Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 373 of 425
Found at i:114846089 original size:75 final size:75
Alignment explanation
Indices: 114845702--114846125 Score: 538
Period size: 77 Copynumber: 5.6 Consensus size: 75
114845692 AGTGTGTGAT
*
114845702 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAGACAGAAATTGAAAATAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAA-ACAGAAATTGAAAATAC
*
114845766 CTCAGCATGTGAAC
65 CTCAGC--GTG-TC
* *
114845780 C-GAGGCTCAACTCACCTCTCACAATATAAGTTGA--TTTTTTGAAAACAGAAATTGAAAATACC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAACAGAAATTGAAAATACC
*
114845842 TCAACGTGTC
66 TCAGCGTGTC
* ** * * *
114845852 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA---ATTTTGAAAACAGAATTTGAAATTACC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAACAGAAATTGAAAATACC
114845914 TCAGCGTGTC
66 TCAGCGTGTC
*
114845924 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAGACAGAAATTGAAAATA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTTGAAA-ACAGAAATTGAAAATA
*
114845989 CCTCAGCATGTC
64 CCTCAGCGTGTC
* ** * * *
114846001 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTACAACAGAAATTGAAATTACC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAACAGAAATTGAAAATACC
*
114846066 TTAGCGTGTC
66 TCAGCGTGTC
*
114846076 CTGAGGCTAAACTCACCTCTCGCAATATGAGTTGAATTTTTTTTTGAAAA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-A-TTTTTTTTGAAAA
114846126 ATATAAATTT
Statistics
Matches: 301, Mismatches: 37, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
72 65 0.22
73 32 0.11
75 77 0.26
76 29 0.10
77 97 0.32
78 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (75 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAACAGAAATTGAAAATACC
TCAGCGTGTC
Found at i:114846265 original size:74 final size:74
Alignment explanation
Indices: 114846144--114846364 Score: 264
Period size: 74 Copynumber: 3.0 Consensus size: 74
114846134 TTAAAAGTAG
* * * * * * *
114846144 AAATTGAAATTAACTCAACGTGCCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTTGA-TTTTT
1 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
114846208 TGAAAGACAA
66 TGAAA-ACAA
* **
114846218 AAATTGAAAATACCTCAGCATGTTTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTT
* * *
114846283 TTTTACAACAG
64 TTTGAAAACAA
* * *
114846294 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
114846359 TGAAAA
66 TGAAAA
114846365 ATATAAATTT
Statistics
Matches: 123, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
74 59 0.48
76 56 0.46
77 8 0.07
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (74 bp):
AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
TGAAAACAA
Found at i:114846436 original size:239 final size:241
Alignment explanation
Indices: 114845893--114846521 Score: 1029
Period size: 239 Copynumber: 2.6 Consensus size: 241
114845883 TTGAATTTTG
* * * * *
114845893 AAAA-CAGAATTTGAAATTACCTCAGCGTGTCC-CGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAGCAGAAATTGAAATTACCTCAACGTG-CCTTGAGGCTCAACTTACCTCTCGCAGTATGAGT
* *
114845956 TGATTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCT
65 TGA---TTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTTTTGAGGCTCAACTCATTTCT
*
114846021 CGCAATATGAGTTGA-TTTTTTTTTACAACAGAAATTGAAATTACCTTAGCGTGTCCTGAGGCTA
127 CGCAATATGAGTTGATTTTTTTTTTACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTA
114846085 AACTCACCTCTCGCAATATGAGTTGAATTTTTTTTTGAAAAATATAAATTT
192 AACTCACCTCTCGCAATATGAGTTGAA-TTTTTTTTGAAAAATATAAATTT
* *
114846136 AAAAGTAGAAATTGAAATTAACTCAACGTGCCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTT
1 AAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTT
114846201 GATTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTTTTGAGGCTCAACTCATTTCTCGCA
66 GATTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTTTTGAGGCTCAACTCATTTCTCGCA
*
114846266 ATATGAGTTGATTTTTTTTTTACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACT
131 ATATGAGTTGATTTTTTTTTTACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTAAACT
114846331 CACCTCTCGCAATATGAGTTG-A-TTTTTTTGAAAAATATAAATTT
196 CACCTCTCGCAATATGAGTTGAATTTTTTTTGAAAAATATAAATTT
114846375 AAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTT
1 AAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTT
**
114846440 GATTTTTTGAAAGACAAAAATTGAAAATACCTCA--ATGTGTCTTGAGGCTCAACTCACCTCTCG
66 GATTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGT-T-TTGAGGCTCAACTCATTTCTCG
114846503 CAATATGAGTTGATTTTTT
129 CAATATGAGTTGATTTTTT
114846522 GAAACAGAAA
Statistics
Matches: 366, Mismatches: 15, Indels: 14
0.93 0.04 0.04
Matches are distributed among these distances:
237 4 0.01
238 1 0.00
239 158 0.43
241 73 0.20
242 72 0.20
243 6 0.02
244 52 0.14
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.33
Consensus pattern (241 bp):
AAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTT
GATTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTTTTGAGGCTCAACTCATTTCTCGCA
ATATGAGTTGATTTTTTTTTTACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTAAACT
CACCTCTCGCAATATGAGTTGAATTTTTTTTGAAAAATATAAATTT
Found at i:114846472 original size:74 final size:74
Alignment explanation
Indices: 114846383--114846525 Score: 241
Period size: 74 Copynumber: 1.9 Consensus size: 74
114846373 TTAAAAGCAG
* * *
114846383 AAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
114846448 GAAAGACAA
66 GAAAGACAA
* *
114846457 AAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
114846522 GAAA
66 GAAA
114846526 CAGAAATAAA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 64 1.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (74 bp):
AAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
GAAAGACAA
Found at i:114846517 original size:163 final size:162
Alignment explanation
Indices: 114846218--114846525 Score: 429
Period size: 163 Copynumber: 1.9 Consensus size: 162
114846208 TGAAAGACAA
* ** **
114846218 AAATTGAAAATACCTCAGCATGTTTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACATGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTT
* * * * *
114846283 TTTTACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
64 TTTGAAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
114846348 GTTGATTTTTTTGAAAAATATAAATTTAAAAGCAG
129 GTTGA-TTTTTTGAAAAATATAAATTTAAAAGCAG
* * * *
114846383 AAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTTGA-TTTTT
1 AAATTGAAAATACCTCAACATGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* *
114846447 TGAAAGACAAAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
66 TGAAA-ACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
114846512 TTGATTTTTTGAAA
130 TTGATTTTTTGAAA
114846526 CAGAAATAAA
Statistics
Matches: 126, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
162 18 0.14
163 58 0.46
165 50 0.40
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (162 bp):
AAATTGAAAATACCTCAACATGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
TGAAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTGAAAAATATAAATTTAAAAGCAG
Found at i:114854329 original size:12 final size:12
Alignment explanation
Indices: 114854307--114854342 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
114854297 TGGGATATGC
*
114854307 AATGAATGAATG
1 AATGCATGAATG
*
114854319 GATGCATGAATG
1 AATGCATGAATG
114854331 AATGCATGAATG
1 AATGCATGAATG
114854343 TCAAATGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.42, C:0.06, G:0.28, T:0.25
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:114854329 original size:16 final size:17
Alignment explanation
Indices: 114854303--114854334 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
114854293 AGTATGGGAT
114854303 ATGCAATGAATGAATGG
1 ATGCAATGAATGAATGG
114854320 ATGC-ATGAATGAATG
1 ATGCAATGAATGAATG
114854335 CATGAATGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.41, C:0.06, G:0.28, T:0.25
Consensus pattern (17 bp):
ATGCAATGAATGAATGG
Found at i:114864199 original size:127 final size:127
Alignment explanation
Indices: 114863916--114864278 Score: 582
Period size: 127 Copynumber: 2.8 Consensus size: 127
114863906 TTCGAGTTTG
*
114863916 TTAAGATTCACTCGTTCCAAAGGAATTAAATACCACATCCAGCACGTTAGGACACGATATTTTAA
1 TTAAGATTCACTCGTTCCAAAGGAATAAAATACCACATCCAGCACGTTAGGACACGATATTTTAA
* * * * **
114863981 ACTTCCAAAAAAAACTGAGATCACCTCATGATTTTCAAAACACACAAAACAACTCAAGTTGGATT
66 GCCTCC---AAAAACTGAGATCACCTCATGATTTCCAAAACACGCAAAACAACTCAAGTTAAATT
* *
114864046 TTAAGATTCACTCGTTCCAAAGGAATAAAATACCACATCCAGCAAGTTAGGACACGGTATTTTAA
1 TTAAGATTCACTCGTTCCAAAGGAATAAAATACCACATCCAGCACGTTAGGACACGATATTTTAA
* **
114864111 GCCTCCAAAAACTGAGATCACCTCATAATTTCCAAAACACGGGAAACAACTCAAGTTAAATT
66 GCCTCCAAAAACTGAGATCACCTCATGATTTCCAAAACACGCAAAACAACTCAAGTTAAATT
*
114864173 TTAAGATTCACTCGTTCCAAATGAATAAAATACCACATCCAGCACGTTAGGACACGATATTTTAA
1 TTAAGATTCACTCGTTCCAAAGGAATAAAATACCACATCCAGCACGTTAGGACACGATATTTTAA
114864238 GCCTCCAAAAACTGAGATCACCTCATGATTTCCAAAACACG
66 GCCTCCAAAAACTGAGATCACCTCATGATTTCCAAAACACG
114864279 AAACGAAAAT
Statistics
Matches: 217, Mismatches: 16, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
127 151 0.70
130 66 0.30
ACGTcount: A:0.40, C:0.23, G:0.12, T:0.25
Consensus pattern (127 bp):
TTAAGATTCACTCGTTCCAAAGGAATAAAATACCACATCCAGCACGTTAGGACACGATATTTTAA
GCCTCCAAAAACTGAGATCACCTCATGATTTCCAAAACACGCAAAACAACTCAAGTTAAATT
Found at i:114864967 original size:29 final size:30
Alignment explanation
Indices: 114864893--114864963 Score: 96
Period size: 27 Copynumber: 2.5 Consensus size: 30
114864883 AAAAAAGCCC
*
114864893 AAAT-TATACATAAATAAATTTTAAAGAGA
1 AAATATATACATAAATAAATTTTAAAGAAA
114864922 AAATATATACAT-AATAAA-TTTAAA-AAA
1 AAATATATACATAAATAAATTTTAAAGAAA
*
114864949 AAATATTTACATAAA
1 AAATATATACATAAA
114864964 ATAATATGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
27 13 0.34
28 8 0.21
29 10 0.26
30 7 0.18
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (30 bp):
AAATATATACATAAATAAATTTTAAAGAAA
Found at i:114866524 original size:45 final size:45
Alignment explanation
Indices: 114866429--114866525 Score: 108
Period size: 45 Copynumber: 2.2 Consensus size: 45
114866419 GATGGCTTAA
* * * * *
114866429 ATCTGCTCCATAGCCGATACATGGGGATAAGACTCACCATTTTTT
1 ATCTGCTCCATAGCCGACACATAGAGATAAGACTCACCAATTTTC
*
114866474 ATCTGCTCCATAGCTGACACATAGAGATAAGA-TC-CGCAATTTTC
