Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 172 of 373
Found at i:57741209 original size:23 final size:23
Alignment explanation
Indices: 57741179--57741367 Score: 206
Period size: 23 Copynumber: 8.2 Consensus size: 23
57741169 CAAAGTGCCA
* * *
57741179 CACTGTAATATAACCGAAGCTAT
1 CACTGTAATGTAGCCGAAGCTAC
*
57741202 CACTGTAACGTAGCCGAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
* *
57741225 CACTGTATTGTAGCCAAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
* *
57741248 CACTGTATTGTAGCCAAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
57741271 CACTG-AGATGTAGCCGAAGCTAC
1 CACTGTA-ATGTAGCCGAAGCTAC
*
57741294 CACTG-AGATGTAGCTGAAGCTAC
1 CACTGTA-ATGTAGCCGAAGCTAC
* *
57741317 CGCTG-AATTGTGGCCGAAGCTAC
1 CACTGTAA-TGTAGCCGAAGCTAC
*
57741340 CACTGT-ATAGTAGCTGAAGCTAC
1 CACTGTAAT-GTAGCCGAAGCTAC
57741363 CACTG
1 CACTG
57741368 AGAGGTAGCC
Statistics
Matches: 146, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
22 3 0.02
23 143 0.98
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (23 bp):
CACTGTAATGTAGCCGAAGCTAC
Found at i:57744666 original size:18 final size:18
Alignment explanation
Indices: 57744643--57744678 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
57744633 ATATGAATGG
57744643 GTTAATTACCATGTAAGT
1 GTTAATTACCATGTAAGT
57744661 GTTAATTACCATGTAAGT
1 GTTAATTACCATGTAAGT
57744679 CCACTCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (18 bp):
GTTAATTACCATGTAAGT
Found at i:57758126 original size:28 final size:28
Alignment explanation
Indices: 57758086--57758149 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 28
57758076 TGGGAAGTAG
* * *
57758086 TTGGGCCTGATGGGCCATATGGATGTGA
1 TTGGGCCTGATGGGCCATATGAACGAGA
*
57758114 TTGGGCCTGATGGGCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAACGAGA
57758142 TTGGGCCT
1 TTGGGCCT
57758150 AAAGGGGCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.17, C:0.17, G:0.39, T:0.27
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAACGAGA
Found at i:57762061 original size:38 final size:38
Alignment explanation
Indices: 57761941--57762076 Score: 224
Period size: 37 Copynumber: 3.6 Consensus size: 38
57761931 CGAATAGTCC
* *
57761941 CCACACGTTAGTTATCAGGTCTTACCCGGACA-AAATCT
1 CCACACG-TAGTCATCGGGTCTTACCCGGACATAAATCT
57761979 -CACACGTAGTCATCGGGTCTTACCCGGACAT-AATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAAATCT
57762015 CCACACGTAGTCATCGGGTCTTACCCGGACATAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAAATCT
57762053 CCACACGTAGTCATCGGGTCTTAC
1 CCACACGTAGTCATCGGGTCTTAC
57762077 TCGAAGATAT
Statistics
Matches: 93, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
36 27 0.29
37 37 0.40
38 29 0.31
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (38 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATAAATCT
Found at i:57762278 original size:43 final size:42
Alignment explanation
Indices: 57762228--57762386 Score: 156
Period size: 43 Copynumber: 3.8 Consensus size: 42
57762218 CACATCTCCC
57762228 TACATATTTCACACTAGCCATTCGGCTTACCA-ATAACATATTA
1 TACATA-TTCACACTAGCCATTCGGCTTACCACATAA-ATATTA
57762271 TACATATTTCACACTAGCCATTC-GCTTTACCACATATAATATCTCA
1 TACATA-TTCACACTAGCCATTCGGC-TTACCACATA-AATAT-T-A
* *
57762317 TATATATTCACATTAGCCA-T-GGC-TACCACAT-AATATCTCA
1 TACATATTCACACTAGCCATTCGGCTTACCACATAAATAT-T-A
57762357 TACA-ATTCACACTAGCCATTC-GC-TACCACA
1 TACATATTCACACTAGCCATTCGGCTTACCACA
57762387 CACTATACAA
Statistics
Matches: 104, Mismatches: 4, Indels: 19
0.82 0.03 0.15
Matches are distributed among these distances:
39 13 0.12
40 22 0.21
42 10 0.10
43 29 0.28
44 10 0.10
45 14 0.13
46 6 0.06
ACGTcount: A:0.34, C:0.28, G:0.06, T:0.31
Consensus pattern (42 bp):
TACATATTCACACTAGCCATTCGGCTTACCACATAAATATTA
Found at i:57768071 original size:27 final size:27
Alignment explanation
Indices: 57768041--57768116 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
57768031 GTAATAAAGG
*
57768041 AAAATTACCAAAATACCCCTAAATTGT
1 AAAATTACCGAAATACCCCTAAATTGT
* * *
57768068 AAAATTATCGAAATA-CCCTCGACTTGT
1 AAAATTACCGAAATACCCCT-AAATTGT
57768095 AAAATTACCGAAATACCCCTAA
1 AAAATTACCGAAATACCCCTAA
57768117 GGGCGAGAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 4 0.10
27 33 0.80
28 4 0.10
ACGTcount: A:0.45, C:0.24, G:0.07, T:0.25
Consensus pattern (27 bp):
AAAATTACCGAAATACCCCTAAATTGT
Found at i:57773881 original size:55 final size:54
Alignment explanation
Indices: 57773757--57774062 Score: 348
Period size: 55 Copynumber: 5.6 Consensus size: 54
57773747 TTGGTAAGAT
* * * * *
57773757 AAGGATATCATGTAAGACTATGCCAAGGCATGACATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * *
57773811 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC
* * * *
57773866 AAAGG-TCCCATGTAAGACCATACCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * *
57773920 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC
* * * *
57773975 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGT
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * * *
57774028 AAGGATACGACGCAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA
57774063 ATGGTAAGTT
Statistics
Matches: 213, Mismatches: 33, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
52 4 0.02
53 34 0.16
54 82 0.38
55 85 0.40
56 8 0.04
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:57773956 original size:109 final size:109
Alignment explanation
Indices: 57773765--57774062 Score: 492
Period size: 109 Copynumber: 2.7 Consensus size: 109
57773755 ATAAGGATAT
* *
57773765 CATGTAAGACTATGCCAAGGCATGACATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACC
57773830 ATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
66 ATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
*
57773874 CATGTAAGACCATACCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACC
57773939 ATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
66 ATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
* * * * * *
57773983 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGTAAGGATA-CGACGCAAGAC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATC-ATGTAAGAC
57774046 CATGTCAAGACATGGCA
65 CATGTCAAGACATGGCA
57774063 ATGGTAAGTT
Statistics
Matches: 178, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
107 1 0.01
108 36 0.20
109 141 0.79
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (109 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACC
ATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
Found at i:57779630 original size:27 final size:27
Alignment explanation
Indices: 57779600--57780028 Score: 511
Period size: 27 Copynumber: 16.2 Consensus size: 27
57779590 AAAGTACTCC
57779600 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
57779627 CGATTTACAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** *
57779654 CAATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
57779681 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
57779708 C-AGTTTACAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
57779735 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
57779762 CGATTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
57779789 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
57779816 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
57779843 CAATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
57779870 CGATTTAC-----T---GTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
57779889 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
57779916 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
57779943 TGATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * * *
57779970 C-AGTTTACAAAATTATCATTTTGCCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
57779997 CGATGTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
57780024 TGATT
1 CGATT
57780029 GTGAAATTAC
Statistics
Matches: 345, Mismatches: 43, Indels: 28
0.83 0.10 0.07
Matches are distributed among these distances:
19 18 0.05
22 1 0.00
24 1 0.00
26 3 0.01
27 319 0.92
28 3 0.01
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:57779877 original size:19 final size:19
Alignment explanation
Indices: 57779855--57779896 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
57779845 ATTTATAGAA
57779855 TTACTGTTTTACCCTCGAT
1 TTACTGTTTTACCCTCGAT
57779874 TTACTGTTTTACCCTCGAT
1 TTACTGTTTTACCCTCGAT
57779893 TTAC
1 TTAC
57779897 AGAATTACCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.17, C:0.26, G:0.10, T:0.48
Consensus pattern (19 bp):
TTACTGTTTTACCCTCGAT
Found at i:57779884 original size:73 final size:73
Alignment explanation
Indices: 57779801--57779950 Score: 246
Period size: 73 Copynumber: 2.1 Consensus size: 73
57779791 GTTTACAGAA
* *
57779801 TTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTATAGAATTACTGTTTTA
1 TTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTATAAAATTACCGTTTTA
57779866 CCCTCGAT
66 CCCTCGAT
* * *
57779874 TTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTA
1 TTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTATAAAATTACCGTTTTA
*
57779939 CCCTTGAT
66 CCCTCGAT
57779947 TTAC
1 TTAC
57779951 AGAATTACTG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.25, C:0.23, G:0.09, T:0.43
Consensus pattern (73 bp):
TTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTATAAAATTACCGTTTTA
CCCTCGAT
Found at i:57779904 original size:19 final size:19
Alignment explanation
Indices: 57779863--57779905 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
57779853 AATTACTGTT
* **
57779863 TTACCCTCGATTTACTGTT
1 TTACCCTCGATTTACAGAA
57779882 TTACCCTCGATTTACAGAA
1 TTACCCTCGATTTACAGAA
57779901 TTACC
1 TTACC
57779906 GTTTTACCCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.23, C:0.28, G:0.09, T:0.40
Consensus pattern (19 bp):
TTACCCTCGATTTACAGAA
Found at i:57779917 original size:46 final size:46
Alignment explanation
Indices: 57779828--57779921 Score: 152
Period size: 46 Copynumber: 2.0 Consensus size: 46
57779818 ATTTACAGAA
* *
57779828 TTACCGTTTTACCCTCAATTTATAGAATTACTGTTTTACCCTCGAT
1 TTACCGTTTTACCCTCAATTTACAGAATTACCGTTTTACCCTCGAT
* *
57779874 TTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGAT
1 TTACCGTTTTACCCTCAATTTACAGAATTACCGTTTTACCCTCGAT
57779920 TT
1 TT
57779922 GTAAAATTAC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.22, C:0.24, G:0.10, T:0.44
Consensus pattern (46 bp):
TTACCGTTTTACCCTCAATTTACAGAATTACCGTTTTACCCTCGAT
Found at i:57779977 original size:100 final size:100
Alignment explanation
Indices: 57779774--57779970 Score: 288
Period size: 100 Copynumber: 2.0 Consensus size: 100
57779764 ATTTACAGAA
* *
57779774 TTACTATTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTA
1 TTACTATTTTACCCTCAGTTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTTA
* *
57779839 CCCTCAATTTATAGAATTACTGTTTTACCCTCGAT
66 CCCTCAATTTACAGAATTACTGGTTTACCCTCGAT
* * **
57779874 TTACTGTTTTACCCTC-GATTTACAGAATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTT
1 TTACTATTTTACCCTCAG-TTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTT
**
57779938 ACCCTTGATTTACAGAATTACTGGTTTACCCTC
65 ACCCTCAATTTACAGAATTACTGGTTTACCCTC
57779971 AGTTTACAAA
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
99 1 0.01
100 85 0.99
ACGTcount: A:0.25, C:0.23, G:0.10, T:0.42
Consensus pattern (100 bp):
TTACTATTTTACCCTCAGTTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTTA
CCCTCAATTTACAGAATTACTGGTTTACCCTCGAT
Found at i:57780063 original size:27 final size:27
Alignment explanation
Indices: 57780033--57780200 Score: 178
Period size: 27 Copynumber: 6.2 Consensus size: 27
57780023 TTGATTGTGA
57780033 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
