTTT-GTATCGACCAACA-CCTTTTAAC
1 TTGTTAGTACGTATGATTTCGT-CCGACCAACACCCTTTTAAC
156103 TTGTTAGTACGTATGATTTCGTCTCGACCAACACCCTTTTAAC
1 TTGTTAGTACGTATGATTTCGTC-CGACCAACACCCTTTTAAC
* * * * *
156146 TCGTTAGTTCGTATGGTTTCATCCCGACCAACA-GCTCTTTAAC
1 TTGTTAGTACGTATGATTTCGT-CCGACCAACACCCT-TTTAAC
* * * * *
156189 TTGTTGGTACATATGATTTCGTCCTGGCCAATACCCTTCTAAC
1 TTGTTAGTACGTATGATTTCGTCC-GACCAACACCCTTTTAAC
* * * * * * *
156232 TCGTTGGTTCATATGGTTTCGTCCCAGCCAACACCCTTGTAAC
1 TTGTTAGTACGTATGATTTCGTCCGA-CCAACACCCTTTTAAC
*
156275 TTGTT-GATTCGTATGATT
1 TTGTTAG-TACGTATGATT
156293 CTATCCCAGC
Statistics
Matches: 154, Mismatches: 27, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
41 18 0.12
42 16 0.10
43 117 0.76
44 3 0.02
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (42 bp):
TTGTTAGTACGTATGATTTCGTCCGACCAACACCCTTTTAAC
Found at i:156207 original size:86 final size:85
Alignment explanation
Indices: 156064--156494 Score: 257
Period size: 86 Copynumber: 5.0 Consensus size: 85
156054 ATTTTTCTTT
* * * *
156064 GTTAGTACGTATGGTTTGTAT--CGACCAACAC-CTTTTAACTTGTTAGTACGTATGATTTCGT-
1 GTTAGTTCGTATGGTTT-CATCCCGACCAACACTC-TTTAACTTGTTGGTACATATGATTTCGTC
*
156125 CTCGACCAACACCCTTTTAACTC
64 CT-GACCAACACCCTTCTAACTC
156148 GTTAGTTCGTATGGTTTCATCCCGACCAACAGCTCTTTAACTTGTTGGTACATATGATTTCGTCC
1 GTTAGTTCGTATGGTTTCATCCCGACCAACA-CTCTTTAACTTGTTGGTACATATGATTTCGTCC
* *
156213 TGGCCAATACCCTTCTAACTC
65 TGACCAACACCCTTCTAACTC
* * * * * * * *
156234 GTTGGTTCATATGGTTTCGTCCC-AGCCAACACCCTTGTAACTTGTTGATTCGTATGA-TTCTAT
1 GTTAGTTCGTATGGTTTCATCCCGA-CCAACACTCTT-TAACTTGTTGGTACATATGATTTC-GT
* * *
156297 CC-CAGCCAACACCTTTCTAACCC
63 CCTGA-CCAACACCCTTCTAACTC
* * * * * * * ** ** * *
156320 ATTAGTTCGTACGGTTTCCTCCTGGCCAATACCCTTCTAACTTGTTAATATTTATGGTTTCATCC
1 GTTAGTTCGTATGGTTTCATCCCGACCAACACTCTT-TAACTTGTTGGTACATATGATTTCGTCC
* *
156385 T-AGCTAACACCTTTCTAACTAACTC
65 TGA-CCAACACC---CT-TCTAACTC
* * * * * * * * * *
156410 GTTGGTTTGTATGGTTTCATCCTGATCAACACCCTTCCAACTTGTTGATACGTATGGTTTTGTCC
1 GTTAGTTCGTATGGTTTCATCCCGACCAACACTCTT-TAACTTGTTGGTACATATGATTTCGTCC
** *
156475 CAACCAACACCTTTCTAACT
65 TGACCAACACCCTTCTAACT
156495 AACTTGTTAT
Statistics
Matches: 274, Mismatches: 56, Indels: 32
0.76 0.15 0.09
Matches are distributed among these distances:
83 2 0.01
84 16 0.06
85 17 0.06
86 166 0.61
87 7 0.03
89 1 0.00
90 64 0.23
91 1 0.00
ACGTcount: A:0.22, C:0.27, G:0.15, T:0.37
Consensus pattern (85 bp):
GTTAGTTCGTATGGTTTCATCCCGACCAACACTCTTTAACTTGTTGGTACATATGATTTCGTCCT
GACCAACACCCTTCTAACTC
Found at i:156446 original size:90 final size:90
Alignment explanation
Indices: 156227--156498 Score: 241
Period size: 90 Copynumber: 3.1 Consensus size: 90
156217 CAATACCCTT
** * * ** * *
156227 CTAACTCGTTGGTTCATATGGTTTCGTCC-CAGCCAACACCCTTGTAACTTGTTGATTCGTAT-G
1 CTAACTCGTTGGTTTGTATGGTTTCATCCTGA-CCAACACCCTTCCAACTTGTTAATACGTATGG
* *
156290 ATTCTATCCCAGCCAACACCTTTCTAA
65 TTTC-ATCCCAACCAACACCTTTCTAA
* * * * * * * * **
156317 C---C-CATTAGTTCGTACGGTTTCCTCCTGGCCAATACCCTTCTAACTTGTTAATATTTATGGT
1 CTAACTCGTTGGTTTGTATGGTTTCATCCTGACCAACACCCTTCCAACTTGTTAATACGTATGGT
* * *
156378 TTCATCCTAGCTAACACCTTTCTAA
66 TTCATCCCAACCAACACCTTTCTAA
* *
156403 CTAACTCGTTGGTTTGTATGGTTTCATCCTGATCAACACCCTTCCAACTTGTTGATACGTATGGT
1 CTAACTCGTTGGTTTGTATGGTTTCATCCTGACCAACACCCTTCCAACTTGTTAATACGTATGGT
**
156468 TTTGTCCCAACCAACACCTTTCTAA
66 TTCATCCCAACCAACACCTTTCTAA
156493 CTAACT
1 CTAACT
156499 TGTTATTTCG
Statistics
Matches: 143, Mismatches: 33, Indels: 12
0.76 0.18 0.06
Matches are distributed among these distances:
86 63 0.44
87 5 0.03
89 1 0.01
90 74 0.52
ACGTcount: A:0.22, C:0.28, G:0.13, T:0.36
Consensus pattern (90 bp):
CTAACTCGTTGGTTTGTATGGTTTCATCCTGACCAACACCCTTCCAACTTGTTAATACGTATGGT
TTCATCCCAACCAACACCTTTCTAA
Found at i:158274 original size:16 final size:16
Alignment explanation
Indices: 158241--158274 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
158231 ATTAAAAAGT
* *
158241 AATAAAGTAATAATAA
1 AATAAAATAATAAAAA
158257 AATAAAATAATAAAAA
1 AATAAAATAATAAAAA
158273 AA
1 AA
158275 AGAAAAAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (16 bp):
AATAAAATAATAAAAA
Found at i:161472 original size:52 final size:52
Alignment explanation
Indices: 161394--161522 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
161384 CGAAATATGA
*
161394 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
*
161446 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
*
161498 ACATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
161523 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
Found at i:161535 original size:52 final size:51
Alignment explanation
Indices: 161394--161542 Score: 219
Period size: 52 Copynumber: 2.9 Consensus size: 51
161384 CGAAATATGA
161394 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* *
161446 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* *
161498 ACATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
161543 ATGTATCGAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 87 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:161549 original size:13 final size:13
Alignment explanation
Indices: 161531--161555 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
161521 CAAAGATCAG
161531 TGTATCGATACAA
1 TGTATCGATACAA
161544 TGTATCGATACA
1 TGTATCGATACA
161556 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:161624 original size:19 final size:19
Alignment explanation
Indices: 161600--161695 Score: 90
Period size: 13 Copynumber: 5.6 Consensus size: 19
161590 GCTTAAATTA
161600 TATCGATACAAAACTTATG
1 TATCGATACAAAACTTATG
161619 TATCGATAC---A--T-TG
1 TATCGATACAAAACTTATG
161632 TATCGATACAAAACTTATG
1 TATCGATACAAAACTTATG
161651 TATCGATAC---A--T-TG
1 TATCGATACAAAACTTATG
*
161664 TATCGATACAACACTTTATG
1 TATCGATACAAAAC-TTATG
161684 TATCGATACAAA
1 TATCGATACAAA
161696 TCGTTGAAAT
Statistics
Matches: 63, Mismatches: 1, Indels: 25
0.71 0.01 0.28
Matches are distributed among these distances:
13 22 0.35
14 2 0.03
16 4 0.06
18 1 0.02
19 21 0.33
20 13 0.21
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (19 bp):
TATCGATACAAAACTTATG
Found at i:161641 original size:32 final size:32
Alignment explanation
Indices: 161600--161693 Score: 170
Period size: 32 Copynumber: 2.9 Consensus size: 32
161590 GCTTAAATTA
161600 TATCGATACAAAACTTATGTATCGATACATTG
1 TATCGATACAAAACTTATGTATCGATACATTG
161632 TATCGATACAAAACTTATGTATCGATACATTG
1 TATCGATACAAAACTTATGTATCGATACATTG
*
161664 TATCGATACAACACTTTATGTATCGATACA
1 TATCGATACAAAAC-TTATGTATCGATACA
161694 AATCGTTGAA
Statistics
Matches: 60, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 45 0.75
33 15 0.25
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (32 bp):
TATCGATACAAAACTTATGTATCGATACATTG
Found at i:162266 original size:18 final size:19
Alignment explanation
Indices: 162221--162266 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
162211 AATGATCAAA
162221 ATTTATGGA-TTTTGTTGGT
1 ATTTAT-GATTTTTGTTGGT
162240 ATATT-TGATTTTTGTT-GT
1 AT-TTATGATTTTTGTTGGT
162258 ATTTATGAT
1 ATTTATGAT
162267 GATTTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
17 2 0.08
18 10 0.42
19 10 0.42
20 2 0.08
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.61
Consensus pattern (19 bp):
ATTTATGATTTTTGTTGGT
Found at i:173513 original size:2 final size:2
Alignment explanation
