Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 154 of 295
Found at i:52525939 original size:20 final size:20
Alignment explanation
Indices: 52525916--52525965 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
52525906 CTTGCTGACA
*
52525916 TTTTCTTTTTATTTCGATAT
1 TTTTCTTTTTATTTCAATAT
* *
52525936 TTTT-TCTTTTCTTTCAATTT
1 TTTTCT-TTTTATTTCAATAT
52525956 TTTTCTTTTT
1 TTTTCTTTTT
52525966 TTTGCACAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 1 0.04
20 23 0.92
21 1 0.04
ACGTcount: A:0.10, C:0.12, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTTCTTTTTATTTCAATAT
Found at i:52525957 original size:19 final size:20
Alignment explanation
Indices: 52525916--52525964 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
52525906 CTTGCTGACA
*
52525916 TTTTCTTTTTATTTCGATATT
1 TTTTC-TTTTATTTCAATATT
*
52525937 TTTTCTTTTCTTTCAAT-TT
1 TTTTCTTTTATTTCAATATT
52525956 TTTTCTTTT
1 TTTTCTTTT
52525965 TTTTGCACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 11 0.42
20 10 0.38
21 5 0.19
ACGTcount: A:0.10, C:0.12, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTTCTTTTATTTCAATATT
Found at i:52530468 original size:37 final size:37
Alignment explanation
Indices: 52530390--52530496 Score: 180
Period size: 37 Copynumber: 2.9 Consensus size: 37
52530380 GCTCAGACGA
* * *
52530390 AATCTCCACATGAAGTTATCGGGTCTTA-CCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
52530426 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
52530463 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
52530497 ATATATTTCC
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
36 25 0.37
37 42 0.63
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:52530771 original size:47 final size:47
Alignment explanation
Indices: 52530709--52531102 Score: 428
Period size: 47 Copynumber: 8.0 Consensus size: 47
52530699 ACACGTTTCG
* *
52530709 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATGCATGTTCACATTCATCA
* *
52530756 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATGCATGTTCACATTCATCA
* * *
52530803 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATGCATGTTCACATTCATCA
* * *
52530850 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCC-T-T-AC-C--ACATATATGCATGTTCACATTCATCA
* * *
52530903 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCC-T-T-AC-C--ACATATATGCATGTTCACATTCATCA
* * * *
52530956 AATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATGCATGTTCACATTCATCA
* **
52531003 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTA-C-CAC--ATATATGCATGTTCACATTCATCA
* * * *
52531054 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTACCACATATATGCATGTTCACATTCATCA
52531101 CA
1 CA
52531103 GTAAAATCCT
Statistics
Matches: 303, Mismatches: 34, Indels: 20
0.85 0.10 0.06
Matches are distributed among these distances:
47 162 0.53
48 1 0.00
49 8 0.03
50 2 0.01
51 40 0.13
52 1 0.00
53 89 0.29
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTACCACATATATGCATGTTCACATTCATCA
Found at i:52530897 original size:53 final size:52
Alignment explanation
Indices: 52530836--52531081 Score: 360
Period size: 53 Copynumber: 4.8 Consensus size: 52
52530826 ACATACGCAT
52530836 GTTCACATTCATCACATTGGCCATTCGGCCTTATCACGCATATATATATACAG
1 GTTCACATTCATCACATTGGCCATTCGGCCTTATCAC-CATATATATATACAG
52530889 GTTCACATTCATCACATTGGCCATTCGGCCTTATCACGCATATATATATACAG
1 GTTCACATTCATCACATTGGCCATTCGGCCTTATCAC-CATATATATATACAG
* * ** *
52530942 GTTCACATTCATCAAATTGGCCATTCGGCCTTATCA-C----ACATACGCAT
1 GTTCACATTCATCACATTGGCCATTCGGCCTTATCACCATATATATATACAG
* *
52530989 GTTCACATTCATCACATTGGCCATTCGGCCTTATCA-CACATATATATACGG
1 GTTCACATTCATCACATTGGCCATTCGGCCTTATCACCATATATATATACAG
52531040 GTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATA
1 GTTCACATTCATCACATTGGCCATTCGGCCTTATCAC-CATA
52531082 CGCATGTTCA
Statistics
Matches: 175, Mismatches: 12, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
47 42 0.24
51 42 0.24
53 91 0.52
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.31
Consensus pattern (52 bp):
GTTCACATTCATCACATTGGCCATTCGGCCTTATCACCATATATATATACAG
Found at i:52531004 original size:153 final size:150
Alignment explanation
Indices: 52530709--52531082 Score: 577
Period size: 153 Copynumber: 2.5 Consensus size: 150
52530699 ACACGTTTCG
* *
52530709 CATTAGCCATTCGGCCTTA-C-CACATATAT-T-CATGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
* * *
52530770 CCTTAT---C-T-CATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAT
66 CCTTATCACCATACATATATACAGGTTCACATTCATCAAATTGGCCATTCGGCCTTATCACACAT
52530830 ACGCATGTTCACATTCATCA
131 ACGCATGTTCACATTCATCA
*
52530850 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTC
1 CATTGGCCATTCGGCCTTATCA--CACATATATATACAGGTTCACATTCATCACATTGGCCATTC
*
52530915 GGCCTTATCACGCATATATATATACAGGTTCACATTCATCAAATTGGCCATTCGGCCTTATCACA
64 GGCCTTATCAC-CATACATATATACAGGTTCACATTCATCAAATTGGCCATTCGGCCTTATCACA
52530980 CATACGCATGTTCACATTCATCA
128 CATACGCATGTTCACATTCATCA
*
52531003 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
52531068 CCTTATCACACATAC
66 CCTTATCAC-CATAC
52531083 GCATGTTCAC
Statistics
Matches: 210, Mismatches: 11, Indels: 14
0.89 0.05 0.06
Matches are distributed among these distances:
141 18 0.09
142 1 0.00
145 8 0.04
146 1 0.00
147 36 0.17
151 55 0.26
152 1 0.00
153 90 0.43
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.32
Consensus pattern (150 bp):
CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
CCTTATCACCATACATATATACAGGTTCACATTCATCAAATTGGCCATTCGGCCTTATCACACAT
ACGCATGTTCACATTCATCA
Found at i:52536956 original size:27 final size:28
Alignment explanation
Indices: 52536872--52536969 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
52536862 CATGAGATTG
* * * *
52536872 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
52536901 GCACTAAGTGTGCGAGTTTGAATATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
52536929 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
52536956 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
52536970 GACTTAATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 23 0.37
28 21 0.34
29 18 0.29
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:52536980 original size:27 final size:27
Alignment explanation
Indices: 52536900--52536982 Score: 105
Period size: 27 Copynumber: 3.0 Consensus size: 27
52536890 TAAATTGTAC
*
52536900 AGCACTAAGTGTGCGAGTTTGAATATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
52536928 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
52536955 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
52536982 A
1 A
52536983 CTTTTGAATC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 29 0.59
28 20 0.41
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:52538587 original size:40 final size:40
Alignment explanation
Indices: 52538555--52538946 Score: 613
Period size: 40 Copynumber: 9.8 Consensus size: 40
52538545 CCAGCATGAT
* * *
52538555 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
52538595 TGCTCTTCGGAACTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
52538635 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
52538675 TGCTCTTTGGGATTTAGCTCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
52538715 TGCTCCTCGGGACTTAGCCTGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
52538755 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
52538795 TGCTCTTCGGAACTTAGTCCGGATATATCACTAACACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
52538835 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
52538875 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
52538915 TGCTTTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
52538947 CTCAATTCTC
Statistics
Matches: 320, Mismatches: 32, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 320 1.00
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:52540273 original size:37 final size:37
Alignment explanation
Indices: 52540215--52540285 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
52540205 GCTGAGACGA
* *
52540215 AATCTCCACATGAAGTTATCGGGTCTTACCCGGACAT
1 AATCTCCACACGAAGTCATCGGGTCTTACCCGGACAT
*
52540252 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGAAGTCATCGGGTCTTACCCGGA
52540286 ATATATTTCC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (37 bp):
AATCTCCACACGAAGTCATCGGGTCTTACCCGGACAT
Found at i:52540558 original size:47 final size:47
Alignment explanation
Indices: 52540496--52540900 Score: 342
Period size: 47 Copynumber: 8.0 Consensus size: 47
52540486 ACACGTTTCG
* *
52540496 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATGCATGTTCACATTCATCA
* * *
52540543 CATTGGCCATTCGGCCTTATCTCATATATGCATGCTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATGCATGTTCACATTCATCA
* * *
52540590 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATGCATGTTCACATTCATCA
* **
52540637 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATTTCACATTCATCA
1 CATTGGCCATTCGGCC-T-T-AC-C--ACATATAT----G--CATGTT-----CACATTCATCA
* * * *
52540701 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCAAATTCATCA
1 CATTGGCCATTCGGCC-T-T-AC-CACA--TATATGCATGTTCACATTCATCA
* * *
52540754 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATGCATGTTCACATTCATCA
* **
52540801 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTA-C-CAC--ATATATGCATGTTCACATTCATCA
* * * *
52540852 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTACCACATATATGCATGTTCACATTCATCA
52540899 CA
1 CA
52540901 GTAAAATCCT
Statistics
Matches: 296, Mismatches: 39, Indels: 46
0.78 0.10 0.12
Matches are distributed among these distances:
47 158 0.53
48 1 0.00
49 10 0.03
50 2 0.01
51 40 0.14
52 1 0.00
53 31 0.10
57 1 0.00
58 4 0.01
59 4 0.01
62 3 0.01
64 41 0.14
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTACCACATATATGCATGTTCACATTCATCA
Found at i:52540684 original size:53 final size:52
Alignment explanation
Indices: 52540623--52540879 Score: 283
Period size: 64 Copynumber: 4.8 Consensus size: 52
52540613 ACATACGCAT
52540623 GTTCACATTCATCACATTGGCCATTCGGCCTTATCACGCATATATATATACAG
1 GTTCACATTCATCACATTGGCCATTCGGCCTTATCAC-CATATATATATACAG
52540676 GTTCACATTCATTTCACATTCATCACATTGGCCATTCGGCCTTATCACGCATATATATATACAG
1 G-----------TTCACATTCATCACATTGGCCATTCGGCCTTATCAC-CATATATATATACAG
* * ** *
52540740 GTTCAAATTCATCACATTGGCCATTCGGCCTTATCA-C----ACATACGCAT
1 GTTCACATTCATCACATTGGCCATTCGGCCTTATCACCATATATATATACAG
* *
52540787 GTTCACATTCATCACATTGGCCATTCGGCCTTATCA-CACATATATATACGG
1 GTTCACATTCATCACATTGGCCATTCGGCCTTATCACCATATATATATACAG
52540838 GTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATA
1 GTTCACATTCATCACATTGGCCATTCGGCCTTATCAC-CATA
52540880 CGCATGTTCA
Statistics
Matches: 175, Mismatches: 12, Indels: 34
0.79 0.05 0.15
Matches are distributed among these distances:
47 42 0.24
51 42 0.24
53 38 0.22
64 53 0.30
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.32
Consensus pattern (52 bp):
GTTCACATTCATCACATTGGCCATTCGGCCTTATCACCATATATATATACAG
Found at i:52540795 original size:164 final size:157
Alignment explanation
Indices: 52540523--52540849 Score: 512
Period size: 164 Copynumber: 2.0 Consensus size: 157
52540513 TACCACATAT
* * *
52540523 ATTCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGCTCACATTCAT
1 ATTCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATACAGGCTCAAATTCAT
52540588 CACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCC
66 CACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCC
*
52540653 TTATCACGCATATATATATACAGGTTCAC
131 TTATCA--CACATATATATACAGGTTCAC
* *
52540682 ATTCAT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCAA
1 ATTCATGTTCACATTCATCACATTGGCCATTCGGCCTTAT----C-T-CATATATACAGGCTCAA
52540746 ATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCAT
60 ATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCAT
*
52540811 TCGGCCTTATCACACATATATATACGGGTTCAC
125 TCGGCCTTATCACACATATATATACAGGTTCAC
52540844 ATTCAT
1 ATTCAT
52540850 CACATTGGCC
Statistics
Matches: 155, Mismatches: 7, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
158 33 0.21
159 6 0.04
162 26 0.17
163 1 0.01
164 89 0.57
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.33
Consensus pattern (157 bp):
ATTCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATACAGGCTCAAATTCAT
CACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCC
TTATCACACATATATATACAGGTTCAC
Found at i:52540873 original size:98 final size:99
Alignment explanation
Indices: 52540688--52540900 Score: 374
Period size: 98 Copynumber: 2.2 Consensus size: 99
52540678 TCACATTCAT
*
52540688 TTCACATTCATCACATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCAAATTCATC
1 TTCACATTCATCACATTGGCCATTCGGCCTTATCAC-CACATATATATACAGGTTCAAATTCATC
52540753 ACATTGGCCATTCGGCCTTATCACACATACGCATG
65 ACATTGGCCATTCGGCCTTATCACACATACGCATG
* *
52540788 TTCACATTCATCACATTGGCCATTCGGCCTTATCA-CACATATATATACGGGTTCACATTCATCA
1 TTCACATTCATCACATTGGCCATTCGGCCTTATCACCACATATATATACAGGTTCAAATTCATCA
