Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 138 of 345
Found at i:46698839 original size:47 final size:48
Alignment explanation
Indices: 46698760--46699085 Score: 258
Period size: 48 Copynumber: 6.8 Consensus size: 48
46698750 TTGGGTGATA
*
46698760 TGAGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATG
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATG
** * * * * *
46698808 TGAGAGCTGGTGTAA-ACCATGTTTGGAACATGGCATCGGCGATGTTG
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATG
* *
46698855 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGATA
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CGATG
* * * *
46698903 TGTGCA-CTAGAT-TAAGACCATGTCTAGGACATGGCATCGGCCAC-ATTA
1 TGAG-AGCCAG-TGTAAGACCATGTCTGGGACATGGCATCGGCCACGA-TG
* * * * * *
46698951 TGAAAGCCAGTGTAAGACCATGTCTGGGAGATTGCTTTGG-CATTGA-G
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CGATG
* * *
46698998 ATGAGAGCTAGTGTAAGACCATGTCTTGGACATGGCATCGATCTCAAC-ATG
1 -TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG-GC-C-ACGATG
* * **
46699049 T--GTGCCAGTGTAAGACCATGTTTGAAACATGGCATCG
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
46699086 ACAGTTCATC
Statistics
Matches: 218, Mismatches: 44, Indels: 32
0.74 0.15 0.11
Matches are distributed among these distances:
47 46 0.21
48 162 0.74
49 5 0.02
50 2 0.01
51 2 0.01
52 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.25
Consensus pattern (48 bp):
TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATG
Found at i:46698970 original size:96 final size:96
Alignment explanation
Indices: 46698765--46699037 Score: 340
Period size: 96 Copynumber: 2.9 Consensus size: 96
46698755 TGATATGAGT
* * *
46698765 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CGATGTGAGAGCTGGTGTAA-ACCAT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGATATGAGAGCTAGTGTAAGACCAT
* ** * *
46698828 GT-TTGGAACATGGCATCGGCGATGTTGTGAGA
65 GTCTTGG-ACATGGCATCGGCCACATTATGAAA
*
46698860 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGCA-CTAGAT-TAAGACCA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGAG-AGCTAG-TGTAAGACCA
*
46698923 TGTCTAGGACATGGCATCGGCCACATTATGAAA
64 TGTCTTGGACATGGCATCGGCCACATTATGAAA
* * * * *
46698956 GCCAGTGTAAGACCATGTCTGGGAGATTGCTTTGGCATTGAGATGAGAGCTAGTGTAAGACCATG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGAGAGCTAGTGTAAGACCATG
46699021 TCTTGGACATGGCATCG
66 TCTTGGACATGGCATCG
46699038 ATCTCAACAT
Statistics
Matches: 154, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
94 2 0.01
95 49 0.32
96 100 0.65
97 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (96 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGAGAGCTAGTGTAAGACCATG
TCTTGGACATGGCATCGGCCACATTATGAAA
Found at i:46699037 original size:144 final size:143
Alignment explanation
Indices: 46698772--46699037 Score: 349
Period size: 144 Copynumber: 1.9 Consensus size: 143
46698762 AGTGCCAGTG
* * * ** *
46698772 TAAGACCATGTCTGGGACATGGCATCGGCCACGATGTGAGAGCTGGTGTAAACCATGTTTGGAAC
1 TAAGACCATGTCTAGGACATGGCATCGGCCACGATATGAAAGCCAGTGTAAACCATGTCTGGAAC
*
46698837 ATGGCATCGGCGATGTTGTGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAT
66 ATGGCATCGGCGATGTAGTGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAT
46698902 ATGTGCACTAGAT
131 ATGTGCACTAGAT
*
46698915 TAAGACCATGTCTAGGACATGGCATCGGCCAC-ATTATGAAAGCCAGTGTAAGACCATGTCTGGG
1 TAAGACCATGTCTAGGACATGGCATCGGCCACGA-TATGAAAGCCAGTGTAA-ACCATGTCTGGA
* * * * * *
46698979 AGATTGCTTTGGC-AT-TGAGATGAGAGCTAGTGTAAGACCATGTCTTGGACATGGCATCG
64 ACATGGCATCGGCGATGT-AG-TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
46699038 ATCTCAACAT
Statistics
Matches: 105, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
142 2 0.02
143 47 0.45
144 56 0.53
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (143 bp):
TAAGACCATGTCTAGGACATGGCATCGGCCACGATATGAAAGCCAGTGTAAACCATGTCTGGAAC
ATGGCATCGGCGATGTAGTGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAT
ATGTGCACTAGAT
Found at i:46699063 original size:144 final size:143
Alignment explanation
Indices: 46698763--46699069 Score: 338
Period size: 144 Copynumber: 2.1 Consensus size: 143
46698753 GGTGATATGA
* * * **
46698763 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATGTGAGAGCTGGTGTAAACCAT
1 GTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCACGATATGAAAGCCAGTGTAAACCAT
* *
46698828 GTTTGGAACATGGCATCGGCGATGTTGTGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
66 GTCTGGAACATGGCATCGGCGATGTAGTGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
* *
46698893 GGCATTGATATGT
131 GGCATTAACATGT
** *
46698906 GCACTAGAT-TAAGACCATGTCTAGGACATGGCATCGGCCAC-ATTATGAAAGCCAGTGTAAGAC
1 GTGCCAG-TGTAAGACCATGTCTAGGACATGGCATCGGCCACGA-TATGAAAGCCAGTGTAA-AC
* * * * * * *
46698969 CATGTCTGGGAGATTGCTTTGGC-AT-TGAGATGAGAGCTAGTGTAAGACCATGTCTTGGACATG
63 CATGTCTGGAACATGGCATCGGCGATGT-AG-TGAGAGCCAGTGTAAGACCATGTCTGGGACATG
46699032 GCATC-G-ATCTCAACATGT
126 GCATCGGCAT-T-AACATGT
46699050 GTGCCAGTGTAAGACCATGT
1 GTGCCAGTGTAAGACCATGT
46699070 TTGAAACATG
Statistics
Matches: 134, Mismatches: 22, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
142 4 0.03
143 54 0.40
144 76 0.57
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (143 bp):
GTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCACGATATGAAAGCCAGTGTAAACCAT
GTCTGGAACATGGCATCGGCGATGTAGTGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
GGCATTAACATGT
Found at i:46704179 original size:13 final size:13
Alignment explanation
Indices: 46704161--46704200 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
46704151 TCTAAGTAGG
46704161 GTCACACAACCGT
1 GTCACACAACCGT
46704174 GTCACACAACCGT
1 GTCACACAACCGT
46704187 GT-AC-CAAGCCGT
1 GTCACACAA-CCGT
46704199 GT
1 GT
46704201 AACTCTCTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 3 0.12
12 8 0.31
13 15 0.58
ACGTcount: A:0.28, C:0.35, G:0.20, T:0.17
Consensus pattern (13 bp):
GTCACACAACCGT
Found at i:46704242 original size:12 final size:12
Alignment explanation
Indices: 46704225--46704250 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
46704215 CCCAACACAC
46704225 CCGTGTGCTAGG
1 CCGTGTGCTAGG
46704237 CCGTGTGCTAGG
1 CCGTGTGCTAGG
46704249 CC
1 CC
46704251 ATGTAACTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.31, G:0.38, T:0.23
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:46707979 original size:46 final size:46
Alignment explanation
Indices: 46707912--46708083 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
46707902 TGTAACCCGC
* *
46707912 CCATAAGCGAACTCAGACTCAACTCAACGAGCTTGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTTGGACGTTCGCAT
* * * *
46707958 CCATAAGTGAACTTGGACTCAACTCAACGAGCTTGAATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTTG---GAC--GTTCGCAT
* * *
46708008 -C-TCA-CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTTGGACGTTCGCAT
* *
46708051 CCATAAGTGAACTCGGACCCAACTCAACGAGCT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCT
46708084 CGAATGCCCA
Statistics
Matches: 102, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 3 0.03
45 2 0.02
46 56 0.55
47 25 0.25
48 2 0.02
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTTGGACGTTCGCAT
Found at i:46708027 original size:93 final size:93
Alignment explanation
Indices: 46707919--46708091 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
46707909 CGCCCATAAG
* * * * *
46707919 CGAACTCAGACTCAACTCAACGAGCTTGGGCGTTCGCATCCATAAGTGAACTTGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACCCAACTCA
*
46707984 ACGAGCTTGAATGCCTAGTTACATCTCA
66 ACGAGCTCGAATGCCTAGTTACATCTCA
*
46708012 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACCCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACCCAACTCA
46708077 ACGAGCTCGAATGCC
66 ACGAGCTCGAATGCC
46708092 CAAATATCCT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACCCAACTCA
ACGAGCTCGAATGCCTAGTTACATCTCA
Found at i:46714053 original size:57 final size:57
Alignment explanation
Indices: 46713989--46714102 Score: 210
Period size: 57 Copynumber: 2.0 Consensus size: 57
46713979 ATGGCCTTAT
*
46713989 ACCAAATAAATCAAATATCAATATAAGTCAATTTACATGGCTTCACATTACATCAAA
1 ACCAAATAAATCAAATATCAATATAAGCCAATTTACATGGCTTCACATTACATCAAA
*
46714046 ACCAAATAAATCAAATATCAATATAAGCCAATTTACATGGCTTCACATTTCATCAAA
1 ACCAAATAAATCAAATATCAATATAAGCCAATTTACATGGCTTCACATTACATCAAA
46714103 CCCTTAACCA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.46, C:0.20, G:0.05, T:0.28
Consensus pattern (57 bp):
ACCAAATAAATCAAATATCAATATAAGCCAATTTACATGGCTTCACATTACATCAAA
Found at i:46717184 original size:26 final size:26
Alignment explanation
Indices: 46717155--46717257 Score: 172
Period size: 26 Copynumber: 4.0 Consensus size: 26
46717145 ATTCCCATCT
46717155 TGGAACATTTACCTAAACCATTATCA
1 TGGAACATTTACCTAAACCATTATCA