Indices: 173508--173534 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
173498 TTGTTAAAAG
173508 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
173535 TTGACCTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:173771 original size:2 final size:2
Alignment explanation
Indices: 173764--173803 Score: 71
Period size: 2 Copynumber: 19.5 Consensus size: 2
173754 ATTTACTTTG
173764 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TCA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
173804 TAACCCAACC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 35 0.95
3 2 0.05
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:176865 original size:2 final size:2
Alignment explanation
Indices: 176855--176887 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
176845 AAAAATAAAA
*
176855 AG AG GG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
176888 AATGAAAGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
AG
Found at i:177377 original size:3 final size:3
Alignment explanation
Indices: 177369--177403 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
177359 TATGGGATGA
177369 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
177404 GATGTACATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:180740 original size:20 final size:20
Alignment explanation
Indices: 180696--180740 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
180686 TTATATTTTT
*
180696 TTAT-AAAAAAAAGTTATAA
1 TTATAAAAAAAAAGATATAA
180715 TT-TAAAAAAATAAGATA-AA
1 TTATAAAAAAA-AAGATATAA
180734 TTATAAA
1 TTATAAA
180741 TATCAATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
18 1 0.05
19 12 0.55
20 9 0.41
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.31
Consensus pattern (20 bp):
TTATAAAAAAAAAGATATAA
Found at i:182055 original size:16 final size:16
Alignment explanation
Indices: 182034--182066 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
182024 AAAGTTAAAG
182034 ATTTAAATTCGAAAAA
1 ATTTAAATTCGAAAAA
*
182050 ATTTAAATTTGAAAAA
1 ATTTAAATTCGAAAAA
182066 A
1 A
182067 CTCAAAATCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (16 bp):
ATTTAAATTCGAAAAA
Found at i:189124 original size:45 final size:45
Alignment explanation
Indices: 189072--189159 Score: 176
Period size: 45 Copynumber: 2.0 Consensus size: 45
189062 TGTTATTATT
189072 TTTTAGAAATATGAATCATTTTAGTTAGGAATTAAATGAGTATCG
1 TTTTAGAAATATGAATCATTTTAGTTAGGAATTAAATGAGTATCG
189117 TTTTAGAAATATGAATCATTTTAGTTAGGAATTAAATGAGTAT
1 TTTTAGAAATATGAATCATTTTAGTTAGGAATTAAATGAGTAT
189160 TTTTGGAATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.39, C:0.03, G:0.17, T:0.41
Consensus pattern (45 bp):
TTTTAGAAATATGAATCATTTTAGTTAGGAATTAAATGAGTATCG
Found at i:189144 original size:22 final size:22
Alignment explanation
Indices: 189074--189144 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
189064 TTATTATTTT
189074 TTAGAAATATGAATCATTTTAG
1 TTAGAAATATGAATCATTTTAG
* * * * * *
189096 TTAGGAAT-TAAATGAGTATCG
1 TTAGAAATATGAATCATTTTAG
189117 TTTTAGAAATATGAATCATTTTAG
1 --TTAGAAATATGAATCATTTTAG
189141 TTAG
1 TTAG
189145 GAATTAAATG
Statistics
Matches: 34, Mismatches: 12, Indels: 6
0.65 0.23 0.12
Matches are distributed among these distances:
21 8 0.24
22 11 0.32
23 7 0.21
24 8 0.24
ACGTcount: A:0.38, C:0.04, G:0.17, T:0.41
Consensus pattern (22 bp):
TTAGAAATATGAATCATTTTAG
Found at i:200503 original size:68 final size:67
Alignment explanation
Indices: 200400--200534 Score: 218
Period size: 68 Copynumber: 2.0 Consensus size: 67
200390 ATTTGAGATA
200400 TTCAAAAAGATTCGACACAAAATGACACCAAATTAAAATGATCTAAATTCAAAATAATTTAAATT
1 TTCAAAAAGATTCGACACAAAATGACACCAAATTAAAATGATCTAAATTCAAAATAATTTAAATT
200465 CT
66 CT
* * *
200467 TTCAAAAAGATTCGGACATAAAATGACA-CAAGATTAAAATGATTTAAATTTAAAATAATTTAAA
1 TTCAAAAAGATTC-GACACAAAATGACACCAA-ATTAAAATGATCTAAATTCAAAATAATTTAAA
200531 TTCT
64 TTCT
200535 ATTTGACCTG
Statistics
Matches: 63, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
67 16 0.25
68 47 0.75
ACGTcount: A:0.50, C:0.12, G:0.07, T:0.30
Consensus pattern (67 bp):
TTCAAAAAGATTCGACACAAAATGACACCAAATTAAAATGATCTAAATTCAAAATAATTTAAATT
CT
Found at i:200519 original size:16 final size:16
Alignment explanation
Indices: 200500--200532 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
200490 TGACACAAGA
*
200500 TTAAAATGATTTAAAT
1 TTAAAATAATTTAAAT
200516 TTAAAATAATTTAAAT
1 TTAAAATAATTTAAAT
200532 T
1 T
200533 CTATTTGACC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (16 bp):
TTAAAATAATTTAAAT
Found at i:202711 original size:22 final size:23
Alignment explanation
Indices: 202686--202733 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
202676 AAATATTATA
* *
202686 ATGTGAAA-TTTAAATCTATAGG
1 ATGTCAAATTTTAAAGCTATAGG
*
202708 ATGTCAAATTTTAAAGCTATCGG
1 ATGTCAAATTTTAAAGCTATAGG
202731 ATG
1 ATG
202734 AATCAACTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.35
Consensus pattern (23 bp):
ATGTCAAATTTTAAAGCTATAGG
Found at i:202838 original size:18 final size:18
Alignment explanation
Indices: 202817--202851 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
202807 TAGGCATAAC
*
202817 TAAATATATATTTATGTG
1 TAAATATATATATATGTG
*
202835 TAAATGTATATATATGT
1 TAAATATATATATATGT
202852 ATATGTGTAT
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:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (18 bp):
TAAATATATATATATGTG
Found at i:203105 original size:21 final size:20
Alignment explanation
Indices: 203079--203117 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
203069 TAAATTTATA
203079 ATTTAAATTTTATTATTAAAC
1 ATTTAAATTTTATT-TTAAAC
203100 ATTTAAATTTTATTTTAA
1 ATTTAAATTTTATTTTAA
203118 TAATAGTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTTAAATTTTATTTTAAAC
Found at i:203532 original size:23 final size:24
Alignment explanation
Indices: 203501--203546 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
203491 GGGTTAATGT
203501 AAATAAAATTAA-TTTAAATTAAA
1 AAATAAAATTAATTTTAAATTAAA
*
203524 AAATTAAATTAATTTTAAATTAA
1 AAATAAAATTAATTTTAAATTAA
203547 GGTGTTTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
AAATAAAATTAATTTTAAATTAAA
Found at i:204139 original size:23 final size:20
Alignment explanation
Indices: 204093--204140 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 20
204083 TACTAAAATT
* *
204093 TTTAAGAATAATTTTTTATT
1 TTTAAAAATAATTTTTTATC
204113 TTTAAAAATAATTATTAATTATC
1 TTTAAAAATAATT-TT--TTATC
204136 TTTAA
1 TTTAA
204141 TTATTTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 12 0.52
21 2 0.09
23 9 0.39
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (20 bp):
TTTAAAAATAATTTTTTATC
Found at i:205132 original size:23 final size:22
Alignment explanation
Indices: 205089--205132 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
205079 ATTTTTTAAT
***
205089 ATTTAAAAAATTTATTTATAAA
1 ATTTAAAAAATTTAAAAATAAA
205111 ATTTAAAAAAATTTAAAAATAA
1 ATTT-AAAAAATTTAAAAATAA
205133 TCAATAATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
ATTTAAAAAATTTAAAAATAAA
Found at i:205188 original size:12 final size:12
Alignment explanation
Indices: 205137--205189 Score: 52
Period size: 12 Copynumber: 4.1 Consensus size: 12
205127 AAATAATCAA
205137 TAATAAAATTAT
1 TAATAAAATTAT
*
205149 TAAAAAAATTATT
1 TAATAAAATTA-T
*
205162 TAGATATTAATTTAT
1 TA-ATA--AAATTAT