52540852 CATTGGCCATTCGGCCTTATCACACATACGCATG
66 CATTGGCCATTCGGCCTTATCACACATACGCATG
*
52540886 TTCACATCCATCACA
1 TTCACATTCATCACA
52540901 GTAAAATCCT
Statistics
Matches: 109, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
98 74 0.68
100 35 0.32
ACGTcount: A:0.28, C:0.30, G:0.12, T:0.31
Consensus pattern (99 bp):
TTCACATTCATCACATTGGCCATTCGGCCTTATCACCACATATATATACAGGTTCAAATTCATCA
CATTGGCCATTCGGCCTTATCACACATACGCATG
Found at i:52555328 original size:68 final size:68
Alignment explanation
Indices: 52555208--52555334 Score: 170
Period size: 68 Copynumber: 1.9 Consensus size: 68
52555198 GCTACATTTA
* *
52555208 TCTCGTAGCTCTCTTGTCTACATGGTGTACACATAGTATCTCCCATGCGACCTAGCTACCTCATA
1 TCTCGTAGCTCTCTTGTCTACATGGTATACACATAGTATCTCACATGCGACCTAGCTACCTCATA
52555273 ATG
66 ATG
* *
52555276 TCTCGTAGCTCTCTTGTAC-ACATGGTATACATCCT-GTAT-TACACATGTGACCTAGCTAC
1 TCTCGTAGCTCTCTTGT-CTACATGGTATACA-CATAGTATCT-CACATGCGACCTAGCTAC
52555335 ATACCATCTA
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
67 1 0.02
68 48 0.92
69 3 0.06
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.33
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTATACACATAGTATCTCACATGCGACCTAGCTACCTCATA
ATG
Found at i:52556107 original size:6 final size:6
Alignment explanation
Indices: 52556089--52556208 Score: 68
Period size: 6 Copynumber: 19.3 Consensus size: 6
52556079 AAGAAACATT
* *
52556089 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * * *
52556138 ATCAGA ATCAGT ATCAGGTA A-CATA ATCAAA ATCAGA ATAAGT ATCAGGTA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
52556189 A-CAGA ATCAAAA ATCAGA AT
1 ATCAGA ATC-AGA ATCAGA AT
52556209 GTGAATGCAA
Statistics
Matches: 87, Mismatches: 15, Indels: 24
0.69 0.12 0.19
Matches are distributed among these distances:
5 6 0.07
6 64 0.74
7 14 0.16
8 3 0.03
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:52556134 original size:31 final size:31
Alignment explanation
Indices: 52556098--52556208 Score: 150
Period size: 31 Copynumber: 3.5 Consensus size: 31
52556088 TATCAGAACT
* * * *
52556098 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
52556129 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
* *
52556160 ATAATCAAAATCAGAATAAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
52556191 AGAATCAAAAATCAGAAT
1 AGAATC-AAAATCAGAAT
52556209 GTGAATGCAA
Statistics
Matches: 72, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
31 61 0.85
32 11 0.15
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.20
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGTATCAGGTAAC
Found at i:52556444 original size:27 final size:26
Alignment explanation
Indices: 52556345--52556446 Score: 98
Period size: 27 Copynumber: 3.8 Consensus size: 26
52556335 GCTCAGTTAT
* * * *
52556345 CAGATATTGTGACAGAGTCACTAGATA
1 CAGATATTGTGGCAAAGCCACCAGA-A
*
52556372 TAGATATTGTGGCAGAA-CCACCAGAA
1 CAGATATTGTGGCA-AAGCCACCAGAA
*
52556398 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAAAGCCACCAG-AA
*
52556426 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAAAGCCAC
52556447 TTAACAGAAT
Statistics
Matches: 62, Mismatches: 9, Indels: 8
0.78 0.11 0.10
Matches are distributed among these distances:
26 7 0.11
27 46 0.74
28 9 0.15
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.21
Consensus pattern (26 bp):
CAGATATTGTGGCAAAGCCACCAGAA
Found at i:52556633 original size:22 final size:22
Alignment explanation
Indices: 52556605--52556669 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
52556595 GCAAATACGT
*
52556605 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
52556627 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
52556649 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
52556670 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:52557152 original size:27 final size:27
Alignment explanation
Indices: 52557096--52557533 Score: 655
Period size: 27 Copynumber: 16.3 Consensus size: 27
52557086 GGGGCAAAAT
* * * *
52557096 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
52557122 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
52557149 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
52557176 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
52557203 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
52557230 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
52557257 GGTAATTCTACCCTATAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
52557284 GATAATTCTACCCTACAGGGGTATTGT-
1 GGTAATTCTACCCTACAGGGGTATT-TC
*
52557311 GGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
52557338 GGTAATTCTACCCTACAGAGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
52557365 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
52557392 GGTAATTCTACCCTATAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
52557419 GATAATTCTACCCTACAAGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
52557446 AGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
52557473 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
52557500 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
52557527 AGTAATT
1 GGTAATT
52557534 TTGTAAATTG
Statistics
Matches: 375, Mismatches: 34, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
26 16 0.04
27 359 0.96
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:52557613 original size:27 final size:27
Alignment explanation
Indices: 52557583--52557660 Score: 113
Period size: 27 Copynumber: 2.9 Consensus size: 27
52557573 GGTACTTTGG
52557583 TAATTTTACAAGTCGAGGGTATTTCAA
1 TAATTTTACAAGTCGAGGGTATTTCAA
*
52557610 TAATTTTACAGGTCGAGGGTATTTCAA
1 TAATTTTACAAGTCGAGGGTATTTCAA
* *
52557637 TAATTTCACAAATC-AGGGGTATTT
1 TAATTTTACAAGTCGA-GGGTATTT
52557661 TGGTAATTTC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 1 0.02
27 45 0.98
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (27 bp):
TAATTTTACAAGTCGAGGGTATTTCAA
Found at i:52557650 original size:81 final size:81
Alignment explanation
Indices: 52557573--52557930 Score: 290
Period size: 81 Copynumber: 4.4 Consensus size: 81
52557563 GTAAATCAAT
* * **
52557573 GGTACTTTGGTAATTTTACAAGTC-GAGGGTATTTCAATAATTTTACAGGTCGA-GGGTATTTCA
1 GGTATTTTGGTAATTTTACAAATCAG-GGGTATTTCAATAATTTTACA-AACGAGGGGTATTTCA
52557636 ATAATTTCACAAATCAGG
64 ATAATTTCACAAATCAGG
* *** * **
52557654 GGTATTTTGGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGAT
1 GGTATTTTGGTAATTTTACAAATCAGGGGTATTTCAATAATTTTACAAACGAGGGGTATTTCAAT
* *
52557719 AATTTTACAAACCAGG
66 AATTTCACAAATCAGG
* ** *** * * * ***
52557735 GGTATTTTGGTAATTTTACAAACCAAAGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTGGT
1 GGTATTTTGGTAATTTTACAAATCAGGGGTATTTCAATAATTTTACAAACGAGGGGTATTTCAAT
* *
52557800 AATTTTACAAACCAGG
66 AATTTCACAAATCAGG
* * * * * * * *
52557816 GGTATTTTGGTGATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTC-G
1 GGTATTTTGGTAATTTTACAAATCAGGGGTATTTCAATAATTTTACAAACGAGGGGTA-TTTCAA
* * * *
52557880 TAATTTTATAAACCAAG
65 TAATTTCACAAATCAGG
* * *
52557897 GGTATTTTAGTGATTTTACAAACCAGGGGTATTT
1 GGTATTTTGGTAATTTTACAAATCAGGGGTATTT
52557931 TGGTAATTTG
Statistics
Matches: 240, Mismatches: 34, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
80 2 0.01
81 234 0.98
82 4 0.02
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTACAAATCAGGGGTATTTCAATAATTTTACAAACGAGGGGTATTTCAAT
AATTTCACAAATCAGG
Found at i:52557946 original size:27 final size:27
Alignment explanation
Indices: 52557637--52557939 Score: 426
Period size: 27 Copynumber: 11.2 Consensus size: 27
52557627 GGTATTTCAA
* *
52557637 TAATTTCACAAATCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* *
52557664 TAATTTCACAAATCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* *
52557691 TAATTTTACAAACTAGGGGTATTTTGA
1 TAATTTTACAAACCAGGGGTATTTTGG
52557718 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
**
52557745 TAATTTTACAAACCAAAGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* * *
52557772 TAATTTTATAAACAAAGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
52557799 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* * * *
52557826 TGATTTTATAAACCAAGGGTATTTTAG
1 TAATTTTACAAACCAGGGGTATTTTGG
*
52557853 TAATTTTACAAACCAGGGGTATTTTCG
1 TAATTTTACAAACCAGGGGTATTTTGG
* * *
52557880 TAATTTTATAAACCAAGGGTATTTTAG
1 TAATTTTACAAACCAGGGGTATTTTGG
*
52557907 TGATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
52557934 TAATTT
1 TAATTT
52557940 GGTAAACTAA
Statistics
Matches: 246, Mismatches: 30, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 246 1.00
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
TAATTTTACAAACCAGGGGTATTTTGG
Found at i:52570474 original size:27 final size:26
Alignment explanation
Indices: 52570431--52570674 Score: 317
Period size: 27 Copynumber: 9.1 Consensus size: 26
52570421 CGAAATAATA
52570431 ACCGAAATACCCTCATAGGGTAAAATG
1 ACCGAAATACCC-CATAGGGTAAAATG
52570458 ACCGAAATACACCCATAGGGTAAAATG
1 ACCGAAATAC-CCCATAGGGTAAAATG
*
52570485 ACCGAAATACCCTCATAAGGTAAAATG
1 ACCGAAATACCC-CATAGGGTAAAATG
* *
52570512 ACTGAAATACCCTTATAGGGTAAAATG
1 ACCGAAATACCC-CATAGGGTAAAATG
*
52570539 GCCGAAATACCCCCATAGGGTAAAATG
1 ACCGAAATA-CCCCATAGGGTAAAATG
* *
52570566 ATCGAAATACCCCCATAGGATAAAATG
1 ACCGAAATA-CCCCATAGGGTAAAATG
52570593 ACCGAAATACCCCATAGGGTAAAATG
1 ACCGAAATACCCCATAGGGTAAAATG
*
52570619 ACTGAAATACCCCTATAGGGTAAAATG
1 ACCGAAATACCCC-ATAGGGTAAAATG
* * * *
52570646 ACTGTAATATCCCTATAAGGTAAAATG
1 ACCGAAATA-CCCCATAGGGTAAAATG
52570673 AC
1 AC
52570675 TGTTTTGCCC
Statistics
Matches: 196, Mismatches: 16, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
26 30 0.15
27 158 0.81
28 8 0.04
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.20
Consensus pattern (26 bp):
ACCGAAATACCCCATAGGGTAAAATG
Found at i:52570697 original size:27 final size:27
Alignment explanation
Indices: 52570664--52570824 Score: 166
Period size: 27 Copynumber: 6.0 Consensus size: 27
52570654 ATCCCTATAA
52570664 GGTAAAATGACTGTTTTGCCCTTATGT
1 GGTAAAATGACTGTTTTGCCCTTATGT
* **
52570691 GGCAAAATGACTAATTTG-CCTT-TGT
1 GGTAAAATGACTGTTTTGCCCTTATGT
* *
52570716 GTTAAAATGACAGTTTTGCCCTTATGT
1 GGTAAAATGACTGTTTTGCCCTTATGT
* **
52570743 GGTAAAATGA-TGATTTTTCCCTTATAA
1 GGTAAAATGACTG-TTTTGCCCTTATGT
* *
52570770 GGTAAAATGACTATTTTGCCCTTATAT
1 GGTAAAATGACTGTTTTGCCCTTATGT
** * *
52570797 GGTAGGATAACTGTTTTGCCCCTATGT
1 GGTAAAATGACTGTTTTGCCCTTATGT
52570824 G
1 G
52570825 ATGTATGTTT
Statistics
Matches: 108, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
25 16 0.15
26 9 0.08
27 82 0.76
28 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.39
Consensus pattern (27 bp):
GGTAAAATGACTGTTTTGCCCTTATGT
Found at i:52570701 original size:107 final size:108
Alignment explanation
Indices: 52570431--52570673 Score: 344
Period size: 107 Copynumber: 2.3 Consensus size: 108
52570421 CGAAATAATA
* * * * **
52570431 ACCGAAATACCCTCATAGGGTAAAATGACCGAAATACACCCATAGGGTAAAATGACCGAAATACC
1 ACCGAAATACCCCCATAAGGTAAAATGATCGAAATACCCCCATAGGACAAAATGACCGAAATACC
*
52570496 CTCATAAGGTAAAATGACTGAAATACCCTTATAGGGTAAAATG
66 CTCATAAGGTAAAATGACTGAAATACCCCTATAGGGTAAAATG
* * *
52570539 GCCGAAATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAGGATAAAATGACCGAAATACC
1 ACCGAAATACCCCCATAAGGTAAAATGATCGAAATACCCCCATAGGACAAAATGACCGAAATACC
*
52570604 C-CATAGGGTAAAATGACTGAAATACCCCTATAGGGTAAAATG
66 CTCATAAGGTAAAATGACTGAAATACCCCTATAGGGTAAAATG
* * * *
52570646 ACTGTAATATCCCTATAAGGTAAAATGA
1 ACCGAAATACCCCCATAAGGTAAAATGA
52570674 CTGTTTTGCC
Statistics
Matches: 122, Mismatches: 13, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
107 61 0.50
108 61 0.50
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.20
Consensus pattern (108 bp):
ACCGAAATACCCCCATAAGGTAAAATGATCGAAATACCCCCATAGGACAAAATGACCGAAATACC
CTCATAAGGTAAAATGACTGAAATACCCCTATAGGGTAAAATG
Found at i:52585109 original size:43 final size:43
Alignment explanation
Indices: 52585043--52585143 Score: 139
Period size: 43 Copynumber: 2.3 Consensus size: 43
52585033 TATAGATAAT
**
52585043 GCCGCTAAAGAACATAACATTTAGCGGCGCTTTTGCCACAAAC
1 GCCGCTAAAGAACATAACATTTAGCGGCGCTTTCACCACAAAC
* * * * *
52585086 GCCGCTAAAGAACATGACCTTTAGTGGGGCTTTCACCGCAAAC
1 GCCGCTAAAGAACATAACATTTAGCGGCGCTTTCACCACAAAC
52585129 GCCGCTAAAGAACAT
1 GCCGCTAAAGAACAT
52585144 TTTCTTTAGT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.20
Consensus pattern (43 bp):
GCCGCTAAAGAACATAACATTTAGCGGCGCTTTCACCACAAAC
Found at i:52585943 original size:13 final size:14
Alignment explanation
Indices: 52585917--52585945 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
52585907 ACTAATGACG
52585917 AATTAAACCATTAT
1 AATTAAACCATTAT
52585931 AATTAAA-CATTAT
1 AATTAAACCATTAT
52585944 AA
1 AA
52585946 ATATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:52587055 original size:32 final size:31
Alignment explanation
Indices: 52587019--52587095 Score: 77
Period size: 32 Copynumber: 2.5 Consensus size: 31
52587009 AGCTCAACCC
* *
52587019 ACAGAAACAGAATAAGTTGGCCATA-GCCCAGA
