Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 52 of 310
Found at i:15882417 original size:44 final size:46
Alignment explanation
Indices: 15882328--15882586 Score: 198
Period size: 44 Copynumber: 5.5 Consensus size: 46
15882318 AAGCCAGTTG
*
15882328 AAGA-CATGTCTGGGACAT-GCATCAGCTACGAGATGTGTCAGTGT
1 AAGACCATGTCTGGGACATGGCATCAGCTACGAGATATGTCAGTGT
*
15882372 AAGACCATGTCTGGGACATGGCATCAGC-AC-AGATATGTTAGTGT
1 AAGACCATGTCTGGGACATGGCATCAGCTACGAGATATGTCAGTGT
* * *
15882416 AAGACCATGTCTAGGACATGGCATCAGC-CCG-GATAAGTGAGAGCTAGTGT
1 AAGACCATGTCTGGGACATGGCATCAGCTACGAGAT-A-T--G-TC-AGTGT
* * * *
15882466 AAGACCATGTTTGGGACATGGCGTCGGCCT-CGATTTTGATA-GTCAATGT
1 AAGACCATGTCTGGGACATGGCATCAG-CTACGA----GATATGTCAGTGT
* * *
15882515 AAGACCATGTCTGGGACATGGCATC-GACT-TGATGGATGA-GCCAGTGG
1 AAGACCATGTCTGGGACATGGCATCAG-CTACGA--GAT-ATGTCAGTGT
15882562 AAGACCATGTCTGGGACATGGCATC
1 AAGACCATGTCTGGGACATGGCATC
15882587 GATATTATAC
Statistics
Matches: 178, Mismatches: 20, Indels: 31
0.78 0.09 0.14
Matches are distributed among these distances:
44 47 0.26
45 17 0.10
46 13 0.07
47 31 0.17
48 6 0.03
49 27 0.15
50 29 0.16
51 4 0.02
55 1 0.01
56 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (46 bp):
AAGACCATGTCTGGGACATGGCATCAGCTACGAGATATGTCAGTGT
Found at i:15882474 original size:94 final size:94
Alignment explanation
Indices: 15882366--15882586 Score: 236
Period size: 94 Copynumber: 2.3 Consensus size: 94
15882356 CGAGATGTGT
* *
15882366 CAGTGTAAGACCATGTCTGGGACATGGCATCAGCAC-AGA-T-AT-GTTAGTGTAAGACCATGTC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCAGC-CTAGATTGATAGTCAATGTAAGACCATGTC
*
15882427 TAGGACATGGCATCAGCCCGGATAAGTGA-GAGC
65 TAGGACATGGCATC-GACCGGAT--G-GATGAGC
* * * * *
15882460 TAGTGTAAGACCATGTTTGGGACATGGCGTCGGCCTCGATTTTGATAGTCAATGTAAGACCATGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTAGA--TTGATAGTCAATGTAAGACCATGT
* **
15882525 CTGGGACATGGCATCGACTTGATGGATGAGC
64 CTAGGACATGGCATCGACCGGATGGATGAGC
*
15882556 CAGTGGAAGACCATGTCTGGGACATGGCATC
1 CAGTGTAAGACCATGTCTGGGACATGGCATC
15882587 GATATTATAC
Statistics
Matches: 105, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
93 1 0.01
94 32 0.30
95 2 0.02
96 32 0.30
97 1 0.01
98 7 0.07
99 30 0.29
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (94 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTAGATTGATAGTCAATGTAAGACCATGTCT
AGGACATGGCATCGACCGGATGGATGAGC
Found at i:15887202 original size:12 final size:12
Alignment explanation
Indices: 15887185--15887209 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15887175 CAATTATTGA
15887185 TATCTAATTAGG
1 TATCTAATTAGG
15887197 TATCTAATTAGG
1 TATCTAATTAGG
15887209 T
1 T
15887210 GTGTTGGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (12 bp):
TATCTAATTAGG
Found at i:15891199 original size:23 final size:22
Alignment explanation
Indices: 15891173--15891219 Score: 76
Period size: 23 Copynumber: 2.1 Consensus size: 22
15891163 AAGTTTAAAA
15891173 AATGATTTATAATTGTTGGAAAT
1 AATGATTTATAATTGTT-GAAAT
*
15891196 AATGATTTGTAATTGTTGAAAT
1 AATGATTTATAATTGTTGAAAT
15891218 AA
1 AA
15891220 ATTTACATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (22 bp):
AATGATTTATAATTGTTGAAAT
Found at i:15919232 original size:27 final size:27
Alignment explanation
Indices: 15919201--15919378 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
15919191 TAAATTGTAC
15919201 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
15919228 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
15919254 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
15919282 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
15919310 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
15919337 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
15919364 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
15919379 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:15919315 original size:82 final size:81
Alignment explanation
Indices: 15919202--15919357 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
15919192 AAATTGTACA
* *
15919202 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
15919266 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
15919283 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
15919348 TGCGAGTTGA
65 TGCGAATTGA
15919358 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:15919369 original size:82 final size:81
Alignment explanation
Indices: 15919198--15919378 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
15919188 GATTAAATTG
* *
15919198 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
15919263 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
15919279 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
15919343 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
15919361 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
15919379 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:15921760 original size:25 final size:24
Alignment explanation
Indices: 15921723--15921790 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 24
15921713 ATGCATACAT
15921723 ATATATCATATTGACTGTTCGACTAAA
1 ATATATC--ATTGACTGTT-GACTAAA
* *
15921750 ATATTTCATTGACTGATTGACTGAA
1 ATATATCATTGACTG-TTGACTAAA
* *
15921775 ATGTATGATTGACTGT
1 ATATATCATTGACTGT
15921791 CCAACTAGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
24 1 0.03
25 26 0.74
26 2 0.06
27 6 0.17
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (24 bp):
ATATATCATTGACTGTTGACTAAA
Found at i:15924719 original size:42 final size:42
Alignment explanation
Indices: 15924583--15924739 Score: 200
Period size: 40 Copynumber: 3.8 Consensus size: 42
15924573 ATGACAATTT
15924583 GACTATGTATGGCACTTA--GTGT-ACGATTCGAGATAGCTTC
1 GACTATGTATGGCACTTAGTGTGTGA-GATTCGAGATAGCTTC
* *
15924623 GGCTATGTATGGCACTTAGTGTGTG-G-TTCGAGATAGCTTT
1 GACTATGTATGGCACTTAGTGTGTGAGATTCGAGATAGCTTC
* *
15924663 GGCTATGTATGGCACTTAGTGTGTGAGATT-GAAATAGCTTC
1 GACTATGTATGGCACTTAGTGTGTGAGATTCGAGATAGCTTC
*
15924704 AACTATGTATTGGCACTTAGTGTGTGAGAATTCGAG
1 GACTATGTA-TGGCACTTAGTGTGTGAG-ATTCGAG
15924740 TGTTCGACAT
Statistics
Matches: 102, Mismatches: 7, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
40 55 0.54
41 18 0.18
42 24 0.24
43 3 0.03
44 2 0.02
ACGTcount: A:0.24, C:0.13, G:0.29, T:0.34
Consensus pattern (42 bp):
GACTATGTATGGCACTTAGTGTGTGAGATTCGAGATAGCTTC
Found at i:15924727 original size:80 final size:79
Alignment explanation
Indices: 15924580--15924729 Score: 196
Period size: 82 Copynumber: 1.8 Consensus size: 79
15924570 TTGATGACAA
* **
15924580 TTTGACTATGTATGGCACTTAGTGTACGATTCGAGATAGCTTCGGCTATGTATGGCACTTAGTGT
1 TTTGACTATGTATGGCACTTAGTGTACGATTCGAAATAGCTTCAACTATGTATGGCACTTAG-GT
15924645 GTGGTTCGAGATAGC
65 GTGGTTCGAGATAGC
*
15924660 TTTGGCTATGTATGGCACTTAGTGTGTGA-GATT-GAAATAGCTTCAACTATGTATTGGCACTTA
1 TTTGACTATGTATGGCACTTA--GTGT-ACGATTCGAAATAGCTTCAACTATGTA-TGGCACTTA
15924723 GTGTGTG
62 G-GTGTG
15924730 AGAATTCGAG
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
80 20 0.32
81 17 0.27
82 24 0.39
83 1 0.02
ACGTcount: A:0.22, C:0.13, G:0.28, T:0.37
Consensus pattern (79 bp):
TTTGACTATGTATGGCACTTAGTGTACGATTCGAAATAGCTTCAACTATGTATGGCACTTAGGTG
TGGTTCGAGATAGC
Found at i:15931724 original size:24 final size:24
Alignment explanation
Indices: 15931697--15931745 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
15931687 AGTTTGATGA
15931697 TAGAATTTGAATAGTTATTGATAG
1 TAGAATTTGAATAGTTATTGATAG
15931721 TAGAATTTGAATAGTTATTGATAG
1 TAGAATTTGAATAGTTATTGATAG
15931745 T
1 T
15931746 TAAACAAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.43
Consensus pattern (24 bp):
TAGAATTTGAATAGTTATTGATAG
Found at i:15932280 original size:40 final size:40
Alignment explanation
Indices: 15932236--15932419 Score: 199
Period size: 40 Copynumber: 4.5 Consensus size: 40
15932226 CAATTCGACA
* *
15932236 ATGTATGGCACTTAGTGTGCGATTCGAGATAACTTCGGCT
1 ATGTATGGCACTTAGTGTGCGATTCGAAATAACTTCAGCT
* *
15932276 ATGTATGGCACTCAGTGTGTGATTCGAAATAGA-TTCAGCT
1 ATGTATGGCACTTAGTGTGCGATTCGAAATA-ACTTCAGCT
* * * * * * *
15932316 ATGTACGGCACTTAATGTGTGATTTGAGATAGCTTTAGCT
1 ATGTATGGCACTTAGTGTGCGATTCGAAATAACTTCAGCT
* * * *
15932356 ATGTATGACACTTAGTGTGCGATATTGAAATAGCTTCGGCT
1 ATGTATGGCACTTAGTGTGCGAT-TCGAAATAACTTCAGCT
15932397 ATGTATTGGCACTTAGTGTGCGA
1 ATGTA-TGGCACTTAGTGTGCGA
15932420 GAATTTGAGT
Statistics
Matches: 121, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
40 85 0.70
41 20 0.17
42 16 0.13
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (40 bp):
ATGTATGGCACTTAGTGTGCGATTCGAAATAACTTCAGCT
Found at i:15932373 original size:80 final size:81
Alignment explanation
Indices: 15932236--15932419 Score: 235
Period size: 80 Copynumber: 2.3 Consensus size: 81
15932226 CAATTCGACA
* * *
15932236 ATGTATGGCACTTAGTGTGCGATTCGAGATAACTTCGGCTATGTATGGCACTCAGTGTGTGAT-T
1 ATGTATGGCACTTAGTGTGCGATTCGAGATAACTTCAGCTATGTATGACACTCAGTGTGCGATAT
15932300 CGAAATAGATTCAGCT
66 CGAAATAGATTCAGCT
* * * * * * *
15932316 ATGTACGGCACTTAATGTGTGATTTGAGATAGCTTTAGCTATGTATGACACTTAGTGTGCGATAT
1 ATGTATGGCACTTAGTGTGCGATTCGAGATAACTTCAGCTATGTATGACACTCAGTGTGCGATAT
* * *
15932381 TGAAATAGCTTCGGCT
66 CGAAATAGATTCAGCT
15932397 ATGTATTGGCACTTAGTGTGCGA
1 ATGTA-TGGCACTTAGTGTGCGA
15932420 GAATTTGAGT
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
80 53 0.62
81 19 0.22
82 14 0.16
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (81 bp):
ATGTATGGCACTTAGTGTGCGATTCGAGATAACTTCAGCTATGTATGACACTCAGTGTGCGATAT
CGAAATAGATTCAGCT
Found at i:15942372 original size:44 final size:44
Alignment explanation
Indices: 15942309--15942395 Score: 165
Period size: 44 Copynumber: 2.0 Consensus size: 44
15942299 CAGGCCAGCA
15942309 GGCCCATTTTGATATGGTTTTACAAATACTTAAATATAAGCGTT
1 GGCCCATTTTGATATGGTTTTACAAATACTTAAATATAAGCGTT
*
15942353 GGCCCATTTTTATATGGTTTTACAAATACTTAAATATAAGCGT
1 GGCCCATTTTGATATGGTTTTACAAATACTTAAATATAAGCGT
15942396 ATTGAAAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (44 bp):
GGCCCATTTTGATATGGTTTTACAAATACTTAAATATAAGCGTT
Found at i:15944331 original size:48 final size:45
Alignment explanation
Indices: 15944181--15944346 Score: 136
Period size: 46 Copynumber: 3.6 Consensus size: 45
15944171 GATATGTGTC
* * * * **
15944181 CTAGTGTAAGACATGTCTGGGACATGTATCGACCACATTACGAGAG
1 CTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCAAGA-GAGAG
* * * ** *
15944227 CCAGTGTAAGACAAGTCT-GGAACATGCATCGGCATTGAGACAAGAG
1 CTAGTGTAAGACATGTCTAGG-ACATGCATCGGCCTCAAGA-GAGAG
*
15944273 CTTGTGTAAGACATGTCTAGGACATGCATCGGCCTCAAGATGTACGAG
1 CTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCAAGA-G-A-GAG
* *
15944321 CTAGTGTAAGACCTGCCTAGGACATG
1 CTAGTGTAAGACATGTCTAGGACATG
15944347 GCGTCAGCTT
Statistics
Matches: 94, Mismatches: 22, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
45 2 0.02
46 63 0.67
47 3 0.03
48 26 0.28
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.22
Consensus pattern (45 bp):
CTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCAAGAGAGAG
Found at i:15944428 original size:49 final size:49
Alignment explanation
Indices: 15944366--15944493 Score: 141
Period size: 49 Copynumber: 2.6 Consensus size: 49
15944356 TGTTGTGTGT
* * * *
15944366 CAGTGTAAAACCTGTCTGGGGCATGGCAT-TGACACCGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGGAC-CCGATAGATGAAAGC
* * * * * * *
15944415 CAGTGTAAGACCTGTCTAGGACACGACATCGGGCTCGATATATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGGACCCGATAGATGAAAGC
15944464 CAGTGTAAGACCTGTCTGGGACATGGCATC
1 CAGTGTAAGACCTGTCTGGGACATGGCATC
15944494 CACTTTGATG
Statistics
Matches: 64, Mismatches: 14, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
49 62 0.97
50 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGGACCCGATAGATGAAAGC
Found at i:15945297 original size:66 final size:66
Alignment explanation
Indices: 15945225--15945352 Score: 247
Period size: 66 Copynumber: 1.9 Consensus size: 66
15945215 ATGGGATAAA
15945225 ATTTATATAATTGGAATCCTTAATGAGTATATTTTCAAAATAAACAAACAGAAACATCATTCTAA
1 ATTTATATAATTGGAATCCTTAATGAGTATATTTTCAAAATAAACAAACAGAAACATCATTCTAA
15945290 T
66 T
*
15945291 ATTTATATGATTGGAATCCTTAATGAGTATATTTTCAAAATAAACAAACAGAAACATCATTC
1 ATTTATATAATTGGAATCCTTAATGAGTATATTTTCAAAATAAACAAACAGAAACATCATTC
15945353 GAATCCCGTG
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (66 bp):
ATTTATATAATTGGAATCCTTAATGAGTATATTTTCAAAATAAACAAACAGAAACATCATTCTAA
T
Found at i:15951312 original size:49 final size:48
Alignment explanation
Indices: 15951249--15951351 Score: 136
