Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 56 of 770
Found at i:16337901 original size:46 final size:46
Alignment explanation
Indices: 16337729--16337901 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
16337719 AACCCGCCCC
* * *
16337729 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
16337775 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
16337823 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
16337868 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
16337902 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 61 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:16343268 original size:46 final size:46
Alignment explanation
Indices: 16343201--16343372 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 46
16343191 TAACCCACCC
* *
16343201 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCA
* * *
16343247 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-ATTTGCATCCA
* * * *
16343295 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCA
* *
16343340 TCAGTGAACTTGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
16343373 ATGCTCAACC
Statistics
Matches: 105, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 3 0.03
46 59 0.56
47 28 0.27
48 3 0.03
49 1 0.01
50 5 0.05
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCA
Found at i:16343313 original size:93 final size:93
Alignment explanation
Indices: 16343206--16343376 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
16343196 CACCCTAAGT
* * *
16343206 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
16343271 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* * *
16343299 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATCAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
16343364 CGAGTTCGGATGC
66 CGAGTTCGGATGC
16343377 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:16343392 original size:46 final size:44
Alignment explanation
Indices: 16343203--16343392 Score: 138
Period size: 46 Copynumber: 4.1 Consensus size: 44
16343193 ACCCACCCTA
* * * *
16343203 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTG-CATCCAT-A
1 AGTGAACTCGGACTCAACTCAACGAGTTC--G-G-ATGCCAACCATCT
*
16343249 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATTT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * *
16343296 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATC-
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
*
16343342 AGTGAACTTGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
16343388 AGTGA
1 AGTGA
16343393 CATGTCACTT
Statistics
Matches: 117, Mismatches: 13, Indels: 28
0.74 0.08 0.18
Matches are distributed among these distances:
42 2 0.02
43 2 0.02
44 11 0.09
45 2 0.02
46 63 0.54
47 31 0.26
48 1 0.01
49 4 0.03
50 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:16350985 original size:17 final size:18
Alignment explanation
Indices: 16350963--16350998 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
16350953 CACATTGAAG
16350963 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
16350980 TGTTTTCATTGAAAACCT
1 TGTTTTCATCGAAAACCT
16350998 T
1 T
16350999 TCTTTGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.28, C:0.17, G:0.11, T:0.44
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:16352252 original size:27 final size:28
Alignment explanation
Indices: 16352221--16352297 Score: 84
Period size: 28 Copynumber: 2.8 Consensus size: 28
16352211 GCCCCTTTAG
*
16352221 GCCCAATCTTACTC-TATGGCCAATCAA
1 GCCCAATCTCACTCATATGGCCAATCAA
* * *
16352248 GCCCAATCTCATTCATATGGCCCATCAG
1 GCCCAATCTCACTCATATGGCCAATCAA
* **
16352276 GCCCAATCACTTTCATATGGCC
1 GCCCAATCTCACTCATATGGCC
16352298 CGTCGGGCCC
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 12 0.28
28 31 0.72
ACGTcount: A:0.26, C:0.35, G:0.13, T:0.26
Consensus pattern (28 bp):
GCCCAATCTCACTCATATGGCCAATCAA
Found at i:16352266 original size:28 final size:28
Alignment explanation
Indices: 16352235--16352320 Score: 118
Period size: 28 Copynumber: 3.1 Consensus size: 28
16352225 AATCTTACTC
* * *
16352235 TATGGCCAATCAAGCCCAATCTCATTCA
1 TATGGCCCATCAGGCCCAATCACATTCA
*
16352263 TATGGCCCATCAGGCCCAATCACTTTCA
1 TATGGCCCATCAGGCCCAATCACATTCA
* *
16352291 TATGGCCCGTCGGGCCCAATCACATTCA
1 TATGGCCCATCAGGCCCAATCACATTCA
16352319 TA
1 TA
16352321 GTCATGCGAT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.27, C:0.34, G:0.15, T:0.24
Consensus pattern (28 bp):
TATGGCCCATCAGGCCCAATCACATTCA
Found at i:16360992 original size:30 final size:30
Alignment explanation
Indices: 16360925--16360992 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
16360915 TACATGGTCA
* * *
16360925 TGTA-CCAAGCCATGTGAACCACACGGCTG
1 TGTAGCCAGGCCATGTGAACCACACGACCG
**
16360954 TGTAGCCAGGCCATGTGCGCCACACGACCG
1 TGTAGCCAGGCCATGTGAACCACACGACCG
*
16360984 TGTCGCCAG
1 TGTAGCCAG
16360993 ACTGTATGGA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 4 0.12
30 28 0.88
ACGTcount: A:0.22, C:0.34, G:0.28, T:0.16
Consensus pattern (30 bp):
TGTAGCCAGGCCATGTGAACCACACGACCG
Found at i:16361379 original size:21 final size:20
Alignment explanation
Indices: 16361344--16361391 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
16361334 GAACAACTTT
* *
16361344 TTTTTTTTAATTTTTTCAAA
1 TTTTTTTGAAGTTTTTCAAA
*
16361364 TTGTTTTTGAAGTTTTTCGAA
1 TT-TTTTTGAAGTTTTTCAAA
16361385 TTTTTTT
1 TTTTTTT
16361392 CGTTTTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.19, C:0.04, G:0.08, T:0.69
Consensus pattern (20 bp):
TTTTTTTGAAGTTTTTCAAA
Found at i:16366612 original size:20 final size:20
Alignment explanation
Indices: 16366587--16366626 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
16366577 GGACTGTTGT
*
16366587 GGATATCATGAAACTAAGTA
1 GGATATCACGAAACTAAGTA
16366607 GGATATCACGAAACTAAGTA
1 GGATATCACGAAACTAAGTA
16366627 TTGTTGGATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.12, G:0.20, T:0.23
Consensus pattern (20 bp):
GGATATCACGAAACTAAGTA
Found at i:16369667 original size:35 final size:35
Alignment explanation
Indices: 16369621--16369760 Score: 172
Period size: 35 Copynumber: 4.0 Consensus size: 35
16369611 ACACACCAAA
*
16369621 TGCTCACAAGAGCTAATCCAACCGAAACACGCCAG
1 TGCTCATAAGAGCTAATCCAACCGAAACACGCCAG
* ** * *
16369656 TGCTCGTAAGAGCTAATCCGTCCAAAACATGCCAG
1 TGCTCATAAGAGCTAATCCAACCGAAACACGCCAG
** * *
16369691 TGCTCATAAGATATAATCCGACAGAAACACGCCAG
1 TGCTCATAAGAGCTAATCCAACCGAAACACGCCAG
* *
16369726 TGCTCATAAGAGCTAATCCAACTGAAACATGCCAG
1 TGCTCATAAGAGCTAATCCAACCGAAACACGCCAG
16369761 ACAGAGAGTA
Statistics
Matches: 87, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 87 1.00
ACGTcount: A:0.36, C:0.29, G:0.18, T:0.17
Consensus pattern (35 bp):
TGCTCATAAGAGCTAATCCAACCGAAACACGCCAG
Found at i:16375817 original size:27 final size:27
Alignment explanation
Indices: 16375787--16375839 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
16375777 TTACCTTACA
16375787 GGGGTATTACAATCAATTTACCCTATG
1 GGGGTATTACAATCAATTTACCCTATG
* ** *
16375814 GGGGTATTTCGGTCATTTTACCCTAT
1 GGGGTATTACAATCAATTTACCCTAT
16375840 AAGGGAAACA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.38
Consensus pattern (27 bp):
GGGGTATTACAATCAATTTACCCTATG
Found at i:16378841 original size:29 final size:29
Alignment explanation
Indices: 16378799--16378882 Score: 141
Period size: 29 Copynumber: 2.9 Consensus size: 29
16378789 GCCGTATTTT
**
16378799 TTTCCAGCTTGCACACTTAGTGCCAAATA
1 TTTCCAGCACGCACACTTAGTGCCAAATA
*
16378828 TTTCCAGCACGCACACTTAGTGCCATATA
1 TTTCCAGCACGCACACTTAGTGCCAAATA
16378857 TTTCCAGCACGCACACTTAGTGCCAA
1 TTTCCAGCACGCACACTTAGTGCCAA
16378883 TCTCGACACC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.27, C:0.31, G:0.14, T:0.27
Consensus pattern (29 bp):
TTTCCAGCACGCACACTTAGTGCCAAATA
Found at i:16390723 original size:42 final size:44
Alignment explanation
Indices: 16390656--16390754 Score: 116
Period size: 42 Copynumber: 2.3 Consensus size: 44
16390646 GATTTGAGAT
* * **
16390656 TTACGTGTAAGA-CCATGTCTGGGACATTGGCATCG-TATTTG-A
1 TTACATGTAAGACCCATGTCTAGGACAGAGGCATCGATA-TTGAA
*
16390698 TTTCATGTAAGACCCA-GTCTAGGACAGAGGCATCGATATTGAA
1 TTACATGTAAGACCCATGTCTAGGACAGAGGCATCGATATTGAA
16390741 TTACATGTAAGACC
1 TTACATGTAAGACC
16390755 ACGTCCGGGA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
42 29 0.60
43 19 0.40
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (44 bp):
TTACATGTAAGACCCATGTCTAGGACAGAGGCATCGATATTGAA
Found at i:16394758 original size:40 final size:40
Alignment explanation
Indices: 16394699--16394840 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
16394689 AAATTGAATG
* * *
16394699 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
16394739 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
16394779 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
16394819 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
16394841 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:16394841 original size:40 final size:39
Alignment explanation
Indices: 16394738--16394866 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
16394728 TGCTGGAAAT
* * *
16394738 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
16394778 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
16394818 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
16394858 TATATCCGG
1 TATATCCGG
16394867 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:16395118 original size:36 final size:36
Alignment explanation
Indices: 16395078--16395155 Score: 156
Period size: 36 Copynumber: 2.2 Consensus size: 36
16395068 TGTGAAGTAA
16395078 GAATGTGTATTAATGAAATGATGCATTTGGCTATGT
1 GAATGTGTATTAATGAAATGATGCATTTGGCTATGT
16395114 GAATGTGTATTAATGAAATGATGCATTTGGCTATGT
1 GAATGTGTATTAATGAAATGATGCATTTGGCTATGT
16395150 GAATGT
1 GAATGT
16395156 ATTGCTGTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.31, C:0.05, G:0.26, T:0.38
Consensus pattern (36 bp):
GAATGTGTATTAATGAAATGATGCATTTGGCTATGT
Found at i:16402811 original size:40 final size:40
Alignment explanation
Indices: 16402752--16402893 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
16402742 AAATTGAATG
* * *
16402752 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
16402792 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
16402832 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
16402872 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
16402894 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:16402894 original size:40 final size:39
Alignment explanation
Indices: 16402791--16402919 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
16402781 TGCTGGAAAT
* * *
16402791 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
16402831 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
16402871 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
16402911 TATATCCGG
1 TATATCCGG
16402920 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:16414213 original size:18 final size:18
Alignment explanation
