Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 131 of 290
Found at i:44434888 original size:70 final size:70
Alignment explanation
Indices: 44434784--44434925 Score: 241
Period size: 70 Copynumber: 2.0 Consensus size: 70
44434774 ATAAATTTGG
* *
44434784 ATCTCACAGCTGTCTACTGGATTATTTATTTAGCTACTAATGAAAATATATGAAATAAAAGTATA
1 ATCTCACAGCTCTCTACTCGATTATTTATTTAGCTACTAATGAAAATATATGAAATAAAA-TATA
44434849 AATAAA
65 AATAAA
*
44434855 ATCTCACAGCTCTCTGC-CGATTATTTATTTAGCTACTAATGAAAATATATGAAATAAAATATAA
1 ATCTCACAGCTCTCTACTCGATTATTTATTTAGCTACTAATGAAAATATATGAAATAAAATATAA
44434919 ATAAA
66 ATAAA
44434924 AT
1 AT
44434926 TTTAAAAATA
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
69 12 0.18
70 41 0.60
71 15 0.22
ACGTcount: A:0.44, C:0.13, G:0.10, T:0.34
Consensus pattern (70 bp):
ATCTCACAGCTCTCTACTCGATTATTTATTTAGCTACTAATGAAAATATATGAAATAAAATATAA
ATAAA
Found at i:44435344 original size:82 final size:78
Alignment explanation
Indices: 44435207--44435366 Score: 266
Period size: 82 Copynumber: 2.0 Consensus size: 78
44435197 CGTCCGTTAA
*
44435207 CTAAGTTTTTAATATAAAATTAGTAACTTTTTATTTAATTATTACTTAGTGGGTGGATGGTGACA
1 CTAAGTTTTTAATATAAAATTAGCAACTTTTTATTTAATTATTACTTAGT--G-GG-TGGTGACA
44435272 TCTTTAAAATACAATAT
62 TCTTTAAAATACAATAT
*
44435289 CTAAGTTTTTAATATAAAATTAGCAACTTTTTATTTAATTATTACTTGGTGGGTGGTGACATCTT
1 CTAAGTTTTTAATATAAAATTAGCAACTTTTTATTTAATTATTACTTAGTGGGTGGTGACATCTT
44435354 TAAAATACAATAT
66 TAAAATACAATAT
44435367 TGACTCTACG
Statistics
Matches: 76, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
78 25 0.33
79 2 0.03
80 1 0.01
82 48 0.63
ACGTcount: A:0.35, C:0.08, G:0.13, T:0.44
Consensus pattern (78 bp):
CTAAGTTTTTAATATAAAATTAGCAACTTTTTATTTAATTATTACTTAGTGGGTGGTGACATCTT
TAAAATACAATAT
Found at i:44436501 original size:24 final size:24
Alignment explanation
Indices: 44436444--44436495 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
44436434 TTTTTAGAAA
* **
44436444 ATTTAGTATTTATTAATATAATAT
1 ATTTAGCATTTATTAGCATAATAT
*
44436468 GTTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
44436492 ATTT
1 ATTT
44436496 GACATTGATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.52
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:44436506 original size:24 final size:24
Alignment explanation
Indices: 44436461--44436507 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
44436451 ATTTATTAAT
* *
44436461 ATAATATGTTTAGCATTTATTAGC
1 ATAATATATTTAGCATTGATTAGC
44436485 ATAATATATTT-GACATTGATTAG
1 ATAATATATTTAG-CATTGATTAG
44436508 AATTAGATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.36, C:0.06, G:0.13, T:0.45
Consensus pattern (24 bp):
ATAATATATTTAGCATTGATTAGC
Found at i:44437397 original size:40 final size:40
Alignment explanation
Indices: 44437353--44437428 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
44437343 AGCAGCGCAA
44437353 AAAAACAAACGCCACAATAGACCTACATTAGCGGCGCTCG
1 AAAAACAAACGCCACAATAGACCTACATTAGCGGCGCTCG
* * *
44437393 AAAAACAAACGCCACAATAGGCCTGCCTTAGCGGCG
1 AAAAACAAACGCCACAATAGACCTACATTAGCGGCG
44437429 ATTTCTTTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.38, C:0.30, G:0.20, T:0.12
Consensus pattern (40 bp):
AAAAACAAACGCCACAATAGACCTACATTAGCGGCGCTCG
Found at i:44439019 original size:15 final size:16
Alignment explanation
Indices: 44438989--44439023 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
44438979 ATTTATCAAT
*
44438989 TTTAATATTGATAGTA
1 TTTAATATTGAGAGTA
44439005 TTTAA-ATTGAGAGTA
1 TTTAATATTGAGAGTA
44439020 TTTA
1 TTTA
44439024 TAAATTTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (16 bp):
TTTAATATTGAGAGTA
Found at i:44440537 original size:86 final size:87
Alignment explanation
Indices: 44440437--44440603 Score: 264
Period size: 86 Copynumber: 1.9 Consensus size: 87
44440427 AGCTTGGTGT
* * * *
44440437 CTACAATTATATATTACGACAATGGTTACTGTCCATTACTACTTTAGTACACTCTTATTATTAAT
1 CTACAATAATATATTACAACAATGGTTACTGTCCATTACTACTTTAATACACTCTTATTACTAAT
44440502 -TTTTTATATTAATGTTAGTGC
66 GTTTTTATATTAATGTTAGTGC
* *
44440523 CTACAATAATATATTACAACAATGGTTACTGTCTATTACTACTTTAATATACTCTTATTACTAAT
1 CTACAATAATATATTACAACAATGGTTACTGTCCATTACTACTTTAATACACTCTTATTACTAAT
44440588 GGTTTTTATATTAATG
66 -GTTTTTATATTAATG
44440604 GGAATGTTAA
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
86 59 0.81
88 14 0.19
ACGTcount: A:0.32, C:0.14, G:0.08, T:0.45
Consensus pattern (87 bp):
CTACAATAATATATTACAACAATGGTTACTGTCCATTACTACTTTAATACACTCTTATTACTAAT
GTTTTTATATTAATGTTAGTGC
Found at i:44440867 original size:85 final size:84
Alignment explanation
Indices: 44440760--44440933 Score: 294
Period size: 85 Copynumber: 2.1 Consensus size: 84
44440750 ATAGTAGTAG
*
44440760 CATTTTATTTTCTTTTAAATATACATATATTTATTAAGAAAGGATTAAAGCATTTGATTTGTTTA
1 CATTTTATTTTCTTTTAAATATACATATATTTATTAAGAAAGGATCAAAGCATTTGATTTGTTTA
44440825 TTATTAGGGAAAAAAATTA
66 TTATTAGGGAAAAAAATTA
* *
44440844 CATTTTATTTTTCTTTTAAATATACATATATTTATTAAGAAAGGATCGAAGCTTTTGATTTGTTT
1 CATTTTA-TTTTCTTTTAAATATACATATATTTATTAAGAAAGGATCAAAGCATTTGATTTGTTT
*
44440909 ATTATTAGGGAAAAAATTTA
65 ATTATTAGGGAAAAAAATTA
*
44440929 AATTT
1 CATTT
44440934 ATACAAGAAT
Statistics
Matches: 84, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
84 7 0.08
85 77 0.92
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.47
Consensus pattern (84 bp):
CATTTTATTTTCTTTTAAATATACATATATTTATTAAGAAAGGATCAAAGCATTTGATTTGTTTA
TTATTAGGGAAAAAAATTA
Found at i:44445585 original size:19 final size:20
Alignment explanation
Indices: 44445561--44445599 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
44445551 TATTTATGTC
44445561 ACTCTAT-CCCCTATTTAGA
1 ACTCTATCCCCCTATTTAGA
44445580 ACTCTATCCCCCTATTTAGA
1 ACTCTATCCCCCTATTTAGA
44445600 GTACATAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.26, C:0.33, G:0.05, T:0.36
Consensus pattern (20 bp):
ACTCTATCCCCCTATTTAGA
Found at i:44463285 original size:37 final size:37
Alignment explanation
Indices: 44463235--44463309 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
44463225 TCTTACTATG
44463235 AATCAAGCACTTAATAAGCTCCATGTAAAGTGAAATA
1 AATCAAGCACTTAATAAGCTCCATGTAAAGTGAAATA
44463272 AATCAAGCACTTAATAAGCTCCATGTAAAGTGAAATA
1 AATCAAGCACTTAATAAGCTCCATGTAAAGTGAAATA
44463309 A
1 A
44463310 TAAATTTTCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.47, C:0.16, G:0.13, T:0.24
Consensus pattern (37 bp):
AATCAAGCACTTAATAAGCTCCATGTAAAGTGAAATA
Found at i:44465949 original size:12 final size:12
Alignment explanation
Indices: 44465931--44465965 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
44465921 GCCCTTAAAC
44465931 AAAGGAATTAAT
1 AAAGGAATTAAT
*
44465943 GAAGGAATTAAT
1 AAAGGAATTAAT
44465955 AAAGG-ATTAAT
1 AAAGGAATTAAT
44465966 TGATATGTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 6 0.29
12 15 0.71
ACGTcount: A:0.54, C:0.00, G:0.20, T:0.26
Consensus pattern (12 bp):
AAAGGAATTAAT
Found at i:44470864 original size:10 final size:10
Alignment explanation
Indices: 44470851--44470893 Score: 54
Period size: 9 Copynumber: 4.5 Consensus size: 10
44470841 AAAAAATTAA
44470851 AATAATTTTT
1 AATAATTTTT
44470861 AATAATTTTT
1 AATAATTTTT
* *
44470871 -GTACTTTTT
1 AATAATTTTT
44470880 AA-AATTTTT
1 AATAATTTTT
44470889 AATAA
1 AATAA
44470894 GTTGTATACT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
9 15 0.56
10 12 0.44
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (10 bp):
AATAATTTTT
Found at i:44470890 original size:28 final size:29
Alignment explanation
Indices: 44470854--44470918 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 29
44470844 AAATTAAAAT
* * *
44470854 AATTTTTAATAATTTTTGTAC-TTTTTAA
1 AATTTTTAATAAGTTGTATACTTTTTTAA
*
44470882 AATTTTTAATAAGTTGTATACTTTTTTTA
1 AATTTTTAATAAGTTGTATACTTTTTTAA
44470911 AATTTTTA
1 AATTTTTA
44470919 TATTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 18 0.56
29 14 0.44
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (29 bp):
AATTTTTAATAAGTTGTATACTTTTTTAA
Found at i:44471389 original size:18 final size:18
Alignment explanation
Indices: 44471349--44471385 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
44471339 TATTTGTTAC
44471349 AAATT-ACATAACATATA
1 AAATTAACATAACATATA
44471366 AAATTAACAT-A-ATATA
1 AAATTAACATAACATATA
44471382 AAAT
1 AAAT
44471386 ATTACAAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 9 0.47
17 6 0.32
18 4 0.21
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.30
Consensus pattern (18 bp):
AAATTAACATAACATATA
Found at i:44472548 original size:38 final size:38
Alignment explanation
Indices: 44472497--44472572 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
44472487 CCAAACATGG
*
44472497 TGCAACCTCACCTTTGTACAATTAAGTAAACGCTCTTC
1 TGCAACCTCACCTTTGTACAATTAACTAAACGCTCTTC
44472535 TGCAACCTCACCTTTGTACAATTAACTAAACGCTCTTC
1 TGCAACCTCACCTTTGTACAATTAACTAAACGCTCTTC
44472573 CAACTTACAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (38 bp):
TGCAACCTCACCTTTGTACAATTAACTAAACGCTCTTC
Found at i:44474041 original size:43 final size:45
Alignment explanation
Indices: 44473980--44474070 Score: 159
Period size: 43 Copynumber: 2.1 Consensus size: 45
44473970 AGTTACTTAT
44473980 TGAAAACTCTTCAAGGAAAAAGAGATGTTGGAACACAGG-AA-AG
1 TGAAAACTCTTCAAGGAAAAAGAGATGTTGGAACACAGGTAAGAG
*
44474023 TGAAAACTCTTCAAGGAAAGAGAGATGTTGGAACACAGGTAAGAG
1 TGAAAACTCTTCAAGGAAAAAGAGATGTTGGAACACAGGTAAGAG
44474068 TGA
1 TGA
44474071 CGTCAATCCA
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
43 38 0.84
44 2 0.04
45 5 0.11
ACGTcount: A:0.44, C:0.11, G:0.27, T:0.18
Consensus pattern (45 bp):
TGAAAACTCTTCAAGGAAAAAGAGATGTTGGAACACAGGTAAGAG
Found at i:44474508 original size:40 final size:40
Alignment explanation
Indices: 44474459--44474542 Score: 159
Period size: 40 Copynumber: 2.1 Consensus size: 40
44474449 CCATATCTAA
44474459 AAACCCTAAATTAAATTAAACTATTTCAATTGAATCGAAC
1 AAACCCTAAATTAAATTAAACTATTTCAATTGAATCGAAC
*
44474499 AAACCCTAAATTAAATTAAATTATTTCAATTGAATCGAAC
1 AAACCCTAAATTAAATTAAACTATTTCAATTGAATCGAAC
44474539 AAAC
1 AAAC
44474543 AAATTGGACC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.49, C:0.17, G:0.05, T:0.30
Consensus pattern (40 bp):
AAACCCTAAATTAAATTAAACTATTTCAATTGAATCGAAC
Found at i:44476493 original size:13 final size:14
Alignment explanation
Indices: 44476424--44476498 Score: 53
Period size: 14 Copynumber: 5.2 Consensus size: 14
44476414 ACAAGGAAAT
44476424 AAAGAAAGAAAAAG
1 AAAGAAAGAAAAAG
* *
44476438 AACAGAGAAGTAGAACG
1 AA-AGA-AAG-AAAAAG
* * *
44476455 AAACAGAG-AAAGG
1 AAAGAAAGAAAAAG
**
44476468 AAAGAGGGAAAAAG
1 AAAGAAAGAAAAAG
44476482 AAAGAAAGAAAAAG
1 AAAGAAAGAAAAAG
44476496 AAA
1 AAA
44476499 AAGGAAAATT
Statistics
Matches: 46, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
13 9 0.20
14 21 0.46
15 5 0.11
16 5 0.11
17 6 0.13
ACGTcount: A:0.68, C:0.04, G:0.27, T:0.01
Consensus pattern (14 bp):
AAAGAAAGAAAAAG
Found at i:44478442 original size:20 final size:21
Alignment explanation
Indices: 44478400--44478440 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
44478390 ATTATATCAA
44478400 ATTGTAACAGAATTAACATTT
1 ATTGTAACAGAATTAACATTT
44478421 ATTGTAACA-AATTTAACATT
1 ATTGTAACAGAA-TTAACATT
44478441 ATCAGAGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (21 bp):
ATTGTAACAGAATTAACATTT
Found at i:44480592 original size:30 final size:30
Alignment explanation
Indices: 44480558--44480621 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
44480548 CAAATTTGGG
* *
44480558 AAATTCGAATTAAGC-CTTCAATTTTTTTGA
1 AAATTCGAATTAAACTCCTCAATTTTTTT-A
**
44480588 AAATTTTAATTAAACTCCTCAATTTTTTTA
1 AAATTCGAATTAAACTCCTCAATTTTTTTA
44480618 AAAT
1 AAAT
44480622 CTTCACTAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 17 0.59
31 12 0.41
ACGTcount: A:0.38, C:0.12, G:0.05, T:0.45
Consensus pattern (30 bp):
AAATTCGAATTAAACTCCTCAATTTTTTTA
Found at i:44480773 original size:15 final size:15
Alignment explanation
Indices: 44480734--44480777 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 15
44480724 TTTCGCTACC
44480734 TTGTTGAAAATTACA