1 ACAGAAACAGAATAA--AGCCCATAGGCCCAGA
* *
52587051 ACAGAATTCAGAATAAAGCCCATAGGCCCATA
1 ACAGAA-ACAGAATAAAGCCCATAGGCCCAGA
52587083 ACAG-AACAGAATA
1 ACAGAAACAGAATA
52587096 GATATTACAT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
30 7 0.18
31 7 0.18
32 16 0.42
33 8 0.21
ACGTcount: A:0.47, C:0.22, G:0.18, T:0.13
Consensus pattern (31 bp):
ACAGAAACAGAATAAAGCCCATAGGCCCAGA
Found at i:52587262 original size:27 final size:26
Alignment explanation
Indices: 52587225--52587339 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 26
52587215 AACATGGCTT
* *
52587225 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
52587251 CCAGATACAGATAATCGTGGTAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
52587279 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
52587306 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
52587333 CCAGAAC
1 CCAGAAC
52587340 GCTTCATCCA
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
26 5 0.06
27 57 0.73
28 16 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:52587284 original size:54 final size:54
Alignment explanation
Indices: 52587225--52587339 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
52587215 AACATGGCTT
* *
52587225 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGTAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
52587279 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
52587333 CCAGAAC
1 CCAGAAC
52587340 GCTTCATCCA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 36 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:52588983 original size:26 final size:26
Alignment explanation
Indices: 52588947--52589082 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
52588937 CATGAAATTC
*
52588947 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
52588973 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
52588999 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
52589025 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
52589051 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
52589077 TTATCA
1 TTATCA
52589083 ATTTGTATCA
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 107 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:52593026 original size:27 final size:26
Alignment explanation
Indices: 52592989--52593103 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
52592979 AGCATGGCTG
* *
52592989 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
52593015 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
52593043 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
52593070 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
52593097 CCAGAAC
1 CCAGAAC
52593104 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:52593048 original size:54 final size:54
Alignment explanation
Indices: 52592989--52593103 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
52592979 AGCATGGCTG
*
52592989 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
52593043 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
52593097 CCAGAAC
1 CCAGAAC
52593104 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:52594744 original size:26 final size:26
Alignment explanation
Indices: 52594708--52594842 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
52594698 CATGAAATTC
*
52594708 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
52594734 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
52594760 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
52594786 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
52594812 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
52594837 TTATCA
1 TTATCA
52594843 ATTTGTATCA
Statistics
Matches: 107, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
25 23 0.21
26 84 0.79
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:52598803 original size:27 final size:26
Alignment explanation
Indices: 52598766--52598880 Score: 131
Period size: 27 Copynumber: 4.3 Consensus size: 26
52598756 AGCATGGCTG
* *
52598766 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
52598792 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
52598820 CTAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * * *
52598847 CCAGATCAGATATTTGTGGCATAGCCG
1 CCAGAACAGATA-ATGTGGCAGAGCCA
52598874 CCAGAAC
1 CCAGAAC
52598881 GCTTCCTCCA
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
26 5 0.06
27 56 0.73
28 16 0.21
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:52598880 original size:54 final size:54
Alignment explanation
Indices: 52598765--52598880 Score: 153
Period size: 54 Copynumber: 2.1 Consensus size: 54
52598755 CAGCATGGCT
*
52598765 GCCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCC
1 GCCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCC
* * * * * *
52598819 ACTAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATATTTGTGGCATAGCC
1 GCCAGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCC
52598873 GCCAGAAC
1 GCCAGAAC
52598881 GCTTCCTCCA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.17
Consensus pattern (54 bp):
GCCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCC
Found at i:52600525 original size:26 final size:26
Alignment explanation
Indices: 52600489--52600624 Score: 229
Period size: 26 Copynumber: 5.2 Consensus size: 26
52600479 CATGAAATTC
52600489 TTATCATGAAACATTTACCTAA-CTCA
1 TTATCATGAAACATTTACCTAACCT-A
*
52600515 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
52600541 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
52600567 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
52600593 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
52600619 TTATCA
1 TTATCA
52600625 ATTTGTATCA
Statistics
Matches: 105, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
26 104 0.99
27 1 0.01
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:52603101 original size:35 final size:35
Alignment explanation
Indices: 52603062--52603132 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
52603052 ATACAACATT
*
52603062 ATCAAAAGTTGTGACTAAAGGTATATAGGTGAATG
1 ATCAAAAGTTGTGACTAAAGATATATAGGTGAATG
*
52603097 ATCAAAATTTGTGACTAAAGATATATAGGTGAATG
1 ATCAAAAGTTGTGACTAAAGATATATAGGTGAATG
52603132 A
1 A
52603133 ATGAATACTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.42, C:0.06, G:0.23, T:0.30
Consensus pattern (35 bp):
ATCAAAAGTTGTGACTAAAGATATATAGGTGAATG
Found at i:52605657 original size:9 final size:9
Alignment explanation
Indices: 52605643--52605782 Score: 108
Period size: 9 Copynumber: 15.6 Consensus size: 9
52605633 TATTTATGTA
52605643 TTATGTAAG
1 TTATGTAAG
*
52605652 TTATGTGAG
1 TTATGTAAG
*
52605661 TTATGAAAG
1 TTATGTAAG
*
52605670 TTATGATATG
1 TTATG-TAAG
*
52605680 ATATATATAAG
1 -T-TATGTAAG
52605691 TTAT-TAAG
1 TTATGTAAG
52605699 TTATGTAAG
1 TTATGTAAG
* *
52605708 TTGTGTGAG
1 TTATGTAAG
52605717 TTATGTAAG
1 TTATGTAAG
*
52605726 TTATGATATG
1 TTATG-TAAG
* * *
52605736 ATATAT-AT
1 TTATGTAAG
52605744 TTATGT-A-
1 TTATGTAAG
52605751 TTATGTAAG
1 TTATGTAAG
*
52605760 TTATGTAAA
1 TTATGTAAG
*
52605769 TTATGCAAG
1 TTATGTAAG
52605778 TTATG
1 TTATG
52605783 AAATTTAAAC
Statistics
Matches: 103, Mismatches: 21, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
7 6 0.06
8 14 0.14
9 67 0.65
10 9 0.09
11 4 0.04
12 3 0.03
ACGTcount: A:0.34, C:0.01, G:0.20, T:0.45
Consensus pattern (9 bp):
TTATGTAAG
Found at i:52605665 original size:56 final size:54
Alignment explanation
Indices: 52605603--52605783 Score: 199
Period size: 56 Copynumber: 3.3 Consensus size: 54
52605593 AGTATAATTA
*
52605603 AGTTATGTAAATTATTATATGATTGATATCTATTTATGTATTATGTAAGTTATGTG
1 AGTTATGTAAATTATGATATGATT-ATAT-TATTTATGTATTATGTAAGTTATGTG
* * *
52605659 AGTTATG-AAAGTTATGATATGATATATATAAGTTAT-TAAGTTATGTAAGTTGTGTG
1 AGTTATGTAAA-TTATGATATGAT-TATATTATTTATGT-A-TTATGTAAGTTATGTG
* *
52605715 AGTTATGTAAGTTATGATATGA-TATA-TATTTATGTATTATGTAAGTTATGTA
1 AGTTATGTAAATTATGATATGATTATATTATTTATGTATTATGTAAGTTATGTG
* * *
52605767 AATTATGCAAGTTATGA
1 AGTTATGTAAATTATGA
52605784 AATTTAAACT
Statistics
Matches: 108, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
52 29 0.27
53 6 0.06
54 6 0.06
55 9 0.08
56 55 0.51
57 3 0.03
ACGTcount: A:0.35, C:0.01, G:0.18, T:0.46
Consensus pattern (54 bp):
AGTTATGTAAATTATGATATGATTATATTATTTATGTATTATGTAAGTTATGTG
Found at i:52606378 original size:32 final size:31
Alignment explanation
Indices: 52606318--52606378 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 31
52606308 TTTAACTTTG
* *
52606318 GAAAATTTTTTAAAAAAATTCTAGAAAAACT
1 GAAAATTTTTTAAAAAAATTCAAAAAAAACT
52606349 GAAATATTTTTT-AAAAAATTGCAAAAAAAA
1 GAAA-ATTTTTTAAAAAAATT-CAAAAAAAA
52606379 TATATTTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 12 0.46
32 14 0.54
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.31
Consensus pattern (31 bp):
GAAAATTTTTTAAAAAAATTCAAAAAAAACT
Found at i:52607049 original size:15 final size:15
Alignment explanation
Indices: 52607026--52607055 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
52607016 ACAGTATGAC
52607026 AGATAGCAGAAAACT
1 AGATAGCAGAAAACT
*
52607041 AGATGGCAGAAAACT
1 AGATAGCAGAAAACT
52607056 GGAGAAGCAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.13, G:0.23, T:0.13
Consensus pattern (15 bp):
AGATAGCAGAAAACT
Found at i:52608381 original size:15 final size:16
Alignment explanation
Indices: 52608356--52608387 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
52608346 GGGATGGAGG
52608356 AATTGATTTGGGGAAA
1 AATTGATTTGGGGAAA
52608372 AATT-ATTTGGGGAAA
1 AATTGATTTGGGGAAA
52608387 A
1 A
52608388 TGTTAGGGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.41, C:0.00, G:0.28, T:0.31
Consensus pattern (16 bp):
AATTGATTTGGGGAAA
Found at i:52612012 original size:14 final size:15
Alignment explanation
Indices: 52611973--52612013 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
52611963 AACCAAAATC
*
52611973 CTAAACTCTAAAACA
1 CTAAACACTAAAACA
*
52611988 CTAACCACTAAAACA
1 CTAAACACTAAAACA
52612003 C-AAACACTAAA
1 CTAAACACTAAA
52612014 CCCTAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (15 bp):
CTAAACACTAAAACA
Found at i:52612270 original size:7 final size:7
Alignment explanation
Indices: 52612258--52612294 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
52612248 TAACTTTCCC
52612258 AACCCCT
1 AACCCCT
52612265 AACCCCTT
1 AACCCC-T
*
52612273 AAACCCT
1 AACCCCT
52612280 AACCCCT
1 AACCCCT
52612287 AACCCCT
1 AACCCCT
52612294 A
1 A
52612295 GTTTTCTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
7 21 0.78
8 6 0.22
ACGTcount: A:0.32, C:0.51, G:0.00, T:0.16
Consensus pattern (7 bp):
AACCCCT
Found at i:52612502 original size:40 final size:40
Alignment explanation
Indices: 52612458--52612560 Score: 107
Period size: 41 Copynumber: 2.5 Consensus size: 40
52612448 TTTTGCGGCA
* *
52612458 TTTTTGTAAAAGCGCCACTAATGGTCAATCTATAGTGGCG
1 TTTTTCTAAAAGCGCCACTAATGCTCAATCTATAGTGGCG
* ** ** * *
52612498 TTTTTTTAAAAAGCATCGGTAATGCTCGATCTATAGTGGTG
1 TTTTTCT-AAAAGCGCCACTAATGCTCAATCTATAGTGGCG
*
52612539 TTTTTCAAAAAGCGCCACTAAT
1 TTTTTCTAAAAGCGCCACTAAT
52612561 TCCACTAAAG
Statistics
Matches: 48, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
40 17 0.35
41 31 0.65
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (40 bp):
TTTTTCTAAAAGCGCCACTAATGCTCAATCTATAGTGGCG
Found at i:52612702 original size:40 final size:41
Alignment explanation
Indices: 52612612--52612715 Score: 140
Period size: 40 Copynumber: 2.6 Consensus size: 41
52612602 TTTTGGGGCG
52612612 TTTTTCAAAAAGCGCCACTAATGCTCGATCTATAGCAGCGA
1 TTTTTCAAAAAGCGCCACTAATGCTCGATCTATAGCAGCGA
* * *
52612653 -TTTTCAAAAAGCGCCACTAATGCTTGATCTATATCGGC-A
1 TTTTTCAAAAAGCGCCACTAATGCTCGATCTATAGCAGCGA
* * *
52612692 TTTTTAAAAAAGCTCCGCTAATGC
1 TTTTTCAAAAAGCGCCACTAATGC
52612716 CACTAAAGCT
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.02
40 55 0.98
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (41 bp):
TTTTTCAAAAAGCGCCACTAATGCTCGATCTATAGCAGCGA
Found at i:52612837 original size:40 final size:40
Alignment explanation
Indices: 52612788--52612946 Score: 121
Period size: 40 Copynumber: 4.0 Consensus size: 40
52612778 CACTAATTGC
* *
52612788 TCGACCTATAGCGGCATTTTTAAAAAAGCGCCGCTAATGT
1 TCGATCTATAGCAGCATTTTTAAAAAAGCGCCGCTAATGT
* * *
52612828 TCGATCTATAGCAG-AGTTTTTCATAAAA-CGCCACTAATGC
1 TCGATCTATAGCAGCA-TTTTT-AAAAAAGCGCCGCTAATGT
* * * *
52612868 TCGATCTGTAACAGCGA-TTTTCAACAAGCGCCGCTAATGCT
1 TCGATCTATAGCAGC-ATTTTTAAAAAAGCGCCGCTAATG-T
* * * *
52612909 T-AATCTATAG-AGGCGTTTTTAAAAAAGTGTCGCTAATG
1 TCGATCTATAGCA-GCATTTTTAAAAAAGCGCCGCTAATG
52612947 CTACTAAAGC
Statistics
Matches: 91, Mismatches: 20, Indels: 16
0.72 0.16 0.13
Matches are distributed among these distances:
39 5 0.05
40 79 0.87
41 6 0.07
42 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.30
Consensus pattern (40 bp):
TCGATCTATAGCAGCATTTTTAAAAAAGCGCCGCTAATGT
Found at i:52612865 original size:152 final size:152
Alignment explanation