1 ATCTGCTCCATAGCCGACACATAGAGATAAGACTCAC-CAATTTTC
114866518 AGTCTGCT
1 A-TCTGCT
114866526 TCCTGCAACT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
43 1 0.02
44 9 0.20
45 34 0.77
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (45 bp):
ATCTGCTCCATAGCCGACACATAGAGATAAGACTCACCAATTTTC
Found at i:114866662 original size:177 final size:177
Alignment explanation
Indices: 114866403--114867168 Score: 1100
Period size: 177 Copynumber: 4.3 Consensus size: 177
114866393 CACTGTAAAT
* * * * * * *
114866403 TCAGGGAGATAAAGTTGATGGCTTAAATCTGCTCCATAGCCGATACATGGGGATAAGACTCACCA
1 TCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCA
* * * * * * *
114866468 TTTTTTATCTGCTCCATAGCTGACACATAGAGATAAGATCCGCAATTTTCAGTCTGCTTCCTGCA
66 TTTTCTATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTCAGTCTGCTTCCTGCA
* * *
114866533 ACTTCAGGAAGATAAGACATGTACCTTCAACCCGCTCTCTTGTTACC
131 ACTTCAGGAAGATAAGACCTGTATCTTCAACCTGCTCTCTTGTTACC
* *
114866580 TCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATAGCCGATACATAGAGATAAGACTCGCCA
1 TCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCA
* * * * *
114866645 TTTTCGATCTACTCCATAGCTGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCTTGCA
66 TTTTCTATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTCAGTCTGCTTCCTGCA
* * * *
114866710 ACTTCAAGAAAATAAGACCTGTATCTTCAACCTGCTATCTTGCTACC
131 ACTTCAGGAAGATAAGACCTGTATCTTCAACCTGCTCTCTTGTTACC
* *
114866757 TCAGAGAGATAAGGCTGGTGGTTAAAATCTACTCCATAGCCGATACATGGAGATAAGACTCGCCA
1 TCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCA
114866822 TTTTCTATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTCAGTCTGCTTCCTGCA
66 TTTTCTATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTCAGTCTGCTTCCTGCA
*
114866887 ACTTCAGGAAGATAAAACCTGTATCTTCAACCTGCTCTCTTGTTACC
131 ACTTCAGGAAGATAAGACCTGTATCTTCAACCTGCTCTCTTGTTACC
* * * *
114866934 CCAGAGAGATAAGGCTGGTGGCTAAAATCTGTTCTATAGCCGATACATGAAGATAAGACTCGCCA
1 TCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCA
* * *
114866999 TTTTTTATCTGCTCCATAGCCAATACATGGAGATAAGATCTGTAACTTTCAGTCTACTTCCTGCA
66 TTTTCTATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTCAGTCTGCTTCCTGCA
* * *
114867064 ACTTTAGCAAGATAAGATCTGTATCTTCAACCTGCTCTCTTGTTACC
131 ACTTCAGGAAGATAAGACCTGTATCTTCAACCTGCTCTCTTGTTACC
* * * * * * *
114867111 TTAAAAAGATAAGGCTGATGGCTAAAATTTGCTCTATAGCCGATATATGGAGATAAGA
1 TCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGA
114867169 TCTGTAATTT
Statistics
Matches: 529, Mismatches: 60, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
177 529 1.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (177 bp):
TCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCA
TTTTCTATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTCAGTCTGCTTCCTGCA
ACTTCAGGAAGATAAGACCTGTATCTTCAACCTGCTCTCTTGTTACC
Found at i:114868275 original size:15 final size:16
Alignment explanation
Indices: 114868255--114868284 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
114868245 TCGACTTCTC
114868255 CTTCTT-TTTTTTTTT
1 CTTCTTCTTTTTTTTT
114868270 CTTCTTCTTTTTTTT
1 CTTCTTCTTTTTTTT
114868285 AGGTGCCCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (16 bp):
CTTCTTCTTTTTTTTT
Found at i:114868276 original size:18 final size:18
Alignment explanation
Indices: 114868250--114868284 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
114868240 TCCCCTCGAC
114868250 TTCTCCTTCTTTTTTTTT
1 TTCTCCTTCTTTTTTTTT
*
114868268 TTCTTCTTCTTTTTTTT
1 TTCTCCTTCTTTTTTTT
114868285 AGGTGCCCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (18 bp):
TTCTCCTTCTTTTTTTTT
Found at i:114878538 original size:127 final size:127
Alignment explanation
Indices: 114878270--114878630 Score: 569
Period size: 127 Copynumber: 2.8 Consensus size: 127
114878260 TTCGAGTTTG
** * * *
114878270 TTAAGATTCACTTATTCCAAAAGAATTAAATACCACATCCAGCACGTTAGGACACTATATTTTAA
1 TTAAGATTCACTCGTTCCAAAGGAATAAAATACCACATCCAGCACGTTAGGACACGATATTTTAA
* * *
114878335 ACTTCCAAAAAAAACTGAGATCACCTCATGATTTCCAAAACATGCGAAACAACTCAAGTTAGATT
66 GCCTCC---AAAAACTGAGATCACCTCATGATTTCCAAAACACGCGAAACAACTCAAGTTAGATT
*
114878400 TTAAGATTCACTCGTTCCAAAGGAATAAAATACCACATCCAGCACGTTGGGACACGATATTTTAA
1 TTAAGATTCACTCGTTCCAAAGGAATAAAATACCACATCCAGCACGTTAGGACACGATATTTTAA
* * *
114878465 GCCTCCAAATACTGAGATCACCTCATGATTTCCAAAACACGCGAAAGAACTCAAGTTGGATT
66 GCCTCCAAAAACTGAGATCACCTCATGATTTCCAAAACACGCGAAACAACTCAAGTTAGATT
*
114878527 TTAAGATTCACTCGTTCCAAAGGAATAAAATACCACATCCAGCACGTTAGGACATGATATTTTAA
1 TTAAGATTCACTCGTTCCAAAGGAATAAAATACCACATCCAGCACGTTAGGACACGATATTTTAA
*
114878592 GCCTCCAAAAACTGAGATCACCTCATGATTTTCAAAACA
66 GCCTCCAAAAACTGAGATCACCTCATGATTTCCAAAACA
114878631 TGAGACGAAA
Statistics
Matches: 215, Mismatches: 16, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
127 152 0.71
130 63 0.29
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (127 bp):
TTAAGATTCACTCGTTCCAAAGGAATAAAATACCACATCCAGCACGTTAGGACACGATATTTTAA
GCCTCCAAAAACTGAGATCACCTCATGATTTCCAAAACACGCGAAACAACTCAAGTTAGATT
Found at i:114879320 original size:29 final size:30
Alignment explanation
Indices: 114879246--114879316 Score: 96
Period size: 27 Copynumber: 2.5 Consensus size: 30
114879236 AAGAAAGCCC
114879246 AAAT-TATACATAAATAAATTTTAAAGAGA
1 AAATATATACATAAATAAATTTTAAAGAGA
*
114879275 ATATATATACAT-AATAAA-TTTAAA-AGA
1 AAATATATACATAAATAAATTTTAAAGAGA
*
114879302 AAATATTTACATAAA
1 AAATATATACATAAA
114879317 ATAATATGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
27 13 0.35
28 8 0.22
29 9 0.24
30 7 0.19
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.32
Consensus pattern (30 bp):
AAATATATACATAAATAAATTTTAAAGAGA
Found at i:114881879 original size:23 final size:23
Alignment explanation
Indices: 114881853--114881900 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
114881843 CTGAAACAAA
*
114881853 TAAATATAGTTTAACTGGGAGAT
1 TAAATAGAGTTTAACTGGGAGAT
114881876 TAAATAGAGTTTAACTGGGAGAT
1 TAAATAGAGTTTAACTGGGAGAT
114881899 TA
1 TA
114881901 TCTTTCAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.04, G:0.23, T:0.33
Consensus pattern (23 bp):
TAAATAGAGTTTAACTGGGAGAT
Found at i:114884698 original size:23 final size:23
Alignment explanation
Indices: 114884672--114884716 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
114884662 TCGGTATGTA
*
114884672 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
114884695 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
114884717 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:114885529 original size:52 final size:52
Alignment explanation
Indices: 114885450--114885549 Score: 134
Period size: 52 Copynumber: 1.9 Consensus size: 52
114885440 ATATTTTCTT
114885450 AAAATTTTACCACGGGTATAATCGTC-AAAATTTTA-TGAGGGGTAAAATCATC
1 AAAATTTTACCACGGGTATAATCGTCAAAAATTTTACT-A-GGGTAAAATCATC
* *
114885502 AAAATTTTACCAGGGGT-TAAATTGTCAAAAATTTTACTAGGGTAAAAT
1 AAAATTTTACCACGGGTAT-AATCGTCAAAAATTTTACTAGGGTAAAAT
114885550 AGGGATGAGA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
51 1 0.02
52 31 0.72
53 10 0.23
54 1 0.02
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.32
Consensus pattern (52 bp):
AAAATTTTACCACGGGTATAATCGTCAAAAATTTTACTAGGGTAAAATCATC
Found at i:114885532 original size:27 final size:26
Alignment explanation
Indices: 114885450--114885543 Score: 100
Period size: 26 Copynumber: 3.6 Consensus size: 26
114885440 ATATTTTCTT
*
114885450 AAAATTTTACCACGGG-TATAATCGTC
1 AAAATTTTACCAGGGGTTA-AATCGTC
** * *
114885476 AAAATTTTATGAGGGGTAAAATCATC
1 AAAATTTTACCAGGGGTTAAATCGTC
*
114885502 AAAATTTTACCAGGGGTTAAATTGTC
1 AAAATTTTACCAGGGGTTAAATCGTC
*
114885528 AAAAATTTTACTAGGG
1 -AAAATTTTACCAGGG
114885544 TAAAATAGGG
Statistics
Matches: 55, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
26 40 0.73
27 15 0.27
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (26 bp):
AAAATTTTACCAGGGGTTAAATCGTC
Found at i:114886416 original size:64 final size:64
Alignment explanation
Indices: 114886343--114886553 Score: 151
Period size: 64 Copynumber: 3.2 Consensus size: 64
114886333 CTGGGCCAGA
*
114886343 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** *
114886407 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
114886469 ACTGGGCCAGA-
54 A-TGGCCCATAG
*
114886480 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
114886544 GCCCATTTCA
1 GCCCATTTCA
114886554 AAATACATGC
Statistics
Matches: 103, Mismatches: 27, Indels: 34
0.63 0.16 0.21
Matches are distributed among these distances:
63 9 0.09
64 25 0.24
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:114886555 original size:137 final size:137
Alignment explanation
Indices: 114886309--114886595 Score: 556
Period size: 137 Copynumber: 2.1 Consensus size: 137
114886299 CATTGGGCCT
**
114886309 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
114886374 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
114886439 CATATGC
131 CATATGC
114886446 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
114886511 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
114886576 CATATGC
131 CATATGC
114886583 AAGCCCATTTGGG
1 AAGCCCATTTGGG
114886596 GAGACTACTC
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 148 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:114886880 original size:25 final size:26
Alignment explanation
Indices: 114886843--114886894 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
114886833 TCAAACATGC
114886843 ATTTAGGTCAATTTA-ACCCTAGGGGT
1 ATTTAGGTCAATTTACA-CCTAGGGGT
* *
114886869 ATTTCGGT-AATTTTCACCTAGGGGT
1 ATTTAGGTCAATTTACACCTAGGGGT
114886894 A
1 A
114886895 AACTGTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (26 bp):
ATTTAGGTCAATTTACACCTAGGGGT
Found at i:114888415 original size:26 final size:26
Alignment explanation
Indices: 114888377--114888486 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
114888367 CATGATATTC
114888377 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
114888403 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
114888429 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
114888455 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
114888481 TTATCA
1 TTATCA
114888487 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:114888455 original size:52 final size:52