1 TTGTTGAAAATTACA
44480749 TT-TT---AATTACA
1 TTGTTGAAAATTACA
44480760 TTGTTGAAAATTAC-
1 TTGTTGAAAATTACA
44480774 TTGT
1 TTGT
44480778 ATTTTGATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
11 9 0.36
12 2 0.08
14 6 0.24
15 8 0.32
ACGTcount: A:0.34, C:0.07, G:0.11, T:0.48
Consensus pattern (15 bp):
TTGTTGAAAATTACA
Found at i:44483864 original size:12 final size:12
Alignment explanation
Indices: 44483846--44483880 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
44483836 GCCCTTAAAC
44483846 AAAGGAATTAAT
1 AAAGGAATTAAT
*
44483858 GAAGGAATTAAT
1 AAAGGAATTAAT
44483870 AAAGG-ATTAAT
1 AAAGGAATTAAT
44483881 TGATATGTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 6 0.29
12 15 0.71
ACGTcount: A:0.54, C:0.00, G:0.20, T:0.26
Consensus pattern (12 bp):
AAAGGAATTAAT
Found at i:44531221 original size:41 final size:41
Alignment explanation
Indices: 44531145--44531228 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
44531135 GATAAGAGAT
44531145 AAAACCGATCGAGCTTTCAATTCTCAAATTCAAATTTATAG
1 AAAACCGATCGAGCTTTCAATTCTCAAATTCAAATTTATAG
44531186 AAAACCGATCGAGCTTTCAATTCTCAAATTCAAATTTATAG
1 AAAACCGATCGAGCTTTCAATTCTCAAATTCAAATTTATAG
44531227 AA
1 AA
44531229 GACTATTTCC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (41 bp):
AAAACCGATCGAGCTTTCAATTCTCAAATTCAAATTTATAG
Found at i:44575510 original size:21 final size:22
Alignment explanation
Indices: 44575481--44575527 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
44575471 CAGAAGGAGT
*
44575481 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
44575503 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
44575524 GAGT
1 GAGT
44575528 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:44578720 original size:21 final size:22
Alignment explanation
Indices: 44578691--44578737 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
44578681 CAGAAGGAGT
*
44578691 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
44578713 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
44578734 GAGT
1 GAGT
44578738 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:44579891 original size:5 final size:5
Alignment explanation
Indices: 44579867--44579925 Score: 73
Period size: 5 Copynumber: 11.8 Consensus size: 5
44579857 ATAAATAAAT
* * * *
44579867 GAATC GAACC GAATT GAATC AAATC GAATC GAATC GAATC GAATC GAACC
1 GAATC GAATC GAATC GAATC GAATC GAATC GAATC GAATC GAATC GAATC
*
44579917 GAATT GAAT
1 GAATC GAAT
44579926 ATAAATTAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
5 45 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.20
Consensus pattern (5 bp):
GAATC
Found at i:44581368 original size:31 final size:30
Alignment explanation
Indices: 44581324--44581388 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 30
44581314 GCTAAGACTG
* * *
44581324 AAATTTTAAAATTCAAAAAGTATATGAACT
1 AAATTTGAAAATTCAAAAAATACATGAACT
*
44581354 AAATTTGACAAATTCAAAAAATACATGGACT
1 AAATTTGA-AAATTCAAAAAATACATGAACT
44581385 AAAT
1 AAAT
44581389 ACATAATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.54, C:0.09, G:0.08, T:0.29
Consensus pattern (30 bp):
AAATTTGAAAATTCAAAAAATACATGAACT
Found at i:44582568 original size:4 final size:4
Alignment explanation
Indices: 44582559--44582584 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
44582549 GGAAAGTGGG
44582559 ATTA ATTA ATTA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA AT
44582585 ACATGAGGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:44585284 original size:60 final size:60
Alignment explanation
Indices: 44585207--44585331 Score: 139
Period size: 60 Copynumber: 2.1 Consensus size: 60
44585197 TGACAAAAAC
*
44585207 AAAAAACAAAATTTAATAGTCGAG-TCAACATTTTATAACTTTTCATGGTTA-AGTGA-TCA
1 AAAAAACAAAATTTAATAGT-GAGATCAACATTTTATAACTTTTCATAGTTAGA-TGACTCA
* * * * * *
44585266 AAAAAAGAAATTTATAATAGTTAGATGATCATTTTATAACTTTTTATAGTTAGATGACTCA
1 AAAAAACAAAATT-TAATAGTGAGATCAACATTTTATAACTTTTCATAGTTAGATGACTCA
44585327 AAAAA
1 AAAAA
44585332 TATTACTAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
59 13 0.24
60 33 0.60
61 9 0.16
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.35
Consensus pattern (60 bp):
AAAAAACAAAATTTAATAGTGAGATCAACATTTTATAACTTTTCATAGTTAGATGACTCA
Found at i:44595194 original size:25 final size:25
Alignment explanation
Indices: 44595166--44595218 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
44595156 TCATCAAAGT
*
44595166 TTCCTGATTAAAGGCTCTTATGAGC
1 TTCCTGATTAAAGGCTCTTAGGAGC
* *
44595191 TTCCTGATTAATGGCTCTTCGGAGC
1 TTCCTGATTAAAGGCTCTTAGGAGC
44595216 TTC
1 TTC
44595219 TCGATATTGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.38
Consensus pattern (25 bp):
TTCCTGATTAAAGGCTCTTAGGAGC
Found at i:44595250 original size:24 final size:24
Alignment explanation
Indices: 44595223--44595279 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
44595213 AGCTTCTCGA
*
44595223 TATTGGCTCGCT-TGAACTTTCCGT
1 TATTGGCTCG-TATGAACTTCCCGT
* *
44595247 TATTGTCTCGTATGAGCTTCCCGT
1 TATTGGCTCGTATGAACTTCCCGT
*
44595271 TAATGGCTC
1 TATTGGCTC
44595280 TCCGGAGCTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 1 0.04
24 26 0.96
ACGTcount: A:0.14, C:0.25, G:0.21, T:0.40
Consensus pattern (24 bp):
TATTGGCTCGTATGAACTTCCCGT
Found at i:44600983 original size:25 final size:25
Alignment explanation
Indices: 44600953--44601021 Score: 86
Period size: 24 Copynumber: 2.8 Consensus size: 25
44600943 GTTTTAATGT
44600953 TCAATTTGGTATCTGAGTTTTTTTC
1 TCAATTTGGTATCTGAGTTTTTTTC
* * *
44600978 TCAATTTGATATCTAAG-CTTTTTC
1 TCAATTTGGTATCTGAGTTTTTTTC
* *
44601002 TCAATTTGGCATTTGAGTTT
1 TCAATTTGGTATCTGAGTTT
44601022 AGTTTAAATA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
24 19 0.54
25 16 0.46
ACGTcount: A:0.20, C:0.13, G:0.14, T:0.52
Consensus pattern (25 bp):
TCAATTTGGTATCTGAGTTTTTTTC
Found at i:44601004 original size:24 final size:25
Alignment explanation
Indices: 44600953--44601009 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
44600943 GTTTTAATGT
* * *
44600953 TCAATTTGGTATCTGAGTTTTTTTC
1 TCAATTTGATATCTAAGTCTTTTTC
44600978 TCAATTTGATATCTAAG-CTTTTTC
1 TCAATTTGATATCTAAGTCTTTTTC
44601002 TCAATTTG
1 TCAATTTG
44601010 GCATTTGAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 14 0.48
25 15 0.52
ACGTcount: A:0.21, C:0.14, G:0.12, T:0.53
Consensus pattern (25 bp):
TCAATTTGATATCTAAGTCTTTTTC
Found at i:44601742 original size:25 final size:25
Alignment explanation
Indices: 44601670--44601745 Score: 73
Period size: 28 Copynumber: 2.9 Consensus size: 25
44601660 ATATTATCCC
**
44601670 AAAAAATATAGATACTTAATTGAGA
1 AAAAAATATAGATACCAAATTGAGA
* *
44601695 AAAAAAAATCA-AAACTCAAAAATTGAGA
1 AAAAAATAT-AGATAC-C--AAATTGAGA
44601723 AAAAAATATAGATACCAAATTGA
1 AAAAAATATAGATACCAAATTGA
44601746 ACATTAAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
25 18 0.45
26 1 0.03
27 2 0.05
28 19 0.47
ACGTcount: A:0.62, C:0.08, G:0.09, T:0.21
Consensus pattern (25 bp):
AAAAAATATAGATACCAAATTGAGA
Found at i:44614753 original size:40 final size:40
Alignment explanation
Indices: 44614672--44614754 Score: 112
Period size: 40 Copynumber: 2.1 Consensus size: 40
44614662 TTTTTTTTTT
* *
44614672 TTGTCTAAGTTAGATTCTAAATTTGACAATTGTTCTCACA
1 TTGTCTAAGTTAGACTCTAAATTTGACAATTATTCTCACA
* * * *
44614712 TTGTCTAGGTTGGACTCTAAATTTGACAATTATTTTTACA
1 TTGTCTAAGTTAGACTCTAAATTTGACAATTATTCTCACA
44614752 TTG
1 TTG
44614755 AGGCATGGAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.28, C:0.13, G:0.14, T:0.45
Consensus pattern (40 bp):
TTGTCTAAGTTAGACTCTAAATTTGACAATTATTCTCACA
Found at i:44615519 original size:15 final size:16
Alignment explanation
Indices: 44615501--44615541 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
44615491 TATGTGAATT
*
44615501 TAAAAATTTA-TTTAA
1 TAAAAATTAATTTTAA
44615516 TAAAATATTAATTTTAA
1 TAAAA-ATTAATTTTAA
44615533 -AAAAATTAA
1 TAAAAATTAA
44615542 AATCATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 10 0.43
16 8 0.35
17 5 0.22
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAAAAATTAATTTTAA
Found at i:44619536 original size:45 final size:46
Alignment explanation
Indices: 44619469--44619563 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 46
44619459 AATGAACATC
*
44619469 AAATCAAATAACTTACACTGAAACCAACAT-AAAAATACAAAAGAA
1 AAATCAAATAACTCACACTGAAACCAACATAAAAAATACAAAAGAA
* * *
44619514 AAATCAAATAACTCACAGTGAAACGAATATAAAAAAATACAAAAGAA
1 AAATCAAATAACTCACACTGAAACCAACAT-AAAAAATACAAAAGAA
44619561 AAA
1 AAA
44619564 CGAATCAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
45 26 0.59
47 18 0.41
ACGTcount: A:0.64, C:0.15, G:0.06, T:0.15
Consensus pattern (46 bp):
AAATCAAATAACTCACACTGAAACCAACATAAAAAATACAAAAGAA
Found at i:44619756 original size:12 final size:11
Alignment explanation
Indices: 44619739--44619800 Score: 63
Period size: 11 Copynumber: 5.5 Consensus size: 11
44619729 ATAAACTCCA
44619739 AAAAATTATTTT
1 AAAAA-TATTTT
***
44619751 AAAAATAAAAAT
1 AAAAAT-ATTTT
44619763 AAAAATATTTT
1 AAAAATATTTT
*
44619774 TAAAATATTTT
1 AAAAATATTTT
44619785 -AAAATATTTT
1 AAAAATATTTT
44619795 AAAAAT
1 AAAAAT
44619801 TAAAAATATA
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
10 10 0.24
11 18 0.44
12 13 0.32
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:44619786 original size:10 final size:10
Alignment explanation
Indices: 44619764--44619798 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
44619754 AATAAAAATA
44619764 AAAATATTTTT
1 AAAATA-TTTT
44619775 AAAATATTTT
1 AAAATATTTT
44619785 AAAATATTTT
1 AAAATATTTT
44619795 AAAA
1 AAAA
44619799 ATTAAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 18 0.75
11 6 0.25
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
AAAATATTTT
Found at i:44620010 original size:16 final size:18
Alignment explanation
Indices: 44619989--44620030 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 18
44619979 CATGGACACC
44619989 TATAAAAATAA-TCT-AT
1 TATAAAAATAAGTCTAAT
44620005 TAT-AAAATAAGTCTAAT
1 TATAAAAATAAGTCTAAT
*
44620022 CATAAAAAT
1 TATAAAAAT
44620031 GGGTTTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 7 0.32
16 6 0.27
17 4 0.18
18 5 0.23
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.33
Consensus pattern (18 bp):
TATAAAAATAAGTCTAAT
Found at i:44633796 original size:23 final size:24
Alignment explanation
Indices: 44633770--44633817 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
44633760 GTATTTTTTA
44633770 AATTGATGAATTTT-AATTTTAAT
1 AATTGATGAATTTTAAATTTTAAT
**
44633793 AATTTTTGAATTTTAAAATTTTAAT
1 AATTGATGAATTTT-AAATTTTAAT
44633818 CATGGGTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 12 0.57
25 9 0.43
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (24 bp):
AATTGATGAATTTTAAATTTTAAT
Found at i:44633799 original size:16 final size:16
Alignment explanation
Indices: 44633780--44633814 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
44633770 AATTGATGAA
44633780 TTTT-AATTTTAATAAT
1 TTTTGAATTTTAA-AAT
44633796 TTTTGAATTTTAAAAT
1 TTTTGAATTTTAAAAT
44633812 TTT
1 TTT
44633815 AATCATGGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (16 bp):
TTTTGAATTTTAAAAT
Found at i:44633799 original size:31 final size:31
Alignment explanation
Indices: 44633735--44633804 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
44633725 TTTTTTTTGC
* * * *
44633735 TTTAATTTGATTAATTTTAAATTTTGTATTT
1 TTTAAATTGATGAATTTTAAATTTTATAATT
44633766 TTTAAATTGATGAATTTT-AATTTTAATAATT
1 TTTAAATTGATGAATTTTAAATTTT-ATAATT
*
44633797 TTTGAATT
1 TTTAAATT
44633805 TTAAAATTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
30 6 0.18
31 27 0.82
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (31 bp):
TTTAAATTGATGAATTTTAAATTTTATAATT
Found at i:44639162 original size:15 final size:15
Alignment explanation
Indices: 44639142--44639173 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
44639132 ACTCCAGGAA
44639142 ATGGTATGATTAGAT
1 ATGGTATGATTAGAT
44639157 ATGGTATGATTAGAT
1 ATGGTATGATTAGAT
44639172 AT
1 AT
