Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 72 of 378
Found at i:18923756 original size:94 final size:95
Alignment explanation
Indices: 18923595--18923783 Score: 353
Period size: 94 Copynumber: 2.0 Consensus size: 95
18923585 ACTTTTATTA
18923595 TCTTTGCTAACTATCGGACAGTGATTGTAAATGTCTACATGGCTTTCTTTTTTTCATAATATACA
1 TCTTTGCTAACTATCGGACAGTGATTGTAAATGTCTACATGGCTTTCTTTTTTTCATAATATACA
*
18923660 TATTT-AAATTTTCTGTTCTATGTCTGTTT
66 TATTTAAAATTTACTGTTCTATGTCTGTTT
18923689 TCTTTGCTAACTATCGGACAGTGATTGTAAATGTCTACATGGCTTTCTTTTTTTCATAATATACA
1 TCTTTGCTAACTATCGGACAGTGATTGTAAATGTCTACATGGCTTTCTTTTTTTCATAATATACA
*
18923754 TATTTAAAATTTACTGTTTTATGTCTGTTT
66 TATTTAAAATTTACTGTTCTATGTCTGTTT
18923784 CAGGTTGGGA
Statistics
Matches: 92, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
94 70 0.76
95 22 0.24
ACGTcount: A:0.24, C:0.14, G:0.13, T:0.49
Consensus pattern (95 bp):
TCTTTGCTAACTATCGGACAGTGATTGTAAATGTCTACATGGCTTTCTTTTTTTCATAATATACA
TATTTAAAATTTACTGTTCTATGTCTGTTT
Found at i:18940891 original size:24 final size:24
Alignment explanation
Indices: 18940864--18940909 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
18940854 TATAACTTTT
18940864 TATAATTAATATTTTAACAATTAA
1 TATAATTAATATTTTAACAATTAA
18940888 TATAATTAATATTTTAACAATT
1 TATAATTAATATTTTAACAATT
18940910 TAATTGTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (24 bp):
TATAATTAATATTTTAACAATTAA
Found at i:18941911 original size:44 final size:44
Alignment explanation
Indices: 18941862--18941951 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
18941852 TTTATGGAAG
18941862 TAAATATTCTCCCATTATTGCTACAATGTTATTGATCCTAGTTA
1 TAAATATTCTCCCATTATTGCTACAATGTTATTGATCCTAGTTA
18941906 TAAATATTCTCCCATTATTGCTACAATGTTATTGATCCTAGTTA
1 TAAATATTCTCCCATTATTGCTACAATGTTATTGATCCTAGTTA
18941950 TA
1 TA
18941952 CATAAAAACT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.30, C:0.18, G:0.09, T:0.43
Consensus pattern (44 bp):
TAAATATTCTCCCATTATTGCTACAATGTTATTGATCCTAGTTA
Found at i:18942462 original size:2 final size:2
Alignment explanation
Indices: 18942455--18942495 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
18942445 CAAATCTTAA
18942455 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18942496 AACATTAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:18947477 original size:13 final size:13
Alignment explanation
Indices: 18947459--18947485 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
18947449 ATATGTTAAT
18947459 TTATATTATTATA
1 TTATATTATTATA
18947472 TTATATTATTATA
1 TTATATTATTATA
18947485 T
1 T
18947486 ATAATAAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTATATTATTATA
Found at i:18948382 original size:16 final size:17
Alignment explanation
Indices: 18948351--18948383 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
18948341 TTCATAAGTA
18948351 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
18948368 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
18948384 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:18948785 original size:46 final size:46
Alignment explanation
Indices: 18948664--18949032 Score: 519
Period size: 46 Copynumber: 8.0 Consensus size: 46
18948654 TTATCTTTGA
* * * * * * *
18948664 CATGATGCCATAGTGTCTTTCAACTATGATCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATAT
18948710 CATGTTGCC-TGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
***
18948755 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
18948801 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
* ***
18948847 CACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
18948893 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
* **
18948939 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
* **
18948985 -AAGATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATG-TTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
18949031 CA
1 CA
18949033 GAGAGCACTC
Statistics
Matches: 294, Mismatches: 25, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
44 4 0.01
45 36 0.12
46 253 0.86
47 1 0.00
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
Found at i:18951194 original size:29 final size:30
Alignment explanation
Indices: 18951144--18951211 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
18951134 CACCCTTAAA
* * *
18951144 ATATTTTCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
*
18951174 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
18951203 AGTATTTAC
1 A-TATTTAC
18951212 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.28, C:0.19, G:0.04, T:0.49
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:18953265 original size:26 final size:26
Alignment explanation
Indices: 18953228--18953363 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
18953218 TGATACAAAT
* *
18953228 TGATAATAGGTTAAGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
18953254 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
18953280 TGATAATAGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
18953306 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
18953332 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
18953358 TGATAA
1 TGATAA
18953364 GAATTTCATG
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 103 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:18955024 original size:27 final size:27
Alignment explanation
Indices: 18954983--18955149 Score: 237
Period size: 27 Copynumber: 6.2 Consensus size: 27
18954973 GAGGAAGCGT
*
18954983 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
18955010 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
18955037 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
18955064 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
18955091 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
18955119 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
18955145 TCTGG
1 TCTGG
18955150 CAGCCATGCT
Statistics
Matches: 129, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
26 5 0.04
27 109 0.84
28 15 0.12
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.34
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:18973370 original size:25 final size:28
Alignment explanation
Indices: 18973306--18973372 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
18973296 TATGATTAGA
*
18973306 ATATACT-AAAACTACTTTAGTTAGTAC
1 ATATACTGAAAACTACTCTAGTTAGTAC
*
18973333 ATTACACTGAAAAC-ACTCTAGTTAGT-C
1 A-TATACTGAAAACTACTCTAGTTAGTAC
18973360 -TATACTGAAAACT
1 ATATACTGAAAACT
18973373 GTAGTGAGAC
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
25 11 0.32
27 2 0.06
28 16 0.47
29 5 0.15
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (28 bp):
ATATACTGAAAACTACTCTAGTTAGTAC
Found at i:18980517 original size:47 final size:46
Alignment explanation
Indices: 18980360--18980719 Score: 226
Period size: 47 Copynumber: 7.7 Consensus size: 46
18980350 ATATATTGCC
* *
18980360 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCA-CATATAT-ACGTGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCT-ATC-TCTGTGA-G-GCT
* * * *
18980410 GATGCATGTCCCAGACATGTCTTACACTAGCATAACT-T-TTA-GCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-TATCTCTGTGAGGCT
* * *
18980454 GATGCGTGTCCTAGACACGTCTTACACTGGCTATCTCTGTCGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATCTCTGT-GAGGCT
* *
18980501 GATGCATGTCCCAGACATGTCTTACTCTAGCACTCATCTCTGT---GCT
1 GATGCATGTCCCAGACATGTCTTACACT-G-GCT-ATCTCTGTGAGGCT
* * *
18980547 GATGCCATGTCTCAGACATGGTCTTACACTAGC--TCTCATAAT-ATGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCTC-T-GTGA-GGCT
* * ** * *
18980595 GATGCATGTCCCAAACATGTCTTACACTAGCCCTCTTCTG-GATGCA
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATC-TCTGTGAGGCT
* *
18980641 GATGCCATGTCCCAGACATGATCTTACACTGGC--TCTCATAATGTGGCT
1 GATG-CATGTCCCAGACATG-TCTTACACTGGCTATCTC-T-GTGAGGCT
*
18980689 GAAGCATGTCCCAGACATGTCTTACACTGGC
1 GATGCATGTCCCAGACATGTCTTACACTGGC
18980720 GCACAAATCA
Statistics
Matches: 253, Mismatches: 31, Indels: 56
0.74 0.09 0.16
Matches are distributed among these distances:
43 8 0.03
44 31 0.12
45 4 0.02
46 44 0.17
47 83 0.33
48 51 0.20
49 20 0.08
50 12 0.05
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTATCTCTGTGAGGCT
Found at i:18980617 original size:141 final size:135
Alignment explanation
Indices: 18980360--18980716 Score: 369
Period size: 141 Copynumber: 2.5 Consensus size: 135
18980350 ATATATTGCC
*
18980360 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATATACGTGCTGATGCATGTCCCAGA
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-TAT--GTGCTGATGCATGTCCCAGA
* * * * * *
18980425 CATGTCTTACACTAGCATAACTTTTAGCCGATGCGTGTCCTAGACACGTCTTACACTGGCTATC-
62 CATGTCTTACACTAGCATAAC-TATAGCCGATGCATGTCCCAAACACGTCTTACACTAGCCATCT
*
18980489 TCTGTCGAGGCT
126 TCTG--GAGGCA
* * * * *
18980501 GATG-CATGTCCCAGACATGTCTTACTCTAGCACTCATCTCTGTGCTGATGCCATGTCTCAGACA
1 GATGCCATGTCCCAGACATGTCTTACACTGGCTCTCAT-TATGTGCTGATG-CATGTCCCAGACA
* * * *
18980565 TGGTCTTACACTAGCTCTCATAA-TATGGCTGATGCATGTCCCAAACATGTCTTACACTAGCCCT
64 T-GTCTTACACTAG----CATAACTATAGCCGATGCATGTCCCAAACACGTCTTACACTAGCCAT
*
18980629 CTTCTGGATGCA
124 CTTCTGGAGGCA
* *
18980641 GATGCCATGTCCCAGACATGATCTTACACTGGCTCTCATAATGTGGCTGAAGCATGTCCCAGACA
1 GATGCCATGTCCCAGACATG-TCTTACACTGGCTCTCATTATGT-GCTGATGCATGTCCCAGACA
18980706 TGTCTTACACT
64 TGTCTTACACT
18980717 GGCGCACAAA
Statistics
Matches: 180, Mismatches: 26, Indels: 21
0.79 0.11 0.09
Matches are distributed among these distances:
137 9 0.05
138 13 0.07