Indices: 16414165--16414215 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
16414155 CGACCGTGTC
16414165 CCCTTTTCCTT-TTTCCTT
1 CCCTTTT-CTTCTTTCCTT
* *
16414183 CCCCTTTC-CCTTTCCTT
1 CCCTTTTCTTCTTTCCTT
*
16414200 TCCTTTTCTTCTTTCC
1 CCCTTTTCTTCTTTCC
16414216 CCCACCTTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
17 14 0.54
18 12 0.46
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (18 bp):
CCCTTTTCTTCTTTCCTT
Found at i:16415162 original size:27 final size:28
Alignment explanation
Indices: 16415146--16415375 Score: 298
Period size: 27 Copynumber: 8.5 Consensus size: 28
16415136 CGACTTGTAA
16415146 AATTACCATTTTACCCTCGA-TTTACAG
1 AATTACCATTTTACCCTCGAGTTTACAG
16415173 AATTACCATTTTACCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGAGTTTACAG
** *
16415200 AATTACTGTTTTACCCTCGA-TTTATAG
1 AATTACCATTTTACCCTCGAGTTTACAG
*
16415227 AATTACCGTTTTACCCTC-AGTTTACA-
1 AATTACCATTTTACCCTCGAGTTTACAG
* *
16415253 AATTACTATTTTATCCTCGA-TTTACAG
1 AATTACCATTTTACCCTCGAGTTTACAG
16415280 AATTACCATTTTACCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGAGTTTACAG
* * *
16415307 AATTACTATTTTACCCTTGA-TTTATAG
1 AATTACCATTTTACCCTCGAGTTTACAG
*
16415334 AATTACCGTTTTACCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGAGTTTACAG
*
16415361 AATTACCGTTTTACC
1 AATTACCATTTTACC
16415376 TTTAATTTAT
Statistics
Matches: 178, Mismatches: 17, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
26 25 0.14
27 151 0.85
28 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.40
Consensus pattern (28 bp):
AATTACCATTTTACCCTCGAGTTTACAG
Found at i:16415275 original size:107 final size:107
Alignment explanation
Indices: 16415145--16415393 Score: 408
Period size: 107 Copynumber: 2.3 Consensus size: 107
16415135 TCGACTTGTA
*
16415145 AAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACTGTT
1 AAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACTATT
16415210 TTACCCTCGATTTATAGAATTACCGTTTTACCCTCAGTTTAC
66 TTACCCTCGATTTATAGAATTACCGTTTTACCCTCAGTTTAC
* *
16415252 AAATTACTATTTTATCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACTATT
1 AAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACTATT
*
16415317 TTACCCTTGATTTATAGAATTACCGTTTTACCCTCAGTTTAC
66 TTACCCTCGATTTATAGAATTACCGTTTTACCCTCAGTTTAC
* * ** *
16415359 AGAATTACCGTTTTACCTTTAATTTATAGAATTAC
1 A-AATTACCATTTTACCCTCGATTTACAGAATTAC
16415394 TAAAATACCC
Statistics
Matches: 130, Mismatches: 11, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
107 104 0.80
108 26 0.20
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (107 bp):
AAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACTATT
TTACCCTCGATTTATAGAATTACCGTTTTACCCTCAGTTTAC
Found at i:16415402 original size:27 final size:27
Alignment explanation
Indices: 16415381--16415540 Score: 214
Period size: 27 Copynumber: 6.0 Consensus size: 27
16415371 TTACCTTTAA
* *
16415381 TTTATAGAATTACTAAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCCTTGG
* *
16415408 TTTATAAAATTACCAAAATACCCCTAG
1 TTTATAAAATTACCAAAATACCCTTGG
* *
16415435 TTTGTAAAATTACTAAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCCTTGG
*
16415462 TTTACAAAATTACCAAAATACCC-TGG
1 TTTATAAAATTACCAAAATACCCTTGG
* * *
16415488 TTTGTAAAATTACTAAAATACCCTTTG
1 TTTATAAAATTACCAAAATACCCTTGG
*
16415515 TTTATAAAATTACCGAAATACCCTTG
1 TTTATAAAATTACCAAAATACCCTTG
16415541 TAGGGTAGAA
Statistics
Matches: 113, Mismatches: 19, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
26 23 0.20
27 90 0.80
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.34
Consensus pattern (27 bp):
TTTATAAAATTACCAAAATACCCTTGG
Found at i:16415404 original size:54 final size:54
Alignment explanation
Indices: 16415146--16415393 Score: 372
Period size: 54 Copynumber: 4.6 Consensus size: 54
16415136 CGACTTGTAA
* *
16415146 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAGTTTACAG
* *
16415200 AATTACTGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAGTTTACA-
1 AATTACTATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAGTTTACAG
* *
16415253 AATTACTATTTTATCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAGTTTACAG
* *
16415307 AATTACTATTTTACCCTTGATTTATAGAATTACCGTTTTACCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAGTTTACAG
** * **
16415361 AATTACCGTTTTACCTTTAATTTATAGAATTAC
1 AATTACTATTTTACCCTCGATTTATAGAATTAC
16415394 TAAAATACCC
Statistics
Matches: 177, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
53 49 0.28
54 128 0.72
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (54 bp):
AATTACTATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAGTTTACAG
Found at i:16415411 original size:54 final size:54
Alignment explanation
Indices: 16415144--16415528 Score: 198
Period size: 54 Copynumber: 7.2 Consensus size: 54
16415134 CTCGACTTGT
** * * *** **
16415144 AAAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTAC
1 AAAATTACCATTTTACCCTTAATTTATAGAATTACTAAAATACCCTTGGTTTAC
* ** ** ***** **
16415198 AGAATTACTGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAGTTTAC
1 AAAATTACCATTTTACCCTTAATTTATAGAATTACTAAAATACCCTTGGTTTAC
* * ** * * *** **
16415252 -AAATTACTATTTTATCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTAC
1 AAAATTACCATTTTACCCTTAATTTATAGAATTACTAAAATACCCTTGGTTTAC
* * * ***** **
16415305 AGAATTACTATTTTACCCTTGATTTATAGAATTACCGTTTTACCCTCAGTTTAC
1 AAAATTACCATTTTACCCTTAATTTATAGAATTACTAAAATACCCTTGGTTTAC
* * * *
16415359 AGAATTACCGTTTTACCTTTAATTTATAGAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCATTTTACCCTTAATTTATAGAATTACTAAAATACCCTTGGTTTAC
*** * * * *
16415413 AAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCATTTTACCCTTAATTTATAGAATTACTAAAATACCCTTGGTTTAC
*** ** * * * *
16415467 AAAATTACCAAAATACCC-TGGTTTGTAAAATTACTAAAATACCCTTTGTTTAT
1 AAAATTACCATTTTACCCTTAATTTATAGAATTACTAAAATACCCTTGGTTTAC
16415520 AAAATTACC
1 AAAATTACC
16415529 GAAATACCCT
Statistics
Matches: 289, Mismatches: 41, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
53 89 0.31
54 200 0.69
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.38
Consensus pattern (54 bp):
AAAATTACCATTTTACCCTTAATTTATAGAATTACTAAAATACCCTTGGTTTAC
Found at i:16415437 original size:81 final size:81
Alignment explanation
Indices: 16415273--16415511 Score: 194
Period size: 81 Copynumber: 3.0 Consensus size: 81
16415263 TTATCCTCGA
* *** *
16415273 TTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACTATTTTACCCTTGATTTATAGAATT
1 TTTACAGAATTACCATTTTACCCTCAATTTACAGAATTACTAAAATACCCTTGATTTATAAAATT
****
16415338 ACCGTTTTACCCTCAG
66 ACCAAAATACCCTCAG
* * * * *
16415354 TTTACAGAATTACCGTTTTACCTTTAATTTATAGAATTACTAAAATACCCTTGGTTTATAAAATT
1 TTTACAGAATTACCATTTTACCCTCAATTTACAGAATTACTAAAATACCCTTGATTTATAAAATT
16415419 ACCAAAATACCC-CTAG
66 ACCAAAATACCCTC-AG
** * * *** *** * * * *
16415435 TTTGTAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCC-TGGTTTGTAAAATT
1 TTTACAGAATTACCATTTTACCCTCAATTTACAGAATTACTAAAATACCCTTGATTTATAAAATT
*
16415499 ACTAAAATACCCT
66 ACCAAAATACCCT
16415512 TTGTTTATAA
Statistics
Matches: 126, Mismatches: 30, Indels: 4
0.79 0.19 0.03
Matches are distributed among these distances:
80 25 0.20
81 101 0.80
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.37
Consensus pattern (81 bp):
TTTACAGAATTACCATTTTACCCTCAATTTACAGAATTACTAAAATACCCTTGATTTATAAAATT
ACCAAAATACCCTCAG
Found at i:16415518 original size:53 final size:53
Alignment explanation
Indices: 16415388--16415538 Score: 257
Period size: 53 Copynumber: 2.8 Consensus size: 53
16415378 TAATTTATAG
16415388 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATA-CCCTAGTTTGTAA
* *
16415442 AATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTAGTTTGTAA
* *
16415495 AATTACTAAAATACCCTTTGTTTATAAAATTACCGAAATACCCT
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCT
16415539 TGTAGGGTAG
Statistics
Matches: 92, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 53 0.58
54 39 0.42
ACGTcount: A:0.40, C:0.19, G:0.07, T:0.33
Consensus pattern (53 bp):
AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTAGTTTGTAA
Found at i:16416207 original size:28 final size:28
Alignment explanation
Indices: 16416175--16416243 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
16416165 GCGTAGATCA
16416175 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
16416203 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
16416231 CGATA-TACCCCTA
1 CGAAATTACCCCTA
16416244 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:16417602 original size:17 final size:19
Alignment explanation
Indices: 16417567--16417606 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
16417557 TTTAATCCTC
16417567 ATTT-ATTTCTTTATAATT
1 ATTTAATTTCTTTATAATT
16417585 ATTTAATTT-TTT-TAATT
1 ATTTAATTTCTTTATAATT
16417602 ATTTA
1 ATTTA
16417607 CCTGTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.48
18 7 0.33
19 4 0.19
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (19 bp):
ATTTAATTTCTTTATAATT
Found at i:16417911 original size:3 final size:3
Alignment explanation
Indices: 16417903--16417968 Score: 132
Period size: 3 Copynumber: 22.0 Consensus size: 3
16417893 TCCTCATTCC
16417903 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
16417951 ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT
16417969 CTCTATTTAT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:16423439 original size:43 final size:42
Alignment explanation
Indices: 16423372--16423475 Score: 111
Period size: 43 Copynumber: 2.5 Consensus size: 42
16423362 AAGCTCGTAC
* * ***
16423372 AATGCCAACGTCCCATAC-GTGGTCTTACATGTAATCAAATAT
1 AATGCCAATGTCCCAGACAG-GGTCTTACACAAAATCAAATAT
* *
16423414 CAATGCCACTGTCCTAGACAGGGTCTTACACAAAATCAAATAT
1 -AATGCCAATGTCCCAGACAGGGTCTTACACAAAATCAAATAT
*
16423457 GATGCCAATGTCCCAGACA
1 AATGCCAATGTCCCAGACA
16423476 TGGTTTTAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
42 16 0.32
43 33 0.66
44 1 0.02
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (42 bp):
AATGCCAATGTCCCAGACAGGGTCTTACACAAAATCAAATAT
Found at i:16440442 original size:37 final size:37
Alignment explanation
Indices: 16440389--16440528 Score: 244
Period size: 37 Copynumber: 3.8 Consensus size: 37
16440379 CGAATAGTCC
* *
16440389 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
16440426 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
16440463 CCACACGTAGTCATTGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
16440500 CCACACGTAGTAATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
16440529 ATATATTTCC
Statistics
Matches: 98, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 98 1.00
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
Found at i:16440727 original size:48 final size:48
Alignment explanation
Indices: 16440669--16441091 Score: 783
Period size: 48 Copynumber: 8.8 Consensus size: 48
16440659 ATATACACAC
*
16440669 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
16440717 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
16440765 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