44639174 AACAATGCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.25, T:0.41
Consensus pattern (15 bp):
ATGGTATGATTAGAT
Found at i:44645619 original size:18 final size:15
Alignment explanation
Indices: 44645585--44645616 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
44645575 GTGAAAATAA
44645585 TAATAATTGGATGAC
1 TAATAATTGGATGAC
44645600 TAATAATTGGATGAC
1 TAATAATTGGATGAC
44645615 TA
1 TA
44645617 CTAGTGTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.19, T:0.34
Consensus pattern (15 bp):
TAATAATTGGATGAC
Found at i:44658891 original size:26 final size:25
Alignment explanation
Indices: 44658861--44658909 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
44658851 AATTATACAA
44658861 ATTCACCGAGTTGAAATATCCAAACC
1 ATTCACCGAGTTGAAATA-CCAAACC
* *
44658887 ATTCACTGAGTTTAAATACCAAA
1 ATTCACCGAGTTGAAATACCAAA
44658910 TACCATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.27
Consensus pattern (25 bp):
ATTCACCGAGTTGAAATACCAAACC
Found at i:44671020 original size:17 final size:17
Alignment explanation
Indices: 44670998--44671049 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
44670988 TTTATACGAT
44670998 AATATATCTAAAAACTA
1 AATATATCTAAAAACTA
*
44671015 AATATAT-T-----TTA
1 AATATATCTAAAAACTA
44671026 AATATATCTAAAAACTA
1 AATATATCTAAAAACTA
44671043 AATATAT
1 AATATAT
44671050 TTTAAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 12
0.66 0.05 0.29
Matches are distributed among these distances:
11 9 0.33
12 1 0.04
16 1 0.04
17 16 0.59
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.37
Consensus pattern (17 bp):
AATATATCTAAAAACTA
Found at i:44671030 original size:28 final size:28
Alignment explanation
Indices: 44670998--44671057 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
44670988 TTTATACGAT
44670998 AATATATCTAAAAACTAAATATATTTTA
1 AATATATCTAAAAACTAAATATATTTTA
44671026 AATATATCTAAAAACTAAATATATTTTA
1 AATATATCTAAAAACTAAATATATTTTA
44671054 AATA
1 AATA
44671058 ATTGAAAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (28 bp):
AATATATCTAAAAACTAAATATATTTTA
Found at i:44675610 original size:26 final size:27
Alignment explanation
Indices: 44675580--44675634 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 27
44675570 AACAATACAA
*
44675580 ATTCACCGAGTTGAAATACCCAA-ACC
1 ATTCACCGAGTTGAAATACCAAATACC
* *
44675606 ATTCACTGAGTTTAAATACCAAATACC
1 ATTCACCGAGTTGAAATACCAAATACC
44675633 AT
1 AT
44675635 ATGAGCATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 20 0.80
27 5 0.20
ACGTcount: A:0.40, C:0.25, G:0.09, T:0.25
Consensus pattern (27 bp):
ATTCACCGAGTTGAAATACCAAATACC
Found at i:44692195 original size:28 final size:28
Alignment explanation
Indices: 44692164--44692219 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
44692154 TCTATCCATA
44692164 AACAAAATTTTACCTAAAATAACAAAAT
1 AACAAAATTTTACCTAAAATAACAAAAT
44692192 AACAAAATTTTACCTAAAATAACAAAAT
1 AACAAAATTTTACCTAAAATAACAAAAT
44692220 TTTTAACTTA
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:0.61, C:0.14, G:0.00, T:0.25
Consensus pattern (28 bp):
AACAAAATTTTACCTAAAATAACAAAAT
Found at i:44692232 original size:21 final size:20
Alignment explanation
Indices: 44692183--44692233 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
44692173 TTACCTAAAA
44692183 TAAC-AAAATAACAAAATTT
1 TAACTAAAATAACAAAATTT
*
44692202 TACCTAAAATAACAAAATTTT
1 TAACTAAAATAACAAAA-TTT
*
44692223 TAACTTAAATA
1 TAACTAAAATA
44692234 GCATTAATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 3 0.11
20 12 0.44
21 12 0.44
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (20 bp):
TAACTAAAATAACAAAATTT
Found at i:44692347 original size:23 final size:23
Alignment explanation
Indices: 44692332--44692388 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
44692322 CAATATATGG
44692332 TAAATAAGGTAATCAAATATGCC
1 TAAATAAGGTAATCAAATATGCC
*
44692355 TTAATAAGGTAATCAAATATGCC
1 TAAATAAGGTAATCAAATATGCC
**
44692378 TTCATAAGGTA
1 TAAATAAGGTA
44692389 TTGTTAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (23 bp):
TAAATAAGGTAATCAAATATGCC
Found at i:44692433 original size:20 final size:20
Alignment explanation
Indices: 44692405--44692445 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
44692395 ATTTGTTATT
44692405 TTTTAATAAAAAATTTTATAA
1 TTTTAAT-AAAAATTTTATAA
*
44692426 TTTT-ATAAAATTTTTATAA
1 TTTTAATAAAAATTTTATAA
44692445 T
1 T
44692446 GTTTTTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 13 0.68
20 2 0.11
21 4 0.21
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTTAATAAAAATTTTATAA
Found at i:44692456 original size:11 final size:10
Alignment explanation
Indices: 44692418--44692468 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 10
44692408 TAATAAAAAA
44692418 TTTTATAATT
1 TTTTATAATT
* *
44692428 TTATA-AAAT
1 TTTTATAATT
44692437 TTTTATAATGT
1 TTTTATAAT-T
44692448 TTTTATAATT
1 TTTTATAATT
*
44692458 TTTAATAATT
1 TTTTATAATT
44692468 T
1 T
44692469 AAAATTTTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
9 7 0.21
10 17 0.50
11 10 0.29
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (10 bp):
TTTTATAATT
Found at i:44698287 original size:128 final size:128
Alignment explanation
Indices: 44698059--44698306 Score: 451
Period size: 128 Copynumber: 1.9 Consensus size: 128
44698049 TGATGCTCAA
44698059 CAAGGCTAAGAACATTGCTTTCTAGTGGGATTTGCTAATAATCTATTGTTGGGAACTTGATGAGC
1 CAAGGCTAAGAACATTGCTTTCTAGTGGGATTTGCTAATAATCTATTGTTGGGAACTTGATGAGC
*
44698124 CCGACACACCTATTATAGAAGACCTAGGACCTACAAGTAGAGGTGCTCATAGGCCGGGCCGGG
66 CCGACACACCTATTATAGAAGACCTAGAACCTACAAGTAGAGGTGCTCATAGGCCGGGCCGGG
* *
44698187 CAAGGCTAAGAACATTGCTTTGTAGTGGGATTTGCTAATAATCTGTTGTTGGGAACTTGATGAGC
1 CAAGGCTAAGAACATTGCTTTCTAGTGGGATTTGCTAATAATCTATTGTTGGGAACTTGATGAGC
* *
44698252 CTGACACACCTATTATAGAAGACCTAGAACCTACAAGTAGAGGTGCTCATGGGCC
66 CCGACACACCTATTATAGAAGACCTAGAACCTACAAGTAGAGGTGCTCATAGGCC
44698307 TAATAATCTA
Statistics
Matches: 115, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
128 115 1.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (128 bp):
CAAGGCTAAGAACATTGCTTTCTAGTGGGATTTGCTAATAATCTATTGTTGGGAACTTGATGAGC
CCGACACACCTATTATAGAAGACCTAGAACCTACAAGTAGAGGTGCTCATAGGCCGGGCCGGG
Found at i:44699913 original size:31 final size:31
Alignment explanation
Indices: 44699877--44699947 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
44699867 AATTTCTATA
* *
44699877 TTTTAATTTAATTAAATTTGGTCTCTATACT
1 TTTTAATTTAATTAAATTTAGTCCCTATACT
* *
44699908 TTTTAAATTAGTTAAATTTAGTCCCTATACT
1 TTTTAATTTAATTAAATTTAGTCCCTATACT
44699939 TTTTAATTT
1 TTTTAATTT
44699948 TTAGTTTTGA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.30, C:0.10, G:0.06, T:0.55
Consensus pattern (31 bp):
TTTTAATTTAATTAAATTTAGTCCCTATACT
Found at i:44704709 original size:29 final size:31
Alignment explanation
Indices: 44704662--44704721 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
44704652 TTTAGTTATC
*
44704662 TTTAAAATTGATAAAAATT-TAATTTAATTT
1 TTTAAAATAGATAAAAATTATAATTTAATTT
44704692 TTTAAAATAG-TAAAAATTATAATTTAATTT
1 TTTAAAATAGATAAAAATTATAATTTAATTT
44704722 CGACTTTTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 8 0.29
30 20 0.71
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (31 bp):
TTTAAAATAGATAAAAATTATAATTTAATTT
Found at i:44708837 original size:651 final size:650
Alignment explanation
Indices: 44707566--44708863 Score: 2317
Period size: 651 Copynumber: 2.0 Consensus size: 650
44707556 GTCCCCATGG
* *
44707566 CATACCATTGGGGAACACTATTACCAGGGAATGCTTGAACAGGGTGGGAGTGAGGCGTCTGAAGC
1 CATACCATTGGGGAACACTATTACCAGGGAATGCTTCAAAAGGGTGGGAGTGAGGCGTCTGAAGC
44707631 ACAATACAACACAAACACACCACCATTGTCGCACAGTGATAATCAGATGAACTTAATGCTCAGTG
66 ACAATACAACACAAACACACCACCATTGTCGCACAGTGATAATCAGATGAACTTAATGCTCAGTG
* * *
44707696 GGAGCAACAAAAGAGATGGGGTTTCAGAAGCTGGAGTACAAGTTACTGAAATGAATGATGTTACT
131 GAAGCAACAAAAGAGACGGGGTTTCAGAAGCTGGAGTACAAGGTACTGAAATGAATGATGTTACT
* *
44707761 ATTCCTGTTGATCAAGACCACGAAAGTTTGCTGGCTAGGGAGATGTTGAAGCGTAATTATAGTTC
196 ATTACTGTTGATCAAGACCACGAAAGTTTGCTGGCTAGGGAGATATTGAAGCGTAATTATAGTTC
* *
44707826 CTGGCTATCCGGACTTTTTAACAAGGACAACAACAGTGTGGAAGTTGCACACTTCCATGGTTTAC
261 CTGGCTATCCGGACTTTTTAACAAAGACAACAACAGTGTGGAAGTTGCACACTTCCATGGCTTAC
* * *
44707891 AAGAAGCATTGGACGAAACTCGTTATGGGGAAACACCAGACTACCTCAAACGTATCGCAACCCTA
326 AAGAAGCATTGGACAAAACTCGCTATGGGGAAACACCAGACTACCTCAAACGTATCGCAACCCAA
44707956 ATCGAAGTGGATCGTGGAAAAGCTACTAAGTTTGGCCATAAAAATATTGAAGTGCTGGTTTGTGC
391 ATCGAAGTGGATCGTGGAAAAGCTACTAAGTTTGGCCATAAAAATATTGAAGTGCTGGTTTGTGC
* *
44708021 CGCATTCAAAGAGATGGAAGACTGGCGTACACCTAAGGATTCCGGCTGTAACCAGTTGAAAAAGT
456 CGCAATCAAAGAGATGGAAGACTGGCGTACACCTAAGGATTCCGGCTATAACCAGTTGAAAAAGT
*
44708086 GGGCCGCGACGCTCAATATGGGTAAGGAACAAGACTTTGAAGTGAAATTTGCTGATGACACGTTG
521 GGGCCGCGACGCTCAATATGGGTAAGGAACAAGACTTTGAAGTGAAACTTGCTGATGACACGTTG
* *
44708151 AATAATATTTGTCTTGCCTGTTATGCTTCCTTAATGATCTATGGAGGGGATGGTTCAATTCAGTT
586 AATAATATTTGTCTTGCCTGTTATGCTTACTTAATGATCTATGGAGAGGATGGTTCAATTCAGTT
* *
44708216 CATACCATTGGGGAACACTATTACTAGTGGAATGCTTCAAAAGGGTGGGCGTGAGGCGTCTGAAG
1 CATACCATTGGGGAACACTATTACCAG-GGAATGCTTCAAAAGGGTGGGAGTGAGGCGTCTGAAG
*
44708281 CACAATACAATACAAACACACCACCATTGTCGCACAGTGATAATCAGATGAACTTAATGCTCAGT
65 CACAATACAACACAAACACACCACCATTGTCGCACAGTGATAATCAGATGAACTTAATGCTCAGT
44708346 GGAAGCAACAAAAGAGACGGGGTTTCAGAAGCTGGAGTACAAGGTACTGAAATGAATGATGTTAC
130 GGAAGCAACAAAAGAGACGGGGTTTCAGAAGCTGGAGTACAAGGTACTGAAATGAATGATGTTAC
* *
44708411 TATTACTGTTGATCAAGACCACGGAAGTTTGCTGGCTGGGGAGATATTGAAGCGTAATTATAGTT
195 TATTACTGTTGATCAAGACCACGAAAGTTTGCTGGCTAGGGAGATATTGAAGCGTAATTATAGTT
*
44708476 CCTGGCTATCCGGCCTTTTTAACAAAGACAACAACAGTGTGGAAGTTGCACACTTCCATGGCTTA
260 CCTGGCTATCCGGACTTTTTAACAAAGACAACAACAGTGTGGAAGTTGCACACTTCCATGGCTTA
*
44708541 CAAGAAGCATTGGACAAAACTCGCTATGGGGAAACACCAGACTACCTCAAACGTATCGCGACCCA
325 CAAGAAGCATTGGACAAAACTCGCTATGGGGAAACACCAGACTACCTCAAACGTATCGCAACCCA
**
44708606 AATCGAAGTGGATCGTGGAAAAGCTACTAAGTTTGGCCATAAAAATATTGAAGTTTTGGTTTGTG
390 AATCGAAGTGGATCGTGGAAAAGCTACTAAGTTTGGCCATAAAAATATTGAAGTGCTGGTTTGTG
44708671 CCGCAATCAAAGAGATGGAAGACTGGCGTACACCTAAGGATTCCGGCTATAACCAGTTGAAAAAG
455 CCGCAATCAAAGAGATGGAAGACTGGCGTACACCTAAGGATTCCGGCTATAACCAGTTGAAAAAG
* *
44708736 TGGGCCGCGACGCTCAATATGGGTAAGGAACAAGATTTTGAAGTGAAACTTGCTGATGACATGTT
520 TGGGCCGCGACGCTCAATATGGGTAAGGAACAAGACTTTGAAGTGAAACTTGCTGATGACACGTT
* *
44708801 GAATAATATTTGTCTTGCCTGTTATGCTTACTTAATGATTTATGGAGAGGATGGTTCAGTTCA
585 GAATAATATTTGTCTTGCCTGTTATGCTTACTTAATGATCTATGGAGAGGATGGTTCAATTCA
44708864 TAAGGTTGCG
Statistics
Matches: 617, Mismatches: 30, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
650 26 0.04
651 591 0.96
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (650 bp):
CATACCATTGGGGAACACTATTACCAGGGAATGCTTCAAAAGGGTGGGAGTGAGGCGTCTGAAGC
ACAATACAACACAAACACACCACCATTGTCGCACAGTGATAATCAGATGAACTTAATGCTCAGTG
GAAGCAACAAAAGAGACGGGGTTTCAGAAGCTGGAGTACAAGGTACTGAAATGAATGATGTTACT
ATTACTGTTGATCAAGACCACGAAAGTTTGCTGGCTAGGGAGATATTGAAGCGTAATTATAGTTC
CTGGCTATCCGGACTTTTTAACAAAGACAACAACAGTGTGGAAGTTGCACACTTCCATGGCTTAC
AAGAAGCATTGGACAAAACTCGCTATGGGGAAACACCAGACTACCTCAAACGTATCGCAACCCAA
ATCGAAGTGGATCGTGGAAAAGCTACTAAGTTTGGCCATAAAAATATTGAAGTGCTGGTTTGTGC
CGCAATCAAAGAGATGGAAGACTGGCGTACACCTAAGGATTCCGGCTATAACCAGTTGAAAAAGT
GGGCCGCGACGCTCAATATGGGTAAGGAACAAGACTTTGAAGTGAAACTTGCTGATGACACGTTG
AATAATATTTGTCTTGCCTGTTATGCTTACTTAATGATCTATGGAGAGGATGGTTCAATTCAGTT
Found at i:44710901 original size:79 final size:79
Alignment explanation
Indices: 44710769--44711132 Score: 674
Period size: 79 Copynumber: 4.6 Consensus size: 79
44710759 TAATTGTCCA
44710769 ATTTAACTTTGGTTTTTCAGGAGTTGCACAAAGCAAACAACCTTGAGGTAAGCACAGTAACAATA
1 ATTTAAC-TTGGTTTTTCAGGAGTTGCACAAAGCAAACAACCTTGAGGTAAGCACAGTAACAATA
44710834 TAATTACTAAGTTCG
65 TAATTACTAAGTTCG
44710849 ATTTAACTTGGTTTTTCAGGAGTTGCACAAAGCAAACAACCTTGAGGTAAGCACAGTAACAATAT
1 ATTTAACTTGGTTTTTCAGGAGTTGCACAAAGCAAACAACCTTGAGGTAAGCACAGTAACAATAT
44710914 AATTACTAAGTTCG
66 AATTACTAAGTTCG
44710928 ATTTAACTTGGTTTTTCAGGAGTTGCACAAAGCAAACAACCTTGAGGTAAGCACAGTAACAATAT