139 29 0.16
140 32 0.18
141 67 0.37
142 25 0.14
143 5 0.03
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.29
Consensus pattern (135 bp):
GATGCCATGTCCCAGACATGTCTTACACTGGCTCTCATTATGTGCTGATGCATGTCCCAGACATG
TCTTACACTAGCATAACTATAGCCGATGCATGTCCCAAACACGTCTTACACTAGCCATCTTCTGG
AGGCA
Found at i:18980645 original size:94 final size:93
Alignment explanation
Indices: 18980360--18980716 Score: 390
Period size: 94 Copynumber: 3.8 Consensus size: 93
18980350 ATATATTGCC
* *
18980360 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATATACGTGCTGATGCATGTCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATATG-GCTGATGCATGTCCCAGA
* * *
18980425 CATGTCTTACACTAG-CATAACTT-TTA-GCC
64 CATGTCTTACACTAGCCCT--CTTCTGATGCA
* * * *
18980454 GATG-CGTGTCCTAGACA-CGTCTTACACTGGCTATCTC-T-GTCGA-GGCTGATGCATGTCCCA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC--TCTCATAAT--ATGGCTGATGCATGTCCCA
* * *
18980514 GACATGTCTTACTCTAGCACTCATCTCTG-TGCT
62 GACATGTCTTACACTAGCCCTC-T-TCTGATGCA
* * *
18980547 GATGCCATGTCTCAGACATGGTCTTACACTAGCTCTCATAATATGGCTGATGCATGTCCCAAACA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATATGGCTGATGCATGTCCCAGACA
18980612 TGTCTTACACTAGCCCTCTTCTGGATGCA
66 TGTCTTACACTAGCCCTCTTCT-GATGCA
* * *
18980641 GATGCCATGTCCCAGACATGATCTTACACTGGCTCTCATAATGTGGCTGAAGCATGTCCCAGACA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATATGGCTGATGCATGTCCCAGACA
18980706 TGTCTTACACT
66 TGTCTTACACT
18980717 GGCGCACAAA
Statistics
Matches: 221, Mismatches: 26, Indels: 32
0.79 0.09 0.11
Matches are distributed among these distances:
90 1 0.00
91 34 0.15
92 19 0.09
93 27 0.12
94 127 0.57
95 13 0.06
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.29
Consensus pattern (93 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATATGGCTGATGCATGTCCCAGACA
TGTCTTACACTAGCCCTCTTCTGATGCA
Found at i:18981453 original size:12 final size:12
Alignment explanation
Indices: 18981436--18981460 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18981426 TAAAAATGTA
18981436 AAAATCATCAAG
1 AAAATCATCAAG
18981448 AAAATCATCAAG
1 AAAATCATCAAG
18981460 A
1 A
18981461 TCACTTACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:18988132 original size:48 final size:47
Alignment explanation
Indices: 18987957--18988269 Score: 207
Period size: 47 Copynumber: 6.6 Consensus size: 47
18987947 ATATATTACC
* *
18987957 GATGCCATGTCCCAGACATGGTCGTACACTGTCTCTCATAAATGC-GTGCT
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCTCTCAT--AT-CTGTGCT
* * * * *
18988007 GATG-CATGTTCCAAACATGTCTTACACTGGCTATCTC-TGTC-GAGGCC
1 GATGCCATGTCCCAGACATGTCTTACACTGGC--TCTCATATCTG-TGCT
* * * * *
18988054 GATG-CATATCCCAGACATGTCTTACTCTGGCACTCATCTCTGTGCC
1 GATGCCATGTCCCAGACATGTCTTACACTGGCTCTCATATCTGTGCT
* * *
18988100 GATGCCATGCCCCAGACATGGTCTTGCACTGGCTCTCATAATATG-GCT
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-ATCTGTGCT
* * * * *
18988148 GATG-CATGTCCTAGACATGTCTTACACTAGC-C-CTTGTCTGGATGTT
1 GATGCCATGTCCCAGACATGTCTTACACTGGCTCTCATATCT-G-TGCT
* *
18988194 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATGTGGCC
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCTCTCATATCTGT-GCT
* * *
18988242 GAAG-TATGTCCTAGACATGTCTTACACT
1 GATGCCATGTCCCAGACATGTCTTACACT
18988270 AGCGTACAAA
Statistics
Matches: 207, Mismatches: 40, Indels: 36
0.73 0.14 0.13
Matches are distributed among these distances:
43 2 0.01
44 3 0.01
45 4 0.02
46 39 0.19
47 81 0.39
48 50 0.24
49 18 0.09
50 10 0.05
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGTCTTACACTGGCTCTCATATCTGTGCT
Found at i:18988165 original size:94 final size:94
Alignment explanation
Indices: 18988050--18988272 Score: 288
Period size: 94 Copynumber: 2.4 Consensus size: 94
18988040 TCTCTGTCGA
* * * *
18988050 GGCCGATGCATATCCCAGACATGTCTTACTCTGGCACTCATCTCT-G-TGCCGATGCCATGCCCC
1 GGCCGATGCATGTCCTAGACATGTCTTACACTAGC-C-CATCTCTGGATGCCGATGCCATGCCCC
*
18988113 AGACATGGTCTTGCACTGGCTCTCATAATAT
64 AGACATGGTCTTACACTGGCTCTCATAATAT
* * * ** *
18988144 GGCTGATGCATGTCCTAGACATGTCTTACACTAGCCCTTGTCTGGATGTTGATGCCATGTCCCAG
1 GGCCGATGCATGTCCTAGACATGTCTTACACTAGCCCATCTCTGGATGCCGATGCCATGCCCCAG
*
18988209 ACATGGTCTTACACTGGCTCTCATAATGT
66 ACATGGTCTTACACTGGCTCTCATAATAT
* *
18988238 GGCCGAAGTATGTCCTAGACATGTCTTACACTAGC
1 GGCCGATGCATGTCCTAGACATGTCTTACACTAGC
18988273 GTACAAATCA
Statistics
Matches: 112, Mismatches: 15, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
92 5 0.04
93 2 0.02
94 105 0.94
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.29
Consensus pattern (94 bp):
GGCCGATGCATGTCCTAGACATGTCTTACACTAGCCCATCTCTGGATGCCGATGCCATGCCCCAG
ACATGGTCTTACACTGGCTCTCATAATAT
Found at i:18990981 original size:13 final size:13
Alignment explanation
Indices: 18990965--18990994 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
18990955 ATATATTAAT
*
18990965 TTATATTATTATA
1 TTATACTATTATA
18990978 TTATACTATTATA
1 TTATACTATTATA
18990991 TTAT
1 TTAT
18990995 TATATATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (13 bp):
TTATACTATTATA
Found at i:18991593 original size:41 final size:42
Alignment explanation
Indices: 18991522--18991601 Score: 117
Period size: 41 Copynumber: 1.9 Consensus size: 42
18991512 CGACCTCAAG
18991522 TCGATGAGGCACTATATGTGTCATAATATTGCTTCAGATAATT
1 TCGATGAGGCAC-ATATGTGTCATAATATTGCTTCAGATAATT
* * *
18991565 TCGATGAGGCAC-TATGTGTCGTATTATTGGTTCAGAT
1 TCGATGAGGCACATATGTGTCATAATATTGCTTCAGAT
18991602 TAAATCTGAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 22 0.65
43 12 0.35
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.38
Consensus pattern (42 bp):
TCGATGAGGCACATATGTGTCATAATATTGCTTCAGATAATT
Found at i:18994610 original size:44 final size:44
Alignment explanation
Indices: 18994560--18994650 Score: 128
Period size: 44 Copynumber: 2.1 Consensus size: 44
18994550 TACCATGCTC
* * * *
18994560 GTAAGTGTGACATGTTCACCTGCTGTGAATCGCTTTGACCTTTA
1 GTAAGTGTGACATGTCCACCTGCTATGAACCACTTTGACCTTTA
* *
18994604 GTAAGTGTGACATGTCCATCTGTTATGAACCACTTTGACCTTTA
1 GTAAGTGTGACATGTCCACCTGCTATGAACCACTTTGACCTTTA
18994648 GTA
1 GTA
18994651 CCCAACAGAC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (44 bp):
GTAAGTGTGACATGTCCACCTGCTATGAACCACTTTGACCTTTA
Found at i:18994789 original size:32 final size:32
Alignment explanation
Indices: 18994748--18994811 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
18994738 TTTCTTAGTA
18994748 GTTTTCCCTTTGAAGAGGAATAATCTTGATAG
1 GTTTTCCCTTTGAAGAGGAATAATCTTGATAG
18994780 GTTTTCCCTTTGAAGAGGAATAATCTTGATAG
1 GTTTTCCCTTTGAAGAGGAATAATCTTGATAG
18994812 ACATATCTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (32 bp):
GTTTTCCCTTTGAAGAGGAATAATCTTGATAG
Found at i:18996401 original size:25 final size:25
Alignment explanation
Indices: 18996370--18996420 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
18996360 GAAAAAGATG
18996370 TAGAAGAGGAGAAAATGAAACAGAA
1 TAGAAGAGGAGAAAATGAAACAGAA
18996395 TAGAAGAGGAGAAAATGAAACAGAA
1 TAGAAGAGGAGAAAATGAAACAGAA
18996420 T
1 T
18996421 TAAGATGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.59, C:0.04, G:0.27, T:0.10
Consensus pattern (25 bp):
TAGAAGAGGAGAAAATGAAACAGAA
Found at i:19003095 original size:45 final size:46
Alignment explanation
Indices: 19003031--19003201 Score: 210
Period size: 45 Copynumber: 3.7 Consensus size: 46
19003021 AACCCGCCCC
*
19003031 TAAGTGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
*
19003076 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C--GTTCGCATCCA
* * *
19003124 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
19003169 T-AGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
19003202 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 7, Indels: 20
0.80 0.05 0.15
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 3 0.03
45 62 0.57
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
Found at i:19003147 original size:92 final size:92
Alignment explanation
Indices: 19003036--19003204 Score: 304
Period size: 92 Copynumber: 1.8 Consensus size: 92
19003026 GCCCCTAAGT
*
19003036 GAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCAT-AGTGAACTCGGACTCAACTCAA
19003100 CGAGTTCGGATGCCTAGTTACATCTCAC
65 CGAGTTCGGATGCCTAGTTACATCTCAC
*
19003128 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAGTGAACTCGGACTCAACTCAAC
19003193 GAGTTCGGATGC
66 GAGTTCGGATGC
19003205 TCAACCATCC
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 62 0.84
93 12 0.16
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:19003640 original size:30 final size:30
Alignment explanation
Indices: 19003606--19003665 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
19003596 ATTTAATACG
19003606 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
19003636 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
19003666 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:19010692 original size:93 final size:93
Alignment explanation
Indices: 19010585--19010755 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
19010575 GCCCCTAAGT
* *
19010585 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
19010650 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
19010678 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
19010743 CGAGTTCGGATGC
66 CGAGTTCGGATGC
19010756 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:19010752 original size:46 final size:46
Alignment explanation
Indices: 19010580--19010752 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
19010570 AACCCGCCCC
* * *
19010580 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