57780060 AATTACTGAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
**
57780087 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
57780114 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
57780141 AAATA-TCAAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* * ** * *
57780168 AATTACCGAGATACCGTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
57780195 AATTAC
1 AATTAC
57780201 CATTTTGCCC
Statistics
Matches: 117, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
27 117 1.00
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:57780193 original size:54 final size:54
Alignment explanation
Indices: 57780041--57780202 Score: 227
Period size: 54 Copynumber: 3.0 Consensus size: 54
57780031 GAAATTACTG
* * * *
57780041 AAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTATAGGATAGAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCA
* *
57780095 AAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAAATATCA
1 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCA
* * *
57780149 AAATACCCCTGTAGGGTAGAATTACCGAGATACCGTTGTGGGGTA-AAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAA-TACCA
57780203 TTTTGCCCCT
Statistics
Matches: 96, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
53 3 0.03
54 93 0.97
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.25
Consensus pattern (54 bp):
AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCA
Found at i:57780193 original size:81 final size:81
Alignment explanation
Indices: 57780032--57780199 Score: 196
Period size: 81 Copynumber: 2.1 Consensus size: 81
57780022 CTTGATTGTG
* * *
57780032 AAATTA-CTGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTATAGGATAGAATTACCAA
1 AAATTATC-GAAATACCCCTGTAGGGTAGAAATACTAAAATACCCCTATAGGATAGAATTACCAA
57780096 AATACCCCTGTAGGGTA
65 AATACCCCTGTAGGGTA
* * * * *
57780113 GAATTATCGAAATACCCTTGTAGGGTAGAAATA-TCAAAATACCCCTGTAGGGTAGAATTACCGA
1 AAATTATCGAAATACCCCTGTAGGGTAGAAATACT-AAAATACCCCTATAGGATAGAATTACCAA
* ** *
57780177 GATACCGTTGTGGGGTA
65 AATACCCCTGTAGGGTA
57780194 AAATTA
1 AAATTA
57780200 CCATTTTGCC
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
80 1 0.01
81 70 0.97
82 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (81 bp):
AAATTATCGAAATACCCCTGTAGGGTAGAAATACTAAAATACCCCTATAGGATAGAATTACCAAA
ATACCCCTGTAGGGTA
Found at i:57780442 original size:27 final size:26
Alignment explanation
Indices: 57780404--57780509 Score: 140
Period size: 27 Copynumber: 4.0 Consensus size: 26
57780394 GGAAGCGTTC
*
57780404 TGGTGGCTATGCCACAAATATCTGTTT
1 TGGTGACTATGCCAC-AATATCTGTTT
57780431 TGGTGACTATGCCACAAATATCTGTTT
1 TGGTGACTATGCCAC-AATATCTGTTT
* *
57780458 TGGTGGCTCTGCCACAATATCTGTATT
1 TGGTGACTATGCCACAATATCTGT-TT
* *
57780485 TGGTGACTCTGTCACAATATCTGTT
1 TGGTGACTATGCCACAATATCTGTT
57780510 GACCGATCGA
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
26 10 0.14
27 63 0.86
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.38
Consensus pattern (26 bp):
TGGTGACTATGCCACAATATCTGTTT
Found at i:57780506 original size:53 final size:54
Alignment explanation
Indices: 57780404--57780509 Score: 162
Period size: 54 Copynumber: 2.0 Consensus size: 54
57780394 GGAAGCGTTC
57780404 TGGTGGCTATGCCACAAATATCTGTTTTGGTGACTATGCCACAAATATCTGTTT
1 TGGTGGCTATGCCACAAATATCTGTTTTGGTGACTATGCCACAAATATCTGTTT
* * *
57780458 TGGTGGCTCTGCCAC-AATATCTGTATTTGGTGACTCTGTCAC-AATATCTGTT
1 TGGTGGCTATGCCACAAATATCTGT-TTTGGTGACTATGCCACAAATATCTGTT
57780510 GACCGATCGA
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
53 19 0.40
54 29 0.60
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.38
Consensus pattern (54 bp):
TGGTGGCTATGCCACAAATATCTGTTTTGGTGACTATGCCACAAATATCTGTTT
Found at i:57780629 original size:22 final size:22
Alignment explanation
Indices: 57780597--57780655 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
57780587 CCCGTTATTA
*
57780597 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
57780619 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
57780641 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
57780656 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:57780842 original size:27 final size:27
Alignment explanation
Indices: 57780820--57780893 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 27
57780810 TAGGTGGGTT
*
57780820 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
57780847 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* * *
57780874 TGTCACGATATCGGT-TCTGG
1 TGCCACAATATCTGTATCTGG
57780894 CAGCCATGCT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 5 0.12
27 35 0.85
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:57781020 original size:6 final size:6
Alignment explanation
Indices: 57781011--57781112 Score: 104
Period size: 6 Copynumber: 16.8 Consensus size: 6
57781001 TTGCATTCAC
* *
57781011 ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
*
57781060 -TTACTA ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG
1 ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
57781108 ATTCT
1 ATTCT
57781113 CATTTTGGTT
Statistics
Matches: 81, Mismatches: 6, Indels: 18
0.77 0.06 0.17
Matches are distributed among these distances:
5 6 0.07
6 68 0.84
7 5 0.06
8 2 0.02
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:57781133 original size:30 final size:30
Alignment explanation
Indices: 57781011--57781112 Score: 161
Period size: 30 Copynumber: 3.4 Consensus size: 30
57781001 TTGCATTCAC
*
57781011 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATTCTG
57781042 ATTCTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACTAAT-TCTG
*
57781072 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
57781102 ATTCTGATTCT
1 ATTCTGATTCT
57781113 CATTTTGGTT
Statistics
Matches: 67, Mismatches: 2, Indels: 5
0.91 0.03 0.07
Matches are distributed among these distances:
29 1 0.01
30 45 0.67
31 21 0.31
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATTCTG
Found at i:57782746 original size:24 final size:24
Alignment explanation
Indices: 57782714--57782761 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
57782704 AATTCACATA
57782714 GAATTCGCGTACTAACTCATCATC
1 GAATTCGCGTACTAACTCATCATC
*
57782738 GAATTCGCGTACTAACTCCTCATC
1 GAATTCGCGTACTAACTCATCATC
57782762 CACACTAGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.31, G:0.12, T:0.29
Consensus pattern (24 bp):
GAATTCGCGTACTAACTCATCATC
Found at i:57792291 original size:38 final size:38
Alignment explanation
Indices: 57792235--57792312 Score: 129
Period size: 38 Copynumber: 2.1 Consensus size: 38
57792225 TCTAATATGT
57792235 TAACACAATAACTCAAGTGTATCTACTTTTAATTTCAC
1 TAACACAATAACTCAAGTGTATCTACTTTTAATTTCAC
* * *
57792273 TAACACAATAACTTAAGTGTATTTACTTTTATTTTCAC
1 TAACACAATAACTCAAGTGTATCTACTTTTAATTTCAC
57792311 TA
1 TA
57792313 TTTACTCCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.36, C:0.18, G:0.05, T:0.41
Consensus pattern (38 bp):
TAACACAATAACTCAAGTGTATCTACTTTTAATTTCAC
Found at i:57793366 original size:50 final size:50
Alignment explanation
Indices: 57793312--57793411 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
57793302 CATGATGTGC
57793312 ACTCAGCACCATACATGTGACCTAGCTACATTCCATCTATATTATTCAAT
1 ACTCAGCACCATACATGTGACCTAGCTACATTCCATCTATATTATTCAAT
57793362 ACTCAGCACCATACATGTGACCTAGCTACATTCCATCTATATTATTCAAT
1 ACTCAGCACCATACATGTGACCTAGCTACATTCCATCTATATTATTCAAT
57793412 CTTTCCGAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (50 bp):
ACTCAGCACCATACATGTGACCTAGCTACATTCCATCTATATTATTCAAT
Found at i:57798000 original size:503 final size:505
Alignment explanation
Indices: 57797040--57798009 Score: 1308
Period size: 503 Copynumber: 1.9 Consensus size: 505
57797030 GCTAGAGCCC
* * *
57797040 AATTCAATAATGGTGGCCTTTGGGCCTTAGCCCATATTAGCCTCAGTTGGGCCGAAGCCAACATC
1 AATTCAATAACGGTGGCCTCTGGGCCTTAGCCCAAATTAGCCTCAGTTGGGCCGAAGCCAACATC
* * * *
57797105 GCAATAACATCACAATAATATCATACATGCAATGCTGTGCAACCCACCCCAATATTCCAACCGCT
66 GCAATAACATCAAAACAATATCATACATGCAATGCTGTGCAACCCACCCCAACAATCCAACCGCT
* *
57797170 ACACACTAACACCGTCCCCCGGTACACATCATGTAGGAATATAAATATCGACCCACCCATCCGAT
131 ACACACTAACACCGTCCCCCGGTACACATCATGTAGGAATATAAATATCGACCCAACCAACCGAT
* ** *
57797235 ACACATCAATAGTAGCCCAGTTGCGGCACTACCTTCATTGCAGCAAGCTGCTAATCACATATTGG
196 ACACATCAATAGTAGCCCAGTTACGAAACTACCTTCATT------A--T-CTAATCACA-ATTAG
* *
57797300 GCTTAATAGCCGTCGGTGCATCCACGATTGTCAAGCAACCATGCGATCCTCATATACTTCCTCCA
251 GCTTAAAAGCCATCGGTGCATCCACGATTGTCAAGCAACCATGCGATCCTCATATACTTCCTCCA
* *
57797365 TTCCATAATTCCCAACCCATATGCAACCTAAACAGAATATCGTATGTATGCAGCAGATATACATG
316 TTCCATAATACCCAACCCATATGCAACCTAAACAGAATATCATATGTATGCAGCAGATATACATG
** * * *
57797430 TAACATCCATAAGTCTTACATTCAACACTTAGGGGTATTTTAGTCATTCTCGCCCTGAGGGGCAT
381 TAACATCCATAAAACTTACATTCAACACCTAGGGGTATTTCAGTCATTCTCGCCCTGAGGAGCAT
*
57797495 TTCGGTAATTTTACAAGTCGAGGGCATTTCTATAATTTCACAATTTAGGGGTATTTTGGT
446 TTCGATAATTTTACAAGTCGAGGGCATTTCTATAATTTCACAATTTAGGGGTATTTTGGT
* * *
57797555 AATTCAATAACGGTGGTCTCTGGGCCTTAGCCCAAATTAGCCTCGGTTGGGCCGAAGCCCACATC
1 AATTCAATAACGGTGGCCTCTGGGCCTTAGCCCAAATTAGCCTCAGTTGGGCCGAAGCCAACATC
* * *
57797620 GCAATAATATCAAAACAATATCATACATGCAATGCAATGCAGTGCCATCCCATCCCAACAATCCA
66 GCAATAACATCAAAACAATATCATACATGCAATGC--T---GTG-CAACCCACCCCAACAATCCA
* * * * * *
57797685 TCCGCTACACACTAGCTCCGTCCTCC-G-ACACATCATGTGGGGATATAAATATCGACCCAACCA
125 ACCGCTACACACTAACACCGTCCCCCGGTACACATCATGTAGGAATATAAATATCGACCCAACCA
* * * *
57797748 ACTGATACACATCTATGGTAGCCCGGTTACGAAACTACCTTCA-T-T-T-A-CAC-ATTAGGCTT
190 ACCGATACACATCAATAGTAGCCCAGTTACGAAACTACCTTCATTATCTAATCACAATTAGGCTT
* *
57797807 AAAAGCCATCGGTGGATCCACGATTGTCAAGCAACCATGCGATCCTCATATACTTCCTCCGTTCC
255 AAAAGCCATCGGTGCATCCACGATTGTCAAGCAACCATGCGATCCTCATATACTTCCTCCATTCC
* * *
57797872 ATAATACCCAACCCATATGCAACCTAAGCAGAATATCATATGTATGCAGCAGATATGCATGTCAC
320 ATAATACCCAACCCATATGCAACCTAAACAGAATATCATATGTATGCAGCAGATATACATGTAAC
* * * *
57797937 ATCCATAAAACTTACATTCAACACCTAGGGGTATTTCAGTTATTTTTGCCCTTAGGAGCATTTCG
385 ATCCATAAAACTTACATTCAACACCTAGGGGTATTTCAGTCATTCTCGCCCTGAGGAGCATTTCG
57798002 ATAATTTT
450 ATAATTTT
57798010 TCCTTTTTTT
Statistics
Matches: 401, Mismatches: 48, Indels: 24
0.85 0.10 0.05
Matches are distributed among these distances:
503 192 0.48
505 3 0.01
506 1 0.00
507 1 0.00
509 1 0.00
515 91 0.23
517 1 0.00
518 1 0.00
519 68 0.17
520 4 0.01
521 38 0.09
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.26
Consensus pattern (505 bp):
AATTCAATAACGGTGGCCTCTGGGCCTTAGCCCAAATTAGCCTCAGTTGGGCCGAAGCCAACATC
GCAATAACATCAAAACAATATCATACATGCAATGCTGTGCAACCCACCCCAACAATCCAACCGCT
ACACACTAACACCGTCCCCCGGTACACATCATGTAGGAATATAAATATCGACCCAACCAACCGAT
ACACATCAATAGTAGCCCAGTTACGAAACTACCTTCATTATCTAATCACAATTAGGCTTAAAAGC
CATCGGTGCATCCACGATTGTCAAGCAACCATGCGATCCTCATATACTTCCTCCATTCCATAATA
CCCAACCCATATGCAACCTAAACAGAATATCATATGTATGCAGCAGATATACATGTAACATCCAT
AAAACTTACATTCAACACCTAGGGGTATTTCAGTCATTCTCGCCCTGAGGAGCATTTCGATAATT
TTACAAGTCGAGGGCATTTCTATAATTTCACAATTTAGGGGTATTTTGGT
Found at i:57798356 original size:29 final size:29
Alignment explanation
Indices: 57798290--57798384 Score: 129
Period size: 29 Copynumber: 3.3 Consensus size: 29
57798280 AAGTTCACAT
* *
57798290 ACATGTATATGACCCACTAGGCCC-AATC
1 ACATTTATATGACCCATTAGGCCCAAATC
57798318 ACATTTATATGACCCATTAGGCCCAAATC
1 ACATTTATATGACCCATTAGGCCCAAATC
* * * *
57798347 ACGTTTATATGGCCCATCAGGCCCAATTC
1 ACATTTATATGACCCATTAGGCCCAAATC
57798376 ACATTTATA
1 ACATTTATA
57798385 GTCATGCTCA
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
28 22 0.37
29 37 0.63
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.27
Consensus pattern (29 bp):
ACATTTATATGACCCATTAGGCCCAAATC
Found at i:57801359 original size:27 final size:26
Alignment explanation