16440813 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
16440861 ATCCCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
16440909 ATCTCATACATATTTCACATTAGCCATTCCGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
16440957 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
16441005 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
16441053 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCA
16441092 TACACATATA
Statistics
Matches: 364, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 364 1.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:16445582 original size:21 final size:21
Alignment explanation
Indices: 16445552--16445601 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
16445542 ATTGCACACG
* *
16445552 GCCATATGGGTCAATAGCCAG
1 GCCATGTGGGTCAATAGCCAA
* *
16445573 GCCGTGTGGGTCAATGGCCAA
1 GCCATGTGGGTCAATAGCCAA
16445594 GCCATGTG
1 GCCATGTG
16445602 AATCGTGAGG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.22, C:0.24, G:0.34, T:0.20
Consensus pattern (21 bp):
GCCATGTGGGTCAATAGCCAA
Found at i:16459322 original size:12 final size:13
Alignment explanation
Indices: 16459297--16459325 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
16459287 AGGGAAAAAG
16459297 AAAAATTAGTAAT
1 AAAAATTAGTAAT
16459310 AAAAATTAG-AAT
1 AAAAATTAGTAAT
16459322 AAAA
1 AAAA
16459326 TTTAAATCGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (13 bp):
AAAAATTAGTAAT
Found at i:16465796 original size:31 final size:31
Alignment explanation
Indices: 16465758--16465817 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
16465748 CCTTTTCATA
16465758 TTTCATATTTCATAATACTGGGCCGAAGCAT
1 TTTCATATTTCATAATACTGGGCCGAAGCAT
*
16465789 TTTCATATTTCATATTACTGGGCCGAAGC
1 TTTCATATTTCATAATACTGGGCCGAAGC
16465818 CTTTACTGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.37
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCAT
Found at i:16466064 original size:24 final size:24
Alignment explanation
Indices: 16466013--16466155 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
16466003 GCTTTATCAT
*
16466013 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
16466038 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
16466062 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
16466085 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
16466109 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
16466133 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
16466156 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:16466092 original size:47 final size:48
Alignment explanation
Indices: 16466013--16466154 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
16466003 GCTTTATCAT
* *
16466013 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
16466062 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
16466109 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
16466155 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:16466113 original size:71 final size:72
Alignment explanation
Indices: 16466012--16466155 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
16466002 TGCTTTATCA
*
16466012 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
16466077 GCCCTTT
66 GCCCTTT
* * **
16466084 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
16466147 AGCCCTTT
65 AGCCCTTT
16466155 T
1 T
16466156 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:16466231 original size:20 final size:20
Alignment explanation
Indices: 16466206--16466265 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
16466196 TATGATTACC
16466206 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
16466226 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
16466246 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
16466266 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:16466340 original size:25 final size:25
Alignment explanation
Indices: 16466308--16466355 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
16466298 ATACATAAAC
* * *
16466308 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
16466333 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
16466356 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:16467576 original size:27 final size:27
Alignment explanation
Indices: 16467514--16467578 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
16467504 GGGCATATTC
16467514 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
16467541 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
*
16467568 GTCTTTTTACC
1 GTCATTTTACC
16467579 TAATAGGGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:16467805 original size:27 final size:27
Alignment explanation
Indices: 16467637--16467888 Score: 116
Period size: 27 Copynumber: 9.3 Consensus size: 27
16467627 TCTACAAACT
* *
16467637 AAGGGTATTTCAGTAATTTTGTAAACC
1 AAGGGTATTTTAGTAATTTTGTAAATC
*
16467664 AATGGTATTTCTA-TAATTTT-TAGAAAGTC
1 AAGGGTATTT-TAGTAATTTTGT--AAA-TC
* *
16467693 AAGGGTATTTCT-GTAACTTTGTAAATT
1 AAGGGTATTT-TAGTAATTTTGTAAATC
* * ** *
16467720 AGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTTAGTAATTTTGTAAATC
* * * *** *
16467747 GAGGGT-TTTTCGGCAATTTCACAAACC
1 AAGGGTATTTT-AGTAATTTTGTAAATC
16467774 AAGGGTATTTTAGTAATTTTGTAAATC
1 AAGGGTATTTTAGTAATTTTGTAAATC
* **** *
16467801 GAGGGTAAAACAGTAATTCTGTAAATC
1 AAGGGTATTTTAGTAATTTTGTAAATC
**** * *
16467828 AAGGGTAAAACAGTAATTCTATAAATC
1 AAGGGTATTTTAGTAATTTTGTAAATC
*** * *
16467855 AAGGGTAAAATAGTAATTCTATAAATC
1 AAGGGTATTTTAGTAATTTTGTAAATC
16467882 AAGGGTA
1 AAGGGTA
16467889 AAACAGTAAT
Statistics
Matches: 184, Mismatches: 32, Indels: 18
0.79 0.14 0.08
Matches are distributed among these distances:
26 6 0.03
27 148 0.80
28 11 0.06
29 18 0.10
30 1 0.01
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (27 bp):
AAGGGTATTTTAGTAATTTTGTAAATC
Found at i:16468428 original size:27 final size:27
Alignment explanation
Indices: 16467786--16468421 Score: 680
Period size: 27 Copynumber: 23.6 Consensus size: 27
16467776 GGGTATTTTA
* * *
16467786 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
16467813 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTATGTAAATCAAGGGTAAAACG
* * **
16467840 GTAATTCTATAAATCAAGGGTAAAATA
1 GTAATTATGTAAATCAAGGGTAAAACG
* * *
16467867 GTAATTCTATAAATCAAGGGTAAAACA
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
16467894 GTAATTCA-GTAAATCGAGGGTAAAATG
1 GTAATT-ATGTAAATCAAGGGTAAAACG
* * * *
16467921 ATAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* * *
16467948 ATAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* * *
16467975 GTAATTATGTAAATTAGGGGTAAAACA
1 GTAATTATGTAAATCAAGGGTAAAACG
* * *
16468002 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
16468029 ATAATTATGTAAATCAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
16468056 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* * *
16468083 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
16468110 ATAATTATGTAAATCAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
16468137 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* * *
16468164 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* * *
16468191 ATAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* * *
16468218 ATAATTATGTAAATTAAGGGTAAAACA
1 GTAATTATGTAAATCAAGGGTAAAACG
* * *
16468245 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
16468272 ATAATTATGTAAATCAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
16468299 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* * * *
16468326 GTAATTCTATAAGTCGAGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* * *
16468353 ATAATTATGTAAATCAGGGGTAAAACA
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
16468380 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
*
16468407 GTAATTCTGTAAATC
1 GTAATTATGTAAATC
16468422 GGGGGTACTT
Statistics
Matches: 517, Mismatches: 90, Indels: 4
0.85 0.15 0.01
Matches are distributed among these distances:
27 517 1.00
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.28
Consensus pattern (27 bp):
GTAATTATGTAAATCAAGGGTAAAACG
Found at i:16468439 original size:81 final size:81
Alignment explanation
Indices: 16467787--16468428 Score: 977
Period size: 81 Copynumber: 7.9 Consensus size: 81
16467777 GGTATTTTAG
* * * * * * *
16467787 TAATTTTGTAAATC-GAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
1 TAATTATGTAAATCAG-GGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTA
* * *
16467851 AATCAAGGGTAAAA-TA
65 AGTCGAGGGTAAAACGA
* * * * * * *
16467867 GTAATTCTATAAATCAAGGGTAAAACAGTAATTCA-GTAAA-TCGAGGGTAAAATGATAATTCTG
1 -TAATTATGTAAATCAGGGGTAAAACGGTAATT-ATGTAAATTAG-GGGTAAAACGGTAATTCTG
16467930 TAAGTCGAGGGTAAAACGA
63 TAAGTCGAGGGTAAAACGA
* *
16467949 TAATTATGTAAATTAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACAGTAATTCTGTAA
1 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
16468014 GTCGAGGGTAAAACGA
66 GTCGAGGGTAAAACGA
16468030 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
1 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
16468095 GTCGAGGGTAAAACGA
66 GTCGAGGGTAAAACGA
16468111 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
1 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
16468176 GTCGAGGGTAAAACGA
66 GTCGAGGGTAAAACGA
* * * *
16468192 TAATTATGTAAATTAGGGGTAAAACGATAATTATGTAAATTAAGGGTAAAACAGTAATTCTGTAA
1 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
16468257 GTCGAGGGTAAAACGA
66 GTCGAGGGTAAAACGA
*
16468273 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTATAA
1 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
16468338 GTCGAGGGTAAAACGA
66 GTCGAGGGTAAAACGA
*
16468354 TAATTATGTAAATCAGGGGTAAAACAGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
1 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
* *
16468419 ATCGGGGGTA
66 GTCGAGGGTA
16468429 CTTTAGTAAT
Statistics
Matches: 517, Mismatches: 38, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
80 1 0.00
81 513 0.99
82 3 0.01
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.28
Consensus pattern (81 bp):
TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
GTCGAGGGTAAAACGA
Found at i:16468455 original size:27 final size:26
Alignment explanation
Indices: 16468425--16468523 Score: 83
Period size: 27 Copynumber: 3.7 Consensus size: 26
16468415 GTAAATCGGG
*
16468425 GGTACTTTAGTAATTTTACAAGTCGAA
1 GGTA-TTTAGTAATTTTACAAATCGAA
* * *
16468452 GGTATTTTGGTAAATTTACAAATCGAG
1 GGTA-TTTAGTAATTTTACAAATCGAA
* *
16468479 GGTATTTCAGTATTTTTACAAA-CTAA
1 GGTATTT-AGTAATTTTACAAATCGAA
*
16468505 GGGTATTTCGGTAATTTTA
1 -GGTATTT-AGTAATTTTA
16468524 GTAAACTAAA
Statistics
Matches: 58, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
26 5 0.09
27 53 0.91
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.40
Consensus pattern (26 bp):
GGTATTTAGTAATTTTACAAATCGAA
Found at i:16468510 original size:54 final size:54
Alignment explanation
Indices: 16468417--16468523 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
16468407 GTAATTCTGT