Period size: 47 Copynumber: 2.1 Consensus size: 48
15951239 TTGTCTAGGG
* *
15951249 CATGACATCGACTTTGATAAATGAGAGCCAGTGTAAGACC-TGTTTGGGA
1 CATGGCATCCACTTTGAT--ATGAGAGCCAGTGTAAGACCATGTTTGGGA
* **
15951298 CATGGCATCCACTTTGATGTGCTAGCCAGTGTAAGACCATGTTTGGGA
1 CATGGCATCCACTTTGATATGAGAGCCAGTGTAAGACCATGTTTGGGA
15951346 CATGGC
1 CATGGC
15951352 GTCGGCATCT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
47 17 0.35
48 15 0.31
49 16 0.33
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (48 bp):
CATGGCATCCACTTTGATATGAGAGCCAGTGTAAGACCATGTTTGGGA
Found at i:15953008 original size:30 final size:30
Alignment explanation
Indices: 15952974--15953032 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
15952964 CATGTGAAAT
15952974 GGGATAGCTTCGGCTATCGAATGTAAAAAA
1 GGGATAGCTTCGGCTATCGAATGTAAAAAA
*
15953004 GGGATAGCTTCGGCTATCGAATGTGAAAA
1 GGGATAGCTTCGGCTATCGAATGTAAAAA
15953033 GGTTAGGTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.34, C:0.14, G:0.29, T:0.24
Consensus pattern (30 bp):
GGGATAGCTTCGGCTATCGAATGTAAAAAA
Found at i:15953103 original size:32 final size:32
Alignment explanation
Indices: 15953027--15953152 Score: 171
Period size: 32 Copynumber: 3.9 Consensus size: 32
15953017 CTATCGAATG
* * * *
15953027 TGAAAAGGTTAGGTATACTTTGTGTATACCACA
1 TGAAAAGGTTATGTACACTTTGTGTGTA-CACT
*
15953060 TGAAAATGTTATGTACACTTTGTGTGTACACT
1 TGAAAAGGTTATGTACACTTTGTGTGTACACT
15953092 TGAAAAGGTTATGTACACTTTGTGTGTACACT
1 TGAAAAGGTTATGTACACTTTGTGTGTACACT
** *
15953124 TGAAAAGGAAATGTATACTTTGTGTGTAC
1 TGAAAAGGTTATGTACACTTTGTGTGTAC
15953153 CGCTCAGAAA
Statistics
Matches: 84, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
32 60 0.71
33 24 0.29
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.37
Consensus pattern (32 bp):
TGAAAAGGTTATGTACACTTTGTGTGTACACT
Found at i:15969128 original size:27 final size:24
Alignment explanation
Indices: 15969100--15969155 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 24
15969090 AGTTAATAAA
15969100 TTTTCTTTGAGTTTTTCTTTTCAAGAAT
1 TTTTC-TTGAG-TTTTCTTTT--AGAAT
15969128 TTTTCTTGAGTTTTCTTTTAGAAT
1 TTTTCTTGAGTTTTCTTTTAGAAT
15969152 TTTT
1 TTTT
15969156 TTTTCTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
24 9 0.32
26 9 0.32
27 5 0.18
28 5 0.18
ACGTcount: A:0.16, C:0.09, G:0.11, T:0.64
Consensus pattern (24 bp):
TTTTCTTGAGTTTTCTTTTAGAAT
Found at i:15974366 original size:20 final size:21
Alignment explanation
Indices: 15974337--15974387 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
15974327 ATAGATTTTC
* * *
15974337 TTTAATATAATTAATTATT-T
1 TTTAAAATAATCAAATATTAT
15974357 TTTAAAATAATCAAATATTAT
1 TTTAAAATAATCAAATATTAT
15974378 TTTCAAAATA
1 TTT-AAAATA
15974388 GTCTTAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 16 0.62
21 4 0.15
22 6 0.23
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTAAAATAATCAAATATTAT
Found at i:15977824 original size:18 final size:19
Alignment explanation
Indices: 15977801--15977837 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
15977791 TTGCTATTTT
15977801 TATA-TTACAAAATATCTA
1 TATATTTACAAAATATCTA
15977819 TATATTTTACAAAATATCT
1 TATA-TTTACAAAATATCT
15977838 GCTCTCACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
20 13 0.76
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (19 bp):
TATATTTACAAAATATCTA
Found at i:15982390 original size:18 final size:19
Alignment explanation
Indices: 15982367--15982403 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
15982357 TTGCTATTTT
15982367 TATA-TTACAAAATATCTA
1 TATATTTACAAAATATCTA
15982385 TATATTTTACAAAATATCT
1 TATA-TTTACAAAATATCT
15982404 GCTCTCACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
20 13 0.76
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (19 bp):
TATATTTACAAAATATCTA
Found at i:15997149 original size:15 final size:15
Alignment explanation
Indices: 15997126--15997164 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
15997116 ACGAAGTACG
*
15997126 TTAATTAATGCAACA
1 TTAAGTAATGCAACA
15997141 TTAAGTAATGCAACA
1 TTAAGTAATGCAACA
15997156 TTAAGTAAT
1 TTAAGTAAT
15997165 AATAGAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.33
Consensus pattern (15 bp):
TTAAGTAATGCAACA
Found at i:15997879 original size:31 final size:31
Alignment explanation
Indices: 15997844--15997905 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
15997834 TTGATGTCAT
15997844 TCCCTAATACGTATTTCTAGATCAAACATCG
1 TCCCTAATACGTATTTCTAGATCAAACATCG
*
15997875 TCCCTAATACGTATTTCTAGATCGAACATCG
1 TCCCTAATACGTATTTCTAGATCAAACATCG
15997906 ACCCACCAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.32
Consensus pattern (31 bp):
TCCCTAATACGTATTTCTAGATCAAACATCG
Found at i:15998799 original size:126 final size:125
Alignment explanation
Indices: 15998507--15999026 Score: 677
Period size: 125 Copynumber: 4.2 Consensus size: 125
15998497 AAGGCCAAAC
* * * ** * *
15998507 AGGAACTACTGTAAAAAAAGAGCATACACATGGGAGCTTTTTTCAGTAATTTTGCT-ACAATGCG
1 AGGAACTACTGTAGAAAAAGAGCGTCCATGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCA
* *
15998571 TCCTGCTTGAAGCATTTTTGACACTATTTTTTTAGAACCGTCTTCTCAAAATTATTTTTT
66 TCCTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTTTCAAAATTATTTTTT
* *
15998631 AGGAATTACTGTAGAAAAAGAGCGTCCATGTGGGAGCTTTTTTCAATAATTTTGCTGACAGTGCA
1 AGGAACTACTGTAGAAAAAGAGCGTCCATGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCA
* * *
15998696 TCCTGCTTGAAGCATTTTTGACACTATTTTTTCATAATCATCTTTTCAAAATTATTTTTTT
66 TCCTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTTTCAAAATTA-TTTTTT
* *
15998757 AGGAACTACTGTAGAAAAAGAGCGTCCATGTGAGAGCTTTTTTCAGTAATTTTGCTAACAGTGCA
1 AGGAACTACTGTAGAAAAAGAGCGTCCATGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCA
* *
15998822 TCTTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTCTT-AAAATTATTTTTC
66 TCCTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTT-TTCAAAATTATTTTTT
* * * * * *
15998882 AAGAACTACTGTAGAAAAAAAGTGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGATAGTGCA
1 AGGAACTACTGTAGAAAAAGAGCGTCCATGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCA
* * * * * * * *
15998947 TCCTACTTGAACCGTTTTTGACATTATCTTTTCAGAACTGT-TTTCTCAAAATTAAATTTTC
66 TCCTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTT-TCAAAATT-ATTTTTT
* *
15999008 AGAAACTACTGTAAAAAAA
1 AGGAACTACTGTAGAAAAA
15999027 TAAAAAATAA
Statistics
Matches: 348, Mismatches: 42, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
123 1 0.00
124 52 0.15
125 157 0.45
126 136 0.39
127 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (125 bp):
AGGAACTACTGTAGAAAAAGAGCGTCCATGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCA
TCCTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTTTCAAAATTATTTTTT
Found at i:15998949 original size:251 final size:250
Alignment explanation
Indices: 15998507--15999026 Score: 724
Period size: 251 Copynumber: 2.1 Consensus size: 250
15998497 AAGGCCAAAC
*
15998507 AGGAACTACTGTAAAAAAAGAGCATACACATGGGAGCTTTTTTCAGTAATTTTGCTACAATGCGT
1 AGGAACTACTGTAAAAAAAGAGCATACACATGGGAGCTTTTTTCAGTAATTTTGCTACAATGCAT
* * * *
15998572 CCTGCTTGAAGCATTTTTGACACTATTTTTTTAGAACCGTCTTCTCAAAATTATTTTTTAGGAAT
66 CCTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTCAAGAAC
* * *
15998637 TACTGTAGAAAAAGAGCGTCCATGTGGGAGCTTTTTTCAATAATTTTGCTGACAGTGCATCCTGC
131 TACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAATAATTTTGCTGACAGTGCATCCTAC
* *
15998702 TTGAAGCATTTTTGACACTATTTTTTCATAATCATCTTTTCAAAATTATTTTTTT
196 TTGAACCATTTTTGACACTATCTTTTCATAATCATCTTTTCAAAATTATTTTTTT
* * *
15998757 AGGAACTACTGTAGAAAAAGAGCGT-C-CATGTGAGAGCTTTTTTCAGTAATTTTGCTAACAGTG
1 AGGAACTACTGTAAAAAAAGAGCATACACATG-G-GAGCTTTTTTCAGTAATTTTGCT-ACAATG
* *
15998820 CATCTTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTCTTAAAATTATTTTTCAAG
63 CATCCTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTCAAG
* * * *
15998885 AACTACTGTAGAAAAAAAGTGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGATAGTGCATCC
128 AACTACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAATAATTTTGCTGACAGTGCATCC
* * * * ** *
15998950 TACTTGAACCGTTTTTGACATTATCTTTTCAGAA-C-TGTTTTCTCAAAATTAAATTTTC
193 TACTTGAACCATTTTTGACACTATCTTTTCATAATCAT-CTTT-TCAAAATTATTTTTTT
*
15999008 AGAAACTACTGTAAAAAAA
1 AGGAACTACTGTAAAAAAA
15999027 TAAAAAATAA
Statistics
Matches: 237, Mismatches: 28, Indels: 9
0.86 0.10 0.03
Matches are distributed among these distances:
248 4 0.02
249 3 0.01
250 50 0.21
251 180 0.76
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (250 bp):
AGGAACTACTGTAAAAAAAGAGCATACACATGGGAGCTTTTTTCAGTAATTTTGCTACAATGCAT
CCTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTCAAGAAC
TACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAATAATTTTGCTGACAGTGCATCCTAC
TTGAACCATTTTTGACACTATCTTTTCATAATCATCTTTTCAAAATTATTTTTTT
Found at i:15999168 original size:33 final size:32
Alignment explanation
Indices: 15999115--15999189 Score: 107
Period size: 33 Copynumber: 2.3 Consensus size: 32
15999105 AAACACAAAA
15999115 TTATTTTTTAAAAGACTAAACCCTAATTTAAT
1 TTATTTTTTAAAAGACTAAACCCTAATTTAAT
15999147 TTATTTTTTAAAA-ACTATAAACCCTAATTTAAT
1 TTATTTTTTAAAAGAC--TAAACCCTAATTTAAT
*
15999180 TAATTATTTT
1 TTATT-TTTT
15999190 TTTAAATTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
31 2 0.05
32 13 0.33
33 20 0.51
34 4 0.10
ACGTcount: A:0.40, C:0.11, G:0.01, T:0.48
Consensus pattern (32 bp):
TTATTTTTTAAAAGACTAAACCCTAATTTAAT
Found at i:16005248 original size:942 final size:942
Alignment explanation
Indices: 16003425--16005308 Score: 3768
Period size: 942 Copynumber: 2.0 Consensus size: 942
16003415 TAAATAAAAA
16003425 GTTTGGATTTTGATCTATTCTTTAAGCTGAAACAATTACCTTTTTAGAAACATAATTCACGGGTT
1 GTTTGGATTTTGATCTATTCTTTAAGCTGAAACAATTACCTTTTTAGAAACATAATTCACGGGTT
16003490 ATAGTTGTTATTTACTAAATAACATAACAGATAATGGAAGTGTTTGATTTTAGTGGTCACTACTG
66 ATAGTTGTTATTTACTAAATAACATAACAGATAATGGAAGTGTTTGATTTTAGTGGTCACTACTG
16003555 TTTTTATAGTGCAAACAAAAATACAAAGAGTAACAAGATTTGTTTACACAATTCGATTTTTCTAC
131 TTTTTATAGTGCAAACAAAAATACAAAGAGTAACAAGATTTGTTTACACAATTCGATTTTTCTAC
16003620 TTCTGCAGAACGTAGCTCTGTAAGTAATTTCATTATCATTAATTCATAATACAACAAATGAGTCA
196 TTCTGCAGAACGTAGCTCTGTAAGTAATTTCATTATCATTAATTCATAATACAACAAATGAGTCA
16003685 CAGTCTATCGCTCTCCAAATATAGAGATCTTATATTTGTACGTTAAGATTAGAACACTCACCTCT
261 CAGTCTATCGCTCTCCAAATATAGAGATCTTATATTTGTACGTTAAGATTAGAACACTCACCTCT
16003750 AAATTTTTCCCTTAAGAATTTAAGTAGTAAACACTAAAGGTTTACAATTCAGTATGCACTCTCAC
326 AAATTTTTCCCTTAAGAATTTAAGTAGTAAACACTAAAGGTTTACAATTCAGTATGCACTCTCAC
16003815 TCACAATGGTTCCTCAATGAACAAATTCTAGTGATCTTAATATCACTCTTATCCATAACCTAAAC
391 TCACAATGGTTCCTCAATGAACAAATTCTAGTGATCTTAATATCACTCTTATCCATAACCTAAAC
16003880 AAGCCTTATAGCATATATCAGTCTTGGCTTGATAACATAGAAACTAAATGAATAAAAAGTAACTC
456 AAGCCTTATAGCATATATCAGTCTTGGCTTGATAACATAGAAACTAAATGAATAAAAAGTAACTC
16003945 TTTGAAAATAGCTATTATAATGCAAACAATAAAATCATAATTTGATGAGTATATGACTTTCCAAA
521 TTTGAAAATAGCTATTATAATGCAAACAATAAAATCATAATTTGATGAGTATATGACTTTCCAAA
16004010 ATCAGCAGCACAATCTCAACCAAATCTCCATAAACAATGGTTTTCTTGATTCATTATAGTTAAAT
586 ATCAGCAGCACAATCTCAACCAAATCTCCATAAACAATGGTTTTCTTGATTCATTATAGTTAAAT
16004075 CTAATCTTTAATAGACACATATTGATTCCCATAAATGGACCATAGTATCTTCAAAATATTAACAT
651 CTAATCTTTAATAGACACATATTGATTCCCATAAATGGACCATAGTATCTTCAAAATATTAACAT
16004140 AATAACTAGTTCAAAAGTTTTGCTTTATTAAATTGTCAATTCAAATATAGTAAGTAAGTAATTCT
716 AATAACTAGTTCAAAAGTTTTGCTTTATTAAATTGTCAATTCAAATATAGTAAGTAAGTAATTCT
16004205 ACTATGTCAGTGTTGAATTGCAGTGGGTAATACAAATTTGATCATTCTCTATGTATATTTAAATT
781 ACTATGTCAGTGTTGAATTGCAGTGGGTAATACAAATTTGATCATTCTCTATGTATATTTAAATT
16004270 TAAATGTTTATTATAAGTAAATTTATATATAATTAATATTTATTTGATATAATAATAAATTCAAT
846 TAAATGTTTATTATAAGTAAATTTATATATAATTAATATTTATTTGATATAATAATAAATTCAAT
16004335 ATATGATACAGATAAATTTATTTATAAATTAT
911 ATATGATACAGATAAATTTATTTATAAATTAT
16004367 GTTTGGATTTTGATCTATTCTTTAAGCTGAAACAATTACCTTTTTAGAAACATAATTCACGGGTT
1 GTTTGGATTTTGATCTATTCTTTAAGCTGAAACAATTACCTTTTTAGAAACATAATTCACGGGTT
16004432 ATAGTTGTTATTTACTAAATAACATAACAGATAATGGAAGTGTTTGATTTTAGTGGTCACTACTG
66 ATAGTTGTTATTTACTAAATAACATAACAGATAATGGAAGTGTTTGATTTTAGTGGTCACTACTG
16004497 TTTTTATAGTGCAAACAAAAATACAAAGAGTAACAAGATTTGTTTACACAATTCGATTTTTCTAC
131 TTTTTATAGTGCAAACAAAAATACAAAGAGTAACAAGATTTGTTTACACAATTCGATTTTTCTAC
16004562 TTCTGCAGAACGTAGCTCTGTAAGTAATTTCATTATCATTAATTCATAATACAACAAATGAGTCA
196 TTCTGCAGAACGTAGCTCTGTAAGTAATTTCATTATCATTAATTCATAATACAACAAATGAGTCA
16004627 CAGTCTATCGCTCTCCAAATATAGAGATCTTATATTTGTACGTTAAGATTAGAACACTCACCTCT
261 CAGTCTATCGCTCTCCAAATATAGAGATCTTATATTTGTACGTTAAGATTAGAACACTCACCTCT