Indices: 57801311--57801370 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
57801301 GCGAGGCTGT
*
57801311 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGACAAAGCCACCAGA-A
* * *
57801338 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACAAAGCCACCAGAA
*
57801364 CAAATAT
1 CAGATAT
57801371 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACAAAGCCACCAGAA
Found at i:57802506 original size:37 final size:37
Alignment explanation
Indices: 57802405--57802507 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
57802395 CGAATAGTCC
* *
57802405 CCACACGTAGTTATCGGGTCTTACCCGAACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
57802442 CCACACGTAGTCATCGAGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
57802479 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
57802508 ATATATTTCC
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.22
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:57803045 original size:48 final size:48
Alignment explanation
Indices: 57802677--57803034 Score: 635
Period size: 48 Copynumber: 7.5 Consensus size: 48
57802667 CTAGCCGAAT
*
57802677 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCG
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* *
57802725 CATTAGCCATTCGGCTTTACCACTTATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* *
57802773 CATTAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
57802821 CACTAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
57802869 CACTAGCCATTCGGTTTTACCACATATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
57802917 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
57802965 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTGCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
57803013 CATTAGCCATTCGGCTTTACCA
1 CACTAGCCATTCGGCTTTACCA
57803035 TACACACATA
Statistics
Matches: 300, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 300 1.00
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (48 bp):
CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
Found at i:57806727 original size:25 final size:25
Alignment explanation
Indices: 57806699--57806768 Score: 79
Period size: 25 Copynumber: 2.7 Consensus size: 25
57806689 TTCTTTTAAT
57806699 AACTAGGGCAAAGCCCTTTCT-GATA
1 AACT-GGGCAAAGCCCTTTCTCGATA
* *
57806724 AACTGGGGCAAAGCCCTTTTTCGGTA
1 AACT-GGGCAAAGCCCTTTCTCGATA
*
57806750 AACTGGCGCAGAGCCCTTT
1 AACTGG-GCAAAGCCCTTT
57806769 TAGCACTTCT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
25 21 0.54
26 18 0.46
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (25 bp):
AACTGGGCAAAGCCCTTTCTCGATA
Found at i:57807726 original size:27 final size:27
Alignment explanation
Indices: 57807696--57807803 Score: 85
Period size: 27 Copynumber: 3.9 Consensus size: 27
57807686 GTAAATCTAC
57807696 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
* *
57807723 AAACAAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* * *
57807749 AGAAAGTCAAAGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* * **
57807779 AAATCAGGGGTATTTTGGTAATTTT
1 AAACCAAGGGTATTTCAGTAATTTT
57807804 ACAAATTGAG
Statistics
Matches: 65, Mismatches: 10, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
26 1 0.02
27 39 0.60
28 7 0.11
29 17 0.26
30 1 0.02
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.42
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:57807809 original size:27 final size:26
Alignment explanation
Indices: 57807760--57807909 Score: 149
Period size: 27 Copynumber: 5.6 Consensus size: 26
57807750 GAAAGTCAAA
**
57807760 GGTATTTCT-GTAATTTTGTAAATCAGG
1 GGTATTT-TGGTAATTTTACAAA-CAGG
**
57807787 GGTATTTTGGTAATTTTACAAATTGAG
1 GGTATTTTGGTAATTTTACAAACAG-G
* * * *
57807814 GGTATTTCGATAATTTCACAAACCAGT
1 GGTATTTTGGTAATTTTACAAA-CAGG
*
57807841 GGTATTTCGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAAC-AGG
*
57807868 GGTATTTTGGTAATTTTACAAACTAGT
1 GGTATTTTGGTAATTTTACAAAC-AGG
57807895 GGTATTTTGGTAATT
1 GGTATTTTGGTAATT
57807910 CAATCCTACA
Statistics
Matches: 104, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
26 3 0.03
27 100 0.96
28 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.42
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTACAAACAGG
Found at i:57807845 original size:54 final size:54
Alignment explanation
Indices: 57807787--57807909 Score: 176
Period size: 54 Copynumber: 2.3 Consensus size: 54
57807777 GTAAATCAGG
*
57807787 GGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCGATAATTTCACAAACCAGT
1 GGTATTTTGGTAATTTTACAAACTAG-GGGTATTTCGATAATTTCACAAACCAGT
* * * * *
57807841 GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGT
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGATAATTTCACAAACCAGT
57807895 GGTATTTTGGTAATT
1 GGTATTTTGGTAATT
57807910 CAATCCTACA
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 59 0.97
55 2 0.03
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.41
Consensus pattern (54 bp):
GGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGATAATTTCACAAACCAGT
Found at i:57807923 original size:54 final size:54
Alignment explanation
Indices: 57807760--57807942 Score: 154
Period size: 54 Copynumber: 3.4 Consensus size: 54
57807750 GAAAGTCAAA
* *** * * * ** *
57807760 GGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAA-TTGAG
1 GGTATTTCGGTAATTTCACAAACCAGTGGTATTTCGGTAATTCAACAAACTAG-G
* **
57807814 GGTATTTCGATAATTTCACAAACCAGTGGTATTTCGGTAATTTTACAAACTAGG
1 GGTATTTCGGTAATTTCACAAACCAGTGGTATTTCGGTAATTCAACAAACTAGG
* * * * **
57807868 GGTATTTTGGTAATTTTACAAACTAGTGGTATTTTGGTAATTCAATCCTAC-AGG
1 GGTATTTCGGTAATTTCACAAACCAGTGGTATTTCGGTAATTCAA-CAAACTAGG
*
57807922 GGTATTTCAGTAATTTCACAA
1 GGTATTTCGGTAATTTCACAA
57807943 TCGAGGGTAA
Statistics
Matches: 106, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
54 101 0.95
55 5 0.05
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.40
Consensus pattern (54 bp):
GGTATTTCGGTAATTTCACAAACCAGTGGTATTTCGGTAATTCAACAAACTAGG
Found at i:57807926 original size:81 final size:81
Alignment explanation
Indices: 57807760--57807942 Score: 203
Period size: 81 Copynumber: 2.3 Consensus size: 81
57807750 GAAAGTCAAA
* ** *
57807760 GGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGAT
1 GGTATTTCAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTGAGGGTATTTCGAT
*
57807825 AATTTCACAAACCAGT
66 AATTTCACAAACCAGG
* *
57807841 GGTATTTCGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACT-AGTGGTATTTTG
1 GGTATTTCAGTAATTTTACAAATC-AGGGGTATTTTGGTAATTTTACAAACTGAG-GGTATTTCG
* **
57807904 GTAA-TTCA-ATCCTACAGG
64 ATAATTTCACAAAC--CAGG
*
57807922 GGTATTTCAGTAATTTCACAA
1 GGTATTTCAGTAATTTTACAA
57807943 TCGAGGGTAA
Statistics
Matches: 87, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
79 2 0.02
80 7 0.08
81 78 0.90
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.40
Consensus pattern (81 bp):
GGTATTTCAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTGAGGGTATTTCGAT
AATTTCACAAACCAGG
Found at i:57807949 original size:27 final size:27
Alignment explanation
Indices: 57807760--57807949 Score: 122
Period size: 27 Copynumber: 7.0 Consensus size: 27
57807750 GAAAGTCAAA
*
57807760 GGTATTTCTGTAATTTTGTA-AAT-CAGG
1 GGTATTTCGGTAA-TTT-TACAATCCAGG
* **
57807787 GGTATTTTGGTAATTTTACAAATTGA-G
1 GGTATTTCGGTAATTTTAC-AATCCAGG
* * * *
57807814 GGTATTTCGATAATTTCACAAACCAGT
1 GGTATTTCGGTAATTTTACAATCCAGG
* *
57807841 GGTATTTCGGTAATTTTACAAACTAGG
1 GGTATTTCGGTAATTTTACAATCCAGG
* * * *
57807868 GGTATTTTGGTAATTTTACAAACTAGT
1 GGTATTTCGGTAATTTTACAATCCAGG
*
57807895 GGTATTTTGGTAA--TT-CAATCCTACAGG
1 GGTATTTCGGTAATTTTACAAT-C--CAGG
* * *
57807922 GGTATTTCAGTAATTTCACAATCGAGG
1 GGTATTTCGGTAATTTTACAATCCAGG
57807949 G
1 G
57807950 TAAAACGGTA
Statistics
Matches: 130, Mismatches: 23, Indels: 20
0.75 0.13 0.12
Matches are distributed among these distances:
24 3 0.02
25 5 0.04
26 6 0.05
27 109 0.84
28 1 0.01
29 2 0.02
30 4 0.03
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (27 bp):
GGTATTTCGGTAATTTTACAATCCAGG
Found at i:57807975 original size:27 final size:27
Alignment explanation
Indices: 57807941--57808057 Score: 128
Period size: 27 Copynumber: 4.3 Consensus size: 27
57807931 GTAATTTCAC
*
57807941 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTATA
** *
57807968 AA-CTGAGGGTAAAATAGTAATTTTTTA
1 AATC-GAGGGTAAAACGGTAATTTTATA
* *
57807995 AATCGAGGGTAAAACGCTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTATA
* * * *
57808022 AATCGAGGGTAGAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTTTATA
57808049 AATCGAGGG
1 AATCGAGGG
57808058 CATTTTAGTA
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
26 1 0.01
27 74 0.97
28 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTATA
Found at i:57808016 original size:54 final size:54
Alignment explanation
Indices: 57807941--57808057 Score: 146
Period size: 54 Copynumber: 2.2 Consensus size: 54
57807931 GTAATTTCAC
* * * * **
57807941 AATCGAGGGTAAAACGGTAATTTTGTAAA-CTGAGGGTAAAATAGTAATTTTTTA
1 AATCGAGGGTAAAACGCTAATTCTATAAATC-GAGGGTAAAATAGTAATTCTACA
* *
57807995 AATCGAGGGTAAAACGCTAATTCTATAAATCGAGGGTAGAATGGTAATTCTACA
1 AATCGAGGGTAAAACGCTAATTCTATAAATCGAGGGTAAAATAGTAATTCTACA
57808049 AATCGAGGG
1 AATCGAGGG
57808058 CATTTTAGTA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
54 53 0.98
55 1 0.02
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.28
Consensus pattern (54 bp):
AATCGAGGGTAAAACGCTAATTCTATAAATCGAGGGTAAAATAGTAATTCTACA
Found at i:57809219 original size:26 final size:27
Alignment explanation
Indices: 57809189--57809242 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
57809179 TCACACAAGT
57809189 TAGTCATTT-AC-CCACGAGGGGCAAAA
1 TAGTCATTTAACACC-CGAGGGGCAAAA
*
57809215 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACCCGAGGGGCAAAA
57809242 T
1 T
57809243 GGTAATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 9 0.36
27 14 0.56
28 2 0.08
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACCCGAGGGGCAAAA
Found at i:57809274 original size:27 final size:26
Alignment explanation
Indices: 57809244--57809412 Score: 180
Period size: 27 Copynumber: 6.3 Consensus size: 26
57809234 GGGCAAAATG
* *
57809244 GTAATTTTACCCTAGAAGGGTATCTCA
1 GTAATTCTACCCTA-AAGGGTATTTCA
* *
57809271 GTAATTCTACCCTACAGGGTATTT-T
1 GTAATTCTACCCTAAAGGGTATTTCA
*
57809296 GATAATTCTACCCTACAGGGGTATTTCA
1 G-TAATTCTACCCTA-AAGGGTATTTCA
*
57809324 GTAATTCTACCCTACAGAGGTATTTCA
1 GTAATTCTACCCTAAAG-GGTATTTCA
* *
57809351 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTA-AAGGGTATTTCA
* *
57809378 GTAATTCTA-CCTATAGGGGTATTTCG
1 GTAATTCTACCCTA-AAGGGTATTTCA
57809404 GTAATTCTA
1 GTAATTCTA
57809413 TAACTTATCC
Statistics
Matches: 124, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
25 1 0.01
26 47 0.38
27 74 0.60
28 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.36
Consensus pattern (26 bp):
GTAATTCTACCCTAAAGGGTATTTCA
Found at i:57809308 original size:53 final size:53
Alignment explanation
Indices: 57809245--57809412 Score: 214
Period size: 53 Copynumber: 3.2 Consensus size: 53
57809235 GGCAAAATGG
* * * *
57809245 TAATTTTACCCTAGAAGGGTATCTCAGTAATTCTACCCTACAGGGTATTTTGA
1 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGTATTTTGA
*
57809298 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGAGGTA-TTTCA
1 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAG-GGTATTTTGA
* * * *
57809351 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTA-CCTATAGGGGTATTTCGG
1 -TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACA-GGGTATTTTGA
57809405 TAATTCTA
1 TAATTCTA
57809413 TAACTTATCC
Statistics
Matches: 101, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