*
46717181 TGGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAAACCATTATCA
* *
46717207 TGGAATATTTACCTAATCCATTATCA
1 TGGAACATTTACCTAAACCATTATCA
46717233 TGGAACATTTACCT-AACCATTATCA
1 TGGAACATTTACCTAAACCATTATCA
46717258 ATTTGTACCA
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
25 10 0.14
26 62 0.86
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.33
Consensus pattern (26 bp):
TGGAACATTTACCTAAACCATTATCA
Found at i:46721142 original size:28 final size:28
Alignment explanation
Indices: 46721072--46721160 Score: 96
Period size: 28 Copynumber: 3.3 Consensus size: 28
46721062 GATATGACAT
*
46721072 TGTGCTAAGTGAAATAAGACCATGG---
1 TGTGCTAAGTGAAATAAGTCCATGGAAA
* * *
46721097 TAT-CGAAGTGAAATAAGTCTATGGAAA
1 TGTGCTAAGTGAAATAAGTCCATGGAAA
* *
46721124 TGTGCTAAGTGAAATAAGTCCATGGCAT
1 TGTGCTAAGTGAAATAAGTCCATGGAAA
46721152 TGTGCTAAG
1 TGTGCTAAG
46721161 CGAGAAATTT
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
24 18 0.35
25 2 0.04
27 2 0.04
28 29 0.57
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.27
Consensus pattern (28 bp):
TGTGCTAAGTGAAATAAGTCCATGGAAA
Found at i:46721272 original size:51 final size:51
Alignment explanation
Indices: 46721187--46721382 Score: 295
Period size: 51 Copynumber: 3.8 Consensus size: 51
46721177 TGAACCTTAG
*
46721187 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCTACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCAACTTTGT
* * * * * *
46721238 GAATATAATAGCTTTGGGCACAAGTCTGGCACTATGTGAAGACCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCAACTTTGT
46721289 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCAACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCAACTTTGT
* *
46721340 GAATAAAATAGCTTTGG-CTACAAGGGTGGTACTATGTTAAGGC
1 GAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGC
46721383 CACCGTGTAT
Statistics
Matches: 130, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
50 1 0.01
51 129 0.99
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.30
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCAACTTTGT
Found at i:46732975 original size:32 final size:32
Alignment explanation
Indices: 46732939--46733004 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
46732929 TTTTTTACAA
*
46732939 AGCCTTTAGATAAAGAGGGATTTTGGATAATT
1 AGCCTTTAGATAAAGAGAGATTTTGGATAATT
*
46732971 AGCCTTTAGATAAGGAGAGATTTTGGATAATT
1 AGCCTTTAGATAAAGAGAGATTTTGGATAATT
46733003 AG
1 AG
46733005 GGAGAGTTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.35, C:0.06, G:0.26, T:0.33
Consensus pattern (32 bp):
AGCCTTTAGATAAAGAGAGATTTTGGATAATT
Found at i:46735263 original size:37 final size:37
Alignment explanation
Indices: 46735200--46735308 Score: 155
Period size: 37 Copynumber: 2.9 Consensus size: 37
46735190 AGCTCAGATG
* * *
46735200 AAATCTCCACACGAAGTTATCCGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCAGGTCTTACCCGGACA
46735237 AAATCTCCACACGTAGTCATCAGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCAGGTCTTACCCGGACA
* * * *
46735274 TAATCTCAACACGTAATCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCAGGTCTTACCCGGA
46735309 ATATATTTCC
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCAGGTCTTACCCGGACA
Found at i:46735509 original size:48 final size:48
Alignment explanation
Indices: 46735450--46736218 Score: 1385
Period size: 48 Copynumber: 16.0 Consensus size: 48
46735440 GATACACACG
* * * *
46735450 TCTCCTACATATTTCACACTAGCCCTTCGGCTTTACCACATATACGTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
46735498 TCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
* *
46735546 TCTCATATATATTTCACATTAGCCATTCGGCTTTATCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
46735594 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
46735642 TCTCATACATATTTCACATTAGCCATTCTGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
46735690 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
46735738 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACCTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
* *
46735786 TCTCATACATATTTTACATTAGCCATTCGGCTTTACCACATATACCTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
* *
46735834 TCTCATACATATTTCACATTAACCATTCGGCATTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
46735882 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACCTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
46735930 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
46735978 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATT
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
46736026 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
46736074 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACCTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
46736122 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACCTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
46736170 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
46736218 T
1 T
46736219 ATTTATTTAT
Statistics
Matches: 697, Mismatches: 24, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 697 1.00
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (48 bp):
TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
Found at i:46739978 original size:42 final size:42
Alignment explanation
Indices: 46739803--46740706 Score: 1265
Period size: 42 Copynumber: 22.0 Consensus size: 42
46739793 CCGAATACAC
* * * *
46739803 ATCACCAGCATGATTGCTCTTCGGGACCTAGCCCGG--ATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
* * *
46739843 AACACCAGCATGAATGCTCTTCGGGACTTAGCCCGG--ATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
*
46739883 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCTGG--ATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
* *
46739923 AACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
*
46739965 ATCACTAGCACGAATGCTCTTCAGGACTTAGCCC-GCTATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
*
46740006 ATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGG--ATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
* * * * *
46740046 AACACCAGCATGAATGCTCTTCGGGGCTTAGCCCGACTATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
46740088 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGG--ATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
* * *
46740128 AACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGTTATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
* *
46740170 ATCACTAGCACAAATGCTCTTCGGGGCTTAGCCCGGCTATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
*
46740212 ATCACTAGCACGAATGCTCTTCGGGGCTTAGCCCGGCTATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
*
46740254 ATCACTAGCACGAATGCTCTTCGGGGCTTAGCCCGGCTATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
*
46740296 ATCACTAGCACGAATGCTCTTCGGGACATAGCCCGG--ATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
* * * *
46740336 AACACCAGCACGGATGCTCTTCGGGGCTTAGCCCGGCTATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
* *
46740378 ATCACTAGCACGAATGCTCTTCAGGACTTAGACCGG--ATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
* * *
46740418 AACACCAGCACGAATGCTCTTCGGGGCTTAGCCCGGCTATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
*
46740460 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGG--AAAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
* * *
46740500 AACACCAGCACGAATGCTCTTCGAGACTTAGCCCGGCTATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
46740542 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGG--ATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
* * *
46740582 AACACCAGCACGAATGCTCTTCGGGGCTTAGCCCGGCTATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
46740624 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGG--ATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
* * *
46740664 AACACCAGCACGAATGCTCTTCGGGACTTAGCCCAGCTATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
46740706 A
1 A
46740707 ACTCTCAATT
Statistics
Matches: 775, Mismatches: 72, Indels: 32
0.88 0.08 0.04
Matches are distributed among these distances:
40 358 0.46
41 39 0.05
42 378 0.49
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (42 bp):
ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
Found at i:46740110 original size:82 final size:80
Alignment explanation
Indices: 46739803--46740706 Score: 1238
Period size: 82 Copynumber: 11.0 Consensus size: 80
46739793 CCGAATACAC
* * * * *
46739803 ATCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAACACCAGCATGAATGCTCTTCGGG
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCC-GATATAACACCAGCACGAATGCTCTTCGGG
46739868 ACTTAGCCCGG-ATAT
65 ACTTAGCCCGGCATAT
*
46739883 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCTGGATATAACACCAGCACGAATGCTCTTCGGG
