Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 204 of 433
Found at i:64363167 original size:44 final size:44
Alignment explanation
Indices: 64363104--64363191 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
64363094 ATCATAGTAG
64363104 ATAACCCATTCAAATCACTAGATTCAACTCTAACTATTCATCAT
1 ATAACCCATTCAAATCACTAGATTCAACTCTAACTATTCATCAT
64363148 ATAACCCATTCAAATCACTAGATTCAACTCTAACTATTCATCAT
1 ATAACCCATTCAAATCACTAGATTCAACTCTAACTATTCATCAT
64363192 TCTTACATCT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.39, C:0.27, G:0.02, T:0.32
Consensus pattern (44 bp):
ATAACCCATTCAAATCACTAGATTCAACTCTAACTATTCATCAT
Found at i:64372375 original size:129 final size:129
Alignment explanation
Indices: 64372145--64372402 Score: 480
Period size: 129 Copynumber: 2.0 Consensus size: 129
64372135 ATTCGTCTCC
* *
64372145 CTCTCGTATACGAATTTGGTGATAGCCGCTCTTTAAGTCTATCTTTGAAAAGAGTTGGGCTCCGC
1 CTCTCGCATACGAATTTGGTGATAGCCACTCTTTAAGTCTATCTTTGAAAAGAGTTGGGCTCCGC
64372210 TAAGTTCGTCAAGCATGTCGTCAAGGCAGGGAATGTGATGTCTATATTTGACGATGGTCTTGTT
66 TAAGTTCGTCAAGCATGTCGTCAAGGCAGGGAATGTGATGTCTATATTTGACGATGGTCTTGTT
*
64372274 CTCTCGCATATGAATTTGGTGATAGCCACTCTTTAAGTCTATCTTTGAAAAGAGTTGGGCTCCGC
1 CTCTCGCATACGAATTTGGTGATAGCCACTCTTTAAGTCTATCTTTGAAAAGAGTTGGGCTCCGC
*
64372339 TAAGTTCGTCAAGCATGTCGTCAAGGCAGGGAATGTGATGTCTATATTTGATGATGGTCTTGTT
66 TAAGTTCGTCAAGCATGTCGTCAAGGCAGGGAATGTGATGTCTATATTTGACGATGGTCTTGTT
64372403 GATGGCGTGT
Statistics
Matches: 125, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
129 125 1.00
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.34
Consensus pattern (129 bp):
CTCTCGCATACGAATTTGGTGATAGCCACTCTTTAAGTCTATCTTTGAAAAGAGTTGGGCTCCGC
TAAGTTCGTCAAGCATGTCGTCAAGGCAGGGAATGTGATGTCTATATTTGACGATGGTCTTGTT
Found at i:64372536 original size:182 final size:182
Alignment explanation
Indices: 64372229--64372591 Score: 663
Period size: 182 Copynumber: 2.0 Consensus size: 182
64372219 CAAGCATGTC
* ** *
64372229 GTCAAGGCAGGGAATGTGATGTCTATATTTGACGATGGTCTTGTTCTCTCGCATATGAATTTGGT
1 GTCAAGGCAGGGAATGTGATGTCTATATTTGACAATGGTCTTGCCCTCTCGCATACGAATTTGGT
*
64372294 GATAGCCACTCTTTAAGTCTATCTTTGAAAAGAGTTGGGCTCCGCTAAGTTCGTCAAGCATGTCG
66 GATAGCCACTCTTTAAGTCTATCTTTGAAAAGAGTTGGGCTCCGCTAAGTTCATCAAGCATGTCG
*
64372359 TCAAGGCAGGGAATGTGATGTCTATATTTGATGATGGTCTTGTTGATGGCGT
131 TCAAGGCAGGGAATGTGATGTCTATATTTGACGATGGTCTTGTTGATGGCGT
64372411 GTCAAGGCAGGGAATGTGATGTCTATATTTGACAATGGTCTTGCCCTCTCGCATACGAATTTGGT
1 GTCAAGGCAGGGAATGTGATGTCTATATTTGACAATGGTCTTGCCCTCTCGCATACGAATTTGGT
*
64372476 GATAGCCACTCTTTAAGTCTATCTTTGAAAAGAGTTGGGCTCTGCTAAGTTCATCAAGCATGTCG
66 GATAGCCACTCTTTAAGTCTATCTTTGAAAAGAGTTGGGCTCCGCTAAGTTCATCAAGCATGTCG
64372541 TCAAGGCAGGGAATGTGATGTCTATATTTGACGATGGTCTTGTTGATGGCG
131 TCAAGGCAGGGAATGTGATGTCTATATTTGACGATGGTCTTGTTGATGGCG
64372592 CGATAGTCAA
Statistics
Matches: 174, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
182 174 1.00
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (182 bp):
GTCAAGGCAGGGAATGTGATGTCTATATTTGACAATGGTCTTGCCCTCTCGCATACGAATTTGGT
GATAGCCACTCTTTAAGTCTATCTTTGAAAAGAGTTGGGCTCCGCTAAGTTCATCAAGCATGTCG
TCAAGGCAGGGAATGTGATGTCTATATTTGACGATGGTCTTGTTGATGGCGT
Found at i:64373107 original size:15 final size:16
Alignment explanation
Indices: 64373087--64373116 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
64373077 CTTTTCCACT
64373087 TTTTTA-TCTTTTTCC
1 TTTTTATTCTTTTTCC
64373102 TTTTTATTCTTTTTC
1 TTTTTATTCTTTTTC
64373117 TCTTGCTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTATTCTTTTTCC
Found at i:64373143 original size:12 final size:14
Alignment explanation
Indices: 64373109--64373141 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
64373099 TCCTTTTTAT
64373109 TCTTTTTCTCTTGC
1 TCTTTTTCTCTTGC
*
64373123 TCTTTTTCTTTTG-
1 TCTTTTTCTCTTGC
64373136 TCTTTT
1 TCTTTT
64373142 CTATTGATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.00, C:0.21, G:0.06, T:0.73
Consensus pattern (14 bp):
TCTTTTTCTCTTGC
Found at i:64375793 original size:30 final size:30
Alignment explanation
Indices: 64375759--64375855 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
64375749 TAAACTAAAA
64375759 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
64375789 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
64375819 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
64375849 TGAGCTA
1 TGAGCTA
64375856 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:64377012 original size:13 final size:13
Alignment explanation
Indices: 64376973--64377017 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
64376963 ATATATATTC
64376973 TTTTTTTTGAACGAA
1 TTTTTTTT--ACGAA
64376988 -TTTTTTTA--AA
1 TTTTTTTTACGAA
64376998 TTTTTTTTACGAA
1 TTTTTTTTACGAA
64377011 TTTTTTT
1 TTTTTTT
64377018 CACTGAATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
10 2 0.07
11 8 0.30
12 1 0.04
13 9 0.33
14 7 0.26
ACGTcount: A:0.22, C:0.04, G:0.07, T:0.67
Consensus pattern (13 bp):
TTTTTTTTACGAA
Found at i:64381389 original size:88 final size:88
Alignment explanation
Indices: 64381280--64381456 Score: 327
Period size: 88 Copynumber: 2.0 Consensus size: 88
64381270 AAATGGTTCA
* * *
64381280 ACGGTGAGAGTTACAGTTTAAGTTAAATGATAAAATTATAACCATGTTGTGAGTGGTATAGGTAC
1 ACGGTGAGAGTTACAGTTTAAGTTAAACGATAAAAGTATAACCATGTTGTGAGAGGTATAGGTAC
64381345 CTATTTGAAATGTATGAGATATG
66 CTATTTGAAATGTATGAGATATG
64381368 ACGGTGAGAGTTACAGTTTAAGTTAAACGATAAAAGTATAACCATGTTGTGAGAGGTATAGGTAC
1 ACGGTGAGAGTTACAGTTTAAGTTAAACGATAAAAGTATAACCATGTTGTGAGAGGTATAGGTAC
64381433 CTATTTGAAATGTATGAGATATG
66 CTATTTGAAATGTATGAGATATG
64381456 A
1 A
64381457 GCTCAATATA
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
88 86 1.00
ACGTcount: A:0.36, C:0.07, G:0.24, T:0.32
Consensus pattern (88 bp):
ACGGTGAGAGTTACAGTTTAAGTTAAACGATAAAAGTATAACCATGTTGTGAGAGGTATAGGTAC
CTATTTGAAATGTATGAGATATG
Found at i:64387700 original size:44 final size:42
Alignment explanation
Indices: 64387650--64387791 Score: 128
Period size: 42 Copynumber: 3.3 Consensus size: 42
64387640 TGTGTTATCA
** * *
64387650 TGTAAGACCACGTCTCA-GATGTTGGCATCGATTTGTGATTTACG
1 TGTAAGACCACGTCT-AGGACATTGGCATCG-TATATGATTT-CG
*
64387694 TGTAAGACCATGTCTAGGACATTGGCATCGTATATGATTTCG
1 TGTAAGACCACGTCTAGGACATTGGCATCGTATATGATTTCG
* * * *
64387736 TGTAAGACC-CTGTCTGGGACAGTGGCATCG-ATATTAGATTACA
1 TGTAAGACCAC-GTCTAGGACATTGGCATCGTATA-T-GATTTCG
64387779 TGTAAGACCACGT
1 TGTAAGACCACGT
64387792 TTGGGATGTT
Statistics
Matches: 83, Mismatches: 10, Indels: 11
0.80 0.10 0.11
Matches are distributed among these distances:
41 3 0.04
42 29 0.35
43 25 0.30
44 26 0.31
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACGTCTAGGACATTGGCATCGTATATGATTTCG
Found at i:64387750 original size:42 final size:42
Alignment explanation
Indices: 64387671--64387788 Score: 130
Period size: 42 Copynumber: 2.7 Consensus size: 42
64387661 GTCTCAGATG
* *
64387671 TTGGCATCGATTTGTGATTTACGTGTAAGACCATGTCTAGGACA
1 TTGGCATCG-TATATGATTT-CGTGTAAGACCATGTCTAGGACA
* *
64387715 TTGGCATCGTATATGATTTCGTGTAAGACCCTGTCTGGGACA
1 TTGGCATCGTATATGATTTCGTGTAAGACCATGTCTAGGACA
* * *
64387757 GTGGCATCG-ATATTAGATTACATGTAAGACCA
1 TTGGCATCGTATA-T-GATTTCGTGTAAGACCA
64387789 CGTTTGGGAT
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
41 3 0.05
42 30 0.47
43 22 0.34
44 9 0.14
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (42 bp):
TTGGCATCGTATATGATTTCGTGTAAGACCATGTCTAGGACA
Found at i:64387805 original size:43 final size:43
Alignment explanation
Indices: 64387648--64387805 Score: 128
Period size: 43 Copynumber: 3.7 Consensus size: 43
64387638 TATGTGTTAT
** *
64387648 CATGTAAGACCACGTCTCAGATGTTGGCATCGAT-TTGTGATTTA
1 CATGTAAGACCACGTCTGGGATGTTGGCATCGATATT-AGA-TTA
* * * ** *
64387692 CGTGTAAGACCATGTCTAGGACATTGGCATCG-TA-TATGATTT
1 CATGTAAGACCACGTCTGGGATGTTGGCATCGATATTA-GATTA
* *
64387734 CGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTAGATTA
1 CATGTAAGACCAC-GTCTGGGA-TGTTGGCATCGATATTAGATTA
*
64387777 CATGTAAGACCACGTTTGGGATGTTGGCA
1 CATGTAAGACCACGTCTGGGATGTTGGCA
64387806 CTATACGAGC
Statistics
Matches: 90, Mismatches: 16, Indels: 17
0.73 0.13 0.14
Matches are distributed among these distances:
42 29 0.32
43 32 0.36
44 29 0.32
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
CATGTAAGACCACGTCTGGGATGTTGGCATCGATATTAGATTA
Found at i:64395304 original size:28 final size:29
Alignment explanation
Indices: 64395253--64395323 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 29
64395243 TCGCTGTCTT
64395253 GCACACTAAGTGCC-TTACTAAATATCTC
1 GCACACTAAGTGCCATTACTAAATATCTC
* * *
64395281 GCACACCAAGTGCCATT-CTCAATATTTC
1 GCACACTAAGTGCCATTACTAAATATCTC
* *
64395309 GTACACTAAATGCCA
1 GCACACTAAGTGCCA
64395324 CAAATATTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
28 34 0.94
29 2 0.06
ACGTcount: A:0.32, C:0.30, G:0.11, T:0.27
Consensus pattern (29 bp):
GCACACTAAGTGCCATTACTAAATATCTC
Found at i:64396545 original size:28 final size:28
Alignment explanation
Indices: 64396476--64396548 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
64396466 TATATGTGGG
* *
64396476 ACTTAGTGTGCGAAATATTGAGAATGAC
1 ACTTAGTGTGCGAGATATTAAGAATGAC
* *
64396504 ACTTGGTGTGCGAGATATTAAGTAA-GGC
1 ACTTAGTGTGCGAGATATTAAG-AATGAC
*
64396532 ACTTAGTGTACGAGATA
1 ACTTAGTGTGCGAGATA
64396549 GCGAAGATGC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 36 0.95
29 2 0.05
ACGTcount: A:0.33, C:0.11, G:0.27, T:0.29
Consensus pattern (28 bp):
ACTTAGTGTGCGAGATATTAAGAATGAC
Found at i:64396644 original size:13 final size:13
Alignment explanation
Indices: 64396626--64396660 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
64396616 CTCATGAGAA
*
64396626 ATGATTTCGGTTT
1 ATGATTTCAGTTT
64396639 ATGATTTCAGTTT
1 ATGATTTCAGTTT
64396652 ATGATTTCA
1 ATGATTTCA
64396661 TCATAAACAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.23, C:0.09, G:0.17, T:0.51
Consensus pattern (13 bp):
ATGATTTCAGTTT
Found at i:64398588 original size:46 final size:46
Alignment explanation
Indices: 64398521--64398698 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
64398511 TGTAACCCGC
*
64398521 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
* * * *
64398567 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG-TTCGCAT
* *** * * * **
64398613 ACATCTCTCGAACTCAGACTCAACTCAATGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
*
64398660 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG
64398699 CCCAAACATC
Statistics
Matches: 103, Mismatches: 26, Indels: 6
0.76 0.19 0.04
Matches are distributed among these distances:
46 71 0.69
47 32 0.31
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
Found at i:64398634 original size:93 final size:93
Alignment explanation
Indices: 64398529--64398700 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
64398519 GCCCATAAGT
* ***
64398529 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
64398594 CAAGCTCGGATGCCTAGTTACATCTCTC
66 CAAGCTCGGATGCCTAGTTACATCTCTC
* *
64398622 GAACTCAGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
64398687 CGAGTTCGGATGCC
66 CAAGCTCGGATGCC