16004692 AAATTTTTCCCTTAAGAATTTAAGTAGTAAACACTAAAGGTTTACAATTCAGTATGCACTCTCAC
326 AAATTTTTCCCTTAAGAATTTAAGTAGTAAACACTAAAGGTTTACAATTCAGTATGCACTCTCAC
16004757 TCACAATGGTTCCTCAATGAACAAATTCTAGTGATCTTAATATCACTCTTATCCATAACCTAAAC
391 TCACAATGGTTCCTCAATGAACAAATTCTAGTGATCTTAATATCACTCTTATCCATAACCTAAAC
16004822 AAGCCTTATAGCATATATCAGTCTTGGCTTGATAACATAGAAACTAAATGAATAAAAAGTAACTC
456 AAGCCTTATAGCATATATCAGTCTTGGCTTGATAACATAGAAACTAAATGAATAAAAAGTAACTC
16004887 TTTGAAAATAGCTATTATAATGCAAACAATAAAATCATAATTTGATGAGTATATGACTTTCCAAA
521 TTTGAAAATAGCTATTATAATGCAAACAATAAAATCATAATTTGATGAGTATATGACTTTCCAAA
16004952 ATCAGCAGCACAATCTCAACCAAATCTCCATAAACAATGGTTTTCTTGATTCATTATAGTTAAAT
586 ATCAGCAGCACAATCTCAACCAAATCTCCATAAACAATGGTTTTCTTGATTCATTATAGTTAAAT
16005017 CTAATCTTTAATAGACACATATTGATTCCCATAAATGGACCATAGTATCTTCAAAATATTAACAT
651 CTAATCTTTAATAGACACATATTGATTCCCATAAATGGACCATAGTATCTTCAAAATATTAACAT
16005082 AATAACTAGTTCAAAAGTTTTGCTTTATTAAATTGTCAATTCAAATATAGTAAGTAAGTAATTCT
716 AATAACTAGTTCAAAAGTTTTGCTTTATTAAATTGTCAATTCAAATATAGTAAGTAAGTAATTCT
16005147 ACTATGTCAGTGTTGAATTGCAGTGGGTAATACAAATTTGATCATTCTCTATGTATATTTAAATT
781 ACTATGTCAGTGTTGAATTGCAGTGGGTAATACAAATTTGATCATTCTCTATGTATATTTAAATT
16005212 TAAATGTTTATTATAAGTAAATTTATATATAATTAATATTTATTTGATATAATAATAAATTCAAT
846 TAAATGTTTATTATAAGTAAATTTATATATAATTAATATTTATTTGATATAATAATAAATTCAAT
16005277 ATATGATACAGATAAATTTATTTATAAATTAT
911 ATATGATACAGATAAATTTATTTATAAATTAT
16005309 ATAAAAGATG
Statistics
Matches: 942, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
942 942 1.00
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.36
Consensus pattern (942 bp):
GTTTGGATTTTGATCTATTCTTTAAGCTGAAACAATTACCTTTTTAGAAACATAATTCACGGGTT
ATAGTTGTTATTTACTAAATAACATAACAGATAATGGAAGTGTTTGATTTTAGTGGTCACTACTG
TTTTTATAGTGCAAACAAAAATACAAAGAGTAACAAGATTTGTTTACACAATTCGATTTTTCTAC
TTCTGCAGAACGTAGCTCTGTAAGTAATTTCATTATCATTAATTCATAATACAACAAATGAGTCA
CAGTCTATCGCTCTCCAAATATAGAGATCTTATATTTGTACGTTAAGATTAGAACACTCACCTCT
AAATTTTTCCCTTAAGAATTTAAGTAGTAAACACTAAAGGTTTACAATTCAGTATGCACTCTCAC
TCACAATGGTTCCTCAATGAACAAATTCTAGTGATCTTAATATCACTCTTATCCATAACCTAAAC
AAGCCTTATAGCATATATCAGTCTTGGCTTGATAACATAGAAACTAAATGAATAAAAAGTAACTC
TTTGAAAATAGCTATTATAATGCAAACAATAAAATCATAATTTGATGAGTATATGACTTTCCAAA
ATCAGCAGCACAATCTCAACCAAATCTCCATAAACAATGGTTTTCTTGATTCATTATAGTTAAAT
CTAATCTTTAATAGACACATATTGATTCCCATAAATGGACCATAGTATCTTCAAAATATTAACAT
AATAACTAGTTCAAAAGTTTTGCTTTATTAAATTGTCAATTCAAATATAGTAAGTAAGTAATTCT
ACTATGTCAGTGTTGAATTGCAGTGGGTAATACAAATTTGATCATTCTCTATGTATATTTAAATT
TAAATGTTTATTATAAGTAAATTTATATATAATTAATATTTATTTGATATAATAATAAATTCAAT
ATATGATACAGATAAATTTATTTATAAATTAT
Found at i:16005581 original size:11 final size:11
Alignment explanation
Indices: 16005565--16005589 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
16005555 AGCTTTCATG
16005565 ATTAATTAATT
1 ATTAATTAATT
16005576 ATTAATTAATT
1 ATTAATTAATT
16005587 ATT
1 ATT
16005590 TTAACATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
ATTAATTAATT
Found at i:16008020 original size:25 final size:24
Alignment explanation
Indices: 16007991--16008042 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
16007981 ATAATGGATA
* *
16007991 TTAATTAATAATTGTTTAAAAATAT
1 TTAATT-ATAAATGTTTAAAAAAAT
*
16008016 TTAATTTTAAATGTTTAAAAAAAT
1 TTAATTATAAATGTTTAAAAAAAT
16008040 TTA
1 TTA
16008043 GATGCAAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 18 0.75
25 6 0.25
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (24 bp):
TTAATTATAAATGTTTAAAAAAAT
Found at i:16015045 original size:17 final size:17
Alignment explanation
Indices: 16015018--16015083 Score: 75
Period size: 17 Copynumber: 3.9 Consensus size: 17
16015008 TACCATTTGT
*
16015018 TTTATTTTATTATTGTTA
1 TTTAGTTTATTATT-TTA
16015036 TTTA-TTTATTATTCTTA
1 TTTAGTTTATTATT-TTA
16015053 -TTAGTTATATTATTTTA
1 TTTAGTT-TATTATTTTA
16015070 TTT-GTTTATTATTT
1 TTTAGTTTATTATTT
16015084 GTGGTTATTT
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
16 11 0.25
17 20 0.45
18 13 0.30
ACGTcount: A:0.23, C:0.02, G:0.05, T:0.71
Consensus pattern (17 bp):
TTTAGTTTATTATTTTA
Found at i:16023016 original size:49 final size:49
Alignment explanation
Indices: 16022939--16023303 Score: 625
Period size: 49 Copynumber: 7.6 Consensus size: 49
16022929 TTAAACCCAT
16022939 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
16022986 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
16023035 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
16023084 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
16023133 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
16023182 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
16023231 ATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAATGTGATGG
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
16023278 ATGTGAAAGTGCATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
16023304 TAGCCCTGTA
Statistics
Matches: 306, Mismatches: 8, Indels: 8
0.95 0.02 0.02
Matches are distributed among these distances:
47 60 0.20
48 1 0.00
49 245 0.80
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (49 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:16023905 original size:32 final size:32
Alignment explanation
Indices: 16023869--16023932 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
16023859 CCCATCATAG
* * *
16023869 TATCAATTGGGCCTAGCCCATCTCATAATCAA
1 TATCAATTGGACCTAGCCCATATCAGAATCAA
16023901 TATCAATTGGACCTAGCCCATATCAGAATCAA
1 TATCAATTGGACCTAGCCCATATCAGAATCAA
16023933 ACCCATATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (32 bp):
TATCAATTGGACCTAGCCCATATCAGAATCAA
Found at i:16024274 original size:27 final size:27
Alignment explanation
Indices: 16024237--16024303 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
16024227 CGAGGGCAAA
* * *
16024237 CAGTCATTTTACCCTACAGGGGTATTT
1 CAGTAATTTTACACTACAAGGGTATTT
16024264 CAGTAATTTTACACTACAAGGGTATTT
1 CAGTAATTTTACACTACAAGGGTATTT
16024291 CAGTAATTTTACA
1 CAGTAATTTTACA
16024304 AACCGAGGGT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (27 bp):
CAGTAATTTTACACTACAAGGGTATTT
Found at i:16024312 original size:27 final size:27
Alignment explanation
Indices: 16024237--16024316 Score: 90
Period size: 27 Copynumber: 3.0 Consensus size: 27
16024227 CGAGGGCAAA
* * * *
16024237 CAGTCATTTTACCCTACAGGGGTATTT
1 CAGTAATTTTACACAACAAGGGTATTT
*
16024264 CAGTAATTTTACACTACAAGGGTATTT
1 CAGTAATTTTACACAACAAGGGTATTT
*
16024291 CAGTAATTTTACA-AACCGAGGGTATT
1 CAGTAATTTTACACAA-CAAGGGTATT
16024317 AATGACCCAA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 1 0.02
27 46 0.98
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (27 bp):
CAGTAATTTTACACAACAAGGGTATTT
Found at i:16035637 original size:18 final size:19
Alignment explanation
Indices: 16035602--16035639 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
16035592 TGAATTGACC
16035602 AAATGGGCCAGAATGGGCT
1 AAATGGGCCAGAATGGGCT
*
16035621 AAATGGGCCCG-ATGGGCT
1 AAATGGGCCAGAATGGGCT
16035639 A
1 A
16035640 TTGGGCCCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.29, C:0.18, G:0.37, T:0.16
Consensus pattern (19 bp):
AAATGGGCCAGAATGGGCT
Found at i:16035750 original size:29 final size:27
Alignment explanation
Indices: 16035717--16035808 Score: 96
Period size: 28 Copynumber: 3.3 Consensus size: 27
16035707 TGTAAATAGT
16035717 GGCCATATGAATGTGATTTGGGCCTAATG
1 GGCCATATGAATGTGA-TTGGG-CTAATG
* * *
16035746 GGCCACATAAATGTGAATGGGTCTAATG
1 GGCCATATGAATGTGATTGGG-CTAATG
* *
16035774 GGCCATATGGAA-GAGATTGGGCTAGTG
1 GGCCATAT-GAATGTGATTGGGCTAATG
16035801 GGCCATAT
1 GGCCATAT
16035809 ATATAGGTAT
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
27 13 0.25
28 24 0.45
29 16 0.30
ACGTcount: A:0.27, C:0.14, G:0.33, T:0.26
Consensus pattern (27 bp):
GGCCATATGAATGTGATTGGGCTAATG
Found at i:16044061 original size:43 final size:43
Alignment explanation
Indices: 16043898--16044061 Score: 131
Period size: 43 Copynumber: 3.8 Consensus size: 43
16043888 ATAGGATTCT
* * *
16043898 GATATTTGATTTCGTGTAAGACCACGTTTGGGAC-GTTGGCATC
1 GATATTTGATTACGTGTAAGACCACGTCTGGGACAG-TGGAATC
* * *
16043941 GAT-TTGAGATTTACGTGTAAAACCATGTCTGGGACA-TCGGAATC
1 GATATT-TGA-TTACGTGTAAGACCACGTCTGGGACAGT-GGAATC
* * * * *
16043985 G-TATTTGATTTCCTGTAAGATCC-TGTCTAGGACAGTGGTATC
1 GATATTTGATTACGTGTAAGA-CCACGTCTGGGACAGTGGAATC
* *
16044027 GATATTTGATTACATGTAAGACCACATCTGGGACA
1 GATATTTGATTACGTGTAAGACCACGTCTGGGACA
16044062 TTGGCATTGT
Statistics
Matches: 95, Mismatches: 17, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
42 29 0.31
43 37 0.39
44 29 0.31
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.33
Consensus pattern (43 bp):
GATATTTGATTACGTGTAAGACCACGTCTGGGACAGTGGAATC
Found at i:16044727 original size:34 final size:34
Alignment explanation
Indices: 16044689--16044762 Score: 148
Period size: 34 Copynumber: 2.2 Consensus size: 34
16044679 GGCCTAGTGA
16044689 GAAATGGTCTTTTTGGTAAGTTAGTTTTGTGGTT
1 GAAATGGTCTTTTTGGTAAGTTAGTTTTGTGGTT
16044723 GAAATGGTCTTTTTGGTAAGTTAGTTTTGTGGTT
1 GAAATGGTCTTTTTGGTAAGTTAGTTTTGTGGTT
16044757 GAAATG
1 GAAATG
16044763 TTTATAAATG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.20, C:0.03, G:0.30, T:0.47
Consensus pattern (34 bp):
GAAATGGTCTTTTTGGTAAGTTAGTTTTGTGGTT
Found at i:16050995 original size:27 final size:27
Alignment explanation
Indices: 16050964--16051141 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
16050954 TAAATTGTAC
16050964 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
16050991 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
16051017 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
16051045 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
16051073 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
16051100 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
16051127 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
16051142 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:16051078 original size:82 final size:81
Alignment explanation
Indices: 16050965--16051120 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
16050955 AAATTGTACA
* *
16050965 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
16051029 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
16051046 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
16051111 TGCGAGTTGA
65 TGCGAATTGA
16051121 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:16051132 original size:82 final size:81
Alignment explanation
Indices: 16050961--16051141 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
16050951 GATTAAATTG
* *
16050961 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
16051026 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
16051042 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
16051106 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
16051124 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
16051142 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:16057910 original size:25 final size:25
Alignment explanation
Indices: 16057864--16057914 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
16057854 CCCTTATAAT
* *
16057864 GTGAAAATGACCTTTTTGCCCCTAG
1 GTGAAAATGACCTTTATACCCCTAG
16057889 GTGAAAATGA-CTATTATACCCCTAG
1 GTGAAAATGACCT-TTATACCCCTAG
16057914 G
1 G
16057915 GTTATGTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 2 0.09
25 21 0.91
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (25 bp):
GTGAAAATGACCTTTATACCCCTAG
Found at i:16057973 original size:10 final size:10
Alignment explanation
Indices: 16057958--16057992 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
16057948 TTTGTACATA
16057958 ATATGCCATG
1 ATATGCCATG
16057968 ATATGCACATG
1 ATATGC-CATG
*
16057979 ATATTCCATG
1 ATATGCCATG
16057989 ATAT
1 ATAT
16057993 ATACATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (10 bp):
ATATGCCATG
Found at i:16057977 original size:21 final size:21
Alignment explanation
Indices: 16057953--16057992 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
16057943 ACTGATTTGT
16057953 ACATAATATGCCATGATATGC
1 ACATAATATGCCATGATATGC
* *
16057974 ACATGATATTCCATGATAT
1 ACATAATATGCCATGATAT
16057993 ATACATATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (21 bp):
ACATAATATGCCATGATATGC
Found at i:16057998 original size:21 final size:20
Alignment explanation
Indices: 16057952--16058004 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
16057942 TACTGATTTG
*
16057952 TACATAATATGCCATGATATG
1 TACAT-ATATGCCATGATATA