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCC-CGATATAACACCAGCACGAATGCTCTTCGGG
46739948 ACTTAGCCCGGCTATAT
65 ACTTAGCCCGGC-ATAT
* * * *
46739965 ATCACTAGCACGAATGCTCTTCAGGACTTAGCCCGCTATATATCACTAGCACGAATGCTCTTCGA
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCG--ATATAACACCAGCACGAATGCTCTTCGG
46740030 GACTTAGCCCGG-ATAT
64 GACTTAGCCCGGCATAT
* * * * *
46740046 AACACCAGCATGAATGCTCTTCGGGGCTTAGCCCGACTATATATCACTAGCACGAATGCTCTTCG
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGA-TATA-A-CACCAGCACGAATGCTCTTCG
46740111 GGACTTAGCCCGG-ATAT
63 GGACTTAGCCCGGCATAT
* * * * *
46740128 AACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGTTATATATCACTAGCACAAATGCTCTTCG
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCC-G--ATATAACACCAGCACGAATGCTCTTCG
*
46740193 GGGCTTAGCCCGGCTATAT
63 GGACTTAGCCCGGC-ATAT
* * *
46740212 ATCACTAGCACGAATGCTCTTCGGGGCTTAGCCCGGCTATATATCACTAGCACGAATGCTCTTCG
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCC-G--ATATAACACCAGCACGAATGCTCTTCG
*
46740277 GGGCTTAGCCCGGCTATAT
63 GGACTTAGCCCGGC-ATAT
* *
46740296 ATCACTAGCACGAATGCTCTTCGGGACATAGCCCGGATATAACACCAGCACGGATGCTCTTCGGG
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCC-GATATAACACCAGCACGAATGCTCTTCGGG
*
46740361 GCTTAGCCCGGCTATAT
65 ACTTAGCCCGGC-ATAT
* *
46740378 ATCACTAGCACGAATGCTCTTCAGGACTTAGACCGGATATAACACCAGCACGAATGCTCTTCGGG
1 ATCACTAGCACGAATGCTCTTCGGGACTTAG-CCCGATATAACACCAGCACGAATGCTCTTCGGG
*
46740443 GCTTAGCCCGGCTATAT
65 ACTTAGCCCGGC-ATAT
* *
46740460 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAAATAACACCAGCACGAATGCTCTTCGAG
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCC-GATATAACACCAGCACGAATGCTCTTCGGG
46740525 ACTTAGCCCGGCTATAT
65 ACTTAGCCCGGC-ATAT
46740542 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGG
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCC-GATATAACACCAGCACGAATGCTCTTCGGG
*
46740607 GCTTAGCCCGGCTATAT
65 ACTTAGCCCGGC-ATAT
46740624 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGG
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCC-GATATAACACCAGCACGAATGCTCTTCGGG
*
46740689 ACTTAGCCCAGCTATAT
65 ACTTAGCCCGGC-ATAT
46740706 A
1 A
46740707 ACTCTCAATT
Statistics
Matches: 762, Mismatches: 47, Indels: 28
0.91 0.06 0.03
Matches are distributed among these distances:
79 1 0.00
80 73 0.10
81 37 0.05
82 489 0.64
83 40 0.05
84 121 0.16
85 1 0.00
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (80 bp):
ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGATATAACACCAGCACGAATGCTCTTCGGGA
CTTAGCCCGGCATAT
Found at i:46742049 original size:37 final size:37
Alignment explanation
Indices: 46741987--46742128 Score: 214
Period size: 37 Copynumber: 3.8 Consensus size: 37
46741977 GCTCAGATGA
* * *
46741987 AATCTCCACACG-AAGTTATCCGGTCTTACCCGGACAA
1 AATCTCCACACGTAA-TCATCGGGTCTTACCCGGACAT
* *
46742024 AATCTCCACACGTACTCAGCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAATCATCGGGTCTTACCCGGACAT
*
46742061 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAATCATCGGGTCTTACCCGGACAT
46742098 AATCTCCACACGTAATCATCGGGTCTTACCC
1 AATCTCCACACGTAATCATCGGGTCTTACCC
46742129 AGAATATATT
Statistics
Matches: 96, Mismatches: 8, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
37 95 0.99
38 1 0.01
ACGTcount: A:0.26, C:0.34, G:0.17, T:0.23
Consensus pattern (37 bp):
AATCTCCACACGTAATCATCGGGTCTTACCCGGACAT
Found at i:46742332 original size:48 final size:48
Alignment explanation
Indices: 46742273--46742993 Score: 1289
Period size: 48 Copynumber: 15.0 Consensus size: 48
46742263 TATACACACG
* * * *
46742273 TCTCCTACATATTTCACACTAGCCCTTCGGCTTTACCACATATACGTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
46742321 TCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
* *
46742369 TCTCATATATATTTCACATTAGCCATTTGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
46742417 TCTCATAAATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
46742465 TCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
46742513 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
46742561 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
46742609 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACCTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
46742657 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACCTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
46742705 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
* *
46742753 TCTTATACATATTTCACATTAGCCATTCGACTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
46742801 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACCTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
* *
46742849 TCTCATACATATTTCACATTAACCATTCGACTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
46742897 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACCTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
46742945 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
46742993 T
1 T
46742994 ATTTATCTTG
Statistics
Matches: 649, Mismatches: 24, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 649 1.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
Found at i:46747571 original size:20 final size:20
Alignment explanation
Indices: 46747542--46747592 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
46747532 GTATCTATCT
*
46747542 GGTATCGATACT-TTTCTTAA
1 GGTATCGATA-TATTTCATAA
*
46747562 GGTATTGATATATTTCATAA
1 GGTATCGATATATTTCATAA
46747582 GGTATCGATAT
1 GGTATCGATAT
46747593 TCCTGCTCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 1 0.04
20 26 0.96
ACGTcount: A:0.29, C:0.10, G:0.18, T:0.43
Consensus pattern (20 bp):
GGTATCGATATATTTCATAA
Found at i:46761291 original size:28 final size:28
Alignment explanation
Indices: 46761248--46761302 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
46761238 TAGTAAGGAT
46761248 TAAGGAAATCACTGAATCAACATAATCA
1 TAAGGAAATCACTGAATCAACATAATCA
* *
46761276 TAAGGAAATCATTGAATCTACATAATC
1 TAAGGAAATCACTGAATCAACATAATC
46761303 CTGGACTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.25
Consensus pattern (28 bp):
TAAGGAAATCACTGAATCAACATAATCA
Found at i:46762345 original size:27 final size:28
Alignment explanation
Indices: 46762291--46762346 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
46762281 AAATAATTAT
* **
46762291 CTAATTATTTCACTTTTTTTTTGGTCAC
1 CTAATTATTTCACATTTTTTTTACTCAC
*
46762319 CTAATTATTTGA-ATTTTTTTTACTCAC
1 CTAATTATTTCACATTTTTTTTACTCAC
46762346 C
1 C
46762347 AACTATTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 13 0.54
28 11 0.46
ACGTcount: A:0.21, C:0.18, G:0.05, T:0.55
Consensus pattern (28 bp):
CTAATTATTTCACATTTTTTTTACTCAC
Found at i:46762668 original size:18 final size:18
Alignment explanation
Indices: 46762645--46762680 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
46762635 CTTTAGGCTT
46762645 TTAGGTGAAAGGGTCCAA
1 TTAGGTGAAAGGGTCCAA
46762663 TTAGGTGAAAGGGTCCAA
1 TTAGGTGAAAGGGTCCAA
46762681 AGAATAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.33, T:0.22
Consensus pattern (18 bp):
TTAGGTGAAAGGGTCCAA
Found at i:46764617 original size:12 final size:12
Alignment explanation
Indices: 46764596--46764628 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
46764586 TATTTAAGTA
46764596 TAAA-TTATTTT
1 TAAATTTATTTT
*
46764607 TTAATTTATTTT
1 TAAATTTATTTT
46764619 TAAATTTATT
1 TAAATTTATT
46764629 GAAAAATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 3 0.16
12 16 0.84
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TAAATTTATTTT
Found at i:46765367 original size:18 final size:19
Alignment explanation
Indices: 46765344--46765385 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
46765334 TGTTTTAAAG
46765344 TTTATAG-T-TTAATTTTAT
1 TTTATAGTTATTAATTTT-T
46765362 TTTATAGTTATTAATTTTT
1 TTTATAGTTATTAATTTTT
46765381 TTTAT
1 TTTAT
46765386 CTTTTAAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.32
19 7 0.32
20 8 0.36
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (19 bp):
TTTATAGTTATTAATTTTT
Found at i:46769038 original size:15 final size:15
Alignment explanation
Indices: 46769014--46769061 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
46769004 AGGAAACCGA
46769014 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
46769029 ATAGAGAAATCC-AG
1 ATAAAGAAATCCAAG
*
46769043 AATAAAGAAACCCAAG
1 -ATAAAGAAATCCAAG
46769059 ATA
1 ATA
46769062 CGATACTATG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 2 0.07
15 24 0.86
16 2 0.07
ACGTcount: A:0.58, C:0.15, G:0.15, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:46777836 original size:19 final size:18
Alignment explanation
Indices: 46777802--46777868 Score: 56
Period size: 18 Copynumber: 3.9 Consensus size: 18
46777792 TCTTTCTAGT
46777802 TTATTTTTATTTATTAAA
1 TTATTTTTATTTATTAAA
*