* * *
16468417 AAATCGGGGGTACTTTAGTAATTTTACAAGTCGAAGGTATTTTGGTAAATTTAC
1 AAATCGAGGGTACTTTAGTAATTTTACAAGACGAAGGTATTTCGGTAAATTTAC
* * *
16468471 AAATCGAGGGTA-TTTCAGTATTTTTACAA-ACTAAGGGTATTTCGGTAATTTTA
1 AAATCGAGGGTACTTT-AGTAATTTTACAAGACGAA-GGTATTTCGGTAAATTTA
16468524 GTAAACTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 6 0.13
54 39 0.87
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (54 bp):
AAATCGAGGGTACTTTAGTAATTTTACAAGACGAAGGTATTTCGGTAAATTTAC
Found at i:16468537 original size:27 final size:27
Alignment explanation
Indices: 16468480--16468538 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
16468470 CAAATCGAGG
* *
16468480 GTATTTCAGTATTTTTACAAACTAAGG
1 GTATTTCAGTAATTTTACAAACTAAGA
* *
16468507 GTATTTCGGTAATTTTAGTAAACTAA-A
1 GTATTTCAGTAATTTTA-CAAACTAAGA
16468534 GTATT
1 GTATT
16468539 CTAAACAGGG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 20 0.74
28 7 0.26
ACGTcount: A:0.34, C:0.08, G:0.15, T:0.42
Consensus pattern (27 bp):
GTATTTCAGTAATTTTACAAACTAAGA
Found at i:16471216 original size:31 final size:31
Alignment explanation
Indices: 16471178--16471241 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
16471168 CCTTTTCATA
16471178 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
16471209 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
16471240 TT
1 TT
16471242 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:16471484 original size:24 final size:24
Alignment explanation
Indices: 16471433--16471575 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
16471423 GCTTTATCAT
*
16471433 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
16471458 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
16471482 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
16471505 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
16471529 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
16471553 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
16471576 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:16471512 original size:47 final size:48
Alignment explanation
Indices: 16471433--16471574 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
16471423 GCTTTATCAT
* *
16471433 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
16471482 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
16471529 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
16471575 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:16471533 original size:71 final size:72
Alignment explanation
Indices: 16471432--16471575 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
16471422 TGCTTTATCA
*
16471432 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
16471497 GCCCTTT
66 GCCCTTT
* * **
16471504 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
16471567 AGCCCTTT
65 AGCCCTTT
16471575 T
1 T
16471576 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:16471651 original size:20 final size:20
Alignment explanation
Indices: 16471626--16471685 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
16471616 TATGATTACC
16471626 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
16471646 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
16471666 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
16471686 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:16471760 original size:25 final size:25
Alignment explanation
Indices: 16471728--16471775 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
16471718 ATACATAAAC
* * *
16471728 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
16471753 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
16471776 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:16472996 original size:27 final size:27
Alignment explanation
Indices: 16472934--16472998 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
16472924 GGGCATATTC
16472934 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
16472961 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
*
16472988 GTCTTTTTACC
1 GTCATTTTACC
16472999 TAATAGGGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:16473225 original size:27 final size:27
Alignment explanation
Indices: 16473057--16473308 Score: 125
Period size: 27 Copynumber: 9.3 Consensus size: 27
16473047 TCTACAAACT
* *
16473057 AAGGGTATTTCAGTAATTTTGTAAACC
1 AAGGGTATTTTAGTAATTTTGTAAATC
*
16473084 AATGGTATTTCTA-TAATTTT-TAGAAAGTC
1 AAGGGTATTT-TAGTAATTTTGT--AAA-TC
* *
16473113 AAGGGTATTTCT-GTAACTTTGTAAATT
1 AAGGGTATTT-TAGTAATTTTGTAAATC
* * ** *
16473140 AGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTTAGTAATTTTGTAAATC
* * *** *
16473167 GAGGGT-TTTTCGGTAATTTCACAAACC
1 AAGGGTATTTT-AGTAATTTTGTAAATC
16473194 AAGGGTATTTTAGTAATTTTGTAAATC
1 AAGGGTATTTTAGTAATTTTGTAAATC
* **** *
16473221 GAGGGTAAAACAGTAATTCTGTAAATC
1 AAGGGTATTTTAGTAATTTTGTAAATC
**** * *
16473248 AAGGGTAAAACAGTAATTCTATAAATC
1 AAGGGTATTTTAGTAATTTTGTAAATC
*** * *
16473275 AAGGGTAAAATAGTAATTCTATAAATC
1 AAGGGTATTTTAGTAATTTTGTAAATC
16473302 AAGGGTA
1 AAGGGTA
16473309 AAACAGTAAT
Statistics
Matches: 186, Mismatches: 30, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
26 6 0.03
27 150 0.81
28 11 0.06
29 18 0.10
30 1 0.01
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (27 bp):
AAGGGTATTTTAGTAATTTTGTAAATC
Found at i:16473309 original size:27 final size:27
Alignment explanation
Indices: 16473206--16474091 Score: 1004
Period size: 27 Copynumber: 32.8 Consensus size: 27
16473196 GGGTATTTTA
* *
16473206 GTAATTTTGTAAATC-GAGGGTAAAACA
1 GTAATTATGTAAATCAG-GGGTAAAACG
* * *
16473233 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTATGTAAATCAGGGGTAAAACG
* * * **
16473260 GTAATTCTATAAATCAAGGGTAAAATA
1 GTAATTATGTAAATCAGGGGTAAAACG
* * * *
16473287 GTAATTCTATAAATCAAGGGTAAAACA
1 GTAATTATGTAAATCAGGGGTAAAACG
*
16473314 GTAATTCA-GTAAATC-GAGGGTAAAATG
1 GTAATT-ATGTAAATCAG-GGGTAAAACG
* * *
16473341 ATAATTCTGTAAGTC-GAGGGTAAAACG
1 GTAATTATGTAAATCAG-GGGTAAAACG
* *
16473368 ATAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAGGGGTAAAACG
* *
16473395 GTAATTATGTAAATTAGGGGTAAAACA
1 GTAATTATGTAAATCAGGGGTAAAACG
* *
16473422 GTAATTCTGTAAGTC-GAGGGTAAAACG
1 GTAATTATGTAAATCAG-GGGTAAAACG
*
16473449 ATAATTATGTAAATCAGGGGTAAAACG
1 GTAATTATGTAAATCAGGGGTAAAACG
*
16473476 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAGGGGTAAAACG
* *
16473503 GTAATTCTGTAAGTC-GAGGGTAAAACG
1 GTAATTATGTAAATCAG-GGGTAAAACG
*
16473530 ATAATTATGTAAATCAGGGGTAAAACG
1 GTAATTATGTAAATCAGGGGTAAAACG
*
16473557 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAGGGGTAAAACG
* *
16473584 GTAATTCTGTAAGTC-GAGGGTAAAACG
1 GTAATTATGTAAATCAG-GGGTAAAACG
* *
16473611 ATAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAGGGGTAAAACG
* * *
16473638 ATAATTATGTAAATTAGGGGTAAAACA
1 GTAATTATGTAAATCAGGGGTAAAACG
* *
16473665 GTAATTCTGTAAGTC-GAGGGTAAAACG
1 GTAATTATGTAAATCAG-GGGTAAAACG
*
16473692 ATAATTATGTAAATCAGGGGTAAAACG
1 GTAATTATGTAAATCAGGGGTAAAACG
*
16473719 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAGGGGTAAAACG
* *
16473746 GTAATTCTGTAAGTC-GAGGGTAAAACG
1 GTAATTATGTAAATCAG-GGGTAAAACG
*
16473773 ATAATTATGTAAATCAGGGGTAAAACG
1 GTAATTATGTAAATCAGGGGTAAAACG
*
16473800 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAGGGGTAAAACG
* *
16473827 GTAATTCTGTAAGTC-GAGGGTAAAACG
1 GTAATTATGTAAATCAG-GGGTAAAACG
* *
16473854 ATAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAGGGGTAAAACG
* * *
16473881 GTAATTATGTAAATTAAGGGTAAAACA
1 GTAATTATGTAAATCAGGGGTAAAACG
* *
16473908 GTAATTCTGTAAGTC-GAGGGTAAAACG
1 GTAATTATGTAAATCAG-GGGTAAAACG
*
16473935 ATAATTATGTAAATCAGGGGTAAAACG
1 GTAATTATGTAAATCAGGGGTAAAACG
*
16473962 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAGGGGTAAAACG
* * *
16473989 GTAATTCTATAAGTC-GAGGGTAAAACG
1 GTAATTATGTAAATCAG-GGGTAAAACG
* *
16474016 ATAATTATGTAAATCAGGGGTAAAACA
1 GTAATTATGTAAATCAGGGGTAAAACG
*
16474043 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAGGGGTAAAACG
* *
16474070 GTAATTCTGTAAATCGGGGGTA
1 GTAATTATGTAAATCAGGGGTA
16474092 CTTTAGTAAT
Statistics
Matches: 741, Mismatches: 97, Indels: 42
0.84 0.11 0.05
Matches are distributed among these distances:
26 7 0.01
27 725 0.98
28 9 0.01
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.28
Consensus pattern (27 bp):
GTAATTATGTAAATCAGGGGTAAAACG
Found at i:16474102 original size:81 final size:81
Alignment explanation
Indices: 16473207--16474091 Score: 1445
Period size: 81 Copynumber: 10.9 Consensus size: 81
16473197 GGTATTTTAG
* * * * * * *
16473207 TAATTTTGTAAATC-GAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
1 TAATTATGTAAATCAG-GGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTA
* * *
16473271 AATCAAGGGTAAAA-TA
65 AGTCGAGGGTAAAACGA
* * * * * * *
16473287 GTAATTCTATAAATCAAGGGTAAAACAGTAATTCA-GTAAA-TCGAGGGTAAAATGATAATTCTG
1 -TAATTATGTAAATCAGGGGTAAAACGGTAATT-ATGTAAATTAG-GGGTAAAACGGTAATTCTG
16473350 TAAGTCGAGGGTAAAACGA
63 TAAGTCGAGGGTAAAACGA
* *
16473369 TAATTATGTAAATTAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACAGTAATTCTGTAA
1 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
16473434 GTCGAGGGTAAAACGA
66 GTCGAGGGTAAAACGA
16473450 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
1 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
16473515 GTCGAGGGTAAAACGA
66 GTCGAGGGTAAAACGA
16473531 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
1 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
16473596 GTCGAGGGTAAAACGA
66 GTCGAGGGTAAAACGA
* * *
16473612 TAATTATGTAAATTAGGGGTAAAACGATAATTATGTAAATTAGGGGTAAAACAGTAATTCTGTAA
1 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
16473677 GTCGAGGGTAAAACGA
66 GTCGAGGGTAAAACGA
16473693 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
1 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
16473758 GTCGAGGGTAAAACGA
66 GTCGAGGGTAAAACGA
16473774 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
1 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
16473839 GTCGAGGGTAAAACGA
66 GTCGAGGGTAAAACGA
* * *
16473855 TAATTATGTAAATTAGGGGTAAAACGGTAATTATGTAAATTAAGGGTAAAACAGTAATTCTGTAA
1 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
16473920 GTCGAGGGTAAAACGA
66 GTCGAGGGTAAAACGA
*
16473936 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTATAA
1 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
16474001 GTCGAGGGTAAAACGA
66 GTCGAGGGTAAAACGA
*
16474017 TAATTATGTAAATCAGGGGTAAAACAGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
1 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
* *
16474082 ATCGGGGGTA
66 GTCGAGGGTA
16474092 CTTTAGTAAT
Statistics
Matches: 756, Mismatches: 42, Indels: 12
0.93 0.05 0.01
Matches are distributed among these distances:
80 1 0.00
81 752 0.99
82 3 0.00
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.28
Consensus pattern (81 bp):
TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
GTCGAGGGTAAAACGA
Found at i:16474118 original size:27 final size:26
Alignment explanation