* *
16057973 CACATGATATTCCATGATATA
1 TACAT-ATATGCCATGATATA
16057994 TACATATATGC
1 TACATATATGC
16058005 ATGGGTTGGG
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 5 0.19
21 21 0.81
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (20 bp):
TACATATATGCCATGATATA
Found at i:16058341 original size:31 final size:31
Alignment explanation
Indices: 16058303--16058381 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
16058293 CGTTTATAGT
*
16058303 AAAGGCTTCAGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* *
16058334 AAAGGCTTCGGCCCAGTGGTATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
16058365 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
16058382 ATGTGCTGAC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:16061239 original size:48 final size:47
Alignment explanation
Indices: 16061179--16061318 Score: 140
Period size: 48 Copynumber: 2.9 Consensus size: 47
16061169 TAGGTGGAAG
16061179 TATATGGCAGTTTATCTGCATTAATGTGACACTGTTCACAATTTTGAT
1 TATATGGCAGTTTATCTGCATT-ATGTGACACTGTTCACAATTTTGAT
* * * * * *
16061227 TATATGGTAGTTTATCTGTGACTT-TGGTGGC-TTGTCCACAATTTTGTT
1 TATATGGCAGTTTATCTG-CA-TTAT-GTGACACTGTTCACAATTTTGAT
** *
16061275 TATATGGCAGTTTATCTGTGTTACTATGACACTGTTCACAATTT
1 TATATGGCAGTTTATCTGCATTA-TGTGACACTGTTCACAATTT
16061319 GGTATGTTGG
Statistics
Matches: 73, Mismatches: 13, Indels: 12
0.74 0.13 0.12
Matches are distributed among these distances:
46 2 0.03
47 3 0.04
48 61 0.84
49 5 0.07
50 2 0.03
ACGTcount: A:0.23, C:0.14, G:0.19, T:0.44
Consensus pattern (47 bp):
TATATGGCAGTTTATCTGCATTATGTGACACTGTTCACAATTTTGAT
Found at i:16064926 original size:9 final size:9
Alignment explanation
Indices: 16064905--16064952 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 9
16064895 AAATAATTGA
*
16064905 ATTTTTTCG
1 ATTTATTCG
*
16064914 ATTTATTCA
1 ATTTATTCG
16064923 ATTT-TTCG
1 ATTTATTCG
*
16064931 GTTTATTCG
1 ATTTATTCG
16064940 ATTT-TTCG
1 ATTTATTCG
16064948 ATTTA
1 ATTTA
16064953 ATCTGTTTTC
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
8 14 0.44
9 18 0.56
ACGTcount: A:0.19, C:0.10, G:0.10, T:0.60
Consensus pattern (9 bp):
ATTTATTCG
Found at i:16064929 original size:17 final size:17
Alignment explanation
Indices: 16064907--16064952 Score: 74
Period size: 17 Copynumber: 2.7 Consensus size: 17
16064897 ATAATTGAAT
16064907 TTTTTCGATTTATTCAA
1 TTTTTCGATTTATTCAA
* *
16064924 TTTTTCGGTTTATTCGA
1 TTTTTCGATTTATTCAA
16064941 TTTTTCGATTTA
1 TTTTTCGATTTA
16064953 ATCTGTTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.17, C:0.11, G:0.11, T:0.61
Consensus pattern (17 bp):
TTTTTCGATTTATTCAA
Found at i:16064949 original size:8 final size:8
Alignment explanation
Indices: 16064907--16064951 Score: 54
Period size: 8 Copynumber: 5.4 Consensus size: 8
16064897 ATAATTGAAT
16064907 TTTTTCGA
1 TTTTTCGA
*
16064915 TTTATTCAA
1 TTT-TTCGA
*
16064924 TTTTTCGG
1 TTTTTCGA
16064932 TTTATTCGA
1 TTT-TTCGA
16064941 TTTTTCGA
1 TTTTTCGA
16064949 TTT
1 TTT
16064952 AATCTGTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
8 17 0.55
9 14 0.45
ACGTcount: A:0.16, C:0.11, G:0.11, T:0.62
Consensus pattern (8 bp):
TTTTTCGA
Found at i:16065663 original size:19 final size:18
Alignment explanation
Indices: 16065641--16065698 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 18
16065631 TTTATGGATT
16065641 TTTTATAATTTTT-AATGAA
1 TTTTATAATTTTTAAAT--A
16065660 TTTTGAT--TTTTTAAATA
1 TTTT-ATAATTTTTAAATA
*
16065677 TTTTTTAATTTTTAAATTA
1 TTTTATAATTTTTAAA-TA
16065696 TTT
1 TTT
16065699 GATGATGTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
16 1 0.03
17 5 0.15
18 13 0.39
19 12 0.36
20 2 0.06
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (18 bp):
TTTTATAATTTTTAAATA
Found at i:16065681 original size:18 final size:19
Alignment explanation
Indices: 16065647--16065698 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
16065637 GATTTTTTAT
* *
16065647 AATTTTT-AATGAATTTTG
1 AATTTTTAAATTATTTTTG
* *
16065665 ATTTTTTAAA-TATTTTTT
1 AATTTTTAAATTATTTTTG
16065683 AATTTTTAAATTATTT
1 AATTTTTAAATTATTT
16065699 GATGATGTGA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
18 20 0.74
19 7 0.26
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (19 bp):
AATTTTTAAATTATTTTTG
Found at i:16069797 original size:10 final size:10
Alignment explanation
Indices: 16069768--16069825 Score: 73
Period size: 10 Copynumber: 5.8 Consensus size: 10
16069758 AACATTCTAG
16069768 AAGATAAATA
1 AAGATAAATA
*
16069778 CAA-TTAAATA
1 -AAGATAAATA
*
16069788 AAGATGAATA
1 AAGATAAATA
*
16069798 AGGATAAATA
1 AAGATAAATA
16069808 AAGATAAATA
1 AAGATAAATA
16069818 AAGATAAA
1 AAGATAAA
16069826 AGCTAAAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
9 2 0.05
10 36 0.90
11 2 0.05
ACGTcount: A:0.66, C:0.02, G:0.12, T:0.21
Consensus pattern (10 bp):
AAGATAAATA
Found at i:16070504 original size:16 final size:16
Alignment explanation
Indices: 16070469--16070505 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
16070459 TTTTTTTTCT
*
16070469 TTTTTCTATTTTTCTA
1 TTTTTCTATTTTTCCA
*
16070485 TTTTTCTATTTTTCCC
1 TTTTTCTATTTTTCCA
16070501 TTTTT
1 TTTTT
16070506 TTTTCTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTCTATTTTTCCA
Found at i:16070515 original size:8 final size:8
Alignment explanation
Indices: 16070462--16070498 Score: 67
Period size: 8 Copynumber: 4.8 Consensus size: 8
16070452 CATCACTTTT
16070462 TTTTTCT-
1 TTTTTCTA
16070469 TTTTTCTA
1 TTTTTCTA
16070477 TTTTTCTA
1 TTTTTCTA
16070485 TTTTTCTA
1 TTTTTCTA
16070493 TTTTTC
1 TTTTTC
16070499 CCTTTTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 7 0.24
8 22 0.76
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTCTA
Found at i:16070704 original size:99 final size:99
Alignment explanation
Indices: 16070532--16070715 Score: 296
Period size: 99 Copynumber: 1.9 Consensus size: 99
16070522 ATTATTATTG
* * * * *
16070532 CTTAAGAATATATTGAACCTTTTGACGCGAAGAGAGATGATAGCCAAGTACCCCACCCCGGTTAC
1 CTTAAGAACATAATGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCACCCCAGTTAC
*
16070597 TCAGTCCAACATACTCCTAATTTATTATATTTTT
66 TCAATCCAACATACTCCTAATTTATTATATTTTT
*
16070631 CTTAAGAACATAATGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCTACCCCAGTTAC
1 CTTAAGAACATAATGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCACCCCAGTTAC
*
16070696 TCAATCCAACATATTCCTAA
66 TCAATCCAACATACTCCTAA
16070716 AAAGAATTTA
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
99 77 1.00
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.27
Consensus pattern (99 bp):
CTTAAGAACATAATGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCACCCCAGTTAC
TCAATCCAACATACTCCTAATTTATTATATTTTT
Found at i:16073300 original size:29 final size:26
Alignment explanation
Indices: 16073260--16073352 Score: 84
Period size: 25 Copynumber: 3.5 Consensus size: 26
16073250 AATTTGTTAT
* * *
16073260 TTATTCATTTTAAATCTTTTTTCCTCATA
1 TTATTTATTTTAAAT-TTGTTTCAT--TA
16073289 TTATTTATTTTAAA-TTGTTTCATTA
1 TTATTTATTTTAAATTTGTTTCATTA
*
16073314 TTATTTATTTTAAA--TGTTTCACATA
1 TTATTTATTTTAAATTTGTTTCA-TTA
*
16073339 TTATGTATTTTAAA
1 TTATTTATTTTAAA
16073353 CTATTATCCA
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
24 7 0.12
25 31 0.53
27 7 0.12
29 13 0.22
ACGTcount: A:0.29, C:0.09, G:0.03, T:0.59
Consensus pattern (26 bp):
TTATTTATTTTAAATTTGTTTCATTA
Found at i:16073315 original size:25 final size:25
Alignment explanation
Indices: 16073285--16073352 Score: 102
Period size: 25 Copynumber: 2.7 Consensus size: 25
16073275 CTTTTTTCCT
16073285 CATATTATTTATTTTAAATTGTTTCA
1 CATATTATTTATTTTAAA-TGTTTCA
*
16073311 -TTATTATTTATTTTAAATGTTTCA
1 CATATTATTTATTTTAAATGTTTCA
*
16073335 CATATTATGTATTTTAAA
1 CATATTATTTATTTTAAA
16073353 CTATTATCCA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
24 7 0.18
25 31 0.82
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.57
Consensus pattern (25 bp):
CATATTATTTATTTTAAATGTTTCA
Found at i:16073415 original size:24 final size:24
Alignment explanation
Indices: 16073362--16073415 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
16073352 ACTATTATCC
* *
16073362 AATTA-TATATATTGTTTATTTTA
1 AATTATTATATATTATTTATTTCA
* *
16073385 AACTATTATATATTATTTATTTCG
1 AATTATTATATATTATTTATTTCA
16073409 AATTATT
1 AATTATT
16073416 TTTTTATGTA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 4 0.16
24 21 0.84
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (24 bp):
AATTATTATATATTATTTATTTCA
Found at i:16073528 original size:22 final size:22
Alignment explanation
Indices: 16073488--16073529 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
16073478 ACATATTATT
* *
16073488 TATTTTAAACTCTTTTATATGC
1 TATTTTAAACTATTATATATGC
*
16073510 TATTTTAAAGTATTATATAT
1 TATTTTAAACTATTATATAT
16073530 ATTATTTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (22 bp):
TATTTTAAACTATTATATATGC
Found at i:16073535 original size:22 final size:22
Alignment explanation
Indices: 16073487--16073536 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
16073477 TACATATTAT
* * *
16073487 TTATTTTAAACTCTTTTATATG
1 TTATTTTAAACTATTATATATA
* *
16073509 CTATTTTAAAGTATTATATATA
1 TTATTTTAAACTATTATATATA
16073531 TTATTT
1 TTATTT
16073537 ATTTTAAATT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (22 bp):
TTATTTTAAACTATTATATATA
Found at i:16073539 original size:26 final size:25
Alignment explanation
Indices: 16073367--16073638 Score: 135
Period size: 26 Copynumber: 10.5 Consensus size: 25
16073357 TATCCAATTA
* *
16073367 TATATATTGTTTATTTTAAACTA-T
1 TATATATTATTTATTTTAAATTATT
* *
16073391 TATATATTATTTATTTCGAATTATTTTTT
1 TATATATTATTTATTT-TAA--A-TTATT
* *
16073420 TATGTATATCT-TTTATTTTTAAGTTGTTT
1 TA--TATAT-TATTTA-TTTTAAATT-ATT
* *
16073449 TGTATATTATTTATTTTAAATTTCTTTT
1 TATATATTATTTATTTTAAA--T-TATT
* * *
16073477 TACATATTATTTATTTTAAACTCTT
1 TATATATTATTTATTTTAAATTATT
** *
16073502 T-TATA-T-GCTATTTTAAAGTATT
1 TATATATTATTTATTTTAAATTATT
16073524 ATATATATTATTTATTTTAAATTACTT
1 -TATATATTATTTATTTTAAATTA-TT
* * *
16073551 TGTATATTATTTATTTTAATTTGTT
1 TATATATTATTTATTTTAAATTATT
*
16073576 T-TACGTATTATTTATCTTAAATTATT
1 TATA--TATTATTTATTTTAAATTATT
* * * * *
16073602 T-TATCTTATTTACTTCAATTTGCTT
1 TATATATTATTTATTTTAAATT-ATT
16073627 TATATATTATTT
1 TATATATTATTT
16073639 TGTTTCGTTT
Statistics
Matches: 192, Mismatches: 33, Indels: 44
0.71 0.12 0.16
Matches are distributed among these distances:
22 12 0.06
23 2 0.01
24 37 0.19
25 13 0.07
26 68 0.35
27 12 0.06
28 25 0.13
29 8 0.04
31 11 0.06
32 4 0.02
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (25 bp):
TATATATTATTTATTTTAAATTATT
Found at i:16073635 original size:50 final size:52
Alignment explanation
Indices: 16073525--16073638 Score: 151
Period size: 50 Copynumber: 2.2 Consensus size: 52
16073515 TAAAGTATTA
* * * *
16073525 TATATATTATTTATTTTAAATTACTTTGTATATTATTTATTTTAATTTGTTT
1 TATATATTATTTATCTTAAATTACTTTGTATATTATTTACTTCAATTTGCTT
** *
16073577 TACGTATTATTTATCTTAAATTA-TTT-TATCTTATTTACTTCAATTTGCTT
1 TATATATTATTTATCTTAAATTACTTTGTATATTATTTACTTCAATTTGCTT
16073627 TATATATTATTT
1 TATATATTATTT
16073639 TGTTTCGTTT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
50 30 0.57
51 3 0.06
52 20 0.38
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (52 bp):
TATATATTATTTATCTTAAATTACTTTGTATATTATTTACTTCAATTTGCTT
Found at i:16075594 original size:46 final size:47
Alignment explanation
Indices: 16075544--16075711 Score: 232
Period size: 47 Copynumber: 3.6 Consensus size: 47
16075534 TTCTGAGGCC
* ** **
16075544 GATG-CATGTCCTAGACATACCTTACACTAGCACTTATCTCAATGCT
1 GATGCCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGCT
* *
16075590 GATGCCATGTCCCAAACATGTCTTACACTAGCACTCGTTTCAATGCT
1 GATGCCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGCT
* * *
16075637 GATG-CATGTCCTAGACATGTCTTATACTGGCACTCGTCTCAATGCT
1 GATGCCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGCT
16075683 GATGCCATGTCCCAGACATGTCTTACACT
1 GATGCCATGTCCCAGACATGTCTTACACT
16075712 GGCTCACACA
Statistics
Matches: 106, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
46 45 0.42
47 61 0.58
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGCT
Found at i:16075609 original size:93 final size:92
Alignment explanation
Indices: 16075398--16075715 Score: 298
Period size: 93 Copynumber: 3.4 Consensus size: 92
16075388 GTAAGGTGCC
* * *
16075398 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCTTCGAGGCCGATACTATGTCCCAGA
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCT-TCAT-TTCAAGGCCGATGC-ATGTCCTAGA