46777820 TTA-TTTT-TCT-TT-AA
1 TTATTTTTATTTATTAAA
46777834 TTAATTTTTATTT-TTAAA
1 TT-ATTTTTATTTATTAAA
46777852 TTTATTATTT-TTTATTA
1 -TTATT-TTTATTTATTA
46777869 TCCCGGATCG
Statistics
Matches: 40, Mismatches: 2, Indels: 13
0.73 0.04 0.24
Matches are distributed among these distances:
14 4 0.10
15 3 0.08
16 6 0.15
17 8 0.20
18 11 0.28
19 8 0.20
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.70
Consensus pattern (18 bp):
TTATTTTTATTTATTAAA
Found at i:46777859 original size:15 final size:14
Alignment explanation
Indices: 46777804--46777863 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 14
46777794 TTTCTAGTTT
46777804 ATTTTTATTTATTAA
1 ATTTTTATTT-TTAA
46777819 ATTATTT-TTCTTTAATTA
1 ATT-TTTATT-TTT-A--A
46777837 ATTTTTATTTTTAA
1 ATTTTTATTTTTAA
46777851 ATTTATTATTTTT
1 ATTT-TTATTTTT
46777864 TATTATCCCG
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
14 5 0.13
15 15 0.39
16 6 0.16
17 6 0.16
18 6 0.16
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (14 bp):
ATTTTTATTTTTAA
Found at i:46778123 original size:16 final size:16
Alignment explanation
Indices: 46778099--46778193 Score: 59
Period size: 16 Copynumber: 5.5 Consensus size: 16
46778089 AATGGATAAA
*
46778099 TTATCTAATTAAA-ATT
1 TTATTTAATTAAATA-T
46778115 TTATTTAATTAAATAT
1 TTATTTAATTAAATAT
46778131 TTATTTAAATTTTAAAAATTAT
1 TTATTT-AA--TT--AAA-TAT
* * *
46778153 GATTATCTAATT-ATTTT
1 --TTATTTAATTAAATAT
46778170 TTATTTAATTAAATAT
1 TTATTTAATTAAATAT
46778186 TTATTTAA
1 TTATTTAA
46778194 ATTTTAAAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
15 9 0.15
16 30 0.48
17 5 0.08
18 1 0.02
19 2 0.03
21 5 0.08
22 3 0.05
23 2 0.03
24 5 0.08
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.56
Consensus pattern (16 bp):
TTATTTAATTAAATAT
Found at i:46778172 original size:55 final size:56
Alignment explanation
Indices: 46778098--46778214 Score: 191
Period size: 55 Copynumber: 2.1 Consensus size: 56
46778088 AAATGGATAA
**
46778098 ATTATCTAATTAAAATTTTATTTAATTAAATATTTATTTAAATTTTAAAAATTATG
1 ATTATCTAATTAAAATTTTATTTAATTAAATATTTATTTAAATTTTAAAAAACATG
**
46778154 ATTATCTAATT-ATTTTTTATTTAATTAAATATTTATTTAAATTTTAAAAAACATG
1 ATTATCTAATTAAAATTTTATTTAATTAAATATTTATTTAAATTTTAAAAAACATG
46778209 ATTATC
1 ATTATC
46778215 ATTATCTATT
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
55 46 0.81
56 11 0.19
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (56 bp):
ATTATCTAATTAAAATTTTATTTAATTAAATATTTATTTAAATTTTAAAAAACATG
Found at i:46780740 original size:33 final size:33
Alignment explanation
Indices: 46780681--46780750 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
46780671 ATCTATTCTA
* *
46780681 AAAAGAAAGGAGAAAACCTAATCTAAAAAAATG
1 AAAAGAAAAGAGAAAACCTAACCTAAAAAAATG
**
46780714 AAAAGAAAAGA-AAAACGCTAACCTAAAACTATG
1 AAAAGAAAAGAGAAAAC-CTAACCTAAAAAAATG
46780747 AAAA
1 AAAA
46780751 CCCAAGAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 5 0.16
33 27 0.84
ACGTcount: A:0.64, C:0.11, G:0.13, T:0.11
Consensus pattern (33 bp):
AAAAGAAAAGAGAAAACCTAACCTAAAAAAATG
Found at i:46783322 original size:15 final size:15
Alignment explanation
Indices: 46783302--46783330 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
46783292 TATTAGGGAC
46783302 TAAATCATAACTTTG
1 TAAATCATAACTTTG
46783317 TAAATCATAACTTT
1 TAAATCATAACTTT
46783331 TACAAACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.14, G:0.03, T:0.41
Consensus pattern (15 bp):
TAAATCATAACTTTG
Found at i:46794070 original size:25 final size:25
Alignment explanation
Indices: 46794041--46794088 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
46794031 TTATAACATG
* * *
46794041 AAAATGATCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
46794066 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
46794089 GTTTATGTAT
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:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:46794172 original size:11 final size:11
Alignment explanation
Indices: 46794136--46794191 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
46794126 CATGGTATGT
46794136 ATGATATGCAC
1 ATGATATGCAC
* *
46794147 ATGACATG--T
1 ATGATATGCAC
46794156 ATGATATGCAC
1 ATGATATGCAC
*
46794167 ATGATATG--T
1 ATGATATGCAC
46794176 ATGATATGCAC
1 ATGATATGCAC
46794187 ATGAT
1 ATGAT
46794192 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:46794191 original size:20 final size:20
Alignment explanation
Indices: 46794125--46794191 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
46794115 ATTTTGATAA
*
46794125 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
46794145 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
46794165 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
46794185 ACATGAT
1 ACATGAT
46794192 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:46794297 original size:24 final size:23
Alignment explanation
Indices: 46794241--46794406 Score: 244
Period size: 23 Copynumber: 7.0 Consensus size: 23
46794231 GAGGAAGTGA
46794241 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
46794264 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
46794287 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
46794311 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
46794335 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
46794358 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
46794382 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
46794406 A
1 A
46794407 TGATAAAGCA
Statistics
Matches: 132, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
23 64 0.48
24 58 0.44
25 10 0.08
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:46794357 original size:71 final size:70
Alignment explanation
Indices: 46794241--46794405 Score: 269
Period size: 71 Copynumber: 2.3 Consensus size: 70
46794231 GAGGAAGTGA
46794241 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCA
46794306 GTTATC
65 GTTATC
*
46794312 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTTTGCCCCAG
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAG
*
46794377 TTATT
66 TTATC
*
46794382 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
46794406 ATGATAAAGC
Statistics
Matches: 89, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
70 32 0.36
71 57 0.64
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (70 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAG
TTATC
Found at i:46794634 original size:31 final size:31
Alignment explanation
Indices: 46794599--46794662 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
46794589 CGTTTATAGT
*
46794599 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
46794630 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
46794661 AA
1 AA
46794663 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:46802257 original size:25 final size:25
Alignment explanation
Indices: 46802210--46802257 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
46802200 TTATAACATG
* * *
46802210 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
*
46802235 AAAATGACCATTATACCCTTAGG
1 AAAATGACCATTATACCCCTAGG
46802258 GTTTATGTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:46802341 original size:11 final size:11
Alignment explanation
Indices: 46802305--46802360 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
46802295 CATGGTATGT
46802305 ATGATATGCAC
1 ATGATATGCAC
* *
46802316 ATGACATG--T
1 ATGATATGCAC
46802325 ATGATATGCAC
1 ATGATATGCAC
*
46802336 ATGATATG--T
1 ATGATATGCAC
46802345 ATGATATGCAC
1 ATGATATGCAC
46802356 ATGAT
1 ATGAT
46802361 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:46802360 original size:20 final size:20
Alignment explanation
Indices: 46802294--46802360 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
46802284 ATTTTGATAA
*
46802294 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
46802314 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
46802334 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
46802354 ACATGAT
1 ACATGAT
46802361 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:46802466 original size:24 final size:23
Alignment explanation
Indices: 46802410--46802576 Score: 219
Period size: 24 Copynumber: 7.0 Consensus size: 23
46802400 GGGGAAGTGA
46802410 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
46802433 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
46802456 CAAAAGGGCTTATGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
*
46802481 AAAAGGGCTTACGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
46802504 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
* *
46802527 AAAAAGGGCTTTTGCCCCAATTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
*
46802552 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
46802576 A
1 A
46802577 TGATAAAGCA