Alignment explanation
Indices: 114888377--114888486 Score: 220
Period size: 52 Copynumber: 2.1 Consensus size: 52
114888367 CATGATATTC
114888377 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
114888429 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
114888481 TTATCA
1 TTATCA
114888487 ATTTGTATCA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 58 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (52 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
Found at i:114892357 original size:64 final size:64
Alignment explanation
Indices: 114892284--114892494 Score: 151
Period size: 64 Copynumber: 3.2 Consensus size: 64
114892274 CTGGGCCAGA
*
114892284 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** *
114892348 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
114892410 ACTGGGCCAGA-
54 A-TGGCCCATAG
*
114892421 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
114892485 GCCCATTTCA
1 GCCCATTTCA
114892495 AAATACATGC
Statistics
Matches: 103, Mismatches: 27, Indels: 34
0.63 0.16 0.21
Matches are distributed among these distances:
63 9 0.09
64 25 0.24
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:114892458 original size:137 final size:136
Alignment explanation
Indices: 114892250--114892535 Score: 545
Period size: 137 Copynumber: 2.1 Consensus size: 136
114892240 CATTGGGCCT
**
114892250 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
114892315 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGT-AA
114892380 CATATGC
130 CATATGC
114892387 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
114892452 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAC
114892517 ATATGC
131 ATATGC
114892523 AAGCCCATTTGGG
1 AAGCCCATTTGGG
114892536 GAGACTACTC
Statistics
Matches: 147, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
136 22 0.15
137 125 0.85
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAC
ATATGC
Found at i:114892820 original size:25 final size:27
Alignment explanation
Indices: 114892783--114892835 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
114892773 TCAAACATGC
114892783 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
114892809 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
114892835 A
1 A
114892836 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.36
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:114894352 original size:26 final size:26
Alignment explanation
Indices: 114894314--114894422 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
114894304 CATGATATTC
114894314 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
114894340 TTATCATGGAACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
114894365 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
114894391 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
114894417 TTATCA
1 TTATCA
114894423 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
25 24 0.31
26 54 0.69
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:114894390 original size:51 final size:52
Alignment explanation
Indices: 114894314--114894422 Score: 211
Period size: 51 Copynumber: 2.1 Consensus size: 52
114894304 CATGATATTC
114894314 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACC-A
1 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
114894365 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
114894417 TTATCA
1 TTATCA
114894423 ATTTGTATCA
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
51 50 0.88
52 7 0.12
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.33
Consensus pattern (52 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
Found at i:114900315 original size:31 final size:31
Alignment explanation
Indices: 114900277--114900341 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
114900267 CATAAGTCTC
114900277 ACCCATGTGTCTGGGAGTAAAGCCACTAATT
1 ACCCATGTGTCTGGGAGTAAAGCCACTAATT
*
114900308 ACCCATGTGTCTGGGAGTAAAGCCACTTATT
1 ACCCATGTGTCTGGGAGTAAAGCCACTAATT
114900339 ACC
1 ACC
114900342 TTTTGTAAGC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.26
Consensus pattern (31 bp):
ACCCATGTGTCTGGGAGTAAAGCCACTAATT
Found at i:114900381 original size:46 final size:47
Alignment explanation
Indices: 114900309--114900402 Score: 118
Period size: 46 Copynumber: 2.0 Consensus size: 47
114900299 CCACTAATTA
* * * **
114900309 CCCATGTGTCTGGGAGTAAAGCCAC-TTATTACCTTTTGTAAGCCTC
1 CCCATGTGTCTAGGAGCAAAGCCACTTTATTAACTTCCGTAAGCCTC
* *
114900355 CCCATGTGTCTAGGAGCAATGTCACTTTATTAACTTCCGTAAGCCTC
1 CCCATGTGTCTAGGAGCAAAGCCACTTTATTAACTTCCGTAAGCCTC
114900402 C
1 C
114900403 TCTCATGCGT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
46 21 0.52
47 19 0.47
ACGTcount: A:0.22, C:0.28, G:0.18, T:0.32
Consensus pattern (47 bp):
CCCATGTGTCTAGGAGCAAAGCCACTTTATTAACTTCCGTAAGCCTC
Found at i:114902443 original size:6 final size:6
Alignment explanation
Indices: 114902432--114902459 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
114902422 GCATCAAAAG
114902432 GCCATT GCCATT GCCATT GCCATT GCCA
1 GCCATT GCCATT GCCATT GCCATT GCCA
114902460 CAGTATTTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.36, G:0.18, T:0.29
Consensus pattern (6 bp):
GCCATT
Found at i:114904611 original size:17 final size:15
Alignment explanation
Indices: 114904582--114904615 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 15
114904572 AGTAAAATTT
114904582 ATAAAAAATAAATAA
1 ATAAAAAATAAATAA
114904597 ATAAAAAATCAAAATAA
1 ATAAAAAAT--AAATAA
114904614 AT
1 AT
114904616 GTTAATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
17 8 0.47
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (15 bp):
ATAAAAAATAAATAA
Found at i:114905922 original size:29 final size:30
Alignment explanation
Indices: 114905868--114905948 Score: 83
Period size: 29 Copynumber: 2.6 Consensus size: 30
114905858 GAATTAGATC
114905868 AAATCAAAATTATATATAAAAAATTACACA
1 AAATCAAAATTATATATAAAAAATTACACA
* * * *
114905898 AAATCAAAATT-TATTTATACAATTACATA
1 AAATCAAAATTATATATAAAAAATTACACA
*
114905927 TTAAATCATAAATCATATATAA
1 --AAATCA-AAATTATATATAA
114905949 TTATGATATT
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
29 14 0.35
30 11 0.28
31 6 0.15
32 4 0.10
33 5 0.12
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (30 bp):
AAATCAAAATTATATATAAAAAATTACACA
Found at i:114910333 original size:43 final size:43
Alignment explanation
Indices: 114910282--114910401 Score: 134
Period size: 43 Copynumber: 2.8 Consensus size: 43
114910272 TGGCTTCGTT
**
114910282 CACAACCTACATGGTTGCTTGTCTGCAAAATTGATGGTTTATC
1 CACAACCTACATGGCAGCTTGTCTGCAAAATTGATGGTTTATC
* * * * *
114910325 CACAACCTACATAGCAGTTTGTTTG-AGAATTTGGTGGTTTATC
1 CACAACCTACATGGCAGCTTGTCTGCA-AAATTGATGGTTTATC
* *
114910368 CACAACTTACATGGCAACTTGTCTGCAAATATTG
1 CACAACCTACATGGCAGCTTGTCTGCAAA-ATTG
114910402 GTGGCTTCGA
Statistics
Matches: 61, Mismatches: 13, Indels: 5
0.77 0.16 0.06
Matches are distributed among these distances:
42 1 0.02
43 56 0.92
44 4 0.07
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (43 bp):
CACAACCTACATGGCAGCTTGTCTGCAAAATTGATGGTTTATC
Found at i:114917273 original size:3 final size:3
Alignment explanation
Indices: 114917265--114917291 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
114917255 TATCTAGTTG
114917265 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
114917292 TTGGATTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:114917482 original size:15 final size:15
Alignment explanation
Indices: 114917462--114917509 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
114917452 TCAAAGATGG
114917462 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
114917477 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
114917491 GTTTATGGATATGAA
1 GTTTATGGATATGAA
114917506 GTTT
1 GTTT
114917510 TTGTAGGTTC
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
14 11 0.42
15 15 0.58
ACGTcount: A:0.27, C:0.00, G:0.29, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:114917489 original size:29 final size:29
Alignment explanation
Indices: 114917456--114917515 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
114917446 AAGGGTTCAA
114917456 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATGAAGTTTATGT
*
114917485 AGATGGGTTTATGGATATGAAGTTTTTGT
1 AGATGGGTTTATGGATATGAAGTTTATGT
114917514 AG
1 AG
114917516 GTTCGGTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.00, G:0.32, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATGAAGTTTATGT
Found at i:114917496 original size:14 final size:14
Alignment explanation
Indices: 114917456--114917499 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
114917446 AAGGGTTCAA
114917456 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
114917470 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
114917485 AGATGGGTTTATGG
1 AGATGGGTTTATGG
114917499 A
1 A
114917500 TATGAAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:114919437 original size:28 final size:27
Alignment explanation
Indices: 114919406--114919475 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 27
114919396 AATTTTATAA
* **
114919406 TATACATTTTTATAAATTGATTTGCTTT
1 TATATATTTTTATAAATT-ATAAGCTTT
* *
114919434 TATATATTTGTATATATTATAAGCTTT
1 TATATATTTTTATAAATTATAAGCTTT
*
114919461 TATATATTTTGATAA
1 TATATATTTTTATAA
114919476 TTTAAAAATT
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
27 19 0.56
28 15 0.44
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.56
Consensus pattern (27 bp):
TATATATTTTTATAAATTATAAGCTTT
Found at i:114929809 original size:21 final size:21
Alignment explanation
Indices: 114929775--114929814 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
114929765 TATTTTTTTA
*
114929775 TTAATTTCTTTTTCTCAAATAT
1 TTAATTTCTGTTTC-CAAATAT
114929797 TTAATTT-TGTTTCCAAAT
1 TTAATTTCTGTTTCCAAAT
114929815 CTTTTTAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 5 0.29
22 7 0.41
ACGTcount: A:0.28, C:0.12, G:0.03, T:0.57
Consensus pattern (21 bp):
TTAATTTCTGTTTCCAAATAT
Found at i:114932901 original size:31 final size:31
Alignment explanation
Indices: 114932866--114932971 Score: 78
Period size: 31 Copynumber: 3.4 Consensus size: 31
114932856 AGATTAATAA
114932866 AAATTTTCAAAAATTTTAAGAGAGCTTAATT
1 AAATTTTCAAAAATTTTAAGAGAGCTTAATT