64398701 CAAACATCCT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CAAGCTCGGATGCCTAGTTACATCTCTC
Found at i:64400696 original size:6 final size:6
Alignment explanation
Indices: 64400678--64400768 Score: 71
Period size: 6 Copynumber: 14.8 Consensus size: 6
64400668 AAGAAACATT
* *
64400678 ATCAGA A-CTAGA ATCAGA ATCAGA ATTAG- GTGCCAGA ATCAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
* * *
64400727 ATCAGT ATCAAGTA AT-AGA ATCAAA ATCAGA ATCAGT ATCAG
1 ATCAGA ATC-AG-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAG
64400769 GTAACAAAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
5 5 0.07
6 55 0.81
7 5 0.07
8 3 0.04
ACGTcount: A:0.46, C:0.15, G:0.18, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:64400747 original size:31 final size:31
Alignment explanation
Indices: 64400712--64400772 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
64400702 ATTAGGTGCC
*
64400712 AGAATCAGAATCAGAATCAGTATCAAGTAAT
1 AGAATCAAAATCAGAATCAGTATCAAGTAAT
*
64400743 AGAATCAAAATCAGAATCAGTATCAGGTAA
1 AGAATCAAAATCAGAATCAGTATCAAGTAA
64400773 CAAAATAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.49, C:0.13, G:0.16, T:0.21
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGTATCAAGTAAT
Found at i:64401593 original size:27 final size:27
Alignment explanation
Indices: 64401565--64401811 Score: 336
Period size: 27 Copynumber: 9.2 Consensus size: 27
64401555 GGTAAAATGG
* * * * *
64401565 TAATTTTACCCCACAAGGGTATCTCGG
1 TAATTCTACCCTACAGGGGTATTTCGA
64401592 TAATTCTACCCTACAGGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
*
64401619 TAATTCTACCCTACAGGGGTA-ATCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
64401645 TAATTCTACCCTACAGGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
* * *
64401672 TAATTCTACCCTACAAGGGTATTGCAA
1 TAATTCTACCCTACAGGGGTATTTCGA
* *
64401699 TAATTCTACCTTACAGGGGTATTTCAA
1 TAATTCTACCCTACAGGGGTATTTCGA
* *
64401726 TAATTCTACCCTACAGGGGTATTCCGG
1 TAATTCTACCCTACAGGGGTATTTCGA
64401753 TAATTCTACCCTACAGGGGTATTTC-A
1 TAATTCTACCCTACAGGGGTATTTCGA
* *
64401779 GTAATTCTACCCTACAAGGGTATTTCGG
1 -TAATTCTACCCTACAGGGGTATTTCGA
64401807 TAATT
1 TAATT
64401812 TCACAAATCA
Statistics
Matches: 196, Mismatches: 21, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
26 25 0.13
27 171 0.87
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGA
Found at i:64401854 original size:54 final size:54
Alignment explanation
Indices: 64401793--64402464 Score: 256
Period size: 54 Copynumber: 12.5 Consensus size: 54
64401783 TTCTACCCTA
*
64401793 CAAGGGTATTTCGGTAATTTCACAAATC-AGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTCGGTAATTTCACAAATCGA-GGGAATTTTGGTAATTTTACAAAC
* * * *** **
64401847 CAGGGGTATTTTGGTAATTTTATTGATCGAGGGAATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTCGGTAATTTCACAAATCGAGGGAATTTTGGTAATTTTACAAAC
** *** ** * ** *
64401901 CAAGGGTATTTCAATAATTTTGTAAATCGAGGGTAA-AATGGTAATTCTGTAAAT
1 CAAGGGTATTTCGGTAATTTCACAAATCGAGGG-AATTTTGGTAATTTTACAAAC
* *** ** *** * * ** *
64401955 TAAGGGTAAAACGGTAA-TTCTGTAAATCGAGGGTAA-AACGATAATTCTGTAAAT
1 CAAGGGTATTTCGGTAATTTC-ACAAATCGAGGG-AATTTTGGTAATTTTACAAAC
* ** ** * ** * *
64402009 CGAGGGTAAAAT-GGTAA-TTCTATCTTA-C-AGGAGTATTTCAGTAATTTTATAAAT
1 CAAGGGT-ATTTCGGTAATTTC-A-CAAATCGAGG-GAATTTTGGTAATTTTACAAAC
* * ** * * *
64402063 CGAGGGTATTTCAGTAATTTTGCAAA-CTGAGGGTATTTCGGTAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTCACAAATC-GAGGGAATTTTGGTAATTTTACAAAC
* * * * * * * * **
64402117 CGAGGATATTTGGGTAATTTTATAAATCGGGGGTACTTTGGTAATTTTACAAGT
1 CAAGGGTATTTCGGTAATTTCACAAATCGAGGGAATTTTGGTAATTTTACAAAC
* * * * * *
64402171 CAAGGGTATTTCAGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTGCAAAC
1 CAAGGGTATTTCGGTAATTTCACAAATCGAGGGAATTTTGGTAATTTTACAAAC
** * * * *
64402225 TGAGGGTATTTCGGTAATTTTACAAATCGA-GGATATTTGGGTAATTTTATAAAT
1 CAAGGGTATTTCGGTAATTTCACAAATCGAGGGA-ATTTTGGTAATTTTACAAAC
** * * * ** **
64402279 CGGGGGTACTTT-GGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTACAAGT
1 CAAGGGTA-TTTCGGTAATTTCACAAATCGAGGGAATTTTGGTAATTTTACAAAC
* * * * ** *
64402333 CGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTGCAAAC
1 CAAGGGTATTTCGGTAATTTCACAAATCGAGGGAATTTTGGTAATTTTACAAAC
** * * * *
64402387 TGAGGGTATTT-GGTAATTTTACAAATCGA-GGATATTTGGGTAATTTTATAAAT
1 CAAGGGTATTTCGGTAATTTCACAAATCGAGGGA-ATTTTGGTAATTTTACAAAC
* *
64402440 CAGGGGTACTTT-GGTAATTTTACAA
1 CAAGGGTA-TTTCGGTAATTTCACAA
64402465 CTAGGGGTAT
Statistics
Matches: 493, Mismatches: 107, Indels: 36
0.78 0.17 0.06
Matches are distributed among these distances:
52 2 0.00
53 53 0.11
54 420 0.85
55 18 0.04
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.37
Consensus pattern (54 bp):
CAAGGGTATTTCGGTAATTTCACAAATCGAGGGAATTTTGGTAATTTTACAAAC
Found at i:64401906 original size:27 final size:27
Alignment explanation
Indices: 64401793--64402461 Score: 201
Period size: 27 Copynumber: 24.8 Consensus size: 27
64401783 TTCTACCCTA
* * * *
64401793 CAAGGGTATTTCGGTAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
64401820 CAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* ** *
64401847 CAGGGGTATTTTGGTAATTTTATTGAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
64401874 CGAGGGAATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
*** * *
64401901 CAAGGGTATTTCAATAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *** * * *
64401928 CGAGGGTAAAATGGTAATTCTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
* **** * * *
64401955 TAAGGGTAAAACGGTAATTCTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
* **** * * * *
64401982 CGAGGGTAAAACGATAATTCTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *** * **
64402009 CGAGGGTAAAATGGTAATTCTATCTTA-
1 CAAGGGTATTTTGGTAATTTTAT-AAAC
** *
64402036 C-AGGAGTATTTCAGTAATTTTATAAAT
1 CAAGG-GTATTTTGGTAATTTTATAAAC
* ** **
64402063 CGAGGGTATTTCAGTAATTTTGCAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
** * * *
64402090 TGAGGGTATTTCGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * *
64402117 CGAGGATATTTGGGTAATTTTATAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
** * * **
64402144 CGGGGGTACTTTGGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTATAAAC
** * *
64402171 CAAGGGTATTTCAGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
** * **
64402198 TGAGGGTATTTCGGTAATTTTGCAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
** * * *
64402225 TGAGGGTATTTCGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * *
64402252 CGAGGATATTTGGGTAATTTTATAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
** * * **
64402279 CGGGGGTACTTTGGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTATAAAC
* ** * **
64402306 CGAGGGTATTTCAGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTATAAAC
* ** * *
64402333 CGAGGGTATTTCAGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
* ** **
64402360 CGAGGGTATTTCAGTAATTTTGCAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
** * *
64402387 TGAGGGTA-TTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * *
64402413 CGAGGATATTTGGGTAATTTTATAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
64402440 CAGGGGTACTTTGGTAATTTTA
1 CAAGGGTATTTTGGTAATTTTA
64402462 CAACTAGGGG
Statistics
Matches: 528, Mismatches: 109, Indels: 10
0.82 0.17 0.02
Matches are distributed among these distances:
26 24 0.05
27 500 0.95
28 4 0.01
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.37
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAC
Found at i:64401934 original size:135 final size:136
Alignment explanation
Indices: 64401769--64402485 Score: 611
Period size: 135 Copynumber: 5.3 Consensus size: 136
64401759 TACCCTACAG
* ** * ** *
64401769 GGGTATTTCAGTAATTCTAC-CCTACAAGGGTATTTCGGTAATTTCACAAATCAG-GGGTATTTT
1 GGGTATTTCAGTAATTTTACAAAT-CGAGGGTATTTCGGTAATTTTGCAAATCAGAGGGTATTTC
* ** * *
64401832 GGTAATTTTACAAACC-AGGGGTATTTTGGTAATTTTATTGATCGAGGGAATTTTGGTAATTTTG
65 GGTAATTTTACAAACCGA-GGGTATTTGGGTAATTTTATAAATCGAGGGAACTTTGGTAATTTTA
*
64401896 TAAACCAA
129 TAAATCAA
* ** ** * * * ***
64401904 GGGTATTTCAATAATTTTGTAAATCGAGGGTAAAAT-GGTAATTCTGTAAATTA-AGGGTAAAAC
1 GGGTATTTCAGTAATTTTACAAATCGAGGGT-ATTTCGGTAATTTTGCAAATCAGAGGGTATTTC
* ** * **** * * * ** *
64401967 GGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAA-AATGGTAATTCTA
65 GGTAATTTTACAAACCGAGGGTATTTGGGTAATTTTATAAATCGAGGG-AACTTTGGTAATTTTA
* *
64402031 T--CTTACA
129 TAAATCA-A
* * *
64402038 GGAGTATTTCAGTAATTTTATAAATCGAGGGTATTTCAGTAATTTTGCAAA-CTGAGGGTATTTC
1 GG-GTATTTCAGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTGCAAATCAGAGGGTATTTC
* * * * *
64402102 GGTAATTTTACAAATCGAGGATATTTGGGTAATTTTATAAATCGGGGGTACTTTGGTAATTTTAC
65 GGTAATTTTACAAACCGAGGGTATTTGGGTAATTTTATAAATCGAGGGAACTTTGGTAATTTTAT
*
64402167 AAGTCAA
130 AAATCAA
* *
64402174 GGGTATTTCAGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTGCAAA-CTGAGGGTATTTCG
1 GGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTGCAAATCAGAGGGTATTTCG
* * * * *
64402238 GTAATTTTACAAATCGAGGATATTTGGGTAATTTTATAAATCGGGGGTACTTTGGTAATTTTACA
66 GTAATTTTACAAACCGAGGGTATTTGGGTAATTTTATAAATCGAGGGAACTTTGGTAATTTTATA
* *
64402303 AGTCGA
131 AATCAA
* * * *
64402309 GGGTATTTCAGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTACAAATC-GAGGGTATTTCA
1 GGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTGCAAATCAGAGGGTATTTCG
* * *
64402373 GTAATTTTGCAAACTGAGGGTATTT-GGTAATTTTACAAATCGA-GGATA-TTTGGGTAATTTTA
66 GTAATTTTACAAACCGAGGGTATTTGGGTAATTTTATAAATCGAGGGA-ACTTT-GGTAATTTTA
*
64402435 TAAATCAG
129 TAAATCAA
* * * *
64402443 GGGTACTTT-GGTAATTTTACAACTAG-GGGTATTTCAGTAATTT
1 GGGTA-TTTCAGTAATTTTACAAATCGAGGGTATTTCGGTAATTT
64402486 GGTAAACTAA
Statistics
Matches: 474, Mismatches: 92, Indels: 34
0.79 0.15 0.06
Matches are distributed among these distances:
133 23 0.05
134 56 0.12
135 383 0.81
136 10 0.02
137 2 0.00
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.37
Consensus pattern (136 bp):
GGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTGCAAATCAGAGGGTATTTCG
GTAATTTTACAAACCGAGGGTATTTGGGTAATTTTATAAATCGAGGGAACTTTGGTAATTTTATA
AATCAA
Found at i:64410548 original size:2 final size:2
Alignment explanation
Indices: 64410541--64410571 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
64410531 ATGATTTGTG
64410541 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
64410572 GTAAGTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:64414922 original size:40 final size:40
Alignment explanation
Indices: 64414731--64414915 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
64414721 TCGAATGATG
* * *
64414731 TCCGGGCTAAGTCCC-AAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
64414770 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
64414810 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
64414850 TCCGGGTTAAGTCCCGAAGGCATCTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
64414891 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
64414916 AACGAGTAGC
Statistics
Matches: 129, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
39 13 0.10
40 108 0.84
41 8 0.06