Indices: 16474088--16474186 Score: 83
Period size: 27 Copynumber: 3.7 Consensus size: 26
16474078 GTAAATCGGG
*
16474088 GGTACTTTAGTAATTTTACAAGTCGAA
1 GGTA-TTTAGTAATTTTACAAATCGAA
* * *
16474115 GGTATTTTGGTAAATTTACAAATCGAG
1 GGTA-TTTAGTAATTTTACAAATCGAA
* *
16474142 GGTATTTCAGTATTTTTACAAA-CTAA
1 GGTATTT-AGTAATTTTACAAATCGAA
*
16474168 GGGTATTTCGGTAATTTTA
1 -GGTATTT-AGTAATTTTA
16474187 GTAAACTAAA
Statistics
Matches: 58, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
26 5 0.09
27 53 0.91
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.40
Consensus pattern (26 bp):
GGTATTTAGTAATTTTACAAATCGAA
Found at i:16474173 original size:54 final size:54
Alignment explanation
Indices: 16474080--16474186 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
16474070 GTAATTCTGT
* * *
16474080 AAATCGGGGGTACTTTAGTAATTTTACAAGTCGAAGGTATTTTGGTAAATTTAC
1 AAATCGAGGGTACTTTAGTAATTTTACAAGACGAAGGTATTTCGGTAAATTTAC
* * *
16474134 AAATCGAGGGTA-TTTCAGTATTTTTACAA-ACTAAGGGTATTTCGGTAATTTTA
1 AAATCGAGGGTACTTT-AGTAATTTTACAAGACGAA-GGTATTTCGGTAAATTTA
16474187 GTAAACTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 6 0.13
54 39 0.87
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (54 bp):
AAATCGAGGGTACTTTAGTAATTTTACAAGACGAAGGTATTTCGGTAAATTTAC
Found at i:16474200 original size:27 final size:27
Alignment explanation
Indices: 16474143--16474201 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
16474133 CAAATCGAGG
* *
16474143 GTATTTCAGTATTTTTACAAACTAAGG
1 GTATTTCAGTAATTTTACAAACTAAGA
* *
16474170 GTATTTCGGTAATTTTAGTAAACTAA-A
1 GTATTTCAGTAATTTTA-CAAACTAAGA
16474197 GTATT
1 GTATT
16474202 CTAAACAGGG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 20 0.74
28 7 0.26
ACGTcount: A:0.34, C:0.08, G:0.15, T:0.42
Consensus pattern (27 bp):
GTATTTCAGTAATTTTACAAACTAAGA
Found at i:16476879 original size:31 final size:31
Alignment explanation
Indices: 16476841--16476904 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
16476831 CCTTTTCATA
16476841 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
16476872 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
16476903 TT
1 TT
16476905 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:16477147 original size:24 final size:24
Alignment explanation
Indices: 16477096--16477238 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
16477086 GCTTTATCAT
*
16477096 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
16477121 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
16477145 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
16477168 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
16477192 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
16477216 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
16477239 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:16477175 original size:47 final size:48
Alignment explanation
Indices: 16477096--16477237 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
16477086 GCTTTATCAT
* *
16477096 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
16477145 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
16477192 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
16477238 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:16477196 original size:71 final size:72
Alignment explanation
Indices: 16477095--16477238 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
16477085 TGCTTTATCA
*
16477095 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
16477160 GCCCTTT
66 GCCCTTT
* * **
16477167 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
16477230 AGCCCTTT
65 AGCCCTTT
16477238 T
1 T
16477239 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:16477314 original size:20 final size:20
Alignment explanation
Indices: 16477289--16477348 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
16477279 TATGATTACC
16477289 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
16477309 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
16477329 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
16477349 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:16477423 original size:25 final size:25
Alignment explanation
Indices: 16477391--16477438 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
16477381 ATACATAAAC
* * *
16477391 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
16477416 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
16477439 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:16477731 original size:11 final size:11
Alignment explanation
Indices: 16477715--16477742 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
16477705 AAGCCCAATG
16477715 GGCCCCACTTC
1 GGCCCCACTTC
16477726 GGCCCCACTTC
1 GGCCCCACTTC
16477737 GGCCCC
1 GGCCCC
16477743 TCGAGGCCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.07, C:0.57, G:0.21, T:0.14
Consensus pattern (11 bp):
GGCCCCACTTC
Found at i:16478670 original size:27 final size:27
Alignment explanation
Indices: 16478608--16478672 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
16478598 GGGCATATTC
*
16478608 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACA
* *
16478635 GTCACTTTACCCTACAGGGGCT-TTACA
1 GTCATTTTACCATACAGGGG-TATTACA
*
16478662 GTCTTTTTACC
1 GTCATTTTACC
16478673 TAATAGGGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACA
Found at i:16478899 original size:27 final size:27
Alignment explanation
Indices: 16478731--16478982 Score: 116
Period size: 27 Copynumber: 9.3 Consensus size: 27
16478721 TCTACAAACT
* *
16478731 AAGGGTATTTCAGTAATTTTGTAAACC
1 AAGGGTATTTTAGTAATTTTGTAAATC
*
16478758 AATGGTATTTCTA-TAATTTT-TAGAAAGTC
1 AAGGGTATTT-TAGTAATTTTGT--AAA-TC
* *
16478787 AAGGGTATTTCT-GTAACTTTGTAAATT
1 AAGGGTATTT-TAGTAATTTTGTAAATC
* * ** *
16478814 AGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTTAGTAATTTTGTAAATC
* * * *** *
16478841 GAGGGT-TTTTCGGCAATTTCACAAACC
1 AAGGGTATTTT-AGTAATTTTGTAAATC
16478868 AAGGGTATTTTAGTAATTTTGTAAATC
1 AAGGGTATTTTAGTAATTTTGTAAATC
* **** *
16478895 GAGGGTAAAACAGTAATTCTGTAAATC
1 AAGGGTATTTTAGTAATTTTGTAAATC
**** * *
16478922 AAGGGTAAAACAGTAATTCTATAAATC
1 AAGGGTATTTTAGTAATTTTGTAAATC
*** * *
16478949 AAGGGTAAAATAGTAATTCTATAAATC
1 AAGGGTATTTTAGTAATTTTGTAAATC
16478976 AAGGGTA
1 AAGGGTA
16478983 AAACAATAAT
Statistics
Matches: 184, Mismatches: 32, Indels: 18
0.79 0.14 0.08
Matches are distributed among these distances:
26 6 0.03
27 148 0.80
28 11 0.06
29 18 0.10
30 1 0.01
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (27 bp):
AAGGGTATTTTAGTAATTTTGTAAATC
Found at i:16479522 original size:27 final size:27
Alignment explanation
Indices: 16478880--16479515 Score: 639
Period size: 27 Copynumber: 23.6 Consensus size: 27
16478870 GGGTATTTTA
* * *
16478880 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
16478907 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTATGTAAATCAAGGGTAAAACG
* * **
16478934 GTAATTCTATAAATCAAGGGTAAAATA
1 GTAATTATGTAAATCAAGGGTAAAACG
* * *
16478961 GTAATTCTATAAATCAAGGGTAAAACA
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
16478988 ATAATTCA-GTAAATCGAGGGTAAAACG
1 GTAATT-ATGTAAATCAAGGGTAAAACG
* * * *
16479015 ATAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* * *
16479042 ATAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* * *
16479069 GTAATTATGTAAATTAAGGGTAAGACA
1 GTAATTATGTAAATCAAGGGTAAAACG
* * *
16479096 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
16479123 ATAATTATGTAAATCAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
16479150 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* * *
16479177 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* * *
16479204 ATAATTATGTAAATCAGGGGTAAAATG
1 GTAATTATGTAAATCAAGGGTAAAACG
*
16479231 GTAATTATGTAAAT-TAGAGGTAAAACG
1 GTAATTATGTAAATCAAG-GGTAAAACG
* *
16479258 GTAATTCTGTAAGTCAAGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* * * *
16479285 ATAATTATGTAAATTAGGGGTAAAATG
1 GTAATTATGTAAATCAAGGGTAAAACG
* * *
16479312 GTAATTATGTAAATTAGGGGTAAAACA
1 GTAATTATGTAAATCAAGGGTAAAACG
* * **
16479339 GTAATTCTGTAAGTTGAGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
16479366 ATAATTATGTAAATCAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
*
16479393 GTAATTATGTAAAT-TAGGTGTAAAACG
1 GTAATTATGTAAATCAAGG-GTAAAACG
* * * *
16479420 GTAATTCTGTAAGTCGAGGGTAATACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* * * *
16479447 ATAATTATGTAAATCAGGGGTAAATCA
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
16479474 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
*
16479501 GTAATTCTGTAAATC
1 GTAATTATGTAAATC
16479516 GGGGGTACTT
Statistics
Matches: 510, Mismatches: 93, Indels: 12
0.83 0.15 0.02
Matches are distributed among these distances:
26 3 0.01
27 502 0.98
28 5 0.01
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.29
Consensus pattern (27 bp):
GTAATTATGTAAATCAAGGGTAAAACG
Found at i:16479533 original size:81 final size:81
Alignment explanation
Indices: 16478881--16479522 Score: 914
Period size: 81 Copynumber: 7.9 Consensus size: 81
16478871 GGTATTTTAG
* * * * * * *
16478881 TAATTTTGTAAATC-GAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
1 TAATTATGTAAATCAG-GGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTA
* * *
16478945 AATCAAGGGTAAAA-TA
65 AGTCGAGGGTAAAACGA
* * * ** * *
16478961 GTAATTCTATAAATCAAGGGTAAAACAATAATTCA-GTAAA-TCGAGGGTAAAACGATAATTCTG
1 -TAATTATGTAAATCAGGGGTAAAACGGTAATT-ATGTAAATTAG-GGGTAAAACGGTAATTCTG
16479024 TAAGTCGAGGGTAAAACGA
63 TAAGTCGAGGGTAAAACGA
* * * *
16479043 TAATTATGTAAATTAGGGGTAAAACGGTAATTATGTAAATTAAGGGTAAGACAGTAATTCTGTAA
1 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
16479108 GTCGAGGGTAAAACGA
66 GTCGAGGGTAAAACGA
16479124 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
1 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
16479189 GTCGAGGGTAAAACGA
66 GTCGAGGGTAAAACGA
* *
16479205 TAATTATGTAAATCAGGGGTAAAATGGTAATTATGTAAATTAGAGGTAAAACGGTAATTCTGTAA
1 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
*
16479270 GTCAAGGGTAAAACGA
66 GTCGAGGGTAAAACGA
* * *
16479286 TAATTATGTAAATTAGGGGTAAAATGGTAATTATGTAAATTAGGGGTAAAACAGTAATTCTGTAA
1 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
*
16479351 GTTGAGGGTAAAACGA
66 GTCGAGGGTAAAACGA
*
16479367 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGTGTAAAACGGTAATTCTGTAA
1 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
*
16479432 GTCGAGGGTAATACGA
66 GTCGAGGGTAAAACGA
* *
16479448 TAATTATGTAAATCAGGGGTAAATCAGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
1 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
* *
16479513 ATCGGGGGTA
66 GTCGAGGGTA
16479523 CTTTAGTAAT
Statistics
Matches: 507, Mismatches: 48, Indels: 12
0.89 0.08 0.02
Matches are distributed among these distances:
80 1 0.00
81 504 0.99
82 2 0.00
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.29
Consensus pattern (81 bp):
TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
GTCGAGGGTAAAACGA