* * *
114932897 AAATTCTTTAAAAA-ATTAA-A-AGGTATAA-T
1 AAATT-TTCAAAAATTTTAAGAGAGCT-TAATT
* *
114932926 AAGCATTTTCAAAAATTTTGAG-GAGCCTAATT
1 AA--ATTTTCAAAAATTTTAAGAGAGCTTAATT
*
114932958 AAAATTTTCTAAAA
1 -AAATTTTCAAAAA
114932972 GAGTTAAAGG
Statistics
Matches: 57, Mismatches: 9, Indels: 18
0.68 0.11 0.21
Matches are distributed among these distances:
29 6 0.11
30 11 0.19
31 28 0.49
32 10 0.18
33 2 0.04
ACGTcount: A:0.47, C:0.08, G:0.09, T:0.36
Consensus pattern (31 bp):
AAATTTTCAAAAATTTTAAGAGAGCTTAATT
Found at i:114934507 original size:3 final size:3
Alignment explanation
Indices: 114934499--114934525 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
114934489 CGTTTCTACC
114934499 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
114934526 TTAATTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:114935143 original size:12 final size:12
Alignment explanation
Indices: 114935126--114935155 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
114935116 TGAAATGGTT
114935126 CAACCAGAAATA
1 CAACCAGAAATA
*
114935138 CAACCATAAATA
1 CAACCAGAAATA
114935150 CAACCA
1 CAACCA
114935156 CTTTATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.57, C:0.30, G:0.03, T:0.10
Consensus pattern (12 bp):
CAACCAGAAATA
Found at i:114938491 original size:137 final size:137
Alignment explanation
Indices: 114938245--114938531 Score: 538
Period size: 137 Copynumber: 2.1 Consensus size: 137
114938235 TATTGGGCCT
**
114938245 AAGCCCATTCAGGTAACAGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGTCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGTCTT
114938310 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
114938375 CATATGC
131 CATATGC
* *
114938382 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTTAGATTACAATAAACTGGGTCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGTCTT
114938447 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
114938512 CATATGC
131 CATATGC
114938519 AAGCCCATTTGGG
1 AAGCCCATTTGGG
114938532 GAGACTACTC
Statistics
Matches: 146, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 146 1.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGTCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:114938808 original size:26 final size:26
Alignment explanation
Indices: 114938779--114938831 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
114938769 TCAAACATGC
114938779 ATTTAGGTAAATTTAAC-CCTAGGGGT
1 ATTTAGGT-AATTTAACTCCTAGGGGT
* *
114938805 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAGGTAATTTAACTCCTAGGGGT
114938831 A
1 A
114938832 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTAATTTAACTCCTAGGGGT
Found at i:114940348 original size:26 final size:26
Alignment explanation
Indices: 114940312--114940418 Score: 157
Period size: 26 Copynumber: 4.2 Consensus size: 26
114940302 CATGAAATTC
114940312 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
114940338 TTATCATGAAACATTTACCTAACCC-
1 TTATCATGAAACATTTACCTAACCCA
* *
114940363 --ATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
114940387 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
114940413 TTATCA
1 TTATCA
114940419 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
23 21 0.28
26 55 0.72
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:114940390 original size:49 final size:49
Alignment explanation
Indices: 114940314--114940410 Score: 167
Period size: 49 Copynumber: 2.0 Consensus size: 49
114940304 TGAAATTCTT
114940314 ATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCC
1 ATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCC
* * *
114940363 ATCATGGAACATTTACCTAACCTATTATCATGGAACATTTACCTAACC
1 ATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACC
114940411 TATTATCAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (49 bp):
ATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCC
Found at i:114942065 original size:8 final size:8
Alignment explanation
Indices: 114942046--114942080 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
114942036 AAAAAGAAAG
114942046 ATAAAA-A
1 ATAAAATA
114942053 ATAAAATA
1 ATAAAATA
*
114942061 ATAAAAAA
1 ATAAAATA
114942069 ATAAAATA
1 ATAAAATA
114942077 ATAA
1 ATAA
114942081 TTAAATCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 6 0.24
8 19 0.76
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (8 bp):
ATAAAATA
Found at i:114942086 original size:16 final size:16
Alignment explanation
Indices: 114942048--114942080 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
114942038 AAAGAAAGAT
114942048 AAAAAATAAAATAATA
1 AAAAAATAAAATAATA
114942064 AAAAAATAAAATAATA
1 AAAAAATAAAATAATA
114942080 A
1 A
114942081 TTAAATCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (16 bp):
AAAAAATAAAATAATA
Found at i:114942157 original size:22 final size:21
Alignment explanation
Indices: 114942131--114942184 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
114942121 TGATAATAGT
114942131 AAAATAAAAAAAA-TAGGAAAGA
1 AAAATAAAAAAAATTA--AAAGA
*
114942153 AAAATAGAAAAAAATTAAAATA
1 AAAATA-AAAAAAATTAAAAGA
114942175 AAAATAAAAA
1 AAAATAAAAA
114942185 TAAAAGAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 4 0.14
22 16 0.55
23 7 0.24
24 2 0.07
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (21 bp):
AAAATAAAAAAAATTAAAAGA
Found at i:114942209 original size:15 final size:15
Alignment explanation
Indices: 114942191--114942227 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
114942181 AAAATAAAAG
114942191 AATATAAAAAATTAA
1 AATATAAAAAATTAA
114942206 AATATAAAAAATTAA
1 AATATAAAAAATTAA
114942221 AATATAA
1 AATATAA
114942228 GTATAAGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AATATAAAAAATTAA
Found at i:114942222 original size:6 final size:7
Alignment explanation
Indices: 114942163--114942227 Score: 55
Period size: 8 Copynumber: 9.3 Consensus size: 7
114942153 AAAATAGAAA
114942163 AAAAT-T
1 AAAATAT
114942169 AAAATA-
1 AAAATAT
114942175 AAAATA-
1 AAAATAT
*
114942181 AAAATAA
1 AAAATAT
114942188 AAGAATAT
1 AA-AATAT
*
114942196 AAAAAATT
1 AAAATA-T
114942204 AAAATAT
1 AAAATAT
*
114942211 AAAAAATT
1 AAAATA-T
114942219 AAAATAT
1 AAAATAT
114942226 AA
1 AA
114942228 GTATAAGAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
6 17 0.35
7 14 0.29
8 18 0.37
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (7 bp):
AAAATAT
Found at i:114942637 original size:30 final size:30
Alignment explanation
Indices: 114942596--114942653 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
114942586 ATGTGAGATC
* * *
114942596 CCACACGCCCGTGTGGCTAGGCCGTGTGCT
1 CCACACACCCGTGTGGCCAGGCCATGTGCT
114942626 CCACACACCCGTGTGGCCAGGCCATGTG
1 CCACACACCCGTGTGGCCAGGCCATGTG
114942654 GGTCAAAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.14, C:0.38, G:0.31, T:0.17
Consensus pattern (30 bp):
CCACACACCCGTGTGGCCAGGCCATGTGCT
Found at i:114950114 original size:3 final size:3
Alignment explanation
Indices: 114950106--114950166 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
114950096 TACACATTAT
114950106 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
114950154 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
114950167 GGGTAATATT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:114950277 original size:2 final size:2
Alignment explanation
Indices: 114950245--114950269 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
114950235 TATACGTAAA
114950245 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
114950270 CCTATATACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:114950308 original size:3 final size:3
Alignment explanation
Indices: 114950300--114950329 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
114950290 ACAAATATTG
*
114950300 ATA ATA ATA ATG ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
114950330 TTGAAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:114950313 original size:12 final size:12
Alignment explanation
Indices: 114950293--114950329 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
114950283 ACCATATACA
*
114950293 AATATTGATAAT
1 AATAATGATAAT
114950305 AATAATGATAAT
1 AATAATGATAAT
*
114950317 AATAATAATAAT
1 AATAATGATAAT
114950329 A
1 A
114950330 TTGAAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (12 bp):
AATAATGATAAT
Found at i:114950440 original size:3 final size:3
Alignment explanation
Indices: 114950432--114950503 Score: 144
Period size: 3 Copynumber: 24.0 Consensus size: 3
114950422 ATGCACTAAC
114950432 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
114950480 ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA
114950504 GTATATAAAA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:114954807 original size:29 final size:28
Alignment explanation
Indices: 114954737--114954808 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 28
114954727 CATGCCAACA
*
114954737 AATAATTTAAAAATTATAAAAATATTCT
1 AATAATTTAAAAATTATAAAAAAATTCT
*
114954765 AATAGTTTTAAAAATTATATAAAAAATTCAT
1 AATA-ATTTAAAAATTATA-AAAAAATTC-T
114954796 AA-AATTTCAAAAA
1 AATAATTT-AAAAA
114954809 AAAAACCATG
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
28 4 0.11
29 16 0.43
30 14 0.38
31 3 0.08
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.36
Consensus pattern (28 bp):
AATAATTTAAAAATTATAAAAAAATTCT
Found at i:114956290 original size:35 final size:35
Alignment explanation
Indices: 114956251--114956389 Score: 183
Period size: 35 Copynumber: 4.0 Consensus size: 35
114956241 ATGGAAAAGT
114956251 TATGACACGTAGGTATGGTATTATCCATACTGAGC
1 TATGACACGTAGGTATGGTATTATCCATACTGAGC
*
114956286 TATGACACGTAGGTATGGTATTATCTATACTGAGC
1 TATGACACGTAGGTATGGTATTATCCATACTGAGC
* *
114956321 TATGATACGTAGGTATGGTATTTTCCATACTGAG-
1 TATGACACGTAGGTATGGTATTATCCATACTGAGC
* * * *
114956355 T-TGAAAAATGTAGGTATGGTATTAACCATATTGAG
1 TATG--ACACGTAGGTATGGTATTATCCATACTGAG
114956390 TTGTGAATCA
Statistics
Matches: 93, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
33 2 0.02
34 1 0.01
35 90 0.97
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.35
Consensus pattern (35 bp):
TATGACACGTAGGTATGGTATTATCCATACTGAGC
Found at i:114956924 original size:55 final size:55
Alignment explanation
Indices: 114956864--114956988 Score: 250
Period size: 55 Copynumber: 2.3 Consensus size: 55