53 60 0.59
54 41 0.41
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.36
Consensus pattern (53 bp):
TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGTATTTTGA
Found at i:57809365 original size:80 final size:80
Alignment explanation
Indices: 57809244--57809412 Score: 243
Period size: 80 Copynumber: 2.1 Consensus size: 80
57809234 GGGCAAAATG
* * *
57809244 GTAATTTTACCCTAGAAGGGTATCTCAGTAATTCTACCCTACA-GGGTATTTTGATAATTCTACC
1 GTAATTCTACCCTACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCGATAATTCTA-C
57809308 CTACAGGGGTATTTCA
65 CTACAGGGGTATTTCA
* *
57809324 GTAATTCTACCCTAC-AGAGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
1 GTAATTCTACCCTACAAG-GGTATCTCAGTAATTCTACCCTACAGGGGTATTTCGATAATTCTAC
* *
57809388 CTATAGGGGTATTTCG
65 CTACAGGGGTATTTCA
57809404 GTAATTCTA
1 GTAATTCTA
57809413 TAACTTATCC
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
79 2 0.03
80 61 0.76
81 17 0.21
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.36
Consensus pattern (80 bp):
GTAATTCTACCCTACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACC
TACAGGGGTATTTCA
Found at i:57816483 original size:25 final size:24
Alignment explanation
Indices: 57816447--57816499 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
57816437 GATGTTCAGG
57816447 AGAGCCATATCAAGAAGCTCAAAA
1 AGAGCCATATCAAGAAGCTCAAAA
* * *
57816471 AGAGCCTATATCAGGATGCTCATAA
1 AGAGCC-ATATCAAGAAGCTCAAAA
57816496 AGAG
1 AGAG
57816500 TTGCGTTTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.43, C:0.19, G:0.21, T:0.17
Consensus pattern (24 bp):
AGAGCCATATCAAGAAGCTCAAAA
Found at i:57826899 original size:47 final size:47
Alignment explanation
Indices: 57826839--57827007 Score: 311
Period size: 47 Copynumber: 3.6 Consensus size: 47
57826829 GCATTGGCAC
*
57826839 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGAAAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
57826886 TAAGAAAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGAAAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
57826933 TAAGAAAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGAAAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
57826980 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGAAAAGGATACCATGTAAGACCATG
57827008 CCAAGGCATG
Statistics
Matches: 119, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 119 1.00
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.25
Consensus pattern (47 bp):
TAAGAAAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:57827044 original size:54 final size:54
Alignment explanation
Indices: 57826980--57827154 Score: 219
Period size: 54 Copynumber: 3.2 Consensus size: 54
57826970 TGGCATTTGG
* *
57826980 TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
1 TAAGGTAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTA
* * *
57827034 TAAGGTAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTA
1 TAAGGTAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTT-CTA
* ** * *
57827089 TAAGGAAAAGG-TCCCATGTAATACCATGCCAAGGCATGGCATTGGTGAGTTC-A
1 TAAGG-TAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTA
*
57827142 TAAGGCAAGGATA
1 TAAGGTAAGGATA
57827155 CGACGCAAGA
Statistics
Matches: 103, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
52 4 0.04
53 7 0.07
54 47 0.46
55 41 0.40
56 4 0.04
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.24
Consensus pattern (54 bp):
TAAGGTAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTA
Found at i:57827115 original size:55 final size:54
Alignment explanation
Indices: 57826994--57827179 Score: 196
Period size: 55 Copynumber: 3.4 Consensus size: 54
57826984 ATAAGGATAT
* * *
57826994 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGTAAGGAAAT
1 CATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGAAAGGAAAC
* * **
57827048 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGG-TCC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATGAGTT-CTATAAGG-AAAGGAAAC
* * * *
57827103 CATGTAATACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGATAC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGAAAGGAAAC
* * * * *
57827156 GACGCAAGACCATGTCAAGACATG
1 CATGTAAGACCATGCCAAGGCATG
57827180 ACAATGGTAA
Statistics
Matches: 110, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
52 4 0.04
53 26 0.24
54 35 0.32
55 41 0.37
56 4 0.04
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (54 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGAAAGGAAAC
Found at i:57827218 original size:108 final size:109
Alignment explanation
Indices: 57826994--57827207 Score: 281
Period size: 108 Copynumber: 2.0 Consensus size: 109
57826984 ATAAGGATAT
* * * *
57826994 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGTAAGGAAATCATGTAAGACC
1 CATGTAATACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCACGCAAGACC
* * * * *
57827059 ATGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTCC
66 ATGTCAAGACATGACAATGATAAGTTACAAAAAGGAAAAGGTCC
* * *
57827103 CATGTAATACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGATA-CGACGCAAGAC
1 CATGTAATACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATC-ACGCAAGAC
*
57827166 CATGTCAAGACATGACAATGGTAAGTT-CAAAAAGGAAAAGGT
65 CATGTCAAGACATGACAATGATAAGTTACAAAAAGGAAAAGGT
57827208 TCCCGAGTAA
Statistics
Matches: 91, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
107 14 0.15
108 42 0.46
109 35 0.38
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.21
Consensus pattern (109 bp):
CATGTAATACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCACGCAAGACC
ATGTCAAGACATGACAATGATAAGTTACAAAAAGGAAAAGGTCC
Found at i:57830349 original size:43 final size:41
Alignment explanation
Indices: 57830294--57830453 Score: 198
Period size: 43 Copynumber: 3.8 Consensus size: 41
57830284 ATATCGTACA
57830294 ATGCCAACGTCCCAGACATGGTCTTACATGTAATCACATGTCG
1 ATGCCAACGTCCCAGACATGGTCTTACATG-AATCACAT-TCG
* *
57830337 ATGCC-ACTGTCCCAGACAGGGTCTTACACGAATCACAATTACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACATGAATCAC-ATT-CG
*
57830380 ATGCCAATGTCCCAGACATGGTCTTAC-TCGAAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACAT-G-AATCACAT-TCG
*
57830423 ATGCCAACGTCCTAGACATGGTCTTACATGA
1 ATGCCAACGTCCCAGACATGGTCTTACATGA
57830454 GAACACATAT
Statistics
Matches: 102, Mismatches: 7, Indels: 17
0.81 0.06 0.13
Matches are distributed among these distances:
42 10 0.10
43 83 0.81
44 9 0.09
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.24
Consensus pattern (41 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGAATCACATTCG
Found at i:57833273 original size:39 final size:40
Alignment explanation
Indices: 57833096--57833273 Score: 234
Period size: 40 Copynumber: 4.5 Consensus size: 40
57833086 CGGATGATAA
* * *
57833096 CCGGGCTAAGTCCCAAAGGCATTGGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
** *
57833136 TTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
57833176 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
57833216 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
**
57833256 CC-GGCTAAACCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
57833274 TACTTGGTTG
Statistics
Matches: 123, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 16 0.13
40 107 0.87
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:57845313 original size:40 final size:40
Alignment explanation
Indices: 57845218--57845393 Score: 234
Period size: 40 Copynumber: 4.5 Consensus size: 40
57845208 CGGATGATAA
*
57845218 CCGGGCTAAGTCCC-AAGGCATTGGTGCGAGTTACTAT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
** *
57845256 TTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
57845296 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
57845336 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
**
57845376 CC-GGCTAAACCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
57845394 TACTTGGTTG
Statistics
Matches: 122, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
38 12 0.10
39 38 0.31
40 72 0.59
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:57853388 original size:40 final size:40
Alignment explanation
Indices: 57853333--57853510 Score: 261
Period size: 40 Copynumber: 4.5 Consensus size: 40
57853323 CGGATGATAA
*
57853333 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
57853373 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
57853413 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
57853453 CCAGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
**
57853493 CC-GGCTAAACCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
57853511 TACTTGGTTG
Statistics
Matches: 128, Mismatches: 9, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
39 16 0.12
40 112 0.88
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:57855216 original size:14 final size:15
Alignment explanation
Indices: 57855199--57855227 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
57855189 ACACGAAAAT
57855199 TTCACACAT-ATAAA
1 TTCACACATAATAAA
57855213 TTCACACATAATAAA
1 TTCACACATAATAAA
57855228 CACTGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:57856924 original size:6 final size:6
Alignment explanation
Indices: 57856913--57857044 Score: 103
Period size: 6 Copynumber: 21.8 Consensus size: 6
57856903 AACCAAAATG
* * *
57856913 AGAATC AGAATC AAAATC AGTAA-C AGAATC AGAATC AAAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * *
57856961 AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-A AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC
* *
57857009 AGAATC AGAATT ACGTGA-C AGAATC AGAATC AGAAT
1 AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAAT
57857045 GTGAATGCAA
Statistics
Matches: 101, Mismatches: 14, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
5 8 0.08
6 85 0.84
7 6 0.06
8 2 0.02
ACGTcount: A:0.51, C:0.14, G:0.15, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:57857006 original size:36 final size:30
Alignment explanation
Indices: 57856913--57857044 Score: 185
Period size: 30 Copynumber: 4.4 Consensus size: 30
57856903 AACCAAAATG
* *
57856913 AGAATCAGAATCAAAATCAGTAACAGAATC
1 AGAATCAGAATCAATATTAGTAACAGAATC
*
57856943 AGAATCAAAATCAATATTAGTAACAGAATC
1 AGAATCAGAATCAATATTAGTAACAGAATC
* *
57856973 AGAATCAGAATCAGTATTAGTAAAAGAATC
1 AGAATCAGAATCAATATTAGTAACAGAATC
*
57857003 AGAATCAGAATCAGA-ATTACGTGACAGAATC
1 AGAATCAGAATCA-ATATTA-GTAACAGAATC
57857034 AGAATCAGAAT
1 AGAATCAGAAT
57857045 GTGAATGCAA
Statistics
Matches: 91, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
30 71 0.78
31 20 0.22
ACGTcount: A:0.51, C:0.14, G:0.15, T:0.20
Consensus pattern (30 bp):
AGAATCAGAATCAATATTAGTAACAGAATC
Found at i:57857199 original size:27 final size:26
Alignment explanation
Indices: 57857162--57857227 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
57857152 AGCATGGCTG
* *
57857162 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACACAGCCA
* *
57857188 CCAGATACAGATATTGTGGCACAGCCA
1 CCAGA-ACAGATATCGTGACACAGCCA
57857215 CCAGAATCAGATA
1 CCAGAA-CAGATA
57857228 ATGTGGCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.18
27 28 0.82
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACACAGCCA
Found at i:57857242 original size:27 final size:27
Alignment explanation
Indices: 57857186--57857243 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
57857176 GTGACAGAGT
* * *
57857186 CACCAGATACAGATATTGTGGCACAGC
1 CACCAGATACAGATAATGTGGCAAACC
57857213 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
57857240 CACC
1 CACC
57857244 TAACAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.29, G:0.19, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:57857625 original size:27 final size:26