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:64414922 original size:80 final size:79
Alignment explanation
Indices: 64414783--64414938 Score: 194
Period size: 80 Copynumber: 2.0 Consensus size: 79
64414773 GGACTAAGAT
**
64414783 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCT
64414847 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAGTC
* *
64414863 CCGAAGGCA-TCTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAGTAG
1 CCGAAGGCATTC-GTGCGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTAG
*
64414925 CTATATCCGGTTAA
63 CTAAATCCGGTTAA
64414939 ACTCCGAAGG
Statistics
Matches: 67, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
79 11 0.16
80 54 0.81
81 2 0.03
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAGTC
Found at i:64419443 original size:40 final size:39
Alignment explanation
Indices: 64419379--64419563 Score: 223
Period size: 39 Copynumber: 4.8 Consensus size: 39
64419369 GCTACTCGTT
* * * ** *
64419379 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCA
* *
64419419 CAAATGCCTTCGGGACTTAACCCGGATATCACAA-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCA
* *
64419458 CAATTGCCTTCGGGCTTAGCCCGGATATCATAGCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
*
64419497 CAATTGCCTTCGGGCTTAGCCCGGATATCAT--CTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
*
64419534 CAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCA
64419564 CTTCGCACAT
Statistics
Matches: 132, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
37 36 0.27
38 16 0.12
39 53 0.40
40 27 0.20
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
Found at i:64419541 original size:37 final size:37
Alignment explanation
Indices: 64419415--64419572 Score: 228
Period size: 39 Copynumber: 4.2 Consensus size: 37
64419405 TATGGTAACC
* *
64419415 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAAT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCAC-AT
*
64419454 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACA--T
64419493 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATC-T
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA-CAT
*
64419530 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACTT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAT
64419567 CGCACA
1 CGCACA
64419573 TTCATACACA
Statistics
Matches: 111, Mismatches: 4, Indels: 10
0.89 0.03 0.08
Matches are distributed among these distances:
36 1 0.01
37 43 0.39
38 15 0.14
39 52 0.47
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.24
Consensus pattern (37 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAT
Found at i:64419553 original size:76 final size:77
Alignment explanation
Indices: 64419415--64419563 Score: 248
Period size: 76 Copynumber: 1.9 Consensus size: 77
64419405 TATGGTAACC
64419415 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAATCGCACAATTGCCTTCGGGCTTAGCCC
1 CGCACAAATGCCTTCGGGACTTAACCCGGATATCAC-ATCGCACAATTGCCTTCGGGCTTAGCCC
64419480 GGATATCATAGCT
65 GGATATCATAGCT
* *
64419493 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATC-TCGCACAATTGCCTTCGGGCTTAGCCC
1 CGCACAAATGCCTTCGGGACTTAACCCGGATATCA-CATCGCACAATTGCCTTCGGGCTTAGCCC
64419556 GGATATCA
65 GGATATCA
64419564 CTTCGCACAT
Statistics
Matches: 68, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
76 35 0.51
77 15 0.22
78 18 0.26
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.24
Consensus pattern (77 bp):
CGCACAAATGCCTTCGGGACTTAACCCGGATATCACATCGCACAATTGCCTTCGGGCTTAGCCCG
GATATCATAGCT
Found at i:64427203 original size:40 final size:40
Alignment explanation
Indices: 64427139--64427327 Score: 190
Period size: 39 Copynumber: 4.8 Consensus size: 40
64427129 GCTACTCGTT
* * * ***
64427139 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* *
64427179 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* * * * *
64427219 CAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* **
64427258 CAATTGCCTTCGGG-CTTAGCCCGGATATCAC-ATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
*
64427296 CAATTGCCTTC-GG-CTTAGCCCGGATATCACAA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAA
64427328 TTCGCACATT
Statistics
Matches: 131, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
37 19 0.15
38 16 0.12
39 51 0.39
40 45 0.34
ACGTcount: A:0.25, C:0.32, G:0.21, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
Found at i:64427307 original size:38 final size:39
Alignment explanation
Indices: 64427175--64427335 Score: 236
Period size: 39 Copynumber: 4.2 Consensus size: 39
64427165 TATGGTAACC
* *
64427175 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
64427215 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
64427254 CACACAATTGCCTTCGGGCTTAGCCCGGATATCAC-ATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
64427292 CGCACAATTGCCTTC-GGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
64427330 CGCACA
1 CGCACA
64427336 TTCATACACA
Statistics
Matches: 111, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
37 19 0.17
38 24 0.22
39 51 0.46
40 17 0.15
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:64435103 original size:40 final size:39
Alignment explanation
Indices: 64435039--64435224 Score: 232
Period size: 39 Copynumber: 4.8 Consensus size: 39
64435029 GCTACTCGTT
* * * ** *
64435039 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCA
* *
64435079 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCA
* *
64435119 CAATTGCCTTCGGGCTTAGCCCGGATATCATAGCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
*
64435158 CAATTGCCTTCGGGCTTAGCCCGGATATCAT-A-TCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
*
64435195 CAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCA
64435225 CTCGACATTC
Statistics
Matches: 133, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
37 35 0.26
39 53 0.40
40 45 0.34
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
Found at i:64435203 original size:37 final size:38
Alignment explanation
Indices: 64435075--64435224 Score: 239
Period size: 39 Copynumber: 3.9 Consensus size: 38
64435065 TATGGTAACC
* * *
64435075 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCA-TACT
64435115 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATA-CT
64435154 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATA-T
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATACT
64435191 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
64435225 CTCGACATTC
Statistics
Matches: 106, Mismatches: 3, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
37 35 0.33
38 1 0.01
39 53 0.50
40 17 0.16
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.24
Consensus pattern (38 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATACT
Found at i:64435214 original size:76 final size:79
Alignment explanation
Indices: 64435075--64435224 Score: 252
Period size: 76 Copynumber: 1.9 Consensus size: 79
64435065 TATGGTAACC
64435075 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
64435140 CGGATATCATAGCT
66 CGGATATCATAGCT
* * *
64435154 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCA-TA-TCGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
64435216 CGGATATCA
66 CGGATATCA
64435225 CTCGACATTC
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
76 35 0.51
77 1 0.01
78 15 0.22
79 17 0.25
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.24
Consensus pattern (79 bp):
CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
CGGATATCATAGCT
Found at i:64443004 original size:40 final size:40
Alignment explanation
Indices: 64442946--64443128 Score: 187
Period size: 39 Copynumber: 4.7 Consensus size: 40
64442936 CGTTCAAACA
* * ***
64442946 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
* * *
64442986 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
* * * *
64443026 CCTTCGGG-CTTAGCCCGGATATCA-TA-GCTCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
* * * *
64443063 CCTTCGGG-CTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
64443102 CCTTCGGG-CTTAGCCCGGATATCACAA
1 CCTTCGGGACTTAGCCCGGATATCACAA
64443129 TTCGCACATT
Statistics
Matches: 123, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
37 33 0.27
38 1 0.01
39 49 0.40
40 40 0.33
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
Found at i:64443094 original size:76 final size:77
Alignment explanation
Indices: 64442978--64443125 Score: 253
Period size: 76 Copynumber: 1.9 Consensus size: 77
64442968 TGGTAACCCG
64442978 CACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCG
1 CACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCG
64443043 GATATCATAGCT
66 GATATCATAGCT
* * * *
64443055 CACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCTCGCACAATTGCCTTCGGGCTTAGCCCG
1 CACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCG
64443119 GATATCA
66 GATATCA
64443126 CAATTCGCAC
Statistics
Matches: 67, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
76 52 0.78
77 15 0.22
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (77 bp):
CACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCG
GATATCATAGCT
Found at i:64443109 original size:39 final size:39
Alignment explanation
Indices: 64442976--64443125 Score: 241
Period size: 39 Copynumber: 3.9 Consensus size: 39
64442966 TATGGTAACC
* * * *
64442976 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
64443016 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
64443055 --CACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
64443092 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
64443126 CAATTCGCAC
Statistics
Matches: 104, Mismatches: 4, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
37 37 0.36
39 50 0.48
40 17 0.16
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:64446343 original size:29 final size:29
Alignment explanation
Indices: 64446303--64446376 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
64446293 GTTGAGAGAT
* *
64446303 TGGCACTGAGTGTGCGAGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
* * *
64446332 TGGCACTAAGTGTACGAGTTTAAAGTATA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
64446361 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
64446377 CGGCTGATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 5 0.13
29 33 0.87
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:64452819 original size:40 final size:40
Alignment explanation
Indices: 64452627--64452812 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
64452617 TCGAATGATG
* * *
64452627 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
64452667 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
64452707 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
64452747 TCCGGGTTAAGTCCCGAAGGCATCTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
64452788 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
64452813 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 120 0.92
41 9 0.07
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:64452819 original size:80 final size:80
Alignment explanation