205177 TAATAAAATTAT
1 TAATAAAATTAT
205189 T
1 T
205190 TAAAATTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
12 17 0.52
13 3 0.09
14 5 0.15
15 3 0.09
16 5 0.15
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (12 bp):
TAATAAAATTAT
Found at i:205202 original size:28 final size:28
Alignment explanation
Indices: 205145--205248 Score: 77
Period size: 28 Copynumber: 3.5 Consensus size: 28
205135 AATAATAAAA
* * *
205145 TTATTAAAAAAATTATTT-AGATATTAAT
1 TTATTAATAAAATTATTTAAAAT-TTTAT
205173 TTATTAATAAAATTATTTAAAATTTTAT
1 TTATTAATAAAATTATTTAAAATTTTAT
*
205201 TTAAAATAATAATATTATTATTTAAATATTTTA-
1 TT--ATTAATAA-A--ATTATTTAAA-ATTTTAT
* *
205234 ATATTTATAAAATTA
1 TTATTAATAAAATTA
205249 AAGAAAGATA
Statistics
Matches: 62, Mismatches: 7, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
28 27 0.44
29 3 0.05
30 8 0.13
31 7 0.11
33 11 0.18
34 6 0.10
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (28 bp):
TTATTAATAAAATTATTTAAAATTTTAT
Found at i:205221 original size:73 final size:74
Alignment explanation
Indices: 205008--205222 Score: 178
Period size: 73 Copynumber: 2.9 Consensus size: 74
204998 ATTATTGAAG
* *
205008 AATTAATTAGATATTAATTTATTAATAAAATGATTTAAAATTTT-TATT--AA-AATAATATTAT
1 AATTATTTAGATATTAATTTATTAATAAAATTATTTAAAATTTTAT-TTAAAATAATAATATTAT
**
205069 T-TTAATTTA
65 TATTAATAAA
* * ** * **
205078 AATTTTTTA-ATATTTAAAAAATTTATTTATAAAATT-TAAAAAAATTTA-AAAATAATCAATAA
1 AATTATTTAGATA-TT----AATTTATTAATAAAATTATTTAAAATTTTATTTAA-AAT-AATAA
**
205140 TAAAATTATTAA-AAA
59 TATTATTATTAATAAA
205155 AATTATTTAGATATTAATTTATTAATAAAATTATTTAAAATTTTATTTAAAATAATAATATTATT
1 AATTATTTAGATATTAATTTATTAATAAAATTATTTAAAATTTTATTTAAAATAATAATATTATT
205220 ATT
66 ATT
205223 TAAATATTTT
Statistics
Matches: 108, Mismatches: 22, Indels: 27
0.69 0.14 0.17
Matches are distributed among these distances:
69 3 0.03
70 9 0.08
73 37 0.34
74 27 0.25
75 4 0.04
77 21 0.19
78 7 0.06
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (74 bp):
AATTATTTAGATATTAATTTATTAATAAAATTATTTAAAATTTTATTTAAAATAATAATATTATT
ATTAATAAA
Found at i:205533 original size:4 final size:5
Alignment explanation
Indices: 205517--205693 Score: 51
Period size: 5 Copynumber: 34.4 Consensus size: 5
205507 TAATTAATGA
* * * * *
205517 ATTAT TTTAT ATT-T ATTAT ATTAT AATTAT ATTTAA AATAT TTTAT ATTAAA
1 ATTAT ATTAT ATTAT ATTAT ATTAT -ATTAT A-TTAT ATTAT ATTAT ATT-AT
* * * * * **
205569 ATTAA ATTTT ATTAT AATA- ATATAT ATTAT ATAAA ATT-T AAAAT ATT-T
1 ATTAT ATTAT ATTAT ATTAT AT-TAT ATTAT ATTAT ATTAT ATTAT ATTAT
* * * * *
205617 A-TAT ATT-T ATGTAT AATTAT ATTAAT TTTAT TTTAAA AATAT TTTAT
1 ATTAT ATTAT AT-TAT -ATTAT ATT-AT ATTAT ATT-AT ATTAT ATTAT
*
205664 ATTAT ATTAT AACTATT ATTAT ATATAT AT
1 ATTAT ATTAT -ATTA-T ATTAT AT-TAT AT
205694 ATCGCATAAT
Statistics
Matches: 123, Mismatches: 32, Indels: 33
0.65 0.17 0.18
Matches are distributed among these distances:
3 1 0.01
4 13 0.11
5 70 0.57
6 36 0.29
7 3 0.02
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.55
Consensus pattern (5 bp):
ATTAT
Found at i:205540 original size:14 final size:14
Alignment explanation
Indices: 205517--205599 Score: 53
Period size: 14 Copynumber: 5.8 Consensus size: 14
205507 TAATTAATGA
* *
205517 ATTATTTTATATTT
1 ATTATATTATAATT
205531 ATTATATTATAATT
1 ATTATATTATAATT
*
205545 A-TAT-TTAAAATAT
1 ATTATATTATAAT-T
* *
205558 TTTATATTAAAATT
1 ATTATATTATAATT
* *
205572 AAATTTTATTATAATA
1 --ATTATATTATAATT
205588 ATATATATTATA
1 AT-TATATTATA
205600 TAAAATTTAA
Statistics
Matches: 54, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
12 6 0.11
13 4 0.07
14 19 0.35
15 15 0.28
16 10 0.19
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATTATATTATAATT
Found at i:205562 original size:27 final size:27
Alignment explanation
Indices: 205532--205623 Score: 87
Period size: 27 Copynumber: 3.3 Consensus size: 27
205522 TTTATATTTA
*
205532 TTATATTATAATTATATTTAAAATATT
1 TTATATTATAATTAAATTTAAAATATT
* *
205559 TTATATTAAAATTAAATTTTATTATAATAAT
1 TTATATTATAATTAAA-TTTA--A-AATATT
* *
205590 ATATATTAT-ATAAAATTTAAAATATT
1 TTATATTATAATTAAATTTAAAATATT
205616 TATATATT
1 T-TATATT
205624 TATGTATAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
26 5 0.10
27 21 0.40
28 4 0.08
29 4 0.08
30 6 0.12
31 12 0.23
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
TTATATTATAATTAAATTTAAAATATT
Found at i:206143 original size:21 final size:21
Alignment explanation
Indices: 206117--206156 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
206107 TTATATTATG
* *
206117 TAATTATTTTTTTTAAAAAAA
1 TAATTATTTATTATAAAAAAA
206138 TAATTATTTATTATAAAAA
1 TAATTATTTATTATAAAAA
206157 TTATTAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TAATTATTTATTATAAAAAAA
Found at i:206185 original size:24 final size:24
Alignment explanation
Indices: 206143--206188 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
206133 AAAAATAATT
*
206143 ATTTATTATAAAAATTATTAATAA
1 ATTTATTATAAAAAATATTAATAA
206167 ATTTATTA-AATAAAATATTAAT
1 ATTTATTATAA-AAAATATTAAT
206189 CATTTAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
ATTTATTATAAAAAATATTAATAA
Found at i:206581 original size:16 final size:16
Alignment explanation
Indices: 206562--206593 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
206552 TCAATAAGTT
206562 AATATATATTTTAATA
1 AATATATATTTTAATA
*
206578 AATATTTATTTTAATA
1 AATATATATTTTAATA
206594 TAAAAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AATATATATTTTAATA
Found at i:214276 original size:43 final size:43
Alignment explanation
Indices: 214027--214491 Score: 299
Period size: 49 Copynumber: 10.1 Consensus size: 43
214017 CTTAAGAATG
* * * * *
214027 TTAAAGATGCCAATATGCTAATTCAAGGCCAACAATATCGGAC
1 TTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * * * *
214070 TTAAAGATGAAGGTGCTAATATGCTGATTCAAAGCCAGCGACATTAGCC
1 TT----A--AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* *
214119 TTAAAGATAAAGATGCCAATATGCTGATTCAAGGCCAGTGATATCGGAC
1 TTAAAG-----G-TGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * * * *
214168 -T---CGTGCCAATGTGCTGATTCAAGACCAGCGACATTGGTC
1 TTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
*
214207 TTAAAGACAAGGTGCTAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TT----A-AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * **
214255 TTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGAAATTGGTT
1 TTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* *
214298 TTAAAGACAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTAGACCC
1 TT----A-AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGA--C
*
214348 AAGATGGTAAAGGTGTCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 ----T--TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * * *
214397 TTAAAGATAAAGATGCCAATGTGCTGATTCAAGGCCAGCAACATTAGAC
1 TTAAAG-----G-TGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* *
214446 TCAAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGAC
1 TTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
214489 TTA
1 TTA
214492 GAAGAAGATG
Statistics
Matches: 326, Mismatches: 56, Indels: 80
0.71 0.12 0.17
Matches are distributed among these distances:
39 30 0.09
40 2 0.01
43 80 0.25
44 2 0.01
45 2 0.01
47 2 0.01
48 71 0.22
49 98 0.30
51 36 0.11
52 1 0.00
54 1 0.00
56 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.25