19010626 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
19010674 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
19010719 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
19010753 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:19011193 original size:30 final size:30
Alignment explanation
Indices: 19011159--19011218 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
19011149 ATTTAATACG
19011159 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
19011189 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
19011219 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:19025567 original size:15 final size:15
Alignment explanation
Indices: 19025549--19025586 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
19025539 TCATTATAAA
*
19025549 ATTAATTTATATATT
1 ATTAATTTACATATT
*
19025564 ATTATTTTACATATT
1 ATTAATTTACATATT
19025579 ATTAATTT
1 ATTAATTT
19025587 TTGTTCTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTAATTTACATATT
Found at i:19032174 original size:29 final size:29
Alignment explanation
Indices: 19032132--19032193 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
19032122 TTCACTTAAG
*
19032132 ATAGTCAAATGGATCATAGAAATCATGAA
1 ATAGTCAAATGGATCAGAGAAATCATGAA
19032161 ATAGTCAAATGGATCAGAGAAATCATGAA
1 ATAGTCAAATGGATCAGAGAAATCATGAA
19032190 ATAG
1 ATAG
19032194 GAAAAATATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.48, C:0.10, G:0.19, T:0.23
Consensus pattern (29 bp):
ATAGTCAAATGGATCAGAGAAATCATGAA
Found at i:19040973 original size:23 final size:22
Alignment explanation
Indices: 19040935--19041009 Score: 54
Period size: 22 Copynumber: 3.5 Consensus size: 22
19040925 TATAAAACCT
*
19040935 AATAAAAATAAGCTTAGAGA-AA
1 AATAAAAATAAGCTTA-AAATAA
19040957 AATAAAAAGT-AGTCTTAAAATAA
1 AATAAAAA-TAAG-CTTAAAATAA
*
19040980 AAT-AAAATAA-C--AACATAA
1 AATAAAAATAAGCTTAAAATAA
19040998 AATAATAAATAA
1 AATAA-AAATAA
19041010 AAGTTTTTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
18 9 0.20
19 1 0.02
20 7 0.16
21 1 0.02
22 17 0.38
23 10 0.22
ACGTcount: A:0.67, C:0.05, G:0.07, T:0.21
Consensus pattern (22 bp):
AATAAAAATAAGCTTAAAATAA
Found at i:19043559 original size:27 final size:26
Alignment explanation
Indices: 19043523--19043638 Score: 142
Period size: 27 Copynumber: 4.3 Consensus size: 26
19043513 CAGCATGGCT
* *
19043523 ACCAGAACAGATAATGTGACAGAGTC
1 ACCAGAACAGATAATGTGGCAGAGCC
*
19043549 ACCAGATACAGATAATCATGGCAGAGCC
1 ACCAGA-ACAGATAAT-GTGGCAGAGCC
19043577 ACCAGAACAGATATATGTGGCAGAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
* * *
19043604 ACCAGATCAGATATTTGTGGCATAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
19043631 ACCAGAAC
1 ACCAGAAC
19043639 GTTTCCTCCA
Statistics
Matches: 79, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
26 6 0.08
27 57 0.72
28 16 0.20
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.16
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGGCAGAGCC
Found at i:19043581 original size:54 final size:54
Alignment explanation
Indices: 19043523--19043638 Score: 162
Period size: 54 Copynumber: 2.1 Consensus size: 54
19043513 CAGCATGGCT
*
19043523 ACCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCATGGCAGAGCC
1 ACCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCATGGCAGAGCC
* * ** *
19043577 ACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCC
1 ACCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCATGGCAGAGCC
19043631 ACCAGAAC
1 ACCAGAAC
19043639 GTTTCCTCCA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.16
Consensus pattern (54 bp):
ACCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCATGGCAGAGCC
Found at i:19044077 original size:8 final size:8
Alignment explanation
Indices: 19044051--19044080 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
19044041 CAAAATACCA
19044051 GCTTTTCG
1 GCTTTTCG
*
19044059 GCATTTCG
1 GCTTTTCG
19044067 GCTTTTCG
1 GCTTTTCG
19044075 GCTTTT
1 GCTTTT
19044081 GCCAATCTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.23, G:0.23, T:0.50
Consensus pattern (8 bp):
GCTTTTCG
Found at i:19045290 original size:26 final size:26
Alignment explanation
Indices: 19045254--19045363 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
19045244 CATTAAATTC
19045254 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
19045280 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
19045306 TTATCATGAAATATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
19045332 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
19045358 TTATCA
1 TTATCA
19045364 ATTTGTACCA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:19050012 original size:19 final size:18
Alignment explanation
Indices: 19049988--19050033 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
19049978 ACTTTTTAGT
*
19049988 TTTGCATTCATCTCATGCA
1 TTTGCATTCATCACAT-CA
19050007 TTTGCATTTCATCACATCA
1 TTTGCA-TTCATCACATCA
*
19050026 TGTGCATT
1 TTTGCATT
19050034 AAATTTCACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 13 0.54
20 9 0.38
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.43
Consensus pattern (18 bp):
TTTGCATTCATCACATCA
Found at i:19058639 original size:44 final size:43
Alignment explanation
Indices: 19058591--19058846 Score: 132
Period size: 44 Copynumber: 5.8 Consensus size: 43
19058581 AGCCACCAGC
*
19058591 CTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATACAAGT
1 CTTATCTCTCTAAGGTAGCAAG-GAGCAGATTGAAGATACAAGT
* * * *
19058635 CTTATCT-TCCTGAGGTAGCAAGGAAGCAAACTGAAAATTAC-AGAT
1 CTTATCTCT-CTAAGGTAGCAAGG-AGCAGATTGAAGA-TACAAG-T
* * * * *
19058680 CTTATCTCCCTAAGCAGTAG--TGTAGCAGATCGAAGATGGCGAA-T
1 CTTATCTCTCTAAG--GTAGCAAGGAGCAGATTGAAGAT-AC-AAGT
* * ** ** *
19058724 CTTATCTC-C-ATGTATCAGCAATGGAGCAGATTTTAGCCACCAGT
1 CTTATCTCTCTAAG-GT-AGCAA-GGAGCAGATTGAAGATACAAGT
* *
19058768 CTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGT
1 CTTATCTCTCTAAGGTAGCAAG-GAGCAGATTGAAGATACAAGT
* *
19058812 CTTATCT-TCCTAAGGTAACAAGGAGGCAGACTGAA
1 CTTATCTCT-CTAAGGTAGCAAGGA-GCAGATTGAA
19058847 AATTGCAGAT
Statistics
Matches: 153, Mismatches: 39, Indels: 40
0.66 0.17 0.17
Matches are distributed among these distances:
41 1 0.01
42 4 0.03
43 9 0.06
44 105 0.69
45 28 0.18
46 2 0.01
47 4 0.03
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.25
Consensus pattern (43 bp):
CTTATCTCTCTAAGGTAGCAAGGAGCAGATTGAAGATACAAGT
Found at i:19058789 original size:177 final size:177
Alignment explanation
Indices: 19058316--19058957 Score: 939
Period size: 177 Copynumber: 3.6 Consensus size: 177
19058306 GACATCAGTG
* * *
19058316 AAATTGCAGATCTTATCTCCCTAAGCAGTAATGAAGCAGATCGAAGATGGCGAATCTTATCTCCA
1 AAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGAATCTTATCTCCA
* * * *
19058381 TGTATCGATAATGGAGTAGATTTTAGCTACCAGCCTTATCTCTATGAGGTAGCAAGAGAGCAGGT
66 TGTATCGACAATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGT
* *
19058446 TGAAGATACAAGTCTTATCTTCCTGGGGTAGCAAGGAAG-AAGACTAA
131 TGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAA-ACTGA
* **
19058493 AAATTGCAGATCTTATCTCCCTAAG-AGTAGTGGAGCAGGTCAAAGATGGAAAATCTTATCTCCA
1 AAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGAATCTTATCTCCA
* * * *
19058557 TGTGTCGGCAATGGAGTAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGGT
66 TGTATCGACAATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGT
19058622 TGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAAACTGA
131 TGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAAACTGA
* * *
19058669 AAATTACAGATCTTATCTCCCTAAGCAGTAGTGTAGCAGATCGAAGATGGCGAATCTTATCTCCA
1 AAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGAATCTTATCTCCA
*
19058734 TGTATC-AGCAATGGAGCAGATTTTAGCCACCAGTCTTATCTCTCTGAGGTAGCAAGAGAGCAGG
66 TGTATCGA-CAATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGG
* * * *
19058798 TTGAAGATACAAGTCTTATCTTCCTAAGGTAACAAGGAGGCAGACTGA
130 TTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAAACTGA
* * * * * *
19058846 AAATTGCAGATCTTATCTTCTTATGCAGTAGTGGAGCAAATCAAAGACGGCGAATCTTATCTCTA
1 AAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGAATCTTATCTCCA
* * * *
19058911 TGTATTGACAATGGAGCAGATTTAAGCCACTAGCCTTATCTCCCTGA
66 TGTATCGACAATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGA
19058958 AGTTGCAGTG
Statistics
Matches: 418, Mismatches: 43, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
176 158 0.38
177 259 0.62
178 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (177 bp):
AAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGAATCTTATCTCCA
TGTATCGACAATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGT
TGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAAACTGA
Found at i:19060586 original size:10 final size:11
Alignment explanation
Indices: 19060550--19060598 Score: 55
Period size: 11 Copynumber: 4.3 Consensus size: 11
19060540 CTTTTTTTTG
19060550 TATATATTATT
1 TATATATTATT
*
19060561 TATACTAAAGTATT
1 TATA-T--ATTATT
19060575 TATAT-TTATT
1 TATATATTATT
19060585 TATATATTATT
1 TATATATTATT
19060596 TAT
1 TAT
19060599 TTTTGATGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
10 9 0.28
11 12 0.38
12 1 0.03
13 1 0.03
14 9 0.28
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (11 bp):
TATATATTATT
Found at i:19060689 original size:15 final size:15
Alignment explanation
Indices: 19060671--19060708 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
19060661 TCATTATAAA
*
19060671 ATTAATTTATATATT
1 ATTAATTTACATATT
*
19060686 ATTATTTTACATATT
1 ATTAATTTACATATT