Indices: 52612432--52612867 Score: 474
Period size: 153 Copynumber: 2.8 Consensus size: 152
52612422 TTTTTTTACG
* * * * *
52612432 GCGTTGTGCTTAATTTTTTTGCGGCATTTTTGTAAAAGCGCCACTAATGGTCAATCTATAGTGGC
1 GCGTTGTGCTTAATTTTTTTGCGGC--GTTTAT-AAAGCGCCACTAATGCTCGATCTATAGCGGC
* * ** * * * * *
52612497 GTTTTTTTAAAAAGCATCGGTAATGCTCGATCTATAGTGGTGTTTTTCAAAAAGCGCCACTAATT
63 GATTTTTAAAAAAGCGCCGCTAATGTTCGATCTATAGCGGAGTTTTTCAAAAAGCGCCACTAATG
*
52612562 CCACTAAAGCTCAACTTAAAACGAC
128 CCACTAAAGCTCAACATAAAACGAC
* * *
52612587 GCGTTGTGCTTAA-TTTTTTGGGGCGTTTTTCAAAAAGCGCCACTAATGCTCGATCTATAGCAGC
1 GCGTTGTGCTTAATTTTTTTGCGGCG--TTT-ATAAAGCGCCACTAATGCTCGATCTATAGCGGC
* * * * * *
52612651 GA-TTTTCAAAAAGCGCCACTAATGCTT-GATCTATATCGGCA-TTTTTAAAAAAGCTCCGCTAA
63 GATTTTTAAAAAAGCGCCGCTAATG-TTCGATCTATAGCGG-AGTTTTTCAAAAAGCGCCACTAA
52612713 TGCCACTAAAGCTCAACATAAAACGAC
126 TGCCACTAAAGCTCAACATAAAACGAC
*
52612740 G-GAATTGTGCTTAATTTTTTTGCGGCGTTTATAAA-CGCCACTAATTGCTCGACCTATAGCGGC
1 GCG--TTGTGCTTAATTTTTTTGCGGCGTTTATAAAGCGCCACTAA-TGCTCGATCTATAGCGGC
*
52612803 -ATTTTTAAAAAAGCGCCGCTAATGTTCGATCTATAGCAGAGTTTTTCATAAAA-CGCCACTAAT
63 GATTTTTAAAAAAGCGCCGCTAATGTTCGATCTATAGCGGAGTTTTTCA-AAAAGCGCCACTAAT
52612866 GC
127 GC
52612868 TCGATCTGTA
Statistics
Matches: 234, Mismatches: 34, Indels: 29
0.79 0.11 0.10
Matches are distributed among these distances:
151 13 0.06
152 67 0.29
153 78 0.33
154 52 0.22
155 24 0.10
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (152 bp):
GCGTTGTGCTTAATTTTTTTGCGGCGTTTATAAAGCGCCACTAATGCTCGATCTATAGCGGCGAT
TTTTAAAAAAGCGCCGCTAATGTTCGATCTATAGCGGAGTTTTTCAAAAAGCGCCACTAATGCCA
CTAAAGCTCAACATAAAACGAC
Found at i:52613076 original size:40 final size:40
Alignment explanation
Indices: 52613032--52613157 Score: 123
Period size: 40 Copynumber: 3.1 Consensus size: 40
52613022 CCTATTGCGC
52613032 GTTTTTAAAAAAGCGCCGCTAATGTTCGATCTATAGCGGA
1 GTTTTTAAAAAAGCGCCGCTAATGTTCGATCTATAGCGGA
* * * * *
52613072 GTTTTTCATAAAA-CACTGCTAATGCTCGATCTATAGTGGCA
1 GTTTTT-AAAAAAGCGCCGCTAATGTTCGATCTATAGCGG-A
** * *
52613113 -TTTTCCAAAAAGCGTCGCTAATGCTT-GATCTATAGCGGC
1 GTTTTTAAAAAAGCGCCGCTAATG-TTCGATCTATAGCGGA
52613152 GTTTTT
1 GTTTTT
52613158 TATCCAAACG
Statistics
Matches: 66, Mismatches: 15, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
39 4 0.06
40 55 0.83
41 7 0.11
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (40 bp):
GTTTTTAAAAAAGCGCCGCTAATGTTCGATCTATAGCGGA
Found at i:52613137 original size:229 final size:232
Alignment explanation
Indices: 52612611--52613157 Score: 766
Period size: 232 Copynumber: 2.4 Consensus size: 232
52612601 TTTTTGGGGC
* *
52612611 GTTTTTCA-AAAAGCGCCACTAATGCTCGATCTATAGCAGCGATTTTCAAAAAGCGCCACTAATG
1 GTTTTTCATAAAA-CACCACTAATGCTCGATCTATAGCAGCGATTTTCAAAAAGCGCCGCTAATG
* *
52612675 CTTGATCTATATCGGCATTTTTAAAAAAGCTCCGCTAATGCCACTAAAGCTCAACATAAAACGAC
65 CTTGATCTATAGCGGCGTTTTTAAAAAAGCTCCGCTAATGCCACTAAAGCTCAACATAAAACGAC
*
52612740 GGAATTGTGCTTAATTTTTTTGCGGCGTTTATAAACGCCACTAATTGCTCGACCTATAGCGGCAT
130 GGAATTGTGCTTAATTTTTTTGCGGCGTTTATAAACGCCACTAATTGCTCAACCTATAGCGGCAT
52612805 TTTTAAAAAAGCGCCGCTAATGTTCGATCTATAGCAGA
195 TTTTAAAAAAGCGCCGCTAATGTTCGATCTATAGCAGA
* * * *
52612843 GTTTTTCATAAAACGCCACTAATGCTCGATCTGTAACAGCGATTTTCAACAAGCGCCGCTAATGC
1 GTTTTTCATAAAACACCACTAATGCTCGATCTATAGCAGCGATTTTCAAAAAGCGCCGCTAATGC
* * * * *
52612908 TTAATCTATAGAGGCGTTTTTAAAAAAG-TGTCGCTAATGCTACTAAAGCTCAACATAAAACGAT
66 TTGATCTATAGCGGCGTTTTTAAAAAAGCT-CCGCTAATGCCACTAAAGCTCAACATAAAACGAC
* * * ** * *
52612972 GGCATTGTGCTTAA-TTTTTTGTGGCGCTTT-TAAATGCCGTTAA-TGCTCAACCTATTGC-GCG
130 GGAATTGTGCTTAATTTTTTTGCGGCG-TTTATAAACGCCACTAATTGCTCAACCTATAGCGGCA
*
52613033 TTTTTAAAAAAGCGCCGCTAATGTTCGATCTATAGCGGA
194 TTTTTAAAAAAGCGCCGCTAATGTTCGATCTATAGCAGA
** ** *
52613072 GTTTTTCATAAAACACTGCTAATGCTCGATCTATAGTGGC-ATTTTCCAAAAAGCGTCGCTAATG
1 GTTTTTCATAAAACACCACTAATGCTCGATCTATAGCAGCGATTTT-CAAAAAGCGCCGCTAATG
52613136 CTTGATCTATAGCGGCGTTTTT
65 CTTGATCTATAGCGGCGTTTTT
52613158 TATCCAAACG
Statistics
Matches: 280, Mismatches: 31, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
228 5 0.02
229 109 0.39
230 13 0.05
231 22 0.08
232 127 0.45
233 4 0.01
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (232 bp):
GTTTTTCATAAAACACCACTAATGCTCGATCTATAGCAGCGATTTTCAAAAAGCGCCGCTAATGC
TTGATCTATAGCGGCGTTTTTAAAAAAGCTCCGCTAATGCCACTAAAGCTCAACATAAAACGACG
GAATTGTGCTTAATTTTTTTGCGGCGTTTATAAACGCCACTAATTGCTCAACCTATAGCGGCATT
TTTAAAAAAGCGCCGCTAATGTTCGATCTATAGCAGA
Found at i:52622629 original size:52 final size:51
Alignment explanation
Indices: 52622522--52622698 Score: 225
Period size: 52 Copynumber: 3.5 Consensus size: 51
52622512 GGATACCCAA
* * * * * *
52622522 TGGCCTGCACATAGTACCACTCTTAT-AGTCAAAACTACCTTCTTCACAAAG
1 TGGCCTTCACATAGTACCACACTTGTGA-CCAAAGCTACTTTCTTCACAAAG
52622573 TGGCCTTCACATAGTACCACACTTGTGACCAAAGCTAACTTTCTTCACAAAG
1 TGGCCTTCACATAGTACCACACTTGTGACCAAAGCT-ACTTTCTTCACAAAG
* * * *
52622625 TGGCCTTCACACAGTACCACACTTGTGACC-AAGCGA-TATCTTCTCAAAG
1 TGGCCTTCACATAGTACCACACTTGTGACCAAAGCTACTTTCTTCACAAAG
52622674 TGGCCTTCACATAGTACCACACTTG
1 TGGCCTTCACATAGTACCACACTTG
52622699 AGTCACTAGT
Statistics
Matches: 113, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
49 35 0.31
50 1 0.01
51 33 0.29
52 44 0.39
ACGTcount: A:0.29, C:0.30, G:0.14, T:0.27
Consensus pattern (51 bp):
TGGCCTTCACATAGTACCACACTTGTGACCAAAGCTACTTTCTTCACAAAG
Found at i:52625440 original size:42 final size:44
Alignment explanation
Indices: 52625383--52625486 Score: 113
Period size: 44 Copynumber: 2.4 Consensus size: 44
52625373 GCTTCCATCT
* * * * * *
52625383 CAGACAGGGTTTTACAC-TAAATCAGATAT-GATGTCTATGTCC
1 CAGACATGGTCTTACACGTAAATCACAAATCGAGGCCTATGTCC
* * *
52625425 CAGGCATGGTCTTACACGTAAATCTCAAATCGAGGCCTGTGTCC
1 CAGACATGGTCTTACACGTAAATCACAAATCGAGGCCTATGTCC
52625469 CAGACATGGTCTTACACG
1 CAGACATGGTCTTACACG
52625487 ATATCTCAGA
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 14 0.28
43 9 0.18
44 27 0.54
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (44 bp):
CAGACATGGTCTTACACGTAAATCACAAATCGAGGCCTATGTCC
Found at i:52631192 original size:62 final size:62
Alignment explanation
Indices: 52631098--52631222 Score: 223
Period size: 62 Copynumber: 2.0 Consensus size: 62
52631088 ATATCATATG
*
52631098 ATATTAATGCATAAGAAAAACAACAATTTATCTCTTATAGAGGTCTCCAAGACCTAAGACAT
1 ATATTAATGCATAACAAAAACAACAATTTATCTCTTATAGAGGTCTCCAAGACCTAAGACAT
* *
52631160 ATATTAATGCATAACAAAAACAACAATTTATCTCTTATAGAGGTCTCTAAGACGTAAGACAT
1 ATATTAATGCATAACAAAAACAACAATTTATCTCTTATAGAGGTCTCCAAGACCTAAGACAT
52631222 A
1 A
52631223 CTTTTAGAAG
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.28
Consensus pattern (62 bp):
ATATTAATGCATAACAAAAACAACAATTTATCTCTTATAGAGGTCTCCAAGACCTAAGACAT
Found at i:52632545 original size:42 final size:44
Alignment explanation
Indices: 52632499--52632594 Score: 124
Period size: 44 Copynumber: 2.2 Consensus size: 44
52632489 CTCAGATAGG
* * * *
52632499 GTCTTACAC-TAAATCAGATAT-GATGCCTATGTCCCAGACATA
1 GTCTTACACGTAAATCACAAATCGAGGCCTATGTCCCAGACACA
* *
52632541 GTCTTACACGTAAATCTCAAATCGAGGCCTGTGTCCCAGACACA
1 GTCTTACACGTAAATCACAAATCGAGGCCTATGTCCCAGACACA
52632585 GTCTTACACG
1 GTCTTACACG
52632595 ATATCTCAGA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 9 0.20
43 9 0.20
44 28 0.61
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (44 bp):
GTCTTACACGTAAATCACAAATCGAGGCCTATGTCCCAGACACA
Found at i:52637214 original size:40 final size:40
Alignment explanation
Indices: 52637072--52637217 Score: 139
Period size: 41 Copynumber: 3.6 Consensus size: 40
52637062 ACTGGAGTGT
* * ** * * *
52637072 AAACAGGGGCACGCATGTGCAATTTAGTTGAACCGAAGTAC
1 AAACA-GGGCATGTATGTGCAATTTAGGGGTACCAAAGCAC
* * * *
52637113 AAACAGGAGCACGTATGTGTAATTTAGGGGTACCAAAGTAT
1 AAACAGG-GCATGTATGTGCAATTTAGGGGTACCAAAGCAC
* *
52637154 AAATAAGGGCATGTATGTGCAATTTAGGGGTACCAATGCAC
1 AAA-CAGGGCATGTATGTGCAATTTAGGGGTACCAAAGCAC
*
52637195 AAACAGGGCATTTATGTGCAATT
1 AAACAGGGCATGTATGTGCAATT
52637218 CAAAGGTATC
Statistics
Matches: 88, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
40 20 0.23
41 65 0.74
42 3 0.03
ACGTcount: A:0.35, C:0.15, G:0.26, T:0.24
Consensus pattern (40 bp):
AAACAGGGCATGTATGTGCAATTTAGGGGTACCAAAGCAC
Found at i:52640954 original size:28 final size:28
Alignment explanation
Indices: 52640900--52640958 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
52640890 TTTAATAGAT
*
52640900 TTAATATTAACTTAATTTACTACTTATC
1 TTAATATTAACTTAATTTAATACTTATC
* *
52640928 TTAATATTAAATTTAATTTAAT-TTTATC
1 TTAATATT-AACTTAATTTAATACTTATC
52640956 TTA
1 TTA
52640959 TAGATAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 16 0.59
29 11 0.41
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.54
Consensus pattern (28 bp):
TTAATATTAACTTAATTTAATACTTATC
Found at i:52645222 original size:40 final size:40
Alignment explanation
Indices: 52644992--52645223 Score: 315
Period size: 40 Copynumber: 5.8 Consensus size: 40
52644982 CATTTGAATG
* * * *
52644992 ATATCCGGGATAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
* * * *
52645032 TTATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
*
52645072 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
52645112 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
*
52645152 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
* * *
52645192 ATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
52645224 TTGTGGTTAT
Statistics
Matches: 181, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
40 178 0.98
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
Found at i:52647116 original size:12 final size:12
Alignment explanation
Indices: 52647099--52647124 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
52647089 AAGTTTTGAC
52647099 TTGAGGAATCAA
1 TTGAGGAATCAA
52647111 TTGAGGAATCAA
1 TTGAGGAATCAA
52647123 TT
1 TT
52647125 TTTGATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (12 bp):
TTGAGGAATCAA
Found at i:52647220 original size:20 final size:23
Alignment explanation
Indices: 52647173--52647224 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 23
52647163 CAATCAATAG
*
52647173 TCTCCTATTATTTATGGTACTCA
1 TCTCATATTATTTATGGTACTCA
*
52647196 ACTCATATTA-TT-TGGTACTC-
1 TCTCATATTATTTATGGTACTCA
52647216 TCTCATATT
1 TCTCATATT
52647225 TTTTTAGTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 8 0.31
21 8 0.31
22 2 0.08
23 8 0.31
ACGTcount: A:0.23, C:0.21, G:0.08, T:0.48
Consensus pattern (23 bp):
TCTCATATTATTTATGGTACTCA
Found at i:52647234 original size:21 final size:20
Alignment explanation
Indices: 52647173--52647235 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 20
52647163 CAATCAATAG
*
52647173 TCTCCTATTATTTATGGTACTC
1 TCTCATATTATTTA--GTACTC
* *
52647195 AACTCATATTATTTGGTACTC
1 -TCTCATATTATTTAGTACTC
*
52647216 TCTCATATTTTTTTAGTACT
1 TCTCATA-TTATTTAGTACT
52647236 TCAAAAATTA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
20 6 0.18
21 16 0.48
23 11 0.33
ACGTcount: A:0.22, C:0.19, G:0.08, T:0.51
Consensus pattern (20 bp):
TCTCATATTATTTAGTACTC
Found at i:52647764 original size:19 final size:20
Alignment explanation
Indices: 52647742--52647780 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
52647732 AGGAACCACC
*
52647742 AAAATA-ACATAAGGAAGTA
1 AAAATATACATAAGAAAGTA
*
52647761 AAAATATATATAAGAAAGTA
1 AAAATATACATAAGAAAGTA
52647781 CCAAAACATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.64, C:0.03, G:0.13, T:0.21
Consensus pattern (20 bp):
AAAATATACATAAGAAAGTA
Found at i:52647907 original size:61 final size:61
Alignment explanation
Indices: 52647794--52647928 Score: 159
Period size: 61 Copynumber: 2.2 Consensus size: 61
52647784 AAACATCTAG
* *
52647794 GGAAGTACC-AAAAATTATGATAGAATATCAATAATTATGAAAAAGTGCCAAAAAAAATGA
1 GGAAGTACCAAAAAATTATGATAGAATACCAAAAATTATGAAAAAGTGCCAAAAAAAATGA
* * * ** *
52647854 GGAAGTACCAAAAAATTAT-A-AGAAAGTACCAAAAATTATGAGAATGTGTCAAAAATTATTA
1 GGAAGTACCAAAAAATTATGATAG-AA-TACCAAAAATTATGAAAAAGTGCCAAAAAAAATGA
52647915 GGAAGTACCAAAAA
1 GGAAGTACCAAAAA
52647929 TATGAGGAGT
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
59 2 0.03
60 12 0.19
61 50 0.78
ACGTcount: A:0.54, C:0.09, G:0.16, T:0.21
Consensus pattern (61 bp):
GGAAGTACCAAAAAATTATGATAGAATACCAAAAATTATGAAAAAGTGCCAAAAAAAATGA
Found at i:52647966 original size:20 final size:20
Alignment explanation
Indices: 52647776--52647966 Score: 151
Period size: 20 Copynumber: 9.6 Consensus size: 20
52647766 ATATATAAGA
52647776 AAGTACCAAAACATCTA-G-GG
1 AAGTACCAAAA-AT-TATGAGG
*
52647796 AAGTACCAAAAATTATGATAG
1 AAGTACCAAAAATTATGA-GG
* * **
52647817 AA-TATCAATAATTATGAAA
1 AAGTACCAAAAATTATGAGG
* **
52647836 AAGTGCCAAAAAAAATGAGG
1 AAGTACCAAAAATTATGAGG
* *
52647856 AAGTACCAAAAAATTATAAGA
1 AAGTACC-AAAAATTATGAGG
52647877 AAGTACCAAAAATTATGA-G
1 AAGTACCAAAAATTATGAGG
** *
52647896 AATGTGTCAAAAATTATTAGG
1 AA-GTACCAAAAATTATGAGG
52647917 AAGTACCAAAAA-TATGAGG
1 AAGTACCAAAAATTATGAGG
*
52647936 -AGTTACAAAAAATTATGAGG
1 AAG-TACCAAAAATTATGAGG
*