Consensus pattern (43 bp):
TTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
Found at i:214295 original size:91 final size:92
Alignment explanation
Indices: 213939--214496 Score: 471
Period size: 91 Copynumber: 5.9 Consensus size: 92
213929 CGAAGAATGA
* * * * * * **
213939 CAATGTGCTGATTCATGGCCAGTGACATTAGACTTGAAGAAGATGCCAATGTGCTGAGACAAGGC
1 CAATATGCTGATTCAAGGCCAGCGATATTAGACTT--A-AAGGTGCCAATATGCTGATTCAAGGC
* * *
214004 CAACGACATTGGGCTTAAGAATGTTAAAGATGC
63 CAGCGACATTGGACTT-A-AA-GATAAAGATGC
* * * ** *
214037 CAATATGCTAATTCAAGGCCAACAATATCGGACTTAAAGATGAAGGTGCTAATATGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTAGACTT----A--AAGGTGCCAATATGCTGATTCAA
* * *
214102 AGCCAGCGACATTAGCCTTAAAGATAAAGATGC
60 GGCCAGCGACATTGGACTTAAAGATAAAGATGC
* ** * * *
214135 CAATATGCTGATTCAAGGCCAGTGATATCGGAC-T---CGTGCCAATGTGCTGATTCAAGACCAG
1 CAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGGTGCCAATATGCTGATTCAAGGCCAG
* * *
214196 CGACATTGGTCTTAAAGA-CAAGGTGC
66 CGACATTGGACTTAAAGATAAAGATGC
* * *
214222 TAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAG
1 CAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGGTGCCAATATGCTGATTCAAGGCCAG
* ** * *
214287 CGAAATTGGTTTTAAAGA-CAAGGTGC
66 CGACATTGGACTTAAAGATAAAGATGC
* *
214313 CAATATGCTGATTCAAGGCTAGCGATATTAGACCCAAGATGGTAAAGGTGTCAATATGCTGATTC
1 CAATATGCTGATTCAAGGCCAGCGATATTAGA--C----T--TAAAGGTGCCAATATGCTGATTC
*
214378 AAGGCCAGCGATATTGGACTTAAAGATAAAGATGC
58 AAGGCCAGCGACATTGGACTTAAAGATAAAGATGC
* * * * *
214413 CAATGTGCTGATTCAAGGCCAGCAACATTAGACTCAAAGGTGCCAATATGCTGATTCAAGGCTAG
1 CAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGGTGCCAATATGCTGATTCAAGGCCAG
*
214478 CGATATTGGACTTAGAAGA
66 CGACATTGGACTTA-AAGA
214497 AGATGCCACC
Statistics
Matches: 385, Mismatches: 58, Indels: 39
0.80 0.12 0.08
Matches are distributed among these distances:
87 36 0.09
88 39 0.10
91 78 0.20
92 42 0.11
93 5 0.01
94 1 0.00
97 2 0.01
98 66 0.17
99 46 0.12
100 36 0.09
101 34 0.09
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.24
Consensus pattern (92 bp):
CAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGGTGCCAATATGCTGATTCAAGGCCAG
CGACATTGGACTTAAAGATAAAGATGC
Found at i:214376 original size:51 final size:48
Alignment explanation
Indices: 214170--214484 Score: 228
Period size: 48 Copynumber: 6.7 Consensus size: 48
214160 TATCGGACTC
* * * * * *
214170 GTGCCAATGTGCTGATTCAAGACCAGCGACATTGGTCTTAAA-G-ACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTAGAC-CAAATGTA-AAG
* *
214218 GTGCTAATATGCTGATTCAAGGCCAGCGATATTGGA-C---T-TAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACCAAATGTAAAG
* * * ***
214261 GTGCCAATGTGCTGATTCAAGGCCAGCGAAATTGGTTTTAAA-G-ACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTAG-ACCAAATGTA-AAG
*
214309 GTGCCAATATGCTGATTCAAGGCTAGCGATATTAGACCCAAGATGGTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTAGA-CCAA-AT-GTAAAG
* * *
214360 GTGTCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA-GATAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTAGAC-CAAATG-TAAAG
* * * * *
214409 ATGCCAATGTGCTGATTCAAGGCCAGCAACATTAGA-C---T-CAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACCAAATGTAAAG
*
214452 GTGCCAATATGCTGATTCAAGGCTAGCGATATT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATT
214485 GGACTTAGAA
Statistics
Matches: 215, Mismatches: 35, Indels: 39
0.74 0.12 0.13
Matches are distributed among these distances:
43 67 0.31
44 1 0.00
47 1 0.00
48 68 0.32
49 36 0.17
50 2 0.01
51 39 0.18
52 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (48 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACCAAATGTAAAG
Found at i:214668 original size:30 final size:30
Alignment explanation
Indices: 214513--214747 Score: 213
Period size: 29 Copynumber: 8.2 Consensus size: 30
214503 CACCAACTTG
** * *
214513 TGTGGGCTTTT-AAAAGGGTTACACCGAAT
1 TGTGGGCTTTTGAAAAGGGTGCCACTGACT
* * *
214542 TGTGTGCTTTTG--AAGGTTGCCACTGCCT
1 TGTGGGCTTTTGAAAAGGGTGCCACTGACT
* *
214570 TATGGGC-TTTG--AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAAGGGTGCCACTGACT
* * * * *
214597 TGTGGAC-TTTGAAAA-TGTGTCACTAAGT
1 TGTGGGCTTTTGAAAAGGGTGCCACTGACT
214625 TGTGGGC-TTTGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTTGAAAAGGGTGCCACTGACT
* * *
214654 TATGGGCTTTTGAAAA-GATGCCATTGACT
1 TGTGGGCTTTTGAAAAGGGTGCCACTGACT
*
214683 TGTGGGCTTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTTGAAAAGGGTGCCACTGACT
*
214713 TGTGGGCTTTTGAAAA-GATGCCACTGACT
1 TGTGGGCTTTTGAAAAGGGTGCCACTGACT
*
214742 TATGGG
1 TGTGGG
214748 ATTTGGAAGG
Statistics
Matches: 168, Mismatches: 32, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
27 28 0.17
28 37 0.22
29 69 0.41
30 34 0.20
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.33
Consensus pattern (30 bp):
TGTGGGCTTTTGAAAAGGGTGCCACTGACT
Found at i:214710 original size:59 final size:58
Alignment explanation
Indices: 214559--214752 Score: 218
Period size: 59 Copynumber: 3.4 Consensus size: 58
214549 TTTTGAAGGT
* * * *
214559 TGCCACTGCCTTATGGGCTTTG--AAG-GTTGCCACTGACTTGTGGAC-TTTGAAAATG-
1 TGCCACTGACTTGTGGGCTTTGAAAAGAG-TGCCACTGACTTATGGGCTTTTGAAAA-GA
* * * *
214614 TGTCACTAAGTTGTGGGCTTTGAAAAGGGTGCCACTGACTTATGGGCTTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTATGGGCTTTTGAAAAGA
* *
214672 TGCCATTGACTTGTGGGCTTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTTGAAAAGA
1 TGCCACTGACTTGTGGGC-TTTGAAAAGAGTGCCACTGACTTATGGGCTTTTGAAAAGA
* *
214731 TGCCACTGACTTATGGGATTTG
1 TGCCACTGACTTGTGGGCTTTG
214753 GAAGGTGAGA
Statistics
Matches: 117, Mismatches: 16, Indels: 9
0.82 0.11 0.06
Matches are distributed among these distances:
55 17 0.15
57 20 0.17
58 27 0.23
59 53 0.45
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.32
Consensus pattern (58 bp):
TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTATGGGCTTTTGAAAAGA
Found at i:216229 original size:9 final size:9
Alignment explanation
Indices: 216188--216237 Score: 57
Period size: 9 Copynumber: 5.6 Consensus size: 9
216178 ATCCGGACCC
*
216188 TTTTTGTTG
1 TTTTTGTTT
*
216197 TTGTT-TTT
1 TTTTTGTTT
*
216205 TTTTTGGTT
1 TTTTTGTTT
216214 TTTTTGTTT
1 TTTTTGTTT
216223 TTTTTGTTT
1 TTTTTGTTT
216232 GTTTTT
1 -TTTTT
216238 TTCTCTCTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
8 6 0.18
9 23 0.68
10 5 0.15
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (9 bp):
TTTTTGTTT
Found at i:216232 original size:13 final size:12
Alignment explanation
Indices: 216188--216239 Score: 52
Period size: 12 Copynumber: 4.3 Consensus size: 12
216178 ATCCGGACCC
* *
216188 TTTTTGTTGTTG
1 TTTTTTTTGTTT
*
216200 TTTTTTTT-TTG
1 TTTTTTTTGTTT
*
216211 GTTTTTTTGTTT
1 TTTTTTTTGTTT
216223 TTTTTGTTTGTTT
1 TTTTT-TTTGTTT
216236 TTTT
1 TTTT
216240 CTCTCTCTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
11 10 0.29
12 13 0.38
13 11 0.32
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (12 bp):
TTTTTTTTGTTT
Found at i:216236 original size:18 final size:17
Alignment explanation
Indices: 216188--216239 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 17
216178 ATCCGGACCC
216188 TTTTTG-TTGTTGTTTTT
1 TTTTTGTTTGTT-TTTTT
216205 TTTTTGGTTT-TTTTGTTT
1 TTTTT-GTTTGTTTT-TTT
216223 TTTTTGTTTGTTTTTTT
1 TTTTTGTTTGTTTTTTT
216240 CTCTCTCTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 14 0.45