19060701 ATTAATTT
1 ATTAATTT
19060709 CTGTTCTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTAATTTACATATT
Found at i:19062463 original size:18 final size:18
Alignment explanation
Indices: 19062440--19062477 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
19062430 AAACATAATA
19062440 AAATATGAAGGTTTTGCT
1 AAATATGAAGGTTTTGCT
19062458 AAATATGAAGGTTTTGCT
1 AAATATGAAGGTTTTGCT
19062476 AA
1 AA
19062478 GTCCTAGCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.05, G:0.21, T:0.37
Consensus pattern (18 bp):
AAATATGAAGGTTTTGCT
Found at i:19063695 original size:81 final size:83
Alignment explanation
Indices: 19063602--19063759 Score: 248
Period size: 81 Copynumber: 1.9 Consensus size: 83
19063592 ATTTACAAAT
* *
19063602 ATAATTTTATTTATTAAAGATTATTTTCATTTAATAAAATACGATTAAT-TTTTTTAT-ATAAAA
1 ATAATGTTATTTATTAAAGATTATTTTCATTTAATAAAATACGATTAATATTTTTTATAAAAAAA
*
19063665 TTTAAACATTTTGTTGAA
66 ATTAAACATTTTGTTGAA
* **
19063683 ATAATGTTATTTATTAAAGATTATTTTTATTTAATAAAATATTATTAATATTTTTTATAAAAAAA
1 ATAATGTTATTTATTAAAGATTATTTTCATTTAATAAAATACGATTAATATTTTTTATAAAAAAA
19063748 ATTAAACATTTT
66 ATTAAACATTTT
19063760 ATTAAAATTT
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
81 45 0.65
82 8 0.12
83 16 0.23
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.51
Consensus pattern (83 bp):
ATAATGTTATTTATTAAAGATTATTTTCATTTAATAAAATACGATTAATATTTTTTATAAAAAAA
ATTAAACATTTTGTTGAA
Found at i:19063728 original size:21 final size:20
Alignment explanation
Indices: 19063689--19063728 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
19063679 TGAAATAATG
*
19063689 TTATTTATTAAAGATTATTT
1 TTATTTATAAAAGATTATTT
*
19063709 TTATTTAATAAAATATTATT
1 TTATTT-ATAAAAGATTATT
19063729 AATATTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (20 bp):
TTATTTATAAAAGATTATTT
Found at i:19063768 original size:18 final size:18
Alignment explanation
Indices: 19063744--19063779 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
19063734 TTTTTATAAA
*
19063744 AAAAATTAAACATTTTATT
1 AAAATTTAAA-ATTTTATT
19063763 AAAATTTAAAATTTTAT
1 AAAATTTAAAATTTTAT
19063780 AGTTGAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
AAAATTTAAAATTTTATT
Found at i:19075752 original size:2 final size:2
Alignment explanation
Indices: 19075745--19075775 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
19075735 ACAGCTCCAG
19075745 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
19075776 CAGACGTACG
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:19077092 original size:27 final size:26
Alignment explanation
Indices: 19077023--19077101 Score: 65
Period size: 27 Copynumber: 3.0 Consensus size: 26
19077013 TTTTGGACAA
*
19077023 ATTAA-AATAGTTAAATATATGTA-TGT
1 ATTAATAATA-TTAAATATAT-TATTGC
* *
19077049 ATTAATAGTTTTAAAATATATTATTGC
1 ATTAATAATATT-AAATATATTATTGC
19077076 ATTATATAATATTAAATCATA-TATTG
1 ATTA-ATAATATTAAAT-ATATTATTG
19077102 TAATAGTAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
26 9 0.21
27 25 0.58
28 9 0.21
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.46
Consensus pattern (26 bp):
ATTAATAATATTAAATATATTATTGC
Found at i:19077876 original size:22 final size:25
Alignment explanation
Indices: 19077831--19077878 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 25
19077821 TTTATTTGAT
19077831 AATATGTTTTGATACAATAAATTAA
1 AATATGTTTTGATACAATAAATTAA
*
19077856 AATAT-TTTTGA-ATAA-AAATTAA
1 AATATGTTTTGATACAATAAATTAA
19077878 A
1 A
19077879 GTTGAACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 8 0.36
23 3 0.14
24 6 0.27
25 5 0.23
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (25 bp):
AATATGTTTTGATACAATAAATTAA
Found at i:19078011 original size:20 final size:18
Alignment explanation
Indices: 19077977--19078032 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 18
19077967 TTGAATCAAC
*
19077977 TTTT-AATCAAATTAAAA
1 TTTTCAATCAAGTTAAAA
*
19077994 TGGTTTCAATCGAGTTAAACA
1 T--TTTCAATCAAGTTAAA-A
19078015 TTTTCAATCAAGTTAAAA
1 TTTTCAATCAAGTTAAAA
19078033 AAAAAAGTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
17 1 0.03
18 1 0.03
19 18 0.56
20 10 0.31
21 2 0.06
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.38
Consensus pattern (18 bp):
TTTTCAATCAAGTTAAAA
Found at i:19080074 original size:15 final size:18
Alignment explanation
Indices: 19080042--19080077 Score: 51
Period size: 15 Copynumber: 2.2 Consensus size: 18
19080032 AATAAAAATA
19080042 TTATTATATTAATATTTG
1 TTATTATATTAATATTTG
19080060 TTATT-TATT-AT-TTTG
1 TTATTATATTAATATTTG
19080075 TTA
1 TTA
19080078 AAATTGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.39
16 2 0.11
17 4 0.22
18 5 0.28
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (18 bp):
TTATTATATTAATATTTG
Found at i:19080387 original size:14 final size:14
Alignment explanation
Indices: 19080370--19080400 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
19080360 TGTTATCATT
19080370 TTACTATTATATTG
1 TTACTATTATATTG
*
19080384 TTACTATTTTATTG
1 TTACTATTATATTG
19080398 TTA
1 TTA
19080401 GATATAACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.61
Consensus pattern (14 bp):
TTACTATTATATTG
Found at i:19081881 original size:13 final size:13
Alignment explanation
Indices: 19081863--19081898 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
19081853 AAAAATCAGA
19081863 ATATAATTTGTTT
1 ATATAATTTGTTT
19081876 ATATAATTTGTTT
1 ATATAATTTGTTT
* *
19081889 GTACAATTTG
1 ATATAATTTG
19081899 CATCTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.31, C:0.03, G:0.11, T:0.56
Consensus pattern (13 bp):
ATATAATTTGTTT
Found at i:19091911 original size:75 final size:75
Alignment explanation
Indices: 19091788--19091937 Score: 282
Period size: 75 Copynumber: 2.0 Consensus size: 75
19091778 CAAACTAGTA
* *
19091788 TCAAAATGGCACTATTTGAGGCACTTTAAGGGAAAAAATGCAAGACTCCATTGTATTGGTCTGAA
1 TCAAAATGGCACCATTTGAGGCACTTTAAGGGAAAAAATGCAAGACTCCATTATATTGGTCTGAA
19091853 TTTAGTGAAT
66 TTTAGTGAAT
19091863 TCAAAATGGCACCATTTGAGGCACTTTAAGGGAAAAAATGCAAGACTCCATTATATTGGTCTGAA
1 TCAAAATGGCACCATTTGAGGCACTTTAAGGGAAAAAATGCAAGACTCCATTATATTGGTCTGAA
19091928 TTTAGTGAAT
66 TTTAGTGAAT
19091938 CTAAGTTAGT
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (75 bp):
TCAAAATGGCACCATTTGAGGCACTTTAAGGGAAAAAATGCAAGACTCCATTATATTGGTCTGAA
TTTAGTGAAT
Found at i:19092775 original size:52 final size:52
Alignment explanation
Indices: 19092697--19092801 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
19092687 CAAATATTTT
*
19092697 TATAAATATTTACGGAGTGTCATTGAGTTAGTATTAAAGTTTCGTTAGAAAA
1 TATAAATATTTACGGAGCGTCATTGAGTTAGTATTAAAGTTTCGTTAGAAAA
19092749 TATAAATATTTACGGAGCGTCATTGAGTTAGTATTAAAGTTTCGTTAGAAAA
1 TATAAATATTTACGGAGCGTCATTGAGTTAGTATTAAAGTTTCGTTAGAAAA
19092801 T
1 T
19092802 TTAATCTTTT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.38
Consensus pattern (52 bp):
TATAAATATTTACGGAGCGTCATTGAGTTAGTATTAAAGTTTCGTTAGAAAA
Found at i:19094016 original size:103 final size:103
Alignment explanation
Indices: 19093825--19094009 Score: 223
Period size: 103 Copynumber: 1.8 Consensus size: 103
19093815 AATATTTAAA
** *
19093825 TGTAAGACCATAGCTAGGCTATGGCATTTTAATGAAAAGACCATAACAGGGTTATGACATCTTGA
1 TGTAAGACCATAGCTAGGCTATGGCATCCTAATGAAAAGACCATAACAGGGTTATGACATCTCGA
* **
19093890 ACGTAAGACCATGATTAGACCATGACAGTATATATATG
66 ACATAAGACCATGAGCAGACCATGACAGTATATATATG
* * ** *
19093928 TGTAAGACCATAGCTGGGCTATGGCATCCTGATGGTAAGACCATAACTA-GTTTATGACA-CTAC
1 TGTAAGACCATAGCTAGGCTATGGCATCCTAATGAAAAGACCATAAC-AGGGTTATGACATCT-C
*
19093991 GAATATAAGACCAT-AGCAG
64 GAACATAAGACCATGAGCAG
19094010 GGCCATGGTA
Statistics
Matches: 68, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
102 5 0.07
103 62 0.91
104 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (103 bp):
TGTAAGACCATAGCTAGGCTATGGCATCCTAATGAAAAGACCATAACAGGGTTATGACATCTCGA
ACATAAGACCATGAGCAGACCATGACAGTATATATATG
Found at i:19098355 original size:20 final size:20
Alignment explanation
Indices: 19098327--19098369 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
19098317 TTTTGTTTAG
19098327 CTCACATGAGCTTCAGTTAA
1 CTCACATGAGCTTCAGTTAA
* *
19098347 CTCATATGAGTTTCAGTTAA
1 CTCACATGAGCTTCAGTTAA
19098367 CTC
1 CTC
19098370 TAATGGGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (20 bp):
CTCACATGAGCTTCAGTTAA
Found at i:19098379 original size:20 final size:21
Alignment explanation
Indices: 19098332--19098405 Score: 82
Period size: 20 Copynumber: 3.6 Consensus size: 21
19098322 TTTAGCTCAC
*
19098332 ATGAGCTTCAGTTAACTC-AT
1 ATGAGTTTCAGTTAACTCTAT
19098352 ATGAGTTTCAGTTAACTCTA-
1 ATGAGTTTCAGTTAACTCTAT
*
19098372 ATGGGTTTCAGTTCAACTCT-T
1 ATGAGTTTCAGTT-AACTCTAT
* *
19098393 ACGAGTTTTAGTT
1 ATGAGTTTCAGTT
19098406 TAACCCTACT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
20 29 0.63
21 17 0.37
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.41
Consensus pattern (21 bp):
ATGAGTTTCAGTTAACTCTAT
Found at i:19098400 original size:21 final size:21
Alignment explanation
Indices: 19098338--19098463 Score: 71
Period size: 21 Copynumber: 6.1 Consensus size: 21
19098328 TCACATGAGC
* *
19098338 TTCAGTT-AACTCATATGAGT
1 TTCAGTTCAACTCTTACGAGT
* * *
19098358 TTCAGTT-AACTCTAATGGGT
1 TTCAGTTCAACTCTTACGAGT
19098378 TTCAGTTCAACTCTTACGAGT
1 TTCAGTTCAACTCTTACGAGT
* * * *
19098399 TTTAGTTTAAC-CCTACTGGGTT
1 TTCAGTTCAACTCTTAC-GAG-T
* * * *
19098421 TTC-GTTCAGCTTTTATGAGC
1 TTCAGTTCAACTCTTACGAGT
* *
19098441 TTCTGTTCAACCCTTACGAGT
1 TTCAGTTCAACTCTTACGAGT
19098462 TT
1 TT
19098464 TCGTTAGCAC
Statistics