114956854 AAGGTAATGA
114956864 ATGAAATCATTTTGAAAAATTAGGATAAAGTAGTAGTATTATGGTATGTTGGTAG
1 ATGAAATCATTTTGAAAAATTAGGATAAAGTAGTAGTATTATGGTATGTTGGTAG
114956919 ATGAAATCATTTTGAAAAATTAGGATAAAGTAGTAGTATTATGGTATGTTGGTAG
1 ATGAAATCATTTTGAAAAATTAGGATAAAGTAGTAGTATTATGGTATGTTGGTAG
114956974 ATGAAATCATTTTGA
1 ATGAAATCATTTTGA
114956989 TTATAGGTTG
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 70 1.00
ACGTcount: A:0.38, C:0.02, G:0.22, T:0.37
Consensus pattern (55 bp):
ATGAAATCATTTTGAAAAATTAGGATAAAGTAGTAGTATTATGGTATGTTGGTAG
Found at i:114959952 original size:8 final size:8
Alignment explanation
Indices: 114959927--114959963 Score: 58
Period size: 8 Copynumber: 4.8 Consensus size: 8
114959917 ATATTATCAT
114959927 TAATTAAA
1 TAATTAAA
*
114959935 -AATAAAA
1 TAATTAAA
114959942 TAATTAAA
1 TAATTAAA
114959950 TAATTAAA
1 TAATTAAA
114959958 TAATTA
1 TAATTA
114959964 TTTTAATCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
TAATTAAA
Found at i:114970977 original size:17 final size:17
Alignment explanation
Indices: 114970955--114971004 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 17
114970945 CTTATTATAT
114970955 AAGTAAATAATTATAAA
1 AAGTAAATAATTATAAA
* *
114970972 AAGTAAATTA-TATTAA
1 AAGTAAATAATTATAAA
*
114970988 AA-TATATAATTATAAA
1 AAGTAAATAATTATAAA
114971004 A
1 A
114971005 TATTAAGTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
15 5 0.19
16 13 0.48
17 9 0.33
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (17 bp):
AAGTAAATAATTATAAA
Found at i:114971043 original size:10 final size:10
Alignment explanation
Indices: 114971028--114971061 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
114971018 AAGAATGAAT
*
114971028 AAAAGAAATA
1 AAAAGAAAGA
114971038 AAAAGAAAGA
1 AAAAGAAAGA
114971048 AAAAGAAAAGA
1 AAAAG-AAAGA
114971059 AAA
1 AAA
114971062 GGCACGAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 14 0.64
11 8 0.36
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (10 bp):
AAAAGAAAGA
Found at i:114974271 original size:12 final size:12
Alignment explanation
Indices: 114974254--114974279 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
114974244 ATAAATAGCT
114974254 TTTCACATTTCA
1 TTTCACATTTCA
114974266 TTTCACATTTCA
1 TTTCACATTTCA
114974278 TT
1 TT
114974280 ATAAAATTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.54
Consensus pattern (12 bp):
TTTCACATTTCA
Found at i:114974641 original size:41 final size:41
Alignment explanation
Indices: 114974531--114974641 Score: 108
Period size: 37 Copynumber: 2.8 Consensus size: 41
114974521 CGGATTATTT
*
114974531 AAAGTAATAATTTGACACCCAGTGTCTCATCG-GCTAAACC
1 AAAGTAATAAATTGACACCCAGTGTCTCATCGAGCTAAACC
* * * * *
114974571 GAAG---GAAATTGGCACCCAGTGCCAT-ATCGAG-TATATCC
1 AAAGTAATAAATTGACACCCAGTGTC-TCATCGAGCTA-AACC
114974609 AAAGTAATAAATTGACACCCAGTGTCTCATCGA
1 AAAGTAATAAATTGACACCCAGTGTCTCATCGA
114974642 CTCGAAGTAA
Statistics
Matches: 54, Mismatches: 10, Indels: 13
0.70 0.13 0.17
Matches are distributed among these distances:
37 21 0.39
38 8 0.15
40 4 0.07
41 21 0.39
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.23
Consensus pattern (41 bp):
AAAGTAATAAATTGACACCCAGTGTCTCATCGAGCTAAACC
Found at i:114975912 original size:21 final size:21
Alignment explanation
Indices: 114975888--114975933 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
114975878 CTTTTTATTT
*
114975888 AATTAACTATCGAAACGTTAA
1 AATTAACTATCGAAACATTAA
* * *
114975909 AATTTATTTTCGAAACATTAA
1 AATTAACTATCGAAACATTAA
114975930 AATT
1 AATT
114975934 TCTTAACGGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (21 bp):
AATTAACTATCGAAACATTAA
Found at i:114980265 original size:21 final size:21
Alignment explanation
Indices: 114980241--114980294 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 21
114980231 GAAACTTCAT
114980241 TTCTTAAAACATAATTAAGTG
1 TTCTTAAAACATAATTAAGTG
* *
114980262 TTCTT--AA-TTAATTATGTG
1 TTCTTAAAACATAATTAAGTG
114980280 TTCTTAAAACATAAT
1 TTCTTAAAACATAAT
114980295 ACCGTATGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
18 14 0.52
19 2 0.07
20 2 0.07
21 9 0.33
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.44
Consensus pattern (21 bp):
TTCTTAAAACATAATTAAGTG
Found at i:114991664 original size:20 final size:19
Alignment explanation
Indices: 114991635--114991675 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
114991625 GTTAGAATTA
114991635 TTATTATTAGAAAATAGAAT
1 TTATTATTAGAAAATA-AAT
* *
114991655 TTATTCTTAGGAAATAAAT
1 TTATTATTAGAAAATAAAT
114991674 TT
1 TT
114991676 CCACTACTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (19 bp):
TTATTATTAGAAAATAAAT
Found at i:114992074 original size:17 final size:17
Alignment explanation
Indices: 114992052--114992085 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
114992042 TACTAATATC
*
114992052 TCTTTCGAGCATAAGAG
1 TCTTTCAAGCATAAGAG
114992069 TCTTTCAAGCATAAGAG
1 TCTTTCAAGCATAAGAG
114992086 CAATTGACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (17 bp):
TCTTTCAAGCATAAGAG
Found at i:114993310 original size:16 final size:15
Alignment explanation
Indices: 114993272--114993313 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
114993262 TTTCCAAAAA
*
114993272 TAAAT-ATTATTTAT
1 TAAATAATTTTTTAT
114993286 TAAATTAATTTTTTAAT
1 TAAA-TAATTTTTT-AT
114993303 TAAATAATTTT
1 TAAATAATTTT
114993314 CTCAACTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 4 0.17
15 1 0.04
16 13 0.54
17 6 0.25
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TAAATAATTTTTTAT
Found at i:114996044 original size:15 final size:15
Alignment explanation
Indices: 114996020--114996052 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
114996010 TTTGTATGTG
114996020 TATTTAAAATAATTA
1 TATTTAAAATAATTA
*
114996035 TATTTGAAATAATTA
1 TATTTAAAATAATTA
114996050 TAT
1 TAT
114996053 CAATTTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (15 bp):
TATTTAAAATAATTA
Found at i:114997013 original size:2 final size:2
Alignment explanation
Indices: 114997006--114997033 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
114996996 CCTAAAATTA
114997006 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
114997034 TTCGGCTCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:115001336 original size:31 final size:29
Alignment explanation
Indices: 115001299--115001369 Score: 72
Period size: 30 Copynumber: 2.3 Consensus size: 29
115001289 TTAGTGAAAG
*
115001299 TAAAATTATACTTTAAATCTTCTTA-AAATTA
1 TAAAATTATA-TTT-AATCAT-TTATAAATTA
*
115001330 TAAAATTTTGATTTAATCATTTATAAATTA
1 TAAAATTAT-ATTTAATCATTTATAAATTA
*
115001360 TAAAAATATA
1 TAAAATTATA
115001370 AACTATAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
29 4 0.12
30 18 0.53
31 11 0.32
32 1 0.03
ACGTcount: A:0.48, C:0.06, G:0.01, T:0.45
Consensus pattern (29 bp):
TAAAATTATATTTAATCATTTATAAATTA
Found at i:115001371 original size:15 final size:15
Alignment explanation
Indices: 115001351--115001380 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
115001341 TTTAATCATT
*
115001351 TATAAATTATAAAAA
1 TATAAACTATAAAAA
115001366 TATAAACTATAAAAA
1 TATAAACTATAAAAA
115001381 ATTAAAATTT
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:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (15 bp):
TATAAACTATAAAAA
Found at i:115004399 original size:19 final size:20
Alignment explanation
Indices: 115004353--115004399 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
115004343 ATCAAGTGGT
*
115004353 TAATTAGACTTTAATTAAGTG
1 TAATTA-ACTTTAATTAAGAG
115004374 -AATTTAAC-TTAATTAAGAG
1 TAA-TTAACTTTAATTAAGAG
115004393 TAATTAA
1 TAATTAA
115004400 GAAAAATGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
19 14 0.61
20 6 0.26
21 3 0.13
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.40
Consensus pattern (20 bp):
TAATTAACTTTAATTAAGAG
Found at i:115004557 original size:27 final size:27
Alignment explanation
Indices: 115004522--115004604 Score: 65
Period size: 27 Copynumber: 3.3 Consensus size: 27
115004512 AAAAATCTTT
*
115004522 AATTTTTATGCATAAATATGTATTTTA
1 AATTATTATGCATAAATATGTATTTTA
115004549 AATTATTAT---T--AT-T-TATTATT-
1 AATTATTATGCATAAATATGTATT-TTA
* * *
115004569 GATTTTTATGCATAAATATGTATATTA
1 AATTATTATGCATAAATATGTATTTTA
115004596 AATTATTAT
1 AATTATTAT
115004605 TATTTATTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 18
0.63 0.09 0.28
Matches are distributed among these distances:
20 11 0.27
21 3 0.07
22 2 0.05
23 1 0.02
24 1 0.02
25 2 0.05
26 3 0.07
27 18 0.44
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.54
Consensus pattern (27 bp):
AATTATTATGCATAAATATGTATTTTA
Found at i:115004576 original size:47 final size:47
Alignment explanation
Indices: 115004523--115004615 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
115004513 AAAATCTTTA
*
115004523 ATTTTTATGCATAAATATGTATTTTAAATTATTATTATTTATTATTG
1 ATTTTTATGCATAAATATGTATATTAAATTATTATTATTTATTATTG
115004570 ATTTTTATGCATAAATATGTATATTAAATTATTATTATTTATTATT
1 ATTTTTATGCATAAATATGTATATTAAATTATTATTATTTATTATT
115004616 ATGGTTTTAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.57
Consensus pattern (47 bp):
ATTTTTATGCATAAATATGTATATTAAATTATTATTATTTATTATTG
Found at i:115004800 original size:22 final size:23
Alignment explanation
Indices: 115004773--115004830 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
115004763 TACTTTTTAT
115004773 TTAAGTAAATATATATTTATT-A
1 TTAAGTAAATATATATTTATTAA
*
115004795 TTAAGTAAA-AGATATTTATTAA
1 TTAAGTAAATATATATTTATTAA
* *
115004817 TTAAATAATTATAT
1 TTAAGTAAATATAT
115004831 TATAAGATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 10 0.33
22 17 0.57
23 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (23 bp):
TTAAGTAAATATATATTTATTAA
Found at i:115004830 original size:21 final size:21
Alignment explanation
Indices: 115004759--115004831 Score: 53
Period size: 21 Copynumber: 3.5 Consensus size: 21
115004749 TAAATTTATT
* *
115004759 TAATTACTTTTTATTTAAGTAAA
1 TAATTA-TATTTA-TTAATTAAA
*
115004782 T-A-TATATTTATT-ATTAAG
1 TAATTATATTTATTAATTAAA
**
115004800 TAAAAGATATTTATTAATTAAA
1 T-AATTATATTTATTAATTAAA
115004822 TAATTATATT
1 TAATTATATT
115004832 ATAAGATTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
18 5 0.13
19 2 0.05
20 6 0.15
21 18 0.46
22 7 0.18
23 1 0.03