Found at i:16479549 original size:27 final size:27
Alignment explanation
Indices: 16479519--16479617 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 27
16479509 GTAAATCGGG
*
16479519 GGTACTTT-AGTAATTTTACAAGTCGAA
1 GGTA-TTTCAGTAATTTTACAAATCGAA
* * *
16479546 GGTATTTCGGTAAATTTACAAATCGAG
1 GGTATTTCAGTAATTTTACAAATCGAA
* *
16479573 GGTATTTCAGTATTTTTACAAA-CTAA
1 GGTATTTCAGTAATTTTACAAATCGAA
*
16479599 GGGTATTTCGGTAATTTTA
1 -GGTATTTCAGTAATTTTA
16479618 GTAAACTAAA
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
26 5 0.08
27 54 0.92
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
GGTATTTCAGTAATTTTACAAATCGAA
Found at i:16479557 original size:54 final size:53
Alignment explanation
Indices: 16479511--16479615 Score: 133
Period size: 54 Copynumber: 2.0 Consensus size: 53
16479501 GTAATTCTGT
* *
16479511 AAATCGGGGGTACTTT-AGTAATTTTACAAGTCGAA-GGTATTTCGGTAAATTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGGGTATTTCGGT-AATTTAC
* *
16479565 AAATCGAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTTCGGTAATTT
1 AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCGGTAATTT
16479616 TAGTAAACTA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
53 11 0.24
54 34 0.76
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.37
Consensus pattern (53 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCGGTAATTTAC
Found at i:16479631 original size:27 final size:27
Alignment explanation
Indices: 16479527--16479632 Score: 74
Period size: 27 Copynumber: 3.9 Consensus size: 27
16479517 GGGGTACTTT
* *
16479527 AGTAATTTTACAAGTCGAAG-GTATTTC
1 AGTAATTTTACAA-ACTAAGAGTATTTC
* * * *
16479554 GGTAAATTTACAAA-TCGAGGGTATTTC
1 AGTAATTTTACAAACT-AAGAGTATTTC
* *
16479581 AGTATTTTTACAAACTAAGGGTATTTC
1 AGTAATTTTACAAACTAAGAGTATTTC
* *
16479608 GGTAATTTTAGTAAACTAA-AGTATT
1 AGTAATTTTA-CAAACTAAGAGTATT
16479633 CTAAATAGGG
Statistics
Matches: 62, Mismatches: 13, Indels: 8
0.75 0.16 0.10
Matches are distributed among these distances:
26 2 0.03
27 52 0.84
28 8 0.13
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (27 bp):
AGTAATTTTACAAACTAAGAGTATTTC
Found at i:16483211 original size:45 final size:45
Alignment explanation
Indices: 16483147--16483238 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
16483137 ACCACTTCGG
16483147 TAAGGGGGAGGGGTTGTAGGACCTCTGACTCGACTTTCTTATACA
1 TAAGGGGGAGGGGTTGTAGGACCTCTGACTCGACTTTCTTATACA
16483192 TAAGGGGGAGGGGTTGTAGGACCTCTGACTCGACTTTCTTATACA
1 TAAGGGGGAGGGGTTGTAGGACCTCTGACTCGACTTTCTTATACA
16483237 TA
1 TA
16483239 CACATATGAC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.29
Consensus pattern (45 bp):
TAAGGGGGAGGGGTTGTAGGACCTCTGACTCGACTTTCTTATACA
Found at i:16485176 original size:30 final size:30
Alignment explanation
Indices: 16485142--16485201 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
16485132 ATTTAATACG
16485142 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
16485172 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
16485202 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:16490159 original size:46 final size:48
Alignment explanation
Indices: 16490103--16490212 Score: 120
Period size: 50 Copynumber: 2.3 Consensus size: 48
16490093 GATGTGTGTG
*
16490103 GGACAT-GCATCAGCTAC-GAGATGT-GTG-AGTGAAAGACCATGTCTA
1 GGACATGGCATCAGC-ACGGAGATGTAGAGCAGTGAAAGACCATGTCTA
* * *
16490148 GGACATGGCATCGGCACGGAGATGTGAGAGCTAGTGTAAGACCATGTCTG
1 GGACATGGCATCAGCACGGAGATGT-AGAGC-AGTGAAAGACCATGTCTA
*
16490198 GGACATGGCGTCAGC
1 GGACATGGCATCAGC
16490213 CTTGATTTTG
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
45 8 0.15
46 14 0.26
48 2 0.04
50 29 0.55
ACGTcount: A:0.27, C:0.19, G:0.34, T:0.20
Consensus pattern (48 bp):
GGACATGGCATCAGCACGGAGATGTAGAGCAGTGAAAGACCATGTCTA
Found at i:16490297 original size:47 final size:47
Alignment explanation
Indices: 16490130--16490308 Score: 191
Period size: 47 Copynumber: 3.7 Consensus size: 47
16490120 GAGATGTGTG
* * * * * *
16490130 AGTGAAAGACCATGTCTAGGACATGGCATCGGCAC-GGAGATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTTGA-TTG-GATAGCC
* * * *
16490180 AGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTTGATTTTGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGA-TTGGATAGCC
16490229 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTG-TTGGATAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATTGGAT-AGCC
16490276 AGTGTAAGACCATGTCTGGGACATGGCATCGAC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC
16490309 ATTACACCAT
Statistics
Matches: 111, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
46 5 0.05
47 36 0.32
48 5 0.05
49 34 0.31
50 31 0.28
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATTGGATAGCC
Found at i:16495415 original size:49 final size:49
Alignment explanation
Indices: 16495357--16495590 Score: 288
Period size: 49 Copynumber: 4.7 Consensus size: 49
16495347 ATCTGGTAAG
16495357 CATAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACA
* * ** * *
16495406 CGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACC-AATTATCCGGTACA
* * * * **
16495456 CGTAGTAGCCTGCACTTAGTACTACACATATGATCGAAGTTATCGGGTATG
1 CATAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATCCGGTACA
** * *
16495507 CATAGTAGCCTGCACTTAGTACTACACATACGACCGATAATCCGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACA
*
16495556 CATAGTAGCCTGCACTTAGTACTACACACGTGACC
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACC
16495591 TCACAATAGA
Statistics
Matches: 156, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
49 73 0.47
50 45 0.29
51 38 0.24
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
CATAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACA
Found at i:16506004 original size:48 final size:47
Alignment explanation
Indices: 16505940--16506138 Score: 197
Period size: 48 Copynumber: 4.1 Consensus size: 47
16505930 CCAATATAAA
*
16505940 ACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAG
1 ACCATGTTTGG-ACATGGCATCGGCATCGTTATGAGAGCTAGTGTAAG
* ** * * *
16505988 ACCATGTCTAGGACATGGCATCAGGC-TCAATA-CATGAGCCAGTGTCAG
1 ACCATGT-TTGGACATGGCATC-GGCATCGTTATGA-GAGCTAGTGTAAG
* * *
16506036 ACCATGTTTGGAACATGGCATCGACATTGTTATGTGAGC-AGTGTAAG
1 ACCATGTTTGG-ACATGGCATCGGCATCGTTATGAGAGCTAGTGTAAG
* * *
16506083 ACCATGTTTGGGCATGGCATCAGCACCGATGTATGAGAGCTAGTGTAAG
1 ACCATGTTTGGACATGGCATCGGCATCG-T-TATGAGAGCTAGTGTAAG
16506132 ACCATGT
1 ACCATGT
16506139 CCGGCTTATC
Statistics
Matches: 121, Mismatches: 21, Indels: 17
0.76 0.13 0.11
Matches are distributed among these distances:
46 12 0.10
47 25 0.21
48 63 0.52
49 21 0.17
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.26
Consensus pattern (47 bp):
ACCATGTTTGGACATGGCATCGGCATCGTTATGAGAGCTAGTGTAAG
Found at i:16506138 original size:96 final size:96
Alignment explanation
Indices: 16505926--16506105 Score: 265
Period size: 96 Copynumber: 1.9 Consensus size: 96
16505916 GGGTTATGTG
* * * *
16505926 TGAGCCAATATAAAACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAGACC
1 TGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGTTATGAGAGCTAGTGTAAGACC
*
16505991 ATGTCTAGGACATGGCATCAGGCTCAATACA
66 ATGTCTAGGACATGGCATCAGGCCCAATACA
* *
16506022 TGAGCCAGTGTCAGACCATGTTTGGAACATGGCATCGACATTGTTATGTGAGC-AGTGTAAGACC
1 TGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGTTATGAGAGCTAGTGTAAGACC
* *
16506086 ATGT-TTGGGCATGGCATCAG
66 ATGTCTAGGACATGGCATCAG
16506106 CACCGATGTA
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
94 14 0.18
95 15 0.20
96 47 0.62
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (96 bp):
TGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGTTATGAGAGCTAGTGTAAGACC
ATGTCTAGGACATGGCATCAGGCCCAATACA
Found at i:16517736 original size:57 final size:59
Alignment explanation
Indices: 16517613--16517740 Score: 138
Period size: 58 Copynumber: 2.2 Consensus size: 59
16517603 CTCATTACAG
* * * * * *
16517613 AAAGGATTTAGCCCGGACGAGTAATCCTGATATAAGTCCTCTCGAGCATATGTTATGGA
1 AAAGGATTTAGCCCAGACGAGTAATCCAGATACAAGTCCTCTAGAGCATATGTCATGAA
* * *
16517672 ATA-GATTTAGCCCAGACGGGTAATTCAGAT-CAAGCTCCT-TAGAGCATATGTCAT-AA
1 AAAGGATTTAGCCCAGACGAGTAATCCAGATACAAG-TCCTCTAGAGCATATGTCATGAA
16517728 AAAGGATTTAGCC
1 AAAGGATTTAGCC
16517741 GGGACTGGTA
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
56 3 0.05
57 25 0.44
58 27 0.47
59 2 0.04
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.27
Consensus pattern (59 bp):
AAAGGATTTAGCCCAGACGAGTAATCCAGATACAAGTCCTCTAGAGCATATGTCATGAA
Found at i:16520200 original size:27 final size:27
Alignment explanation
Indices: 16520150--16520201 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
16520140 TTTTATATTA
*
16520150 ATTAATAAAGGTTATATATGTAAAATG
1 ATTAATAAAGGTTATATATATAAAATG
*
16520177 ATTAAT-AATGTTATATAATATAAAA
1 ATTAATAAAGGTTATAT-ATATAAAA
16520202 CCTAAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (27 bp):
ATTAATAAAGGTTATATATATAAAATG
Found at i:16521160 original size:56 final size:56
Alignment explanation
Indices: 16521097--16521206 Score: 184
Period size: 56 Copynumber: 2.0 Consensus size: 56
16521087 CCATGGCATT
* *
16521097 GATATATGTGTGCGAGTAAGACCATGTTTAATACATTGGCATCGATATGTGATTCC
1 GATATATGTGTGCGAGTAAGACCATGTCTAATACATTGGCATCAATATGTGATTCC
* *
16521153 GATATATGTGTGCGAGTAAGACCATGTCTAGTACGTTGGCATCAATATGTGATT
1 GATATATGTGTGCGAGTAAGACCATGTCTAATACATTGGCATCAATATGTGATT
16521207 ATATGTAAGA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.34
Consensus pattern (56 bp):
GATATATGTGTGCGAGTAAGACCATGTCTAATACATTGGCATCAATATGTGATTCC
Found at i:16526093 original size:3 final size:3
Alignment explanation
Indices: 16526085--16526128 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
16526075 TCGGCTTTAG
16526085 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
16526129 GTACCAAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:16530000 original size:27 final size:27
Alignment explanation
Indices: 16529950--16530001 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
16529940 TTTTATATTA
*
16529950 ATTAATAAAGGTTATATATGTAAAATG
1 ATTAATAAAGGTTATATATATAAAATG
*
16529977 ATTAAT-AATGTTATATAATATAAAA
1 ATTAATAAAGGTTATAT-ATATAAAA
16530002 CATAAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (27 bp):
ATTAATAAAGGTTATATATATAAAATG
Found at i:16530982 original size:56 final size:56
Alignment explanation
Indices: 16530906--16531060 Score: 204
Period size: 56 Copynumber: 2.8 Consensus size: 56
16530896 TATATGTGTA
* *
16530906 CGAGTAAGACCATGTTTAATACGTTGGCATCGATATGTGATT-TCGAGATATGCATG
1 CGAGTAAGACCACGTTTAATACATTGGCATCGATATGTGATTAT-GAGATATGCATG
* * **
16530962 CGAGTAAGACCACATTTAATACATTGGCATCGATATGTGATTATGATATATGTGTG
1 CGAGTAAGACCACGTTTAATACATTGGCATCGATATGTGATTATGAGATATGCATG
* * * *
16531018 CAAGTAAGACCACGTCTAGTACATTGGCATCAATATGTGATTA
1 CGAGTAAGACCACGTTTAATACATTGGCATCGATATGTGATTA
16531061 CATGTAAGAC
Statistics
Matches: 87, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
56 86 0.99
57 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.32
Consensus pattern (56 bp):