Matches: 78, Mismatches: 23, Indels: 9
0.71 0.21 0.08
Matches are distributed among these distances:
20 31 0.40
21 42 0.54
22 5 0.06
ACGTcount: A:0.21, C:0.20, G:0.17, T:0.42
Consensus pattern (21 bp):
TTCAGTTCAACTCTTACGAGT
Found at i:19098428 original size:42 final size:41
Alignment explanation
Indices: 19098338--19098421 Score: 107
Period size: 41 Copynumber: 2.0 Consensus size: 41
19098328 TCACATGAGC
* *
19098338 TTCAGTT-AACTCATATGAGTTTCAGTTAACTCTAATGGGT
1 TTCAGTTCAACTCATACGAGTTTCAGTTAACCCTAATGGGT
* * *
19098378 TTCAGTTCAACTCTTACGAGTTTTAGTTTAACCCTACTGGGT
1 TTCAGTTCAACTCATACGAGTTTCAG-TTAACCCTAATGGGT
19098420 TT
1 TT
19098422 TCGTTCAGCT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 7 0.19
41 15 0.41
42 15 0.41
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.42
Consensus pattern (41 bp):
TTCAGTTCAACTCATACGAGTTTCAGTTAACCCTAATGGGT
Found at i:19098453 original size:42 final size:40
Alignment explanation
Indices: 19098407--19098495 Score: 97
Period size: 41 Copynumber: 2.1 Consensus size: 40
19098397 GTTTTAGTTT
* **
19098407 AACCCTACTGGGTTTTCGTTCAGCTTTTATGAGCTTCTGTTC
1 AACCCTAC-GAGTTTTCGTT-AGCACTTATGAGCTTCTGTTC
* *
19098449 AACCCTTACGAGTTTTCGTTAGCACTTATGTGCTTTTGTTC
1 AACCC-TACGAGTTTTCGTTAGCACTTATGAGCTTCTGTTC
*
19098490 AGCCCT
1 AACCCT
19098496 CGGGCTTCCA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
40 1 0.03
41 21 0.52
42 15 0.38
43 3 0.08
ACGTcount: A:0.16, C:0.25, G:0.18, T:0.42
Consensus pattern (40 bp):
AACCCTACGAGTTTTCGTTAGCACTTATGAGCTTCTGTTC
Found at i:19101991 original size:17 final size:18
Alignment explanation
Indices: 19101969--19102013 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
19101959 ACTCGTTATA
*
19101969 GCCCGATAAATGAA-AGT
1 GCCCGATAAATGAATAAT
*
19101986 GCCCGATCAAT-AATAAT
1 GCCCGATAAATGAATAAT
19102003 G-CCGATAAATG
1 GCCCGATAAATG
19102014 GTAAATGATA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (18 bp):
GCCCGATAAATGAATAAT
Found at i:19105061 original size:67 final size:67
Alignment explanation
Indices: 19104951--19105085 Score: 243
Period size: 67 Copynumber: 2.0 Consensus size: 67
19104941 ATAGTATAGT
* *
19104951 TTAACCAAAAAACAATTAACCTCTAACCTTCTAATCGAATAAAATTCATTCATTAGAATATTTTG
1 TTAACCAAAAAACAATTAACCTCTAAACTTCTAATCGAATAAAATTCATTCATTAGAACATTTTG
19105016 AG
66 AG
*
19105018 TTAACCAAAAAACAATTAACCTCTAAACTTCTAATCGAGTAAAATTCATTCATTAGAACATTTTG
1 TTAACCAAAAAACAATTAACCTCTAAACTTCTAATCGAATAAAATTCATTCATTAGAACATTTTG
19105083 AG
66 AG
19105085 T
1 T
19105086 AAAATTCATC
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.33
Consensus pattern (67 bp):
TTAACCAAAAAACAATTAACCTCTAAACTTCTAATCGAATAAAATTCATTCATTAGAACATTTTG
AG
Found at i:19109697 original size:12 final size:12
Alignment explanation
Indices: 19109680--19109709 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
19109670 TCAGTGAGTT
19109680 ACACGGCCTAGC
1 ACACGGCCTAGC
*
19109692 ACACGGCCTGGC
1 ACACGGCCTAGC
19109704 ACACGG
1 ACACGG
19109710 GTGTGTGGGG
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:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:19112797 original size:49 final size:49
Alignment explanation
Indices: 19112523--19112789 Score: 462
Period size: 49 Copynumber: 5.4 Consensus size: 49
19112513 ACATAATAAT
* *
19112523 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAC
* * *
19112572 ATATGTGATAAGGCCTAATGGTCGACGTGATGAATGTGAAAATGTATAC
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAC
*
19112621 ATATGTGATAAGGCCTAATGGCCGAGGTGATGAATGTGAAAGTGTATAC
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAC
19112670 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAC
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAC
19112719 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAC
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAC
* *
19112768 ATATGTGATAAAGCCGAATGGC
1 ATATGTGATAAGGCCTAATGGC
19112790 TAATGTGAAT
Statistics
Matches: 209, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 209 1.00
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.28
Consensus pattern (49 bp):
ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAC
Found at i:19112893 original size:37 final size:36
Alignment explanation
Indices: 19112838--19112924 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
19112828 AACTTAGAAA
19112838 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
19112876 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
19112913 TATGTCCGGGTA
1 TATGTCCGGGTA
19112925 AGACTTCGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 43 0.90
38 4 0.08
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:19117806 original size:55 final size:53
Alignment explanation
Indices: 19117745--19117863 Score: 132
Period size: 55 Copynumber: 2.2 Consensus size: 53
19117735 CTTAAAGTAA
*
19117745 AAAATTCTTTTTTTTAATTGAGGAAAAAAATATT-TTTTTAATTTTTGACTTGAGG
1 AAAATTCTTATTTTT-ATTGA--AAAAAAATATTATTTTTAATTTTTGACTTGAGG
* * * **
19117800 AAAATTCTTATTTTTATTGAATAAGAATTTTAAATTTTTCTTTTTTGACTTGAGG
1 AAAATTCTTATTTTTATTGAAAAAAAATATT--ATTTTTAATTTTTGACTTGAGG
19117855 AAAATTCTT
1 AAAATTCTT
19117864 GAGGGATATA
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
52 8 0.15
54 5 0.09
55 42 0.76
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (53 bp):
AAAATTCTTATTTTTATTGAAAAAAAATATTATTTTTAATTTTTGACTTGAGG
Found at i:19134474 original size:14 final size:15
Alignment explanation
Indices: 19134454--19134494 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
19134444 AAAAGTAATT
19134454 TATTTTCAATAAATC
1 TATTTTCAATAAATC
*
19134469 -ATTTTCCA-AAATC
1 TATTTTCAATAAATC
*
19134482 TATTTTCTATAAA
1 TATTTTCAATAAA
19134495 ACAAACATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 5 0.23
14 14 0.64
15 3 0.14
ACGTcount: A:0.39, C:0.15, G:0.00, T:0.46
Consensus pattern (15 bp):
TATTTTCAATAAATC
Found at i:19138562 original size:3 final size:3
Alignment explanation
Indices: 19138554--19138586 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
19138544 ACCAAATAGG
*
19138554 TAT TAT TAT TAT TAT AAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
19138587 AATATAGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:19153747 original size:2 final size:2
Alignment explanation
Indices: 19153735--19153773 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
19153725 TATGTATGCT
* * *
19153735 TA TA AA TA TA TA TG TG 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 TA TA TA TA T
19153774 TAATATAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
TA
Found at i:19177980 original size:16 final size:16
Alignment explanation
Indices: 19177955--19177988 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
19177945 AAGTAAAAAT
*
19177955 ATAAAGATATTTTATA
1 ATAAAAATATTTTATA
*
19177971 ATAAAAATATTTTTTA
1 ATAAAAATATTTTATA
19177987 AT
1 AT
19177989 TTTTTTAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATAAAAATATTTTATA
Found at i:19177994 original size:9 final size:9
Alignment explanation
Indices: 19177980--19178005 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
19177970 AATAAAAATA
19177980 TTTTTTAAT
1 TTTTTTAAT
19177989 TTTTTTAAT
1 TTTTTTAAT
19177998 TTTTTTAA
1 TTTTTTAA
19178006 AATTAAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTTTAAT
Found at i:19182346 original size:33 final size:32
Alignment explanation
Indices: 19182269--19182346 Score: 86
Period size: 33 Copynumber: 2.4 Consensus size: 32
19182259 CAGTGTTTAT
* * *
19182269 ATGTAAGACCATAGCTGGGTTATGGCATTCTG
1 ATGTAAGACCATAACTGGGTTATGGCACTATG
19182301 ATGATAAGACCATAACTGGGTTATGTG-ACTATGG
1 ATG-TAAGACCATAACTGGGTTATG-GCACTAT-G
*
19182335 ATGTAATACCAT
1 ATGTAAGACCAT
19182347 GGTTGGACCA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
32 3 0.08
33 31 0.79
34 5 0.13
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (32 bp):
ATGTAAGACCATAACTGGGTTATGGCACTATG
Found at i:19182460 original size:102 final size:101
Alignment explanation
Indices: 19182233--19182450 Score: 323
Period size: 102 Copynumber: 2.1 Consensus size: 101
19182223 CAATTATTCA
*
19182233 AATGTAAGACCATGGTTGAACCATGACAGTGTTTATATGTAAGACCATAGCTGGGTTATGGCATT
1 AATGTAAGACCATGGTTGGACCATGACAGTGTTTATATGTAAGACCATAGCTGGGTTATGGCATT
*
19182298 CTGATGATAAGACCATAACTGGGTTATGTGACTATG
66 CTGATAATAAGACCATAACTGGGTTATGTGACTATG
* * * * * *
19182334 GATGTAATACCATGGTTGGACCATGATAGTGTTTATATGTAATATCATAGGTTGGGTTATGG-AC
1 AATGTAAGACCATGGTTGGACCATGACAGTGTTTATATGTAAGACCATA-GCTGGGTTATGGCA-
19182398 TTCTGATAATAAGACCATAACTGGGTTATG-GCACTATG
64 TTCTGATAATAAGACCATAACTGGGTTATGTG-ACTATG
19182436 AATGTAAGACCATGG
1 AATGTAAGACCATGG
19182451 CAGGGCCATG
Statistics
Matches: 104, Mismatches: 10, Indels: 5
0.87 0.08 0.04
Matches are distributed among these distances:
101 45 0.43
102 59 0.57
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.32
Consensus pattern (101 bp):
AATGTAAGACCATGGTTGGACCATGACAGTGTTTATATGTAAGACCATAGCTGGGTTATGGCATT
CTGATAATAAGACCATAACTGGGTTATGTGACTATG
Found at i:19190161 original size:74 final size:74
Alignment explanation
Indices: 19190083--19190316 Score: 271
Period size: 74 Copynumber: 3.2 Consensus size: 74
19190073 TTGATAGAGG
* **
19190083 TTGCGCCCAGTGCTAGTTGGATAAACCGACGAATAATTAGTGAGCCCAGCTCTAGTTGGATAAAC
1 TTGCGCCCAGCGCTAGTCAGATAAACCGACGAATAATTAGTGAGCCCAGCTCTAGTTGGATAAAC
19190148 CAACGATAT
66 CAACGATAT
* * * * **
19190157 TTGCGCCCAGCGCTAGTCAGATGAACCTAC--A-AA-T-GTGTGCCCAGCACTAGTCAGATAAAC
1 TTGCGCCCAGCGCTAGTCAGATAAACCGACGAATAATTAGTGAGCCCAGCTCTAGTTGGATAAAC
** * *
19190217 TGACGAAAG