Statistics
Matches: 127, Mismatches: 11, Indels: 11
0.85 0.07 0.07
Matches are distributed among these distances:
23 44 0.35
24 72 0.57
25 11 0.09
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:46802479 original size:47 final size:46
Alignment explanation
Indices: 46802410--46802575 Score: 217
Period size: 47 Copynumber: 3.5 Consensus size: 46
46802400 GGGGAAGTGA
46802410 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
*
46802456 CAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTAT
* * * *
46802504 TAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAATTATT
1 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTA-T
*
46802552 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
46802576 ATGATAAAGC
Statistics
Matches: 106, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
47 64 0.60
48 31 0.29
49 11 0.10
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (46 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:46802526 original size:71 final size:71
Alignment explanation
Indices: 46802410--46802575 Score: 262
Period size: 71 Copynumber: 2.3 Consensus size: 71
46802400 GGGGAAGTGA
* *
46802410 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
*
46802475 GTTATT
66 ATTATT
*
46802481 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
46802546 ATTATT
66 ATTATT
*
46802552 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTACGCC-CCAGTTAT
46802576 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
71 77 0.88
72 11 0.12
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (71 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
ATTATT
Found at i:46802804 original size:31 final size:31
Alignment explanation
Indices: 46802769--46802832 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
46802759 CGTTTATAGT
*
46802769 AAAGGCTTCGGCCCAATAATATGAAATTTGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
* **
46802800 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
46802831 AA
1 AA
46802833 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATAATATGAAATATGA
Found at i:46814393 original size:39 final size:40
Alignment explanation
Indices: 46814285--46814469 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
46814275 TCGAATGATG
* * *
46814285 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
46814325 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
46814365 TCCGGGCTAAG-CCTGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
46814404 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
46814445 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
46814470 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 34 0.27
40 81 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:46814491 original size:79 final size:78
Alignment explanation
Indices: 46814286--46814502 Score: 219
Period size: 79 Copynumber: 2.7 Consensus size: 78
46814276 CGAATGATGT
* *
46814286 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAG-TCCGAAGGCATT
*
46814349 TGTGCGAGTTACTAATT
62 TGTGCGAGTTACTAATA
* * *
46814366 CCGGGCTAAG-CCTGAAGGCATTGGTGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGT-CCGAAGGCATTT
*
46814429 GTGCGAGTTGCT-ATAA
63 GTGCGAGTTACTAAT-A
* ** *
46814445 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTT-AAGTCCGAAGG
46814503 TACGTGATTC
Statistics
Matches: 114, Mismatches: 14, Indels: 19
0.78 0.10 0.13
Matches are distributed among these distances:
78 3 0.03
79 66 0.58
80 45 0.39
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGTCCGAAGGCATTTGTG
CGAGTTACTAATA
Found at i:46816789 original size:16 final size:16
Alignment explanation
Indices: 46816743--46816789 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 16
46816733 ACAAAATTGG
46816743 AAAGATGAAAA-AT--
1 AAAGATGAAAATATAA
46816756 AAAGATGATAAATAATAA
1 AAAGATGA-AAAT-ATAA
46816774 AAAGATGAAAATATAA
1 AAAGATGAAAATATAA
46816790 TCATTTATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 8 0.28
14 3 0.10
16 6 0.21
17 4 0.14
18 8 0.28
ACGTcount: A:0.68, C:0.00, G:0.13, T:0.19
Consensus pattern (16 bp):
AAAGATGAAAATATAA
Found at i:46820604 original size:16 final size:16
Alignment explanation
Indices: 46820583--46820614 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
46820573 TTTAATTACC
46820583 CGATTTTACATATTTT
1 CGATTTTACATATTTT
46820599 CGATTTTACATATTTT
1 CGATTTTACATATTTT
46820615 ACTTACCCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.12, G:0.06, T:0.56
Consensus pattern (16 bp):
CGATTTTACATATTTT
Found at i:46827308 original size:59 final size:58
Alignment explanation
Indices: 46827231--46827342 Score: 174
Period size: 59 Copynumber: 1.9 Consensus size: 58
46827221 AAATCAGAAA
*
46827231 ATTTGAAGGCTTATGTTGGCTTAGTTGATGAATTATG-ATCAACATAATTCAAACCAACCC
1 ATTTGAAGGCTTATGTTGGCTTAGTTGATGAATCATGTATC-ACAT-ATT-AAACCAACCC
46827291 ATTT-AAGGCTTATGTTGGCTTAGTTGATGAATCATGTATCACATATTAAACC
1 ATTTGAAGGCTTATGTTGGCTTAGTTGATGAATCATGTATCACATATTAAACC
46827343 CATAATTCAA
Statistics
Matches: 50, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
57 5 0.10
58 3 0.06
59 35 0.70
60 7 0.14
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (58 bp):
ATTTGAAGGCTTATGTTGGCTTAGTTGATGAATCATGTATCACATATTAAACCAACCC
Found at i:46827665 original size:11 final size:11
Alignment explanation
Indices: 46827651--46827691 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
46827641 TATTTTCTCC
46827651 CTATTTTGCTA
1 CTATTTTGCTA
*
46827662 CTATTTTACTA
1 CTATTTTGCTA
* *
46827673 TTATGTTGCTA
1 CTATTTTGCTA
46827684 CTATTTTG
1 CTATTTTG
46827692 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:46827936 original size:12 final size:12
Alignment explanation
Indices: 46827913--46827946 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
46827903 TATATATTTT
46827913 AAAATT-ATATA
1 AAAATTAATATA
46827924 AAAATTAATATA
1 AAAATTAATATA
46827936 AAAATTAATAT
1 AAAATTAATAT
46827947 GGGCGGGCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 6 0.27
12 16 0.73
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:46828590 original size:43 final size:43
Alignment explanation
Indices: 46828525--46828691 Score: 173
Period size: 43 Copynumber: 3.9 Consensus size: 43
46828515 AGCTCGTACA
* * *
46828525 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
* * * * *
46828567 ATGCCACTGTCCCAGAC-TGGGTCTTACACT-AAATTGA-TTAACG
1 ATGCCAATGTCCCAGACAT-GGTCTTACA-TGTAA-TCACATATCG
* *
46828610 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCAATAT-G
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAC-ATATCG
46828653 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAT
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAT
46828692 CTCAATAACC
Statistics
Matches: 100, Mismatches: 17, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
42 9 0.09
43 85 0.85
44 6 0.06
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
Found at i:46828817 original size:10 final size:10
Alignment explanation
Indices: 46828802--46828826 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
46828792 CTTATTCGGC
46828802 ATTCATAGCA
1 ATTCATAGCA
46828812 ATTCATAGCA
1 ATTCATAGCA
46828822 ATTCA
1 ATTCA
46828827 ATGATAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (10 bp):
ATTCATAGCA
Found at i:46830727 original size:46 final size:46
Alignment explanation
Indices: 46830657--46830965 Score: 422
Period size: 46 Copynumber: 6.7 Consensus size: 46
46830647 TTCGACATGA
* * * * * *
46830657 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* ** *** *
46830703 TGCCATGGTATCATTCAACCATGGTCTTATTCATTTCCCCGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT-CATATCAGGT
* * *
46830750 TGCCATGGTATCTTTCAACCATGGTCTTAAACATTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
46830796 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
46830842 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
46830888 TGCCATGGTATCTTTCAACCACGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
46830934 TGCCATGGTAACTTTCAACCATGGTCTTACAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACAC
46830966 GTTTTCTATT
Statistics
Matches: 241, Mismatches: 20, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
45 3 0.01
46 199 0.83
47 39 0.16
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.37
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:46833144 original size:11 final size:11
Alignment explanation
Indices: 46833128--46833179 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
46833118 TATACTAAAT
46833128 AAATAATAATA
1 AAATAATAATA
*
46833139 AAATAAT-ATT
1 AAATAATAATA
* *
46833149 AAATATCTCATA
1 AAATA-ATAATA
*
46833161 AAATATTAATA
1 AAATAATAATA
46833172 AAATAATA
1 AAATAATA
46833180 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:46847114 original size:20 final size:20