CGAGTAAGACCACGTTTAATACATTGGCATCGATATGTGATTATGAGATATGCATG
Found at i:16533431 original size:42 final size:41
Alignment explanation
Indices: 16533324--16533479 Score: 145
Period size: 42 Copynumber: 3.7 Consensus size: 41
16533314 AACTTGTACA
* * * *
16533324 ATGCCAACGTCCTAGATGTGGTCTTACACGTAATTAAATATG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-AAATCAATATG
* ** *
16533366 ATGGCATTGTCCCAGACAG-GGTCTTATACGAAATCAACTATG
1 ATGCCAACGTCCCAGAC-GTGGTCTTACACGAAATCAA-TATG
* *
16533408 ATGCCAACATCCTAGACGTGGTCTTACACGTAAATC-ATAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-AAATCAAT-A-T-G
16533452 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
16533480 TGATAACACA
Statistics
Matches: 91, Mismatches: 16, Indels: 12
0.76 0.13 0.10
Matches are distributed among these distances:
41 7 0.08
42 50 0.55
43 7 0.08
44 27 0.30
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (41 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAATATG
Found at i:16538463 original size:6 final size:6
Alignment explanation
Indices: 16538454--16538491 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
16538444 AAAAATAATT
*
16538454 CAAGTC CAAGTC CAAATC CAAGTC CAAGTC CAAGTC CA
1 CAAGTC CAAGTC CAAGTC CAAGTC CAAGTC CAAGTC CA
16538492 TAACTGAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.37, C:0.34, G:0.13, T:0.16
Consensus pattern (6 bp):
CAAGTC
Found at i:16541864 original size:27 final size:27
Alignment explanation
Indices: 16541832--16541901 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
16541822 TGACAACTAA
*
16541832 GAATAGCCTTTATGGTGAACTCTAAAT
1 GAATAGCCTTTATGGCGAACTCTAAAT
* *
16541859 GAATAGCCTTTGTGGCGAACTCTAAAA
1 GAATAGCCTTTATGGCGAACTCTAAAT
*
16541886 GAGATA-CCTTTGTGGC
1 GA-ATAGCCTTTATGGC
16541902 AATTTCTGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
27 36 0.92
28 3 0.08
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (27 bp):
GAATAGCCTTTATGGCGAACTCTAAAT
Found at i:16546569 original size:23 final size:23
Alignment explanation
Indices: 16546533--16546687 Score: 98
Period size: 23 Copynumber: 6.8 Consensus size: 23
16546523 AGACATTGCA
* * *
16546533 AATACGGCACAAAGGCATTATAG
1 AATACGCCAAAAAGGCATTACAG
* * * * *
16546556 AATATGCCAAAAAGGTAATGCAA
1 AATACGCCAAAAAGGCATTACAG
* * * *
16546579 AATACGAC-ACAAGGCATTATAA
1 AATACGCCAAAAAGGCATTACAG
*
16546601 AATACGCCACAAAGGCATTACAG
1 AATACGCCAAAAAGGCATTACAG
* **
16546624 AATACGCAAAAAAGGCATTTTAG
1 AATACGCCAAAAAGGCATTACAG
** * * *
16546647 AATATTCC-ACAATGTATTACAG
1 AATACGCCAAAAAGGCATTACAG
*
16546669 AATACGCCACAAAGGCATT
1 AATACGCCAAAAAGGCATT
16546688 GCAAAGTATG
Statistics
Matches: 92, Mismatches: 38, Indels: 4
0.69 0.28 0.03
Matches are distributed among these distances:
22 31 0.34
23 61 0.66
ACGTcount: A:0.46, C:0.19, G:0.16, T:0.19
Consensus pattern (23 bp):
AATACGCCAAAAAGGCATTACAG
Found at i:16546594 original size:45 final size:45
Alignment explanation
Indices: 16546532--16546651 Score: 123
Period size: 45 Copynumber: 2.6 Consensus size: 45
16546522 AAGACATTGC
* * *
16546532 AAATACGGCACAAAGGCATTATAGAATATGCCAAAAAGGTAATGCA
1 AAATACGACAC-AAGGCATTATAGAATATGCCAAAAAGGCAATACA
* * * *
16546578 AAATACGACACAAGGCATTATAAAATACGCCACAAAGGCATTACA
1 AAATACGACACAAGGCATTATAGAATATGCCAAAAAGGCAATACA
* * * *
16546623 GAATACGCAAAAAAGGCATTTTAGAATAT
1 AAATACG-ACACAAGGCATTATAGAATAT
16546652 TCCACAATGT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
45 34 0.57
46 26 0.43
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.18
Consensus pattern (45 bp):
AAATACGACACAAGGCATTATAGAATATGCCAAAAAGGCAATACA
Found at i:16546602 original size:22 final size:23
Alignment explanation
Indices: 16546519--16546642 Score: 83
Period size: 23 Copynumber: 5.5 Consensus size: 23
16546509 AAAACTGACA
* * *
16546519 ACAAAGACATTGC-AAATACGGC
1 ACAAAGGCATTACAAAATACGAC
* * * *
16546541 ACAAAGGCATTATAGAATATGCC
1 ACAAAGGCATTACAAAATACGAC
* * * *
16546564 AAAAAGGTAATGCAAAATACGAC
1 ACAAAGGCATTACAAAATACGAC
* *
16546587 AC-AAGGCATTATAAAATACGCC
1 ACAAAGGCATTACAAAATACGAC
*
16546609 ACAAAGGCATTACAGAATACG-C
1 ACAAAGGCATTACAAAATACGAC
*
16546631 AAAAAAGGCATT
1 -ACAAAGGCATT
16546643 TTAGAATATT
Statistics
Matches: 76, Mismatches: 23, Indels: 5
0.73 0.22 0.05
Matches are distributed among these distances:
22 28 0.37
23 48 0.63
ACGTcount: A:0.48, C:0.19, G:0.17, T:0.16
Consensus pattern (23 bp):
ACAAAGGCATTACAAAATACGAC
Found at i:16546658 original size:68 final size:68
Alignment explanation
Indices: 16546532--16546687 Score: 168
Period size: 68 Copynumber: 2.3 Consensus size: 68
16546522 AAGACATTGC
* * * * *
16546532 AAATACGGCACAAAGGCATTATAGAATATGCCAAAAAGGTAATGCAAAATACGACACAAGGCATT
1 AAATACGCCACAAAGGCATTACAGAATACGCAAAAAAGGCAATGCAAAATACGACACAAGGCATT
*
16546597 ATA
66 ACA
* ** * *** * *
16546600 AAATACGCCACAAAGGCATTACAGAATACGCAAAAAAGGCATTTTAGAATATTCCACAATGTATT
1 AAATACGCCACAAAGGCATTACAGAATACGCAAAAAAGGCAATGCAAAATACGACACAAGGCATT
16546665 ACA
66 ACA
*
16546668 GAATACGCCACAAAGGCATT
1 AAATACGCCACAAAGGCATT
16546688 GCAAAGTATG
Statistics
Matches: 72, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
68 72 1.00
ACGTcount: A:0.46, C:0.19, G:0.16, T:0.19
Consensus pattern (68 bp):
AAATACGCCACAAAGGCATTACAGAATACGCAAAAAAGGCAATGCAAAATACGACACAAGGCATT
ACA
Found at i:16546702 original size:45 final size:45
Alignment explanation
Indices: 16546617--16546703 Score: 113
Period size: 45 Copynumber: 1.9 Consensus size: 45
16546607 CCACAAAGGC
** *
16546617 ATTACAGAATACGCAAAAAAGGCATTTTAGAATATTCCACAATGT
1 ATTACAGAATACGCAAAAAAGGCATTGCAGAATATGCCACAATGT
* *
16546662 ATTACAGAATACGCCACAAAGGCATTGCA-AAGTATGCCACAA
1 ATTACAGAATACGCAAAAAAGGCATTGCAGAA-TATGCCACAA
16546704 GGGCTTTTCA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
44 2 0.06
45 34 0.94
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.22
Consensus pattern (45 bp):
ATTACAGAATACGCAAAAAAGGCATTGCAGAATATGCCACAATGT
Found at i:16548587 original size:44 final size:41
Alignment explanation
Indices: 16548521--16548642 Score: 147
Period size: 44 Copynumber: 2.9 Consensus size: 41
16548511 CAATATGTGT
* **
16548521 TTTCGTGTAAGATCACATCTGGGACGTTGGCATCGACTTATGA
1 TTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGA-TT-TGA
*
16548564 TTTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGA
1 TTT-CGTGTAAGACCATGTCTGGGACGTTGGCATCG-ATTTGA
* *
16548607 TTTCGTGTAAGACCCTGTCTGGGAAG-TGGCATCGAT
1 TTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGAT
16548643 ATTTGGTTAC
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
40 2 0.03
41 8 0.11
42 20 0.29
43 9 0.13
44 30 0.43
45 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (41 bp):
TTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGATTTGA
Found at i:16548627 original size:42 final size:42
Alignment explanation
Indices: 16548521--16548662 Score: 146
Period size: 42 Copynumber: 3.3 Consensus size: 42
16548511 CAATATGTGT
* * *
16548521 TTTCGTGTAAGATCAC-ATCTGGGACGTTGGCATCG-ACTTATGA
1 TTTCGTGTAAGA-CCCTGTCTGGGACATTGGCATCGTA-TT-TGA
*
16548564 TTTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGA
1 TTT-CGTGTAAGACCCTGTCTGGGACATTGGCATCGTATTTGA
* *
16548607 TTTCGTGTAAGACCCTGTCTGGGA-AGTGGCATCGATATTTGG
1 TTTCGTGTAAGACCCTGTCTGGGACATTGGCATCG-TATTTGA
* *
16548649 TTACATGTAAGACC
1 TTTCGTGTAAGACC
16548663 ACATCTAAGA
Statistics
Matches: 86, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
41 9 0.10
42 38 0.44
43 10 0.12
44 28 0.33
45 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (42 bp):
TTTCGTGTAAGACCCTGTCTGGGACATTGGCATCGTATTTGA
Found at i:16549437 original size:22 final size:24
Alignment explanation
Indices: 16549412--16549456 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 24
16549402 GTTTTTGGCT
16549412 TATGGAATG-ACATGA-ATTGGTA
1 TATGGAATGAACATGATATTGGTA
**
16549434 TATGTTATGAACATGATATTGGT
1 TATGGAATGAACATGATATTGGT
16549457 TGATTCATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
23 6 0.32
24 6 0.32
ACGTcount: A:0.33, C:0.04, G:0.24, T:0.38
Consensus pattern (24 bp):
TATGGAATGAACATGATATTGGTA
Found at i:16553278 original size:43 final size:43
Alignment explanation
Indices: 16553208--16553290 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 43
16553198 ATCGACATCG
* * * *
16553208 TATTTGATTTCGTGTAAGACCCTATCTGGGATAGTGGCATCAA
1 TATTTGATTACATGTAAGACACTATCTGGGACAGTGGCATCAA
*
16553251 TATTTGATTACATGTAAGATCAC-ATCTGGGACATTGGCAT
1 TATTTGATTACATGTAAGA-CACTATCTGGGACAGTGGCAT
16553291 TGTATGAGCT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 32 0.94
44 2 0.06
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.35
Consensus pattern (43 bp):
TATTTGATTACATGTAAGACACTATCTGGGACAGTGGCATCAA
Found at i:16556539 original size:39 final size:40
Alignment explanation
Indices: 16556426--16556608 Score: 167
Period size: 40 Copynumber: 4.6 Consensus size: 40
16556416 TCGAATGATG
* * *
16556426 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAA
* * * * *
16556466 TCCGGACTAGGAT-CCGAAGTCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTACTAAA
*
16556506 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
* * * *
16556545 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTA-AA
* **
16556586 -CCGAGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
16556609 TGAGCGAGTC
Statistics
Matches: 115, Mismatches: 23, Indels: 10
0.78 0.16 0.07
Matches are distributed among these distances:
39 32 0.28
40 74 0.64
41 9 0.08
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
Found at i:16556569 original size:79 final size:80
Alignment explanation
Indices: 16556426--16556577 Score: 202
Period size: 79 Copynumber: 1.9 Consensus size: 80
16556416 TCGAATGATG
* * * *
16556426 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGTCATTC
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
16556491 GTGCGAGTTAATAAA
66 GTGCGAGTTAATAAA
* **
16556506 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
16556568 TCGTGCGAGT
64 TCGTGCGAGT
16556578 CACTATAACC
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
78 1 0.02
79 44 0.70
80 18 0.29
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATAAA
Found at i:16564435 original size:26 final size:25
Alignment explanation
Indices: 16564381--16564448 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
16564371 GCTGGAACGG
* *
16564381 TGCTCACACAAGCTATAAATATATA
1 TGCTCACACAAGCTGTAAATATAGA
16564406 TGCTCACACAAGCTGTAAA-ATAGA
1 TGCTCACACAAGCTGTAAATATAGA
**
16564430 CCTGCTCACATGAGCTGTA
1 --TGCTCACACAAGCTGTA
16564449 GGTCAGGATG
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
24 4 0.11
25 18 0.49
26 15 0.41
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.25
Consensus pattern (25 bp):
TGCTCACACAAGCTGTAAATATAGA
Found at i:16567751 original size:59 final size:58
Alignment explanation
Indices: 16567655--16567786 Score: 228
Period size: 59 Copynumber: 2.3 Consensus size: 58
16567645 AAAATTGTAC
*
16567655 AGCACTAAGTGTGTGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATAT
* *