66 CAACGATAT
* * * *
19190226 TTGTGCCAAGCGCTAGTCAGATAAACCGACGAATAATTAGTGAACCTAGCTCTAGTTGGATAAAC
1 TTGCGCCCAGCGCTAGTCAGATAAACCGACGAATAATTAGTGAGCCCAGCTCTAGTTGGATAAAC
19190291 CAACGATAT
66 CAACGATAT
*
19190300 TTGCACCCAGCGCTAGT
1 TTGCGCCCAGCGCTAGT
19190317 TAAATGAATC
Statistics
Matches: 125, Mismatches: 30, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
69 53 0.42
70 1 0.01
71 3 0.02
72 3 0.02
73 1 0.01
74 64 0.51
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.23
Consensus pattern (74 bp):
TTGCGCCCAGCGCTAGTCAGATAAACCGACGAATAATTAGTGAGCCCAGCTCTAGTTGGATAAAC
CAACGATAT
Found at i:19190173 original size:35 final size:35
Alignment explanation
Indices: 19190014--19190318 Score: 150
Period size: 35 Copynumber: 8.6 Consensus size: 35
19190004 CGCAAAAGAG
* *
19190014 TTTGCCCCCAGCGCTAGTTAGATAAACCGA--AAA
1 TTTGCGCCCAGCGCTAGTTAGATAAACCGACGATA
* ** * * ** * *
19190047 TGTGTTCCCAGCACTAATTAGATAAATTGATAGA-G
1 TTTGCGCCCAGCGCTAGTTAGATAAACCGA-CGATA
* * *
19190082 GTTGCGCCCAGTGCTAGTTGGATAAACCGACGAATAA
1 TTTGCGCCCAGCGCTAGTTAGATAAACCGACG-AT-A
* * * *
19190119 TTAGTGAGCCCAGCTCTAGTTGGATAAACCAACGATA
1 TT--TGCGCCCAGCGCTAGTTAGATAAACCGACGATA
* * * *
19190156 TTTGCGCCCAGCGCTAGTCAGATGAACCTAC-AAA
1 TTTGCGCCCAGCGCTAGTTAGATAAACCGACGATA
* * * * * *
19190190 TGTGTGCCCAGCACTAGTCAGATAAACTGACGAAA
1 TTTGCGCCCAGCGCTAGTTAGATAAACCGACGATA
* * * *
19190225 GTTGTGCCAAGCGCTAGTCAGATAAACCGACGAATAA
1 TTTGCGCCCAGCGCTAGTTAGATAAACCGACG-AT-A
** * * * *
19190262 TTAGTGAACCTAGCTCTAGTTGGATAAACCAACGATA
1 TT--TGCGCCCAGCGCTAGTTAGATAAACCGACGATA
*
19190299 TTTGCACCCAGCGCTAGTTA
1 TTTGCGCCCAGCGCTAGTTA
19190319 AATGAATCAA
Statistics
Matches: 203, Mismatches: 56, Indels: 24
0.72 0.20 0.08
Matches are distributed among these distances:
33 23 0.11
34 28 0.14
35 88 0.43
36 2 0.01
37 9 0.04
38 4 0.02
39 49 0.24
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.24
Consensus pattern (35 bp):
TTTGCGCCCAGCGCTAGTTAGATAAACCGACGATA
Found at i:19190324 original size:143 final size:142
Alignment explanation
Indices: 19190014--19190324 Score: 426
Period size: 143 Copynumber: 2.2 Consensus size: 142
19190004 CGCAAAAGAG
* * * * * *
19190014 TTTGCCCCCAGCGCTAGTTAGATAAACCGAAAATGTGTTCCCAGCACTAATTAGATAAATTGATA
1 TTTGCACCCAGCGCTAGTTAGATGAACCGAAAATGTGTGCCCAGCACTAATCAGATAAACTGAGA
* * * ** *
19190079 GAGGTTGCGCCCAGTGCTAGTTGGATAAACCGACGAATAATTAGTGAGCCCAGCTCTAGTTGGAT
66 GAAGTTGCGCCAAGCGCTAGTCAGATAAACCGACGAATAATTAGTGAACCCAGCTCTAGTTGGAT
19190144 AAACCAACGATA
131 AAACCAACGATA
* * * *
19190156 TTTGCGCCCAGCGCTAGTCAGATGAACCTACAAATGTGTGCCCAGCACTAGTCAGATAAACTGAC
1 TTTGCACCCAGCGCTAGTTAGATGAACCGA-AAATGTGTGCCCAGCACTAATCAGATAAACTGA-
* *
19190221 GA-AAGTTGTGCCAAGCGCTAGTCAGATAAACCGACGAATAATTAGTGAACCTAGCTCTAGTTGG
64 GAGAAGTTGCGCCAAGCGCTAGTCAGATAAACCGACGAATAATTAGTGAACCCAGCTCTAGTTGG
19190285 ATAAACCAACGATA
129 ATAAACCAACGATA
*
19190299 TTTGCACCCAGCGCTAGTTAAATGAA
1 TTTGCACCCAGCGCTAGTTAGATGAA
19190325 TCAACAATGT
Statistics
Matches: 147, Mismatches: 20, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
142 26 0.18
143 120 0.82
144 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (142 bp):
TTTGCACCCAGCGCTAGTTAGATGAACCGAAAATGTGTGCCCAGCACTAATCAGATAAACTGAGA
GAAGTTGCGCCAAGCGCTAGTCAGATAAACCGACGAATAATTAGTGAACCCAGCTCTAGTTGGAT
AAACCAACGATA
Found at i:19190532 original size:36 final size:36
Alignment explanation
Indices: 19190460--19190532 Score: 87
Period size: 36 Copynumber: 2.0 Consensus size: 36
19190450 AATGTCACAT
**
19190460 TCCATAAATCTCCATTCAATTGAATTAATTTATACA
1 TCCATAAATCTCCATTCAATTGAATTAAAATATACA
*
19190496 TCCATAAA-CTTCCATTCAATTTAATTAACAAT-TACA
1 TCCATAAATC-TCCATTCAATTGAATTAA-AATATACA
19190532 T
1 T
19190533 TAGGATATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
35 1 0.03
36 30 0.94
37 1 0.03
ACGTcount: A:0.40, C:0.21, G:0.01, T:0.38
Consensus pattern (36 bp):
TCCATAAATCTCCATTCAATTGAATTAAAATATACA
Found at i:19192018 original size:2 final size:2
Alignment explanation
Indices: 19192013--19192046 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
19192003 ATATTACATT
19192013 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19192047 ATTCCATCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:19194696 original size:43 final size:42
Alignment explanation
Indices: 19194579--19194688 Score: 132
Period size: 42 Copynumber: 2.6 Consensus size: 42
19194569 GATTTGAGAT
* * *
19194579 TTACGTGTAAGACCATGTACGGAACATAGGCATCATATCTGA
1 TTACATGTAAGACCATGTCCGGGACATAGGCATCATATCTGA
* * * *
19194621 TTTCATGTAAGACCCTGTCTGGGACAAAGGCATCA-ATACTGAA
1 TTACATGTAAGACCATGTCCGGGACATAGGCATCATAT-CTG-A
19194664 TTACATGTAAGACCATGTCCGGGAC
1 TTACATGTAAGACCATGTCCGGGAC
19194689 GTCGGCATTG
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
41 2 0.04
42 31 0.55
43 23 0.41
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (42 bp):
TTACATGTAAGACCATGTCCGGGACATAGGCATCATATCTGA
Found at i:19196251 original size:50 final size:50
Alignment explanation
Indices: 19196176--19196276 Score: 130
Period size: 50 Copynumber: 2.0 Consensus size: 50
19196166 ATTTATTTCT
*
19196176 CCATAAGTGTAGCATAAAATTAAACACTCTCCAAACACACCCCACATATC
1 CCATAAGTGTAGCATAAAACTAAACACTCTCCAAACACACCCCACATATC
* * * ** * *
19196226 CCATAAGTGTAGTATAAAGCTAAACACTTTCCATTCACACCCTATATATC
1 CCATAAGTGTAGCATAAAACTAAACACTCTCCAAACACACCCCACATATC
19196276 C
1 C
19196277 TCAGGGCCTC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.39, C:0.30, G:0.07, T:0.25
Consensus pattern (50 bp):
CCATAAGTGTAGCATAAAACTAAACACTCTCCAAACACACCCCACATATC
Found at i:19196412 original size:32 final size:32
Alignment explanation
Indices: 19196371--19196435 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
19196361 GAGATCACAA
19196371 AGTCAAATATAAATGTATAAGCAGTTCATATC
1 AGTCAAATATAAATGTATAAGCAGTTCATATC
19196403 AGTCAAATATAAATGTATAAGCAGTTCATATC
1 AGTCAAATATAAATGTATAAGCAGTTCATATC
19196435 A
1 A
19196436 TACTTACTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (32 bp):
AGTCAAATATAAATGTATAAGCAGTTCATATC
Found at i:19200367 original size:21 final size:21
Alignment explanation
Indices: 19200343--19200383 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
19200333 GTTCCACAAG
19200343 TAACCAAACTTGAACCGCAAA
1 TAACCAAACTTGAACCGCAAA
*
19200364 TAACCAAACTTGAACTGCAA
1 TAACCAAACTTGAACCGCAA
19200384 GAATCAATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.46, C:0.27, G:0.10, T:0.17
Consensus pattern (21 bp):
TAACCAAACTTGAACCGCAAA
Found at i:19203334 original size:14 final size:16
Alignment explanation
Indices: 19203317--19203349 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
19203307 CTTTTAATTC
19203317 AAATTTGAT-AAA-AA
1 AAATTTGATGAAATAA
19203331 AAATTTGATGAAATAA
1 AAATTTGATGAAATAA
19203347 AAA
1 AAA
19203350 CTTTCAAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
15 3 0.18
16 5 0.29
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (16 bp):
AAATTTGATGAAATAA
Found at i:19209523 original size:10 final size:11
Alignment explanation
Indices: 19209493--19209526 Score: 54
Period size: 10 Copynumber: 3.3 Consensus size: 11
19209483 TAATTTATTT
19209493 ATATATATAT-
1 ATATATATATG
19209503 ATATATATATG
1 ATATATATATG
19209514 A-ATATATATG
1 ATATATATATG
19209524 ATA
1 ATA
19209527 GAATTTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 20 0.91
11 2 0.09
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (11 bp):
ATATATATATG
Found at i:19213990 original size:42 final size:42
Alignment explanation
Indices: 19213931--19214030 Score: 130
Period size: 42 Copynumber: 2.4 Consensus size: 42
19213921 TCAAAACTCG
* * *
19213931 TAAGGGTTAAACGGAAGCTCATAAA-AGCTGGACGGAAACCTA
1 TAAGGGTTAAACTGAAGCTCA-AAAGAGCTGAACGGAAACCCA
**
19213973 TAAGGGTTAAACTGAAGCTCAAAAGAGCTGAATTGAAACCCA
1 TAAGGGTTAAACTGAAGCTCAAAAGAGCTGAACGGAAACCCA
*
19214015 GAAGGGTTAAACTGAA
1 TAAGGGTTAAACTGAA
19214031 ACTCCTATGA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
41 3 0.06
42 48 0.94
ACGTcount: A:0.42, C:0.15, G:0.25, T:0.18
Consensus pattern (42 bp):
TAAGGGTTAAACTGAAGCTCAAAAGAGCTGAACGGAAACCCA
Found at i:19214032 original size:21 final size:21
Alignment explanation
Indices: 19213965--19214032 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
19213955 AAGCTGGACG
* *
19213965 GAAACCTATAAGGGTTAAACT
1 GAAACCCAAAAGGGTTAAACT
* * * * * *
19213986 GAAGCTCAAAAGAGCTGAATT
1 GAAACCCAAAAGGGTTAAACT
*
19214007 GAAACCCAGAAGGGTTAAACT
1 GAAACCCAAAAGGGTTAAACT
19214028 GAAAC
1 GAAAC
19214033 TCCTATGAGT
Statistics
Matches: 32, Mismatches: 15, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.18
Consensus pattern (21 bp):
GAAACCCAAAAGGGTTAAACT
Found at i:19220997 original size:32 final size:34
Alignment explanation
Indices: 19220961--19221043 Score: 98
Period size: 38 Copynumber: 2.4 Consensus size: 34
19220951 GGGACTGGCG
*
19220961 AGACCGTGTGTG-A-GGCACGGACTTGAGCATTT
1 AGACCGTGTGGGCACGGCACGGACTTGAGCATTT
19220993 AGACCGTGTGGGCCACACGGGCACGGACTTGAGCATTT
1 AGACCGTGTGGG---CAC-GGCACGGACTTGAGCATTT
*
19221031 GGACCGTGTGGGC
1 AGACCGTGTGGGC
19221044 CACACGGGCG
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
32 11 0.26
35 1 0.02
36 1 0.02
38 30 0.70
ACGTcount: A:0.19, C:0.23, G:0.37, T:0.20
Consensus pattern (34 bp):
AGACCGTGTGGGCACGGCACGGACTTGAGCATTT
Found at i:19221025 original size:38 final size:38
Alignment explanation
Indices: 19220974--19221052 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
19220964 CCGTGTGTGA
19220974 GGCACGGACTTGAGCATTTAGACCGTGTGGGCCACACG
1 GGCACGGACTTGAGCATTTAGACCGTGTGGGCCACACG