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (21 bp):
TAATTATATTTATTAATTAAA
Found at i:115006384 original size:36 final size:36
Alignment explanation
Indices: 115006307--115006384 Score: 93
Period size: 36 Copynumber: 2.2 Consensus size: 36
115006297 ATAATTTATA
* * * *
115006307 GTTACTGAATAACTGATTGCTACGGAGCAAATGATT
1 GTTACTGAATAACTAATTGCTACAGAACAAATGAAT
* * *
115006343 ATTACTGAATAACTAATTGCTACAGAATAATTGAAT
1 GTTACTGAATAACTAATTGCTACAGAACAAATGAAT
115006379 GTTACT
1 GTTACT
115006385 AAGTGAAACT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (36 bp):
GTTACTGAATAACTAATTGCTACAGAACAAATGAAT
Found at i:115016703 original size:46 final size:46
Alignment explanation
Indices: 115016636--115016851 Score: 315
Period size: 46 Copynumber: 4.7 Consensus size: 46
115016626 GGCAACCTGA
115016636 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*
115016682 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* *
115016728 GTGTAAGACCATGGTTGAAAGATACCATGGCAACTTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*** * * *
115016774 GAACAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* * * *
115016820 GAGTAAGACCATAGTTGAAAGACACTATGGCA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCA
115016852 TCATGTCAAA
Statistics
Matches: 156, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 156 1.00
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
Found at i:115016831 original size:138 final size:130
Alignment explanation
Indices: 115016586--115016851 Score: 379
Period size: 138 Copynumber: 2.0 Consensus size: 130
115016576 AGTGTGCTCT
*
115016586 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
* * * * * *
115016651 TGAAAGATACCATGGCAACCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
*
115016716 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACTTGATATGAAATGAACAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG--A-G---TG--CAAG
*
115016781 ACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACT
58 ACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACC
115016846 ATGGCA
123 ATGGCA
115016852 TCATGTCAAA
Statistics
Matches: 119, Mismatches: 9, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
130 48 0.40
132 1 0.01
133 1 0.01
136 2 0.02
138 67 0.56
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.22
Consensus pattern (130 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
Found at i:115018493 original size:16 final size:17
Alignment explanation
Indices: 115018467--115018498 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
115018457 TAATAAGAAA
115018467 TAATAATTATAATAATT
1 TAATAATTATAATAATT
115018484 TAATAA-TATAATAAT
1 TAATAATTATAATAAT
115018499 ATATATGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATAATTATAATAATT
Found at i:115019464 original size:6 final size:6
Alignment explanation
Indices: 115019455--115019486 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
115019445 CCTGACTATG
*
115019455 ACTGTT ACTGTT ACTGTT ACTGTT ACTATT AC
1 ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT AC
115019487 CCTACGATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.22, C:0.19, G:0.12, T:0.47
Consensus pattern (6 bp):
ACTGTT
Found at i:115028464 original size:46 final size:44
Alignment explanation
Indices: 115028293--115028467 Score: 138
Period size: 46 Copynumber: 3.8 Consensus size: 44
115028283 GGTTATTGTG
** * * *
115028293 AGCTAGTGTAAGACCATGTCTGGGCCATGGCATCGGCATTGAGACG-
1 AGCTAGTGTAAGA-CATGTCTAAGACAT-GCATCGGC-TCGAGATGT
*
115028339 AGTGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATGT
1 A--GCTAGTGTAAGACATGTCTAAGACATGCATCGG-CTCGAGATGT
* * * *
115028386 AAGCTAATGTAAGACATTTCTGAGACATGCATCGGCTACTAGATGT
1 -AGCTAGTGTAAGACATGTCTAAGACATGCATCGGCT-CGAGATGT
* *
115028432 -GTTAGTGTAAAACCATGTCTAAGACATGGCATCGGC
1 AGCTAGTGTAAGA-CATGTCTAAGACAT-GCATCGGC
115028468 ACGGATAGGT
Statistics
Matches: 107, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
44 9 0.08
45 14 0.13
46 58 0.54
47 13 0.12
48 13 0.12
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.25
Consensus pattern (44 bp):
AGCTAGTGTAAGACATGTCTAAGACATGCATCGGCTCGAGATGT
Found at i:115035618 original size:46 final size:46
Alignment explanation
Indices: 115035551--115035639 Score: 160
Period size: 46 Copynumber: 1.9 Consensus size: 46
115035541 AAACTTTAAG
* *
115035551 TCAAGTAGGCTATGAGTAAATGGACATTTGAATCCGACACAATAAC
1 TCAAGTAGGCTATGAGTAAATGGAAATTTGAATCCAACACAATAAC
115035597 TCAAGTAGGCTATGAGTAAATGGAAATTTGAATCCAACACAAT
1 TCAAGTAGGCTATGAGTAAATGGAAATTTGAATCCAACACAAT
115035640 TTGACATTAG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (46 bp):
TCAAGTAGGCTATGAGTAAATGGAAATTTGAATCCAACACAATAAC
Found at i:115041364 original size:13 final size:13
Alignment explanation
Indices: 115041346--115041389 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
115041336 AAAACAAATG
115041346 AATTAAATAATAT
1 AATTAAATAATAT
*
115041359 AATTAAAAAATAT
1 AATTAAATAATAT
*
115041372 AA-TAATTAA-AT
1 AATTAAATAATAT
115041383 AATTAAA
1 AATTAAA
115041390 ATCAAACTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
11 4 0.15
12 8 0.31
13 14 0.54
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
AATTAAATAATAT
Found at i:115043602 original size:43 final size:42
Alignment explanation
Indices: 115043546--115044006 Score: 234
Period size: 43 Copynumber: 10.7 Consensus size: 42
115043536 CATCTTCGAT
*
115043546 CTGTTTCCCTACTGCTTAGGGGGTTAATATCCATAAATTTAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAA-ATCCATAAATTTAGC
** * * *
115043589 CTGTTACCCTACTGCTTAGGGGGTTAAGGCC-TATCATCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAATCCATA-AAT-TTAG-C
* **
115043633 CTGTTTCCCTACTGCTTAGGGGGTTAATATCTGTAAATTTAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAA-ATCCATAAATTTAGC
** * *** * *
115043676 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAATCCATAAAT-TTAG-C
* * *
115043720 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTATAAATTTAAC
1 CTGTTACCCTACTGCTTAGGGGGTTAA-ATCCATAAATTTAGC
* * * *** * *
115043763 CTGTTACCCTACTGCTTAGGGGTTTAAGGTTC-TTCGTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAA-ATCCATAAAT-TTAG-C
* * * * * *
115043807 CTGCT-CCACTACTGCTTAGGGAGATAAGAT-C-TGCAATTCAAC
1 CTGTTACC-CTACTGCTTAGGGGGTTAA-ATCCAT-AAATTTAGC
** * *
115043849 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTCGTAAATTCAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAATC-CATAAATTTAGC
* * * * * *
115043892 TTGTTACCCTACTGCTTAAGGGGTTAAAGCCCAT-CATCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAA-TCCATAAAT-TTAG-C
* * * * **
115043936 CTGTTTCCCTACTACTTAGGGGGTTAGGATCTAT-AATTGCGGC
1 CTGTTACCCTACTGCTTAGGGGGTTA-AATCCATAAATT-TAGC
*
115043979 TTGTTACCCTACTGCTTAGGGGGTTAAA
1 CTGTTACCCTACTGCTTAGGGGGTTAAA
115044007 GCCCATCATC
Statistics
Matches: 309, Mismatches: 88, Indels: 43
0.70 0.20 0.10
Matches are distributed among these distances:
41 2 0.01
42 33 0.11
43 155 0.50
44 110 0.36
45 7 0.02
46 2 0.01
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.35
Consensus pattern (42 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAATCCATAAATTTAGC
Found at i:115043645 original size:87 final size:86
Alignment explanation
Indices: 115043499--115043878 Score: 523
Period size: 87 Copynumber: 4.4 Consensus size: 86
115043489 TTTGATTTCC
* *
115043499 AGCCTGTTACCGTACTACTTAGGGGGTTAAGGCCTATCATCTTCGATCTGTTTCCCTACTGCTTA
1 AGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCT-TCATCTTCGATCTGTTTCCCTACTGCTTA
*
115043564 GGGGGTTAATATCCATAAATTT
65 GGGGGTTAAGATCCATAAATTT
115043586 AGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCTATCATCTTCGATCTGTTTCCCTACTGCTTA
1 AGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCT-TCATCTTCGATCTGTTTCCCTACTGCTTA
* **
115043651 GGGGGTTAATATCTGTAAATTT
65 GGGGGTTAAGATCCATAAATTT
*
115043673 AGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTGCTTA
1 AGCCTGTTACCCTACTGCTTAGGGGGTTAAGG-CCTTCATCTTCGATCTGTTTCCCTACTGCTTA
*
115043738 GGGGGTTAAGATCTATAAATTT
65 GGGGGTTAAGATCCATAAATTT
* * * * *
115043760 AACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTG-CTCCACTACTGCTT
1 AGCCTGTTACCCTACTGCTTAGGGGGTTAAGG-CCTTCATCTTCGATCTGTTTCC-CTACTGCTT
* * * *
115043824 AGGGAGATAAGAT-C-TGCAATTC
64 AGGGGGTTAAGATCCAT-AAATTT
*
115043846 AACCTGTTACCCTACTGCTTAGGGGGTTAAGGC
1 AGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC
115043879 TCGTAAATTC
Statistics
Matches: 271, Mismatches: 19, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
85 1 0.00
86 38 0.14
87 229 0.85
88 3 0.01
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (86 bp):
AGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCTTCATCTTCGATCTGTTTCCCTACTGCTTAG
GGGGTTAAGATCCATAAATTT
Found at i:115043874 original size:216 final size:216
Alignment explanation
Indices: 115043633--115044046 Score: 589
Period size: 216 Copynumber: 1.9 Consensus size: 216
115043623 CATCTTCGAT
* * * *
115043633 CTGTTTCCCTACTGCTTAGGGGGTTAATATCT-GTAAATTTAGCCTGTTACCCTACTGCTTAGGG
1 CTGTTACCCTACTGCTTAGGGGGTTAA-AGCTCGTAAATTCAGCCTGTTACCCTACTGCTTAAGG
* * * * *
115043697 GGTTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTATAAATT-TA
65 GGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTACTTAGGGGGTTAAGATCTAT-AATTGCA
* * ** * *
115043761 ACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCACTACTGCTTAG
129 ACCTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGCTCCACTACTGCTTAG
115043826 GGAGATAAGATCTGCAATTCAAC
194 GGAGATAAGATCTGCAATTCAAC
* *
115043849 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTCGTAAATTCAGCTTGTTACCCTACTGCTTAAGGG
1 CTGTTACCCTACTGCTTAGGGGGTTAAAGCTCGTAAATTCAGCCTGTTACCCTACTGCTTAAGGG
* **
115043914 GTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTACTTAGGGGGTTAGGATCTATAATTGCGGC
66 GTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTACTTAGGGGGTTAAGATCTATAATTGCAAC
* * *
115043979 TTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTTGATTTGCTCCACTACTGCTTAGGG
131 CTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGCTCCACTACTGCTTAGGG
115044044 AGA
196 AGA
115044047 CAAAATCACT
Statistics
Matches: 173, Mismatches: 23, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
215 6 0.03
216 167 0.97
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.35