** * * * * *
16075463 CATGGTCTTACATTAGCTCTCGTATATTC-GTGCC
62 CAT-ACCTTACACTAGCACTC--AT-CTCAATGCT
* * *
16075497 GATGCCATGTCCTAGACATGTCTTATACTGGCTTACA-TTCTGAGGCCGATGCATGTCCTAGACA
1 GATGCCATGTCCCAGACATGTCTTACACTGGCTT-CATTTC-AAGGCCGATGCATGTCCTAGACA
*
16075561 TACCTTACACTAGCACTTATCTCAATGCT
64 TACCTTACACTAGCACTCATCTCAATGCT
* * * * * *
16075590 GATGCCATGTCCCAAACATGTCTTACACTAGCACTCGTTTCAATGCTGATGCATGTCCTAGACAT
1 GATGCCATGTCCCAGACATGTCTTACACTGGC-TTCATTTCAAGGCCGATGCATGTCCTAGACAT
** * * *
16075655 GTCTTATACTGGCACTCGTCTCAATGCT
65 ACCTTACACTAGCACTCATCTCAATGCT
16075683 GATGCCATGTCCCAGACATGTCTTACACTGGCT
1 GATGCCATGTCCCAGACATGTCTTACACTGGCT
16075716 CACACACAAA
Statistics
Matches: 184, Mismatches: 30, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
92 2 0.01
93 107 0.58
94 4 0.02
95 12 0.07
96 15 0.08
97 11 0.06
98 15 0.08
99 18 0.10
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.31
Consensus pattern (92 bp):
GATGCCATGTCCCAGACATGTCTTACACTGGCTTCATTTCAAGGCCGATGCATGTCCTAGACATA
CCTTACACTAGCACTCATCTCAATGCT
Found at i:16075713 original size:47 final size:47
Alignment explanation
Indices: 16075394--16075714 Score: 251
Period size: 46 Copynumber: 6.8 Consensus size: 47
16075384 TAGGGTAAGG
* *
16075394 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTA-TCATCTTCGA
1 TGCCGATGCCATGTCCCAGACAT-GTCTTACACTGGC-ACTCGTC-TCAA
* * * * * * * *
16075443 GGCCGATACTATGTCCCAGACATGGTCTTACATTAGCTCTCGTAT-ATTCG
1 TGCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCACTCGTCTCA---A
* * *
16075493 TGCCGATGCCATGTCCTAGACATGTCTTATACTGGCTTACAT--TCT-GA
1 TGCCGATGCCATGTCCCAGACATGTCTTACACTGGC--AC-TCGTCTCAA
* * ** * **
16075540 GGCCGATG-CATGTCCTAGACATACCTTACACTAGCACTTATCTCAA
1 TGCCGATGCCATGTCCCAGACATGTCTTACACTGGCACTCGTCTCAA
* * * *
16075586 TGCTGATGCCATGTCCCAAACATGTCTTACACTAGCACTCGTTTCAA
1 TGCCGATGCCATGTCCCAGACATGTCTTACACTGGCACTCGTCTCAA
* * *
16075633 TGCTGATG-CATGTCCTAGACATGTCTTATACTGGCACTCGTCTCAA
1 TGCCGATGCCATGTCCCAGACATGTCTTACACTGGCACTCGTCTCAA
*
16075679 TGCTGATGCCATGTCCCAGACATGTCTTACACTGGC
1 TGCCGATGCCATGTCCCAGACATGTCTTACACTGGC
16075715 TCACACACAA
Statistics
Matches: 217, Mismatches: 43, Indels: 26
0.76 0.15 0.09
Matches are distributed among these distances:
43 1 0.00
44 2 0.01
45 3 0.01
46 71 0.33
47 71 0.33
48 1 0.00
49 45 0.21
50 21 0.10
51 1 0.00
52 1 0.00
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (47 bp):
TGCCGATGCCATGTCCCAGACATGTCTTACACTGGCACTCGTCTCAA
Found at i:16080400 original size:79 final size:78
Alignment explanation
Indices: 16080249--16080405 Score: 296
Period size: 79 Copynumber: 2.0 Consensus size: 78
16080239 TAAGAGCTTA
16080249 TCTTGAATCAGTATCCTGGGATATCAAAACAAGAATTAAGAACACATAATTAAGAACAAGTTAAA
1 TCTTGAATCAGTATCCTGGGATATCAAAACAAGAATTAAGAACACATAATTAAGAACAAGTTAAA
16080314 TATTTATCATACG
66 TATTTATCATACG
*
16080327 TCTTGAATCAGTATCCTGGGATATCAAAACAAGAATATAAGAACAGATAATTAAGAACAAGTTAA
1 TCTTGAATCAGTATCCTGGGATATCAAAACAAGAAT-TAAGAACACATAATTAAGAACAAGTTAA
16080392 ATATTTATCATACG
65 ATATTTATCATACG
16080406 ATTTAGAAAA
Statistics
Matches: 77, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
78 36 0.47
79 41 0.53
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.28
Consensus pattern (78 bp):
TCTTGAATCAGTATCCTGGGATATCAAAACAAGAATTAAGAACACATAATTAAGAACAAGTTAAA
TATTTATCATACG
Found at i:16089681 original size:30 final size:30
Alignment explanation
Indices: 16089623--16089683 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
16089613 ATTTCCGAGC
**
16089623 TTGGGGACAAAAGTGTAATTATGTAAAAGT
1 TTGGGGACAAAAGTGTAATTATCAAAAAGT
* * *
16089653 TTGGGGGCAAAATTGTAATTTTCAAAAAGT
1 TTGGGGACAAAAGTGTAATTATCAAAAAGT
16089683 T
1 T
16089684 GGGTGGTGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.33
Consensus pattern (30 bp):
TTGGGGACAAAAGTGTAATTATCAAAAAGT
Found at i:16090195 original size:104 final size:104
Alignment explanation
Indices: 16090015--16090342 Score: 586
Period size: 104 Copynumber: 3.2 Consensus size: 104
16090005 TGTATATAAA
** * * * *
16090015 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
16090079 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
16090119 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
16090184 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
16090223 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
16090288 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
16090327 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
16090343 GATATCCATT
Statistics
Matches: 217, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
104 216 1.00
105 1 0.00
ACGTcount: A:0.18, C:0.20, G:0.31, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:16090395 original size:71 final size:72
Alignment explanation
Indices: 16090261--16090412 Score: 243
Period size: 71 Copynumber: 2.1 Consensus size: 72
16090251 TCATTGGTGG
* *
16090261 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
16090326 GAGGGGT
66 GAGGGGT
*** *
16090333 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGTTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
16090397 GAGGGGT
66 GAGGGGT
16090404 TGCTAAGTG
1 TGCTAAGTG
16090413 ATGATTCCCC
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
71 44 0.59
72 30 0.41
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:16097903 original size:103 final size:104
Alignment explanation
Indices: 16097676--16097942 Score: 423
Period size: 103 Copynumber: 2.6 Consensus size: 104
16097666 TTGTATATAA
** *
16097676 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
16097740 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAA-GTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
**
16097781 AGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACTGTATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
16097845 TTGAAA-TGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAAGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
16097884 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
16097943 ATAACGGTTA
Statistics
Matches: 150, Mismatches: 9, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
103 86 0.57
104 2 0.01
105 61 0.41
106 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.30
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAAGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:16105342 original size:104 final size:104
Alignment explanation
Indices: 16105161--16105384 Score: 362
Period size: 104 Copynumber: 2.2 Consensus size: 104
16105151 TGTATATAAA
** * *
16105161 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
16105226 TGAAATTGGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATTGGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
16105265 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
16105329 TTGAAA-TGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATTG-GAAAGGGGGTTGCTATGTGCTGATTCCCCCG
16105369 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
16105385 GATATCCATT
Statistics
Matches: 112, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
103 2 0.02
104 109 0.97
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATTGGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:16105436 original size:71 final size:72
Alignment explanation
Indices: 16105303--16105455 Score: 254
Period size: 71 Copynumber: 2.1 Consensus size: 72
16105293 TCATTGGTGG
* *
16105303 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
16105368 GAGGGGT
66 GAGGGGT
***
16105375 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
16105439 GAGGGGT
66 GAGGGGT
16105446 TGCTAAGTGC
1 TGCTAAGTGC
16105456 TGATTCCCCG
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 46 0.61
72 30 0.39
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:16113917 original size:36 final size:35
Alignment explanation
Indices: 16113877--16113947 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 35
16113867 ATTGTAAGCC
16113877 GGTTCAGCAAAAACTCCGAAGAATGAGGCCTGATG
1 GGTTCAGCAAAAACTCCGAAGAATGAGGCCTGATG
* *
16113912 NGGTTCAGCAAAAATTCTGAAGAATGAGGCCTGATG
1 -GGTTCAGCAAAAACTCCGAAGAATGAGGCCTGATG
16113948 TTGTATTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.20
Consensus pattern (35 bp):
GGTTCAGCAAAAACTCCGAAGAATGAGGCCTGATG
Found at i:16116549 original size:47 final size:47
Alignment explanation
Indices: 16116472--16116566 Score: 154
Period size: 47 Copynumber: 2.0 Consensus size: 47
16116462 AAGACGATTG
16116472 TAGGAAAAATAACTGAAACCTACAAAGACTGACACGAGAAACTACCT
1 TAGGAAAAATAACTGAAACCTACAAAGACTGACACGAGAAACTACCT
* * * *
16116519 TAGGGAAAATGACTGAAACCTACAAGGACTGGCACGAGAAACTACCT
1 TAGGAAAAATAACTGAAACCTACAAAGACTGACACGAGAAACTACCT
16116566 T
1 T
16116567 TCGCTCTCTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.44, C:0.21, G:0.19, T:0.16
Consensus pattern (47 bp):
TAGGAAAAATAACTGAAACCTACAAAGACTGACACGAGAAACTACCT
Found at i:16118471 original size:50 final size:50
Alignment explanation
Indices: 16118413--16119446 Score: 902
Period size: 50 Copynumber: 20.9 Consensus size: 50
16118403 CTAATTAAGA
*
16118413 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAAC
* * * *
16118463 AGATTGAAGCTACAACAGCAGATCTTAC-TTCTCT-GACATTGCAAT-TAAGA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTC-CTAG-CATTGCAGTGGAA-C
** **
16118513 AGATTGAAGCTACAACAGCAAATCTTACTTTCC-AGGCGGTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTA-GCATTGCAGTGGAAC
* * *
16118563 AGATTGAAGCTACAACAGTGAATCTTACTTTCCTAGCATTGCATTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAAC
* * * * * * *
16118613 AGATTGAAGCTACAACAGCAGATCTCACTTCCCT-GACATTGTAAT-TAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-CATTGCAGTGGAAC
* * * * *
16118662 AGATTGAGGCCACAACGGCGAATCTTA-TTTCC-AGGCAGTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTA-GCATTGCAGTGGAAC
* * * * *
16118711 AGATTGAAGCTACAACAGCGAATCTTACTTCCCT-GACATTGCAAT-TAAGA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-CATTGCAGTGGAA-C
* *
16118761 AGATTGAAGCTACAACAGTGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAAC
** * * * * * *
16118811 AGATTGAAGCTACAACAGTAGATCTCACTTCCCTAACATTGCAAT-CAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAAC
* * * * **
16118860 AGATTGAGGCCACAACGGCGAATCTTA-TTTCC-AGGCGGTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTA-GCATTGCAGTGGAAC
* * * * * *
16118909 AGATTGAAGCTACAACAGCAGATATTACTTCCCT-GACATTGCAAT-TAAGA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-CATTGCAGTGGAA-C
* *
16118959 AGATTGAAGCTA-AACAGTGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAAC
* * * * * *
16119008 AGATTGAAGCTACAACAGCAGATCTCACTTCCCT-GACATTGCAAT-CAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-CATTGCAGTGGAAC
* * * * ** *
16119057 AGATTGAGGCCACAACGGCGAATCTTA-TTTCC-AGGCGGTGTAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTA-GCATTGCAGTGGAAC
* * * *
16119106 AGATTGAAGCTACAACAGCGGATCTTACTTCCCT-GACATTGCAAT-TAAGA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-CATTGCAGTGGAA-C
* **
16119156 AGATTGAAGCTACAACAGAGGATCTTACTTTCCTAGTGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAAC
* * * *
16119206 AGATTGAAGCTACAACAGCGGATCTTACTTCCCT-GACATTGCAAT-TAAGA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-CATTGCAGTGGAA-C
*
16119256 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-GTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAAC
* * * * * *
16119305 AGATTGAAGCTACAACAGCAGATATTACTTCCCT-GACATTGCAAT-TAAGA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-CATTGCAGTGGAA-C
* *
16119355 AGATTGAAGCTA-AACAGTGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAAC
*
16119404 AGATTGAAGCTACAACAGCGGATCTTACTTCCCT-GACATTGCA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-CATTGCA
16119447 ATTAAAAATA
Statistics
Matches: 773, Mismatches: 163, Indels: 96
0.75 0.16 0.09
Matches are distributed among these distances:
47 1 0.00
48 30 0.04
49 276 0.36
50 452 0.58
51 14 0.02
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (50 bp):
AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAAC
Found at i:16118767 original size:198 final size:197
Alignment explanation
Indices: 16118513--16119453 Score: 1478
Period size: 198 Copynumber: 4.8 Consensus size: 197
16118503 GCAATTAAGA
* * * ** * * *
16118513 AGATTGAAGCTACAACAGCAAATCTTACTTTCCAGGCGGTGCAGTGGAA-CAGATTGAAGCTACA
1 AGATTGAAGCTACAACAGC-AATCTTACTTCCCTGACATTGCAAT-TAAGAAGATTGAAGCTACA
* * *
16118577 ACAGTGAATCTTACTTTCCTAGCATTGCATTGGAACAGATTGAAGCTACAACAGCAGATCTCACT