*
19221012 GGCACGGACTTGAGCATTTGGACCGTGTGGGCCACACG
1 GGCACGGACTTGAGCATTTAGACCGTGTGGGCCACACG
19221050 GGC
1 GGC
19221053 GTGTGGGTCA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.19, C:0.27, G:0.37, T:0.18
Consensus pattern (38 bp):
GGCACGGACTTGAGCATTTAGACCGTGTGGGCCACACG
Found at i:19221057 original size:17 final size:17
Alignment explanation
Indices: 19221035--19221067 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19221025 GCATTTGGAC
19221035 CGTGTGGGCCACACGGG
1 CGTGTGGGCCACACGGG
*
19221052 CGTGTGGGTCACACGG
1 CGTGTGGGCCACACGG
19221068 ATAAACCACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.27, G:0.45, T:0.15
Consensus pattern (17 bp):
CGTGTGGGCCACACGGG
Found at i:19221583 original size:40 final size:40
Alignment explanation
Indices: 19221519--19221597 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 40
19221509 GTACGGTACC
* * *
19221519 ACTTAGTGTGTAGGGTTGGATGGGTTAATTTTATCCCCAT
1 ACTTAGTGTGCAGGGCTGGATGGGTCAATTTTATCCCCAT
* * *
19221559 ACTTGGTGTGCAGGGCTGGGTGGGTCGATTTTATCCCCA
1 ACTTAGTGTGCAGGGCTGGATGGGTCAATTTTATCCCCA
19221598 CATAGTGTGT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.16, C:0.16, G:0.32, T:0.35
Consensus pattern (40 bp):
ACTTAGTGTGCAGGGCTGGATGGGTCAATTTTATCCCCAT
Found at i:19225239 original size:17 final size:18
Alignment explanation
Indices: 19225217--19225252 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
19225207 TGGGCTAGGC
19225217 TGTGTGGG-CCACACGGG
1 TGTGTGGGCCCACACGGG
19225234 TGTGTGGGCCCACACGGG
1 TGTGTGGGCCCACACGGG
19225252 T
1 T
19225253 AGACAACATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.11, C:0.25, G:0.44, T:0.19
Consensus pattern (18 bp):
TGTGTGGGCCCACACGGG
Found at i:19232030 original size:27 final size:27
Alignment explanation
Indices: 19231999--19232054 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
19231989 CACAAACCCT
19231999 AATTTGAAATTTTGAGTTATAATTGGC
1 AATTTGAAATTTTGAGTTATAATTGGC
19232026 AATTTGAAATTTTGAGTTATAATTGGC
1 AATTTGAAATTTTGAGTTATAATTGGC
19232053 AA
1 AA
19232055 AATTGAAGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.36, C:0.04, G:0.18, T:0.43
Consensus pattern (27 bp):
AATTTGAAATTTTGAGTTATAATTGGC
Found at i:19234679 original size:42 final size:42
Alignment explanation
Indices: 19234631--19234743 Score: 158
Period size: 42 Copynumber: 2.7 Consensus size: 42
19234621 TGCCATAGTT
*
19234631 CAACTATGGTCTTACACATCTTCACATAAT-GATGCCATAACC
1 CAACTATGGTCTTACACATATTCACAT-ATCGATGCCATAACC
* *
19234673 CAACTATGGTCTTACACATATTCATATATCGATGCCATAGCC
1 CAACTATGGTCTTACACATATTCACATATCGATGCCATAACC
* *
19234715 CAGCTATGGTCTTACACA-AATCACATATC
1 CAACTATGGTCTTACACATATTCACATATC
19234744 TCACTGATGC
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
41 11 0.17
42 53 0.83
ACGTcount: A:0.33, C:0.27, G:0.11, T:0.29
Consensus pattern (42 bp):
CAACTATGGTCTTACACATATTCACATATCGATGCCATAACC
Found at i:19234805 original size:47 final size:46
Alignment explanation
Indices: 19234702--19234824 Score: 165
Period size: 47 Copynumber: 2.7 Consensus size: 46
19234692 ATTCATATAT
* * * * *
19234702 CGATGCCATAGCCCAGCTATGGTCTTACACAAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACAAAGCACATATCACAC
* * *
19234748 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATACA-AAGCACATATCACAC
19234795 CGATGCCATATCCCAGATATGGTCTTATAC
1 CGATGCCATATCCCAGATATGGTCTTATAC
19234825 GGAAATCACT
Statistics
Matches: 67, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
46 27 0.40
47 40 0.60
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTATACAAAGCACATATCACAC
Found at i:19234885 original size:31 final size:31
Alignment explanation
Indices: 19234850--19234967 Score: 191
Period size: 31 Copynumber: 3.8 Consensus size: 31
19234840 CTTGTCACTT
*
19234850 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
19234881 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
19234912 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
19234943 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
19234968 TGTCATTTGT
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 81 1.00
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:19235050 original size:50 final size:50
Alignment explanation
Indices: 19234943--19235119 Score: 266
Period size: 50 Copynumber: 3.5 Consensus size: 50
19234933 CACTGATCAG
* * * * *
19234943 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTATCCTTGATCAGATAAGT
*
19234994 GCAGCCGAAGCTATCACTTATCACTTTCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCA-TTTATCCTTGATCAGATAAGT
*
19235044 GTAGCCGAAGCTATTACTTATCACTTTCATTTATCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTATCCTTGATCAGATAAGT
19235094 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
19235120 GTTGCCATGG
Statistics
Matches: 116, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
49 3 0.03
50 88 0.76
51 25 0.22
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTATCCTTGATCAGATAAGT
Found at i:19237953 original size:16 final size:17
Alignment explanation
Indices: 19237916--19237953 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
19237906 ATAAATTTTA
* *
19237916 AAATTAATTATTAATTT
1 AAATTAATTATCAATAT
19237933 AAATTAATTA-CAATAT
1 AAATTAATTATCAATAT
19237949 AAATT
1 AAATT
19237954 TAATCAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
AAATTAATTATCAATAT
Found at i:19238468 original size:27 final size:28
Alignment explanation
Indices: 19238398--19238470 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 28
19238388 ATAAATTTTA
* * * *
19238398 AAAAGTAATTAAATATTTTTAGAAAAAT
1 AAAAGAAATTTAATATTATTATAAAAAT
19238426 AAAAGAAA--T-ATA-TATTATAAAAAT
1 AAAAGAAATTTAATATTATTATAAAAAT
19238450 AAAA-AAATTTAATATTATTAT
1 AAAAGAAATTTAATATTATTAT
19238471 GAATATCTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
23 3 0.08
24 14 0.38
25 4 0.11
26 3 0.08
27 6 0.16
28 7 0.19
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (28 bp):
AAAAGAAATTTAATATTATTATAAAAAT
Found at i:19243666 original size:95 final size:95
Alignment explanation
Indices: 19243558--19243744 Score: 329
Period size: 95 Copynumber: 2.0 Consensus size: 95
19243548 GTTGATATTA
* *
19243558 ATCCTAAGTTCATGAAAATTTAAAGAATAAAGAGTATTACGAGAATTTAACCCAAGTGAAGTGAG
1 ATCCTAAGTTCATGAAAATTTAAAGAATAAAAAGTATTACGAGAATTTAACCAAAGTGAAGTGAG
*
19243623 AAAAGATTTGTTAAAATCTTTCTATGAAAT
66 AAAAGATTCGTTAAAATCTTTCTATGAAAT
* *
19243653 ATCCTGAGTTCATGAAAATTTAAAGAATAAAAAGTATTACGTGAATTTAACCAAAGTGAAGTGAG
1 ATCCTAAGTTCATGAAAATTTAAAGAATAAAAAGTATTACGAGAATTTAACCAAAGTGAAGTGAG
19243718 AAAAGATTCGTTAAAATCTTTCTATGA
66 AAAAGATTCGTTAAAATCTTTCTATGA
19243745 CATGAACTAA
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
95 87 1.00
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.30
Consensus pattern (95 bp):
ATCCTAAGTTCATGAAAATTTAAAGAATAAAAAGTATTACGAGAATTTAACCAAAGTGAAGTGAG
AAAAGATTCGTTAAAATCTTTCTATGAAAT
Found at i:19246841 original size:16 final size:16
Alignment explanation
Indices: 19246822--19246854 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
19246812 TTCTCTCCAT
19246822 TTTCTCTCCTCTTCTC
1 TTTCTCTCCTCTTCTC
*
19246838 TTTCTCTTCTCTTCTC
1 TTTCTCTCCTCTTCTC
19246854 T
1 T
19246855 GTAAAACCTT
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:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTCTCTCCTCTTCTC
Found at i:19257257 original size:31 final size:30
Alignment explanation
Indices: 19257197--19257260 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
19257187 AAAAGCTTAG
* *
19257197 GTACCAAATTAGGAAATAGCATAAGTTCAA
1 GTACCAAATTAGGAAAAAGCACAAGTTCAA
19257227 GTACCAAATTAGGAAAAAGTGC-CAAGTTCAA
1 GTACCAAATTAGGAAAAA--GCACAAGTTCAA
19257258 GTA
1 GTA
19257261 TCGAATTGGA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 17 0.57
31 11 0.37
32 2 0.07
ACGTcount: A:0.45, C:0.14, G:0.19, T:0.22
Consensus pattern (30 bp):
GTACCAAATTAGGAAAAAGCACAAGTTCAA
Found at i:19260807 original size:156 final size:156
Alignment explanation
Indices: 19260523--19260835 Score: 484
Period size: 156 Copynumber: 2.0 Consensus size: 156
19260513 CCTAATTGTA
* * * *
19260523 TGTATTGTGAAAAAAGTGGCGACATACGTGATACATATTGAGCTCTACATGGCCGACCTTCTCAT
1 TGTATTGTGAAAAAAGTGGCCACATACATGATACATATTGAGCTCTACATGGCCAACATTCTCAT
*** *
19260588 AATATTCAGCCCATTGTTCATTTAGCCTACGTTCAACGAGATGGACTTCTTTTGCTTAGAATTGC
66 AATATTCAGCCCATTGTTCATTTAGCCTACGTTCAACGAGATGGACTTCTTCCACTTACAATTGC
*
19260653 TCAAGGGGCCAAATTATGATGAATAT
131 TCAAGAGGCCAAATTATGATGAATAT
* *
19260679 TGTATTGT-AAAAAATGTGGCCACATACATGATACATGTTGGGCTCTACATGGCCAACATTCTCA
1 TGTATTGTGAAAAAA-GTGGCCACATACATGATACATATTGAGCTCTACATGGCCAACATTCTCA
* * *
19260743 TAATATTCAGCCCATTGTTCATTTAGCCTAGGTTTAAGGAGATGGACTTCTTCCACTTACAATTG
65 TAATATTCAGCCCATTGTTCATTTAGCCTACGTTCAACGAGATGGACTTCTTCCACTTACAATTG
19260808 CTCAAGAGGCCAAATTATGATGAATAT
130 CTCAAGAGGCCAAATTATGATGAATAT
19260835 T
1 T
19260836 TACAATATCA
Statistics
Matches: 142, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
155 6 0.04
156 136 0.96
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (156 bp):
TGTATTGTGAAAAAAGTGGCCACATACATGATACATATTGAGCTCTACATGGCCAACATTCTCAT
AATATTCAGCCCATTGTTCATTTAGCCTACGTTCAACGAGATGGACTTCTTCCACTTACAATTGC
TCAAGAGGCCAAATTATGATGAATAT
Found at i:19263967 original size:48 final size:48
Alignment explanation
Indices: 19263896--19263992 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
19263886 TACTATAAAG
19263896 AATGCCATTAATGAACAAATTAATCAACTCATACATCATCTAGCACCT
1 AATGCCATTAATGAACAAATTAATCAACTCATACATCATCTAGCACCT
*