Alignment explanation
Indices: 57857546--57857628 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
57857536 TCGATCGGTC
* * *
57857546 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
57857572 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
57857599 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
57857626 AAC
1 AAC
57857629 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:57857857 original size:27 final size:27
Alignment explanation
Indices: 57857827--57858022 Score: 230
Period size: 27 Copynumber: 7.3 Consensus size: 27
57857817 GGGGCAAAAT
* * *
57857827 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
57857854 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
57857881 GGTATTTCTATCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
57857908 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
57857935 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
57857962 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
57857989 AGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
57858016 AGTAATT
1 GGTAATT
57858023 TCACAATCAA
Statistics
Matches: 146, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 146 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:57858057 original size:27 final size:27
Alignment explanation
Indices: 57858032--57858838 Score: 1066
Period size: 27 Copynumber: 29.9 Consensus size: 27
57858022 TTCACAATCA
57858032 AGGGTAAAACGGTAATTCTGTAAA-TCG
1 AGGGTAAAACGGTAATTCTGTAAACT-G
* * *
57858059 AGGGTAAAATGATAATTTTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAACTG
* * *
57858086 AGGGTAAACCAGTAATTCTGTAAA-TCA
1 AGGGTAAAACGGTAATTCTGTAAACT-G
*
57858113 AGGGTAAAACGGTAATT-T-TACAAATCG
1 AGGGTAAAACGGTAATTCTGTA-AACT-G
**
57858140 AGGGTAAAATAGTAATTCTGTAAA-TCG
1 AGGGTAAAACGGTAATTCTGTAAACT-G
*
57858167 AGGGTAAAACAGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAACTG
57858194 AGGGTAAAACGGTAATTCTGTAAA-TCG
1 AGGGTAAAACGGTAATTCTGTAAACT-G
57858221 AGGGTAAAACGGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAACTG
* *
57858248 GGGGTAAAACGATAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAACTG
*
57858275 AGGGTAAAACGGTAATTCTATAAA-TCG
1 AGGGTAAAACGGTAATTCTGTAAACT-G
*
57858302 AGTGTAAAACGGTAATTCTGTAAA-TCG
1 AGGGTAAAACGGTAATTCTGTAAACT-G
*
57858329 AGGGTAAAACAGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAACTG
*
57858356 AGGGTAAAACGGTAATTCTATAAA-TCG
1 AGGGTAAAACGGTAATTCTGTAAACT-G
* *
57858383 AGGGTAAAACGATAATTCTATAAACTG
1 AGGGTAAAACGGTAATTCTGTAAACTG
* *
57858410 GGGGTAAAACGGTAATTCTGTAAACTA
1 AGGGTAAAACGGTAATTCTGTAAACTG
*
57858437 AGGGTAAAATGGTAATTCTGTAAA-TCG
1 AGGGTAAAACGGTAATTCTGTAAACT-G
57858464 AGGGTAAAACGGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAACTG
*
57858491 AGGGTAAAACGATAATTCTGTAAA-TCG
1 AGGGTAAAACGGTAATTCTGTAAACT-G
* *
57858518 AGGGTAAAACAGTAATTCTGAAAACTG
1 AGGGTAAAACGGTAATTCTGTAAACTG
* *
57858545 AGGGTAAAACGGGAATACTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAACTG
* *
57858572 ATGGTAAAATGGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAACTG
*
57858599 AGGGTAAAATGGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAACTG
* *
57858626 AGGGTAAAATGGTAATTCTGTAAA-TCA
1 AGGGTAAAACGGTAATTCTGTAAACT-G
*
57858653 AGGGTAAAACGGTAATTTTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAACTG
57858680 AGGGTAAAACGGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAACTG
*
57858707 AGGGTAAAATGGTAATTCTGTAAA-TCG
1 AGGGTAAAACGGTAATTCTGTAAACT-G
57858734 AGGGTAAAACGGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAACTG
*
57858761 AGGGTAAAACGATAATTCTGTAAA-TCG
1 AGGGTAAAACGGTAATTCTGTAAACT-G
**
57858788 AGGGTAAAATAGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAACTG
57858815 AGGGTAAAACGGTAATTCTGTAAA
1 AGGGTAAAACGGTAATTCTGTAAA
57858839 TTGGGAGTAC
Statistics
Matches: 695, Mismatches: 62, Indels: 46
0.87 0.08 0.06
Matches are distributed among these distances:
25 2 0.00
26 12 0.02
27 666 0.96
28 13 0.02
29 2 0.00
ACGTcount: A:0.39, C:0.10, G:0.24, T:0.27
Consensus pattern (27 bp):
AGGGTAAAACGGTAATTCTGTAAACTG
Found at i:57860869 original size:6 final size:6
Alignment explanation
Indices: 57860858--57861044 Score: 163
Period size: 6 Copynumber: 30.8 Consensus size: 6
57860848 AACCAAAATG
* *
57860858 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AAAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
57860906 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * *
57860955 AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-A AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
* *
57861003 AGAATC AGAATC AGAATT ACGTGA-C AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAAT
57861045 GTGAATGCAA
Statistics
Matches: 149, Mismatches: 16, Indels: 32
0.76 0.08 0.16
Matches are distributed among these distances:
5 11 0.07
6 125 0.84
7 10 0.07
8 3 0.02
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:57860873 original size:30 final size:30
Alignment explanation
Indices: 57860837--57861044 Score: 218
Period size: 30 Copynumber: 7.1 Consensus size: 30
57860827 AAGAAACATT
* *
57860837 ATCAGAATT-GGAACCAAAATGAGAATCAGA
1 ATCAGAATTAGGAA-CAGAATCAGAATCAGA
* * *
57860867 ATCAGAATCAGTAACAGAATCAGAATCAAA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
*
57860897 ATCA-ATATTAGTAACAGAATCAGAATCAGA
1 ATCAGA-ATTAGGAACAGAATCAGAATCAGA
*
57860927 ATCAGAATTAGGTGACAGAATCAGAATCAGA
1 ATCAGAATTAGG-AACAGAATCAGAATCAGA
57860958 ATCAG---T---AACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
* * *
57860982 ATCAGTATTAGTAAAAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
57861012 ATCAGAATTACGTG-ACAGAATCAGAATCAGA
1 ATCAGAATTA-G-GAACAGAATCAGAATCAGA
57861043 AT
1 AT
57861045 GTGAATGCAA
Statistics
Matches: 152, Mismatches: 14, Indels: 23
0.80 0.07 0.12
Matches are distributed among these distances:
24 22 0.14
27 1 0.01
28 1 0.01
29 1 0.01
30 82 0.54
31 45 0.30
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (30 bp):
ATCAGAATTAGGAACAGAATCAGAATCAGA
Found at i:57860958 original size:85 final size:85
Alignment explanation
Indices: 57860858--57861044 Score: 338
Period size: 85 Copynumber: 2.2 Consensus size: 85
57860848 AACCAAAATG
*
57860858 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAAAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAAAATCAATATTAGTAAAAGAATCAGAAT
*
57860923 CAGAATCAGAATTAGGTGAC
66 CAGAATCAGAATTACGTGAC
* *
57860943 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAAAAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAAAATCAATATTAGTAAAAGAATCAGAAT
57861008 CAGAATCAGAATTACGTGAC
66 CAGAATCAGAATTACGTGAC
57861028 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
57861045 GTGAATGCAA
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 98 1.00
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (85 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAAAATCAATATTAGTAAAAGAATCAGAAT
CAGAATCAGAATTACGTGAC
Found at i:57861199 original size:27 final size:26
Alignment explanation
Indices: 57861162--57861227 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
57861152 AGCATGGCTG
*
57861162 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
57861188 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
57861215 CCAGAATCAGATA
1 CCAGAA-CAGATA
57861228 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:57861232 original size:27 final size:27
Alignment explanation
Indices: 57861162--57861235 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
57861152 AGCATGGCTG
* *
57861162 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
57861188 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
57861215 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
57861236 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:57861242 original size:27 final size:27
Alignment explanation
Indices: 57861186--57861243 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
57861176 GTGACAGAGT
* * *
57861186 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
57861213 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
57861240 CACC
1 CACC
57861244 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:57861448 original size:22 final size:22
Alignment explanation
Indices: 57861400--57861458 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
57861390 GTAAATACGT
*
57861400 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
57861422 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
57861444 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
57861459 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:57861614 original size:27 final size:26
Alignment explanation
Indices: 57861546--57861628 Score: 96
Period size: 27 Copynumber: 3.1 Consensus size: 26
57861536 TCGATCGGTC
* * *
57861546 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
57861572 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
57861599 AACAGATATTTATGGC-GTAGCCACCAG
1 AACAGATA-TTGTGGCAG-AGCCACCAG
57861626 AAC
1 AAC
57861629 GCTTCCTCCG
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
26 9 0.18
27 41 0.82
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:57861865 original size:27 final size:27
Alignment explanation
Indices: 57861829--57862015 Score: 225
Period size: 27 Copynumber: 6.9 Consensus size: 27
57861819 GGCAAAATGG
* * *
57861829 TAATTTTACCCCACAAGGGTATCTCGA
1 TAATTCTACCCTACAAGGGTATTTCGA
*
57861856 TATTTCTACCCTACAAGGGTATTTCGA
1 TAATTCTACCCTACAAGGGTATTTCGA
*
57861883 TAATTCTACCCTACAGGGGTATTTCGA
1 TAATTCTACCCTACAAGGGTATTTCGA
* * *
57861910 TAATTCTACCCTACAGGGGTATTTTGG
1 TAATTCTACCCTACAAGGGTATTTCGA
* *
57861937 TAATTCTATCCTATAAGGGTATTTC-A
1 TAATTCTACCCTACAAGGGTATTTCGA
* *
57861963 GTAATTCTACCCTATAGGGGTATTTCAGA
1 -TAATTCTACCCTACAAGGGTATTTC-GA
*
57861992 -AATTCTACCCTACAGGGGTATTTC
1 TAATTCTACCCTACAAGGGTATTTC
57862016 AGTAATTTCA
Statistics
Matches: 141, Mismatches: 16, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
27 140 0.99
29 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (27 bp):
TAATTCTACCCTACAAGGGTATTTCGA
Found at i:57861930 original size:81 final size:82
Alignment explanation
Indices: 57861829--57862012 Score: 248
Period size: 81 Copynumber: 2.3 Consensus size: 82
57861819 GGCAAAATGG
* * * *
57861829 TAATTTTACCCCACAAGGGTATCTCGATATTTCTACCCTACAAGGGTATTTC-GATAATTCTACC
1 TAATTCTACCCTACAGGGGTATCTCGATAATTCTACCCTACAAGGGTATTTCAG-TAATTCTACC
57861893 CTACAGGGGTATTTC-GA
65 CTACAGGGGTATTTCAGA
* * * * *
57861910 TAATTCTACCCTACAGGGGTATTTTGGTAATTCTATCCTATAAGGGTATTTCAGTAATTCTACCC
1 TAATTCTACCCTACAGGGGTATCTCGATAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCC
*
57861975 TATAGGGGTATTTCAGA
66 TACAGGGGTATTTCAGA
57861992 -AATTCTACCCTACAGGGGTAT
1 TAATTCTACCCTACAGGGGTAT
57862013 TTCAGTAATT
Statistics
Matches: 91, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
81 88 0.97
82 3 0.03
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (82 bp):
TAATTCTACCCTACAGGGGTATCTCGATAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCC
TACAGGGGTATTTCAGA
Found at i:57862013 original size:81 final size:81
Alignment explanation
Indices: 57861859--57862014 Score: 253
Period size: 81 Copynumber: 1.9 Consensus size: 81
57861849 ATCTCGATAT
57861859 TTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTAC
1 TTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTAC
57861924 AGGGGTATTTTGGTAA
66 AGGGGTATTTTGGTAA
* * *
57861940 TTCTATCCTATAAGGGTATTTC-AGTAATTCTACCCTATAGGGGTATTTCAGA-AATTCTACCCT
1 TTCTACCCTACAAGGGTATTTCGA-TAATTCTACCCTACAGGGGTATTTC-GATAATTCTACCCT
57862003 ACAGGGGTATTT
64 ACAGGGGTATTT
57862015 CAGTAATTTC