52647956 AAGTATCAAAA
1 AAGTACCAAAA
52647967 CTTAGATGTA
Statistics
Matches: 134, Mismatches: 27, Indels: 20
0.74 0.15 0.11
Matches are distributed among these distances:
18 4 0.03
19 22 0.16
20 84 0.63
21 24 0.18
ACGTcount: A:0.53, C:0.09, G:0.16, T:0.21
Consensus pattern (20 bp):
AAGTACCAAAAATTATGAGG
Found at i:52647988 original size:36 final size:39
Alignment explanation
Indices: 52647826--52647966 Score: 126
Period size: 39 Copynumber: 3.5 Consensus size: 39
52647816 GAATATCAAT
** * *
52647826 AATTATGAAAAAGTGCCAAAAAAAATGAGGAAG-TACCAAAA
1 AATTATGAGGAAGTACC-AAAAATATGAGG-AGTTA-CAAAA
* * *
52647867 AATTATAAGAAAGTACCAAAAATTATGAGAATGTGT-C-AAA
1 AATTATGAGGAAGTACCAAAAA-TATGAGGA-GT-TACAAAA
*
52647907 AATTATTAGGAAGTACCAAAAATATGAGGAGTTACAAAA
1 AATTATGAGGAAGTACCAAAAATATGAGGAGTTACAAAA
*
52647946 AATTATGAGGAAGTATCAAAA
1 AATTATGAGGAAGTACCAAAA
52647967 CTTAGATGTA
Statistics
Matches: 84, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
37 1 0.01
38 3 0.04
39 29 0.35
40 29 0.35
41 21 0.25
43 1 0.01
ACGTcount: A:0.54, C:0.08, G:0.17, T:0.21
Consensus pattern (39 bp):
AATTATGAGGAAGTACCAAAAATATGAGGAGTTACAAAA
Found at i:52648058 original size:20 final size:19
Alignment explanation
Indices: 52648035--52648114 Score: 79
Period size: 20 Copynumber: 4.0 Consensus size: 19
52648025 ATATGAGTAA
52648035 ATACAAAAAAATTATGAGGG
1 ATACAAAAAAATTATGA-GG
* *
52648055 ATACGAAAAAAGTATGAGG
1 ATACAAAAAAATTATGAGG
* *
52648074 ATGCACAAAAAATTATGAAG
1 ATACA-AAAAAATTATGAGG
*
52648094 ATATAAAAAAAATTTATGAGG
1 ATA-CAAAAAAA-TTATGAGG
52648115 GATGGAAGTA
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
19 5 0.10
20 35 0.73
21 8 0.17
ACGTcount: A:0.55, C:0.05, G:0.19, T:0.21
Consensus pattern (19 bp):
ATACAAAAAAATTATGAGG
Found at i:52651104 original size:18 final size:18
Alignment explanation
Indices: 52651081--52651115 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
52651071 TACAAAAATA
*
52651081 AAAAAATGAAATTAAACG
1 AAAAAATAAAATTAAACG
52651099 AAAAAATAAAATTAAAC
1 AAAAAATAAAATTAAAC
52651116 AGTCCATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.71, C:0.06, G:0.06, T:0.17
Consensus pattern (18 bp):
AAAAAATAAAATTAAACG
Found at i:52652427 original size:25 final size:22
Alignment explanation
Indices: 52652356--52652429 Score: 80
Period size: 23 Copynumber: 3.3 Consensus size: 22
52652346 TTAATCATTA
* *
52652356 ATTTT-AATCTTTT-TTTATAT
1 ATTTTAAATTTTTTATTTATTT
52652376 ATTTCTAAATTTTTTATTTATTT
1 ATTT-TAAATTTTTTATTTATTT
52652399 ATTTTAAATATTTTATATATTATTT
1 ATTTTAAAT-TTTT-TAT-TTATTT
52652424 ATTTTA
1 ATTTTA
52652430 CTATAAACAT
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
20 4 0.09
21 1 0.02
22 12 0.26
23 14 0.30
24 3 0.07
25 12 0.26
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (22 bp):
ATTTTAAATTTTTTATTTATTT
Found at i:52652561 original size:48 final size:47
Alignment explanation
Indices: 52652456--52652562 Score: 117
Period size: 48 Copynumber: 2.3 Consensus size: 47
52652446 TATATAAAAA
* * **
52652456 ATTATTTATCATATATTATTTTATTATATATTTATATTTTATGTTAT
1 ATTATTTATTATATATTATTTTATTATATATTTATATATTATCATAT
* * * *
52652503 GTTGTCTATTATATA-TATTATCTATTATTTATTTATATATTATCATAT
1 ATTATTTATTATATATTATT-T-TATTATATATTTATATATTATCATAT
52652551 ATTATTTATTAT
1 ATTATTTATTAT
52652563 GTTGTTTATC
Statistics
Matches: 47, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
46 4 0.09
47 12 0.26
48 31 0.66
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.62
Consensus pattern (47 bp):
ATTATTTATTATATATTATTTTATTATATATTTATATATTATCATAT
Found at i:52652578 original size:32 final size:33
Alignment explanation
Indices: 52652477--52652587 Score: 110
Period size: 32 Copynumber: 3.5 Consensus size: 33
52652467 TATATTATTT
*
52652477 TATTAT-ATAT-TTATATT-TTATGTTATGTTGTC
1 TATTATCATATATTAT-TTATTATGTTAT-TTATC
* *
52652509 TATTAT-ATATATTATCTATTAT-TTATTTATA
1 TATTATCATATATTATTTATTATGTTATTTATC
*
52652540 TATTATCATATATTATTTATTATGTTGTTTATC
1 TATTATCATATATTATTTATTATGTTATTTATC
*
52652573 T-TTATC-TTTATTATT
1 TATTATCATATATTATT
52652588 ATAATTTTAA
Statistics
Matches: 68, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
31 17 0.25
32 35 0.51
33 16 0.24
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.63
Consensus pattern (33 bp):
TATTATCATATATTATTTATTATGTTATTTATC
Found at i:52664860 original size:44 final size:44
Alignment explanation
Indices: 52664601--52665120 Score: 357
Period size: 44 Copynumber: 11.9 Consensus size: 44
52664591 TATCCAAGAT
* * * * *
52664601 GATTTGGCATCTTTGTA-TTGTCAGAGAGCAAATCGAAGATAGCA
1 GATTTGGCATCTCTGTATTTGACGGGGAGCAAATCCAAGA-AGCA
* * * * * * *
52664645 GATTTGGCATCTCTGTA-TTGTCAGAGAGCATATCGATGATAACA
1 GATTTGGCATCTCTGTATTTGACGGGGAGCAAATCCAAGA-AGCA
* * * * * * *
52664689 GATTTGGCATCTCTGTA-CTGTCAGAGAGCAGATCGAAAATAGCA
1 GATTTGGCATCTCTGTATTTGACGGGGAGCAAATCCAAGA-AGCA
* * * * * * *
52664733 GATTTAGCATCTCTGTA-TTGTCAGAGAGCAGATCGAAGATAGTA
1 GATTTGGCATCTCTGTATTTGACGGGGAGCAAATCCAAGA-AGCA
* **
52664777 GATTAGGCATCT-TCGTATTTTGACGAAGAGCAAATCCAAGAAGCA
1 GATTTGGCATCTCT-GTA-TTTGACGGGGAGCAAATCCAAGAAGCA
* * * *
52664822 GATTTGGCATCTCTGTACTCGACGGGGAGCAGATCCAAG-A--T
1 GATTTGGCATCTCTGTATTTGACGGGGAGCAAATCCAAGAAGCA
* *
52664863 GATTTGGCATCT-TCGTATTTGACGAGGAGAAAATCCAAGAAGCA
1 GATTTGGCATCTCT-GTATTTGACGGGGAGCAAATCCAAGAAGCA
* ** ** *
52664907 GATTTGGCATCTCCGTATTTGATAGGGAGCCGATCCAAG-A--T
1 GATTTGGCATCTCTGTATTTGACGGGGAGCAAATCCAAGAAGCA
* * *
52664948 GATTTGGCATCT-TCGTATTCGACGAGGAGTAAATCCAAGAAGCA
1 GATTTGGCATCTCT-GTATTTGACGGGGAGCAAATCCAAGAAGCA
* ** * * * *
52664992 GATTTGGCATCCCCATATTTGACGGGAAGCAGATCCAAGATGATA
1 GATTTGGCATCTCTGTATTTGACGGGGAGCAAATCCAAGAAG-CA
* * *
52665037 GATTTGGCATCTCCGTATTCGACGGGGAGCAAAACCAAGAAG-A
1 GATTTGGCATCTCTGTATTTGACGGGGAGCAAATCCAAGAAGCA
*
52665080 TGATTTGGCATCTCTGTATTTGACGGGGAGCAAATCGAAGA
1 -GATTTGGCATCTCTGTATTTGACGGGGAGCAAATCCAAGA
52665121 TATAACAGAT
Statistics
Matches: 388, Mismatches: 72, Indels: 32
0.79 0.15 0.07
Matches are distributed among these distances:
40 1 0.00
41 62 0.16
42 2 0.01
43 4 0.01
44 248 0.64
45 53 0.14
46 18 0.05
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (44 bp):
GATTTGGCATCTCTGTATTTGACGGGGAGCAAATCCAAGAAGCA
Found at i:52664904 original size:85 final size:85
Alignment explanation
Indices: 52664587--52665121 Score: 433
Period size: 85 Copynumber: 6.2 Consensus size: 85
52664577 TTTATGCTGA
* * * * *
52664587 AGCATATCCAAGATGATTTGGCATCTTTGTATT-GTC-AGAGAGCAAATCGAAGATAGCAGATTT
1 AGCAGATCCAAGATGATTTGGCATCTTCGTATTCGACGAG-GAGAAAATCCAAGA-AGCAGATTT
* * * *
52664650 GGCATCTCTGTA-TTGTCAGAG
64 GGCATCTCCGTATTTGACGGGG
* * * * * * *
52664671 AGCATATCGATGATAACAGATTTGGCATC-TCTGTACTGTC-A-GA-GAGCAGATCGAAAATAGC
1 AGCAGATCCAAGAT----GATTTGGCATCTTC-GTA-T-TCGACGAGGAGAAAATCCAAGA-AGC
* * * * *
52664732 AGATTTAGCATCTCTGTA-TTGTCAGAG
58 AGATTTGGCATCTCCGTATTTGACGGGG
* * * * *
52664759 AGCAGATCGAAGATAGTAGATTAGGCATCTTCGTATTTTGACGAAGAGCAAATCCAAGAAGCAGA
1 AGCAGATCCAAG--A-T-GATTTGGCATCTTCGTA-TTCGACGAGGAGAAAATCCAAGAAGCAGA
* * *
52664824 TTTGGCATCTCTGTACTCGACGGGG
61 TTTGGCATCTCCGTATTTGACGGGG
*
52664849 AGCAGATCCAAGATGATTTGGCATCTTCGTATTTGACGAGGAGAAAATCCAAGAAGCAGATTTGG
1 AGCAGATCCAAGATGATTTGGCATCTTCGTATTCGACGAGGAGAAAATCCAAGAAGCAGATTTGG
**
52664914 CATCTCCGTATTTGATAGGG
66 CATCTCCGTATTTGACGGGG
* *
52664934 AGCCGATCCAAGATGATTTGGCATCTTCGTATTCGACGAGGAGTAAATCCAAGAAGCAGATTTGG
1 AGCAGATCCAAGATGATTTGGCATCTTCGTATTCGACGAGGAGAAAATCCAAGAAGCAGATTTGG
* * *
52664999 CATCCCCATATTTGACGGGA
66 CATCTCCGTATTTGACGGGG
* *
52665019 AGCAGATCCAAGATGATAGATTTGGCATCTCCGTATTCGACGGGGAGCAAAA-CCAAGAAG-ATG
1 AGCAGATCC-A-A-GAT-GATTTGGCATCTTCGTATTCGACGAGGAG-AAAATCCAAGAAGCA-G
*
52665082 ATTTGGCATCTCTGTATTTGACGGGG
60 ATTTGGCATCTCCGTATTTGACGGGG
* *
52665108 AGCAAATCGAAGAT
1 AGCAGATCCAAGAT
52665122 ATAACAGATT
Statistics
Matches: 381, Mismatches: 47, Indels: 44
0.81 0.10 0.09
Matches are distributed among these distances:
84 12 0.03
85 132 0.35
86 20 0.05
87 5 0.01
88 88 0.23
89 90 0.24
90 33 0.09
91 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (85 bp):
AGCAGATCCAAGATGATTTGGCATCTTCGTATTCGACGAGGAGAAAATCCAAGAAGCAGATTTGG
CATCTCCGTATTTGACGGGG
Found at i:52664911 original size:174 final size:176
Alignment explanation
Indices: 52664729--52665123 Score: 477
Period size: 174 Copynumber: 2.3 Consensus size: 176
52664719 GATCGAAAAT
* *
52664729 AGCAGATTTAGCATCTCTGTA-TTGTCAGAGAGCAGATCGAAGATAGTAGATTAGGCATCTTCGT
1 AGCAGATTTGGCATCTCTGTATTTGTCAGGGAGCAGATCGAAGATA-T-GATTAGGCATCTTCGT
* * ** *
52664793 ATTTTGACGAAGAGCAAATCCAAGAAGCAGATTTGGCATCTCTGTACTCGACGGGGAGCAGATCC
64 A-TTCGACGAAGAGCAAATCCAAGAAGCAGATTTGGCATCCCCATACTCGACGGGAAGCAGATCC
* *
52664858 -A-A-GAT-GATTTGGCATCTTCGTATTTGACGAGGAG-AAAATCCAAGA
128 AAGATGATAGATTTGGCATCTCCGTATTCGACGAGGAGCAAAA-CCAAGA
* * * *
52664903 AGCAGATTTGGCATCTCCGTATTTGAT-AGGGAGCCGATCCAAG--ATGATTTGGCATCTTCGTA
1 AGCAGATTTGGCATCTCTGTATTTG-TCAGGGAGCAGATCGAAGATATGATTAGGCATCTTCGTA
* * * *
52664965 TTCGACGAGGAGTAAATCCAAGAAGCAGATTTGGCATCCCCATATTTGACGGGAAGCAGATCCAA
65 TTCGACGAAGAGCAAATCCAAGAAGCAGATTTGGCATCCCCATACTCGACGGGAAGCAGATCCAA
*
52665030 GATGATAGATTTGGCATCTCCGTATTCGACGGGGAGCAAAACCAAGA
130 GATGATAGATTTGGCATCTCCGTATTCGACGAGGAGCAAAACCAAGA
* * *
52665077 AG-ATGATTTGGCATCTCTGTATTTGACGGGGAGCAAATCGAAGATAT
1 AGCA-GATTTGGCATCTCTGTATTTGTCAGGGAGCAGATCGAAGATAT
52665124 AACAGATTTG
Statistics
Matches: 186, Mismatches: 24, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
170 54 0.29
171 17 0.09
172 2 0.01
173 5 0.03
174 85 0.46
175 20 0.11
176 3 0.02
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.26
Consensus pattern (176 bp):
AGCAGATTTGGCATCTCTGTATTTGTCAGGGAGCAGATCGAAGATATGATTAGGCATCTTCGTAT
TCGACGAAGAGCAAATCCAAGAAGCAGATTTGGCATCCCCATACTCGACGGGAAGCAGATCCAAG
ATGATAGATTTGGCATCTCCGTATTCGACGAGGAGCAAAACCAAGA
Found at i:52665276 original size:80 final size:79
Alignment explanation
Indices: 52665076--52665279 Score: 216
Period size: 80 Copynumber: 2.6 Consensus size: 79
52665066 CAAAACCAAG
* * * * *
52665076 AAGATGATTT-GGCATCTCTGTATTTGACGGGGAGCAAATCGAAGATATAACAGATTTGACCTTT
1 AAGATGATTTGGGCATCTCTGTATTCGACGGGAAGCAAATCGAAGACATAACAGATCTGACCTTC
* *
52665140 GTCGAGGCAGATCC
66 ATCAAGGCAGATCC
* * * *
52665154 AAGATGATTTGGGCATCCCTGTAATGGAC-GGAGAGCAAATCGAAGACATTAGTC-GATCTGACC
1 AAGATGATTTGGGCATCTCTGTATTCGACGGGA-AGCAAATCGAAGACA-TA-ACAGATCTGACC
* *
52665217 TTCATCAAGGCTGATTC
63 TTCATCAAGGCAGATCC
* * *
52665234 AAGATGATTTGGGCGTCTCTGTATTCAACGGGAAGCAGATCGAAGA
1 AAGATGATTTGGGCATCTCTGTATTCGACGGGAAGCAAATCGAAGA
52665280 ACTCAAGACT
Statistics
Matches: 103, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
78 12 0.12
79 29 0.28
80 58 0.56
81 4 0.04
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (79 bp):
AAGATGATTTGGGCATCTCTGTATTCGACGGGAAGCAAATCGAAGACATAACAGATCTGACCTTC
ATCAAGGCAGATCC
Found at i:52665427 original size:18 final size:18
Alignment explanation
Indices: 52665404--52665438 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
52665394 TAAAAAAATT
*
52665404 AAAAAATGAAATTAAACG
1 AAAAAATAAAATTAAACG
52665422 AAAAAATAAAATTAAAC
1 AAAAAATAAAATTAAAC
52665439 AGTCCATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.71, C:0.06, G:0.06, T:0.17
Consensus pattern (18 bp):
AAAAAATAAAATTAAACG
Found at i:52666742 original size:22 final size:22
Alignment explanation
Indices: 52666692--52666759 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 22
52666682 TTAATCATTA
* *
52666692 ATTTT-AATCTTTT-TTTATAT
1 ATTTTAAATATTTTATTTATTT
*
52666712 ATTTCTAAATTTTTTATTTATTT
1 ATTT-TAAATATTTTATTTATTT
52666735 ATTTTAAATATTTTATTTA-TT
1 ATTTTAAATATTTTATTTATTT
52666756 ATTT
1 ATTT
52666760 ATTTTACTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
20 4 0.10
21 7 0.17
22 21 0.50
23 10 0.24
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (22 bp):
ATTTTAAATATTTTATTTATTT
Found at i:52666819 original size:13 final size:14
Alignment explanation
Indices: 52666791--52666895 Score: 64
Period size: 13 Copynumber: 7.6 Consensus size: 14
52666781 ATATATAAAA
*
52666791 ATTATTTATCTTAT
1 ATTATTTATATTAT
52666805 ATTATTT-TATTAT
1 ATTATTTATATTAT
52666818 A-TATTTATA-T-T
1 ATTATTTATATTAT
* *
52666829 ATTATGTTATGTTGTCT
1 ATTAT-TTAT-AT-TAT
*
52666846 ATTATATATATTATCT
1 ATTATTTATATTA--T
52666862 ATTATTTAT-TTAT
1 ATTATTTATATTAT
52666875 A-TA-TTATCA-TAT
1 ATTATTTAT-ATTAT
52666887 ATTATTTAT
1 ATTATTTAT
52666896 TATGTTGTTT
Statistics
Matches: 72, Mismatches: 6, Indels: 26
0.69 0.06 0.25
Matches are distributed among these distances:
11 6 0.08
12 15 0.21
13 16 0.22
14 12 0.17
15 4 0.06
16 13 0.18
17 6 0.08
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (14 bp):
ATTATTTATATTAT
Found at i:52667088 original size:20 final size:21
Alignment explanation
Indices: 52667065--52667103 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
52667055 TTATTGTACC
52667065 ATATAGT-ACATTTTTTTTAT
1 ATATAGTAACATTTTTTTTAT
* *
52667085 ATATATTAACCTTTTTTTT
1 ATATAGTAACATTTTTTTT