19263944 AATGCCCTTAATGAACAAATTAATCAACTCATACATCATCTAGCACCT
1 AATGCCATTAATGAACAAATTAATCAACTCATACATCATCTAGCACCT
19263992 A
1 A
19263993 CCCAGTACCC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.41, C:0.26, G:0.06, T:0.27
Consensus pattern (48 bp):
AATGCCATTAATGAACAAATTAATCAACTCATACATCATCTAGCACCT
Found at i:19269716 original size:15 final size:15
Alignment explanation
Indices: 19269696--19269724 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
19269686 ACACATACTT
19269696 CAAATTCTAAGTGCA
1 CAAATTCTAAGTGCA
19269711 CAAATTCTAAGTGC
1 CAAATTCTAAGTGC
19269725 CCTCACCTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.28
Consensus pattern (15 bp):
CAAATTCTAAGTGCA
Found at i:19270507 original size:3 final size:3
Alignment explanation
Indices: 19270499--19270536 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
19270489 ATCAAACAAT
19270499 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
19270537 GGATATGAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:19272384 original size:20 final size:20
Alignment explanation
Indices: 19272342--19272384 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
19272332 TAAGACATGG
*
19272342 AATTAATTAGAAATTAAATC
1 AATTAATTAGAAAATAAATC
*
19272362 AATTAGATTATAAAATAAA-C
1 AATTA-ATTAGAAAATAAATC
19272382 AAT
1 AAT
19272385 ACAGGGGCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.33
Consensus pattern (20 bp):
AATTAATTAGAAAATAAATC
Found at i:19274081 original size:25 final size:25
Alignment explanation
Indices: 19274033--19274081 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
19274023 CATAATTGAA
* * *
19274033 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
19274058 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
19274082 ATGTGTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:19274541 original size:14 final size:15
Alignment explanation
Indices: 19274504--19274542 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
19274494 ATGAGAAATG
*
19274504 AATATGAGATGAGAA
1 AATATGAAATGAGAA
19274519 AATATTGAAATGA-AA
1 AATA-TGAAATGAGAA
19274534 AATATGAAA
1 AATATGAAA
19274543 AATGATTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 5 0.23
15 10 0.45
16 7 0.32
ACGTcount: A:0.59, C:0.00, G:0.18, T:0.23
Consensus pattern (15 bp):
AATATGAAATGAGAA
Found at i:19274546 original size:43 final size:43
Alignment explanation
Indices: 19274476--19274562 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
19274466 TTATGTGATT
* *
19274476 AATATTGAAATGACAAAGATGAGAAATGAATATGAGATGAGAA
1 AATATTGAAATGAAAAAGATGAAAAATGAATATGAGATGAGAA
* *
19274519 AATATTGAAATGAAAAATATGAAAAATGATTATGAGATGAGAA
1 AATATTGAAATGAAAAAGATGAAAAATGAATATGAGATGAGAA
19274562 A
1 A
19274563 TAAAATATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.55, C:0.01, G:0.21, T:0.23
Consensus pattern (43 bp):
AATATTGAAATGAAAAAGATGAAAAATGAATATGAGATGAGAA
Found at i:19276438 original size:22 final size:24
Alignment explanation
Indices: 19276401--19276449 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
19276391 AGGCTATGTT
* *
19276401 GTATGTTGACTAGTTTATATTTTG
1 GTATGTTGACTAGTTTAAAGTTTG
19276425 GTATG-TGA-TAGTTTAAAGTTTG
1 GTATGTTGACTAGTTTAAAGTTTG
19276447 GTA
1 GTA
19276450 GCTTAGCATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 15 0.65
23 3 0.13
24 5 0.22
ACGTcount: A:0.24, C:0.02, G:0.24, T:0.49
Consensus pattern (24 bp):
GTATGTTGACTAGTTTAAAGTTTG
Found at i:19278147 original size:23 final size:23
Alignment explanation
Indices: 19278121--19278170 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
19278111 GGTGGGTGCA
19278121 TTCTAGCACTAAGGTGCAACTCG
1 TTCTAGCACTAAGGTGCAACTCG
* *
19278144 TTCTAGCACTATGGTGCAATTCG
1 TTCTAGCACTAAGGTGCAACTCG
19278167 TTCT
1 TTCT
19278171 GGCGCTACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (23 bp):
TTCTAGCACTAAGGTGCAACTCG
Found at i:19278184 original size:23 final size:23
Alignment explanation
Indices: 19278158--19278219 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
19278148 AGCACTATGG
*
19278158 TGCAATTCGTTCTGGCGCTACAA
1 TGCAATTCATTCTGGCGCTACAA
* * * *
19278181 TGCAATTAATTCTGGTGCTATAG
1 TGCAATTCATTCTGGCGCTACAA
*
19278204 TGCAATTCAATCTGGC
1 TGCAATTCATTCTGGC
19278220 ACTTTGATGC
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (23 bp):
TGCAATTCATTCTGGCGCTACAA
Found at i:19284955 original size:2 final size:2
Alignment explanation
Indices: 19284948--19285051 Score: 181
Period size: 2 Copynumber: 52.0 Consensus size: 2
19284938 TCAAAACCCT
19284948 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
* * *
19284990 AT AC AC AC AC AC AC AC AC AC AC AC AC AT AC AC AC AC AC AC AT
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
19285032 AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC
19285052 GTCTCATTCT
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 96 1.00
ACGTcount: A:0.50, C:0.47, G:0.00, T:0.03
Consensus pattern (2 bp):
AC
Found at i:19287433 original size:3 final size:3
Alignment explanation
Indices: 19287425--19287459 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
19287415 GTGGAATGGA
19287425 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GA
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GA
19287460 AAATATATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:19288239 original size:46 final size:46
Alignment explanation
Indices: 19288167--19288533 Score: 473
Period size: 46 Copynumber: 8.0 Consensus size: 46
19288157 AGTGTGCTCT
* *
19288167 CTGAAATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
19288213 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
19288259 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
19288305 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
19288351 ATGATATAAAATGTGTATGACCATGGTTGAAAGATACCACGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * ** *
19288397 GTGACATGAAATGAATAAGTCCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** ***
19288443 ATGACGGGAAAATAAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * ** * * * * *
19288490 ATGACAAAAAACGGGTAAAACCATAGTTGAAAGATACTATGGCA
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
19288534 TCATGTCGAA
Statistics
Matches: 289, Mismatches: 31, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
46 248 0.86
47 41 0.14
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:19288492 original size:24 final size:24
Alignment explanation
Indices: 19288418--19288492 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
19288408 TGAATAAGTC
19288418 CATGGTTGAAAGATACCATGGCAA
1 CATGGTTGAAAGATACCATGGCAA
* * * *
19288442 CATGACG-GGAAA-ATA-AATAAG-AC
1 CATG--GTTGAAAGATACCAT-GGCAA
19288465 CATGGTTGAAAGATACCATGGCAA
1 CATGGTTGAAAGATACCATGGCAA
19288489 CATG
1 CATG
19288493 ACAAAAAACG
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 11 0.31
24 15 0.42
25 4 0.11
26 1 0.03
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.19
Consensus pattern (24 bp):
CATGGTTGAAAGATACCATGGCAA
Found at i:19291275 original size:26 final size:24
Alignment explanation
Indices: 19291215--19291283 Score: 66
Period size: 26 Copynumber: 2.7 Consensus size: 24
19291205 TCTGCTTAGC
* *
19291215 GAACTAGGGTTCACAAGTTAAGTT
1 GAACTAGGGTTCACCAGGTAAGTT
*
19291239 GCAAATAAGGGTTCACCAGGTAAGTTAT
1 G-AACT-AGGGTTCACCAGGTAAG-T-T
*
19291267 GAACTAGGGTTCGCCAG
1 GAACTAGGGTTCACCAG
19291284 TCTTGTTGCG
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
24 1 0.03
25 3 0.08
26 26 0.72
27 4 0.11
28 2 0.06
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.25
Consensus pattern (24 bp):
GAACTAGGGTTCACCAGGTAAGTT
Found at i:19293015 original size:12 final size:12
Alignment explanation
Indices: 19292998--19293024 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
19292988 TGGTTTCAGT
19292998 GTATGACTTGTA
1 GTATGACTTGTA
19293010 GTATGACTTGTA
1 GTATGACTTGTA
19293022 GTA
1 GTA
19293025 GGAGAATACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.07, G:0.26, T:0.41
Consensus pattern (12 bp):
GTATGACTTGTA
Found at i:19298709 original size:38 final size:38
Alignment explanation
Indices: 19298650--19298726 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
19298640 CGTCTGGCCA
*
19298650 TATGCATTGAGGGATAGGTAGATACATCATGGTGATTT
1 TATGCATTGAGGGATAAGTAGATACATCATGGTGATTT
*
19298688 TATGTATTGAGGGATAAGTAGATACATCATGGTGATTT
1 TATGCATTGAGGGATAAGTAGATACATCATGGTGATTT
19298726 T
1 T
19298727 GTAAAAATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.36
Consensus pattern (38 bp):
TATGCATTGAGGGATAAGTAGATACATCATGGTGATTT
Found at i:19300480 original size:32 final size:32
Alignment explanation
Indices: 19300434--19300497 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
19300424 TGCCGAGAGA
* *
19300434 AAGAGTAACGTTGGAATTCTTTCAAACTGAGT
1 AAGAGTAACATTGGAATTCTTTCAAACCGAGT
19300466 AAGAGTAACATTGGAATTCTTTCAAACCGAGT
1 AAGAGTAACATTGGAATTCTTTCAAACCGAGT
19300498 TTAGAAAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (32 bp):
AAGAGTAACATTGGAATTCTTTCAAACCGAGT
Found at i:19307735 original size:30 final size:30
Alignment explanation
Indices: 19307701--19307760 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
19307691 TGAGCAGGAT
* * *
19307701 AACCAAAAGAGCAAGACTGCCTTTGGTGTC
1 AACCAAAAAAGCAAGACTACCTTCGGTGTC
19307731 AACCAAAAAAGCAAGACTACCTTCGGTGTC
1 AACCAAAAAAGCAAGACTACCTTCGGTGTC
19307761 GTGACATAGC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.37, C:0.25, G:0.20, T:0.18
Consensus pattern (30 bp):
AACCAAAAAAGCAAGACTACCTTCGGTGTC
Done.