1 ATTTAACTTGGTTTTTCAGGAGTTGCACAAAGCAAACAACCTTGAGGTAAGCACAGTAACAATAT
44710993 AATTACTAAGTTCG
66 AATTACTAAGTTCG
44711007 ATTTAACTTGGTTTTTCAGGAGTTGCACAAAGCAAACAACCTTGAGGTAAGCACAGTAACAATAT
1 ATTTAACTTGGTTTTTCAGGAGTTGCACAAAGCAAACAACCTTGAGGTAAGCACAGTAACAATAT
44711072 AATTACTAAGTTCG
66 AATTACTAAGTTCG
* * * * *
44711086 ATTTAACTTGGTTTTTCAGGAGTCGAACAAAGTAAAGAAACTTGAGG
1 ATTTAACTTGGTTTTTCAGGAGTTGCACAAAGCAAACAACCTTGAGG
44711133 CAATGTTCCT
Statistics
Matches: 279, Mismatches: 5, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
79 272 0.97
80 7 0.03
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (79 bp):
ATTTAACTTGGTTTTTCAGGAGTTGCACAAAGCAAACAACCTTGAGGTAAGCACAGTAACAATAT
AATTACTAAGTTCG
Found at i:44711773 original size:22 final size:22
Alignment explanation
Indices: 44711745--44711813 Score: 129
Period size: 22 Copynumber: 3.1 Consensus size: 22
44711735 ATGTGACACT
*
44711745 TCCCTGGTGTTCTTTCTCTTGA
1 TCCCTGGTGTTCTTTCTCTCGA
44711767 TCCCTGGTGTTCTTTCTCTCGA
1 TCCCTGGTGTTCTTTCTCTCGA
44711789 TCCCTGGTGTTCTTTCTCTCGA
1 TCCCTGGTGTTCTTTCTCTCGA
44711811 TCC
1 TCC
44711814 AACTTTTTAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.04, C:0.32, G:0.17, T:0.46
Consensus pattern (22 bp):
TCCCTGGTGTTCTTTCTCTCGA
Found at i:44717889 original size:22 final size:21
Alignment explanation
Indices: 44717863--44717907 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
44717853 GCCTCAAGCG
44717863 CCGTACGACC-CCCTGCACGCCT
1 CCGTACG-CCACCCT-CACGCCT
*
44717885 CCGTATGCCACCCTCACGCCT
1 CCGTACGCCACCCTCACGCCT
44717906 CC
1 CC
44717908 ACGTCGCCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.13, C:0.56, G:0.16, T:0.16
Consensus pattern (21 bp):
CCGTACGCCACCCTCACGCCT
Found at i:44720969 original size:132 final size:130
Alignment explanation
Indices: 44720623--44720961 Score: 351
Period size: 131 Copynumber: 2.6 Consensus size: 130
44720613 GTAATTCGCA
* * * * *
44720623 GAATCATGCCCTAACGTGCTGGGTTGCAATTTCCCGTTTGCAT-AAAATAATCAAATACCCCTTC
1 GAATCATACCCTAACGTGCTGGGTTGCAATTTCCCGTTTG-TTCAAAATAATCGAATATCTCTTC
* * ** *
44720687 AAAATTTCACTCATGTCTTCTAAAAATCCTTTAAAACGAAGGCAATACTCGGTGTTTGATAATTC
65 -AAATTTCACTCATGTTTTCTAAAAACCCTTTAAAACGAAGGCAATACTCAATGTTTGACAATTC
44720752 AG
129 AG
* ** * ** * * * *
44720754 GAATCATGCCCTAACACGTTGGGTTGTGATTTCTCGTTTTTTCAAAACAATCGAAGAT-TCCTTC
1 GAATCATACCCTAACGTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATCT-CTTC
* * * *
44720818 AAACTTTCACTCACGTTTTCTAAAAACCCTTTAAAACGAAGGCGATATTCAATGTTTGGCAATTC
65 AAA-TTTCACTCATGTTTTCTAAAAACCCTTTAAAACGAAGGCAATACTCAATGTTTGACAATTC
*
44720883 GGG
129 -AG
* *
44720886 GAAT-AGTACCCTATCGTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATTGAATATCTCTTC
1 GAATCA-TACCCTAACGTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATCTCTTC
44720950 AGAATTTCACTC
65 A-AATTTCACTC
44720962 GTATTTTCGA
Statistics
Matches: 166, Mismatches: 35, Indels: 13
0.78 0.16 0.06
Matches are distributed among these distances:
130 4 0.02
131 101 0.61
132 58 0.35
133 3 0.02
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (130 bp):
GAATCATACCCTAACGTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATCTCTTCA
AATTTCACTCATGTTTTCTAAAAACCCTTTAAAACGAAGGCAATACTCAATGTTTGACAATTCAG
Found at i:44734162 original size:39 final size:40
Alignment explanation
Indices: 44734062--44734285 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
44734052 TCGAATGATG
* * *
44734062 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
44734101 ATCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
*
44734142 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
44734181 TCCGGGCTAAG-CCCGAAGGAATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
44734220 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
44734259 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
44734286 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
39 74 0.46
40 77 0.48
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:44734254 original size:79 final size:80
Alignment explanation
Indices: 44734062--44734279 Score: 264
Period size: 79 Copynumber: 2.8 Consensus size: 80
44734052 TCGAATGATG
* * * * * * *
44734062 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCTGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAGACCCGAAGGAATT
* *
44734126 TGTGCGAGTTACTAAT
65 GGTGCGAGTTACTAAA
*
44734142 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGAATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGACCCGAAGGAATT
44734204 GGTGCGAGTTACTAAA
65 GGTGCGAGTTACTAAA
* * * *
44734220 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGG
44734280 CATTTGAACG
Statistics
Matches: 119, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
78 35 0.29
79 58 0.49
80 26 0.22
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGAATTG
GTGCGAGTTACTAAA
Found at i:44734316 original size:79 final size:79
Alignment explanation
Indices: 44734130--44734318 Score: 206
Period size: 79 Copynumber: 2.4 Consensus size: 79
44734120 GGCATTTGTG
* * * *
44734130 CGAGTTACTAATTCCGGGCT-AAGCCCGAAGGCATTGGTGCGAGTTACTAATTCCGGGCTAAGCC
1 CGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTGGTGCGAGTTACTAATACCGGGCTAAGCC
**
44734194 CGAAGGAATTGGTG
66 CGAAGGAATTGGAA
* * *
44734208 CGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGT
1 CGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTGGTGCGAGTTACTAAT-ACCGGGCTAAG-
* *
44734272 CCCGAAGGCATTTGAA
64 CCCGAAGGAATTGGAA
* *
44734288 CGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CGAGTTA-CTAAATCCGGGTTAAATCCCGAAGG
44734319 TACGTGATTC
Statistics
Matches: 93, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
78 20 0.22
79 50 0.54
80 23 0.25
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTGGTGCGAGTTACTAATACCGGGCTAAGCC
CGAAGGAATTGGAA
Found at i:44740354 original size:46 final size:46
Alignment explanation
Indices: 44740161--44740360 Score: 170
Period size: 46 Copynumber: 4.3 Consensus size: 46
44740151 CATATCTTGG
* * * * * * * *
44740161 ACATGGTCTTATACTAGCTCACATGTCGAGGTCGATGCCATGTCCCA
1 ACATGGTCTTACACTTGCTCTCATCTCCATGCCGATACCATGT-CCA
* * * *
44740208 GACATGGTCTTGCAATAGCTCTCATCTCCATGCCGATGCCATGTCCA
1 -ACATGGTCTTACACTTGCTCTCATCTCCATGCCGATACCATGTCCA
* * * * *
44740255 GCATGGTCTTGCATTTGCTTTCAATCT--ATGCTGATACCATGTCCA
1 ACATGGTCTTACACTTGCTCTC-ATCTCCATGCCGATACCATGTCCA
* * * *
44740300 ACATGGTCTTATACTTGCTCTCATCTCCATGCCAATTCCATATCCA
1 ACATGGTCTTACACTTGCTCTCATCTCCATGCCGATACCATGTCCA
44740346 ACATGGTCTTACACT
1 ACATGGTCTTACACT
44740361 AATACACATA
Statistics
Matches: 125, Mismatches: 24, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
44 4 0.03
45 33 0.26
46 46 0.37
47 7 0.06
48 35 0.28
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.32
Consensus pattern (46 bp):
ACATGGTCTTACACTTGCTCTCATCTCCATGCCGATACCATGTCCA
Found at i:44745671 original size:15 final size:15
Alignment explanation
Indices: 44745653--44745682 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
44745643 TTTGTTGAGG
44745653 GATAAAAACAATATA
1 GATAAAAACAATATA
44745668 GATAAAAACAATATA
1 GATAAAAACAATATA
44745683 AATATTCCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.07, G:0.07, T:0.20
Consensus pattern (15 bp):
GATAAAAACAATATA
Found at i:44746339 original size:14 final size:15
Alignment explanation
Indices: 44746320--44746353 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
44746310 TCTTTGACCC
44746320 AAAAAGAA-ACAAAG
1 AAAAAGAAGACAAAG
*
44746334 AAAAAGAAGACAAAT
1 AAAAAGAAGACAAAG
44746349 AAAAA
1 AAAAA
44746354 ATAAAGATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.79, C:0.06, G:0.12, T:0.03
Consensus pattern (15 bp):
AAAAAGAAGACAAAG
Found at i:44746718 original size:23 final size:23
Alignment explanation
Indices: 44746685--44746729 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
44746675 TCTTATTTCG
44746685 TTCCTTAATTTTCCTAACAATAC
1 TTCCTTAATTTTCCTAACAATAC
* *
44746708 TTCCTTGATTTTCCTAATAATA
1 TTCCTTAATTTTCCTAACAATA
44746730 GTCATAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.29, C:0.22, G:0.02, T:0.47
Consensus pattern (23 bp):
TTCCTTAATTTTCCTAACAATAC
Found at i:44750615 original size:33 final size:28
Alignment explanation
Indices: 44750577--44750652 Score: 73
Period size: 32 Copynumber: 2.5 Consensus size: 28
44750567 ATAAACAAAG
44750577 TATATAATAAAATAGGGTTTAAAAGAAATAAAA
1 TATATAATAAAATA---TTTAAAAGAAAT--AA
*
44750610 TATATATATAAATATATTTAAAAGAAATTA
1 TATATA-ATAAA-ATATTTAAAAGAAATAA
44750640 TATATAA-AAAATA
1 TATATAATAAAATA
44750653 ATATGGAACT
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
27 3 0.08
28 3 0.08
29 1 0.03
30 7 0.17
32 12 0.30
33 6 0.15
34 5 0.12
35 3 0.08
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.33
Consensus pattern (28 bp):
TATATAATAAAATATTTAAAAGAAATAA
Found at i:44753015 original size:44 final size:44
Alignment explanation
Indices: 44752784--44753024 Score: 135
Period size: 44 Copynumber: 5.5 Consensus size: 44
44752774 AGTCTGCTTC
* *
44752784 CTTGCTACCTCTGGAAGATAAGACTACAATCTTCAACCTGCTCT
1 CTTGCTACCTCAGGAAGATAAGACTACGATCTTCAACCTGCTCT
* * * ** *
44752828 CTTGCTGCCTTA-GAGAGATAAGGA-T--GGTGGCTAAAACCTGCTCC
1 CTTGCTACCTCAGGA-AGATAA-GACTACGAT--CTTCAACCTGCTCT
* * * * *
44752872 CTTACTACCTCGGGAAGATAAGA-TTCGCCATCTTCGAGCTGCTC-
1 CTTGCTACCTCAGGAAGATAAGACTACG--ATCTTCAACCTGCTCT
* * * * **
44752916 C--GCTACTACTTAGGGAGATAAGATCTACAACCTT-AGTCTGCT-T
1 CTTGCTAC--CTCAGGAAGATAAGA-CTACGATCTTCAACCTGCTCT
44752959 CTTTGCTACCTCAGGAAGATAAGACTACGATCTTCAACCTGCTCT
1 C-TTGCTACCTCAGGAAGATAAGACTACGATCTTCAACCTGCTCT
44753004 CTTGCTACCTCA-GAGAGATAA
1 CTTGCTACCTCAGGA-AGATAA
44753025 AGCTGGTGGC
Statistics
Matches: 144, Mismatches: 33, Indels: 40
0.66 0.15 0.18
Matches are distributed among these distances:
42 5 0.03
43 21 0.15
44 94 0.65
45 16 0.11
46 7 0.05
47 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.28
Consensus pattern (44 bp):
CTTGCTACCTCAGGAAGATAAGACTACGATCTTCAACCTGCTCT
Found at i:44753044 original size:88 final size:86
Alignment explanation
Indices: 44752962--44753992 Score: 988
Period size: 88 Copynumber: 11.7 Consensus size: 86
44752952 TCTGCTTCTT
* * * * *
44752962 TGCTACCTCAGGAAGATAAGACTACGATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAAG
1 TGCTACCTCA-GAAGATAAGACT-CGATCTTAAATCTGCTCCCCTGCTACCTCAGAGAGATAAGG
44753027 CTGGTGGCTAAAATCTGCTCCCC
64 CTGGTGGCTAAAATCTGCTCCCC
* * * ** * * * *
44753050 TGTTAACTCGAGAAGATAAGATTCGCCATCTTTGATCTGCTCCACTACTA-CTTAGGGAGATAAG
1 TGCTACCTC-AGAAGATAAGACTCG--ATCTTAAATCTGCTCCCCTGCTACCTCAGAGAGATAAG
* **** ** * * * *
44753114 ATCT-ACAACTTTAGTCTACTTCCT
63 -GCTGGTGGCTAAAATCTGCTCCCC
* * * * *
44753138 TACTACCTCAGGAAGATAAGACTACGATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGG
1 TGCTACCTCA-GAAGATAAGACT-CGATCTTAAATCTGCTCCCCTGCTACCTCAGAGAGATAAGG
44753203 CTGGTGGCTAAAATCTGCTCCCC
64 CTGGTGGCTAAAATCTGCTCCCC
* * * * *
44753226 TGCTACCTCAAAGAGATAAGGCT-GGTGGCTAAAATCTGCTCCCCTGCTACCTCAAAGAGATAAG
1 TGCTACCTCAGA-AGATAAGACTCGAT--CTTAAATCTGCTCCCCTGCTACCTCAGAGAGATAAG
44753290 GCTGGTGGCTAAAATCTGCTCCCC
63 GCTGGTGGCTAAAATCTGCTCCCC
* * * * *
44753314 TGCTACCTCAAAGAGATAAGGCT-GGTGGCTAAAATCTGCTCCCCTGCTACCTCAAAGAGATAAG
1 TGCTACCTCAGA-AGATAAGACTCGAT--CTTAAATCTGCTCCCCTGCTACCTCAGAGAGATAAG
44753378 GCTGGTGGCTAAAATCTGCTCCCC
63 GCTGGTGGCTAAAATCTGCTCCCC
* * * * *
44753402 TGCTACCTCAAAGAGATAAGGCT-GGTGGCTAAAATCTGCTCCCCTGCTACCTCAAAGAGATAAG
1 TGCTACCTCAGA-AGATAAGACTCGAT--CTTAAATCTGCTCCCCTGCTACCTCAGAGAGATAAG
44753466 GCTGGTGGCTAAAATCTGCTCCCC
63 GCTGGTGGCTAAAATCTGCTCCCC
* * * * *
44753490 TGCTACCTCAAAGAGATAAGGCT-GGTGGCTAAAATCTGCTCCCCTGCTACCTCAAAGAGATAAG
1 TGCTACCTCAGA-AGATAAGACTCGAT--CTTAAATCTGCTCCCCTGCTACCTCAGAGAGATAAG
44753554 GCTGGTGGCTAAAATCTGCTCCCC
63 GCTGGTGGCTAAAATCTGCTCCCC
* * * * *
44753578 TGCTACCTCAAAGAGATAAGGCT-GGTGGCTAAAATCTGCTCCCCTGCTACCTCAAAGAGATAAG
1 TGCTACCTCAGA-AGATAAGACTCGAT--CTTAAATCTGCTCCCCTGCTACCTCAGAGAGATAAG
44753642 GCTGGTGGCTAAAATCTGCTCCCC