Indices: 64452627--64452845 Score: 238
Period size: 80 Copynumber: 2.8 Consensus size: 80
64452617 TCGAATGATG
* * **
64452627 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAGATCCGAAGGCATT
64452691 CGTGCGAGTTACTAAA
65 CGTGCGAGTTACTAAA
* *
64452707 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGAT-CCGAAGGCAT
64452769 TCTGTGCGAGTTACTATAA
64 TC-GTGCGAGTTACTA-AA
* **
64452788 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAA-ACTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTTAAGA-TCCGAAGG
64452846 TACGTGATTC
Statistics
Matches: 119, Mismatches: 11, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
79 19 0.16
80 90 0.76
81 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGATCCGAAGGCATTC
GTGCGAGTTACTAAA
Found at i:64458547 original size:28 final size:28
Alignment explanation
Indices: 64458515--64458584 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
64458505 AATGAGATTG
*
64458515 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
64458543 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
64458571 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
64458585 GACTTACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:64469135 original size:39 final size:40
Alignment explanation
Indices: 64469080--64469294 Score: 271
Period size: 39 Copynumber: 5.5 Consensus size: 40
64469070 TGGATGATAA
* *
64469080 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
64469120 -CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
64469159 CCGGGCTAAGTCCC-AAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
64469198 CC-GGCTAAGTCCCGAAGGCATTGGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * * *
64469237 CCGGGCTATGTCCCAAAGGCATTCGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
64469277 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
64469295 TACTTGGCTT
Statistics
Matches: 156, Mismatches: 14, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
38 12 0.08
39 101 0.65
40 43 0.28
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:64475112 original size:12 final size:12
Alignment explanation
Indices: 64475095--64475124 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
64475085 CAGTTCACTT
64475095 TTTCAACTGAGC
1 TTTCAACTGAGC
*
64475107 TTTCAACTTAGC
1 TTTCAACTGAGC
64475119 TTTCAA
1 TTTCAA
64475125 AATTTTCAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (12 bp):
TTTCAACTGAGC
Found at i:64477475 original size:20 final size:21
Alignment explanation
Indices: 64477452--64477495 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
64477442 TAGGGGTTGA
* * *
64477452 ATGAATTGTTTAT-AAATGGC
1 ATGAAATGTGTATGAAATAGC
64477472 ATGAAATGTGTATGAAATAGC
1 ATGAAATGTGTATGAAATAGC
64477493 ATG
1 ATG
64477496 CTTTGGTTGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.39, C:0.05, G:0.23, T:0.34
Consensus pattern (21 bp):
ATGAAATGTGTATGAAATAGC
Found at i:64487139 original size:46 final size:46
Alignment explanation
Indices: 64487087--64487211 Score: 178
Period size: 46 Copynumber: 2.7 Consensus size: 46
64487077 GGTTGAGCAT
* * * * *
64487087 CCGAACTCGTTGAGTTGAGTCCAAGCTCACTTATGGATGCTAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
64487133 CTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGTATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
64487179 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
64487212 GGGGCGGGTT
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 70 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:64494630 original size:46 final size:46
Alignment explanation
Indices: 64494580--64494752 Score: 203
Period size: 46 Copynumber: 3.7 Consensus size: 46
64494570 TGGTTGAGCA
64494580 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
64494626 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
64494671 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
64494719 -CCCAAGCTCGTTGAGTTGATTCCGAGTTCACTTA
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTA
64494753 GGGGCGGGTT
Statistics
Matches: 108, Mismatches: 9, Indels: 20
0.79 0.07 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 7 0.06
46 56 0.52
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:64494736 original size:93 final size:93
Alignment explanation
Indices: 64494577--64494747 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
64494567 GGATGGTTGA
* *
64494577 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAGT
64494642 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
64494670 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCCAAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAA-CTCGTTGAG
*
64494734 TTGATTCCGAGTTC
65 TTGAGTCCGAGTTC
64494748 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 4 0.05
93 70 0.95
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:64496973 original size:48 final size:46
Alignment explanation
Indices: 64496906--64497074 Score: 145
Period size: 48 Copynumber: 3.7 Consensus size: 46
64496896 CACATAGTAA
* *
64496906 GATGCTAAAGCCATATCCCAGATATGGTCTTACTTGGGATCACAACTC
1 GATGC-AATGCCATATCCCAAATATGGTCTTAC-TGGGATCACAACTC
* * *
64496954 GATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCTC-A-T-
1 GATG-CAATGCCATATCCCAAATATGGTCTTAC-TGGGATCACAACTC
* * *
64496999 -AT-CAACGTCATATCCCAAATATGGTCTTAC-AGGATAACACAAC-C
1 GATGCAATGCCATATCCCAAATATGGTCTTACTGGGAT--CACAACTC
*
64497043 GATGCAGATGCCATATCCCAGATATGGTCTTA
1 GATGCA-ATGCCATATCCCAAATATGGTCTTA
64497075 TGCGGGATCT
Statistics
Matches: 97, Mismatches: 15, Indels: 19
0.74 0.11 0.15
Matches are distributed among these distances:
40 4 0.04
42 26 0.27
43 1 0.01
44 2 0.02
45 2 0.02
46 3 0.03
47 23 0.24
48 35 0.36
49 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (46 bp):
GATGCAATGCCATATCCCAAATATGGTCTTACTGGGATCACAACTC
Found at i:64497082 original size:89 final size:89
Alignment explanation
Indices: 64496917--64497087 Score: 213
Period size: 89 Copynumber: 1.9 Consensus size: 89
64496907 ATGCTAAAGC
* * *
64496917 CATATCCCAGATATGGTCTTACTTGGGATCACAACTCGATGCCAATGCCATGTCCCAAACATGGT
1 CATATCCCAAATATGGTCTTAC-TAGGATCACAACTCGATGCCAATGCCATATCCCAAACATGGT
*
64496982 CTTACATGGGATCTCATATCAACGT
65 CTTACACGGGATCTCATATCAACGT
* *
64497007 CATATCCCAAATATGGTCTTAC-AGGATAACACAAC-CGATG-CAGATGCCATATCCCAGATATG
1 CATATCCCAAATATGGTCTTACTAGGAT--CACAACTCGATGCCA-ATGCCATATCCCAAACATG
**
64497069 GTCTTATGCGGGATCTCAT
63 GTCTTACACGGGATCTCAT
64497088 CAACCCAAAT
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
88 6 0.09
89 37 0.53
90 27 0.39
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (89 bp):
CATATCCCAAATATGGTCTTACTAGGATCACAACTCGATGCCAATGCCATATCCCAAACATGGTC
TTACACGGGATCTCATATCAACGT
Found at i:64500756 original size:41 final size:41
Alignment explanation
Indices: 64500706--64500793 Score: 149
Period size: 41 Copynumber: 2.1 Consensus size: 41
64500696 GTTTGTCTAT
* *
64500706 AGAAAAGGAAGCGGTATAAGAATAAAACTCAGAGAAATCTG
1 AGAACAGGAAGCGGTAGAAGAATAAAACTCAGAGAAATCTG
*
64500747 AGAACAGGAAGCGGTAGAAGAATAGAACTCAGAGAAATCTG
1 AGAACAGGAAGCGGTAGAAGAATAAAACTCAGAGAAATCTG
64500788 AGAACA
1 AGAACA
64500794 ACAACAGAAC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.50, C:0.11, G:0.26, T:0.12
Consensus pattern (41 bp):
AGAACAGGAAGCGGTAGAAGAATAAAACTCAGAGAAATCTG
Found at i:64503830 original size:138 final size:137
Alignment explanation
Indices: 64503582--64504002 Score: 646
Period size: 138 Copynumber: 3.1 Consensus size: 137
64503572 GAGAACGTAG
* *
64503582 ATATAATTAATATATGAATTTGATTCATACAAAATATTAGTTGTATATATTTTA-TTGAATTTAT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCT-AATTTAT
* * * * *
64503646 TAATATAAACAGTTGTTTTAATTAATTTCTATCAAAATATAAAAGACATGGAAATTAAAATTCTT
65 TAATATAAACAGATATATTAATTAATTT-TGTCAAAATATAAAAGACATGGAAATTAATATTCTT
64503711 TTGGAAAGA
129 TTGGAAAGA
*
64503720 ATATAGTTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCTAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCTAATTTATT
*
64503785 AATATAAACAGGTATATTAATTAATTTTGGTCAAAATATAAAAGACATGGAAATTAATATTCTTT
66 AATATAAACAGATATATTAATTAATTTT-GTCAAAATATAAAAGACATGGAAATTAATATTCTTT
64503850 TGGAAAGA
130 TGGAAAGA
* *
64503858 ATATAATTAATATATGAATTTGATTCATATAAAATATTAATTGTATATATTTTACCGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCTAATTTATT
* * * *
64503923 AATATAAATATATATATTAATTAATTTCAGTCAAAATATAAAAGACATGGAAATTAATATTATTT
66 AATATAAACAGATATATTAATTAATTT-TGTCAAAATATAAAAGACATGGAAATTAATATTCTTT
**
64503988 TAAAAAGA
130 TGGAAAGA
64503996 ATATAAT
1 ATATAAT
64504003 CCCTTGTTCT
Statistics
Matches: 262, Mismatches: 18, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
137 1 0.00
138 260 0.99
139 1 0.00
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (137 bp):
ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCTAATTTATT
AATATAAACAGATATATTAATTAATTTTGTCAAAATATAAAAGACATGGAAATTAATATTCTTTT
GGAAAGA
Found at i:64504061 original size:78 final size:75
Alignment explanation
Indices: 64503979--64504132 Score: 209
Period size: 78 Copynumber: 2.0 Consensus size: 75
64503969 ATGGAAATTA
64503979 ATATTATTTTAAAAAGAATATAATCCCTTGTTCTAACTTTCCATTTGCCTTCTCTAATATTAATA
1 ATATTATTTTAAAAAGAATATAATCCCTTGTTCTAACTTTCCATTTGCCTTCTC---TATTAATA
64504044 AAGGAATAATCCT
63 AAGGAATAATCCT
* ** ** * * *
64504057 ATATTCTTTTGGAAAGAATATAATTTCTTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAGG
1 ATATTATTTTAAAAAGAATATAATCCCTTGTTCTAACTTTCCATTTGCCTTCTCTATTAATAAAG
64504122 GAATAATCCT
66 GAATAATCCT
64504132 A
1 A
64504133 GTTTTCCTTT
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
75 21 0.31
78 47 0.69
ACGTcount: A:0.33, C:0.16, G:0.08, T:0.44
Consensus pattern (75 bp):
ATATTATTTTAAAAAGAATATAATCCCTTGTTCTAACTTTCCATTTGCCTTCTCTATTAATAAAG
GAATAATCCT
Found at i:64506253 original size:3 final size:3
Alignment explanation
Indices: 64506245--64506271 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
64506235 TATTCTGATT
64506245 ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC
64506272 TACCACCCGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:64508600 original size:18 final size:18
Alignment explanation
Indices: 64508577--64508614 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
64508567 TCATAGTTAA
* *
64508577 TTATTCAAATTATTTGAG
1 TTATTCAAATAACTTGAG
64508595 TTATTCAAATAACTTGAG
1 TTATTCAAATAACTTGAG
64508613 TT
1 TT
64508615 GTACAATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.34, C:0.08, G:0.11, T:0.47
Consensus pattern (18 bp):
TTATTCAAATAACTTGAG
Found at i:64510955 original size:28 final size:27
Alignment explanation
Indices: 64510902--64510980 Score: 70
Period size: 27 Copynumber: 2.8 Consensus size: 27
64510892 ATTTTTTAAA
* *
64510902 ATTTTAAAAATAAAAAAGTTATTAAAAATT
1 ATTTT-AAAATTAAAAA-CTATT-AAAATT
*
64510932 ATTTTAAAATTAAAAACTATTAAAGTT
1 ATTTTAAAATTAAAAACTATTAAAATT
*
64510959 A-TTTAAAACTTATAAACATATT
1 ATTTTAAAA-TTAAAAAC-TATT
64510981 TTTAATTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
26 7 0.16
27 13 0.30
28 8 0.19
29 10 0.23
30 5 0.12
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.39