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
80 1 0.01
81 67 0.96
82 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (81 bp):
TTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTAC
AGGGGTATTTTGGTAA
Found at i:57862067 original size:27 final size:27
Alignment explanation
Indices: 57862033--57862807 Score: 895
Period size: 27 Copynumber: 28.9 Consensus size: 27
57862023 TCACAATCAA
*
57862033 GGTAAAACAGTAATTCTGTAAATCGAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
** *
57862060 GGTAAAACAATAATTTTGTAAA-CTGA-
1 GGTAAAACGGTAATTCTGTAAATC-GAG
* * *
57862086 GGTAAACCAGTAATTCTGTAAATCAAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
* * **
57862113 AGTAAAACGGTAATTTTACAAATCGAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
57862140 GGTAAAACGGTAATTCTGTAAATCGAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
* * *
57862167 GTTAAAACAGTAATTCTATAAA-CTGAG
1 GGTAAAACGGTAATTCTGTAAATC-GAG
57862194 GGTAAAACGGTAATTCTGTAAATCGAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
* *
57862221 GGTAAAACAGTAATTCTGTAAATTGAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
57862248 GGTAAAACGGTAATTCTGTAAAT----
1 GGTAAAACGGTAATTCTGTAAATCGAG
* *
57862271 -GTAAAACGGTAATCCTGTAAA-CTAAG
1 GGTAAAACGGTAATTCTGTAAATC-GAG
*
57862297 GGTAAAACGATAATTCTGTAAA-CTGAG
1 GGTAAAACGGTAATTCTGTAAATC-GAG
* *
57862324 GGTAAAATGGTAATTCTATAAATCGAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
* *
57862351 GGAAAAACGGTAATTCTATAAATCGAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
57862378 GGTAAAACGGTAATTCTGTAAA-CTGAG
1 GGTAAAACGGTAATTCTGTAAATC-GAG
57862405 GGTAAAACGGTAATTCTGTAAA-CTGAG
1 GGTAAAACGGTAATTCTGTAAATC-GAG
*
57862432 GGTAAAACGATAATTCTGTAAA-CTGAG
1 GGTAAAACGGTAATTCTGTAAATC-GAG
* * * * *
57862459 GGTAAAACGATAATTTTATAAATCAAT
1 GGTAAAACGGTAATTCTGTAAATCGAG
* *
57862486 GGTAAAATGATAATTCTGTAAA-CTGAG
1 GGTAAAACGGTAATTCTGTAAATC-GAG
*
57862513 GGTAAAACGATAATTCTGTAAA-CTGAG
1 GGTAAAACGGTAATTCTGTAAATC-GAG
* *
57862540 GGTAAAATGGTAATTCTATAAATCGAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
* *
57862567 GGTAAAACTGTAATTCTGTAAATTGAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
*
57862594 GGTAAAACAGTAATTCTGTAAATCGAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
* * *
57862621 GGTAAAATGGTAATTTTGTAAA-CTGAT
1 GGTAAAACGGTAATTCTGTAAATC-GAG
*
57862648 GGTAAAACGGTAATTTTGTAAA-CTGAG
1 GGTAAAACGGTAATTCTGTAAATC-GAG
*
57862675 GGTAAAACGATAATTCTGTAAATCGAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
57862702 GGTAAAACGGTAATTCTGTAAA-CTGAG
1 GGTAAAACGGTAATTCTGTAAATC-GAG
57862729 GGTAAAACGGTAATTCTGTAAATCGAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
* *
57862756 GGTAAAACAGTAATTCTGTAAA-CTGAA
1 GGTAAAACGGTAATTCTGTAAATC-GAG
*
57862783 GGTAAAATGGTAATTCTGTAAATCG
1 GGTAAAACGGTAATTCTGTAAATCG
57862808 GGAGTACTTT
Statistics
Matches: 656, Mismatches: 70, Indels: 44
0.85 0.09 0.06
Matches are distributed among these distances:
22 20 0.03
26 27 0.04
27 602 0.92
28 7 0.01
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (27 bp):
GGTAAAACGGTAATTCTGTAAATCGAG
Found at i:57862288 original size:22 final size:22
Alignment explanation
Indices: 57862249--57862291 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
57862239 TAAATTGAGG
*
57862249 GTAAAACGGTAATTCTGTAAAT
1 GTAAAACGGTAATCCTGTAAAT
57862271 GTAAAACGGTAATCCTGTAAA
1 GTAAAACGGTAATCCTGTAAA
57862292 CTAAGGGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.28
Consensus pattern (22 bp):
GTAAAACGGTAATCCTGTAAAT
Found at i:57864836 original size:6 final size:6
Alignment explanation
Indices: 57864825--57864981 Score: 137
Period size: 6 Copynumber: 25.8 Consensus size: 6
57864815 AACAAAAATG
* *
57864825 AGAATC AGAATC AGAATC AGTAA-C AGAGTC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
57864873 AGTAA-C AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAATC AGTAA-C
1 AG-AATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AG-AATC
* * *
57864922 AGAATC AGAATC AGAATC AGAATC AGACTC AGAATT ACGTGA-C AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
57864971 AGAATC AGAAT
1 AGAATC AGAAT
57864982 GTGAATGCAA
Statistics
Matches: 123, Mismatches: 14, Indels: 28
0.75 0.08 0.17
Matches are distributed among these distances:
5 8 0.07
6 103 0.84
7 9 0.07
8 3 0.02
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:57864856 original size:24 final size:24
Alignment explanation
Indices: 57864825--57864956 Score: 160
Period size: 24 Copynumber: 5.5 Consensus size: 24
57864815 AACAAAAATG
57864825 AGAATCAGAATCAGAATCAGTAAC
1 AGAATCAGAATCAGAATCAGTAAC
* * **
57864849 AGAGTCAGAATCAGAATCAATATT
1 AGAATCAGAATCAGAATCAGTAAC
* *
57864873 AGTAA-CAGAATCAGAATTAGGTGAC
1 AG-AATCAGAATCAGAATCA-GTAAC
57864898 AGAATCAGAATCAGAATCAGTAAC
1 AGAATCAGAATCAGAATCAGTAAC
57864922 AGAATCAGAATCAGAATCAG-AATC
1 AGAATCAGAATCAGAATCAGTAA-C
*
57864946 AGACTCAGAAT
1 AGAATCAGAAT
57864957 TACGTGACAG
Statistics
Matches: 91, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
23 2 0.02
24 72 0.79
25 17 0.19
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (24 bp):
AGAATCAGAATCAGAATCAGTAAC
Found at i:57864881 original size:18 final size:19
Alignment explanation
Indices: 57864860--57864908 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
57864850 GAGTCAGAAT
57864860 CAGAATCA-ATATTA-GTAA
1 CAGAATCAGA-ATTAGGTAA
*
57864878 CAGAATCAGAATTAGGTGA
1 CAGAATCAGAATTAGGTAA
57864897 CAGAATCAGAAT
1 CAGAATCAGAAT
57864909 CAGAATCAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 12 0.43
19 16 0.57
ACGTcount: A:0.47, C:0.12, G:0.18, T:0.22
Consensus pattern (19 bp):
CAGAATCAGAATTAGGTAA
Found at i:57864905 original size:43 final size:42
Alignment explanation
Indices: 57864836--57864981 Score: 170
Period size: 43 Copynumber: 3.4 Consensus size: 42
57864826 GAATCAGAAT
* **
57864836 CAGAATCAGTAA-CAGAGTCAGAATCAGAATCAATATTAGTAA
1 CAGAATCAG-AATCAGAATCAGAATCAGAATCAGAATTAGTAA
* * *
57864878 CAGAATCAGAATTAG-GTGACAGAATCAGAATCAGAATCAGTAA
1 CAGAATCAGAATCAGAAT--CAGAATCAGAATCAGAATTAGTAA
* *
57864921 CAGAATCAGAATCAGAATCAGAATCAGACTCAGAATTACGTGA
1 CAGAATCAGAATCAGAATCAGAATCAGAATCAGAATTA-GTAA
57864964 CAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
57864982 GTGAATGCAA
Statistics
Matches: 90, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
41 4 0.04
42 29 0.32
43 56 0.62
44 1 0.01
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.19
Consensus pattern (42 bp):
CAGAATCAGAATCAGAATCAGAATCAGAATCAGAATTAGTAA
Found at i:57864908 original size:67 final size:67
Alignment explanation
Indices: 57864825--57864981 Score: 224
Period size: 73 Copynumber: 2.3 Consensus size: 67
57864815 AACAAAAATG
* *
57864825 AGAATCAGAATCAGAATCAGTAACAGAGTCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATC-AGA--A-T--CAGAATCAGAAT
*
57864890 TAGGTGAC
60 TACGTGAC
*
57864898 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGAATCAGACTCAGAATTACGTG
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGAATCAGAATCAGAATTACGTG
57864963 AC
66 AC
57864965 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
57864982 GTGAATGCAA
Statistics
Matches: 80, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
67 35 0.44
69 1 0.01
70 1 0.01
72 2 0.03
73 41 0.51
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.19
Consensus pattern (67 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGAATCAGAATCAGAATTACGTG
AC
Found at i:57865166 original size:27 final size:27
Alignment explanation
Indices: 57865099--57865172 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 27
57865089 AGCATGGCTG
* *
57865099 CCAGAAT-AGATATCGTGACAGAGTCC
1 CCAGAATCAGATATTGTGGCAGAGTCC
57865125 CCAG-ATACAGATATTGTGGCAGAG-CC
1 CCAGAAT-CAGATATTGTGGCAGAGTCC
57865151 ACCAGAATCAGATATTGTGGCA
1 -CCAGAATCAGATATTGTGGCA
57865173 AACCCACCTA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
25 2 0.05
26 6 0.14
27 32 0.76
28 2 0.05
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (27 bp):
CCAGAATCAGATATTGTGGCAGAGTCC
Found at i:57865385 original size:22 final size:22
Alignment explanation
Indices: 57865337--57865395 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
57865327 GTAAATACGT
*
57865337 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
57865359 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
57865381 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
57865396 TAATAATGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:57865562 original size:27 final size:26
Alignment explanation
Indices: 57865483--57865565 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
57865473 TCGATCGGTC
* * *
57865483 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
57865509 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
57865536 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
57865563 AAC
1 AAC
57865566 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:57865795 original size:27 final size:27
Alignment explanation
Indices: 57865765--57865949 Score: 196
Period size: 27 Copynumber: 6.9 Consensus size: 27
57865755 GGCAAAATGG
* * *
57865765 TAATTTTACCCCACAAGGGTATCTCGA
1 TAATTCTACCCTACAAGGGTATTTCGA
* *
57865792 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCGA
*
57865819 TATTTCTACCCTACAAGGGTATTTCGA
1 TAATTCTACCCTACAAGGGTATTTCGA
* * *
57865846 TAATTCTACCCTACAGGGGTATTTTGG
1 TAATTCTACCCTACAAGGGTATTTCGA
* * *
57865873 TAATTCTATCCTATAAGGGTATTT-AA
1 TAATTCTACCCTACAAGGGTATTTCGA
* *
57865899 GTAATTCTACCCTATAGGGGTATTTCAGA
1 -TAATTCTACCCTACAAGGGTATTTC-GA
*
57865928 -AATTCTACCCTA-TAGGGTATTT
1 TAATTCTACCCTACAAGGGTATTT
57865950 TAGTAATTTC
Statistics
Matches: 133, Mismatches: 22, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
26 8 0.06
27 124 0.93
29 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.36
Consensus pattern (27 bp):
TAATTCTACCCTACAAGGGTATTTCGA
Found at i:57865865 original size:54 final size:54
Alignment explanation
Indices: 57865763--57865949 Score: 243
Period size: 54 Copynumber: 3.5 Consensus size: 54
57865753 GGGGCAAAAT
* * *
57865763 GGTAATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTC
* *
57865817 GGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTC
* * * *
57865871 GGTAATTCTATCCTATAAGGGTATTT-AAGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGA-TAATTCTACCCTACAGGGGTATTTC
* * *
57865925 AGAAATTCTACCCTA-TAGGGTATTT
1 GGTAATTCTACCCTACAAGGGTATTT
57865950 TAGTAATTTC
Statistics
Matches: 117, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
53 10 0.09
54 107 0.91
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTC
Found at i:57865907 original size:81 final size:81
Alignment explanation
Indices: 57865765--57865957 Score: 219
Period size: 81 Copynumber: 2.4 Consensus size: 81
57865755 GGCAAAATGG
* * * * * * ** *
57865765 TAATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCC
1 TAATTCTACCCTAC-AGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTAAGTAATTCTACCC
57865830 TACAAGGGTATTTC-GA
65 TACAAGGGTATTTCAGA
* *
57865846 TAATTCTACCCTACAGGGGTATTTTGGTAATTCTATCCTATAAGGGTATTTAAGTAATTCTACCC
1 TAATTCTACCCTACA-GGGTATTTTGGTAATTCTACCCTACAAGGGTATTTAAGTAATTCTACCC
* *
57865911 TATAGGGGTATTTCAGA
65 TACAAGGGTATTTCAGA
* *
57865928 -AATTCTACCCTATAGGGTATTTTAGTAATT
1 TAATTCTACCCTACAGGGTATTTTGGTAATT
57865958 TCACAATTAA
Statistics
Matches: 95, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
80 16 0.17
81 77 0.81
82 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (81 bp):
TAATTCTACCCTACAGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTAAGTAATTCTACCCT
ACAAGGGTATTTCAGA
Found at i:57865999 original size:27 final size:27
Alignment explanation