Consensus pattern (216 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAAGCTCGTAAATTCAGCCTGTTACCCTACTGCTTAAGGG
GTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTACTTAGGGGGTTAAGATCTATAATTGCAAC
CTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGCTCCACTACTGCTTAGGG
AGATAAGATCTGCAATTCAAC
Found at i:115043886 original size:129 final size:130
Alignment explanation
Indices: 115043720--115044005 Score: 328
Period size: 129 Copynumber: 2.2 Consensus size: 130
115043710 CGTCTTCGAT
* *
115043720 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTATAAATTTAACCTGTTACCCTACTGCTT-AGGG
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTATAAATTCAACCTGTTACCCTACTGCTTAAGGG
* ** * * * *
115043784 GTTTAAGGTTCTTCGTCTTCGATCTG-CTCCACTACTGCTTAGGGAGATAAGATCTGCAATT-CA
66 G-TTAAAGCCCATCATCTTCGATCTGTCTCC-CTACTACTTAGGGAGATAAGATCTACAATTGCA
115043847 AC
129 AC
* * * *
115043849 CTGTTACCCTACTGCTTAGGGGGTTAAG-GCTCGTAAATTCAGCTTGTTACCCTACTGCTTAAGG
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCT-ATAAATTCAACCTGTTACCCTACTGCTTAAGG
* * * * * **
115043913 GGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTACTTAGGGGGTTAGGATCTATAATTGCGG
65 GGTTAAAGCCCATCATCTTCGATCTGTCTCCCTACTACTTAGGGAGATAAGATCTACAATTGCAA
115043978 C
130 C
*
115043979 TTGTTACCCTACTGCTTAGGGGGTTAA
1 CTGTTACCCTACTGCTTAGGGGGTTAA
115044006 AGCCCATCAT
Statistics
Matches: 132, Mismatches: 21, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
128 2 0.02
129 94 0.71
130 36 0.27
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.34
Consensus pattern (130 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGATCTATAAATTCAACCTGTTACCCTACTGCTTAAGGG
GTTAAAGCCCATCATCTTCGATCTGTCTCCCTACTACTTAGGGAGATAAGATCTACAATTGCAAC
Found at i:115044035 original size:87 final size:87
Alignment explanation
Indices: 115043855--115044043 Score: 267
Period size: 87 Copynumber: 2.2 Consensus size: 87
115043845 CAACCTGTTA
*
115043855 CCCTACTGCTTAGGGGGTTAAGGCTCGTAAATTCAGCTTGTTACCCTACTGCTTAAGGGGTTAAA
1 CCCTACTGCTTAGGGGGTTAAGGATCGTAAATTCAGCTTGTTACCCTACTGCTTAAGGGGTTAAA
*
115043920 GCCCATCATCTTCGATCTGTTT
66 GCCCATCATCTTCGATCTGTCT
* * *
115043942 CCCTACTACTTAGGGGGTT-AGGATC-TATAATTGCGGCTTGTTACCCTACTGCTTAGGGGGTTA
1 CCCTACTGCTTAGGGGGTTAAGGATCGTA-AATT-CAGCTTGTTACCCTACTGCTTAAGGGGTTA
* *
115044005 AAGCCCATCATCTTTGATTTG-CT
64 AAGCCCATCATCTTCGATCTGTCT
115044028 CCACTACTGCTTAGGG
1 CC-CTACTGCTTAGGG
115044044 AGACAAAATC
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
85 2 0.02
86 12 0.13
87 77 0.85
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.33
Consensus pattern (87 bp):
CCCTACTGCTTAGGGGGTTAAGGATCGTAAATTCAGCTTGTTACCCTACTGCTTAAGGGGTTAAA
GCCCATCATCTTCGATCTGTCT
Found at i:115044467 original size:66 final size:66
Alignment explanation
Indices: 115044359--115044524 Score: 183
Period size: 66 Copynumber: 2.5 Consensus size: 66
115044349 TGCTATGGTC
* * * * ** * *
115044359 GAATCAAATGCTCCTAACTAGA--TGTAATGAATGTGTCAAATAATTAGGATGGTATGATCGAAA
1 GAATCAAATACTCCTAATTAAACGTGTTATGAATGAATCAAATAACTAGGATGCTATGATCGAAA
115044422 T
66 T
* * * *
115044423 GGATCAAATACTCTTAATTAAACGTGTTATGAATGAATCAAATAACTAGGATGCTGTGATTGAAA
1 GAATCAAATACTCCTAATTAAACGTGTTATGAATGAATCAAATAACTAGGATGCTATGATCGAAA
115044488 T
66 T
* * *
115044489 GAATCAAATGCTCCTAATTAGATGTGTTATGAATGA
1 GAATCAAATACTCCTAATTAAACGTGTTATGAATGA
115044525 TGTATGAATG
Statistics
Matches: 83, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
64 17 0.20
66 66 0.80
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (66 bp):
GAATCAAATACTCCTAATTAAACGTGTTATGAATGAATCAAATAACTAGGATGCTATGATCGAAA
T
Found at i:115060504 original size:46 final size:46
Alignment explanation
Indices: 115060450--115060617 Score: 300
Period size: 46 Copynumber: 3.7 Consensus size: 46
115060440 TTTTTGTCAT
*
115060450 GTTGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
*
115060496 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
* *
115060542 GTTGCCATGGTATCTTTCAATCACGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
115060588 GTTGCCATGGTATCTTTCAACCATGGTCTT
1 GTTGCCATGGTATCTTTCAACCATGGTCTT
115060618 TATTTTCAAT
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 115 1.00
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
Found at i:115062373 original size:8 final size:8
Alignment explanation
Indices: 115062360--115062404 Score: 53
Period size: 8 Copynumber: 6.1 Consensus size: 8
115062350 GAAATCCCAA
115062360 TTTTTCCT
1 TTTTTCCT
115062368 TTTTTCCT
1 TTTTTCCT
*
115062376 TCTTTCCT
1 TTTTTCCT
115062384 TTTTT--T
1 TTTTTCCT
115062390 TTTTT--T
1 TTTTTCCT
115062396 TTTTTCCT
1 TTTTTCCT
115062404 T
1 T
115062405 CCTTCTTTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 12 0.36
8 21 0.64
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTCCT
Found at i:115062472 original size:18 final size:18
Alignment explanation
Indices: 115062444--115062485 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
115062434 TCGCTTCATC
115062444 CTTTCTTTCTTTTTCTA-TT
1 CTTT-TTTCTTTTT-TATTT
115062463 CTTTTTTCTTTTTTATTT
1 CTTTTTTCTTTTTTATTT
115062481 CTTTT
1 CTTTT
115062486 ACTATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 2 0.09
18 16 0.73
19 4 0.18
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.79
Consensus pattern (18 bp):
CTTTTTTCTTTTTTATTT
Found at i:115064060 original size:16 final size:16
Alignment explanation
Indices: 115064039--115064070 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
115064029 TGATCCTAAC
115064039 TTCTTCATACATTTGT
1 TTCTTCATACATTTGT
115064055 TTCTTCATACATTTGT
1 TTCTTCATACATTTGT
115064071 CAATATCATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.19, G:0.06, T:0.56
Consensus pattern (16 bp):
TTCTTCATACATTTGT
Found at i:115069355 original size:24 final size:24
Alignment explanation
Indices: 115069308--115069355 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
115069298 CATATTTAAA
** *
115069308 TTATAAATAAAATATTAATTAACT
1 TTATAAATAAAATAACAATCAACT
*
115069332 TTATAAATAAAATAACACTCAACT
1 TTATAAATAAAATAACAATCAACT
115069356 AGAATTTTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.35
Consensus pattern (24 bp):
TTATAAATAAAATAACAATCAACT
Found at i:115072457 original size:278 final size:270
Alignment explanation
Indices: 115071931--115072484 Score: 844
Period size: 278 Copynumber: 2.0 Consensus size: 270
115071921 GTGTTTGAAG
* * *
115071931 CACAAGAAGAAACTTAAACTATTCTATAATGGTTTTTGAAGTGATGTGTTATTGTTATTAGTTTG
1 CACATGAAGAAACTTAAACTATTCTATAATGGTTTTTGAAGTAATATGTTATTGTTATTAGTTTG
115071996 GTTTGATTTGTTATTGTTGTTGGTTAATTGGACTTTTGTTGTTTTTTTTTTGGATTGGTATAGAT
66 GTTTGATTTGTTATTGTTGTTGGTTAATTGGACTTTTGTTGTTTTTTTTTTGGATTGGTATAGAT
* * * * *
115072061 TTCTATTGTATTTGGACTTTTGCTTATGTTTTTCTTTAATTATAATGTTGTTGTTTTCTTTGACT
131 TTCTATTATATTTGGACTTTTGCTTATGTTTTTCTTTAATTATAATATTGTTATTTACTTCGACT
* *
115072126 CATGTTGTTTACTTGGACTTTTACTTATGTTTTTTATTATAATCTTGTTGTATT-ATTTTTGTTG
196 CATGTTGTTTACTTAGACTTTTACTTATGTTTTTTATTAAAATCTTGTTGTATTGATTTTTGTTG
115072190 TTTATTTGGA
261 TTTATTTGGA
*
115072200 CTCATGAAGAAACTTAAACTATTCTATAATGGTTTTTGAAGTAATATGTTATTGTTATTAGTTTG
1 CACATGAAGAAACTTAAACTATTCTATAATGGTTTTTGAAGTAATATGTTATTGTTATTAGTTTG
* *
115072265 GTTTGGTTTGTTATTGTTGTTGGTTAATTGGACTTCTGTTGTGTTCTTTTTTTTTTTTTTGGATT
66 GTTTGATTTGTTATTGTTGTTGGTTAATTGGA---CT-TT-TG----TTGTTTTTTTTTTGGATT
* *
115072330 GGTGTAGGTTTCTATTATATTTTGGACTTTTGCTTATGATTTTT-TTT-ATTATAATATTGTTAT
122 GGTATAGATTTCTATTATA-TTTGGACTTTTGCTTATG-TTTTTCTTTAATTATAATATTGTTAT
115072393 TTACTTCGACTCATGTTGTTTACTTAGACTTTTACTTATGTTTTTTATTAAAATCTTGTTGTATT
185 TTACTTCGACTCATGTTGTTTACTTAGACTTTTACTTATGTTTTTTATTAAAATCTTGTTGTATT
*
115072458 GTTTTTTGTTGTTTATTTGGA
250 GATTTTTGTTGTTTATTTGGA
115072479 CACATG
1 CACATG
115072485 TTGTTTGTTT
Statistics
Matches: 256, Mismatches: 17, Indels: 14
0.89 0.06 0.05
Matches are distributed among these distances:
269 92 0.36
272 2 0.01
273 2 0.01
274 2 0.01
278 108 0.42
279 45 0.18
280 5 0.02
ACGTcount: A:0.20, C:0.07, G:0.17, T:0.56
Consensus pattern (270 bp):
CACATGAAGAAACTTAAACTATTCTATAATGGTTTTTGAAGTAATATGTTATTGTTATTAGTTTG
GTTTGATTTGTTATTGTTGTTGGTTAATTGGACTTTTGTTGTTTTTTTTTTGGATTGGTATAGAT
TTCTATTATATTTGGACTTTTGCTTATGTTTTTCTTTAATTATAATATTGTTATTTACTTCGACT
CATGTTGTTTACTTAGACTTTTACTTATGTTTTTTATTAAAATCTTGTTGTATTGATTTTTGTTG
TTTATTTGGA
Found at i:115078288 original size:46 final size:46
Alignment explanation
Indices: 115078221--115078398 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
115078211 TGTAACCCGC
* *
115078221 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-TGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGATGTTCGCAT
* * * *
115078267 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-TTCGCAT
* * ** **
115078313 ACATTTCA-CAAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
115078360 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
115078399 CCCAAATATC
Statistics
Matches: 104, Mismatches: 22, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
45 4 0.04
46 66 0.63
47 33 0.32
48 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
Found at i:115078389 original size:93 final size:93
Alignment explanation
Indices: 115078230--115078400 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
115078220 CCCATAAGCG
** *
115078230 AACTCGGACTCAACTCAACGAGCTCAGGTGTTCGCATCCATAGGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
115078295 GAGTTCGGATGCCTAGTTACATTTCACA
66 GAGTTCGGATGCCTAGTTACATTTCACA
*
115078323 AACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 AACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
115078387 CGAGTTCGGATGCC
65 CGAGTTCGGATGCC
115078401 CAAATATCCC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATTTCACA
Found at i:115078415 original size:46 final size:45
Alignment explanation
Indices: 115078273--115078415 Score: 114
Period size: 46 Copynumber: 3.1 Consensus size: 45
115078263 GCATCCATAG
* *
115078273 GTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCACA
1 GTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATATC-CA
* * *** *
115078323 ---AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AA
1 GTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAAATATCCA
115078366 GTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCCA
1 GTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATAT-CCA
115078412 GTGA
1 GTGA
115078416 CATGTCACTT
Statistics
Matches: 72, Mismatches: 14, Indels: 18
0.69 0.13 0.17
Matches are distributed among these distances:
43 1 0.01
44 7 0.10
45 1 0.01
46 32 0.44
47 27 0.38
49 4 0.06
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
GTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCA
Found at i:115090326 original size:122 final size:120
Alignment explanation
Indices: 115090111--115090333 Score: 329
Period size: 122 Copynumber: 1.8 Consensus size: 120
115090101 CACAATAACA
* * * *
115090111 ATGAGAATGAGAATAGAAATGTAATGGGTATGAGGTTTTTCTAATCTCAATTTAACACGGAATGT
1 ATGAGAATAAGAATAGAAATGTAATGGGTATGAGGTGTTCCTAATCTCAATTTAACACGAAATGT
*
115090176 ATGATAACTAACCTAGGAATGCAAATTAAATGATAGATATTGGCATGGTAATAGC
66 ATGATAACTAACCTAAGAATGCAAATTAAATGATAGATATTGGCATGGTAATAGC
* * * ***
115090231 ATGAGAATAAGTATAGTAATGTCATGGGTATGAGGTGTTCCTAATAACTTGCTTTAACACGAAAT
1 ATGAGAATAAGAATAGAAATGTAATGGGTATGAGGTGTTCCTAAT--CTCAATTTAACACGAAAT
115090296 GTATGATAACTAACCTAAGAATGCAAATTAAATGATAG
64 GTATGATAACTAACCTAAGAATGCAAATTAAATGATAG
115090334 CAAAATGAAA
Statistics
Matches: 90, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
120 39 0.43
122 51 0.57
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.30
Consensus pattern (120 bp):
ATGAGAATAAGAATAGAAATGTAATGGGTATGAGGTGTTCCTAATCTCAATTTAACACGAAATGT
ATGATAACTAACCTAAGAATGCAAATTAAATGATAGATATTGGCATGGTAATAGC
Found at i:115100925 original size:2 final size:2
Alignment explanation
Indices: 115100920--115100959 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
115100910 ATTCTCTCAA
*
115100920 CT CT CT CT CT CT CT CT CT CT CT CT TT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
115100960 TTGTTTCTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:115106025 original size:40 final size:40
Alignment explanation
Indices: 115105960--115106069 Score: 130
Period size: 40 Copynumber: 2.8 Consensus size: 40
115105950 TCGAGAATAT
* *
115105960 AAAGTGGATAGGATTCGTTCATGATTCACTATAATACCTC
1 AAAGTGGATAGGATTTGTTCATGATTCACTATAATAACTC
* ** * *
115106000 AAAGTGGATAGGATTTGTTCTTGATTCACTATGGTAATTT
1 AAAGTGGATAGGATTTGTTCATGATTCACTATAATAACTC
* * *
115106040 AAAGTGAATAGGATTTATTCCTGATTCACT
1 AAAGTGGATAGGATTTGTTCATGATTCACT
115106070 GCGGAAACTT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (40 bp):
AAAGTGGATAGGATTTGTTCATGATTCACTATAATAACTC
Found at i:115106091 original size:40 final size:40
Alignment explanation
Indices: 115106000--115106095 Score: 102
Period size: 40 Copynumber: 2.4 Consensus size: 40
115105990 ATAATACCTC
* * * * * *
115106000 AAAGTGGATAGGATTTGTTCTTGATTCACTATGGTAATTT
1 AAAGCGGATAGGATTTATTCCTGATTCACTACGGAAACTT
* * *
115106040 AAAGTGAATAGGATTTATTCCTGATTCACTGCGGAAACTT
1 AAAGCGGATAGGATTTATTCCTGATTCACTACGGAAACTT
*
115106080 AAGGCGGATAGGATTT
1 AAAGCGGATAGGATTT
115106096 GACCTGAAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.30, C:0.10, G:0.24, T:0.35
Consensus pattern (40 bp):
AAAGCGGATAGGATTTATTCCTGATTCACTACGGAAACTT
Found at i:115107387 original size:40 final size:39
Alignment explanation
Indices: 115107272--115107387 Score: 107
Period size: 40 Copynumber: 3.0 Consensus size: 39
115107262 GACTAGCGCT
* *
115107272 GAGCTAGGCTCACAATTGTTATCGTCGGTTAACCCGACTA
1 GAGCTAGGCTCAC-ATTATTATCGTCGGTTAATCCGACTA
* * * * *
115107312 GCA-CTAGG-T-GC--TATTATTGTTGGTTTATCCAACTA
1 G-AGCTAGGCTCACATTATTATCGTCGGTTAATCCGACTA
115107347 GAGCTAGGCTCACATTCATTATCGTCGGTTAATCCGACTA
1 GAGCTAGGCTCACATT-ATTATCGTCGGTTAATCCGACTA
115107387 G
1 G
115107388 CACTGGGCGT
Statistics
Matches: 57, Mismatches: 12, Indels: 14
0.69 0.14 0.17
Matches are distributed among these distances:
34 1 0.02
35 24 0.42
36 1 0.02
37 1 0.02
38 1 0.02
39 2 0.04
40 26 0.46
41 1 0.02
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (39 bp):
GAGCTAGGCTCACATTATTATCGTCGGTTAATCCGACTA
Found at i:115116680 original size:6 final size:6
Alignment explanation
Indices: 115116669--115116703 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
115116659 TGTTTTACTA
* *
115116669 TTATTT TTATTT TTATCT TTATTT CTATTT TTATT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATT
115116704 CCATTGTCTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (6 bp):
TTATTT
Found at i:115121084 original size:17 final size:17
Alignment explanation
Indices: 115121034--115121085 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
115121024 ATTAGATAAA
* *
115121034 TATTATTTTATTAATAT
1 TATTATTATATTATTAT
* *
115121051 TTTTATGATATGT-TTAT
1 TATTATTATAT-TATTAT
115121068 TATTATTATATTATTAT
1 TATTATTATATTATTAT
115121085 T
1 T
115121086 TATTTAGTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
16 1 0.04
17 25 0.93
18 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TATTATTATATTATTAT
Found at i:115122966 original size:68 final size:68
Alignment explanation
Indices: 115122894--115123029 Score: 272
Period size: 68 Copynumber: 2.0 Consensus size: 68
115122884 GGGGAAGAAA
115122894 TCCCGGTTGAATAAAAGGAAATTTCGATGGATCTCTGAAAAGGAATTGACGGTAAAAAGGATCTA
1 TCCCGGTTGAATAAAAGGAAATTTCGATGGATCTCTGAAAAGGAATTGACGGTAAAAAGGATCTA
115122959 GCC
66 GCC
115122962 TCCCGGTTGAATAAAAGGAAATTTCGATGGATCTCTGAAAAGGAATTGACGGTAAAAAGGATCTA
1 TCCCGGTTGAATAAAAGGAAATTTCGATGGATCTCTGAAAAGGAATTGACGGTAAAAAGGATCTA
115123027 GCC
66 GCC
115123030 CAGACGGGTG
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.24
Consensus pattern (68 bp):
TCCCGGTTGAATAAAAGGAAATTTCGATGGATCTCTGAAAAGGAATTGACGGTAAAAAGGATCTA
GCC
Found at i:115123340 original size:46 final size:46
Alignment explanation
Indices: 115123288--115123607 Score: 446
Period size: 46 Copynumber: 7.0 Consensus size: 46
115123278 AGTGTGCTCT
*
115123288 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
115123334 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
115123380 CTGATATGAAATGTGTAAGATCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
115123426 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
115123472 ATGACGA-GAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGA-TATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
115123518 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
115123564 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
115123608 TCATGTCAAA
Statistics
Matches: 254, Mismatches: 17, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
45 2 0.01
46 251 0.99
47 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:115126208 original size:21 final size:21
Alignment explanation
Indices: 115126182--115126225 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
115126172 AGCTTTCTTC
115126182 TTTGAACTCTGACATTGATTG
1 TTTGAACTCTGACATTGATTG
115126203 TTTGAACTCTGACATTGATTG
1 TTTGAACTCTGACATTGATTG
115126224 TT
1 TT
115126226 AGATTAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.14, G:0.18, T:0.45
Consensus pattern (21 bp):
TTTGAACTCTGACATTGATTG
Found at i:115126378 original size:28 final size:28
Alignment explanation
Indices: 115126347--115126434 Score: 83
Period size: 28 Copynumber: 3.1 Consensus size: 28
115126337 TGATTTAAAT
115126347 AAAAAACTTTCGAATAGTTTAATAATTC
1 AAAAAACTTTCGAATAGTTTAATAATTC
* ** *
115126375 AAAAAAC-TT--AGTAACTTAATGATTTAC
1 AAAAAACTTTCGAATAGTTTAAT-AATT-C
115126402 ATAAAAAACTTTCGAATAGTTTAATAATTC
1 --AAAAAACTTTCGAATAGTTTAATAATTC
115126432 AAA
1 AAA
115126435 TGAAATCTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
25 8 0.18
26 3 0.07
27 3 0.07
28 10 0.22
29 7 0.16
30 3 0.07
31 3 0.07
32 8 0.18
ACGTcount: A:0.49, C:0.10, G:0.07, T:0.34
Consensus pattern (28 bp):
AAAAAACTTTCGAATAGTTTAATAATTC
Found at i:115126408 original size:57 final size:57
Alignment explanation
Indices: 115126320--115126434 Score: 212
Period size: 57 Copynumber: 2.0 Consensus size: 57
115126310 AATTTTTAAG
115126320 AAAACTTAGCAACTTAATGATTTAAATAAAAAACTTTCGAATAGTTTAATAATTCAA
1 AAAACTTAGCAACTTAATGATTTAAATAAAAAACTTTCGAATAGTTTAATAATTCAA
* *
115126377 AAAACTTAGTAACTTAATGATTTACATAAAAAACTTTCGAATAGTTTAATAATTCAA
1 AAAACTTAGCAACTTAATGATTTAAATAAAAAACTTTCGAATAGTTTAATAATTCAA
115126434 A
1 A
115126435 TGAAATCTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.49, C:0.10, G:0.07, T:0.34
Consensus pattern (57 bp):
AAAACTTAGCAACTTAATGATTTAAATAAAAAACTTTCGAATAGTTTAATAATTCAA
Found at i:115141789 original size:19 final size:20
Alignment explanation
Indices: 115141743--115141789 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
115141733 ATTGAGTGGT
*
115141743 TAATTAGGCTTTAATTAAGTG
1 TAATTA-GCTTTAATTAAGAG
115141764 -AATTTAGC-TTAATTAAGAG
1 TAA-TTAGCTTTAATTAAGAG
115141783 TAATTAG
1 TAATTAG
115141790 GAAAAAGGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
19 14 0.61
20 6 0.26
21 3 0.13
ACGTcount: A:0.38, C:0.04, G:0.17, T:0.40
Consensus pattern (20 bp):
TAATTAGCTTTAATTAAGAG
Found at i:115142162 original size:28 final size:30
Alignment explanation
Indices: 115142098--115142165 Score: 97
Period size: 28 Copynumber: 2.3 Consensus size: 30
115142088 GGGATATATT
115142098 TATTTAATTACTTTTTATTTAAGTAAATAGA
1 TATTT-ATTACTTTTTATTTAAGTAAATAGA
115142129 TATTTATTA-TTTATTA-TTAAGTAAA-AGA
1 TATTTATTACTTT-TTATTTAAGTAAATAGA
115142157 TATTTATTA
1 TATTTATTA
115142166 ATTAAATAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
28 12 0.33
29 12 0.33
30 7 0.19
31 5 0.14
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.53
Consensus pattern (30 bp):
TATTTATTACTTTTTATTTAAGTAAATAGA
Found at i:115143613 original size:18 final size:18
Alignment explanation
Indices: 115143586--115143624 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
115143576 ATAAAAGTAT
* *
115143586 TGAATGACTGACTGTTAC
1 TGAATAACTGACTGCTAC
*
115143604 TGAATAACTGATTGCTAC
1 TGAATAACTGACTGCTAC
115143622 TGA
1 TGA
115143625 GCAAATGTGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (18 bp):
TGAATAACTGACTGCTAC
Found at i:115143972 original size:13 final size:13
Alignment explanation
Indices: 115143954--115143979 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
115143944 TAAGCAATCG
115143954 CACACGGGCGTGT
1 CACACGGGCGTGT
115143967 CACACGGGCGTGT
1 CACACGGGCGTGT
115143980 TCCTGCCGAC
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:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Done.