18 15 0.48
19 2 0.06
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (17 bp):
TTTTTGTTTGTTTTTTT
Found at i:229909 original size:9 final size:9
Alignment explanation
Indices: 229891--229933 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
229881 AGAATTAATG
229891 CTTGGCAGC
1 CTTGGCAGC
*
229900 CTTGGTAGC
1 CTTGGCAGC
229909 CTTGGCAGC
1 CTTGGCAGC
*
229918 CTTGGTAGC
1 CTTGGCAGC
*
229927 CATGGCA
1 CTTGGCA
229934 ACCAATGAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.14, C:0.28, G:0.33, T:0.26
Consensus pattern (9 bp):
CTTGGCAGC
Found at i:229914 original size:18 final size:18
Alignment explanation
Indices: 229891--229933 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
229881 AGAATTAATG
229891 CTTGGCAGCCTTGGTAGC
1 CTTGGCAGCCTTGGTAGC
229909 CTTGGCAGCCTTGGTAGC
1 CTTGGCAGCCTTGGTAGC
*
229927 CATGGCA
1 CTTGGCA
229934 ACCAATGAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.14, C:0.28, G:0.33, T:0.26
Consensus pattern (18 bp):
CTTGGCAGCCTTGGTAGC
Found at i:232837 original size:17 final size:17
Alignment explanation
Indices: 232800--232838 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
232790 GCCATAATGC
* *
232800 ATCGTACATCGCCGTTC
1 ATCGTACATCGCCATTA
*
232817 ATCGTACATTGCCATTA
1 ATCGTACATCGCCATTA
232834 ATCGT
1 ATCGT
232839 CACTTTCTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.33
Consensus pattern (17 bp):
ATCGTACATCGCCATTA
Found at i:236771 original size:18 final size:18
Alignment explanation
Indices: 236736--236800 Score: 71
Period size: 18 Copynumber: 3.5 Consensus size: 18
236726 TACTTCTTTC
236736 TTATTTTTTAATTTAAATATA
1 TTATTTTTTAA---AAATATA
236757 TTATTTTTTAAAAATATA
1 TTATTTTTTAAAAATATA
*
236775 ATATTTTTTGAAAAA-AT-
1 TTATTTTTT-AAAAATATA
236792 TTATTTTTT
1 TTATTTTTT
236801 TCATCCATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
17 8 0.20
18 17 0.41
19 5 0.12
21 11 0.27
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (18 bp):
TTATTTTTTAAAAATATA
Found at i:237313 original size:17 final size:17
Alignment explanation
Indices: 237293--237325 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
237283 CAAGTTTTGT
*
237293 AAGTTTATATTTTTTTC
1 AAGTTTAAATTTTTTTC
237310 AAGTTTAAATTTTTTT
1 AAGTTTAAATTTTTTT
237326 AAATTCAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.03, G:0.06, T:0.64
Consensus pattern (17 bp):
AAGTTTAAATTTTTTTC
Found at i:239542 original size:2 final size:2
Alignment explanation
Indices: 239535--239573 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
239525 GTCTTTTGTA
239535 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
239574 ATTTTGCTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:240329 original size:2 final size:2
Alignment explanation
Indices: 240322--240355 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
240312 ATTTTCTCTA
240322 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
240356 GTATCGGCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:240570 original size:10 final size:10
Alignment explanation
Indices: 240555--240587 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
240545 TCTTTATCAG
*
240555 AAACCAAACC
1 AAACCAAAAC
240565 AAACCAAAAC
1 AAACCAAAAC
240575 AAACCAAAAC
1 AAACCAAAAC
240585 AAA
1 AAA
240588 AATCATTTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.70, C:0.30, G:0.00, T:0.00
Consensus pattern (10 bp):
AAACCAAAAC
Found at i:240579 original size:15 final size:15
Alignment explanation
Indices: 240559--240588 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
240549 TATCAGAAAC
*
240559 CAAACCAAACCAAAA
1 CAAACCAAAACAAAA
240574 CAAACCAAAACAAAA
1 CAAACCAAAACAAAA
240589 ATCATTTCCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.30, G:0.00, T:0.00
Consensus pattern (15 bp):
CAAACCAAAACAAAA
Found at i:243075 original size:2 final size:2
Alignment explanation
Indices: 243068--243109 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
243058 TCCAAAACTT
* * *
243068 TC TC TC TC TC TC TC TC TC TC TC TC TC TC CC CC TT TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
243110 CTTATATCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:243548 original size:3 final size:3
Alignment explanation
Indices: 243540--243592 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
243530 CCATGATTTG
*
243540 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAT TAC
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
243588 TAC TA
1 TAC TA
243593 ACATATATAC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.34, C:0.30, G:0.00, T:0.36
Consensus pattern (3 bp):
TAC
Found at i:244046 original size:2 final size:2
Alignment explanation
Indices: 244039--244064 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
244029 TAACAACTTA
244039 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
244065 TGGTATAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:245304 original size:48 final size:46
Alignment explanation
Indices: 245252--245341 Score: 135
Period size: 48 Copynumber: 1.9 Consensus size: 46
245242 ATAATTGATT
*
245252 GTGATAATATTTATTATATCTCTTCAATTATAATAAATACAATGTGAC
1 GTGATAATATTTATTATATC-CAT-AATTATAATAAATACAATGTGAC
* *
245300 GTGATAATATTTATTATATCGATAATTATAATAAATATAATG
1 GTGATAATATTTATTATATCCATAATTATAATAAATACAATG
245342 CGATTGAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
46 18 0.46
47 1 0.03
48 20 0.51
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (46 bp):
GTGATAATATTTATTATATCCATAATTATAATAAATACAATGTGAC
Found at i:246396 original size:38 final size:38
Alignment explanation
Indices: 246345--246422 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
246335 ATCCACCAAG
246345 TGTAGAAGAAAGATGCAACCTAGAAAATAATTAAAAAA
1 TGTAGAAGAAAGATGCAACCTAGAAAATAATTAAAAAA
* *
246383 TGTAGAAGAAAGATGCAATCTAGAAAATGATTAAAAAA
1 TGTAGAAGAAAGATGCAACCTAGAAAATAATTAAAAAA
246421 TG
1 TG
246423 CACACAACCT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.55, C:0.06, G:0.18, T:0.21
Consensus pattern (38 bp):
TGTAGAAGAAAGATGCAACCTAGAAAATAATTAAAAAA
Found at i:249148 original size:289 final size:287
Alignment explanation
Indices: 248176--249775 Score: 1932
Period size: 289 Copynumber: 5.6 Consensus size: 287
248166 GTAAAATAAA
* * * * *
248176 AAAAAATCAAATACCTTTAAACAATATCTTAAGTTGAAAATGTGATTTTCAGTAGATATTTATAT
1 AAAAAATCAAATACCTCTAAGCAATATCCTAAGTTGAAAATGTGATTTTCAGTAAATATTTATGT
* * * * * *
248241 TAGCTAGATTTTTACTTTTTAAAAAATCTATATTTGATAATTTTATTCGATAAATTTAAATATGA
66 TATCTAGATTTTTATTTTTTAAAATATCTATATTTGATAGTTTTATTTGATAAATTTAAATAAGA
*** *
248306 ATATGAAAGTATAATCTTTTAAATATATAAAAAAAAATTATAAAATTTTATGTAGTCACCTTTAA
131 ATATGAAAGTATAATCTTTTAAATATATAAAAAATTTTTAAAAAATTTTATGTAGTCACCTTTAA
* * * * *
248371 GAAGTGGTATTCAAGTTTCAATATA-GATGAGGTTCAAATCCTAGCATTTGCAACTTTTTTTTAT
196 GAGGTGGTATTCAAGTTTCAACA-AGGATGAAGTTCAAATCCCAGCATTTTCAACTTTTTTTTAT
*
248435 CTCTAAACTAAGGCCTCCTTCATAAAAT
260 CTCTAAACTAAGGCCTCCTTTATAAAAT
* * * * *
248463 AAAAAATCAAAT-CTCTCTAAGCAATATCCCAAGTTGTAAATGTGATTTTTAGTGAATATCTATG
1 AAAAAATCAAATAC-CTCTAAGCAATATCCTAAGTTGAAAATGTGATTTTCAGTAAATATTTATG
** * *
248527 TTATCTAGA---TT-TTTTTT-AAATAGATATATTTCATAGTTTTATTTGATAAATTTAAATACG
65 TTATCTAGATTTTTATTTTTTAAAATATCTATATTTGATAGTTTTATTTGATAAATTTAAATAAG
* * *
248587 AATATGAAAATATAATCTTTTAAATATATAAAAACTTTTTAAAAGAATTTTATGTGGTCACCTTT