Alignment explanation
Indices: 46847089--46847161 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
46847079 CAAATGTTCT
*
46847089 TTTAAATTGATTCATTATTA
1 TTTAAATCGATTCATTATTA
* **
46847109 TTTAAACCGATTGTTTATTA
1 TTTAAATCGATTCATTATTA
* **
46847129 TTTAAATCGATTCATTGTGG
1 TTTAAATCGATTCATTATTA
46847149 TTTAAATCGATTC
1 TTTAAATCGATTC
46847162 TTTTTTGGAT
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.30, C:0.10, G:0.11, T:0.49
Consensus pattern (20 bp):
TTTAAATCGATTCATTATTA
Found at i:46852906 original size:40 final size:40
Alignment explanation
Indices: 46852846--46853029 Score: 237
Period size: 40 Copynumber: 4.6 Consensus size: 40
46852836 TATTCGAATG
* *
46852846 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* * * *
46852886 ATATCTGGACTAAGATCCGAAGGCATTTGTG-TGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCT-AG-TGACT
* * *
46852926 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* *
46852966 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
46853006 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
46853030 CTTGTGCGAG
Statistics
Matches: 123, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
39 2 0.02
40 118 0.96
41 3 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
Found at i:46854980 original size:43 final size:43
Alignment explanation
Indices: 46854932--46855101 Score: 168
Period size: 43 Copynumber: 4.0 Consensus size: 43
46854922 GTTATTGAGA
* *
46854932 TGTGATTACATGTAAGACCATGTTTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATATCTGGGACATTGGCATTGTAT
* ** * *
46854975 TGTGATTACGTGTACA-ATGATGTCTGGGACATTGGCATCTTTAT
1 TGTGATTACATGTA-AGACCATATCTGGGACATTGGCAT-TGTAT
* * * *
46855019 T-TGATTTCATGTAAGACCCTATCTGGGACAGTGGCATCG-AT
1 TGTGATTACATGTAAGACCATATCTGGGACATTGGCATTGTAT
* *
46855060 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCATTGTA
1 -TGTGATTACATGTAAGACCATATCTGGGACATTGGCATTGTA
46855102 CGAGCTTTAT
Statistics
Matches: 102, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
41 2 0.02
42 9 0.09
43 85 0.83
44 6 0.06
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.35
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATATCTGGGACATTGGCATTGTAT
Found at i:46855623 original size:26 final size:26
Alignment explanation
Indices: 46855594--46855727 Score: 232
Period size: 26 Copynumber: 5.2 Consensus size: 26
46855584 TGGTACAAAT
46855594 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
46855620 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
46855646 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
46855672 TGATAATGGGTTACGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
46855698 TGATAATGGGTTACGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
46855724 TGAT
1 TGAT
46855728 GGGAATTTCA
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 103 1.00
ACGTcount: A:0.32, C:0.09, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:46857232 original size:26 final size:26
Alignment explanation
Indices: 46857169--46857244 Score: 89
Period size: 26 Copynumber: 2.8 Consensus size: 26
46857159 AAAAGCAGCT
* * * *
46857169 AAATTACTATAATACCCTTATGTATGGA
1 AAATTACTGTTATACCCTTA-G-GTGCA
46857197 AAATTACTGTTATACCCTTAGGTGCA
1 AAATTACTGTTATACCCTTAGGTGCA
*
46857223 AAATTACTGTTATACCCCTAGG
1 AAATTACTGTTATACCCTTAGG
46857245 GTTAATTTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 24 0.56
27 1 0.02
28 18 0.42
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.34
Consensus pattern (26 bp):
AAATTACTGTTATACCCTTAGGTGCA
Found at i:46857388 original size:27 final size:26
Alignment explanation
Indices: 46857348--46857488 Score: 183
Period size: 27 Copynumber: 5.2 Consensus size: 26
46857338 AGGAAGCGTC
*
46857348 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
46857375 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
46857402 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
46857429 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
46857456 CTGGTGGCTCTGCAACAATATCTGTAT
1 CTGGTGGCTCTGCCACATTATCTG-AT
46857483 CTGGTG
1 CTGGTG
46857489 ACTTCGTCAC
Statistics
Matches: 101, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
26 10 0.10
27 89 0.88
28 2 0.02
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:46857430 original size:54 final size:53
Alignment explanation
Indices: 46857348--46857488 Score: 228
Period size: 54 Copynumber: 2.6 Consensus size: 53
46857338 AGGAAGCGTC
46857348 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
46857402 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* * *
46857456 CTGGTGGCTCTGCAACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
46857489 ACTTCGTCAC
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 7 0.09
54 75 0.91
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:46857500 original size:27 final size:26
Alignment explanation
Indices: 46857348--46857506 Score: 146
Period size: 27 Copynumber: 5.9 Consensus size: 26
46857338 AGGAAGCGTC
*
46857348 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCT-CGCCACAA-TATCTGTAT
46857375 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTC-GCCACA-ATATCTGTAT
* *
46857402 CTGGTGGCTATGCCACGATTATCTG-AT
1 CTGGTGGCT-CGCCAC-AATATCTGTAT
46857429 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTC-GCCACA-ATATCTGTAT
*
46857456 CTGGTGGCTCTGCAACAATATCTGTAT
1 CTGGTGGCTC-GCCACAATATCTGTAT
* *
46857483 CTGGTGACTTCGTCACAATATCTG
1 CTGGTGGC-TCGCCACAATATCTG
46857507 GCAGCCTCGC
Statistics
Matches: 112, Mismatches: 9, Indels: 22
0.78 0.06 0.15
Matches are distributed among these distances:
26 9 0.08
27 99 0.88
28 4 0.04
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCGCCACAATATCTGTAT
Found at i:46859366 original size:31 final size:29
Alignment explanation
Indices: 46859318--46859386 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 29
46859308 GATATTTTGA
*
46859318 TATTTTA-TAATTATTTAATTAGATAAATAT
1 TATTTTATTAATTATTTAATAAGAT--ATAT
46859348 TATTTTATTAA-TACTTTAATAAGATATAT
1 TATTTTATTAATTA-TTTAATAAGATATAT
46859377 TATTATTATT
1 TATT-TTATT
46859387 TTATTAGTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 8 0.23
30 14 0.40
31 13 0.37
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (29 bp):
TATTTTATTAATTATTTAATAAGATATAT
Found at i:46862850 original size:103 final size:103
Alignment explanation
Indices: 46862662--46863028 Score: 596
Period size: 103 Copynumber: 3.6 Consensus size: 103
46862652 TAGCCGTTAT
* * * *
46862662 TGGTGGAT-CCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGTAACCCCTCGAGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
46862726 AATCAGCACATAGCAACCCCCTTTTTATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
46862764 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
46862829 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
46862867 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTC-GGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
46862931 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTT-TCATTTCAAAGATA
* * * **
46862970 TGGTGGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
46863029 TTTATATACA
Statistics
Matches: 251, Mismatches: 11, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
102 36 0.14
103 214 0.85
104 1 0.00
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (103 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
Found at i:46862929 original size:26 final size:26
Alignment explanation
Indices: 46862899--46862950 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
46862889 CACCAATGAA
*
46862899 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
46862925 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
46862951 CTTTCACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.23, T:0.13
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:46863387 original size:29 final size:29
Alignment explanation
Indices: 46863354--46863417 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
46863344 TAATCCACCA
46863354 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
46863383 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
46863413 CCCAA
1 CCCAA
46863418 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:46863391 original size:30 final size:30
Alignment explanation
Indices: 46863361--46863417 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
46863351 CCACCCAACT
46863361 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
46863390 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
46863418 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:46864397 original size:46 final size:46
Alignment explanation
Indices: 46864330--46864456 Score: 245
Period size: 46 Copynumber: 2.8 Consensus size: 46