52667104 TAAAAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.62
Consensus pattern (21 bp):
ATATAGTAACATTTTTTTTAT
Found at i:52671984 original size:76 final size:75
Alignment explanation
Indices: 52671856--52672004 Score: 201
Period size: 76 Copynumber: 2.0 Consensus size: 75
52671846 GGAAAATCAA
* * * * *
52671856 GATTATTCCATTATTAATAAAGAAGACAAATGGGAAGCTAGAAACAGAAATTATATTCTTTGCAA
1 GATTATTCCATTATTAATAAAAAAAACAAATGGAAAGCTAGAAACAAAAATTATATTCTTTCCAA
52671921 AAGAATATAT
66 AAGAATATAT
* * *
52671931 GATTATTCCCTTGTTAATAGAAAAAAACAAATGGAAAGTTAGAAA-AAATAATTATATTCTTTCC
1 GATTATTCCATTATTAATA-AAAAAAACAAATGGAAAGCTAGAAACAAA-AATTATATTCTTTCC
52671995 AAAAGAATAT
64 AAAAGAATAT
52672005 TAATTCCCAT
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
75 19 0.30
76 45 0.70
ACGTcount: A:0.48, C:0.09, G:0.13, T:0.30
Consensus pattern (75 bp):
GATTATTCCATTATTAATAAAAAAAACAAATGGAAAGCTAGAAACAAAAATTATATTCTTTCCAA
AAGAATATAT
Found at i:52672256 original size:137 final size:136
Alignment explanation
Indices: 52671979--52672392 Score: 627
Period size: 137 Copynumber: 3.0 Consensus size: 136
52671969 TTAGAAAAAA
* * * *
52671979 TAATTATATTCTTTCCAAAAGAATATTAATTCCCATATCTTTTATATATTGACTGAAATTAATTA
1 TAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACAGAAATTAATTA
*
52672044 ATATAA--TTTTATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATAAAATTC
66 ATATAATTTTTTATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAATTC
*
52672107 ATACAT
131 ATATAT
* * *
52672113 TAATTATATTCTTTCCTAAAGAATATTAATTTCCATGTCTTTTATGTTTTGACAGAAAGTAATTA
1 TAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACAGAAATTAATTA
52672178 ATATAATTTTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 ATATAATTTTT-TATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAATT
52672243 CATATAT
130 CATATAT
* * * * * *
52672250 TGATTATATCCTTTCCAAAATAATATTAATTTTCACGTCTTTTATATTTTGACCGAAATTAATTA
1 TAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACAGAAATTAATTA
*
52672315 ATATAATTATTTTTATTAATAAATTC-AGTAAAATATATACAATTAATATTTTCTATGAATCAAA
66 ATATAA-T-TTTTTATTAATAAATTCGA-TAAAATATATACAATTAATATTTTGTATGAATCAAA
52672379 TTCATATAT
128 TTCATATAT
52672388 TAATT
1 TAATT
52672393 TTATCTATGT
Statistics
Matches: 254, Mismatches: 20, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
134 64 0.25
136 3 0.01
137 121 0.48
138 62 0.24
139 4 0.02
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.45
Consensus pattern (136 bp):
TAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACAGAAATTAATTA
ATATAATTTTTTATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAATTC
ATATAT
Found at i:52674292 original size:44 final size:44
Alignment explanation
Indices: 52674243--52674360 Score: 148
Period size: 44 Copynumber: 2.7 Consensus size: 44
52674233 ATCAAGTACG
* * *
52674243 ATGCCAACATCCTAGACATGGACTTACACGTAAATCATAAGTCA
1 ATGCCAACGTCCTAGACGTGGTCTTACACGTAAATCATAAGTCA
* * **
52674287 ATGCCAATGT-CTCAGACGTGGTCTTACATGTAAATCATAAGTTG
1 ATGCCAACGTCCT-AGACGTGGTCTTACACGTAAATCATAAGTCA
*
52674331 ATGCCAACGTCCCAGACGTGGTCTTACACG
1 ATGCCAACGTCCTAGACGTGGTCTTACACG
52674361 ATAACACATA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
43 2 0.03
44 59 0.95
45 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (44 bp):
ATGCCAACGTCCTAGACGTGGTCTTACACGTAAATCATAAGTCA
Found at i:52674853 original size:23 final size:23
Alignment explanation
Indices: 52674825--52674883 Score: 109
Period size: 23 Copynumber: 2.6 Consensus size: 23
52674815 AGTTAAGCCT
*
52674825 CACACGCCTGTGTAGAGGCAACA
1 CACACGCCTATGTAGAGGCAACA
52674848 CACACGCCTATGTAGAGGCAACA
1 CACACGCCTATGTAGAGGCAACA
52674871 CACACGCCTATGT
1 CACACGCCTATGT
52674884 GATTTGGGAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.31, C:0.32, G:0.22, T:0.15
Consensus pattern (23 bp):
CACACGCCTATGTAGAGGCAACA
Found at i:52680593 original size:40 final size:40
Alignment explanation
Indices: 52680527--52680742 Score: 266
Period size: 40 Copynumber: 5.5 Consensus size: 40
52680517 AAATCACGTA
*
52680527 CCTTC-GGACATAG-CCGG-TTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATG
*
52680565 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATG
*
52680605 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC-AATG
1 CCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATG
* *
52680644 CCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATG
* * * * *
52680683 CCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-G
1 CCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACAAATG
52680723 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAGCCCGGA
52680743 CATCATTCAA
Statistics
Matches: 157, Mismatches: 13, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
38 30 0.19
39 27 0.17
40 87 0.55
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATG
Found at i:52680668 original size:78 final size:79
Alignment explanation
Indices: 52680540--52680742 Score: 266
Period size: 78 Copynumber: 2.6 Consensus size: 79
52680530 TCGGACATAG
* * *
52680540 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
1 CCGGATATAGTAACTCGCAC-AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATG
52680605 CCTTCGGGA-CTTAAC
65 CCTTC-GGATCTTAAC
* *
52680620 CCGGATTTAGTAACTCGCACAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGC
1 CCGGATATAGTAACTCGCACAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGC
**
52680684 CTTCGGATCTTAGT
66 CTTCGGATCTTAAC
* * * *
52680698 CCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCGGATATAGTAAC-TCGCACAATGCCTTCGGGACTTAGCCCGGA
52680743 CATCATTCAA
Statistics
Matches: 108, Mismatches: 12, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
77 3 0.03
78 48 0.44
79 28 0.26
80 29 0.27
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
CCGGATATAGTAACTCGCACAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGC
CTTCGGATCTTAAC
Found at i:52688557 original size:79 final size:80
Alignment explanation
Indices: 52688379--52688597 Score: 273
Period size: 79 Copynumber: 2.8 Consensus size: 80
52688369 AAATCACGTA
* * * * * *
52688379 CCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAG
1 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGGAATTAG
52688444 TAACTCGCACAAATG
66 TAACTCGCACAAATG
*
52688459 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAATTAG
1 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGGAATTAG
*
52688523 TATCTCGCACAAATG
66 TAACTCGCACAAATG
** * * * *
52688538 CCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTAAC-TCGCACCAATGCCTTCGGGACTTAGCCCGGA
52688598 CATCATTCAA
Statistics
Matches: 121, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
78 3 0.02
79 60 0.50
80 58 0.48
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGGAATTAG
TAACTCGCACAAATG
Found at i:52688597 original size:40 final size:40
Alignment explanation
Indices: 52688379--52688597 Score: 275
Period size: 40 Copynumber: 5.5 Consensus size: 40
52688369 AAATCACGTA
* *
52688379 CCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
52688419 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
52688459 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
52688499 CCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* * * *
52688538 CCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-G
1 CCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCACAAATG
52688578 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAGCCCGGA
52688598 CATCATTCAA
Statistics
Matches: 158, Mismatches: 15, Indels: 12
0.85 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 31 0.20
40 113 0.72
41 12 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:52696310 original size:75 final size:74
Alignment explanation
Indices: 52696206--52696352 Score: 249
Period size: 75 Copynumber: 2.0 Consensus size: 74
52696196 GGAAAATCAA
*
52696206 GATTATTCCATTATTAAAGAGAAGGCAAATGGAAAGTTAGAAAAAGAAATTATATTCTTTCCAAA
1 GATTATTCCATTATTAAAGAGAAGACAAATGGAAAGTTAGAAAAAGAAATTATATTCTTTCCAAA
52696271 AGAATATAT
66 AGAATATAT
* * *
52696280 GATTATTCCTTTGTTAATAGAGAAGACAAATGGAAAGTTAGAAAAAGGAATTATATTCTTTCCAA
1 GATTATTCCATTATTAA-AGAGAAGACAAATGGAAAGTTAGAAAAAGAAATTATATTCTTTCCAA
52696345 AAGAATAT
65 AAGAATAT
52696353 TAATTTCCAT
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
74 15 0.22
75 53 0.78
ACGTcount: A:0.46, C:0.08, G:0.16, T:0.31
Consensus pattern (74 bp):
GATTATTCCATTATTAAAGAGAAGACAAATGGAAAGTTAGAAAAAGAAATTATATTCTTTCCAAA
AGAATATAT
Found at i:52696606 original size:138 final size:136
Alignment explanation
Indices: 52696328--52696611 Score: 410
Period size: 138 Copynumber: 2.1 Consensus size: 136
52696318 TAGAAAAAGG
* *
52696328 AATTATATTCTTTCCAAAAGAATATTAATTTCCATATCTTTTATATATTGACTAAAATTAATTAA
1 AATTATATCCTTTCCAAAAGAATATTAATTTCCATA-CTTTTATATATTGACCAAAATTAATTAA
* *
52696393 TATAATTGTTATTTTAATAAATTCGATAAAATATATAAAATTAATATTTTGTATGAATCAAATTC
65 TATAATTATTATTTTAATAAATTAGATAAAATATATAAAATTAATATTTTGTATGAATCAAATTC
52696458 ATATATT
130 ATATATT
* * *
52696465 AATTATATCCTTTCCAAAATAATATTAACTTTCACGTA-TTTTATATTTTGACCAAAATTAATTA
1 AATTATATCCTTTCCAAAAGAATATTAA-TTTC-CATACTTTTATATATTGACCAAAATTAATTA
* *
52696529 ATATAATTATTTTTATTAATAAATTTAG-TAAAATATATACAATTAATATTTTGTATGAATCAAA
64 ATATAATTATTATT-TTAATAAA-TTAGATAAAATATATAAAATTAATATTTTGTATGAATCAAA
*
52696593 TTTATATATT
127 TTCATATATT
*
52696603 AATTTTATC
1 AATTATATC
52696612 TATGTTCTCT
Statistics
Matches: 132, Mismatches: 11, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
137 62 0.47
138 64 0.48
139 6 0.05
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (136 bp):
AATTATATCCTTTCCAAAAGAATATTAATTTCCATACTTTTATATATTGACCAAAATTAATTAAT
ATAATTATTATTTTAATAAATTAGATAAAATATATAAAATTAATATTTTGTATGAATCAAATTCA
TATATT
Found at i:52702275 original size:43 final size:43
Alignment explanation
Indices: 52702214--52702300 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
52702204 TTGGCACATC
*
52702214 ACACTCTTTAACTTTTAGCTGATAATACCCAGATCTAAGATCT
1 ACACTCTTTAACTTTTAGCTAATAATACCCAGATCTAAGATCT
52702257 ACACTCTTTAACTTTTAGCTAATAATACCCAGATCTAAGATCT
1 ACACTCTTTAACTTTTAGCTAATAATACCCAGATCTAAGATCT
52702300 A
1 A
52702301 TCTTTGAAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.34, C:0.23, G:0.08, T:0.34
Consensus pattern (43 bp):
ACACTCTTTAACTTTTAGCTAATAATACCCAGATCTAAGATCT
Found at i:52703877 original size:27 final size:28
Alignment explanation
Indices: 52703771--52703910 Score: 146
Period size: 27 Copynumber: 5.2 Consensus size: 28
52703761 AGGGCAAATC
** * *
52703771 AGTCATTTTACATTACAGGGGTATTAC-
1 AGTCATTTTACCCTATAGGGGTATTTCG
* *
52703798 AGTCATTTTATCCTATAGGGGTATTAC-
1 AGTCATTTTACCCTATAGGGGTATTTCG
*
52703825 AGTCATTTTACCTTATAGGGGTATTTCG
1 AGTCATTTTACCCTATAGGGGTATTTCG
* *
52703853 A-TCATTTTACCCTTTAGGGGTATTTTG
1 AGTCATTTTACCCTATAGGGGTATTTCG
* *
52703880 -GCCATTTTACCCTATGGGGGTATTTCG
1 AGTCATTTTACCCTATAGGGGTATTTCG
52703907 -GTCA
1 AGTCA
52703911 CCATTTTAGC
Statistics
Matches: 96, Mismatches: 15, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
27 95 0.99
28 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.21, T:0.41
Consensus pattern (28 bp):
AGTCATTTTACCCTATAGGGGTATTTCG
Found at i:52708125 original size:31 final size:31
Alignment explanation
Indices: 52708090--52708162 Score: 112
Period size: 31 Copynumber: 2.4 Consensus size: 31
52708080 CAATTCAGTA
* *
52708090 ACCATCAATCATTCATATTGAAAATGTACTT
1 ACCATCAATCATTCACATTCAAAATGTACTT
52708121 ACCATCAATCATTCACATTCAAAATGTACTT
1 ACCATCAATCATTCACATTCAAAATGTACTT
*
52708152 A-AATCAATCAT
1 ACCATCAATCAT
52708163 AGAAAGTCTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 9 0.23
31 30 0.77
ACGTcount: A:0.41, C:0.22, G:0.04, T:0.33
Consensus pattern (31 bp):
ACCATCAATCATTCACATTCAAAATGTACTT
Found at i:52709096 original size:27 final size:27
Alignment explanation
Indices: 52709066--52709119 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
52709056 TAAGAAATAG
52709066 AAAATGAAACAGAGTAAGCTTATAGCT
1 AAAATGAAACAGAGTAAGCTTATAGCT
*
52709093 AAAATGGAACAGAGTAAGCTTATAGCT
1 AAAATGAAACAGAGTAAGCTTATAGCT
52709120 CAGTAAGCCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.46, C:0.11, G:0.20, T:0.22
Consensus pattern (27 bp):
AAAATGAAACAGAGTAAGCTTATAGCT
Found at i:52709507 original size:24 final size:24
Alignment explanation
Indices: 52709476--52709566 Score: 102
Period size: 24 Copynumber: 3.9 Consensus size: 24
52709466 CTGATAAACA
52709476 GTAAGCTCTATTGAGCTGAAATTG
1 GTAAGCTCTATTGAGCTGAAATTG
52709500 GTAAGCTCTATTGAGCTGAACA---
1 GTAAGCTCTATTGAGCTGAA-ATTG
52709522 GTAAGCTCT-TTCGAGCTG-AATTG
1 GTAAGCTCTATT-GAGCTGAAATTG
* *
52709545 GTAAGCTCCAAGTGAGCTGAAA
1 GTAAGCT-CTATTGAGCTGAAA
52709567 CAGTAAGCTC
Statistics
Matches: 57, Mismatches: 2, Indels: 15
0.77 0.03 0.20
Matches are distributed among these distances:
20 1 0.02
21 3 0.05
22 15 0.26
23 7 0.12
24 27 0.47
25 4 0.07
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (24 bp):
GTAAGCTCTATTGAGCTGAAATTG
Found at i:52709530 original size:46 final size:47