Consensus pattern (27 bp):
ATTTTAAAATTAAAAACTATTAAAATT
Found at i:64510965 original size:38 final size:37
Alignment explanation
Indices: 64510891--64510971 Score: 94
Period size: 38 Copynumber: 2.2 Consensus size: 37
64510881 TCAATTAATT
64510891 AATT-TTTTAAAATTTTAAAAATAAAAAAGTTATTAAA
1 AATTATTTTAAAA-TTTAAAAATAAAAAAGTTATTAAA
**
64510928 AATTATTTTAAAA-TTAAAAACTATTAAAGTTATTTAAA
1 AATTATTTTAAAATTTAAAAA-TAAAAAAGTTA-TTAAA
*
64510966 ACTTAT
1 AATTAT
64510972 AAACATATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
36 7 0.18
37 13 0.34
38 18 0.47
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (37 bp):
AATTATTTTAAAATTTAAAAATAAAAAAGTTATTAAA
Found at i:64515245 original size:80 final size:80
Alignment explanation
Indices: 64515047--64515250 Score: 279
Period size: 80 Copynumber: 2.5 Consensus size: 80
64515037 TGGATGATAA
* * *
64515047 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGT-GACTAGT-TCCAGGCTAAGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAG-CTA-TATCCGGGCTAAGTCCCGAAGGCATT
* *
64515110 TGTGTGAGTTACTATAT
64 GGTGCGAGTTACTATAT
* *
64515127 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGGCATTG
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATATCCGGGCTAAGTCCCGAAGGCATTG
64515191 GTGCGAGTTACTATAT
65 GTGCGAGTTACTATAT
* *
64515207 CCGGGCTATGTCCCGAAGGCATTCGAGCAAGTAGCTATATCCGG
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGCTATATCCGG
64515251 TTAAATCTCG
Statistics
Matches: 111, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
79 3 0.03
80 107 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGCTATATCCGGGCTAAGTCCCGAAGGCATTGG
TGCGAGTTACTATAT
Found at i:64515250 original size:40 final size:40
Alignment explanation
Indices: 64515047--64515229 Score: 287
Period size: 40 Copynumber: 4.6 Consensus size: 40
64515037 TGGATGATAA
* * *
64515047 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
* *
64515087 CCAGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
64515127 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
64515167 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
64515207 CCGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
64515230 CGAGCAAGTA
Statistics
Matches: 133, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
39 1 0.01
40 132 0.99
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:64516949 original size:29 final size:27
Alignment explanation
Indices: 64516915--64517017 Score: 89
Period size: 29 Copynumber: 3.6 Consensus size: 27
64516905 TACTCAATCA
*
64516915 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * **
64516944 CGCACACATAGTGCCATATAGTCCAAATT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
64516973 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
64517002 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
64517018 ATCTCGTCAC
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
28 2 0.03
29 58 0.97
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:64523224 original size:29 final size:29
Alignment explanation
Indices: 64523192--64523298 Score: 108
Period size: 29 Copynumber: 3.7 Consensus size: 29
64523182 ATACCCTCCG
** *
64523192 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACATAGTGCCATATTTTTCC
* *
64523221 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACATAGTGCCATATTTTTCC
* * *
64523250 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACATAGTGCCATATTTTTCC
* *
64523279 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACATAGTGCCA
64523299 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
29 64 0.98
30 1 0.02
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACATAGTGCCATATTTTTCC
Found at i:64531154 original size:29 final size:29
Alignment explanation
Indices: 64531122--64531228 Score: 108
Period size: 29 Copynumber: 3.7 Consensus size: 29
64531112 ATACCCTCCG
** *
64531122 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACATAGTGCCATATTTTTCC
* *
64531151 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACATAGTGCCATATTTTTCC
* * *
64531180 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACATAGTGCCATATTTTTCC
* *
64531209 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACATAGTGCCA
64531229 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
29 64 0.98
30 1 0.02
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACATAGTGCCATATTTTTCC
Found at i:64537529 original size:40 final size:40
Alignment explanation
Indices: 64537474--64537731 Score: 360
Period size: 40 Copynumber: 6.5 Consensus size: 40
64537464 TGGATGATAA
* * *
64537474 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
64537514 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
64537554 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
64537594 CCGGGCTAAGTCCCGAAGGCATTTGTCCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
64537634 CCGGGCTAAGTCCCAAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * * *
64537674 CCAGGCTATGTCCCGAAGGCATTCGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
64537714 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
64537732 TACTTGGCTT
Statistics
Matches: 200, Mismatches: 16, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
39 16 0.08
40 184 0.92
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:64553132 original size:49 final size:49
Alignment explanation
Indices: 64553051--64553179 Score: 138
Period size: 49 Copynumber: 2.7 Consensus size: 49
64553041 TGAAACACCA
* * *
64553051 TTTGTGG-CAAGCCACCACTGATATGCATATATACTT-CCATTAATATATT
1 TTTGTGGACAAGCCACCACTAATATGCAGATATA-TTGCCACTAATATA-T
* * *
64553100 TTTGTGGACAAGCCACCAC-AATTTGTAGATATATTGCCACTGATATAT
1 TTTGTGGACAAGCCACCACTAATATGCAGATATATTGCCACTAATATAT
* * *
64553148 TTTGTGGACAAGCCACCATTGATTTGCAGATA
1 TTTGTGGACAAGCCACCACTAATATGCAGATA
64553180 ACTATCACTA
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
48 21 0.31
49 36 0.53
50 11 0.16
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.34
Consensus pattern (49 bp):
TTTGTGGACAAGCCACCACTAATATGCAGATATATTGCCACTAATATAT
Found at i:64555419 original size:42 final size:43
Alignment explanation
Indices: 64555316--64555471 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 43
64555306 TGAGACATCG
* * *
64555316 TGTAAGACCGTGTCTGGGACA-CAGGC-TTGA-ATTGAGATTTACG
1 TGTAAGACCATGTCTGGGACATC-GGCATCGATATT--GATTTACA
*
64555359 TATAAGACCATGTCTGGGACATCGGCATCG-TATCTGATTT-CA
1 TGTAAGACCATGTCTGGGACATCGGCATCGATAT-TGATTTACA
* **
64555401 TGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGATTTACA
1 TGTAAGACCATGTCTGGGACATCGGCATCGATATTGATTTACA
* * *
64555444 TGTAAAACCATGTCCGGGACGTCGGCAT
1 TGTAAGACCATGTCTGGGACATCGGCAT
64555472 TGTACTTGTT
Statistics
Matches: 93, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
42 33 0.35
43 54 0.58
44 5 0.05
45 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATCGGCATCGATATTGATTTACA
Found at i:64555454 original size:85 final size:84
Alignment explanation
Indices: 64555316--64555471 Score: 206
Period size: 85 Copynumber: 1.8 Consensus size: 84
64555306 TGAGACATCG
* * * * *
64555316 TGTAAGACCGTGTCTGGGACACAGGCTTGAATTGAGATTTACGTATAAGACCATGTCTGGGACAT
1 TGTAAGACCCTGTCTGGGACACAGGCTCGAATT-AGATTTACATATAAAACCATGTCCGGGACAT
64555381 CGGCATCGTATCTGATTTCA
65 CGGCATCGTATCTGATTTCA
* * *
64555401 TGTAAGACCCTGTCTGGGACAGAGGCATCGATATT-GATTTACATGTAAAACCATGTCCGGGACG
1 TGTAAGACCCTGTCTGGGACACAGGC-TCGA-ATTAGATTTACATATAAAACCATGTCCGGGACA
64555465 TCGGCAT
64 TCGGCAT
64555472 TGTACTTGTT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
85 55 0.90
86 3 0.05
87 3 0.05
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (84 bp):
TGTAAGACCCTGTCTGGGACACAGGCTCGAATTAGATTTACATATAAAACCATGTCCGGGACATC
GGCATCGTATCTGATTTCA
Found at i:64557664 original size:29 final size:29
Alignment explanation
Indices: 64557624--64557726 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
64557614 GTTGAGAGAT
*
64557624 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
64557653 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
* **
64557682 TGGCACTAAGTGTGCGAG-TTTAAAGTATA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TGCA
64557711 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
64557727 CGGCTGATTA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 5 0.07
29 64 0.93
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Found at i:64569010 original size:29 final size:29
Alignment explanation
Indices: 64568970--64569072 Score: 136
Period size: 29 Copynumber: 3.6 Consensus size: 29
64568960 GTTGAGAGAT
*
64568970 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
64568999 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
* * **
64569028 TGGCACTAAGTGTGTGAG-TTTAAAGTATA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TGCA
*
64569057 TGGGACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
64569073 CGGCTGATTA
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
28 5 0.08
29 61 0.92
ACGTcount: A:0.26, C:0.14, G:0.33, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Found at i:64571221 original size:7 final size:7
Alignment explanation
Indices: 64571209--64571250 Score: 77
Period size: 7 Copynumber: 6.1 Consensus size: 7
64571199 GTGTATATAA
64571209 GTTTAGG
1 GTTTAGG
64571216 GTTTAGG
1 GTTTAGG
64571223 GTTTAGG
1 GTTTAGG
64571230 GTTTA-G
1 GTTTAGG
64571236 GTTTAGG
1 GTTTAGG
64571243 GTTTAGG
1 GTTTAGG
64571250 G
1 G
64571251 ATGACTCCTG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.18
7 28 0.82
ACGTcount: A:0.14, C:0.00, G:0.43, T:0.43
Consensus pattern (7 bp):
GTTTAGG
Found at i:64571240 original size:13 final size:13
Alignment explanation
Indices: 64571209--64571249 Score: 73
Period size: 13 Copynumber: 3.1 Consensus size: 13
64571199 GTGTATATAA
64571209 GTTTAGGGTTTAGG
1 GTTTAGGGTTTA-G
64571223 GTTTAGGGTTTAG
1 GTTTAGGGTTTAG
64571236 GTTTAGGGTTTAG
1 GTTTAGGGTTTAG
64571249 G
1 G
64571250 GATGACTCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 15 0.56
14 12 0.44
ACGTcount: A:0.15, C:0.00, G:0.41, T:0.44
Consensus pattern (13 bp):
GTTTAGGGTTTAG
Found at i:64571240 original size:20 final size:21
Alignment explanation
Indices: 64571209--64571250 Score: 77
Period size: 20 Copynumber: 2.0 Consensus size: 21
64571199 GTGTATATAA
64571209 GTTTAGGGTTTAGGGTTTAGG
1 GTTTAGGGTTTAGGGTTTAGG
64571230 GTTTA-GGTTTAGGGTTTAGG
1 GTTTAGGGTTTAGGGTTTAGG
64571250 G
1 G
64571251 ATGACTCCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.14, C:0.00, G:0.43, T:0.43
Consensus pattern (21 bp):
GTTTAGGGTTTAGGGTTTAGG
Found at i:64573255 original size:28 final size:28
Alignment explanation
Indices: 64573223--64573321 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
64573213 GCAATAAGCC
*
64573223 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
64573251 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
64573279 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
64573308 CGCACACTTAGTGC
1 CGCACACTTAGTGC
64573322 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:64580936 original size:28 final size:28