46864320 TGGCAACCTG
46864330 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
*
46864376 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
46864422 TGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
46864457 AGATACCATG
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
Found at i:46864462 original size:15 final size:15
Alignment explanation
Indices: 46864442--46864471 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
46864432 CATGGTTGAA
46864442 AGATACCATGGCAAC
1 AGATACCATGGCAAC
46864457 AGATACCATGGCAAC
1 AGATACCATGGCAAC
46864472 GTGACATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.27, G:0.20, T:0.13
Consensus pattern (15 bp):
AGATACCATGGCAAC
Found at i:46864491 original size:61 final size:61
Alignment explanation
Indices: 46864396--46864518 Score: 192
Period size: 61 Copynumber: 2.0 Consensus size: 61
46864386 CATGGTTGAA
* * * **
46864396 AGATACCATGGCAACCTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 AGATACCATGGCAACCTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
*
46864457 AGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 AGATACCATGGCAACCTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
46864518 A
1 A
46864519 TGACAGAAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
61 56 1.00
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.19
Consensus pattern (61 bp):
AGATACCATGGCAACCTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:46864512 original size:46 final size:46
Alignment explanation
Indices: 46864457--46864561 Score: 149
Period size: 46 Copynumber: 2.3 Consensus size: 46
46864447 CCATGGCAAC
* *
46864457 AGATACCATGGCAACGTGACATGAAAA-GAATAAGACCATGGTTGAA
1 AGATACCATGGCAACATGACA-GAAAATGAATAAGACCATAGTTGAA
*
46864503 AGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAA
1 AGATACCATGGCAACATGACAGAAAATGAATAAGACCATAGTTGAA
* *
46864549 AGACACTATGGCA
1 AGATACCATGGCA
46864562 TCACGTCAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
45 5 0.09
46 48 0.91
ACGTcount: A:0.44, C:0.16, G:0.23, T:0.17
Consensus pattern (46 bp):
AGATACCATGGCAACATGACAGAAAATGAATAAGACCATAGTTGAA
Found at i:46864536 original size:107 final size:107
Alignment explanation
Indices: 46864350--46864561 Score: 300
Period size: 107 Copynumber: 2.0 Consensus size: 107
46864340 CATGGTTGAA
* * ** *
46864350 AGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA
1 AGATACCATGGCAACCTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGA
* * * * *
46864415 TATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 CATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
*
46864457 AGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGA
1 AGATACCATGGCAACCTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGA
*
46864522 CA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
66 CATG-AAATGAGTAAGACCATAGTTGAAAGACACCATGGCA
46864562 TCACGTCAAA
Statistics
Matches: 92, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
106 1 0.01
107 91 0.99
ACGTcount: A:0.40, C:0.17, G:0.24, T:0.20
Consensus pattern (107 bp):
AGATACCATGGCAACCTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGA
CATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
Found at i:46869136 original size:26 final size:26
Alignment explanation
Indices: 46869099--46869219 Score: 206
Period size: 26 Copynumber: 4.7 Consensus size: 26
46869089 ATTGATAATG
*
46869099 GGTAAATGTTCCATGATAATGGATTA
1 GGTAAATGTTCCATGATAATGGGTTA
*
46869125 GGTAAATATTCCATGATAATGGGTTA
1 GGTAAATGTTCCATGATAATGGGTTA
*
46869151 GGTAAATATTCCATGATAATGGGTTA
1 GGTAAATGTTCCATGATAATGGGTTA
46869177 GGTAAATGTTCCATGATAATGGGTTA
1 GGTAAATGTTCCATGATAATGGGTTA
*
46869203 CGTAAATGTTCCATGAT
1 GGTAAATGTTCCATGAT
46869220 GGGAATTTCA
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 91 1.00
ACGTcount: A:0.33, C:0.09, G:0.23, T:0.35
Consensus pattern (26 bp):
GGTAAATGTTCCATGATAATGGGTTA
Found at i:46870914 original size:54 final size:53
Alignment explanation
Indices: 46870832--46870969 Score: 195
Period size: 54 Copynumber: 2.5 Consensus size: 53
46870822 AAGCGTCCTA
* * *
46870832 GTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATTTATTTTG
1 GTGGCTATGCCAC-ATTATCTTATCTGGTGGCTCTGCCACATATATCTATTCTG
*
46870886 GTGGCTATGCCACGATTATCTTATCTGGTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTATGCCAC-ATTATCTTATCTGGTGGCTCTGCCACATATATCTATTCTG
* *
46870940 GTGGCTCTGCCACAATATCTGTATCTGGTG
1 GTGGCTATGCCACATTATCT-TATCTGGTG
46870970 ACTTCGTCAC
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
53 6 0.08
54 70 0.92
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.37
Consensus pattern (53 bp):
GTGGCTATGCCACATTATCTTATCTGGTGGCTCTGCCACATATATCTATTCTG
Found at i:46870980 original size:27 final size:27
Alignment explanation
Indices: 46870832--46870987 Score: 162
Period size: 27 Copynumber: 5.8 Consensus size: 27
46870822 AAGCGTCCTA
*
46870832 GTGGCTATGCCACAATTATCTG-ATCTG
1 GTGGCTCTGCCACAA-TATCTGTATCTG
*
46870859 GTGGCTCTGCCACATATAT-T-TATTTTG
1 GTGGCTCTGCCACA-ATATCTGTA-TCTG
* *
46870886 GTGGCTATGCCACGATTATCT-TATCTG
1 GTGGCTCTGCCAC-AATATCTGTATCTG
46870913 GTGGCTCTGCCACATATATCTGT-TCTG
1 GTGGCTCTGCCACA-ATATCTGTATCTG
46870940 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
* *
46870967 GTGACT-TCGTCACAATATCTG
1 GTGGCTCT-GCCACAATATCTG
46870988 GCAGCCTCGC
Statistics
Matches: 111, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
26 12 0.11
27 93 0.84
28 6 0.05
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTATCTG
Found at i:46876745 original size:34 final size:34
Alignment explanation
Indices: 46876707--46876777 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
46876697 ATTTAATCTC
46876707 AAAACACTTCAAATGAGATCATTTGACATTCATT
1 AAAACACTTCAAATGAGATCATTTGACATTCATT
46876741 AAAACACTTCAAATGAGATCATTTGACATTCATT
1 AAAACACTTCAAATGAGATCATTTGACATTCATT
46876775 AAA
1 AAA
46876778 CGTGTTTATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.31
Consensus pattern (34 bp):
AAAACACTTCAAATGAGATCATTTGACATTCATT
Found at i:46877664 original size:22 final size:22
Alignment explanation
Indices: 46877639--46877682 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
46877629 TAGCACAAAC
46877639 TAAAATCAAACTATTCCTCCAT
1 TAAAATCAAACTATTCCTCCAT
*
46877661 TAAAATCCAACTATTCCTCCAT
1 TAAAATCAAACTATTCCTCCAT
46877683 CACCTTAGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.30, G:0.00, T:0.32
Consensus pattern (22 bp):
TAAAATCAAACTATTCCTCCAT
Found at i:46879701 original size:14 final size:14
Alignment explanation
Indices: 46879682--46879709 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
46879672 AAATCATGTT
46879682 TAGAGATATTCTTA
1 TAGAGATATTCTTA
46879696 TAGAGATATTCTTA
1 TAGAGATATTCTTA
46879710 GGGGGTTTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (14 bp):
TAGAGATATTCTTA
Found at i:46882875 original size:4 final size:4
Alignment explanation
Indices: 46882833--46882867 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
46882823 AGATGCATGC
46882833 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
46882868 CATGCATGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:46882876 original size:12 final size:12
Alignment explanation
Indices: 46882829--46882876 Score: 69
Period size: 12 Copynumber: 4.0 Consensus size: 12
46882819 ATACAGATGC
46882829 ATGCATGTATGT
1 ATGCATGTATGT
*
46882841 ATGTATGTATGT
1 ATGCATGTATGT
*
46882853 ATGTATGTATGT
1 ATGCATGTATGT
*
46882865 ATGCATGCATGT
1 ATGCATGTATGT
46882877 CTTAGATATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.25, C:0.06, G:0.25, T:0.44
Consensus pattern (12 bp):
ATGCATGTATGT
Found at i:46885943 original size:26 final size:26
Alignment explanation
Indices: 46885920--46885973 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
46885910 TTTAATATGG
*
46885920 TTAAACCATTACAT-GATTATATATAA
1 TTAAAACATTACATAG-TTATATATAA
*
46885946 TTAAAATATTACATAGTTATATATAA
1 TTAAAACATTACATAGTTATATATAA
46885972 TT
1 TT
46885974 TAAATACCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.43
Consensus pattern (26 bp):
TTAAAACATTACATAGTTATATATAA
Found at i:46885978 original size:26 final size:26
Alignment explanation
Indices: 46885927--46885979 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
46885917 TGGTTAAACC
46885927 ATTACATGATTATATATAATTAAAAT
1 ATTACATGATTATATATAATTAAAAT
*
46885953 ATTACAT-AGTTATATATAATTTAAAT
1 ATTACATGA-TTATATATAATTAAAAT
46885979 A
1 A
46885980 CCCTAAGGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 1 0.04
26 24 0.96
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (26 bp):
ATTACATGATTATATATAATTAAAAT
Found at i:46887997 original size:39 final size:39
Alignment explanation
Indices: 46887939--46888055 Score: 135
Period size: 39 Copynumber: 3.0 Consensus size: 39
46887929 GAGTCACCTG
* * *