Indices: 57865967--57866370 Score: 491
Period size: 27 Copynumber: 15.0 Consensus size: 27
57865957 TTCACAATTA
*
57865967 AGGGTAAAATGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* *
57865994 AGGGTAAAACGATAATTTTGTAAA-CTG
1 AGGGTAAAACGGTAATTCTGTAAATC-G
* * *
57866021 AGGGTAAACCAGTAATTCTGTAAATCA
1 AGGGTAAAACGGTAATTCTGTAAATCG
* * **
57866048 AGGGTAAAACAGTAATTTTACAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
57866075 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* *
57866102 AGGGTAAAACAGTAATTCTATAAA-CTG
1 AGGGTAAAACGGTAATTCTGTAAATC-G
*
57866129 AGGGTAAAACGGTAATTCTATAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* *
57866156 AGGTTAAAACAGTAATTCTGTAAA-CTG
1 AGGGTAAAACGGTAATTCTGTAAATC-G
57866183 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
*
57866210 A-GGTAAAACAGTAATTCTGTAAA-CTG
1 AGGGTAAAACGGTAATTCTGTAAATC-G
*
57866236 AGGGTAAAACGGTAATTCTATAAA-CTG
1 AGGGTAAAACGGTAATTCTGTAAATC-G
57866263 AGGGTAAAACGGTAATTCTGTAAA-CTG
1 AGGGTAAAACGGTAATTCTGTAAATC-G
*
57866290 TGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* *
57866317 AGGGTAAAACAGTAATTCTGTAAA-CTA
1 AGGGTAAAACGGTAATTCTGTAAATC-G
**
57866344 AGGGTAAAATAGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
57866371 GGAGTACTTT
Statistics
Matches: 331, Mismatches: 35, Indels: 22
0.85 0.09 0.06
Matches are distributed among these distances:
25 1 0.00
26 27 0.08
27 298 0.90
28 5 0.02
ACGTcount: A:0.40, C:0.11, G:0.22, T:0.27
Consensus pattern (27 bp):
AGGGTAAAACGGTAATTCTGTAAATCG
Found at i:57866387 original size:54 final size:54
Alignment explanation
Indices: 57865967--57866370 Score: 602
Period size: 54 Copynumber: 7.5 Consensus size: 54
57865957 TTCACAATTA
* *
57865967 AGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAAC-GATAATTTTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAG-TAATTCTGTAAACTG
* * * *
57866021 AGGGTAAACCAGTAATTCTGTAAATCAAGGGTAAAACAGTAATT-T-TACAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTA-AACT-G
*
57866075 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTG
* *
57866129 AGGGTAAAACGGTAATTCTATAAATCGAGGTTAAAACAGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTG
57866183 AGGGTAAAACGGTAATTCTGTAAATCGA-GGTAAAACAGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTG
* *
57866236 AGGGTAAAACGGTAATTCTATAAA-CTGAGGGTAAAACGGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAACAGTAATTCTGTAAACTG
* *
57866290 TGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTA
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTG
**
57866344 AGGGTAAAATAGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
57866371 GGAGTACTTT
Statistics
Matches: 319, Mismatches: 23, Indels: 16
0.89 0.06 0.04
Matches are distributed among these distances:
52 3 0.01
53 53 0.17
54 255 0.80
55 6 0.02
56 2 0.01
ACGTcount: A:0.40, C:0.11, G:0.22, T:0.27
Consensus pattern (54 bp):
AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTG
Found at i:57871562 original size:47 final size:47
Alignment explanation
Indices: 57871503--57871624 Score: 226
Period size: 47 Copynumber: 2.6 Consensus size: 47
57871493 GCATTGGCAC
57871503 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
57871550 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
57871597 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
57871625 CGAAGGCATG
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:57871744 original size:55 final size:54
Alignment explanation
Indices: 57871611--57871798 Score: 193
Period size: 55 Copynumber: 3.5 Consensus size: 54
57871601 ATAAGGATAT
* * * * *
57871611 CATGTAAGACCATGCGAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGGAAT
1 CATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGAAAAGGAAC
* * **
57871665 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTCC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATGAGTT-CTATAAGGAAAAGGAAC
* *
57871720 CATGTAAGACCGTGCCAAGGCATGGCATT-AGTGAGTTC-ATAAGG-AAACGATAC
1 CATGTAAGACCATGCCAAGGCATGGCATTGA-TGAGTTCTATAAGGAAAAGGA-AC
* * * *
57871773 GATGCAAGACCATGTCAAGACATGGC
1 CATGTAAGACCATGCCAAGGCATGGC
57871799 GATGGTAAGT
Statistics
Matches: 111, Mismatches: 20, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
52 4 0.04
53 28 0.25
54 35 0.32
55 44 0.40
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.21
Consensus pattern (54 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGAAAAGGAAC
Found at i:57871932 original size:16 final size:17
Alignment explanation
Indices: 57871913--57871945 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
57871903 CTTATTTAAT
*
57871913 ATTGATATTAT-AAGTA
1 ATTGAGATTATCAAGTA
57871929 ATTGAGATTATCAAGTA
1 ATTGAGATTATCAAGTA
57871946 TTAAGTAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.39
Consensus pattern (17 bp):
ATTGAGATTATCAAGTA
Found at i:57877705 original size:47 final size:47
Alignment explanation
Indices: 57877586--57877706 Score: 197
Period size: 47 Copynumber: 2.6 Consensus size: 47
57877576 CATTGGCACC
* *
57877586 AAGACAAGGATACCATGTAAGACAATGTTTGGAACATGGCATTTGGT
1 AAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGGT
*
57877633 AAGACAAGGATACCATGTAAAACCATGTTTGGAACATGACATTTGGT
1 AAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGGT
* *
57877680 AAGATAAGGATATCATGTAAGACCATG
1 AAGACAAGGATACCATGTAAGACCATG
57877707 CCAAGGCATG
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.25
Consensus pattern (47 bp):
AAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGGT
Found at i:57877911 original size:108 final size:109
Alignment explanation
Indices: 57877705--57877911 Score: 251
Period size: 108 Copynumber: 1.9 Consensus size: 109
57877695 TGTAAGACCA
* *
57877705 TGCCAAGGCATGCCATTGATAAGTTCTATAAAGCATGGAAATCATGTAAGACCATGTCAAGACAT
1 TGCCAAGGCATGCCATTGATAAGTTCTATAAAGCAAGGAAATCATGCAAGACCATGTCAAGACAT
* * * *
57877770 GGCATTGATGAGTTACTATAAGGAAAATGTCCCATATAAAACCG
66 GGCAATGATAAGTTACTAAAAGGAAAAGGTCCCATATAAAACCG
* * * * *
57877814 TGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGATA-CGATGCAAGACCATGTCAAGACA
1 TGCCAAGGCATGCCATTGATAAGTTCTATAAAGCAAGGAAATC-ATGCAAGACCATGTCAAGACA
*
57877877 TGGCAATGGTAAGTT-C-AAAATGGAAAAGGATCCCA
65 TGGCAATGATAAGTTACTAAAA-GGAAAAGG-TCCCA
57877912 AGTAATCCAA
Statistics
Matches: 83, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
106 3 0.04
107 9 0.11
108 48 0.58
109 23 0.28
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (109 bp):
TGCCAAGGCATGCCATTGATAAGTTCTATAAAGCAAGGAAATCATGCAAGACCATGTCAAGACAT
GGCAATGATAAGTTACTAAAAGGAAAAGGTCCCATATAAAACCG
Found at i:57882181 original size:30 final size:30
Alignment explanation
Indices: 57882147--57882243 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
57882137 AGCTCACTCC
57882147 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
57882177 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
57882207 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
57882237 TAGCTCA
1 TAGCTCA
57882244 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:57884993 original size:37 final size:37
Alignment explanation
Indices: 57884942--57885012 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
57884932 CATTCTTGTA
57884942 AAGAGAAAACAAAGAAAA-GAAAAGAAAAAGAAAAAGC
1 AAGAGAAAACAAAGAAAATG-AAAGAAAAAGAAAAAGC
*
57884979 AAGAGAAGAA-AAAGAAAATGAAATAAAAAGAAAA
1 AAGAGAA-AACAAAGAAAATGAAAGAAAAAGAAAA
57885013 GAGAGGCAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 28 0.90
38 3 0.10
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (37 bp):
AAGAGAAAACAAAGAAAATGAAAGAAAAAGAAAAAGC
Found at i:57885012 original size:6 final size:6
Alignment explanation
Indices: 57884952--57885001 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
57884942 AAGAGAAAAC
*
57884952 AAAG-A AAAG-A AAAGAA AAAGAA AAAGCAA GAGAAGAA AAAGAA AATGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAG-AA -A-AAGAA AAAGAA AAAGAA
57885001 A
1 A
57885002 TAAAAAGAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
5 9 0.22
6 22 0.55
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (6 bp):
AAAGAA
Found at i:57885094 original size:11 final size:12
Alignment explanation
Indices: 57885062--57885092 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
57885052 TTGAGAGAAC
57885062 TTGAAAAAGCCT
1 TTGAAAAAGCCT
57885074 TTGAAAAAGCCT
1 TTGAAAAAGCCT
57885086 TTGAAAA
1 TTGAAAA
57885093 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:57887306 original size:30 final size:30
Alignment explanation
Indices: 57887272--57887368 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
57887262 AGCTCACTCC
57887272 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
57887302 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
57887332 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
57887362 TAGCTCA
1 TAGCTCA
57887369 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:57889279 original size:39 final size:39
Alignment explanation
Indices: 57889234--57889510 Score: 473
Period size: 39 Copynumber: 7.1 Consensus size: 39
57889224 AAGCAAGACA
*
57889234 CTGGAAATGTATCCAGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
57889273 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
*
57889312 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
57889351 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
57889390 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
* * *
57889429 CTAGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGCG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
* ** *
57889468 CTGGAAATGTATCCGAGCTAAAGTTCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
57889507 CTGG
1 CTGG
57889511 TAATATAATT
Statistics
Matches: 227, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 227 1.00
ACGTcount: A:0.23, C:0.25, G:0.30, T:0.22
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
Found at i:57906518 original size:39 final size:40
Alignment explanation
Indices: 57906314--57906536 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
57906304 TTGAATGCTG
* * * * * *
57906314 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
57906354 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
57906394 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
57906434 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
57906474 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
57906513 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
57906537 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:57906556 original size:79 final size:80
Alignment explanation
Indices: 57906389--57906571 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
57906379 GTGCGAGATA
* * *
57906389 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
57906454 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
57906469 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
57906533 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
57906548 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
57906572 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:57912645 original size:39 final size:40
Alignment explanation
Indices: 57912441--57912663 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
57912431 TTGAATGCTG
* * * * * *
57912441 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
57912481 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
57912521 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
57912561 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
57912601 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
57912640 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