130 AATATGAAAGTATAATCTTTTAAATATATAAAAAATTTTTAAAA-AATTTTATGTAGTCACCTTT
* * ** ***
248652 AAGGGGTGGTATTCAAGTTTCAACAAGGATGATGTTTGAATATTAGCATTTGT-AACTTTTTTTT
194 AAGAGGTGGTATTCAAGTTTCAACAAGGATGAAGTTCAAATCCCAGCATTT-TCAACTTTTTTTT
* *
248716 ATCTCTAAA-TCGAGG-CTCTTTTTATAAAAT
258 ATCTCTAAACT-AAGGCCTC-CTTTATAAAAT
* * * *
248746 AAAAAATCAAATACCTCTAAGCAATATCCTAAGTTGAAAATATGATTTGCAGTGAATATCTATGT
1 AAAAAATCAAATACCTCTAAGCAATATCCTAAGTTGAAAATGTGATTTTCAGTAAATATTTATGT
* * **
248811 TATCTAGATTTTTTATTTTTTTGAAATAACTATATTTGATAGTTTTATTCAATAAATTTAAATAA
66 TATCTAGA-TTTTTA-TTTTTTAAAATATCTATATTTGATAGTTTTATTTGATAAATTTAAATAA
* * * * *
248876 GAATATGAAAGTATAATATTTTAAGTATATAAAAAACTTTTTATAAAATTTTATGCAGCCACCTT
129 GAATATGAAAGTATAATCTTTTAAATATATAAAAAA-TTTTTAAAAAATTTTATGTAGTCACCTT
* * *
248941 TAAGGGGTGGTATTCAAGTTTCAATAAGGATGAAGTTCAAATCCCAGTATTTTCAACTTTTTTTT
193 TAAGAGGTGGTATTCAAGTTTCAACAAGGATGAAGTTCAAATCCCAGCATTTTCAACTTTTTTTT
*
249006 -TCTCTAAACTGAGGCCTCCTTTATAAAAT
258 ATCTCTAAACTAAGGCCTCCTTTATAAAAT
* * *
249035 AAAAAATCAAATACATCTAAACAATAT-CTCAAGTTGAAAATGTGATTTTCAATAAATATTTATG
1 AAAAAATCAAATACCTCTAAGCAATATCCT-AAGTTGAAAATGTGATTTTCAGTAAATATTTATG
249099 TTATCTAGATTTTTCATTTTTTAAAAATATCTATATTTGATAGTTTTATTTGATAAATTTAAA-A
65 TTATCTAGATTTTT-ATTTTTT-AAAATATCTATATTTGATAGTTTTATTTGATAAATTTAAATA
* * * * *
249163 ATAAATATGAAAGTATAATCTTTTATATATA-AAAAAAATTTTAAAAAATTTTATGTGGCCACCT
128 A-GAATATGAAAGTATAATCTTTTAAATATATAAAAAATTTTTAAAAAATTTTATGTAGTCACCT
* * *
249227 TTAAGAGGTGGTATTCAAGTTTCAACAATGATGAAGTTCAAATCTCAGCATTTACAACTTTTTTT
192 TTAAGAGGTGGTATTCAAGTTTCAACAAGGATGAAGTTCAAATCCCAGCATTTTCAACTTTTTTT
* * *
249292 TATCTCTAAATTAAGGCCTTCTTTGTAAAAT
257 TATCTCTAAACTAAGGCCTCCTTTATAAAAT
* * *
249323 AAAAGAATCAAATATCTCTAAGCAATATCCTAAGTTGAAAATGTGATTTTCAGTGAATATTTATA
1 AAAA-AATCAAATACCTCTAAGCAATATCCTAAGTTGAAAATGTGATTTTCAGTAAATATTTATG
* * *
249388 TTATCTAGA-TTTT-TTTTTT-AAATATCTATATCTGATAGTTTTATTTGATAAATTTAACTACG
65 TTATCTAGATTTTTATTTTTTAAAATATCTATATTTGATAGTTTTATTTGATAAATTTAAATAAG
* *
249450 AATATGAAAGTATAATC--TTAAA-A-AT-----A---TAAAAAAATTTTATGTAGTTACCTTTA
130 AATATGAAAGTATAATCTTTTAAATATATAAAAAATTTTTAAAAAATTTTATGTAGTCACCTTTA
* * * ** *
249503 AAAGGTAGTATTCAAGTTTCAACAACGATGAAGTTTGAATCCCAGTATTTAT-AACTTTTTTTTA
195 AGAGGTGGTATTCAAGTTTCAACAAGGATGAAGTTCAAATCCCAGCATTT-TCAACTTTTTTTTA
* ** *
249567 TTTCTAAATCT-AGGCCTTTTTTGTAAAAT
259 TCTCTAAA-CTAAGGCCTCCTTTATAAAAT
* * * *
249596 AAAAGATCAAATACCTTTAAGCAACATCCTAAGTTGAAAATGCGATTTTCAGTAAATATTTATGT
1 AAAAAATCAAATACCTCTAAGCAATATCCTAAGTTGAAAATGTGATTTTCAGTAAATATTTATGT
*
249661 TATCTAGATTTTTTATTTTTTTAATATATCTATATTTGATAGTTTTATTTGA-AATATTTAAATA
66 TATCTAGA-TTTTTA-TTTTTTAAAATATCTATATTTGATAGTTTTATTTGATAA-ATTTAAATA
*
249725 TGAATATGAAAGTATAATCTTTTAAATATATAAAAAATTTTTAAAAAATTT
128 AGAATATGAAAGTATAATCTTTTAAATATATAAAAAATTTTTAAAAAATTT
249776 AGCTTAAATA
Statistics
Matches: 1133, Mismatches: 133, Indels: 92
0.83 0.10 0.07
Matches are distributed among these distances:
272 62 0.05
273 106 0.09
274 5 0.00
276 9 0.01
277 53 0.05
279 5 0.00
280 2 0.00
281 3 0.00
282 83 0.07
283 163 0.14
284 57 0.05
285 1 0.00
286 8 0.01
287 145 0.13
288 54 0.05
289 224 0.20
290 145 0.13
291 8 0.01
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (287 bp):
AAAAAATCAAATACCTCTAAGCAATATCCTAAGTTGAAAATGTGATTTTCAGTAAATATTTATGT
TATCTAGATTTTTATTTTTTAAAATATCTATATTTGATAGTTTTATTTGATAAATTTAAATAAGA
ATATGAAAGTATAATCTTTTAAATATATAAAAAATTTTTAAAAAATTTTATGTAGTCACCTTTAA
GAGGTGGTATTCAAGTTTCAACAAGGATGAAGTTCAAATCCCAGCATTTTCAACTTTTTTTTATC
TCTAAACTAAGGCCTCCTTTATAAAAT
Found at i:252018 original size:1 final size:1
Alignment explanation
Indices: 252012--252062 Score: 57
Period size: 1 Copynumber: 51.0 Consensus size: 1
252002 GTTCTTTTCC
* * * * *
252012 TTTTTTTTTTTCTTTTTTTTTCTTTGTTTTGTTTTTTTGTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
252063 AAAAAGAAGG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.00, C:0.04, G:0.06, T:0.90
Consensus pattern (1 bp):
T
Found at i:252028 original size:13 final size:13
Alignment explanation
Indices: 252006--252062 Score: 69
Period size: 13 Copynumber: 4.3 Consensus size: 13
251996 AAGCAGGTTC
*
252006 TTTTCCTTTTTTT
1 TTTTCTTTTTTTT
252019 TTTTCTTTTTTTT
1 TTTTCTTTTTTTT
* *
252032 TCTTTGTTTTGTTT
1 T-TTTCTTTTTTTT
*
252046 TTTTGTTTTTTTT
1 TTTTCTTTTTTTT
252059 TTTT
1 TTTT
252063 AAAAAGAAGG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
13 28 0.72
14 11 0.28
ACGTcount: A:0.00, C:0.07, G:0.05, T:0.88
Consensus pattern (13 bp):
TTTTCTTTTTTTT
Found at i:264433 original size:79 final size:77
Alignment explanation
Indices: 264344--264824 Score: 506
Period size: 79 Copynumber: 6.2 Consensus size: 77
264334 AATAATAGGG
* * *
264344 TTGGAGTATCCCCTCAAAAATAACGGGGTT-GAAGTATCTCCGATTGTGAAAAATCGATGATTTA
1 TTGGAGTATCCCCTCAAAAATAACGGGGTTAG-AGTATCCCCGATT-TGAAAAATTGATGTTTTA
*
264408 GAAATAAAATCGAGA
64 GAAATAAAACCG-GA
* * * * *
264423 TTGGAGTATCCTCTTAAAAATAAGGGGGTTGGAGTATCCCCGACTATGAAAAATTGATGTTTTAG
1 TTGGAGTATCCCCTCAAAAATAACGGGGTTAGAGTATCCCCGA-TTTGAAAAATTGATGTTTTAG
* *
264488 AAATAAAACTGGGG
65 AAATAAAAC-CGGA
* * ** * * * *
264502 TTGAAGTATCCCTTCGGAAATAATGGGGTTAGAGTATCCCCGATTATGAGAAATTAATATTTTAG
1 TTGGAGTATCCCCTCAAAAATAACGGGGTTAGAGTATCCCCGATT-TGAAAAATTGATGTTTTAG
* *
264567 AAATAAAGCCGGGG
65 AAATAAAACC-GGA
* * *
264581 TTGGGGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGA--TGAAAAATTGATGTTTTAGA
1 TTGGAGTATCCCCTCAAAAATAACGGGGTTAGAGTATCCCCGATTTGAAAAATTGATGTTTTAGA
264644 AATAAAACCGGA
66 AATAAAACCGGA
* *
264656 GTTGGGGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCCGA--TGAAAAATTGATGTTTTAG
1 -TTGGAGTATCCCCTCAAAAATAACGGGGTTAGAGTATCCCCGATTTGAAAAATTGATGTTTTAG
264719 AAATAAAACCAAGG-
65 AAATAAAACC--GGA
* * * * * * *
264733 TTGGAGTGTCCCCTCAGAAATAACGAGGTTAGAGTATCCCTGATTGTGAAAAGTCGATGTTTTGG
1 TTGGAGTATCCCCTCAAAAATAACGGGGTTAGAGTATCCCCGATT-TGAAAAATTGATGTTTTAG
*
264798 AAATAAAATCGGA
65 AAATAAAACCGGA
264811 GTTGGAGTATCCCC
1 -TTGGAGTATCCCC
264825 GATTATGGAA
Statistics
Matches: 342, Mismatches: 47, Indels: 26
0.82 0.11 0.06
Matches are distributed among these distances:
75 2 0.01
76 133 0.39
77 2 0.01
78 3 0.01
79 199 0.58
80 3 0.01
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (77 bp):
TTGGAGTATCCCCTCAAAAATAACGGGGTTAGAGTATCCCCGATTTGAAAAATTGATGTTTTAGA
AATAAAACCGGA
Found at i:264694 original size:155 final size:154
Alignment explanation
Indices: 264343--264824 Score: 551
Period size: 155 Copynumber: 3.1 Consensus size: 154
264333 TAATAATAGG
* * * *
264343 GTTGGAGTATCCCCTCAAAAATAACGGGGTT-GAAGTATCTCCGATTGTGAAAAATCGATGA-TT
1 GTTGGAGTATCCCCTCGAAAATAACGGGGTTAG-AGTATCCCCGATTATGAAAAATTGAT-ATTT
* * * * *
264406 TAGAAATAAAATCGAGATTGGAGTATCCTCTTAAAAATAAGGGGGTTGGAGTATCCCCGACTATG
64 TAGAAATAAAACCGAGGTTGGAGTATCC-CCTCAAAATAACGGGGTTGGAGTATCCCCG---ATG
* *
264471 AAAAATTGATGTTTTAGAAATAAAACTGGG
125 AAAAATTGATGTTTTAGAAATAAAACCGGA
* * * * * *
264501 GTTGAAGTATCCCTTCGGAAATAATGGGGTTAGAGTATCCCCGATTATGAGAAATTAATATTTTA
1 GTTGGAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCCGATTATGAAAAATTGATATTTTA
* * *
264566 GAAATAAAGCCGGGGTTGGGGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAAAA
66 GAAATAAAACCGAGGTTGGAGTATCCCCTC-AAAATAACGGGGTTGGAGTATCCCCGATGAAAAA
264631 TTGATGTTTTAGAAATAAAACCGGA
130 TTGATGTTTTAGAAATAAAACCGGA
* *
264656 GTTGGGGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCCG---ATGAAAAATTGATGTTTTA