64 ACAGTGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAACAGCAGATCTCACT
* *
16118642 TCCCTGACATTGTAATTAAAAGATTGAGGCCACAACGGCGAATCTTATTTCCAGGCAGTGCAGTG
129 TCCCTGACATTGCAATTAAAAGATTGAGGCCACAACGGCGAATCTTATTTCCAGGCGGTGCAGTG
16118707 GAAC
194 GAAC
16118711 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGC-AATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAA
*
16118776 CAGTGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAACAGTAGATCTCACTT
65 CAGTGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAACAGCAGATCTCACTT
* *
16118841 CCCTAACATTGCAATCAAAAGATTGAGGCCACAACGGCGAATCTTATTTCCAGGCGGTGCAGTGG
130 CCCTGACATTGCAATTAAAAGATTGAGGCCACAACGGCGAATCTTATTTCCAGGCGGTGCAGTGG
16118906 AAC
195 AAC
*
16118909 AGATTGAAGCTACAACAGCAGATATTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTA-AA
1 AGATTGAAGCTACAACAGCA-ATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAA
16118973 CAGTGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAACAGCAGATCTCACTT
65 CAGTGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAACAGCAGATCTCACTT
* *
16119038 CCCTGACATTGCAATCAAAAGATTGAGGCCACAACGGCGAATCTTATTTCCAGGCGGTGTAGTGG
130 CCCTGACATTGCAATTAAAAGATTGAGGCCACAACGGCGAATCTTATTTCCAGGCGGTGCAGTGG
16119103 AAC
195 AAC
*
16119106 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGC-AATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAA
* * * *
16119171 CAGAGGATCTTACTTTCCTAGTGTTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTACTT
65 CAGTGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAACAGCAGATCTCACTT
* * * * *
16119236 CCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTA-G-GTTGCAG
130 CCCTGACATTGCAATTAA-AAGATTGAGGCCACAACGGCGAATCTTA-TTTCC-AGGCGGTGCAG
16119299 TGGAAC
192 TGGAAC
*
16119305 AGATTGAAGCTACAACAGCAGATATTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTA-AA
1 AGATTGAAGCTACAACAGCA-ATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAA
* *
16119369 CAGTGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTACTT
65 CAGTGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAACAGCAGATCTCACTT
16119434 CCCTGACATTGCAATTAAAA
130 CCCTGACATTGCAATTAAAA
16119454 ATATTGAAGC
Statistics
Matches: 697, Mismatches: 38, Indels: 17
0.93 0.05 0.02
Matches are distributed among these distances:
197 196 0.28
198 400 0.57
199 94 0.13
200 6 0.01
201 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (197 bp):
AGATTGAAGCTACAACAGCAATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAAC
AGTGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAACAGCAGATCTCACTTC
CCTGACATTGCAATTAAAAGATTGAGGCCACAACGGCGAATCTTATTTCCAGGCGGTGCAGTGGA
AC
Found at i:16119030 original size:99 final size:100
Alignment explanation
Indices: 16118413--16119468 Score: 1342
Period size: 99 Copynumber: 10.7 Consensus size: 100
16118403 CTAATTAAGA
* * * * * *
16118413 AGATTGAAGCTACAACAGCGGATCTTACTTTCCT-AGCGTTGCAGTGGAA-CAGATTGAAGCTAC
1 AGATTGAAGCTACAACAGCAGATCTTACTTCCCTGA-CATTGCAAT-TAAGAAGATTGAAGCTAC
* * * * *
16118476 AACAGCAGATCTTAC-TTCTCT-GACATTGCAAT-TAAGA
64 AACAGCGGATCTTACTTTC-CTAG-CGTTGCAGTGGAA-C
* * * * ** * * *
16118513 AGATTGAAGCTACAACAGCAAATCTTACTTTCCAGGCGGTGCAGTGGAA-CAGATTGAAGCTACA
1 AGATTGAAGCTACAACAGCAGATCTTACTTCCCTGACATTGCAAT-TAAGAAGATTGAAGCTACA
* * * *
16118577 ACAGTGAATCTTACTTTCCTAGCATTGCATTGGAAC
65 ACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
* * * *
16118613 AGATTGAAGCTACAACAGCAGATCTCACTTCCCTGACATTGTAATTAA-AAGATTGAGGCCACAA
1 AGATTGAAGCTACAACAGCAGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAA
* *
16118677 CGGCGAATCTTA-TTTCC-AGGCAG-TGCAGTGGAAC
66 CAGCGGATCTTACTTTCCTA-GC-GTTGCAGTGGAAC
16118711 AGATTGAAGCTACAACAGC-GAATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACA
1 AGATTGAAGCTACAACAGCAG-ATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACA
*
16118775 ACAGTGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
65 ACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
* * * * * *
16118811 AGATTGAAGCTACAACAGTAGATCTCACTTCCCTAACATTGCAATCAA-AAGATTGAGGCCACAA
1 AGATTGAAGCTACAACAGCAGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAA
* * *
16118875 CGGCGAATCTTA-TTTCC-AGGCGGTGCAGTGGAAC
66 CAGCGGATCTTACTTTCCTA-GCGTTGCAGTGGAAC
*
16118909 AGATTGAAGCTACAACAGCAGATATTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTA-AA
1 AGATTGAAGCTACAACAGCAGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAA
*
16118973 CAGTGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
66 CAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
* * * *
16119008 AGATTGAAGCTACAACAGCAGATCTCACTTCCCTGACATTGCAATCAA-AAGATTGAGGCCACAA
1 AGATTGAAGCTACAACAGCAGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAA
* * * *
16119072 CGGCGAATCTTA-TTTCC-AGGCGGTGTAGTGGAAC
66 CAGCGGATCTTACTTTCCTA-GCGTTGCAGTGGAAC
*
16119106 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCAGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAA
* *
16119171 CAGAGGATCTTACTTTCCTAGTGTTGCAGTGGAAC
66 CAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
*
16119206 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCAGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAA
16119271 CAGCGGATCTTACTTTCCTAG-GTTGCAGTGGAAC
66 CAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
*
16119305 AGATTGAAGCTACAACAGCAGATATTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTA-AA
1 AGATTGAAGCTACAACAGCAGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAA
*
16119369 CAGTGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
66 CAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
* * *
16119404 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAAAATATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCAGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAA
16119469 GTCAGATCCC
Statistics
Matches: 848, Mismatches: 85, Indels: 46
0.87 0.09 0.05
Matches are distributed among these distances:
97 4 0.00
98 230 0.27
99 325 0.38
100 280 0.33
101 9 0.01
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (100 bp):
AGATTGAAGCTACAACAGCAGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAA
CAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
Found at i:16119468 original size:248 final size:249
Alignment explanation
Indices: 16118412--16119446 Score: 1068
Period size: 248 Copynumber: 4.2 Consensus size: 249
16118402 TCTAATTAAG
*
16118412 AAGATTGAAGCTACAACAGCGGATCTTACTTTCCT-AGCGTTGCAGTGGAACAGATTGAAGCTAC
1 AAGATTGAAGCTACAACAGCGGATCTTACTTTCCTGA-CATTGCAGTGGAACAGATTGAAGCTAC
* * *
16118476 AACAGCAGATCTTACTTCTCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCAAATCTTAC
65 AACAGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTAC
* * *
16118541 TTTCC-AGGCGGTGCAGTGGAACAGATTGAAGCTACAACAG-TGAATCTTACTTTCCT-AGCATT
130 TTTCCTA-GCGTTGCAGTGGAACAGATTGAAGCTACAACAGCAGAATCTTACTTCCCTGA-CATT
* * * * *
16118603 GC-ATTGGAACAGATTGAAGCTACAACAGCAGATCTCACTTCCCTGACATTGTAATTAA
193 GCAATT--AAAAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATGAA
* * * * * * *
16118661 AAGATTGAGGCCACAACGGCGAATCTTA-TTTCCAGGCAGTGCAGTGGAACAGATTGAAGCTACA
1 AAGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACATTGCAGTGGAACAGATTGAAGCTACA
* **
16118725 ACAGCGAATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGTGGATCTTACT
66 ACAGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTACT
* * *
16118790 TTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAACAGTAG-ATCTCACTTCCCTAACATTGCA
131 TTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAACAGCAGAATCTTACTTCCCTGACATTGCA
* * * * * * * * ** *
16118854 ATCAAAAGATTGAGGCCACAACGGCGAATCTTA-TTTCCAGGCGGTGCAGTGGAA
196 ATTAAAAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAAT-GAA
* * * * * * *
16118908 CAGATTGAAGCTACAACAGCAGATATTACTTCCCTGACATTGCAAT-TAAGAAGATTGAAGCTA-
1 AAGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACATTGCAGTGGAA-CAGATTGAAGCTAC
* * * * * * *
16118971 AACAGTGGATCTTACTTTCCT-AGCGTTGCAGTGGAA-CAGATTGAAGCTACAACAGCAGATCTC
65 AACAGCGGATCTTACTTCCCTGA-CATTGCAAT-TAAGAAGATTGAAGCTACAACAGCAGATCTT
* * * * * * * * * * * **
16119034 ACTTCCCT-GACATTGCAAT-CAAAAGATTGAGGCCACAACGGC-GAATCTTA-TTTCCAGGCGG
128 ACTTTCCTAG-CGTTGCAGTGGAACAGATTGAAGCTACAACAGCAGAATCTTACTTCCCTGACAT
* * * * *
16119095 TGTAGTGGAACAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAA
192 TGCAAT-TAAAAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATGAA
* **
16119154 GAAGATTGAAGCTACAACAGAGGATCTTACTTTCCT-AGTGTTGCAGTGGAACAGATTGAAGCTA
1 -AAGATTGAAGCTACAACAGCGGATCTTACTTTCCTGA-CATTGCAGTGGAACAGATTGAAGCTA
*
16119218 CAACAGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTA
64 CAACAGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTA
*
16119283 CTTTCCTAG-GTTGCAGTGGAACAGATTGAAGCTACAACAGCAG-ATATTACTTCCCTGACATTG
129 CTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAACAGCAGAATCTTACTTCCCTGACATTG
* * * *
16119346 CAATTAAGAAGATTGAAGCTA-AACAGTGGATCTTACTTTCCT-AGCGTTGCAGTGGAA
194 CAATTAA-AAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGA-CATTGCAAT-GAA
* *
16119403 CAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCA
1 AAGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACATTGCA
16119447 ATTAAAAATA
Statistics
Matches: 623, Mismatches: 135, Indels: 57
0.76 0.17 0.07
Matches are distributed among these distances:
245 10 0.02
246 62 0.10
247 178 0.29
248 316 0.51
249 57 0.09
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (249 bp):
AAGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACATTGCAGTGGAACAGATTGAAGCTACA
ACAGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTACT
TTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAACAGCAGAATCTTACTTCCCTGACATTGCA
ATTAAAAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATGAA
Found at i:16121103 original size:29 final size:29
Alignment explanation
Indices: 16121071--16121127 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
16121061 AAAATATCAG
*
16121071 GAATCGTGAAAAACCCGAAAATCAGGATA
1 GAATCGCGAAAAACCCGAAAATCAGGATA
16121100 GAATCGCGAAAAACCCGAAAATCAGGAT
1 GAATCGCGAAAAACCCGAAAATCAGGAT
16121128 GTTACATGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.12
Consensus pattern (29 bp):
GAATCGCGAAAAACCCGAAAATCAGGATA
Found at i:16121859 original size:18 final size:18
Alignment explanation
Indices: 16121822--16121860 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
16121812 TTGGAAATCA
*
16121822 AAATTATTAAAAGATGAT
1 AAATTATTAAAAGATAAT
16121840 AAATTATTAAATAGA-AAT
1 AAATTATTAAA-AGATAAT
16121858 AAA
1 AAA
16121861 AATAACTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (18 bp):
AAATTATTAAAAGATAAT
Found at i:16123838 original size:18 final size:18
Alignment explanation
Indices: 16123801--16123839 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
16123791 TTGGAAATCA
*
16123801 AAATTATTAAAAGATGAT
1 AAATTATTAAAAGATAAT
16123819 AAATTATTAAATAGA-AAT
1 AAATTATTAAA-AGATAAT
16123837 AAA
1 AAA
16123840 AATAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (18 bp):
AAATTATTAAAAGATAAT
Found at i:16124684 original size:40 final size:40
Alignment explanation
Indices: 16124640--16124901 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
16124630 GCTCCTCGTT
* *
16124640 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
16124680 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
16124720 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
16124759 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
16124798 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
16124837 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
16124878 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
16124902 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:16128805 original size:21 final size:21
Alignment explanation
Indices: 16128762--16128805 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
16128752 ACACACTCAG
*
16128762 CTTAATTGAGCTATTAATGAA
1 CTTAATTGAGCTATTAATAAA
16128783 CTTAATTGAGCTAATTAA-AAA
1 CTTAATTGAGCT-ATTAATAAA
16128804 CT
1 CT
16128806 ACAAGACCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.36
Consensus pattern (21 bp):
CTTAATTGAGCTATTAATAAA
Found at i:16131291 original size:46 final size:46
Alignment explanation
Indices: 16131143--16131456 Score: 228
Period size: 46 Copynumber: 6.6 Consensus size: 46
16131133 TTTGTGTGCT
* *
16131143 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGAGAGCC
* * * * * *