Alignment explanation
Indices: 64580904--64581002 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
64580894 GCAATAAGCC
*
64580904 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
64580932 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
64580960 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
64580989 CGCACACTTAGTGC
1 CGCACACTTAGTGC
64581003 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:64582630 original size:64 final size:64
Alignment explanation
Indices: 64582525--64582648 Score: 230
Period size: 64 Copynumber: 1.9 Consensus size: 64
64582515 GATGGACTAA
64582525 ACGAAGATATCCGTCTGTTAGTTGGGATTTTGGAAAGTAAAGAAATGGTAGTGCTCGTTGTGCT
1 ACGAAGATATCCGTCTGTTAGTTGGGATTTTGGAAAGTAAAGAAATGGTAGTGCTCGTTGTGCT
* *
64582589 ACGAAGATATCCGTCTGTTAGTTGGGATTTTGGAAATTAAAGAAATGGTAGTGTTCGTTG
1 ACGAAGATATCCGTCTGTTAGTTGGGATTTTGGAAAGTAAAGAAATGGTAGTGCTCGTTG
64582649 AGCAAGCATG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.27, C:0.10, G:0.29, T:0.34
Consensus pattern (64 bp):
ACGAAGATATCCGTCTGTTAGTTGGGATTTTGGAAAGTAAAGAAATGGTAGTGCTCGTTGTGCT
Found at i:64596148 original size:27 final size:28
Alignment explanation
Indices: 64596092--64596161 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
64596082 AAATTTGTAC
64596092 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
64596120 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
64596147 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
64596162 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:64596172 original size:27 final size:27
Alignment explanation
Indices: 64596092--64596173 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
64596082 AAATTTGTAC
* *
64596092 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
64596120 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
64596147 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
64596174 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:64604020 original size:27 final size:27
Alignment explanation
Indices: 64603912--64604008 Score: 176
Period size: 27 Copynumber: 3.6 Consensus size: 27
64603902 AAATTTGTAC
*
64603912 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAG-TTGATTATAT
64603940 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTATAT
64603967 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTATAT
64603994 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
64604009 GACTCACTAT
Statistics
Matches: 68, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
27 51 0.75
28 17 0.25
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATAT
Found at i:64604020 original size:54 final size:55
Alignment explanation
Indices: 64603912--64604020 Score: 159
Period size: 54 Copynumber: 2.0 Consensus size: 55
64603902 AAATTTGTAC
* * *
64603912 AGCACTAAGTGTGCGAGTTTGATCATATAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATATAGCACTAAGTGTGCGAGCTCACTATAT
*
64603967 AGCACTAAGTGTGCGAG-TTGATTATATAGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATATAGCACTAAGTGTGCGAG-CTCACTATAT
64604021 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
53 1 0.02
54 31 0.63
55 17 0.35
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTTGATCATATAGCACTAAGTGTGCGAGCTCACTATAT
Found at i:64606874 original size:66 final size:69
Alignment explanation
Indices: 64606744--64606874 Score: 160
Period size: 66 Copynumber: 1.9 Consensus size: 69
64606734 GGGATGTATC
* * *
64606744 CCATGTAGACAAGAGAGCTACGGGAGAGGATAAATGTAGCTAGGTCGCATGTGTGATTCCAAGTG
1 CCATGTAGACAAGAGAGCTAC--G-GAGGATAAATGTAGCTAGGTCACATGGGTGATACCAAGTG
64606809 AAAGACA
63 AAAGACA
* * *
64606816 CCATGTAGACAAGAGAGCTAC-GA-GATAAAT-TGGCTAGGTCACATGGGTGGTACTAAGTG
1 CCATGTAGACAAGAGAGCTACGGAGGATAAATGTAGCTAGGTCACATGGGTGATACCAAGTG
64606875 TTCACCATGT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
66 23 0.43
67 7 0.13
68 2 0.04
72 21 0.40
ACGTcount: A:0.34, C:0.15, G:0.31, T:0.21
Consensus pattern (69 bp):
CCATGTAGACAAGAGAGCTACGGAGGATAAATGTAGCTAGGTCACATGGGTGATACCAAGTGAAA
GACA
Found at i:64610894 original size:19 final size:19
Alignment explanation
Indices: 64610870--64610909 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
64610860 GACGCATGAC
64610870 TTGGAGTTGGTAGTGGTGA
1 TTGGAGTTGGTAGTGGTGA
64610889 TTGGAGTTGGTAGTGGTGA
1 TTGGAGTTGGTAGTGGTGA
64610908 TT
1 TT
64610910 TTCATACTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.45, T:0.40
Consensus pattern (19 bp):
TTGGAGTTGGTAGTGGTGA
Found at i:64612803 original size:137 final size:136
Alignment explanation
Indices: 64612545--64612886 Score: 445
Period size: 137 Copynumber: 2.5 Consensus size: 136
64612535 TCCCATCCAC
* * * * * *
64612545 GGTCTTATTTATCTT-TGACATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TA
1 GGTCTTATTTAT-TTCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATA
* ** * *
64612608 TCATGTTGCCATGGTATCTTTCAACCATGGTCATATTCATTTCATGTCACGCTGCCATGGTATCT
64 TCA-GGTGCCATGGTATCTTTCAACCATGGTCATACACATTTCATATCACGCTACCATGGTATCT
64612673 TTCAACCAT
128 TTCAACCAT
*
64612682 GGTCTTATTTATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATAT
1 GGTCTTATTTATTT-CTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* * *
64612747 CAGGTGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGCTACCATGGTATCTTT
65 CAGGTGCCATGGTATCTTTCAACCATGGTCATACACATTTCATATCACGCTACCATGGTATCTTT
64612812 CAACCAT
130 CAACCAT
*** * *
64612819 GGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 GGTCTTATTTATTTC-TGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
64612884 CAG
65 CAG
64612887 AGAGCACACT
Statistics
Matches: 180, Mismatches: 21, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
136 3 0.02
137 138 0.77
138 39 0.22
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.39
Consensus pattern (136 bp):
GGTCTTATTTATTTCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATC
AGGTGCCATGGTATCTTTCAACCATGGTCATACACATTTCATATCACGCTACCATGGTATCTTTC
AACCAT
Found at i:64612886 original size:46 final size:46
Alignment explanation
Indices: 64612568--64612886 Score: 426
Period size: 46 Copynumber: 7.0 Consensus size: 46
64612558 TTTGACATGA
* * * * *
64612568 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* ** * * *
64612614 TGCCATGGTATCTTTCAACCATGGTCATATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*** * * *
64612660 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
64612706 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGG-
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
64612751 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
64612797 TACCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
64612843 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
64612887 AGAGCACACT
Statistics
Matches: 247, Mismatches: 24, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
45 49 0.20
46 198 0.80
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:64614025 original size:20 final size:20
Alignment explanation
Indices: 64614000--64614037 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
64613990 GTTTATTCGC
*
64614000 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
64614020 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
64614038 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:64615698 original size:28 final size:28
Alignment explanation
Indices: 64615666--64615734 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
64615656 GCGTAGATCA
64615666 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
64615694 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
64615722 CGATA-TACCCCTA
1 CGAAATTACCCCTA
64615735 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:64618437 original size:27 final size:28
Alignment explanation
Indices: 64618381--64618450 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
64618371 AAACTTGTAC
64618381 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
64618409 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
64618436 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
64618451 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:64618461 original size:27 final size:27
Alignment explanation
Indices: 64618381--64618462 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
64618371 AAACTTGTAC
* *
64618381 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
64618409 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
64618436 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
64618463 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:64624679 original size:27 final size:28
Alignment explanation
Indices: 64624623--64624692 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
64624613 AAACTTGTAC
64624623 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
64624651 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
64624678 AGCACTAAGCGTGCG
1 AGCACTAAGTGTGCG
64624693 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:64624703 original size:27 final size:27
Alignment explanation
Indices: 64624647--64624704 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
64624637 GAGTTTGATC
* * * *
64624647 ATATAGCACTAAGTGTGCGAGTTGATT
1 ATATAGCACTAAGCGTGCGAGCTCACT
64624674 ATATAGCACTAAGCGTGCG-GACTCACT
1 ATATAGCACTAAGCGTGCGAG-CTCACT
64624701 ATAT
1 ATAT
64624705 GCTTTTGAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.29
Consensus pattern (27 bp):
ATATAGCACTAAGCGTGCGAGCTCACT
Found at i:64629414 original size:16 final size:16
Alignment explanation
Indices: 64629393--64629425 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
64629383 TCGGCAAATC
*
64629393 CCAAAATGTCGAAAAG
1 CCAAAATGCCGAAAAG
64629409 CCAAAATGCCGAAAAG
1 CCAAAATGCCGAAAAG
64629425 C
1 C
64629426 TGAAAGTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.24, G:0.18, T:0.09
Consensus pattern (16 bp):
CCAAAATGCCGAAAAG
Found at i:64629696 original size:29 final size:28
Alignment explanation
Indices: 64629644--64629737 Score: 136
Period size: 28 Copynumber: 3.3 Consensus size: 28
64629634 ATTGCATGAC
64629644 TATGAATGTGATTGGGCCTAATGGGCCA
1 TATGAATGTGATTGGGCCTAATGGGCCA
64629672 TATGAATGTGATTTGGGCCTAATGGGCCA
1 TATGAATGTGA-TTGGGCCTAATGGGCCA
* *
64629701 TATGAAAT-AGATTGGGCCTAGTGGGCCA
1 TATG-AATGTGATTGGGCCTAATGGGCCA
*
64629729 TATGCATGT
1 TATGAATGT
64629738 ATGTAGACTT
Statistics
Matches: 59, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
27 2 0.03
28 31 0.53
29 23 0.39
30 3 0.05
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.30
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTAATGGGCCA
Found at i:64632268 original size:38 final size:38
Alignment explanation
Indices: 64632187--64632330 Score: 189
Period size: 38 Copynumber: 3.7 Consensus size: 38
64632177 GAATCCAGTC
* * * *
64632187 ACCAGCACAAAGCCTGCAGAACTTTAAGCCCGGATATAGT
1 ACCAGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATATT
* * *
64632227 ACCAGTACTAAGCCTACGGGATTTAACCCGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