1 GTTGGAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCCGATTATGAAAAATTGATATTTTA
* * * * *
264718 GAAATAAAACCAAGGTTGGAGTGTCCCCTCAGAAATAACGAGGTTAGAGTATCCCTGATTGTGAA
66 GAAATAAAACCGAGGTTGGAGTATCCCCTCA-AAATAACGGGGTTGGAGTATCCCCGA---TGAA
* * * *
264783 AAGTCGATGTTTTGGAAATAAAATCGGA
127 AAATTGATGTTTTAGAAATAAAACCGGA
264811 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
264825 GATTATGGAA
Statistics
Matches: 276, Mismatches: 41, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
151 1 0.00
152 64 0.23
155 110 0.40
157 3 0.01
158 97 0.35
159 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (154 bp):
GTTGGAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCCGATTATGAAAAATTGATATTTTA
GAAATAAAACCGAGGTTGGAGTATCCCCTCAAAATAACGGGGTTGGAGTATCCCCGATGAAAAAT
TGATGTTTTAGAAATAAAACCGGA
Found at i:264822 original size:51 final size:50
Alignment explanation
Indices: 264764--264936 Score: 206
Period size: 51 Copynumber: 3.4 Consensus size: 50
264754 AACGAGGTTA
* *
264764 GAGTATCCCTGATTGTGAAAAGTCGATGTTTTGGAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTATGAAAA-TCGATGTTTTGGAAATAAAATCGGAGTTG
* * *
264815 GAGTATCCCCGATTATGGAAAATGGGTGTTTTAGAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTAT-GAAAATCGATGTTTTGGAAATAAAATCGGAGTTG
* * * *
264866 GAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATGAAA-CCGAGATTG
1 GAGTATCCCCGATTATG-AAAATCGATGTTTTGGAAATAAAATCGGAG-TTG
*
264917 GAGTATCCCCGA-GATGAAAA
1 GAGTATCCCCGATTATGAAAA
264937 ATCTAGAAAT
Statistics
Matches: 106, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
49 4 0.04
50 7 0.07
51 90 0.85
52 5 0.05
ACGTcount: A:0.35, C:0.12, G:0.26, T:0.28
Consensus pattern (50 bp):
GAGTATCCCCGATTATGAAAATCGATGTTTTGGAAATAAAATCGGAGTTG
Found at i:267254 original size:20 final size:19
Alignment explanation
Indices: 267229--267405 Score: 114
Period size: 20 Copynumber: 8.8 Consensus size: 19
267219 AAAATGCCTG
*
267229 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AA
*
267249 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
267269 AATGTATCGAT---AT---
1 AATGTATCGATACAATGAA
*
267282 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
*
267302 AATGTATCTATACAATGCAA
1 AATGTATCGATACAATG-AA
*
267322 AATGTATCGATACATCTGGGTAAACCTA
1 AATGTATCGATACA-AT--G---A---A
*
267350 GAATGTATCGATACAATGAGC
1 -AATGTATCGATACAATGA-A
267371 AATGTATCGATACAATGAA
1 AATGTATCGATACAATGAA
267390 CAATGTATCGATACAA
1 -AATGTATCGATACAA
267406 ATTGTGAAAA
Statistics
Matches: 127, Mismatches: 11, Indels: 38
0.72 0.06 0.22
Matches are distributed among these distances:
13 11 0.09
16 2 0.02
17 2 0.02
19 1 0.01
20 89 0.70
21 2 0.02
23 2 0.02
25 1 0.01
26 1 0.01
28 2 0.02
29 14 0.11
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:267287 original size:13 final size:13
Alignment explanation
Indices: 267268--267298 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
267258 ATACAATGAG
267268 CAATGTATCGATA
1 CAATGTATCGATA
*
267281 TAATGTATCGATA
1 CAATGTATCGATA
267294 CAATG
1 CAATG
267299 AGCAATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:267291 original size:33 final size:33
Alignment explanation
Indices: 267249--267318 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
267239 TACATTGTAA
*
267249 AATGTATCGATACAATGAGCAATGTATCGATAT
1 AATGTATCGATACAATGAGCAATGTATCGATAC
*
267282 AATGTATCGATACAATGAGCAATGTATCTATAC
1 AATGTATCGATACAATGAGCAATGTATCGATAC
267315 AATG
1 AATG
267319 CAAAATGTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (33 bp):
AATGTATCGATACAATGAGCAATGTATCGATAC
Found at i:267291 original size:53 final size:53
Alignment explanation
Indices: 267229--267333 Score: 142
Period size: 53 Copynumber: 2.0 Consensus size: 53
267219 AAAATGCCTG
* *
267229 AATGTATCGATACATTGTA-AAATGTATCGATACAATG-AGCAATGTATCGATAT
1 AATGTATCGATACAATG-AGAAATGTATCGATACAATGCA-AAATGTATCGATAT
* *
267282 AATGTATCGATACAATGAGCAATGTATCTATACAATGCAAAATGTATCGATA
1 AATGTATCGATACAATGAGAAATGTATCGATACAATGCAAAATGTATCGATA
267334 CATCTGGGTA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
52 1 0.02
53 44 0.96
54 1 0.02
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.30
Consensus pattern (53 bp):
AATGTATCGATACAATGAGAAATGTATCGATACAATGCAAAATGTATCGATAT
Found at i:272717 original size:20 final size:20
Alignment explanation
Indices: 272694--272844 Score: 137
Period size: 20 Copynumber: 8.6 Consensus size: 20
272684 CACACCTAGA
272694 TGTATCGATACAAATTGCAT
1 TGTATCGATACAAATTGCAT
272714 TGTATCGAT----A---CAT
1 TGTATCGATACAAATTGCAT
272727 TGTATCGATACAAATTGCAT
1 TGTATCGATACAAATTGCAT
272747 TGTATCGAT----A---CAT
1 TGTATCGATACAAATTGCAT
272760 TGTATCGATACAAATTGCAT
1 TGTATCGATACAAATTGCAT
272780 TGTATCGAT----A---CAT
1 TGTATCGATACAAATTGCAT
272793 TGTATCGATACAAATTGCAT
1 TGTATCGATACAAATTGCAT
* *
272813 TGTATCGATACAACTTGCTT
1 TGTATCGATACAAATTGCAT
272833 TGTATCGATACA
1 TGTATCGATACA
272845 CTATGAAATT
Statistics
Matches: 108, Mismatches: 2, Indels: 42
0.71 0.01 0.28
Matches are distributed among these distances:
13 36 0.33
16 3 0.03
17 3 0.03
20 66 0.61
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.36
Consensus pattern (20 bp):
TGTATCGATACAAATTGCAT
Found at i:272729 original size:13 final size:13
Alignment explanation
Indices: 272711--272804 Score: 68
Period size: 13 Copynumber: 8.2 Consensus size: 13
272701 ATACAAATTG
272711 CATTGTATCGATA
1 CATTGTATCGATA
272724 CATTGTATCGATA
1 CATTGTATCGATA
* *
272737 CA---AAT---TG
1 CATTGTATCGATA
272744 CATTGTATCGATA
1 CATTGTATCGATA
272757 CATTGTATCGATA
1 CATTGTATCGATA
* *
272770 CA---AAT---TG
1 CATTGTATCGATA
272777 CATTGTATCGATA
1 CATTGTATCGATA
272790 CATTGTATCGATA
1 CATTGTATCGATA
272803 CA
1 CA
272805 AATTGCATTG
Statistics
Matches: 61, Mismatches: 8, Indels: 24
0.66 0.09 0.26
Matches are distributed among these distances:
7 6 0.10
10 8 0.13
13 47 0.77
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:272736 original size:33 final size:33
Alignment explanation
Indices: 272694--272824 Score: 262
Period size: 33 Copynumber: 4.0 Consensus size: 33
272684 CACACCTAGA
272694 TGTATCGATACAAATTGCATTGTATCGATACAT
1 TGTATCGATACAAATTGCATTGTATCGATACAT
272727 TGTATCGATACAAATTGCATTGTATCGATACAT
1 TGTATCGATACAAATTGCATTGTATCGATACAT
272760 TGTATCGATACAAATTGCATTGTATCGATACAT
1 TGTATCGATACAAATTGCATTGTATCGATACAT
272793 TGTATCGATACAAATTGCATTGTATCGATACA
1 TGTATCGATACAAATTGCATTGTATCGATACA
272825 ACTTGCTTTG
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 98 1.00
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (33 bp):
TGTATCGATACAAATTGCATTGTATCGATACAT
Found at i:272781 original size:53 final size:54
Alignment explanation
Indices: 272724--272844 Score: 142
Period size: 53 Copynumber: 2.3 Consensus size: 54
272714 TGTATCGATA
* *
272724 CATTGTATCGATACAAATTGCATTG-TATC-GA-TACATTGTATCGATACAAATTG
1 CATTGTATCGATAC-AATTGCATCGATA-CAAATTACATTGTATCGATACAAATTG
* * *
272777 CATTGTATCGATAC-ATTGTATCGATACAAATTGCATTGTATCGATACAACTTG
1 CATTGTATCGATACAATTGCATCGATACAAATTACATTGTATCGATACAAATTG
*
272830 CTTTGTATCGATACA
1 CATTGTATCGATACA
272845 CTATGAAATT
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
51 8 0.14
52 3 0.05
53 47 0.81
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (54 bp):
CATTGTATCGATACAATTGCATCGATACAAATTACATTGTATCGATACAAATTG