Alignment explanation
Indices: 52709462--52709585 Score: 164
Period size: 46 Copynumber: 2.6 Consensus size: 47
52709452 AAGCTATTCA
* *
52709462 TGAGCTGATAAACAGTAAGCTCTATT-GAGCTGAAATTGGTAAGCT-CTAT
1 TGAGCTG--AAACAGTAAGCTCT-TTCGAGCTG-AATTGGTAAGCTCCAAG
52709511 TGAGCTG-AACAGTAAGCTCTTTCGAGCTGAATTGGTAAGCTCCAAG
1 TGAGCTGAAACAGTAAGCTCTTTCGAGCTGAATTGGTAAGCTCCAAG
*
52709557 TGAGCTGAAACAGTAAGCTCTTACGAGCT
1 TGAGCTGAAACAGTAAGCTCTTTCGAGCT
52709586 ATGGTGAGTC
Statistics
Matches: 69, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
45 14 0.20
46 28 0.41
47 20 0.29
49 7 0.10
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (47 bp):
TGAGCTGAAACAGTAAGCTCTTTCGAGCTGAATTGGTAAGCTCCAAG
Found at i:52715296 original size:53 final size:54
Alignment explanation
Indices: 52715211--52715432 Score: 218
Period size: 53 Copynumber: 4.2 Consensus size: 54
52715201 AGGATACACG
* * * * *
52715211 GGTA-CCTTTCCTTTTA-AACTTGCCATTGCCATGTCTTGACATGGTCTTACGT
1 GGTATCCTTGCCTTATAGAACTTACCATTGCCATGCCTTGACATGGTCTTACAT
* *
52715263 GGTATCCTTGCCTTAT-GAACTCACCATTGCCATGCCTTGTCATGGTCTTACAT
1 GGTATCCTTGCCTTATAGAACTTACCATTGCCATGCCTTGACATGGTCTTACAT
* * ** * * **
52715316 GGGATCTTTGCCTTATAGTAGTTTATCACTGCCATATCTTGACATGGTCTTACAT
1 GGTATCCTTGCCTTATAG-AACTTACCATTGCCATGCCTTGACATGGTCTTACAT
* * * * * *
52715371 GATTTCCTTGCCTTGTAGAACTTACCAATG-CATGCCTTGGCATGGTCTTACTT
1 GGTATCCTTGCCTTATAGAACTTACCATTGCCATGCCTTGACATGGTCTTACAT
52715424 GGTATCCTT
1 GGTATCCTT
52715433 AAACCCTAAT
Statistics
Matches: 134, Mismatches: 32, Indels: 7
0.77 0.18 0.04
Matches are distributed among these distances:
52 4 0.03
53 80 0.60
54 9 0.07
55 41 0.31
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.39
Consensus pattern (54 bp):
GGTATCCTTGCCTTATAGAACTTACCATTGCCATGCCTTGACATGGTCTTACAT
Found at i:52722530 original size:16 final size:16
Alignment explanation
Indices: 52722509--52722546 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
52722499 AAAGAAAGGG
52722509 AGTAAGAATAAAGCTT
1 AGTAAGAATAAAGCTT
52722525 AGTAAGAATAAAGCTT
1 AGTAAGAATAAAGCTT
52722541 AGTAAG
1 AGTAAG
52722547 TTTGCATGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.50, C:0.05, G:0.21, T:0.24
Consensus pattern (16 bp):
AGTAAGAATAAAGCTT
Found at i:52722908 original size:54 final size:54
Alignment explanation
Indices: 52722720--52722908 Score: 193
Period size: 55 Copynumber: 3.5 Consensus size: 54
52722710 ATTTTTATGT
* * * * * *
52722720 CTTGACATGATCTTACGTGGTATCCTTGCCTTAT-GAACTCACTATTGCCATGC
1 CTTGGCATGGTCTTACTTGGTATCCTTGCCTTATAGAACTTACCAATGCCATGC
* * * ** * *
52722773 CTTGGCATGGTCTTACATGGGATCTTTGCCTTATAGTAGTTTATCAATGCCATGT
1 CTTGGCATGGTCTTACTTGGTATCCTTGCCTTATAG-AACTTACCAATGCCATGC
* * *
52722828 CTTGACATGGTCTTA-TATGGTTTCCTTGCCTTGTAGAACTTACCAATGCCATGC
1 CTTGGCATGGTCTTACT-TGGTATCCTTGCCTTATAGAACTTACCAATGCCATGC
*
52722882 CTTGGCATAGTCTTACTTGGTATCCTT
1 CTTGGCATGGTCTTACTTGGTATCCTT
52722909 AAACCCTAAT
Statistics
Matches: 107, Mismatches: 25, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
53 29 0.27
54 37 0.35
55 41 0.38
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.39
Consensus pattern (54 bp):
CTTGGCATGGTCTTACTTGGTATCCTTGCCTTATAGAACTTACCAATGCCATGC
Found at i:52727096 original size:24 final size:24
Alignment explanation
Indices: 52727054--52727168 Score: 98
Period size: 24 Copynumber: 4.9 Consensus size: 24
52727044 AAGCTATTCA
52727054 TGAGCTGATAAAC-AGTAAGCTCTAT
1 TGAGCTGA-AAACGA-TAAGCTCTAT
52727079 TGAGCTGAAAACGATAAGCTCTAT
1 TGAGCTGAAAACGATAAGCTCTAT
* *
52727103 TGAGCTGAATA-G-TAAGTTCT-T
1 TGAGCTGAAAACGATAAGCTCTAT
* * * *
52727124 TCAAGCTG-AATCGCTAAGCTCTAG
1 T-GAGCTGAAAACGATAAGCTCTAT
*
52727148 TGAGCTG-AAACAATAAGCTCT
1 TGAGCTGAAAACGATAAGCTCT
52727169 TACGAGCTAT
Statistics
Matches: 74, Mismatches: 11, Indels: 12
0.76 0.11 0.12
Matches are distributed among these distances:
21 3 0.04
22 13 0.18
23 24 0.32
24 25 0.34
25 9 0.12
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (24 bp):
TGAGCTGAAAACGATAAGCTCTAT
Found at i:52729058 original size:46 final size:46
Alignment explanation
Indices: 52728991--52729116 Score: 225
Period size: 46 Copynumber: 2.7 Consensus size: 46
52728981 AACCCGCCCC
* * *
52728991 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
52729037 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
52729083 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
52729117 TGCTCAACCA
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:52736145 original size:46 final size:45
Alignment explanation
Indices: 52736077--52736251 Score: 156
Period size: 46 Copynumber: 3.8 Consensus size: 45
52736067 TGATATGTGT
** *
52736077 GCTAGTGTAAGACATGCATGGGACATGCATTAGCCACAGCATGAGA
1 GCTAGTGTAAGACATGTTTGGGACATGCATCAGCCACAG-ATGAGA
* * *
52736123 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGAT-ATTTAA
1 GCTAGTGTAAGACATGTTTGGGACATGCATCAGCCAC-AGATGA---GA
* * * * * * *
52736171 GCCAGTGTAAGACATGTCTAGGACATGTATC-GGCATTGAGACGAGA
1 GCTAGTGTAAGACATGTTTGGGACATGCATCAGCCA--CAGATGAGA
52736217 GCTAGTGTAAGACATGTTTGGGACATGCATCAGCC
1 GCTAGTGTAAGACATGTTTGGGACATGCATCAGCC
52736252 TCGCGATATA
Statistics
Matches: 101, Mismatches: 20, Indels: 15
0.74 0.15 0.11
Matches are distributed among these distances:
45 1 0.01
46 62 0.61
47 6 0.06
48 31 0.31
49 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTTTGGGACATGCATCAGCCACAGATGAGA
Found at i:52736185 original size:48 final size:46
Alignment explanation
Indices: 52736126--52736438 Score: 154
Period size: 49 Copynumber: 6.6 Consensus size: 46
52736116 CATGAGAGCT
52736126 AGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATATTTAAGCC
1 AGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATA--TAAGCC
* * * * * * * *
52736174 AGTGTAAGACATGTCTAGGACATGTATCGGCATTGAGACGA-GAGCT
1 AGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGA-TATAAGCC
* * *
52736220 AGTGTAAGACATGTTTGGGACATGCATCAGCCTCGCGATATAAAAGCT
1 AGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATAT--AAGCC
* * * * * * * * * *
52736268 AG-GTAAGACCTATCTGGGATATGACGTCAG-CTTGTGGTGT--GCC
1 AGTGTAAGACATGTTTGGGACATG-CATCGGCCTCGAGATATAAGCC
* * * * * *
52736311 AGTGTAAGACCTATTTGGGATATGGCATCGACAC-CGATAGATGAGAGCC
1 AGTGTAAGACATGTTTGGGACAT-GCATCGGC-CTCGAGATAT-A-AGCC
* * *
52736360 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTC-ACTATATGAAAGCC
1 AGTGTAAGACATGTTTGGGACAT-GCATCGGCCTCGA-GATAT--AAGCC
*
52736409 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTTTGGGACAT-GCATC
52736439 AGCACTTATC
Statistics
Matches: 204, Mismatches: 44, Indels: 32
0.73 0.16 0.11
Matches are distributed among these distances:
43 4 0.02
44 22 0.11
45 4 0.02
46 35 0.17
47 23 0.11
48 46 0.23
49 50 0.25
50 20 0.10
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATATAAGCC
Found at i:52736438 original size:50 final size:50
Alignment explanation
Indices: 52736308--52736438 Score: 164
Period size: 49 Copynumber: 2.7 Consensus size: 50
52736298 CTTGTGGTGT
* *
52736308 GCCAGTGTAAGACCTAT-T-TGGGATATGGCATCGACACCGATAGATGAGA
1 GCCAGTGTAAGACC-ATGTCTGGGACATGGCATCGACACCGATAGATGAAA
* *
52736357 GCCAGTGTAAGACC-TGTCTGGGACATGGCATCGGC-CTC-ACTATATGAAA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACAC-CGA-TAGATGAAA
52736406 GCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATC
52736439 AGCACTTATC
Statistics
Matches: 73, Mismatches: 4, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
47 1 0.01
48 3 0.04
49 51 0.70
50 18 0.25
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.22
Consensus pattern (50 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACACCGATAGATGAAA
Found at i:52745945 original size:51 final size:50
Alignment explanation
Indices: 52745878--52746199 Score: 455
Period size: 51 Copynumber: 6.6 Consensus size: 50
52745868 TGAACATGCG
52745878 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATATA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCG-ATATA
52745929 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATATA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCG-ATATA
*
52745980 TATGTGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAACCCGTATATA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCG-ATATA
***
52746031 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA--C-ATGCG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGATATA
**
52746078 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA--C-ATGCA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGATATA
* * **
52746125 TATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGA-ATA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGATATA
*
52746174 TATGTG-G-TAAGGCCGAATGGCTAATG
1 TATGTGTGATAAGGCCGAATGGCCAATG
52746200 CGAAACGTGT
Statistics
Matches: 255, Mismatches: 13, Indels: 10
0.92 0.05 0.04
Matches are distributed among these distances:
47 105 0.41
48 1 0.00
49 7 0.03
50 1 0.00
51 141 0.55
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.26
Consensus pattern (50 bp):
TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGATATA
Found at i:52746060 original size:24 final size:24
Alignment explanation
Indices: 52746032--52746107 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
52746022 CCGTATATAT
52746032 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
* * **
52746056 ATGTGATGA-ATGTG--AACAT-GCGT
1 ATGTG-TGATAAG-GCCGA-ATGGCCA
52746079 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
52746103 ATGTG
1 ATGTG
52746108 ATGAATGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 4 0.11
23 12 0.32
24 17 0.46
25 4 0.11
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (24 bp):
ATGTGTGATAAGGCCGAATGGCCA
Found at i:52746262 original size:46 final size:46
Alignment explanation
Indices: 52746173--52746263 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
52746163 GAACATGAAT
* * * *
52746173 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
52746219 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
52746264 TGTATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:52746458 original size:37 final size:37
Alignment explanation
Indices: 52746408--52746515 Score: 162
Period size: 37 Copynumber: 2.9 Consensus size: 37
52746398 GGAAATATAT
52746408 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
52746445 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * * * *
52746482 TCCAGGTAAGACTCGATAACTTCATGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
52746516 TCGTCTGAGC
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:52752136 original size:39 final size:40
Alignment explanation
Indices: 52751939--52752296 Score: 553
Period size: 40 Copynumber: 9.1 Consensus size: 40
52751929 CGAATACACG
* * * *
52751939 TCACTAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* * ** * * *
52751979 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACAGATATA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
52752019 TCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
*
52752059 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
52752099 TCACTAGCACGAATGCTCTTC-GGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
52752138 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
52752178 TCACTAGCACGAATGCTCTTC-GGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
*
52752217 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGG-TACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
52752256 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT-CA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
52752295 TC
1 TC
52752297 GTCGAGACCT
Statistics
Matches: 291, Mismatches: 24, Indels: 7
0.90 0.07 0.02
Matches are distributed among these distances:
39 118 0.41
40 173 0.59
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:52752165 original size:79 final size:79
Alignment explanation
Indices: 52751939--52752296 Score: 549
Period size: 79 Copynumber: 4.5 Consensus size: 79
52751929 CGAATACACG
* * * * * * *
52751939 TCACTAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGG
1 TCACTAGCACGAATGCTCTTC-GGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGA
* * * *
52752004 TTTAGCACAGATATA
65 CTTAGCCCGGATACA
* *
52752019 TCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGAGA
1 TCACTAGCACGAATGCTCTTCGG-ACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGA
52752084 CTTAGCCCGGATACA
65 CTTAGCCCGGATACA
52752099 TCACTAGCACGAATGCTCTTCGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
1 TCACTAGCACGAATGCTCTTCGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
52752164 TTAGCCCGGATACA
66 TTAGCCCGGATACA
*
52752178 TCACTAGCACGAATGCTCTTCGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGAC
1 TCACTAGCACGAATGCTCTTCGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
52752243 TTAGCCCGG-TACA
66 TTAGCCCGGATACA
52752256 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT-CATC
1 TCACTAGCACGAATGCTCTTC-GGACTTAGCCCGGATACATC