16567713 AGCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATATAGCACTAAGTGTGCGAACTGAAAATATAT
16567772 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
16567787 GATTCACTAT
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
58 22 0.31
59 48 0.69
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (58 bp):
AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATAT
Found at i:16567775 original size:88 final size:89
Alignment explanation
Indices: 16567625--16567786 Score: 254
Period size: 88 Copynumber: 1.8 Consensus size: 89
16567615 GACAAGATTG
* * * *
16567625 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGTGAACTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
16567690 AAGTGTGCGAACTGAAAATATATA
66 AAGTGTGCGAACTGAAAATATATA
* * *
16567714 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
16567778 AAGTGTGCG
66 AAGTGTGCG
16567787 GATTCACTAT
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
88 51 0.77
89 15 0.23
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (89 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
AAGTGTGCGAACTGAAAATATATA
Found at i:16567798 original size:29 final size:29
Alignment explanation
Indices: 16567655--16567786 Score: 228
Period size: 29 Copynumber: 4.5 Consensus size: 29
16567645 AAAATTGTAC
* *
16567655 AGCACTAAGTGTGTGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
*
16567684 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
16567713 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
16567743 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
16567772 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
16567787 GATTCACTAT
Statistics
Matches: 100, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
29 71 0.71
30 29 0.29
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:16571770 original size:46 final size:46
Alignment explanation
Indices: 16571715--16571895 Score: 224
Period size: 46 Copynumber: 3.9 Consensus size: 46
16571705 TAGGATGGTT
*
16571715 GAGCATCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
16571761 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
16571807 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
16571854 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
16571896 GCGGGTTACA
Statistics
Matches: 115, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 70 0.61
47 33 0.29
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:16571876 original size:93 final size:93
Alignment explanation
Indices: 16571717--16571887 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
16571707 GGATGGTTGA
* *
16571717 GCATCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
16571782 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
16571810 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
16571875 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
16571888 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:16579106 original size:49 final size:49
Alignment explanation
Indices: 16579045--16579225 Score: 190
Period size: 49 Copynumber: 3.7 Consensus size: 49
16579035 CTGGTACGCA
**
16579045 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATTGTTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATAATTGTTACACG
* * * * * * *
16579094 TAGTAGCTTGCACTTAGTACTACACACGTGA-TTGAAGTTATCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA-TAAT-TGTTACACG
* * *
16579145 TAGTAGCCTGCACTTAGTGCTACACATGCGACC-AATAATTCGTTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATAATT-GTTACACG
16579194 TAGTAGCCTGCACTTAGTACT--ACACGTGACCT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
16579226 CACAATAGAT
Statistics
Matches: 105, Mismatches: 21, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
47 8 0.08
48 1 0.01
49 60 0.57
50 4 0.04
51 32 0.30
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATAATTGTTACACG
Found at i:16579190 original size:100 final size:100
Alignment explanation
Indices: 16579032--16579218 Score: 295
Period size: 100 Copynumber: 1.9 Consensus size: 100
16579022 TAGCCAAAGC
* * *
16579032 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATTGTTACACGTAG
1 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATTGTTACACGTAG
*
16579097 TAGCTTGCACTTAGTACTACACACGTGATTGAAGT
66 TAGCCTGCACTTAGTACTACACACGTGATTGAAGT
* * *
16579132 TATCAGGTACGCATAGTAGCCTGCACTTAGTGCTACACATGCGACC-AATAATTCGTTACACGTA
1 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATT-GTTACACGTA
16579196 GTAGCCTGCACTTAGTACTACAC
65 GTAGCCTGCACTTAGTACTACAC
16579219 GTGACCTCAC
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
99 5 0.06
100 74 0.94
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (100 bp):
TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATTGTTACACGTAG
TAGCCTGCACTTAGTACTACACACGTGATTGAAGT
Found at i:16582555 original size:27 final size:26
Alignment explanation
Indices: 16582525--16582580 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 26
16582515 ACATAGCTTA
*
16582525 AATGTGTCTAGTTTA-GGACATCAATTT
1 AATGTGTCTAGCTTAGGGACA--AATTT
16582552 AATGTGTCTAGCTTAGGGACAAATTT
1 AATGTGTCTAGCTTAGGGACAAATTT
16582578 AAT
1 AAT
16582581 TGTTGCTGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 8 0.30
27 14 0.52
28 5 0.19
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.38
Consensus pattern (26 bp):
AATGTGTCTAGCTTAGGGACAAATTT
Found at i:16585864 original size:49 final size:49
Alignment explanation
Indices: 16585700--16585882 Score: 213
Period size: 49 Copynumber: 3.7 Consensus size: 49
16585690 CTGGTATGCA
* ** * *
16585700 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATAATCCGGTACACG
* * * * * *
16585750 TAGTAGCCTGCACTTAGTACTACACACGGGATCGAAATTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAATAATCCGGTACACG
* *
16585801 TAGTAGCCTACACTTAGTACTACACATGCGACCAATAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATAATCCGGTACACG
*
16585850 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
16585883 TTACAATAGA
Statistics
Matches: 112, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
49 42 0.38
50 31 0.28
51 39 0.35
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATAATCCGGTACACG
Found at i:16585871 original size:100 final size:101
Alignment explanation
Indices: 16585687--16585877 Score: 294
Period size: 101 Copynumber: 1.9 Consensus size: 101
16585677 TAGCAAAAGC
* * * * * *
16585687 TATCTGGTATGCATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTA
1 TATCGGGTACGCATAGTAGCCTACACTTAGTACTACACACGCGACCTAACAATCCGATACACGTA
16585752 GTAGCCTGCACTTAGTACTACACACGGGATCGAAAT
66 GTAGCCTGCACTTAGTACTACACACGGGATCGAAAT
* * *
16585788 TATCGGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACC-AATAATCCGGTACACGTA
1 TATCGGGTACGCATAGTAGCCTACACTTAGTACTACACACGCGACCTAACAATCCGATACACGTA
16585852 GTAGCCTGCACTTAGTACTACACACG
66 GTAGCCTGCACTTAGTACTACACACG
16585878 TGACCTTACA
Statistics
Matches: 81, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
100 40 0.49
101 41 0.51
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.25
Consensus pattern (101 bp):
TATCGGGTACGCATAGTAGCCTACACTTAGTACTACACACGCGACCTAACAATCCGATACACGTA
GTAGCCTGCACTTAGTACTACACACGGGATCGAAAT
Found at i:16595559 original size:38 final size:35
Alignment explanation
Indices: 16595500--16595600 Score: 129
Period size: 31 Copynumber: 2.9 Consensus size: 35
16595490 TCAATCATGC
*
16595500 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
16595539 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
16595570 ACTGGGCCGAAGCCTTTTCATATTTCATATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATT
16595601 ACTGGGCCAA
Statistics
Matches: 57, Mismatches: 1, Indels: 12
0.81 0.01 0.17
Matches are distributed among these distances:
31 27 0.47
33 3 0.05
34 1 0.02
36 1 0.02
38 14 0.25
39 11 0.19
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.40
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:16595561 original size:31 final size:31
Alignment explanation
Indices: 16595523--16595617 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
16595513 CCTTTTCATA
*
16595523 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
16595554 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
*
16595585 TTTCATATTTCATATTACTGGGCCAAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
16595616 TT
1 TT
16595618 ACTGTAAACG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:16595859 original size:24 final size:24
Alignment explanation
Indices: 16595808--16595926 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
16595798 GCTTTATCAT
*
16595808 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
16595833 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
16595857 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
16595880 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
16595904 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
16595927 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
23 23 0.26
24 52 0.60
25 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:16595887 original size:47 final size:48
Alignment explanation
Indices: 16595808--16595926 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
16595798 GCTTTATCAT
*
16595808 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCA
* **
16595857 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
16595904 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
16595927 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 44 0.68
48 9 0.14
49 12 0.18
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
Found at i:16596002 original size:20 final size:20
Alignment explanation
Indices: 16595977--16596036 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
16595967 TATGATTACC
16595977 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
16595997 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
16596017 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
16596037 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:16596111 original size:25 final size:25
Alignment explanation
Indices: 16596079--16596126 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
16596069 ATACATAAAC
* * *
16596079 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
16596104 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
16596127 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:16598333 original size:92 final size:93
Alignment explanation
Indices: 16598222--16598391 Score: 306
Period size: 92 Copynumber: 1.8 Consensus size: 93
16598212 GCCCATAAGT
* *
16598222 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTC-GACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
16598286 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
16598314 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
16598379 CGAGTTCGGATGC
66 CGAGTTCGGATGC
16598392 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 49 0.66
93 25 0.34
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Done.