16131189 AATGTAAGACCATGTCTGGGACATGGAATCGGCATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGAGAGCC
* *
16131237 AATGTAAGACATGTCTCGGACATGCATCGGCCTCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-AGAGCC
* *
16131283 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGAT--GTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGAGAGCC
* * * * *
16131327 AGTGTAAAACCATGTCTGGGACATGGCATCAGCAC-GGATATGTGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTCGAGA--TGAGAGCC
* * * * * *
16131377 AGTGTAAGACCATGTTTGGGAAATGGCATCAGCCTCG-GTTTCGATAGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAG-AT-GAGAGCC
16131426 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG
16131457 ACTTGATGGA
Statistics
Matches: 214, Mismatches: 37, Indels: 31
0.76 0.13 0.11
Matches are distributed among these distances:
44 10 0.05
45 16 0.07
46 67 0.31
47 28 0.13
48 26 0.12
49 34 0.16
50 33 0.15
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGAGCC
Found at i:16131446 original size:49 final size:50
Alignment explanation
Indices: 16131143--16131506 Score: 194
Period size: 46 Copynumber: 7.7 Consensus size: 50
16131133 TTTGTGTGCT
* * *
16131143 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAC--AT-TATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAG-CACGGATATGTGAGAGTC
* * * ** * *
16131189 AATGTAAGACCATGTCTGGGACATGGAATCGGCATTGAGA--CGAGAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCACGGATATGTGAGAGTC
* * * * * *
16131236 TAATGTAAGA-CATGTCTCGGACAT-GCATCGGC-CTCGAGATGT-A-AGCC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCAGCAC-GGATATGTGAGAGTC
* *
16131283 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTAC-GAGATGT----GTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGC-ACGGATATGTGAGAGTC
*
16131327 AGTGTAAAACCATGTCTGGGACATGGCATCAGCACGGATATGTGAGAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCACGGATATGTGAGAGTC
* * * *
16131376 TAGTGTAAGACCATGTTTGGGAAATGGCATCAGCCTCGG-T-T-TCGATAGTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCAG-CACGGATATGT-GAGAGTC
*
16131426 AGTGTAAGACCATGTCTGGGACATGGCATC-G-AC--TTGATG-GATGAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCACGGAT-ATGTGA-GAGTC
* *
16131472 TAGTGTAAGACCATGTCTAGTACATGGCATCAGCA
1 -AGTGTAAGACCATGTCTGGGACATGGCATCAGCA
16131507 TTATACCCTA
Statistics
Matches: 260, Mismatches: 27, Indels: 59
0.75 0.08 0.17
Matches are distributed among these distances:
44 10 0.04
45 17 0.07
46 74 0.28
47 63 0.24
48 24 0.09
49 36 0.14
50 32 0.12
51 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGCACGGATATGTGAGAGTC
Found at i:16131501 original size:96 final size:98
Alignment explanation
Indices: 16131324--16131505 Score: 255
Period size: 96 Copynumber: 1.9 Consensus size: 98
16131314 TACGAGATGT
16131324 GTCAGTGTAAAACCATGTCTGGGACATGGCATCAGCACGGATATGTGAGAGCTAGTGTAAGACCA
1 GTCAGTGTAAAACCATGTCTGGGACATGGCATCAGCACGGA-ATGTGAGAGCTAGTGTAAGACCA
* *
16131389 TGTTTGGGAAATGGCATCAGCCTCGGTTTCGATA
65 TGTCTAGGAAATGGCATCAGCCTCGGTTTCGATA
* *
16131423 GTCAGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTTG-ATG-GATGAGCTAGTGTAAGACC
1 GTCAGTGTAAAACCATGTCTGGGACATGGCATCAGCAC-GGAATGTGA-GAGCTAGTGTAAGACC
* *
16131484 ATGTCTAGTACATGGCATCAGC
64 ATGTCTAGGAAATGGCATCAGC
16131506 ATTATACCCT
Statistics
Matches: 75, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
95 2 0.03
96 37 0.49
97 2 0.03
98 2 0.03
99 32 0.43
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (98 bp):
GTCAGTGTAAAACCATGTCTGGGACATGGCATCAGCACGGAATGTGAGAGCTAGTGTAAGACCAT
GTCTAGGAAATGGCATCAGCCTCGGTTTCGATA
Found at i:16134336 original size:42 final size:43
Alignment explanation
Indices: 16134269--16134378 Score: 120
Period size: 42 Copynumber: 2.6 Consensus size: 43
16134259 GACTTATGAT
16134269 TTACGTGTAAGACCATGTCAGGGACA-TCAGCATCG-TATTTGA
1 TTACGTGTAAGACCATGTCAGGGACAGT-AGCATCGATATTTGA
* *
16134311 CTT-CGTGTAAGACCATGTTTA-GGACAGTGGCATCGATATTTGA
1 -TTACGTGTAAGACCATG-TCAGGGACAGTAGCATCGATATTTGA
* * *
16134354 TTACATGTAAGACCACGTCTGGGAC
1 TTACGTGTAAGACCATGTCAGGGAC
16134379 GTTGGCATTG
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
42 28 0.50
43 28 0.50
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (43 bp):
TTACGTGTAAGACCATGTCAGGGACAGTAGCATCGATATTTGA
Found at i:16134385 original size:43 final size:44
Alignment explanation
Indices: 16134228--16134386 Score: 123
Period size: 43 Copynumber: 3.7 Consensus size: 44
16134218 TATGTGATTT
* * * * *
16134228 CGTGTAAGACCACATCTGGCACGTTGGAAAT-GACT-TATGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGG-CATCGA-TATTTGACTTA
* * * **
16134272 CGTGTAAGACCATGTCAGGGACATCAGCATCG-TATTTGACTT-
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGACTTA
* * *
16134314 CGTGTAAGACCATGTTTAGGACAG-TGGCATCGATATTTGA-TTA
1 CGTGTAAGACCACGTCTGGGAC-GTTGGCATCGATATTTGACTTA
*
16134357 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
16134387 TGTATAAGCT
Statistics
Matches: 89, Mismatches: 20, Indels: 13
0.73 0.16 0.11
Matches are distributed among these distances:
42 29 0.33
43 39 0.44
44 21 0.24
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (44 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGACTTA
Found at i:16149177 original size:43 final size:43
Alignment explanation
Indices: 16149053--16149207 Score: 136
Period size: 43 Copynumber: 3.6 Consensus size: 43
16149043 CAATGTTATA
* * * * *
16149053 TCCCAGATATGGTCTTACATGTTATCAC-ATATCGATGCCACTG
1 TCCCAGACATGGTCTTACACGTAATCACAATA-CAATGCCAATG
* * * * * *
16149096 TCCTAGATAGGGTCTTACACGAAAT-AGAATA-ATGATGCCAGTG
1 TCCCAGACATGGTCTTACACGTAATCACAATACA--ATGCCAATG
*
16149139 TCCCAGGCATGGTCTTACACGTAATCACAATACAATGCCAATG
1 TCCCAGACATGGTCTTACACGTAATCACAATACAATGCCAATG
* *
16149182 TCCCAGACATGGTCTCACATGTAATC
1 TCCCAGACATGGTCTTACACGTAATC
16149208 GCATCTCAAT
Statistics
Matches: 89, Mismatches: 18, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
42 1 0.01
43 82 0.92
44 5 0.06
45 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGTAATCACAATACAATGCCAATG
Found at i:16151470 original size:18 final size:17
Alignment explanation
Indices: 16151439--16151511 Score: 58
Period size: 18 Copynumber: 4.1 Consensus size: 17
16151429 TTTACCTCAA
16151439 TTTTCTCACCTTTTCTTTT
1 TTTTCTCA--TTTTCTTTT
16151458 TTTTCTCGATTTTCTTTT
1 TTTTCTC-ATTTTCTTTT
* * *
16151476 CTTTGTCTTTTTCTTTCT
1 TTTTCTCATTTTCTTT-T
*
16151494 TTTT-TCCTTGTTCTTTT
1 TTTTCTCATT-TTCTTTT
16151511 T
1 T
16151512 CTTTTACTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
17 14 0.30
18 24 0.52
19 7 0.15
20 1 0.02
ACGTcount: A:0.03, C:0.21, G:0.04, T:0.73
Consensus pattern (17 bp):
TTTTCTCATTTTCTTTT
Found at i:16151490 original size:6 final size:6
Alignment explanation
Indices: 16151449--16151525 Score: 61
Period size: 6 Copynumber: 13.0 Consensus size: 6
16151439 TTTTCTCACC
* * *
16151449 TTTTCT TTTT-T TTCTCGA TTTTC- TTTTCT TTGTCT TTTTCT TTCTT-T
1 TTTTCT TTTTCT TTTTC-T TTTTCT TTTTCT TTTTCT TTTTCT TT-TTCT
* * *
16151496 TTTCCT TGTTCT TTTTCT TTTACT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
16151526 ACAAACACTT
Statistics
Matches: 55, Mismatches: 11, Indels: 10
0.72 0.14 0.13
Matches are distributed among these distances:
5 10 0.18
6 39 0.71
7 6 0.11
ACGTcount: A:0.03, C:0.18, G:0.04, T:0.75
Consensus pattern (6 bp):
TTTTCT
Found at i:16153582 original size:14 final size:13
Alignment explanation
Indices: 16153563--16153621 Score: 50
Period size: 14 Copynumber: 4.5 Consensus size: 13
16153553 ATAGATACTG
16153563 ATTTTTTTAACGAA
1 ATTTTTTTAACG-A
*
16153577 ATTTTTTTTAC-A
1 ATTTTTTTAACGA
* *
16153589 ATTATTTTAATGGA
1 ATTTTTTTAA-CGA
*
16153603 ATTTTTTTTAC-A
1 ATTTTTTTAACGA
16153615 ATTTTTT
1 ATTTTTT
16153622 ATCAAATTAC
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
12 17 0.47
14 19 0.53
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (13 bp):
ATTTTTTTAACGA
Found at i:16153605 original size:26 final size:25
Alignment explanation
Indices: 16153565--16153622 Score: 89
Period size: 26 Copynumber: 2.3 Consensus size: 25
16153555 AGATACTGAT
16153565 TTTTTTAACGAAATTTTTTTTACAA
1 TTTTTTAACGAAATTTTTTTTACAA
* *
16153590 TTATTTTAATGGAATTTTTTTTACAA
1 TT-TTTTAACGAAATTTTTTTTACAA
16153616 TTTTTTA
1 TTTTTTA
16153623 TCAAATTACA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 7 0.23
26 23 0.77
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.60
Consensus pattern (25 bp):
TTTTTTAACGAAATTTTTTTTACAA
Found at i:16154824 original size:37 final size:37
Alignment explanation
Indices: 16154783--16154855 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
16154773 TATTAATTGC
16154783 CGAATTTATTTAAACAACTAAACAAAATTAAAACAAT
1 CGAATTTATTTAAACAACTAAACAAAATTAAAACAAT
*
16154820 CGAATTTATTTAAACAACTAAATAAAATTAAAACAA
1 CGAATTTATTTAAACAACTAAACAAAATTAAAACAA
16154856 CTTAATTACT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.58, C:0.12, G:0.03, T:0.27
Consensus pattern (37 bp):
CGAATTTATTTAAACAACTAAACAAAATTAAAACAAT
Found at i:16154850 original size:18 final size:19
Alignment explanation
Indices: 16154794--16154857 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
16154784 GAATTTATTT
*
16154794 AAACAACTAAACAAAATTA
1 AAACAACTAAATAAAATTA
* ** *
16154813 AAACAA-TCGAAT-TTATTT
1 AAACAACT-AAATAAAATTA
16154831 AAACAACTAAATAAAATTA
1 AAACAACTAAATAAAATTA
16154850 AAACAACT
1 AAACAACT
16154858 TAATTACTTA
Statistics
Matches: 33, Mismatches: 9, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
18 13 0.39
19 20 0.61
ACGTcount: A:0.61, C:0.14, G:0.02, T:0.23
Consensus pattern (19 bp):
AAACAACTAAATAAAATTA
Found at i:16156815 original size:52 final size:51
Alignment explanation
Indices: 16156686--16156817 Score: 176
Period size: 50 Copynumber: 2.6 Consensus size: 51
16156676 ATGTGTTTTA
* * **
16156686 CATTTAATAAAGTCATGCATTATGTAACTTTCATGTTAGTTAAGTTTGCAT
1 CATTAAATTAAGTCATGCATTATGTAACTCCCATGTTAGTTAAGTTTGCAT
* * *
16156737 CA-TAAATTATGACATGCACTATGTAACTCCCATGTTAGTTAAAGTTTGCAT
1 CATTAAATTAAGTCATGCATTATGTAACTCCCATGTTAGTT-AAGTTTGCAT
*
16156788 CATTAAATTAAGTCATGCATTAAGTAACTC
1 CATTAAATTAAGTCATGCATTATGTAACTC
16156818 ATTTGTTCAT
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
50 31 0.46
51 14 0.21
52 23 0.34
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (51 bp):
CATTAAATTAAGTCATGCATTATGTAACTCCCATGTTAGTTAAGTTTGCAT
Found at i:16164568 original size:8 final size:8
Alignment explanation
Indices: 16164552--16164583 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
16164542 TTGAACCCTC
*
16164552 TTATCTTT
1 TTATTTTT
16164560 TTATTTTT
1 TTATTTTT
16164568 TTATTTTT
1 TTATTTTT
16164576 TTATTTTT
1 TTATTTTT
16164584 ATTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.84
Consensus pattern (8 bp):
TTATTTTT
Found at i:16164574 original size:6 final size:6
Alignment explanation
Indices: 16164557--16164599 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
16164547 CCCTCTTATC
* *
16164557 TTTTTA TTTTT- TTATT- TTTTTA TTTTTA TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
16164600 CAATTTTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
5 8 0.24
6 25 0.76
ACGTcount: A:0.14, C:0.02, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:16166781 original size:28 final size:28
Alignment explanation
Indices: 16166741--16166796 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
16166731 GGGAAGAAGA
16166741 AAGCCAATCCAAAGCCTATATAAACACC
1 AAGCCAATCCAAAGCCTATATAAACACC
16166769 AAGCCAATCCAAAGCCTATATAAACACC
1 AAGCCAATCCAAAGCCTATATAAACACC
16166797 CTAAGTATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.32, G:0.07, T:0.14
Consensus pattern (28 bp):
AAGCCAATCCAAAGCCTATATAAACACC
Found at i:16167568 original size:13 final size:13
Alignment explanation
Indices: 16167550--16167578 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
16167540 TTTAGTTTAA
16167550 TTAGTTAATTAGT
1 TTAGTTAATTAGT
16167563 TTAGTTAATTAGT
1 TTAGTTAATTAGT
16167576 TTA
1 TTA
16167579 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:16168009 original size:38 final size:38
Alignment explanation
Indices: 16167958--16168251 Score: 192
Period size: 38 Copynumber: 7.0 Consensus size: 38
16167948 GGAATGAAAA
*
16167958 AACGTAGTGCTAAGTGGATATACCACGGTTATACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
**
16167996 AACGTGGTGCTAAGTGGATATTCCACGATTACACATATTGATACATGT
1 AACGTGGTGCTAAGTGGATA-T--AC-----CAC-GGTT-ATACATGT
* * *
16168044 AACGTGGTGCTAAGTGAATATGCCACGGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGGTT--ATACA-TG------T
* *