52752297 GTCGAGACCT
Statistics
Matches: 260, Mismatches: 16, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
78 29 0.11
79 144 0.55
80 87 0.33
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (79 bp):
TCACTAGCACGAATGCTCTTCGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
TTAGCCCGGATACA
Found at i:52752392 original size:38 final size:38
Alignment explanation
Indices: 52752350--52752424 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
52752340 GAATTTTAAT
*
52752350 CCGGACATAATCTCTGT-ACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCT-TCACATAGCCAGCGGGTCTTTAC
* *
52752388 CCGGACATAATCTCTTCATATAGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTTCACATAGCCAGCGGGTCTTTA
52752425 AACTCGGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (38 bp):
CCGGACATAATCTCTTCACATAGCCAGCGGGTCTTTAC
Found at i:52754910 original size:22 final size:22
Alignment explanation
Indices: 52754882--52755003 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
52754872 TTCCACATCC
52754882 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
52754904 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
52754928 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
52754951 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
52754975 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
52754998 ATCACA
1 ATCACA
52755004 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:52754917 original size:47 final size:47
Alignment explanation
Indices: 52754854--52755198 Score: 491
Period size: 47 Copynumber: 7.3 Consensus size: 47
52754844 CCCTTCGGGA
* * *
52754854 CTTATCACATTTATACACT-TCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
52754901 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* *
52754948 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
52754995 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
52755042 CTTATCACACATACACATGTTCACATTCATCACATTGG-CATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
52755088 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
52755135 CTTATCACGCATATATATACT-TTCACATTCATCACATTGGCCACTCGGC
1 CTTATCA--CATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
*
52755184 CCTATCACATATATA
1 CTTATCACATATATA
52755199 TACTTGTACA
Statistics
Matches: 279, Mismatches: 14, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
46 47 0.17
47 191 0.68
49 40 0.14
50 1 0.00
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
Found at i:52757688 original size:94 final size:94
Alignment explanation
Indices: 52757570--52757839 Score: 459
Period size: 94 Copynumber: 2.9 Consensus size: 94
52757560 GATGTGAATG
* *
52757570 TGCATATATGTGATAAGTCTGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGG
1 TGCATATGTGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGG
52757635 CCAAATGGCCAATGTGATGAATGTGAGCA
66 CCAAATGGCCAATGTGATGAATGTGAGCA
*
52757664 TGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGG
1 TGCATATGTGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGG
52757729 CCAAATGGCCAATGTGATGAATGTGAGCA
66 CCAAATGGCCAATGTGATGAATGTGAGCA
* * * *
52757758 TGCATATGTGTGATAAGGCTGAATGGCTAATGTGATGAATATGAACATGCATATATGTGGTAAAG
1 TGCATATGTGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGG
* *
52757823 CCGAATGGCTAATGTGA
66 CCAAATGGCCAATGTGA
52757840 AATATATGTA
Statistics
Matches: 166, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
94 166 1.00
ACGTcount: A:0.33, C:0.11, G:0.28, T:0.27
Consensus pattern (94 bp):
TGCATATGTGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGG
CCAAATGGCCAATGTGATGAATGTGAGCA
Found at i:52757746 original size:22 final size:22
Alignment explanation
Indices: 52757624--52757746 Score: 63
Period size: 22 Copynumber: 5.3 Consensus size: 22
52757614 ACATGCATAT
52757624 ATGTGATAAGGCCAAATGGCCA
1 ATGTGATAAGGCCAAATGGCCA
* ** *
52757646 ATGTGATGAATGTGAGCAT-G-CA
1 ATGTGAT-AAGGCCA-AATGGCCA
*
52757668 TATGTGTGATAAGGCCGAATGGCCA
1 -A--TGTGATAAGGCCAAATGGCCA
* ** *
52757693 ATGTGATGAATGTGAACAT-GCATA
1 ATGTGAT-AAGGCCAA-ATGGC-CA
52757717 TATGTGATAAGGCCAAATGGCCA
1 -ATGTGATAAGGCCAAATGGCCA
52757740 ATGTGAT
1 ATGTGAT
52757747 GAATGTGAGC
Statistics
Matches: 71, Mismatches: 18, Indels: 24
0.63 0.16 0.21
Matches are distributed among these distances:
22 22 0.31
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCAAATGGCCA
Found at i:52757847 original size:47 final size:47
Alignment explanation
Indices: 52757561--52757839 Score: 414
Period size: 47 Copynumber: 5.9 Consensus size: 47
52757551 GATAATTGTG
** * *
52757561 ATGTGAATGTGCATATATGTGATAAGTCTGAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
*
52757608 ATGTGAACATGCATATATGTGATAAGGCCAAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* *
52757655 ATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
*
52757702 ATGTGAACATGCATATATGTGATAAGGCCAAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* * * *
52757749 ATGTGAGCATGCATATGTGTGATAAGGCTGAATGGCTAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* * * *
52757796 ATATGAACATGCATATATGTGGTAAAGCCGAATGGCTAATGTGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGA
52757840 AATATATGTA
Statistics
Matches: 210, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 210 1.00
ACGTcount: A:0.33, C:0.11, G:0.28, T:0.28
Consensus pattern (47 bp):
ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
Found at i:52758094 original size:37 final size:37
Alignment explanation
Indices: 52758044--52758193 Score: 230
Period size: 37 Copynumber: 4.1 Consensus size: 37
52758034 GGAAATATAT
52758044 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
52758081 TCCGGGTAAGACCCCATGACTACGTGTGAAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
52758118 TCCGGGTAAGA-CCGAATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCG-ATGACTACGTGTGGAGATTATG
* * *
52758155 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
52758192 TC
1 TC
52758194 TGAGCTAAAG
Statistics
Matches: 104, Mismatches: 7, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
36 2 0.02
37 99 0.95
38 3 0.03
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:52759747 original size:803 final size:803
Alignment explanation
Indices: 52758200--52759805 Score: 2910
Period size: 803 Copynumber: 2.0 Consensus size: 803
52758190 TGTCTGAGCT
* * *
52758200 AAAGGTCTCACCGATAATCCGAGTAGAGGTTAAAGCTATAAGATTTCATGATAAGAATTGCTTAT
1 AAAGGTCTCACCGATAATCCGAGTAGAGGTTAAAGCTATAAGACTTCATAATAAGAATTGCATAT
52758265 AAATATATTCAATGCGAAAGGTTAAACAGGTATGTACTCCAAGCTTATATGTGAGCTTGATTTGA
66 AAATATATTCAATGCGAAAGGTTAAACAGGTATGTACTCCAAGCTTATATGTGAGCTTGATTTGA
*
52758330 ACTAAATCATAAGGTAGTTATGTGATGCATACGAGAGCAATCTATGAGACGATTCCTATGATTAT
131 ACTAAATCATAAAGTAGTTATGTGATGCATACGAGAGCAATCTATGAGACGATTCCTATGATTAT
* *
52758395 GTGACATCGGATCAGTGTGAGAGGTTATGTGAAATCATACAATATATCTATGTCACATGAGCTCA
196 GTGACATCGGATCAGTGTGAGAGGATATGTGAAACCATACAATATATCTATGTCACATGAGCTCA
*
52758460 CTTTTATGTGAAAGTTTATCTGTCTATTGTATATGATGAGATGTGCATATTCGGTAAAGGGATGG
261 CTTTTATGTGAAAGTTTATCTGCCTATTGTATATGATGAGATGTGCATATTCGGTAAAGGGATGG
*
52758525 TATGCCCGAAGGAAGAGTGAAATAAAAATACGAACAACTATGTTCTAATTTGATTGTTATCTGTT
326 TATGCCCGAAGGAAGAGTGAAATAAAAATACGAACAACTATGTTATAATTTGATTGTTATCTGTT
*
52758590 GACACTGCTTAAAACTTACTAAGCATTGTAATGCTTACTCCGTTTACTTTGTTTTCTCTGTTTTA
391 GACACTGCTTAAAACTTACTAAGCATTGTAATGCTTACTCCGTTTACTTTGTTTTCTCTATTTTA
52758655 TAGATCTCATTGCGAAGCTACAAGCTCGGGGATCGTCAGCAACTAGTCACACTATCACTATCCAC
456 TAGATCTCATTGCGAAGCTACAAGCTCGGGGATCGTCAGCAACTAGTCACACTATCACTATCCAC
52758720 TGCTTGTTACTGTTATGTTTAGAACTATTTTATGGCATGTATAGAATAGACTAGTGGCAGAAGAA
521 TGCTTGTTACTGTTATGTTTAGAACTATTTTATGGCATGTATAGAATAGACTAGTGGCAGAAGAA
*
52758785 TATTTTTGGTAAATGTATATAAGCCATGCGAAAATGGCATCTTTTGAATGTTTACTTAGTGAAGT
586 TATTTTTGGTAAATGTATATAAGCCATGCGAAAATGGCATCTTTTGAATGTTTACTTAGAGAAGT
52758850 TTAAATTTTACCTCTGGCTGTGCTTAGTACTTATTTAAATGAATGATCTTTATTTCAAGAAAAAG
651 TTAAATTTTACCTCTGGCTGTGCTTAGTACTTATTTAAATGAATGATCTTTATTTCAAGAAAAAG
* *
52758915 TGTAAAATTTTACTGTTCTGACGTGAGTTACAAGTCCGGTAATGCCCCTTACCTATTCTGGCGAC
716 TGTAAAATTTTACTGTTCTGACATGAGTTACAAGTCCGGTAATGCCCCTTACCTATTCCGGCGAC
52758980 GGTTACGGGATAGAGGTGTTACA
781 GGTTACGGGATAGAGGTGTTACA
* * *
52759003 AAAGGTCTCGCCGATAATCCGAGTAGAGGTTAGAGCTATAAGACTTCGTAATAAGAATTGCATAT
1 AAAGGTCTCACCGATAATCCGAGTAGAGGTTAAAGCTATAAGACTTCATAATAAGAATTGCATAT
*
52759068 AAATATATTCAATGCGAAAGGTTAAACAGGTATGTACTCCAAGTTTATATGTGAGCTTGATTTGA
66 AAATATATTCAATGCGAAAGGTTAAACAGGTATGTACTCCAAGCTTATATGTGAGCTTGATTTGA
* * *
52759133 ACTAAATCATAAAGTAGTTATGTTATGCATATGAGAGCAATCTATGAGACTATTCCTATGATTAT
131 ACTAAATCATAAAGTAGTTATGTGATGCATACGAGAGCAATCTATGAGACGATTCCTATGATTAT
*
52759198 GTGACTTCGGATCAGTGTGAGAGGATATGTGAAACCATACAATATATCTATGTCACATGAGCTCA
196 GTGACATCGGATCAGTGTGAGAGGATATGTGAAACCATACAATATATCTATGTCACATGAGCTCA
52759263 CTTTTATGTGAAAGTTTATCTGCCTATTGTATATGATGAGATGTGCATATTCGGTAAAGGGATGG
261 CTTTTATGTGAAAGTTTATCTGCCTATTGTATATGATGAGATGTGCATATTCGGTAAAGGGATGG
* *
52759328 TATGCCCGAAGGAAGAGTGAAATAAAAATATGAACAACTATGTTATAATTTGATTGTTATTTGTT
326 TATGCCCGAAGGAAGAGTGAAATAAAAATACGAACAACTATGTTATAATTTGATTGTTATCTGTT
*
52759393 GTCACTGCTTAAAACTTACTAAGCATTGTAATGCTTACTCCGTTTACTTTGTTTTCTCTATTTTA
391 GACACTGCTTAAAACTTACTAAGCATTGTAATGCTTACTCCGTTTACTTTGTTTTCTCTATTTTA
* *
52759458 TAGATCTCATTGTGAAGCTACAGGCTCGGGGATCGTCAGCAACTAGTCACACTATCACTATCCAC
456 TAGATCTCATTGCGAAGCTACAAGCTCGGGGATCGTCAGCAACTAGTCACACTATCACTATCCAC
* *
52759523 TGCTTGTTACTGTTATGTTTAGAATTATTTTATGGCATGTATAGAATAGACTAGTGGCGGAAGAA
521 TGCTTGTTACTGTTATGTTTAGAACTATTTTATGGCATGTATAGAATAGACTAGTGGCAGAAGAA
* *
52759588 TATTTTTGGTTAATGTATATAAGCCATGTGAAAATGGCATCTTTTGAATGTTTACTTAGAGAAGT
586 TATTTTTGGTAAATGTATATAAGCCATGCGAAAATGGCATCTTTTGAATGTTTACTTAGAGAAGT
52759653 TTAAATTTTATCC-CTGGCTGTGCTTAGTACTTATTTAAATGAATGATCTTTATTTCAAGAAAAA
651 TTAAATTTTA-CCTCTGGCTGTGCTTAGTACTTATTTAAATGAATGATCTTTATTTCAAGAAAAA
52759717 GT-TCAAAATTTTACTGTTCTGACATGAGTTACAAGTCCGGTAATGCCCCTTACCTATTCCGGCG
715 GTGT-AAAATTTTACTGTTCTGACATGAGTTACAAGTCCGGTAATGCCCCTTACCTATTCCGGCG
*
52759781 ACGGTTACGGGATAGGGGTGTTACA
779 ACGGTTACGGGATAGAGGTGTTACA
52759806 TTTTTGGCAT
Statistics
Matches: 771, Mismatches: 30, Indels: 4
0.96 0.04 0.00
Matches are distributed among these distances:
802 1 0.00
803 768 1.00
804 2 0.00
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.35
Consensus pattern (803 bp):
AAAGGTCTCACCGATAATCCGAGTAGAGGTTAAAGCTATAAGACTTCATAATAAGAATTGCATAT
AAATATATTCAATGCGAAAGGTTAAACAGGTATGTACTCCAAGCTTATATGTGAGCTTGATTTGA
ACTAAATCATAAAGTAGTTATGTGATGCATACGAGAGCAATCTATGAGACGATTCCTATGATTAT
GTGACATCGGATCAGTGTGAGAGGATATGTGAAACCATACAATATATCTATGTCACATGAGCTCA
CTTTTATGTGAAAGTTTATCTGCCTATTGTATATGATGAGATGTGCATATTCGGTAAAGGGATGG
TATGCCCGAAGGAAGAGTGAAATAAAAATACGAACAACTATGTTATAATTTGATTGTTATCTGTT
GACACTGCTTAAAACTTACTAAGCATTGTAATGCTTACTCCGTTTACTTTGTTTTCTCTATTTTA
TAGATCTCATTGCGAAGCTACAAGCTCGGGGATCGTCAGCAACTAGTCACACTATCACTATCCAC
TGCTTGTTACTGTTATGTTTAGAACTATTTTATGGCATGTATAGAATAGACTAGTGGCAGAAGAA
TATTTTTGGTAAATGTATATAAGCCATGCGAAAATGGCATCTTTTGAATGTTTACTTAGAGAAGT
TTAAATTTTACCTCTGGCTGTGCTTAGTACTTATTTAAATGAATGATCTTTATTTCAAGAAAAAG
TGTAAAATTTTACTGTTCTGACATGAGTTACAAGTCCGGTAATGCCCCTTACCTATTCCGGCGAC
GGTTACGGGATAGAGGTGTTACA
Found at i:52760849 original size:49 final size:49
Alignment explanation
Indices: 52760796--52760974 Score: 236
Period size: 49 Copynumber: 3.6 Consensus size: 49
52760786 TTTAAGCCTG
* * *
52760796 TGTAAGACATGTCTGGGACATGGCATCGACACC-TTGAGACGAAAGCTAG
1 TGTAAGACATGTCTGGGACATGGCATCGACACCGTT-AGATGAAAGCCAA
* *
52760845 TGTAAGACATGTCTGGGACATGGCATCGACACCGATAGATGAGAGCCAA
1 TGTAAGACATGTCTGGGACATGGCATCGACACCGTTAGATGAAAGCCAA
* * * *
52760894 TGTAAGACCTGTCTGTGACATGGCATCGGC-CTCGTTATATGAAAGCCAA
1 TGTAAGACATGTCTGGGACATGGCATCGACAC-CGTTAGATGAAAGCCAA
52760943 TGTAAGATCATGTCTGGGACATGGCATCGACA
1 TGTAAGA-CATGTCTGGGACATGGCATCGACA
52760975 TCTTATCCCA
Statistics
Matches: 112, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
48 1 0.01
49 90 0.80
50 21 0.19
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (49 bp):
TGTAAGACATGTCTGGGACATGGCATCGACACCGTTAGATGAAAGCCAA
Found at i:52766070 original size:21 final size:21
Alignment explanation
Indices: 52766046--52766087 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
52766036 GAGCTGAATC
52766046 TTGCTAATAACTAATAATCCA
1 TTGCTAATAACTAATAATCCA
52766067 TTGCTAATAACTAATAATCCA
1 TTGCTAATAACTAATAATCCA
52766088 AAGAGTTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.19, G:0.05, T:0.33
Consensus pattern (21 bp):
TTGCTAATAACTAATAATCCA
Found at i:52770296 original size:30 final size:30
Alignment explanation
Indices: 52770252--52770340 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
52770242 CAAAGATAAC
52770252 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
52770281 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
52770311 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
52770341 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Done.