63 GCTGGTGGCTAAAATCTGCTCCCC
* * * * *
44753666 TGCTACCTCAAAGAGATAAGGCT-GGTGGCTAAAATCTGCTCCCCTGCTACCTCAAAGAGATAAG
1 TGCTACCTCAGA-AGATAAGACTCGAT--CTTAAATCTGCTCCCCTGCTACCTCAGAGAGATAAG
44753730 GCTGGTGGCTAAAATCTGCTCCCC
63 GCTGGTGGCTAAAATCTGCTCCCC
* * * * *
44753754 TGCTACCTCAAAGAGATAAGGCT-GGTGGCTAAAATCTGCTCCCCTGCTACCTCAAAGAGATAAG
1 TGCTACCTCAGA-AGATAAGACTCGAT--CTTAAATCTGCTCCCCTGCTACCTCAGAGAGATAAG
44753818 GCTGGTGGCTAAAATCTGCTCCCC
63 GCTGGTGGCTAAAATCTGCTCCCC
* * * * *
44753842 TGCTACCTCAAAGAGATAAGGCT-GGTGGCTAAAATCTGCTCCCCTGCTACCTCAAAGAGATAAG
1 TGCTACCTCAGA-AGATAAGACTCGAT--CTTAAATCTGCTCCCCTGCTACCTCAGAGAGATAAG
44753906 GCTGGTGGCTAAAATCTGCTCCCC
63 GCTGGTGGCTAAAATCTGCTCCCC
* * * *
44753930 TGCTACCTCAAAGAGATAAGGCT-GGTGGCTAAAATCTGCTCCCCTGCTACCTCAG-GAAGATAA
1 TGCTACCTCAGA-AGATAAGACTCGAT--CTTAAATCTGCTCCCCTGCTACCTCAGAG-AGATAA
44753993 AATTCACCAT
Statistics
Matches: 872, Mismatches: 59, Indels: 24
0.91 0.06 0.03
Matches are distributed among these distances:
86 2 0.00
87 23 0.03
88 826 0.95
89 21 0.02
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.24
Consensus pattern (86 bp):
TGCTACCTCAGAAGATAAGACTCGATCTTAAATCTGCTCCCCTGCTACCTCAGAGAGATAAGGCT
GGTGGCTAAAATCTGCTCCCC
Found at i:44753245 original size:176 final size:175
Alignment explanation
Indices: 44752321--44753234 Score: 1139
Period size: 176 Copynumber: 5.2 Consensus size: 175
44752311 CAACTTTAGG
** ** * * * *
44752321 GAGATAAGGCTGGTGGCTTCAATCTGCTCCTGTTACTACATTGGAAAGATAAGATTCGCCATCTT
1 GAGATAAGGCTGGTGGCTAAAATCTGCTCC-CCTGCTACCTCGGGAAGATAAGATTCGCCATCTT
* * * *
44752386 CAATCTGTTCCACTAC-AGCTTAGGGAGAT---A---A-AA-TCTAGTCTGCCTCCTTGCTACCT
65 CGATCTGCTCCACTACTA-CTTAGGGAGATAAGATCTACAACTTTAGTCTGCTTCCTTGCTACCT
* * *
44752442 CAAGAAGATAAGACTATCATATTTAACCTGCTCTCTTGCTACCTCAGA
129 CAGGAAGATAAGACTA-CATCTTCAACCTGCTCTCTTGCTACCTCAGA
* * *
44752490 GAGATAAGGCTGGTGGCTAAAATCTTCTCCCCTGCTACCTCAGGAAGATAAGATTCGCCATTTTC
1 GAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATTCGCCATCTTC
* * * * * *
44752555 GATCTGCCCCACTACTATCTCAGGGAGATGAGATCTTCAATCTTCAGTTTGCTTCCTTGCTACCT
66 GATCTGCTCCACTACTA-CTTAGGGAGATAAGATCTACAA-CTTTAGTCTGCTTCCTTGCTACCT
* * * * *
44752620 TAGGAAGATAAGACTTCA-ATTCAGCCTGCTCCCTTGCTACCTCAGA
129 CAGGAAGATAAGACTACATCTTCAACCTGCTCTCTTGCTACCTCAGA
* * *
44752666 GAGATAAGGCTGGTGGCTAAAATCTGCTCCCGTGTTACCTCGGGAAGATAATATAT-GCCATCTT
1 GAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGAT-TCGCCATCTT
* * * ** * * * *
44752730 CAATCTGCTCTACTATTGTTTAGGGAGATAAGATCTTCATCATCAGTCTGCTTCCTTGCTACCTC
65 CGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAACTTTAGTCTGCTTCCTTGCTACCTC
* * *
44752795 TGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTGCTGCCTTAGA
130 AGGAAGATAAGACTAC-ATCTTCAACCTGCTCTCTTGCTACCTCAGA
* * * *
44752842 GAGATAAGGATGGTGGCTAAAACCTGCTCCCTTACTACCTCGGGAAGATAAGATTCGCCATCTTC
1 GAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATTCGCCATCTTC
* * * *
44752907 GAGCTGCTCCGCTACTACTTAGGGAGATAAGATCTACAACCTTAGTCTGCTTCTTTGCTACCTCA
66 GATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAACTTTAGTCTGCTTCCTTGCTACCTCA
44752972 GGAAGATAAGACTACGATCTTCAACCTGCTCTCTTGCTACCTCAGA
131 GGAAGATAAGACTAC-ATCTTCAACCTGCTCTCTTGCTACCTCAGA
* * * * *
44753018 GAGATAAAGCTGGTGGCTAAAATCTGCTCCCCTGTTAACTCGAGAAGATAAGATTCGCCATCTTT
1 GAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATTCGCCATCTTC
* *
44753083 GATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAACTTTAGTCTACTTCCTTACTACCTCA
66 GATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAACTTTAGTCTGCTTCCTTGCTACCTCA
44753148 GGAAGATAAGACTACGATCTTCAACCTGCTCTCTTGCTACCTCAGA
131 GGAAGATAAGACTAC-ATCTTCAACCTGCTCTCTTGCTACCTCAGA
44753194 GAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTC
1 GAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTC
44753235 AAAGAGATAA
Statistics
Matches: 639, Mismatches: 92, Indels: 21
0.85 0.12 0.03
Matches are distributed among these distances:
168 39 0.06
169 38 0.06
172 1 0.00
174 36 0.06
175 20 0.03
176 470 0.74
177 3 0.00
178 32 0.05
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (175 bp):
GAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATTCGCCATCTTC
GATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAACTTTAGTCTGCTTCCTTGCTACCTCA
GGAAGATAAGACTACATCTTCAACCTGCTCTCTTGCTACCTCAGA
Found at i:44753288 original size:176 final size:174
Alignment explanation
Indices: 44752950--44753983 Score: 1146
Period size: 176 Copynumber: 5.9 Consensus size: 174
44752940 CTACAACCTT
* * *
44752950 AGTCTGCTTCTTTGCTACCTCAGGAAGATAAGACTACGATCTTCAACCTGCTCTCTTGCTACCTC
1 AGTCTGCTTCCTTGCTACCTCA-GAAGATAAGACT-CGATCTTAAACCTGCTCCCTTGCTACCTC
* * * * ** ****
44753015 AGAGAGATAAAGCTGGTGGCTAAAATCTGCTCCCCTGTTAACTC-GAGAAGATAAGATTCGCCAT
64 AGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCAAAG-AGATAAGGCT-GGTGG
*** * * * ** * * * **
44753079 CTTTGATCTGCTCCACTACTA-CTTAGGGAGATAAGATCT-ACAACTTT
127 CTAAAATCTGCTCCCCTGCTACCTCAAAGAGATAAG-GCTGGCAGCTAA
* * * *
44753126 AGTCTACTTCCTTACTACCTCAGGAAGATAAGACTACGATCTTCAACCTGCTCTCTTGCTACCTC
1 AGTCTGCTTCCTTGCTACCTCA-GAAGATAAGACT-CGATCTTAAACCTGCTCCCTTGCTACCTC
44753191 AGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGCT
64 AGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGCT
**
44753256 AAAATCTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGCTAA
129 AAAATCTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGCAGCTAA
* * * * * * * * *
44753302 AATCTGCTCCCCTGCTACCTCAAAGAGATAAGGCT-GGTGGCTAAAATCTGCTCCCCTGCTACCT
1 AGTCTGCTTCCTTGCTACCTCAGA-AGATAAGACTCGAT--CTTAAACCTGCTCCCTTGCTACCT
*
44753366 CAAAGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGC
63 CAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGC
**
44753431 TAAAATCTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGCTAA
128 TAAAATCTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGCAGCTAA
* * * * * * * * *
44753478 AATCTGCTCCCCTGCTACCTCAAAGAGATAAGGCT-GGTGGCTAAAATCTGCTCCCCTGCTACCT
1 AGTCTGCTTCCTTGCTACCTCAGA-AGATAAGACTCGAT--CTTAAACCTGCTCCCTTGCTACCT
*
44753542 CAAAGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGC
63 CAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGC
**
44753607 TAAAATCTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGCTAA
128 TAAAATCTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGCAGCTAA
* * * * * * * * *
44753654 AATCTGCTCCCCTGCTACCTCAAAGAGATAAGGCT-GGTGGCTAAAATCTGCTCCCCTGCTACCT
1 AGTCTGCTTCCTTGCTACCTCAGA-AGATAAGACTCGAT--CTTAAACCTGCTCCCTTGCTACCT
*
44753718 CAAAGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGC
63 CAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGC
**
44753783 TAAAATCTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGCTAA
128 TAAAATCTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGCAGCTAA
* * * * * * * * *
44753830 AATCTGCTCCCCTGCTACCTCAAAGAGATAAGGCT-GGTGGCTAAAATCTGCTCCCCTGCTACCT
1 AGTCTGCTTCCTTGCTACCTCAGA-AGATAAGACTCGAT--CTTAAACCTGCTCCCTTGCTACCT
*
44753894 CAAAGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGC
63 CAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGC
44753959 TAAAATCTGCTCCCCTGCTACCTCA
128 TAAAATCTGCTCCCCTGCTACCTCA
44753984 GGAAGATAAA
Statistics
Matches: 810, Mismatches: 42, Indels: 12
0.94 0.05 0.01
Matches are distributed among these distances:
174 2 0.00
175 20 0.02
176 786 0.97
177 2 0.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (174 bp):
AGTCTGCTTCCTTGCTACCTCAGAAGATAAGACTCGATCTTAAACCTGCTCCCTTGCTACCTCAG
AGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGCTAA
AATCTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGCAGCTAA
Found at i:44753992 original size:44 final size:44
Alignment explanation
Indices: 44753173--44753983 Score: 1595
Period size: 44 Copynumber: 18.4 Consensus size: 44
44753163 GATCTTCAAC
* * *
44753173 CTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAAT
1 CTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAAT
44753217 CTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAAT
1 CTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAAT
44753261 CTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAAT
1 CTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAAT
44753305 CTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAAT
1 CTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAAT
44753349 CTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAAT
1 CTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAAT
44753393 CTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAAT
1 CTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAAT
44753437 CTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAAT
1 CTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAAT
44753481 CTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAAT
1 CTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAAT
44753525 CTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAAT
1 CTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAAT
44753569 CTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAAT
1 CTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAAT
44753613 CTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAAT
1 CTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAAT
44753657 CTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAAT
1 CTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAAT
44753701 CTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAAT
1 CTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAAT
44753745 CTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAAT
1 CTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAAT
44753789 CTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAAT
1 CTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAAT
44753833 CTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAAT
1 CTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAAT
44753877 CTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAAT
1 CTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAAT
44753921 CTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAAT
1 CTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAAT
44753965 CTGCTCCCCTGCTACCTCA
1 CTGCTCCCCTGCTACCTCA
44753984 GGAAGATAAA
Statistics
Matches: 764, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 764 1.00
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (44 bp):
CTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAAT
Found at i:44755301 original size:14 final size:12
Alignment explanation
Indices: 44755284--44755362 Score: 54
Period size: 13 Copynumber: 6.2 Consensus size: 12
44755274 TTCTTTCTTC
*
44755284 TTTTTTTTGATT
1 TTTTTTTTTATT
44755296 TATTTTTTTTA-T
1 T-TTTTTTTTATT
*
44755308 TTTTTTATT-TT
1 TTTTTTTTTATT
*
44755319 TATTTTTTTACTT
1 TTTTTTTTTA-TT
44755332 TTTTACTTTTTGATT
1 TTTT--TTTTT-ATT
*
44755347 ATTTTATTTTATT
1 -TTTTTTTTTATT
44755360 TTT
1 TTT
44755363 GTCTTAAGGC
Statistics
Matches: 53, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
11 15 0.28
12 6 0.11
13 16 0.30
14 4 0.08
15 7 0.13
16 5 0.09
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.81
Consensus pattern (12 bp):
TTTTTTTTTATT
Found at i:44755310 original size:23 final size:23
Alignment explanation
Indices: 44755284--44755362 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 23
44755274 TTCTTTCTTC
44755284 TTTTTTTTGATTTATTTTTTTTA
1 TTTTTTTTGATTTATTTTTTTTA
* *
44755307 TTTTTTTAT-TTTTATTTTTTTACTTT
1 TTTTTTT-TGATTTA-TTTTTT--TTA
44755333 TTTACTTTTTGA-TTATTTTATTTTA
1 TTT--TTTTTGATTTATTTT-TTTTA
44755358 TTTTT
1 TTTTT
44755363 GTCTTAAGGC
Statistics
Matches: 44, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
23 13 0.30
24 7 0.16
25 5 0.11
26 9 0.20
27 6 0.14
28 4 0.09
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.81
Consensus pattern (23 bp):
TTTTTTTTGATTTATTTTTTTTA
Found at i:44755312 original size:8 final size:8
Alignment explanation