Found at i:275086 original size:20 final size:19
Alignment explanation
Indices: 275022--275093 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 19
275012 CTGTAATTTC
** *
275022 ATGTATCGATACAATTTACT
1 ATGTATCGATACAA-AGAAT
* * *
275042 ATGTGTCGATACCAAGAAC
1 ATGTATCGATACAAAGAAT
275061 ATGTATCGATACAAAGCAAT
1 ATGTATCGATACAAAG-AAT
275081 ATGTATCGATACA
1 ATGTATCGATACA
275094 TCTGGGTGTG
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
19 15 0.36
20 27 0.64
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (19 bp):
ATGTATCGATACAAAGAAT
Found at i:276698 original size:22 final size:22
Alignment explanation
Indices: 276670--276713 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
276660 ATCATGAGGA
* *
276670 GGGAGGAGAGTGGCTTTGTCAT
1 GGGAGGAAAATGGCTTTGTCAT
276692 GGGAGGAAAATGGCTTTGTCAT
1 GGGAGGAAAATGGCTTTGTCAT
276714 TGGGTGTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.09, G:0.41, T:0.27
Consensus pattern (22 bp):
GGGAGGAAAATGGCTTTGTCAT
Found at i:277724 original size:13 final size:13
Alignment explanation
Indices: 277706--277746 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
277696 CAAATAGTGC
277706 CTTTGTATCGATA
1 CTTTGTATCGATA
277719 CTTTGTATCGATA
1 CTTTGTATCGATA
** *
277732 CAATGTATCAATA
1 CTTTGTATCGATA
277745 CT
1 CT
277747 AAGATCCTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.41
Consensus pattern (13 bp):
CTTTGTATCGATA
Found at i:281800 original size:13 final size:13
Alignment explanation
Indices: 281778--281814 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
281768 ATAGTGCCCT
* *
281778 TGTATTGATACAG
1 TGTATCGATACAA
281791 TGTATCGATACAA
1 TGTATCGATACAA
281804 TGTATCGATAC
1 TGTATCGATAC
281815 TAAGATCCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:292186 original size:12 final size:13
Alignment explanation
Indices: 292171--292209 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 13
292161 TAATTAAATT
292171 AATTATAAAAT-A
1 AATTATAAAATCA
292183 AATT-TAAAATCA
1 AATTATAAAATCA
292195 AATTA-AAAATCA
1 AATTATAAAATCA
292207 AAT
1 AAT
292210 ATATTTTATG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 6 0.24
12 19 0.76
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (13 bp):
AATTATAAAATCA
Found at i:292726 original size:21 final size:22
Alignment explanation
Indices: 292692--292747 Score: 96
Period size: 21 Copynumber: 2.6 Consensus size: 22
292682 AATCACTATT
292692 CATCACTGTTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
*
292714 CATCACT-TTCATGTTTCGATA
1 CATCACTGTTCATGTATCGATA
292735 CATCACTGTTCAT
1 CATCACTGTTCAT
292748 CGCTGTTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 20 0.62
22 12 0.38
ACGTcount: A:0.25, C:0.25, G:0.11, T:0.39
Consensus pattern (22 bp):
CATCACTGTTCATGTATCGATA
Found at i:301130 original size:42 final size:42
Alignment explanation
Indices: 301071--301152 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
301061 ATTTTCGACT
* * * *
301071 TAAATCTAAAGTTTAAAACCTTTAATTAGATAAACAAATACA
1 TAAATATAAAGTTTAAAAACTTCAATTAAATAAACAAATACA
*
301113 TAAATATACAGTTTAAAAACTTCAATTAAATAAACAAATA
1 TAAATATAAAGTTTAAAAACTTCAATTAAATAAACAAATA
301153 TTTTAATAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.55, C:0.11, G:0.04, T:0.30
Consensus pattern (42 bp):
TAAATATAAAGTTTAAAAACTTCAATTAAATAAACAAATACA
Found at i:302550 original size:13 final size:13
Alignment explanation
Indices: 302532--302557 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
302522 CAATTTTTTG
302532 TGTATCGATACAT
1 TGTATCGATACAT
302545 TGTATCGATACAT
1 TGTATCGATACAT
302558 ACTTTGTGTA
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:302569 original size:32 final size:33
Alignment explanation
Indices: 302512--302575 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
302502 TACAAGCCAA
**
302512 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
302545 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
302576 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:304737 original size:23 final size:24
Alignment explanation
Indices: 304692--304738 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
304682 CAAAGAACTG
*
304692 AACACAAATTCAATTAAGCACAAA
1 AACACAAATTCAATTAAGAACAAA
304716 AACACAAA-TCAATTGAA-AACAAA
1 AACACAAATTCAATT-AAGAACAAA
304739 TTTTCAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.15
Consensus pattern (24 bp):
AACACAAATTCAATTAAGAACAAA
Found at i:307856 original size:13 final size:13
Alignment explanation
Indices: 307838--307863 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
307828 CAATTTTTTG
307838 TGTATCGATACAT
1 TGTATCGATACAT
307851 TGTATCGATACAT
1 TGTATCGATACAT
307864 ACTATGTGTA
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:307877 original size:32 final size:33
Alignment explanation
Indices: 307818--307881 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
307808 TACAAGCCAA
** *
307818 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTATGTGTATCGATACAT
307851 TGTATCGATAC-ATACTATGTGTATCGATACA
1 TGTATCGATACAATACTATGTGTATCGATACA
307882 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTATGTGTATCGATACAT
Found at i:310809 original size:20 final size:19
Alignment explanation
Indices: 310786--310849 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 19
310776 TCTATCGATG
310786 CATATGAAAATGTATCGACA
1 CATATG-AAATGTATCGACA
* *
310806 CATATTGTAATGTATCGATA
1 CATA-TGAAATGTATCGACA
* *
310826 CATCATGTGAAGGTATCGACA
1 CAT-ATG-AAATGTATCGACA
310847 CAT
1 CAT
310850 TTCATTGGCA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
20 20 0.56
21 16 0.44
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.30
Consensus pattern (19 bp):
CATATGAAATGTATCGACA
Found at i:310997 original size:62 final size:62
Alignment explanation
Indices: 310916--311053 Score: 258
Period size: 62 Copynumber: 2.2 Consensus size: 62
310906 ACAATTCCAG
*
310916 AATGTATCGATACATTAAGTTCAACGGCTAGTTTTTTAAAGCTATATATCGACACAATAAGT
1 AATGTATCGATACATTAAGTTCAACGACTAGTTTTTTAAAGCTATATATCGACACAATAAGT
*
310978 AATGTATCGATACATTAAGTTCAACGACTAGTTTTTTAAAGCTATATATCGATACAATAAGT
1 AATGTATCGATACATTAAGTTCAACGACTAGTTTTTTAAAGCTATATATCGACACAATAAGT
311040 AATGTATCGATACA
1 AATGTATCGATACA
311054 ATGTCACAAG
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 74 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (62 bp):
AATGTATCGATACATTAAGTTCAACGACTAGTTTTTTAAAGCTATATATCGACACAATAAGT
Found at i:311802 original size:38 final size:38
Alignment explanation
Indices: 311751--311829 Score: 140
Period size: 38 Copynumber: 2.1 Consensus size: 38
311741 TCATTTATCG
*
311751 GATTAACACCCTTGAGAAAAGATCTTTATTAGCTCATA
1 GATTAACACCCTTGAGAAAAGATCTTTATTAGCTCAAA
*
311789 GATTAGCACCCTTGAGAAAAGATCTTTATTAGCTCAAA
1 GATTAACACCCTTGAGAAAAGATCTTTATTAGCTCAAA
311827 GAT
1 GAT
311830 GGAGAATACG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (38 bp):
GATTAACACCCTTGAGAAAAGATCTTTATTAGCTCAAA
Found at i:320148 original size:20 final size:20
Alignment explanation
Indices: 320122--320176 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
320112 AAAAAGACAG
*
320122 AATGTATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* * *
320142 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCAAA
*
320162 AATGTATTGATACAT
1 AATGTATCGATACAT
320177 CTAGGTAAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Done.