64632265 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
* *
64632303 ACCAGGACGAAGCCTGCGGGACTTAACC
1 ACCAGCACGAAGCCTGCGGGATTTAACC
64632331 TAGATACGTA
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
38 72 0.77
39 5 0.05
40 16 0.17
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
Found at i:64636456 original size:39 final size:39
Alignment explanation
Indices: 64636413--64636595 Score: 294
Period size: 39 Copynumber: 4.7 Consensus size: 39
64636403 CATGGTATTT
*
64636413 GAAATATATCCAGACATGAGGTCCGCAGGCTATATGCTG
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
64636452 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
* *
64636491 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTT
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
* * *
64636530 GTAATATATCCAGACATGAGGTCCGCAGGCTATATGCTA
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
* *
64636569 GAAATATATCCGGACTTGAAGTCCGCA
1 GAAATATATCCGGACATGAGGTCCGCA
64636596 AGCCACGTGC
Statistics
Matches: 133, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 133 1.00
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.24
Consensus pattern (39 bp):
GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
Found at i:64643017 original size:38 final size:38
Alignment explanation
Indices: 64642872--64643024 Score: 153
Period size: 38 Copynumber: 4.0 Consensus size: 38
64642862 CCGAATCCAG
* * * * *
64642872 TTACTAGCACAAAGCCTGCAGAACTTTAAGCCCAGATATA
1 TTACCAGCACGAAGCCTGCGGGAC-TTAA-CCCGGATATA
* * * **
64642912 GTACCAGCACTAAGCCTGCGGGATTTAACATGGATATA
1 TTACCAGCACGAAGCCTGCGGGACTTAACCCGGATATA
* * *
64642950 TTACCAGCACGAAGCTTGCGAGATTTAACCCGGATATA
1 TTACCAGCACGAAGCCTGCGGGACTTAACCCGGATATA
* *
64642988 TTACCAGTACGAAGCCTGCGGGACTTAACCCGAATAT
1 TTACCAGCACGAAGCCTGCGGGACTTAACCCGGATAT
64643025 GTATCGAGTG
Statistics
Matches: 93, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
38 71 0.76
39 4 0.04
40 18 0.19
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (38 bp):
TTACCAGCACGAAGCCTGCGGGACTTAACCCGGATATA
Found at i:64647023 original size:22 final size:23
Alignment explanation
Indices: 64646998--64647041 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
64646988 TTATCCCTAC
*
64646998 ATGGAGTGTAG-GGCTGGATGGA
1 ATGGAGTGTAGAGGATGGATGGA
64647020 ATGGAGTGTAGAGGATGGATGG
1 ATGGAGTGTAGAGGATGGATGG
64647042 GTAGGATCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.25, C:0.02, G:0.50, T:0.23
Consensus pattern (23 bp):
ATGGAGTGTAGAGGATGGATGGA
Found at i:64647135 original size:34 final size:34
Alignment explanation
Indices: 64647097--64647161 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
64647087 AGGCCCACAT
*
64647097 TGATACTGTTACT-ATATTGGGCTAAGGCCTACCC
1 TGATACTGTGACTGATA-TGGGCTAAGGCCTACCC
* *
64647131 TGATATTGTGACTGATATGGGCTTAGGCCTA
1 TGATACTGTGACTGATATGGGCTAAGGCCTA
64647162 GACTGTTCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
34 24 0.89
35 3 0.11
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (34 bp):
TGATACTGTGACTGATATGGGCTAAGGCCTACCC
Found at i:64651671 original size:41 final size:41
Alignment explanation
Indices: 64651615--64651707 Score: 150
Period size: 41 Copynumber: 2.3 Consensus size: 41
64651605 GGTGCAGTGG
* *
64651615 ACACACGGCCTGACTGCACGCTATGGGGCAAACTGTGTGTC
1 ACACACGGCCTGACTGCACACTATGGGGCAAACCGTGTGTC
*
64651656 ACACACGGCCTGACTGCACACTATGGGGCAGACCGTGTGTC
1 ACACACGGCCTGACTGCACACTATGGGGCAAACCGTGTGTC
*
64651697 ACATACGGCCT
1 ACACACGGCCT
64651708 AGCCACACGC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.23, C:0.31, G:0.28, T:0.18
Consensus pattern (41 bp):
ACACACGGCCTGACTGCACACTATGGGGCAAACCGTGTGTC
Found at i:64652587 original size:17 final size:17
Alignment explanation
Indices: 64652565--64652601 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
64652555 GAGTGGCCAA
64652565 TCCTAATCCCTCACAGC
1 TCCTAATCCCTCACAGC
64652582 TCCTAATCCCTCACAGC
1 TCCTAATCCCTCACAGC
64652599 TCC
1 TCC
64652602 AAGCCCACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.22, C:0.49, G:0.05, T:0.24
Consensus pattern (17 bp):
TCCTAATCCCTCACAGC
Found at i:64652969 original size:28 final size:28
Alignment explanation
Indices: 64652914--64653023 Score: 136
Period size: 28 Copynumber: 4.0 Consensus size: 28
64652904 AGCATGGCTG
* *
64652914 CCAGA-ACAGATA-TTGTGACAGAGTCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
* * *
64652940 CCAGATACAGATAGTTGTGGTAGGGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
* *
64652968 CCAGAAATAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
64652996 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
64653023 C
1 C
64653024 TAGAACGCTT
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
26 5 0.07
27 28 0.39
28 38 0.54
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.21
Consensus pattern (28 bp):
CCAGATACAGATATTTGTGGCAGAGCCA
Found at i:64653013 original size:55 final size:55
Alignment explanation
Indices: 64652921--64653028 Score: 146
Period size: 55 Copynumber: 2.0 Consensus size: 55
64652911 CTGCCAGAAC
* * *
64652921 AGATATTGTGACAGAGTCACCAGATACAGATAGTTGTGGTAGGGCCACCAGAAAT
1 AGATATTGTGACAGAGCCACCAGATACAGATAGTTGTGGCAGAGCCACCAGAAAT
* * *
64652976 AGATATTTGTGGCAGAGCCACCAGAT-CAGATATTTGTGGCAGAGCCACTAGAA
1 AGATA-TTGTGACAGAGCCACCAGATACAGATAGTTGTGGCAGAGCCACCAGAA
64653029 CGCTTCCTCC
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
55 28 0.61
56 18 0.39
ACGTcount: A:0.33, C:0.18, G:0.27, T:0.22
Consensus pattern (55 bp):
AGATATTGTGACAGAGCCACCAGATACAGATAGTTGTGGCAGAGCCACCAGAAAT
Found at i:64654165 original size:18 final size:18
Alignment explanation
Indices: 64654118--64654168 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
64654108 GGCTATAGAG
64654118 GAAAAGAAGAAGAAGAGGA
1 GAAAAGAAGAAG-AGAGGA
* *
64654137 -AATAGATGAAGAGAGGA
1 GAAAAGAAGAAGAGAGGA
64654154 GAAAAGAAGAAGAGA
1 GAAAAGAAGAAGAGA
64654169 AAAGAATTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 6 0.22
18 21 0.78
ACGTcount: A:0.61, C:0.00, G:0.35, T:0.04
Consensus pattern (18 bp):
GAAAAGAAGAAGAGAGGA
Found at i:64654174 original size:18 final size:18
Alignment explanation
Indices: 64654118--64654174 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
64654108 GGCTATAGAG
*
64654118 GAAAAGAAGAAGA-AGAG
1 GAAAAGAAGAAGAGAGAA
* *
64654135 GAAATAGATGAAGAGAGGA
1 GAAA-AGAAGAAGAGAGAA
*
64654154 GAAAAGAAGAAGAGAAAA
1 GAAAAGAAGAAGAGAGAA
64654172 GAA
1 GAA
64654175 TTGTCAGAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
17 4 0.12
18 22 0.69
19 6 0.19
ACGTcount: A:0.63, C:0.00, G:0.33, T:0.04
Consensus pattern (18 bp):
GAAAAGAAGAAGAGAGAA
Found at i:64655371 original size:48 final size:47
Alignment explanation
Indices: 64655300--64655534 Score: 226
Period size: 48 Copynumber: 4.9 Consensus size: 47
64655290 GTAAATTACT
* * *
64655300 GATGCCCTGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCAC-TATCAATGTC
* *
64655348 GATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TTAT-AATGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACTATCAATGT---C
* * * *
64655396 AACGCCATGTCCCAGACATGGTCTTACACTAG-TACACTTATCAACGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCT-CAC-TATCAATGTC
* * * * *
64655444 GATGCCATGTTCCAAACATGGTCTTTCACTAGCACAC-ATAATATGGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACTATCA-AT-GTC
*
64655492 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCAC-TATCA
64655535 CCCAAATGTC
Statistics
Matches: 152, Mismatches: 23, Indels: 22
0.77 0.12 0.11
Matches are distributed among these distances:
45 5 0.03
46 5 0.03
47 2 0.01
48 131 0.86
50 6 0.04
51 3 0.02
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.27
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACTATCAATGTC
Found at i:64655485 original size:96 final size:96
Alignment explanation
Indices: 64655307--64655534 Score: 278
Period size: 96 Copynumber: 2.4 Consensus size: 96
64655297 ACTGATGCCC
* * * * * *
64655307 TGTCCCAGACATGGTCTTACACTAGCT-CTCGTCTCAATGTCGATGCCATGTCCCAGACATGGTC
1 TGTCCCAGACATGGTCTTACACTAG-TACACATATCAACGCCGATGCCATGTCCCAAACATGGTC
* * ** *
64655371 TTACACTGGCTCTTATAATGTGGCCAACGCCA
65 TTACACTAGCACACATAATATGGCCAACGCCA
* *
64655403 TGTCCCAGACATGGTCTTACACTAGTACACTTATCAACGCCGATGCCATGTTCCAAACATGGTCT
1 TGTCCCAGACATGGTCTTACACTAGTACACATATCAACGCCGATGCCATGTCCCAAACATGGTCT
* * * *
64655468 TTCACTAGCACACATAATATGGTCGATGCCA
66 TACACTAGCACACATAATATGGCCAACGCCA
*
64655499 TGTCCCAGACATGGTCTTACACTAGCACACATATCA
1 TGTCCCAGACATGGTCTTACACTAGTACACATATCA
64655535 CCCAAATGTC
Statistics
Matches: 113, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
95 1 0.01
96 112 0.99
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (96 bp):
TGTCCCAGACATGGTCTTACACTAGTACACATATCAACGCCGATGCCATGTCCCAAACATGGTCT
TACACTAGCACACATAATATGGCCAACGCCA
Found at i:64656812 original size:44 final size:44
Alignment explanation
Indices: 64656726--64656852 Score: 155
Period size: 44 Copynumber: 2.8 Consensus size: 44
64656716 GGCTGTTACA
* * * * * *
64656726 AAGTAAGACCATAGTTGAAAGACGTTATGGCATGATGGTTCTATT
1 AAGTAAGACCATAGCT-AAAAATGTTATGGCATCACGATTCTATT
*
64656771 GAGTAAGACCATAGCTAAAAATGTTATGGCATCACGATTCTATT
1 AAGTAAGACCATAGCTAAAAATGTTATGGCATCACGATTCTATT
* *
64656815 AAGTGAGACCATAGCTAAAAGATGTTATGACATCACGA
1 AAGTAAGACCATAGCTAAAA-ATGTTATGGCATCACGA
64656853 ATCAAAGAAA
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
44 41 0.58
45 30 0.42
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (44 bp):
AAGTAAGACCATAGCTAAAAATGTTATGGCATCACGATTCTATT
Found at i:64657252 original size:2 final size:2
Alignment explanation
Indices: 64657245--64657275 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
64657235 TAAAGGAAAG
64657245 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
64657276 AACTTAATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:64660603 original size:27 final size:28
Alignment explanation
Indices: 64660547--64660616 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
64660537 AAAATTGTAC
64660547 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
64660575 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
64660602 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
64660617 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:64660627 original size:27 final size:27
Alignment explanation
Indices: 64660547--64660628 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
64660537 AAAATTGTAC
* *
64660547 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
64660575 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
64660602 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
64660629 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:64668535 original size:27 final size:28
Alignment explanation
Indices: 64668479--64668547 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
64668469 AAAATTGTAC
64668479 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
64668507 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
64668534 AGCACT-AGTGTGCG
1 AGCACTAAGTGTGCG
64668548 GACTCACTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 8 0.20