57912664 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:57912683 original size:79 final size:80
Alignment explanation
Indices: 57912516--57912698 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
57912506 GTGCGAGATA
* * *
57912516 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
57912581 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
57912596 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
57912660 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
57912675 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
57912699 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:57925025 original size:8 final size:8
Alignment explanation
Indices: 57925012--57925042 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
57925002 AAGAACAAGA
57925012 AAAGAAAC
1 AAAGAAAC
57925020 AAAGAAAC
1 AAAGAAAC
57925028 AAAGAAAC
1 AAAGAAAC
57925036 AAAGAAA
1 AAAGAAA
57925043 AAAAAACGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.77, C:0.10, G:0.13, T:0.00
Consensus pattern (8 bp):
AAAGAAAC
Found at i:57925922 original size:41 final size:41
Alignment explanation
Indices: 57925875--57925961 Score: 149
Period size: 41 Copynumber: 2.1 Consensus size: 41
57925865 GTGAGCTTAC
*
57925875 ATGAGCTGGTGTAGAGTACTCTGAGGT-ATCTTGAGCTGAAG
1 ATGAGCTGGTGTAGAGTACTCTGAGCTGA-CTTGAGCTGAAG
57925916 ATGAGCTGGTGTAGAGTACTCTGAGCTGACTTGAGCTGAAG
1 ATGAGCTGGTGTAGAGTACTCTGAGCTGACTTGAGCTGAAG
57925957 ATGAG
1 ATGAG
57925962 TTGCATATAC
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
41 43 0.98
42 1 0.02
ACGTcount: A:0.25, C:0.13, G:0.34, T:0.28
Consensus pattern (41 bp):
ATGAGCTGGTGTAGAGTACTCTGAGCTGACTTGAGCTGAAG
Found at i:57931471 original size:41 final size:41
Alignment explanation
Indices: 57931423--57931503 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 41
57931413 CTGACATGTG
*
57931423 CTGGTGTAGAGTACTCTAAGCT-ATCTTGAGCTGAAGATGAC
1 CTGGTGTAGAGTACTCTAAGCTGA-CTTGAGCTAAAGATGAC
**
57931464 CTGGTGTAGAGTACTCTGTGCTGACTTGAGCTAAAGATGA
1 CTGGTGTAGAGTACTCTAAGCTGACTTGAGCTAAAGATGA
57931504 GCTGCATATA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 35 0.97
42 1 0.03
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (41 bp):
CTGGTGTAGAGTACTCTAAGCTGACTTGAGCTAAAGATGAC
Found at i:57943348 original size:25 final size:24
Alignment explanation
Indices: 57943316--57943367 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
57943306 GGTTCAAGCA
* *
57943316 AGCCATATTAGGAAGCTCAAAAAG
1 AGCCATATCAAGAAGCTCAAAAAG
* *
57943340 AGCCTATATCAAGACGCTCATAAAG
1 AGCC-ATATCAAGAAGCTCAAAAAG
57943365 AGC
1 AGC
57943368 TGCGTTTGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.17
Consensus pattern (24 bp):
AGCCATATCAAGAAGCTCAAAAAG
Found at i:57948875 original size:31 final size:31
Alignment explanation
Indices: 57948828--57948913 Score: 138
Period size: 31 Copynumber: 2.8 Consensus size: 31
57948818 TCAAGCTCAG
*
57948828 CATAT-ACTGGGTCGAAGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
**
57948858 CATATCACTGGGCCGAAGCCTTTTTATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
57948889 CATATCACTGGGCCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
57948914 TGTAAAAATA
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 5 0.10
31 45 0.90
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.34
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:57949173 original size:26 final size:25
Alignment explanation
Indices: 57949135--57949201 Score: 107
Period size: 26 Copynumber: 2.6 Consensus size: 25
57949125 TTTAATAACC
*
57949135 GGGGCAAAGCCCTTTTTGATAAACT
1 GGGGCAAAGCCCTTTTCGATAAACT
*
57949160 GGGGCAAAAGCCCTTTTCGGTAAACT
1 GGGGC-AAAGCCCTTTTCGATAAACT
57949186 GGGGCAAAGCCCTTTT
1 GGGGCAAAGCCCTTTT
57949202 GCACTTCCTC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
25 16 0.41
26 23 0.59
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (25 bp):
GGGGCAAAGCCCTTTTCGATAAACT
Found at i:57949176 original size:25 final size:24
Alignment explanation
Indices: 57949118--57949202 Score: 100
Period size: 25 Copynumber: 3.4 Consensus size: 24
57949108 CTGAAGGCCT
* *
57949118 AGCCTCTTTTAAT-AACCGGGGCAA
1 AGCC-CTTTTGATAAACTGGGGCAA
57949142 AGCCCTTTTTGATAAACTGGGGCAAA
1 AGCCC-TTTTGATAAACTGGGGC-AA
*
57949168 AGCCCTTTTCGGTAAACTGGGGCAA
1 AGCCCTTTT-GATAAACTGGGGCAA
57949193 AGCCCTTTTG
1 AGCCCTTTTG
57949203 CACTTCCTCC
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
23 1 0.02
24 11 0.20
25 23 0.43
26 19 0.35
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.27
Consensus pattern (24 bp):
AGCCCTTTTGATAAACTGGGGCAA
Found at i:57951769 original size:93 final size:93
Alignment explanation
Indices: 57951610--57951781 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
57951600 CGCCCATAAG
* * * *
57951610 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
57951675 ACGAGTTTGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * *
57951703 CGAACTCAGACTCAACTCAACGGGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
57951768 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
57951782 TCAACCATCC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:57951778 original size:46 final size:46
Alignment explanation
Indices: 57951603--57951778 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
57951593 TGTAACCCGC
* * * *
57951603 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * * * *
57951649 CCATGAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
* * *
57951699 -C-TCA-CGAACTCAGACTCAACTCAACGGGTTCGGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
*
57951742 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
57951779 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 59 0.57
47 26 0.25
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:57955699 original size:16 final size:17
Alignment explanation
Indices: 57955670--57955715 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
57955660 ATAATTTTTA
*
57955670 TTTATTTTTATTTCATC
1 TTTATTTATATTTCATC
*
57955687 TTTATTTAT-TTTCATG
1 TTTATTTATATTTCATC
*
57955703 TCTATTTATATTT
1 TTTATTTATATTT
57955716 ATGTTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.20, C:0.09, G:0.02, T:0.70
Consensus pattern (17 bp):
TTTATTTATATTTCATC
Found at i:57956829 original size:26 final size:26
Alignment explanation
Indices: 57956800--57956907 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
57956790 TGATACAAAT
57956800 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
57956826 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
57956852 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
57956878 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
57956904 TGAT
1 TGAT
57956908 GGGAATTTCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:57958547 original size:27 final size:27
Alignment explanation
Indices: 57958517--57958712 Score: 184
Period size: 27 Copynumber: 7.3 Consensus size: 27
57958507 GGAGGAAGCG
* *
57958517 TCTGGTGGTTATGCCACAATTGTCTGA
1 TCTGGTGGCTATGCCACAATTATCTGA
* * *
57958544 TCTGGTGGCTTTGCCAC-ATATATTTGT
1 TCTGGTGGCTATGCCACAAT-TATCTGA
**
57958571 TCTGGTGGCTATGCCATGATTATCTGA
1 TCTGGTGGCTATGCCACAATTATCTGA
* *
57958598 TCTGGTGGCTCTGCCAC-ATATATCTGT
1 TCTGGTGGCTATGCCACAAT-TATCTGA
*
57958625 TCTGGTGGCTATGCCACGATTATCTGA
1 TCTGGTGGCTATGCCACAATTATCTGA
* * * *
57958652 TTTGGTGGCTCTGCCAC-ATATATATGT
1 TCTGGTGGCTATGCCACAAT-TATCTGA
* *
57958679 TCTGGTGGCTCTGCCACAA-TATCTATA
1 TCTGGTGGCTATGCCACAATTATCT-GA
57958706 TCTGGTG
1 TCTGGTG
57958713 ACTTCGTCAC
Statistics
Matches: 140, Mismatches: 22, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
26 10 0.07
27 125 0.89
28 5 0.04
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.38
Consensus pattern (27 bp):
TCTGGTGGCTATGCCACAATTATCTGA
Found at i:57958599 original size:54 final size:54
Alignment explanation
Indices: 57958517--57958712 Score: 277
Period size: 54 Copynumber: 3.6 Consensus size: 54
57958507 GGAGGAAGCG
* * * * *
57958517 TCTGGTGGTTATGCCACAATTGTCTGATCTGGTGGCTTTGCCACATATATTTGT
1 TCTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATATGT
* *
57958571 TCTGGTGGCTATGCCATGATTATCTGATCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATATGT
*
57958625 TCTGGTGGCTATGCCACGATTATCTGATTTGGTGGCTCTGCCACATATATATGT
1 TCTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATATGT
* * *
57958679 TCTGGTGGCTCTGCCAC-AATATCTATATCTGGTG
1 TCTGGTGGCTATGCCACGATTATCT-GATCTGGTG
57958713 ACTTCGTCAC
Statistics
Matches: 128, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
53 6 0.05
54 122 0.95
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.38
Consensus pattern (54 bp):
TCTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATATGT
Found at i:57958658 original size:81 final size:80
Alignment explanation
Indices: 57958517--57958712 Score: 218
Period size: 81 Copynumber: 2.4 Consensus size: 80
57958507 GGAGGAAGCG
* * * * * *
57958517 TCTGGTGGTTATGCCACAATTGTCTGATCTGGTGGCTTTGCCACATATATTTGTTCTGGTGGCTA
1 TCTGGTGGCTCTGCCACAA-TATCTGTTCTGGTGGCTATGCCACATATATCTGTTCTGGTGGCTA
* *
57958582 TGCCATGAT-TATCTGA
65 TGCCA-CATATATATGA
57958598 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTATGCCACGAT-TATCTGATT-TGGTGGC
1 TCTGGTGGCTCTGCCACA-ATATCTGTTCTGGTGGCTATGCCAC-ATATATCTG-TTCTGGTGGC
* *
57958661 TCTGCCACATATATATGT
63 TATGCCACATATATATGA
*
57958679 TCTGGTGGCTCTGCCACAATATCTATATCTGGTG
1 TCTGGTGGCTCTGCCACAATATCTGT-TCTGGTG
57958713 ACTTCGTCAC
Statistics
Matches: 99, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
80 9 0.09
81 85 0.86
82 5 0.05
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.38
Consensus pattern (80 bp):
TCTGGTGGCTCTGCCACAATATCTGTTCTGGTGGCTATGCCACATATATCTGTTCTGGTGGCTAT
GCCACATATATATGA
Found at i:57978965 original size:15 final size:15
Alignment explanation
Indices: 57978941--57978970 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
57978931 CTAATGTATT
57978941 TTTTGAGGTTTCGGC
1 TTTTGAGGTTTCGGC
*
57978956 TTTTGTGGTTTCGGC
1 TTTTGAGGTTTCGGC
57978971 ACAAGTGTTG
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:0.03, C:0.13, G:0.33, T:0.50
Consensus pattern (15 bp):
TTTTGAGGTTTCGGC
Found at i:57981517 original size:31 final size:31
Alignment explanation
Indices: 57981477--57981560 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
57981467 TTAGTCTTGA
57981477 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
57981507 CATATCACTGGGCTGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
57981538 CATATCATTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
57981561 ACTGTAAACG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
30 5 0.10
31 45 0.90
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:57981631 original size:42 final size:42
Alignment explanation
Indices: 57981584--57981675 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
57981574 TGGCCCTTAG
* ** *
57981584 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
57981626 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
57981668 GCCTATTT
1 GCCCATTT
57981676 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:57981848 original size:25 final size:26
Alignment explanation
Indices: 57981820--57981916 Score: 153
Period size: 25 Copynumber: 3.8 Consensus size: 26
57981810 CCTCTTTAAT
57981820 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
57981845 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
57981870 AACTGGGGCATAAGCCCTTTTTGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
57981896 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
57981917 GCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
25 33 0.50
26 33 0.50
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Done.