16168091 AACATGGTGCTAAGTGGATATACCACGGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
* *
16168129 AACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGGTT--ATACA-TG------T
* * * *
16168176 AACGTGATGCTAAGTGGATAGACCACGTTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
* *
16168214 AACTTGGTGCTAAGTGGATATGCCACGGTTATACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
16168252 TAATTTGAAA
Statistics
Matches: 199, Mismatches: 30, Indels: 54
0.70 0.11 0.19
Matches are distributed among these distances:
38 81 0.41
39 3 0.02
40 10 0.05
41 6 0.03
44 4 0.02
45 7 0.04
46 3 0.02
47 58 0.29
48 27 0.14
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.31
Consensus pattern (38 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
Found at i:16168059 original size:48 final size:48
Alignment explanation
Indices: 16167988--16168244 Score: 254
Period size: 38 Copynumber: 5.8 Consensus size: 48
16167978 TACCACGGTT
* * *
16167988 ATACATGTAACGTGGTGCTAAGTGGATATTCCACGATTACACATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTG
*
16168036 ATACATGTAACGTGGTGCTAAGTGAATATGCCACGGTTACATATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTG
* * *
16168084 ATTCAT-TAACATGGTGCTAAGTGGATATACCACGG-----T-TA---
1 ATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTG
16168122 A-ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTG
* *
16168169 ATTCAT-TAACGTGATGCTAAGTGGATA-GACCAC-G-T---T-TA---
1 ATACATGTAACGTGGTGCTAAGTGGATATG-CCACGGTTACATATATTG
*
16168207 A-ACATGTAACTTGGTGCTAAGTGGATATGCCACGGTTA
1 ATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
16168245 TACATGTTAA
Statistics
Matches: 176, Mismatches: 16, Indels: 41
0.76 0.07 0.18
Matches are distributed among these distances:
37 6 0.03
38 52 0.30
39 2 0.01
40 1 0.01
41 4 0.02
42 2 0.01
43 1 0.01
44 2 0.01
45 1 0.01
46 2 0.01
47 51 0.29
48 52 0.30
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.31
Consensus pattern (48 bp):
ATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTG
Found at i:16168117 original size:47 final size:47
Alignment explanation
Indices: 16167995--16168202 Score: 245
Period size: 47 Copynumber: 4.6 Consensus size: 47
16167985 GTTATACATG
* * * *
16167995 TAACGTGGTGCTAAGTGGATATTCCACGATTACACATATTGATACAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
* *
16168042 GTAACGTGGTGCTAAGTGAATATGCCACGGTTACATATATTGATTCAT
1 -TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
* *
16168090 TAACATGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG------
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
*
16168128 TAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
* *
16168175 TAACGTGATGCTAAGTGGATAGACCACG
1 TAACGTGGTGCTAAGTGGATATACCACG
16168203 TTTAAACATG
Statistics
Matches: 136, Mismatches: 15, Indels: 19
0.80 0.09 0.11
Matches are distributed among these distances:
38 30 0.22
39 1 0.01
40 2 0.01
41 2 0.01
44 2 0.01
45 2 0.01
46 1 0.01
47 54 0.40
48 42 0.31
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (47 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
Found at i:16168141 original size:85 final size:85
Alignment explanation
Indices: 16168038--16168244 Score: 360
Period size: 85 Copynumber: 2.4 Consensus size: 85
16168028 ACATATTGAT
* *
16168038 ACATGTAACGTGGTGCTAAGTGAATATGCCACGGTTACATATATTGATTCATTAACATGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACATGATGCTA
*
16168103 AGTGGATATACCACGGTTAA
66 AGTGGATAGACCACGGTTAA
*
16168123 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGATGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACATGATGCTA
*
16168188 AGTGGATAGACCACGTTTAA
66 AGTGGATAGACCACGGTTAA
*
16168208 ACATGTAACTTGGTGCTAAGTGGATATGCCACGGTTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
16168245 TACATGTTAA
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 116 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (85 bp):
ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACATGATGCTA
AGTGGATAGACCACGGTTAA
Found at i:16169380 original size:17 final size:17
Alignment explanation
Indices: 16169360--16169393 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
16169350 AAATAATTTT
16169360 TTAATTAAAAATTTTAA
1 TTAATTAAAAATTTTAA
*
16169377 TTAATTAAAATTTTTAA
1 TTAATTAAAAATTTTAA
16169394 ACCTAAACCT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAATTAAAAATTTTAA
Found at i:16171750 original size:29 final size:29
Alignment explanation
Indices: 16171717--16171776 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
16171707 AGAGTTCATC
*
16171717 ACATATCGAGCTTATTACTTATGAGTTTT
1 ACATATCGAGCTCATTACTTATGAGTTTT
16171746 ACATATCGAGCTCATTACTTATGAGTTTT
1 ACATATCGAGCTCATTACTTATGAGTTTT
16171775 AC
1 AC
16171777 GTATATACCT
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:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (29 bp):
ACATATCGAGCTCATTACTTATGAGTTTT
Found at i:16184466 original size:51 final size:51
Alignment explanation
Indices: 16184386--16184488 Score: 179
Period size: 51 Copynumber: 2.0 Consensus size: 51
16184376 AAGAAAAAAA
* *
16184386 TGTAGAAATAATTAAACAAGTTTTCTATGTTACCCCCCATACGCACACACT
1 TGTAGAAACAATTAAACAAGTTTTCTATGTTACCCCCCACACGCACACACT
*
16184437 TGTAGAAACAATTAAACAAGTTTTTTATGTTACCCCCCACACGCACACACT
1 TGTAGAAACAATTAAACAAGTTTTCTATGTTACCCCCCACACGCACACACT
16184488 T
1 T
16184489 TAGTTGACAC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.35, C:0.26, G:0.10, T:0.29
Consensus pattern (51 bp):
TGTAGAAACAATTAAACAAGTTTTCTATGTTACCCCCCACACGCACACACT
Found at i:16190782 original size:39 final size:40
Alignment explanation
Indices: 16190687--16190909 Score: 273
Period size: 39 Copynumber: 5.7 Consensus size: 40
16190677 TTGAATGATG
*
16190687 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
16190725 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
16190766 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
16190805 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
16190844 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
16190883 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
16190910 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 10, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
39 93 0.56
40 61 0.37
41 11 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:16190873 original size:79 final size:81
Alignment explanation
Indices: 16190687--16190909 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
16190677 TTGAATGATG
* * *
16190687 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATATCCGGGCTAAGACCCGAAGGCA
*
16190748 TTTGTGCGAGATACTAAT
64 TTTGTGCGAGATACTAAA
16190766 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
*
16190828 TGTGCGAGTTACTAAA
66 TGTGCGAGATACTAAA
* * * * *
16190844 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
16190908 TG
66 TG
16190910 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:16190931 original size:79 final size:79
Alignment explanation
Indices: 16190687--16190942 Score: 224
Period size: 79 Copynumber: 3.3 Consensus size: 79
16190677 TTGAATGATG
* * * *
16190687 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
16190748 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
16190766 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
16190830 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
* *
16190844 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
*
16190908 TGAACGAG-GAGCTATA
64 TGAACGAGTGA-CTAAA
* *
16190924 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
16190943 TACGTGATTT
Statistics
Matches: 153, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
77 1 0.01
78 45 0.29
79 70 0.46
80 36 0.24
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:16198754 original size:40 final size:41
Alignment explanation
Indices: 16198658--16198762 Score: 126
Period size: 40 Copynumber: 2.6 Consensus size: 41
16198648 TGAATGATGT
*
16198658 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAA
* * * *
16198698 CCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTATAA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGTGACCATAA
*
16198738 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
16198763 AACGAGTAGC
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
39 1 0.02
40 46 0.84
41 8 0.15
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (41 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAA
Found at i:16200711 original size:16 final size:15
Alignment explanation
Indices: 16200687--16200716 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
16200677 AACTGTTTTA
16200687 TTACAAATTTCACTC
1 TTACAAATTTCACTC
16200702 TTACATAATTTCACT
1 TTACA-AATTTCACT
16200717 TACTCTATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:16200997 original size:48 final size:48
Alignment explanation
Indices: 16200921--16201102 Score: 177
Period size: 48 Copynumber: 3.7 Consensus size: 48
16200911 AAGCTATTTG
* * *
16200921 GTACGCATAATAGCTTGCACTTAGTACTATACATGCGACCAACAATCT
1 GTACACATAATAGCCTGCACTTAGTACTACACATGCGACCAACAATCT
* * * * * *
16200969 GTACACATAATAGCCTACACTTAGTACTACACACGTGATCAA-AGTTTTCGA
1 GTACACATAATAGCCTGCACTTAGTACTACACATGCGACCAACA---ATC-T
* * *
16201020 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCT
1 GTACACATAATAGCCTGCACTTAGTACTACACATGCGACC-AACAATCT
* *
16201069 GGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 -GTACACATAATAGCCTGCACTTAGTACTACACA
16201103 CATGACCTAA
Statistics
Matches: 107, Mismatches: 20, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
47 1 0.01
48 35 0.33
50 35 0.33
51 34 0.32
52 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (48 bp):
GTACACATAATAGCCTGCACTTAGTACTACACATGCGACCAACAATCT
Found at i:16201056 original size:99 final size:101
Alignment explanation
Indices: 16200921--16201103 Score: 289
Period size: 99 Copynumber: 1.8 Consensus size: 101
16200911 AAGCTATTTG
* *
16200921 GTACGCATAATAGCTTGCACTTAGTACTATACATGCGACC-AACAATCT-GTACACATAATAGCC
1 GTACGCATAATAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACATAATAGCC
16200984 TACACTTAGTACTACACACGTGATCAAAGTTTTCGA
66 TACACTTAGTACTACACACGTGATCAAAGTTTTCGA
* * * *
16201020 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGCC
1 GTACGCATAATAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACATAATAGCC
*
16201085 TGCACTTAGTACTACACAC
66 TACACTTAGTACTACACAC
16201104 ATGACCTAAA
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
99 37 0.49
100 7 0.09
101 31 0.41
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (101 bp):
GTACGCATAATAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACATAATAGCC
TACACTTAGTACTACACACGTGATCAAAGTTTTCGA
Found at i:16201110 original size:50 final size:50
Alignment explanation
Indices: 16200914--16201154 Score: 200
Period size: 51 Copynumber: 4.8 Consensus size: 50
16200904 GTAACCGAAG
* * * * * *
16200914 CTATTTGGTACGCATAATAGCTTGCACTTAGTACTATACATGCGACC-AA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAA
* * * * * *
16200963 CAATCT-GTACACATAATAGCCTACACTTAGTACTACACACGTGATCAAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAA
* * * *
16201012 GT-TTTCGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAA
1 CTATCT-G-GTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAA
* **
16201063 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGACCTAAAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCT--AA
* *** * *
16201115 CCATCTTAAACACATAGTAGCCTGCACATGGTACTACACA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
16201155 ATGTTCTCAC
Statistics
Matches: 152, Mismatches: 33, Indels: 11
0.78 0.17 0.06
Matches are distributed among these distances:
48 35 0.23
49 6 0.04
50 36 0.24
51 38 0.25
52 37 0.24
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (50 bp):
CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAA
Found at i:16201137 original size:52 final size:50
Alignment explanation
Indices: 16201025--16201154 Score: 152
Period size: 52 Copynumber: 2.6 Consensus size: 50
16201015 TTCGAGTACG
** * **
16201025 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACACGACCTAACCATCTGAAACA
* * *
16201075 CGTAGTAGCCTGCACTTAGTACTACACACATGACCTAAAACCATCTTAAACA
1 CATAGTAGCCTGCACTTAGTACTACACACACGACCT--AACCATCTGAAACA
* *
16201127 CATAGTAGCCTGCACATGGTACTACACA
1 CATAGTAGCCTGCACTTAGTACTACACA
16201155 ATGTTCTCAC
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
50 32 0.48
52 35 0.52
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACACACGACCTAACCATCTGAAACA
Done.