27 15 0.38
28 17 0.43
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:64668558 original size:26 final size:27
Alignment explanation
Indices: 64668479--64668559 Score: 69
Period size: 28 Copynumber: 3.0 Consensus size: 27
64668469 AAAATTGTAC
* *
64668479 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
64668507 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
64668534 AGCACT-AGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
64668560 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
25 1 0.02
26 15 0.31
27 14 0.29
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:64671208 original size:25 final size:25
Alignment explanation
Indices: 64671160--64671208 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
64671150 CATAATTGAA
* *
64671160 ATGAAATAGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
64671185 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
64671209 ATGTGTATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:64671641 original size:18 final size:19
Alignment explanation
Indices: 64671618--64671703 Score: 59
Period size: 18 Copynumber: 4.3 Consensus size: 19
64671608 GAAATGACAA
64671618 AGATGAGAAATG-AATATG
1 AGATGAGAAATGTAATATG
*
64671636 AGATGAGAAAATGTTAAAATGG
1 AGATGAG-AAATG-TAATAT-G
*
64671658 AAAAGATGAGAAATG-ATTATG
1 ---AGATGAGAAATGTAATATG
* *
64671679 AAATGAGAAATGAAATATG
1 AGATGAGAAATGTAATATG
*
64671698 AAATGA
1 AGATGA
64671704 TGAATTGAGA
Statistics
Matches: 55, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
18 18 0.33
19 16 0.29
21 5 0.09
22 4 0.07
24 5 0.09
25 7 0.13
ACGTcount: A:0.53, C:0.00, G:0.24, T:0.22
Consensus pattern (19 bp):
AGATGAGAAATGTAATATG
Found at i:64675483 original size:28 final size:28
Alignment explanation
Indices: 64675443--64675534 Score: 150
Period size: 28 Copynumber: 3.3 Consensus size: 28
64675433 TGTACTAGAG
64675443 TACCCCTATGTATGCAAAATTACCATTA
1 TACCCCTATGTATGCAAAATTACCATTA
*
64675471 TACCCCTGTGTATGCAAAATTACCATTA
1 TACCCCTATGTATGCAAAATTACCATTA
*
64675499 TACCCCTATGTATGCAAAATGACC-TCTA
1 TACCCCTATGTATGCAAAATTACCAT-TA
64675527 TACCCCTA
1 TACCCCTA
64675535 GGGTTAATTT
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
27 1 0.02
28 59 0.98
ACGTcount: A:0.33, C:0.28, G:0.09, T:0.30
Consensus pattern (28 bp):
TACCCCTATGTATGCAAAATTACCATTA
Found at i:64675716 original size:27 final size:28
Alignment explanation
Indices: 64675640--64675728 Score: 87
Period size: 27 Copynumber: 3.2 Consensus size: 28
64675630 AGGAAGTGTC
*
64675640 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
64675668 CTGGTGGC-CTTGTCAC-GTATATCTGTT
1 CTGGTGGCAC-TGCCACAAAATATCTGTT
64675695 CTGGTGGCACTG-CACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
64675723 CTGGTG
1 CTGGTG
64675729 ACTCTATCAC
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
26 3 0.06
27 26 0.52
28 21 0.42
ACGTcount: A:0.19, C:0.21, G:0.25, T:0.35
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:64683380 original size:28 final size:28
Alignment explanation
Indices: 64683340--64683431 Score: 159
Period size: 28 Copynumber: 3.3 Consensus size: 28
64683330 TGTACTAGAG
64683340 TACCCCTATGTATGCAAAATTACCATTA
1 TACCCCTATGTATGCAAAATTACCATTA
64683368 TACCCCTATGTATGCAAAATTACCATTA
1 TACCCCTATGTATGCAAAATTACCATTA
*
64683396 TACCCCTATGTATGCAAAATGACC-TCTA
1 TACCCCTATGTATGCAAAATTACCAT-TA
64683424 TACCCCTA
1 TACCCCTA
64683432 GGGTTAATTT
Statistics
Matches: 62, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
27 1 0.02
28 61 0.98
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.30
Consensus pattern (28 bp):
TACCCCTATGTATGCAAAATTACCATTA
Found at i:64683596 original size:27 final size:27
Alignment explanation
Indices: 64683534--64683626 Score: 107
Period size: 28 Copynumber: 3.3 Consensus size: 27
64683524 TGGAGGAAGC
64683534 GTTCTGGTGGCTA-TGCCACAAATTATCT
1 GTTCTGGTGGC-ACTGCCACAAA-TATCT
* * **
64683562 GTTTTGGTGGCCCTGCCACGTATATCT
1 GTTCTGGTGGCACTGCCACAAATATCT
64683589 GTTCTGGTGGCACTGCCACAAAATATCT
1 GTTCTGGTGGCACTGCCAC-AAATATCT
64683617 GTATCTGGTG
1 GT-TCTGGTG
64683627 ACTCTGTCAC
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
27 22 0.41
28 25 0.46
29 7 0.13
ACGTcount: A:0.18, C:0.23, G:0.25, T:0.34
Consensus pattern (27 bp):
GTTCTGGTGGCACTGCCACAAATATCT
Found at i:64683637 original size:29 final size:28
Alignment explanation
Indices: 64683534--64683637 Score: 86
Period size: 28 Copynumber: 3.7 Consensus size: 28
64683524 TGGAGGAAGC
* *
64683534 GTTCTGGTGGCTA-TGCCACAAATTATCT
1 GTTCTGGTGAC-ACTGCCACAAAATATCT
* * * **
64683562 GTTTTGGTGGCCCTGCCAC-GTATATCT
1 GTTCTGGTGACACTGCCACAAAATATCT
*
64683589 GTTCTGGTGGCACTGCCACAAAATATCT
1 GTTCTGGTGACACTGCCACAAAATATCT
* *
64683617 GTATCTGGTGACTCTGTCACA
1 GT-TCTGGTGACACTGCCACA
64683638 TTTTCTGTAT
Statistics
Matches: 61, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
27 22 0.36
28 24 0.39
29 15 0.25
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (28 bp):
GTTCTGGTGACACTGCCACAAAATATCT
Found at i:64683645 original size:55 final size:55
Alignment explanation
Indices: 64683534--64683651 Score: 132
Period size: 55 Copynumber: 2.1 Consensus size: 55
64683524 TGGAGGAAGC
* * * *
64683534 GTTCTGGTGGCTATGCCACAAATTATCTGTTTTGGTGGCCCTGCCACGTATATCT
1 GTTCTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCT
* * *
64683589 GTTCTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCT
1 GTTCTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCT
64683644 GTATCTGG
1 GT-TCTGG
64683652 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
54 1 0.02
55 33 0.62
56 19 0.36
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (55 bp):
GTTCTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCT
Found at i:64687288 original size:46 final size:46
Alignment explanation
Indices: 64687145--64687505 Score: 313
Period size: 46 Copynumber: 7.7 Consensus size: 46
64687135 GTTATTGTTG
* * * *
64687145 GCTATTGTAAGACATGTCTGGGATATGCATCGGCCAC-ATTACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACGAGA
* * * *
64687191 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGAGA
64687239 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-AGA
* *
64687285 GCTAGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATGATA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGAGA
* * *
64687331 GTTAGTGTAAGACATGTCTAGGACATGCATTGGCCTCGAGACGTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-AGA
* * * * * *
64687377 GCCAGTGTAACATATGTCTGGGACATGCATCGG-CTACTAGATGATA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGAGA
* ** ** * *
64687423 G-TCAGTGTAAGACCATGTTTGGGACATGGCATC-AACTTAAGATGCGA
1 GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGAGA
* *
64687470 GCCAGTGTAAGATCATGTCTAGGACATGGCATCGGC
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
64687506 ACCTTACGCA
Statistics
Matches: 259, Mismatches: 40, Indels: 30
0.79 0.12 0.09
Matches are distributed among these distances:
45 6 0.02
46 144 0.56
47 77 0.30
48 31 0.12
49 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGAGA
Found at i:64687355 original size:92 final size:92
Alignment explanation
Indices: 64687150--64687505 Score: 387
Period size: 92 Copynumber: 3.8 Consensus size: 92
64687140 TGTTGGCTAT
* * *
64687150 TGTAAGACATGTCTGGGATATGCATCGGCCAC-ATTACG-AGAGCCAGTGTAAGACCATGTCTGG
1 TGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACGTA-AGCCAGTGTAAGA-CATGTCTGG
* * * * *
64687213 GACATGGCATCGAC-ATTGAGACGAGAGCTAG
63 GACAT-GCATCGGCTA-CGAGATGATAGTTAG
*
64687244 TGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAAGCTAGTGTAAGACATGTCTGGGAC
1 TGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAAGCCAGTGTAAGACATGTCTGGGAC
64687309 ATGCATCGGCTACGAGATGATAGTTAG
66 ATGCATCGGCTACGAGATGATAGTTAG
* * * *
64687336 TGTAAGACATGTCTAGGACATGCATTGGCCTCGAGACGTAAGCCAGTGTAACATATGTCTGGGAC
1 TGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAAGCCAGTGTAAGACATGTCTGGGAC
* *
64687401 ATGCATCGGCTACTAGATGATAGTCAG
66 ATGCATCGGCTACGAGATGATAGTTAG
* ** ** * ** *
64687428 TGTAAGACCATGTTTGGGACATGGCATC-AACTTAAGATGCGAGCCAGTGTAAGATCATGTCTAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGTAAGCCAGTGTAAGA-CATGTCTGG
64687492 GACATGGCATCGGC
63 GACAT-GCATCGGC
64687506 ACCTTACGCA
Statistics
Matches: 226, Mismatches: 29, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
92 110 0.49
93 45 0.20
94 61 0.27
95 10 0.04
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (92 bp):
TGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAAGCCAGTGTAAGACATGTCTGGGAC
ATGCATCGGCTACGAGATGATAGTTAG
Found at i:64688414 original size:17 final size:17
Alignment explanation
Indices: 64688381--64688414 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
64688371 ATGATGATGA
* *
64688381 AAAAAGAAAAGAGAAAG
1 AAAAAGAAAAAAAAAAG
64688398 AAAAAGAAAAAAAAAAG
1 AAAAAGAAAAAAAAAAG
64688415 CTCTCATGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAAAAAAAAG
Found at i:64689772 original size:40 final size:40
Alignment explanation
Indices: 64689670--64689926 Score: 351
Period size: 40 Copynumber: 6.5 Consensus size: 40
64689660 TGGATGATAA
* * * *
64689670 CCGGGCTAAGTCCCAAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
64689710 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
64689749 CCGGGCTAAGTTCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
64689789 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
64689829 CCGGGCTATGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
64689869 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
64689909 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
64689927 TACTTGGCTT
Statistics
Matches: 200, Mismatches: 14, Indels: 7
0.90 0.06 0.03
Matches are distributed among these distances:
38 1 0.00
39 48 0.24
40 151 0.75
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:64698123 original size:46 final size:45
Alignment explanation
Indices: 64698070--64698379 Score: 261
Period size: 46 Copynumber: 6.6 Consensus size: 45
64698060 ATTGTTGGCT
* *
64698070 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTACGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGA-AGCC
* * * **
64698116 AGTGTAAGACCATGTCTGGGACATGGCATC-GACATTAAGATGAGAGTT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-CATGATGA-AGCC
*
64698164 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATG-AAGCC
* * * *
64698210 AGTGTAAGACATGTTTGGGACATGCATCGACTACGA-GATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATGA-AGCC
* * * * *
64698256 AGTGTAAGACCATGTTTGGGACATGGCATCGACTC-GA-GACTTAAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CACATGA-TGAAGCC
* * *
64698303 AGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGA-AGCC
64698349 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG
64698380 ACTTGAGACA
Statistics
Matches: 219, Mismatches: 29, Indels: 30
0.79 0.10 0.11
Matches are distributed among these distances:
45 11 0.05
46 94 0.43
47 77 0.35
48 37 0.17
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAAGCC
Done.