Indices: 44755294--44755356 Score: 67
Period size: 8 Copynumber: 8.0 Consensus size: 8
44755284 TTTTTTTTGA
44755294 TTTATTTTT
1 TTTA-TTTT
44755303 TTTATTTT
1 TTTATTTT
44755311 TTTA--TT
1 TTTATTTT
44755317 TTTATTTT
1 TTTATTTT
*
44755325 TTTACTTT
1 TTTATTTT
*
44755333 TTTACTTT
1 TTTATTTT
* *
44755341 TTGATTAT
1 TTTATTTT
44755349 TTTATTTT
1 TTTATTTT
44755357 ATTTTTGTCT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
6 6 0.13
8 36 0.78
9 4 0.09
ACGTcount: A:0.14, C:0.03, G:0.02, T:0.81
Consensus pattern (8 bp):
TTTATTTT
Found at i:44755313 original size:22 final size:22
Alignment explanation
Indices: 44755285--44755356 Score: 74
Period size: 22 Copynumber: 3.2 Consensus size: 22
44755275 TCTTTCTTCT
44755285 TTTTTTTGATTTAT-TTTTTTTA
1 TTTTTTT-ATTTATATTTTTTTA
*
44755307 TTTTTTTATTTTTATTTTTTTA
1 TTTTTTTATTTATATTTTTTTA
* * *
44755329 CTTTTTTACTTTTTGATTATTTTA
1 TTTTTTTA-TTTAT-ATTTTTTTA
44755353 TTTT
1 TTTT
44755357 ATTTTTGTCT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
21 5 0.12
22 22 0.51
23 5 0.12
24 11 0.26
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.81
Consensus pattern (22 bp):
TTTTTTTATTTATATTTTTTTA
Found at i:44760374 original size:112 final size:112
Alignment explanation
Indices: 44760192--44760418 Score: 346
Period size: 112 Copynumber: 2.0 Consensus size: 112
44760182 CGGCCATGTG
* * * *
44760192 ACACGGTCGTATGAAGCACACGGCCTGGACACACGAGAGTGCCCTAGGCCGTGTGATAATTGGAG
1 ACACGGTCGTATGAAGCACACGACCTGGACACACAAGAGTGCCCTAGGCCGTGTGAAAACTGGAG
* *
44760257 CTAATTTTTCAAATTTTAAATAAGTCAGGGAGCCACACGGGTAAGGC
66 CTAATTTTTCAAATTTTAAATAAGTCAGGAAGCCACACGGGCAAGGC
* * **
44760304 ACACGGTCGTGTGAAGCACGCGACCTGGACACACAAGAGTTTCCTAGGCCGTGTGAAAACTGGAG
1 ACACGGTCGTATGAAGCACACGACCTGGACACACAAGAGTGCCCTAGGCCGTGTGAAAACTGGAG
* *
44760369 CTAATTTTTCAAATTTTAAATAAGTTAGGAAGCCAGACGGGCAAGGC
66 CTAATTTTTCAAATTTTAAATAAGTCAGGAAGCCACACGGGCAAGGC
44760416 ACA
1 ACA
44760419 TGACCGTGTG
Statistics
Matches: 103, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
112 103 1.00
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (112 bp):
ACACGGTCGTATGAAGCACACGACCTGGACACACAAGAGTGCCCTAGGCCGTGTGAAAACTGGAG
CTAATTTTTCAAATTTTAAATAAGTCAGGAAGCCACACGGGCAAGGC
Found at i:44763709 original size:6 final size:6
Alignment explanation
Indices: 44763698--44763729 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
44763688 AAAAATAAAC
*
44763698 AAAAAT AAAAAT AAAAGT AAAAAT AAAAAT AA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AA
44763730 TATGAGTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:44764583 original size:42 final size:42
Alignment explanation
Indices: 44764520--44764603 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
44764510 CTAGGGAACA
*
44764520 ATTTGAGCCTCGAGTTATATAATAGGACAAGATCTCCAACTT
1 ATTTGAGCCTCGAGTTATATAACAGGACAAGATCTCCAACTT
* *
44764562 ATTTGAGCCTCGAGTTGTATAACAGGACAAGATTTCCAACTT
1 ATTTGAGCCTCGAGTTATATAACAGGACAAGATCTCCAACTT
44764604 CAAATTGCCT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (42 bp):
ATTTGAGCCTCGAGTTATATAACAGGACAAGATCTCCAACTT
Found at i:44775638 original size:46 final size:46
Alignment explanation
Indices: 44775571--44775744 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
44775561 TGTAACCCGC
*
44775571 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCACAT
44775617 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACA-
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCACAT
* * * * *
44775666 --ATTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCACAT
44775710 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
44775745 AATGCTCAAC
Statistics
Matches: 109, Mismatches: 8, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
42 2 0.02
43 2 0.02
44 1 0.01
45 2 0.02
46 63 0.58
47 29 0.27
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCACAT
Found at i:44775686 original size:93 final size:93
Alignment explanation
Indices: 44775579--44775749 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
44775569 GCCCATAAGT
* *
44775579 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
44775644 CGAGTTCGGATGCCTAGTTACAATTCAC
66 CGAGTTCGAATGCCTAGTTACAATTCAC
* *
44775672 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
44775737 CGAGTTCGAATGC
66 CGAGTTCGAATGC
44775750 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGAATGCCTAGTTACAATTCAC
Found at i:44775765 original size:46 final size:46
Alignment explanation
Indices: 44775576--44775765 Score: 142
Period size: 46 Copynumber: 4.1 Consensus size: 46
44775566 CCCGCCCATA
* *** *
44775576 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-A-CATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGAATGCTCAACCATCC-T
* * *
44775621 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTACAATTC-
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGAATGCTC-A---ACCATCCT
* * * * *
44775670 A-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GA-ATGCTCAACCATCCT
44775715 AGTGAACTCGGACTCAACTCAACGAGTTCGAATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGAATGCTCAACCATCCT
44775761 AGTGA
1 AGTGA
44775766 CATGTCACTT
Statistics
Matches: 115, Mismatches: 16, Indels: 26
0.73 0.10 0.17
Matches are distributed among these distances:
44 9 0.08
45 4 0.03
46 65 0.57
47 26 0.23
48 2 0.02
49 4 0.03
50 2 0.02
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGAATGCTCAACCATCCT
Found at i:44783238 original size:46 final size:45
Alignment explanation
Indices: 44783171--44783340 Score: 173
Period size: 46 Copynumber: 3.7 Consensus size: 45
44783161 ACCCGCCCAT
* *
44783171 AAGTGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAA
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCATCCAA
* * * *
44783217 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACAA
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGG--GCTTCGCATCCAA
* * * * *
44783263 TTCA-CGAACTCGGACTCAAATCAACGAGTTCGGACATTCGCATCCAT
1 --AAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCATCCAA
44783310 AAGTGAACTCGGACTCAACTCAACGAGTTCG
1 AAGTGAACTCGGACTCAACTCAACGAGTTCG
44783341 AATGCTCAAC
Statistics
Matches: 99, Mismatches: 18, Indels: 14
0.76 0.14 0.11
Matches are distributed among these distances:
45 2 0.02
46 62 0.63
47 32 0.32
48 3 0.03
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (45 bp):
AAGTGAACTCGGACTCAACTCAACGAGTTCGGGCTTCGCATCCAA
Found at i:44783288 original size:93 final size:93
Alignment explanation
Indices: 44783175--44783345 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
44783165 GCCCATAAGT
* * * *
44783175 GAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAAAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAAATCAACGAGCTCGGACATTCGCATCCAAAAGTGAACTCGGACTCAACTCAA
*
44783240 CGAGTTCGGATGCCTAGTTACAATTCAC
66 CGAGTTCGAATGCCTAGTTACAATTCAC
* *
44783268 GAACTCGGACTCAAATCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAAATCAACGAGCTCGGACATTCGCATCCAAAAGTGAACTCGGACTCAACTCAA
44783333 CGAGTTCGAATGC
66 CGAGTTCGAATGC
44783346 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAAATCAACGAGCTCGGACATTCGCATCCAAAAGTGAACTCGGACTCAACTCAA
CGAGTTCGAATGCCTAGTTACAATTCAC
Found at i:44783361 original size:46 final size:43
Alignment explanation
Indices: 44783218--44783354 Score: 123
Period size: 46 Copynumber: 3.0 Consensus size: 43
44783208 CGCATCCAAA
* *
44783218 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAATTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGAATGCC-A---ACCA-TC
* * * * *
44783266 A-CGAACTCGGACTCAAATCAACGAGTTCGGACATTCGCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GA-ATGC-CAACCATC
44783311 AGTGAACTCGGACTCAACTCAACGAGTTCGAATGCTCAACCATC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGAATGC-CAACCATC
44783355 CTAGTGACAT
Statistics
Matches: 72, Mismatches: 13, Indels: 12
0.74 0.13 0.12
Matches are distributed among these distances:
44 9 0.12
45 4 0.06
46 27 0.38
47 25 0.35
48 2 0.03
49 4 0.06
50 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (43 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGAATGCCAACCATC
Found at i:44784070 original size:30 final size:30
Alignment explanation
Indices: 44784036--44784096 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
44784026 CATTTAATAC
44784036 AAAC-TTTGAAAAAATTACACTTTTGCCCCT
1 AAACTTTTG-AAAAATTACACTTTTGCCCCT
* *
44784066 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACACTTTTGCCCCT
44784096 A
1 A
44784097 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 24 0.86
31 4 0.14
ACGTcount: A:0.33, C:0.25, G:0.07, T:0.36
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACACTTTTGCCCCT
Found at i:44792322 original size:55 final size:55
Alignment explanation
Indices: 44792225--44792358 Score: 151
Period size: 55 Copynumber: 2.4 Consensus size: 55
44792215 ATAGTCTCAC
* * *** *
44792225 GCCCGTGTTAATCTAACAGGTTCGACCACGGTTGCTTGGCACGGGCGTGTCGCAA
1 GCCCGTGTTAATTTGACAGGTTCGACCACGGTTGCAAAGCACGAGCGTGTCGCAA
* * * *
44792280 GCCCGTGTTAATTTGACAGGTTTGGCCACGGTTTCAAAGCACGAGCGTGTCGCAC
1 GCCCGTGTTAATTTGACAGGTTCGACCACGGTTGCAAAGCACGAGCGTGTCGCAA
* **
44792335 GCCAGTGTTGTTTTGACAGGTTCG
1 GCCCGTGTTAATTTGACAGGTTCG
44792359 CCCAGGCCAT
Statistics
Matches: 65, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
55 65 1.00
ACGTcount: A:0.18, C:0.25, G:0.31, T:0.27
Consensus pattern (55 bp):
GCCCGTGTTAATTTGACAGGTTCGACCACGGTTGCAAAGCACGAGCGTGTCGCAA
Found at i:44794118 original size:46 final size:46
Alignment explanation
Indices: 44794051--44794408 Score: 707
Period size: 46 Copynumber: 7.8 Consensus size: 46
44794041 TGTAACCCGC
44794051 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTAT
44794097 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTAT
44794143 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTAT
44794189 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTAT
44794235 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTAT
44794281 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTAT
44794327 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTAT
*
44794373 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
44794409 ATGTTCAACC
Statistics
Matches: 311, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 311 1.00
ACGTcount: A:0.27, C:0.28, G:0.24, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTAT
Found at i:44794865 original size:30 final size:30
Alignment explanation
Indices: 44794831--44794890 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
44794821 CCTTAATACG
44794831 AACTTTTGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTTGCAAAATTACAC-TTTTGCCCCTA
*
44794861 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTTGCAAAATTACACTTTTGCCCCTA
44794891 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTTGCAAAATTACACTTTTGCCCCTA
Found at i:44798907 original size:30 final size:30
Alignment explanation
Indices: 44798871--44798930 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
44798861 TTCCCGAGCC
44798871 TAGGGGCAAAAGTG-TAATTATTCAAAAGTT
1 TAGGGGCAAAA-TGATAATTATTCAAAAGTT
* *
44798901 TAGGGGCAAAATGATAATTTTTCCAAAGTT
1 TAGGGGCAAAATGATAATTATTCAAAAGTT
44798931 CGTATTAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 2 0.07
30 25 0.93
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (30 bp):
TAGGGGCAAAATGATAATTATTCAAAAGTT
Found at i:44799367 original size:47 final size:47
Alignment explanation
Indices: 44799298--44799683 Score: 772
Period size: 47 Copynumber: 8.2 Consensus size: 47
44799288 AATCCCGTTT
44799298 GTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGA
1 GTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGA
44799345 GTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGA
1 GTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGA
44799392 GTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGA
1 GTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGA
44799439 GTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGA
1 GTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGA
44799486 GTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGA
1 GTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGA
44799533 GTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGA
1 GTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGA
44799580 GTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGA
1 GTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGA
44799627 GTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGA
1 GTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGA
44799674 GTCCGAGTTC
1 GTCCGAGTTC
44799684 ACTTATGGAT
Statistics
Matches: 339, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 339 1.00
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (47 bp):
GTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGA
Found at i:44803871 original size:23 final size:22
Alignment explanation
Indices: 44803845--44803890 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
44803835 TGTGATGACG
44803845 TTATCTT-ATAAATATGTATGAAT
1 TTATCTTGA-AAATATGT-TGAAT
44803868 TTATCTTGAAAATATGTTGAAT
1 TTATCTTGAAAATATGTTGAAT
44803890 T
1 T
44803891 GATTTGGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.27
23 15 0.68
24 1 0.05
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.48
Consensus pattern (22 bp):
TTATCTTGAAAATATGTTGAAT
Found at i:44836590 original size:19 final size:19
Alignment explanation
Indices: 44836566--44836602 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
44836556 TATGACGGCT
44836566 CCCTCCTATCTTCTTATCA
1 CCCTCCTATCTTCTTATCA
44836585 CCCTCCTATCTTCTTATC
1 CCCTCCTATCTTCTTATC
44836603 GTTGTTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.14, C:0.43, G:0.00, T:0.43
Consensus pattern (19 bp):
CCCTCCTATCTTCTTATCA
Found at i:44837756 original size:25 final size:25
Alignment explanation
Indices: 44837722--44837773 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
44837712 AGTTGATTCG
44837722 AAGAAATGATCTAAAAACTTAAATT
1 AAGAAATGATCTAAAAACTTAAATT
44837747 AAGAAATGATCTAAAAACTTAAATT
1 AAGAAATGATCTAAAAACTTAAATT
44837772 AA
1 AA
44837774 TTTAACTAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.58, C:0.08, G:0.08, T:0.27
Consensus pattern (25 bp):
AAGAAATGATCTAAAAACTTAAATT
Found at i:44848342 original size:6 final size:6
Alignment explanation
Indices: 44848331--44848403 Score: 62
Period size: 6 Copynumber: 12.3 Consensus size: 6
44848321 GAAGTCTCTC
* * * *
44848331 AAATAA AAATAA AAAT-- -AATAA AAATAA AAATAA AAGTAC AACTGA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
*
44848376 AAATAA AAATAA ATAAAAA CAAATAA AA
1 AAATAA AAATAA A-AATAA -AAATAA AA
44848404 TGAAAATAGA
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
3 3 0.06
6 41 0.77
7 8 0.15
8 1 0.02
ACGTcount: A:0.77, C:0.04, G:0.03, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:44848352 original size:15 final size:15
Alignment explanation
Indices: 44848332--44848363 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
44848322 AAGTCTCTCA
44848332 AATAAAAATAAAAAT
1 AATAAAAATAAAAAT
44848347 AATAAAAATAAAAAT
1 AATAAAAATAAAAAT
44848362 AA
1 AA
44848364 AAGTACAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (15 bp):
AATAAAAATAAAAAT
Found at i:44850575 original size:11 final size:11
Alignment explanation
Indices: 44850561--44850590 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
44850551 AACATTATAC
*
44850561 AATAATTAAAT
1 AATAATAAAAT
44850572 AATAATAAAAT
1 AATAATAAAAT
44850583 AATAATAA
1 AATAATAA
44850591 TAACAAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:44853398 original size:19 final size:19
Alignment explanation
Indices: 44853374--44853451 Score: 115
Period size: 19 Copynumber: 4.1 Consensus size: 19
44853364 ATCTTTAAGA
44853374 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
44853393 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
*
44853412 ATA--CACTCTTAGATATG
1 ATATGCAATCTTAGATATG
44853429 ATATGCAATCTTAAAGATATG
1 ATATGCAATCTT--AGATATG
44853450 AT
1 AT
44853452 CTTGTAATCT
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
17 16 0.30
19 28 0.53
21 9 0.17
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:44853403 original size:36 final size:36
Alignment explanation
Indices: 44853363--44853449 Score: 108
Period size: 36 Copynumber: 2.4 Consensus size: 36
44853353 ATGGAAATAT
44853363 AATCTTTAAGAATATGCAATCTTAGATATGATATGC
1 AATCTTTAAGAATATGCAATCTTAGATATGATATGC
* *
44853399 AATC-TT-AGATATGATACACTCTTAGATATGATATGC
1 AATCTTTAAGA-AT-ATGCAATCTTAGATATGATATGC
*
44853435 AATCTTAAAG-ATATG
1 AATCTTTAAGAATATG
44853450 ATCTTGTAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
34 3 0.07
35 6 0.14
36 31 0.72
37 1 0.02
38 2 0.05
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (36 bp):
AATCTTTAAGAATATGCAATCTTAGATATGATATGC
Found at i:44853529 original size:53 final size:53
Alignment explanation
Indices: 44853469--44853576 Score: 207
Period size: 53 Copynumber: 2.0 Consensus size: 53
44853459 TCTTGGAGAT
44853469 TTAATTTGTAGATATCCTTTAATCTTAACCGTTGATGTAATTGATCTGTACCG
1 TTAATTTGTAGATATCCTTTAATCTTAACCGTTGATGTAATTGATCTGTACCG
*
44853522 TTAATTTGTAGATATCCTTTAATCTTAACCGTTGATGTAATTGATTTGTACCG
1 TTAATTTGTAGATATCCTTTAATCTTAACCGTTGATGTAATTGATCTGTACCG
44853575 TT
1 TT
44853577 GGATTTGGGG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.26, C:0.14, G:0.15, T:0.45
Consensus pattern (53 bp):
TTAATTTGTAGATATCCTTTAATCTTAACCGTTGATGTAATTGATCTGTACCG
Found at i:44858097 original size:18 final size:19
Alignment explanation
Indices: 44858071--44858106 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
44858061 TTCTATTTCA
44858071 AAAAAAAAAAGAA-AAAAG
1 AAAAAAAAAAGAATAAAAG
*
44858089 AAAAGAAAAAGAATAAAA
1 AAAAAAAAAAGAATAAAA
44858107 AGAATAACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (19 bp):
AAAAAAAAAAGAATAAAAG
Found at i:44859196 original size:44 final size:43
Alignment explanation
Indices: 44859091--44859554 Score: 438
Period size: 44 Copynumber: 10.6 Consensus size: 43
44859081 GATTTCAGCA
* * **
44859091 TGGCATCCCTATGTTTATAAGGAACAAGTTGAAGATTTCAGCA-
1 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAG-AT
44859134 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATT
1 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA-T
* * * *
44859178 TTGCATCCCTATGTTTATAGGGAAGAA-TCGAAGATAGCAGAT
1 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGAT
* * * * * ** **
44859220 CTGACATTCCTGTGCTTACAGCGAAGC-AGATCAAAGATTTCAGCA-
1 -TGGCATCCCTGTGTTTATAGGGAA-CAAG-TTGAAGATAGCAG-AT
**
44859265 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATTTCAGCA-
1 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAG-AT
44859308 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATT
1 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA-T
* * *
44859352 TGGCATCGCTGTGTTTATAGGGAACAAATCGAAGATAGCAGAT
1 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGAT
* * * * * * **
44859395 CTGACATTCCTGTGCTTACAGCGAA-ATAGATCGAAGATTTCAGCA-
1 -TGGCATCCCTGTGTTTATAGGGAACA-AG-TTGAAGATAGCAG-AT
44859440 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATT
1 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA-T
*
44859484 TGGCATCGCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATT
1 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA-T
* * * *
44859528 TGGCATCCTTGTGCTTACAAGGAACAA
1 TGGCATCCCTGTGTTTATAGGGAACAA
44859555 ATCGAAGACA
Statistics
Matches: 350, Mismatches: 54, Indels: 33
0.80 0.12 0.08
Matches are distributed among these distances:
42 4 0.01
43 133 0.38
44 189 0.54
45 22 0.06
46 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (43 bp):
TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGAT
Found at i:44859296 original size:174 final size:174
Alignment explanation
Indices: 44858998--44859562 Score: 882
Period size: 174 Copynumber: 3.2 Consensus size: 174
44858988 CAGAGAAACA
* * * *
44858998 AGATTTGGCATCCCTGTGTTTATA-GGAAACAGATCAAAGATAGAAGATCTGATACTCCTGTGCT
1 AGATTTGGCATCCCTGTGTTTATAGGGAAA-A-ATCGAAGATAGCAGATCTGACATTCCTGTGCT
* *
44859062 TACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTATGTTTATAAGGAACAAGTTGAAGAT
64 TACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
44859127 TTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
129 TTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
* * *
44859173 AGATTTTGCATCCCTATGTTTATAGGGAAGAATCGAAGATAGCAGATCTGACATTCCTGTGCTTA
1 AGATTTGGCATCCCTGTGTTTATAGGGAAAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTA
*
44859238 CAGCGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATTT
66 CAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATTT
44859303 CAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
131 CAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
*
44859347 AGATTTGGCATCGCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAA-AAATCGAAGATAGCAGATCTGACATTCCTGTGCTT
** *
44859412 ACAGCGAAATAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
65 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATT
* *
44859477 GCAG-ATTTGGCATCGCTGTGTTTATAGGGAACAAGTTGAAGATAGC
130 TCAGCA--TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
* * * *
44859523 AGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGA
1 AGATTTGGCATCCCTGTGTTTATAGGGAA-AAATCGAAGA
44859563 CATAGCTGAT
Statistics
Matches: 361, Mismatches: 25, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
174 163 0.45
175 121 0.34
176 77 0.21
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (174 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAAAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTA
CAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATTT
CAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
Found at i:44859364 original size:131 final size:130
Alignment explanation
Indices: 44859122--44859510 Score: 455
Period size: 131 Copynumber: 3.0 Consensus size: 130
44859112 GAACAAGTTG
** *
44859122 AAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAG-ATTTTGCATCC
1 AAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATTTCAGCA--TGGCATCC
* * * * * *
44859186 CTATGTTTATAGGGAAGAA-TCGAAGATAGCAGATCTGACATTC-CTGTGCTTACAGCGAAGCAG
64 CTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCA-TCGCTGTGCTTACAGCGAA-CAA
44859249 ATCA
127 ATCA
44859253 AAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATTTCAGCATGGCATCCCT
1 AAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATTTCAGCATGGCATCCCT
* * * *
44859318 GTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCGCTGTGTTTATAGGGAACAAATCG
66 GTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCGCTGTGCTTACAGCGAACAAATCA
** * * * * * *
44859383 AAGATAGCAG-ATCTGACATTCCTGTGCTTACAGCGAA-ATAGATCGAAGATTTCAGCATGGCAT
1 AAGATTTCAGCA--TGGCATCCCTGTGTTTATAGGGAACA-AG-TTGAAGATTTCAGCATGGCAT
* * *
44859446 CCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCGCTGTGTTTATAGGGAACAA
62 CCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCGCTGTGCTTACAGCGAACAA
44859511 GTTGAAGATA
Statistics
Matches: 230, Mismatches: 21, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
129 1 0.00
130 40 0.17
131 103 0.45
132 86 0.37
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (130 bp):
AAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATTTCAGCATGGCATCCCT
GTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCGCTGTGCTTACAGCGAACAAATCA
Found at i:44859562 original size:44 final size:44
Alignment explanation
Indices: 44858998--44859577 Score: 432
Period size: 44 Copynumber: 13.2 Consensus size: 44
44858988 CAGAGAAACA
* * * *
44858998 AGATTTGGCATCCCTGTGTTTATAGGAAACAGATCAAAGATAGA
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC
* * * * * **
44859042 AGATCT-G-ATACTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTC
1 AGATTTGGCAT-C-CCTGTGTTTATAGGGAA-CAAATCGAAGATAGC
* * * * **
44859087 AGCA--TGGCATCCCTATGTTTATAAGGAACAAGTTGAAGATTTC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC
* *
44859130 AGCA--TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC
* * *
44859173 AGATTTTGCATCCCTATGTTTATAGGGAA-GAATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC
* * * * * * * * **
44859216 AGATCTGACATTCCTGTGCTTACAGCGAAGCAGATCAAAGATTTC
1 AGATTTGGCATCCCTGTGTTTATAGGGAA-CAAATCGAAGATAGC
* * **
44859261 AGCA--TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATTTC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC
* *
44859304 AGCA--TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC
*
44859347 AGATTTGGCATCGCTGTGTTTATAGGGAACAAATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC
* * * * * * **
44859391 AGATCTGACATTCCTGTGCTTACAGCGAA-ATAGATCGAAGATTTC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACA-A-ATCGAAGATAGC
* *
44859436 AGCA--TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC
* * *
44859479 AGATTTGGCATCGCTGTGTTTATAGGGAACAAGTTGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC
* * * *
44859523 AGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAG--ATAGC
*
44859569 TGATTTGGC
1 AGATTTGGC
44859578 TTTCACGGTT
Statistics
Matches: 435, Mismatches: 80, Indels: 40
0.78 0.14 0.07
Matches are distributed among these distances:
42 5 0.01
43 152 0.35
44 221 0.51
45 39 0.09
46 18 0.04
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (44 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC
Found at i:44860471 original size:206 final size:206
Alignment explanation
Indices: 44859524--44860456 Score: 1454
Period size: 206 Copynumber: 4.5 Consensus size: 206
44859514 GAAGATAGCA
*
44859524 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACG-GTT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
* * *
44859588 TACGCTAAAGCAAATCTAAGAAGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
* * * ** * *
44859653 CGTCTCCATAGTCGATGGAGAGCAGACACATAGTAGATCTGGCCTTCATATGCTTATACTGAAGC
131 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
*
44859718 AGATCCAAGGT
196 AGATCCAAGAT
* *
44859729 GATTTGGCATCCTTGTGCTTACAAGGAACAAATTGAAGACATAGCTGACTTGGCTTTCACGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
* * * *
44859794 TATGATGAAGCAAGTCTAAGATGATTTGGCATCTCTATATTGTCAGAGAACAAATTGAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
* * ** *
44859859 CGTCTCCATATTCGACGAAGAGTAGACACATAGCAGATCTGGCCTTCATATGTTTATACTGAAGC
131 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
*
44859924 AGATCCAAGGT
196 AGATCCAAGAT
* *
44859935 GATTTGTCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
* * *
44860000 TACGATGAAGCAGATCTAAGATGATTTGGCATCTCTGTATTGTTAGAGAACAAATTGAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
*
44860065 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACGTTCAGATGTTTATACTGAAGC
131 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
44860130 AGATCCAAGAT
196 AGATCCAAGAT
*
44860141 GATTTGGCATTCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
44860206 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
* * * * *
44860271 CGTCTCCATATTCGACAGAGGGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGT
131 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
*
44860336 AGATTCAAGAT
196 AGATCCAAGAT
* * * * * * **
44860347 GGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGTTAATTTGGTTTTTGCGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
44860412 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCA
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCA
44860457 AAAAATAGAT
Statistics
Matches: 673, Mismatches: 54, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
205 59 0.09
206 614 0.91
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (206 bp):
GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
AGATCCAAGAT
Found at i:44860888 original size:19 final size:19
Alignment explanation
Indices: 44860860--44860956 Score: 135
Period size: 19 Copynumber: 5.1 Consensus size: 19
44860850 ATCTTTAAGA
* *
44860860 ATATGAAATCTTAAATATG
1 ATATGCAATCTTAGATATG
44860879 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
44860898 ATA--CAATCTTAGATATG
1 ATATGCAATCTTAGATATG
44860915 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
*
44860934 ATATGCAATATTGAAGATATG
1 ATATGCAATCTT--AGATATG
44860955 AT
1 AT
44860957 CTTGTAATCT
Statistics
Matches: 71, Mismatches: 3, Indels: 6
0.89 0.04 0.08
Matches are distributed among these distances:
17 17 0.24
19 45 0.63
21 9 0.13
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.36
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:44860889 original size:36 final size:36
Alignment explanation
Indices: 44860849--44860934 Score: 108
Period size: 36 Copynumber: 2.4 Consensus size: 36
44860839 ATGGAAATAT
44860849 AATCTTTAAGAATATG-A-AATCTTAAATATGATATGC
1 AATCTTT-AG-ATATGAACAATCTTAAATATGATATGC
*
44860885 AATC-TTAGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAGATATGA-ACAATCTTAAATATGATATGC
44860921 AATC-TTAGATATGA
1 AATCTTTAGATATGA
44860935 TATGCAATAT
Statistics
Matches: 46, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
33 5 0.11
34 2 0.04
35 3 0.07
36 36 0.78
ACGTcount: A:0.42, C:0.09, G:0.13, T:0.36
Consensus pattern (36 bp):
AATCTTTAGATATGAACAATCTTAAATATGATATGC
Found at i:44860895 original size:14 final size:15
Alignment explanation
Indices: 44860878--44860934 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
44860868 TCTTAAATAT
44860878 GATATG-CAATCTTA
1 GATATGACAATCTTA
44860892 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
44860909 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
44860928 GATATGA
1 GATATGA
44860935 TATGCAATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
14 6 0.16
17 18 0.47
19 14 0.37
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.35
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:44860935 original size:36 final size:36
Alignment explanation
Indices: 44860866--44860936 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
44860856 AAGAATATGA
44860866 AATCTTAAATATGATATGCAATCTTAGATATGATAC
1 AATCTTAAATATGATATGCAATCTTAGATATGATAC
*
44860902 AATCTTAGATATGATATGCAATCTTAGATATGATA
1 AATCTTAAATATGATATGCAATCTTAGATATGATA
44860937 TGCAATATTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.37
Consensus pattern (36 bp):
AATCTTAAATATGATATGCAATCTTAGATATGATAC
Found at i:44862827 original size:99 final size:99
Alignment explanation
Indices: 44862656--44862853 Score: 387
Period size: 99 Copynumber: 2.0 Consensus size: 99
44862646 CCTTCAATTC
*
44862656 CCTTTAAGAGTTCTTGGGTTTTCTTTATGTTTTGTTATCATTATTCTTTTTAGATGTTTTCTTTC
1 CCTTTAAGAGTTCTTGGGTTTTCTTTATGTTTTGTTATCATTATTCTTTTGAGATGTTTTCTTTC
44862721 ATAAATATGAACTAAACCTCCTAAATACCTAAGG
66 ATAAATATGAACTAAACCTCCTAAATACCTAAGG
44862755 CCTTTAAGAGTTCTTGGGTTTTCTTTATGTTTTGTTATCATTATTCTTTTGAGATGTTTTCTTTC
1 CCTTTAAGAGTTCTTGGGTTTTCTTTATGTTTTGTTATCATTATTCTTTTGAGATGTTTTCTTTC
44862820 ATAAATATGAACTAAACCTCCTAAATACCTAAGG
66 ATAAATATGAACTAAACCTCCTAAATACCTAAGG
44862854 GGAATGAAAC
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 98 1.00
ACGTcount: A:0.25, C:0.15, G:0.13, T:0.47
Consensus pattern (99 bp):
CCTTTAAGAGTTCTTGGGTTTTCTTTATGTTTTGTTATCATTATTCTTTTGAGATGTTTTCTTTC
ATAAATATGAACTAAACCTCCTAAATACCTAAGG
Found at i:44865597 original size:40 final size:40
Alignment explanation
Indices: 44865524--44865599 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
44865514 ACACACCTTG
* * *
44865524 TGGGGATAAAATAGACCTACCCAGCCCTGCACACCAACTA
1 TGGGGATAAAATAGACCCACCCAACCCTACACACCAACTA
*
44865564 TGGGGATAAAATCA-ACCCATCCAACCCTACACACCA
1 TGGGGATAAAAT-AGACCCACCCAACCCTACACACCA
44865600 TATGGTACCG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 30 0.97
41 1 0.03
ACGTcount: A:0.37, C:0.34, G:0.14, T:0.14
Consensus pattern (40 bp):
TGGGGATAAAATAGACCCACCCAACCCTACACACCAACTA
Found at i:44870578 original size:24 final size:24
Alignment explanation
Indices: 44870523--44870674 Score: 163
Period size: 24 Copynumber: 6.4 Consensus size: 24
44870513 AAGACATGGC
*
44870523 CAGTAAGCTCT-TCATGAGCTGATAA
1 CAGTAAGCTCTAT--TGAGCTGAAAA
44870548 CAGTAAGCTCTATTGAGCTGAAAA
1 CAGTAAGCTCTATTGAGCTGAAAA
44870572 C-GATAAGCTCTATTGAGCTGAAAA
1 CAG-TAAGCTCTATTGAGCTGAAAA
* *
44870596 CGGTAAGCTCTATTGAGCTAAAAA
1 CAGTAAGCTCTATTGAGCTGAAAA
* *
44870620 CAGTAAGCTCTATTAAGTTG--AA
1 CAGTAAGCTCTATTGAGCTGAAAA
* *
44870642 CAGTAAGCT-TTTCTAAGCTG-AAA
1 CAGTAAGCTCTAT-TGAGCTGAAAA
44870665 CAGTAAGCTC
1 CAGTAAGCTC
44870675 ATACAAGCTA
Statistics
Matches: 113, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
21 2 0.02
22 17 0.15
23 12 0.11
24 69 0.61
25 12 0.11
26 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.27
Consensus pattern (24 bp):
CAGTAAGCTCTATTGAGCTGAAAA
Found at i:44879944 original size:7 final size:7
Alignment explanation
Indices: 44879927--44880050 Score: 71
Period size: 7 Copynumber: 17.4 Consensus size: 7
44879917 GGCAACCCAA
44879927 TTTTTAT
1 TTTTTAT
44879934 TTTTT-T
1 TTTTTAT
44879940 ATTTTTA-
1 -TTTTTAT
44879947 -TTTTAT
1 TTTTTAT
*
44879953 TATTTAT
1 TTTTTAT
*
44879960 TATTTAT
1 TTTTTAT
*
44879967 TATTTAT
1 TTTTTAT
*
44879974 TATTTAT
1 TTTTTAT
*
44879981 TATTTAT
1 TTTTTAT
44879988 TATTTTAT
1 T-TTTTAT
44879996 TTTGTT-T
1 TTT-TTAT
44880003 TGTTTTAT
1 T-TTTTAT
44880011 TTTATT-T
1 TTT-TTAT
44880018 TATTTTAT
1 T-TTTTAT
44880026 TTTATT-T
1 TTT-TTAT
*
44880033 TATTTAT
1 TTTTTAT
*
44880040 TAATTTAT
1 T-TTTTAT
44880048 TTT
1 TTT
44880051 GTTTGGATAT
Statistics
Matches: 99, Mismatches: 4, Indels: 28
0.76 0.03 0.21
Matches are distributed among these distances:
5 5 0.05
6 3 0.03
7 64 0.65
8 27 0.27
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (7 bp):
TTTTTAT
Found at i:44879945 original size:14 final size:14
Alignment explanation
Indices: 44879926--44880050 Score: 84
Period size: 14 Copynumber: 8.8 Consensus size: 14
44879916 AGGCAACCCA
44879926 ATTTTTATTTTTTT
1 ATTTTTATTTTTTT
*
44879940 ATTTTTATTTTATT
1 ATTTTTATTTTTTT
*
44879954 A--TTTA-TTATTT
1 ATTTTTATTTTTTT
*
44879965 ATTATTTA-TTATTT
1 ATT-TTTATTTTTTT
*
44879979 ATTATTTATTATTTT
1 ATT-TTTATTTTTTT
44879994 ATTTTGT-TTTGTTTT
1 ATTTT-TATTT-TTTT
44880009 A-TTTTATTTTATTT
1 ATTTTTATTTT-TTT
44880023 -TATTTTATTTTATTT
1 AT-TTTTATTTT-TTT
44880038 ATTAATTTATTTT
1 ATT--TTTATTTT
44880051 GTTTGGATAT
Statistics
Matches: 92, Mismatches: 6, Indels: 23
0.76 0.05 0.19
Matches are distributed among these distances:
11 5 0.05
12 4 0.04
13 2 0.02
14 45 0.49
15 27 0.29
16 1 0.01
17 8 0.09
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.77
Consensus pattern (14 bp):
ATTTTTATTTTTTT
Found at i:44879969 original size:10 final size:9
Alignment explanation
Indices: 44879929--44880050 Score: 75
Period size: 10 Copynumber: 13.9 Consensus size: 9
44879919 CAACCCAATT
44879929 TTTATTTT-
1 TTTATTTTA
44879937 TTTATTTTTA
1 TTTA-TTTTA
*
44879947 TTT-TATTA
1 TTTATTTTA
44879955 TTTA--TTA
1 TTTATTTTA
44879962 TTTA--TTA
1 TTTATTTTA
44879969 TTTA--TTA
1 TTTATTTTA
44879976 TTTATTATT-
1 TTTATT-TTA
44879985 TATTATTTTA
1 T-TTATTTTA
* *
44879995 TTTTGTTTTGT
1 -TTTATTTT-A
44880006 TTTATTTTA
1 TTTATTTTA
44880015 TTTTATTTTA
1 -TTTATTTTA
44880025 TTTTATTTTA
1 -TTTATTTTA
*
44880035 TTTA-TTAA
1 TTTATTTTA
44880043 TTTATTTT
1 TTTATTTT
44880051 GTTTGGATAT
Statistics
Matches: 95, Mismatches: 7, Indels: 23
0.76 0.06 0.18
Matches are distributed among these distances:
7 21 0.22
8 18 0.19
9 13 0.14
10 42 0.44
11 1 0.01
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (9 bp):
TTTATTTTA
Found at i:44889820 original size:24 final size:22
Alignment explanation
Indices: 44889793--44889839 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
44889783 TTATAAAAGA
44889793 ATAATAATTATATAAAACAAAAAT
1 ATAATAATT-TATAAAA-AAAAAT
* *
44889817 ATAATGATTTTTAAAAAAAAAT
1 ATAATAATTTATAAAAAAAAAT
44889839 A
1 A
44889840 ATGTATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 7 0.33
23 6 0.29
24 8 0.38
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (22 bp):
ATAATAATTTATAAAAAAAAAT
Done.