46887939 CTTCAACTTCACTGCTTAACAGTGCTAAACCGGACTCTA
1 CTTCAACTTCACTGGTTAACAATGCTAAACCAGACTCTA
* * *
46887978 CTTCAAATTCACTGGTTAACACTGCTAATCCAGACTCTA
1 CTTCAACTTCACTGGTTAACAATGCTAAACCAGACTCTA
* * * * *
46888017 CTTCTACTTCATTGGTTATCAATGCTAAGCCAGAATCTA
1 CTTCAACTTCACTGGTTAACAATGCTAAACCAGACTCTA
46888056 AAGCTAGTCT
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 66 1.00
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (39 bp):
CTTCAACTTCACTGGTTAACAATGCTAAACCAGACTCTA
Found at i:46894679 original size:22 final size:22
Alignment explanation
Indices: 46894651--46894695 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
46894641 GACATAATTG
46894651 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
46894673 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
46894695 T
1 T
46894696 CTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:46898449 original size:22 final size:22
Alignment explanation
Indices: 46898421--46898465 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
46898411 AGGGGGAGTG
46898421 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
46898443 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
46898465 T
1 T
46898466 CTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:46899168 original size:3 final size:3
Alignment explanation
Indices: 46899160--46899195 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
46899150 CTTGCACTGC
*
46899160 AAT AAT AAT AAT GAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
46899196 TGTTTATTGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:46901615 original size:64 final size:64
Alignment explanation
Indices: 46901536--46901655 Score: 186
Period size: 64 Copynumber: 1.9 Consensus size: 64
46901526 CAAACCATTT
* *** *
46901536 TACTTGCCCCAAAAAATTTACTTCCTTTCAAACCCTCAAAACTTTTTTCCTTTTATTTTCCTTG
1 TACTTACCCCAAAAAATTTACTTCCCCCCAAACCCCCAAAACTTTTTTCCTTTTATTTTCCTTG
*
46901600 TACTTACCCTAAAAAATTTACTTCCCCCCAAACCCCCAAAACTTTTTTCCTTTTAT
1 TACTTACCCCAAAAAATTTACTTCCCCCCAAACCCCCAAAACTTTTTTCCTTTTAT
46901656 CCCCCCCAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 50 1.00
ACGTcount: A:0.28, C:0.31, G:0.02, T:0.40
Consensus pattern (64 bp):
TACTTACCCCAAAAAATTTACTTCCCCCCAAACCCCCAAAACTTTTTTCCTTTTATTTTCCTTG
Found at i:46908820 original size:95 final size:95
Alignment explanation
Indices: 46908693--46908971 Score: 411
Period size: 95 Copynumber: 2.9 Consensus size: 95
46908683 GGATCGATAA
*
46908693 ATTTCTAGAAATGGATACCAAAATAGGCTACTGACTTGCAAACAATTTTCCAAGTATCGATA-AG
1 ATTTCTAGAAATCGATACCAAAATAGGCTACTGACTTGCAAACAATTTTCCAAGTATCGATACA-
*
46908757 GTATCAATACCTTTTTGTTAGGTATTGATGG
65 GTATCAATACCTTTTTGTTAGGTATCGATGG
* * * *
46908788 ATTTCTAGAAATCGATATCAAAATAAGCTACTGACATGCAAACAATTTTTCAAGTATCGATACAG
1 ATTTCTAGAAATCGATACCAAAATAGGCTACTGACTTGCAAACAATTTTCCAAGTATCGATACAG
* *
46908853 TATTGAA-ACCTTTTTGTTAAGTATCGATGG
66 TA-TCAATACCTTTTTGTTAGGTATCGATGG
* *
46908883 A-TTCTAGAAATTGAAACCAAAATAGGCTACTGACTTGCAAACAATTTTCCAAGTATCGATACAG
1 ATTTCTAGAAATCGATACCAAAATAGGCTACTGACTTGCAAACAATTTTCCAAGTATCGATACAG
* *
46908947 TACCGATACCTTTTTGTTAGGTATC
66 TATCAATACCTTTTTGTTAGGTATC
46908972 AATAAGTCTT
Statistics
Matches: 163, Mismatches: 18, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
93 1 0.01
94 76 0.47
95 82 0.50
96 4 0.02
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (95 bp):
ATTTCTAGAAATCGATACCAAAATAGGCTACTGACTTGCAAACAATTTTCCAAGTATCGATACAG
TATCAATACCTTTTTGTTAGGTATCGATGG
Found at i:46915845 original size:47 final size:47
Alignment explanation
Indices: 46915794--46916302 Score: 849
Period size: 47 Copynumber: 10.7 Consensus size: 47
46915784 TTAGGATTCT
* *
46915794 ATGTGATGGATGTGAACA-TGCATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
*
46915841 ATGTGATGAATGTGAAAGTCTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
46915888 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
46915935 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
46915982 ATGTGATGAATGTGAAAGTGTATATATATGTTATAAGGCCCAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
46916031 ATGTGATGAATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
46916078 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
46916125 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
46916174 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * *
46916221 ATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
46916268 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
46916303 TCCCGAAGGG
Statistics
Matches: 439, Mismatches: 18, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 347 0.79
49 91 0.21
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:46916032 original size:190 final size:189
Alignment explanation
Indices: 46915794--46916302 Score: 851
Period size: 190 Copynumber: 2.7 Consensus size: 189
46915784 TTAGGATTCT
* *
46915794 ATGTGATGGATGTGAACA-TGCATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
46915858 GTCTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
65 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
46915923 GCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCG
130 GCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCG
* *
46915982 ATGTGATGAATGTGAAAGTGTATATATATGTTATAAGGCCCAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
46916047 AGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
64 AGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
46916112 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
129 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCG
46916174 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* * * * * * * *
46916239 TGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
66 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
46916303 TCCCGAAGGG
Statistics
Matches: 301, Mismatches: 15, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
187 1 0.00
188 17 0.06
190 236 0.78
192 47 0.16
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.29
Consensus pattern (189 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
CCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCG
Found at i:46916081 original size:143 final size:143
Alignment explanation
Indices: 46915794--46916302 Score: 866
Period size: 143 Copynumber: 3.6 Consensus size: 143
46915784 TTAGGATTCT
* *
46915794 ATGTGATGGATGTGAACA-TGCATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
46915858 --GTCTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
65 GTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
46915921 AGGCCTAATGGCCG
130 AGGCCTAATGGCCG
46915935 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* * *
46916000 TGTATATATATGTTATAAGGCCCAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGATAA
66 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
46916065 GGCCTAATGGCCG
131 GGCCTAATGGCCG
46916078 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
46916143 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
66 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
46916208 GGCCTAATGGCCG
131 GGCCTAATGGCCG
* * * * * *
46916221 ATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
46916286 TGTATA-A-ATGTGATAAG
66 TGTATATATATGTGATAAG
46916303 TCCCGAAGGG
Statistics
Matches: 350, Mismatches: 15, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
140 1 0.00
141 70 0.20
142 1 0.00
143 278 0.79
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.29
Consensus pattern (143 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
GGCCTAATGGCCG
Found at i:46916477 original size:37 final size:37
Alignment explanation
Indices: 46916421--46916499 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
46916411 CCGAGCTCTA
* * *
46916421 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
* *
46916458 AAGACCTGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
46916495 AAGAC
1 AAGAC
46916500 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:46917299 original size:20 final size:20
Alignment explanation
Indices: 46917259--46917301 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
46917249 GGGTGTTACA
*
46917259 TGTCCCAAGTCACACGGGCG
1 TGTCCCAAGTCACACGAGCG
*
46917279 TGTCCCAAGTCACATGAGCG
1 TGTCCCAAGTCACACGAGCG
46917299 TGT
1 TGT
46917302 GTGACTACAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.21, C:0.30, G:0.28, T:0.21
Consensus pattern (20 bp):
TGTCCCAAGTCACACGAGCG
Found at i:46918233 original size:22 final size:22
Alignment explanation
Indices: 46918180--46918234 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 22
46918170 CACATTCACT
*
46918180 TTTAAGCATATATCACATTACA
1 TTTAAGCATATATCACATAACA
*
46918202 ---CAG-ATA-ATCACATAACA
1 TTTAAGCATATATCACATAACA
46918219 TTTAAGCATATATCAC
1 TTTAAGCATATATCAC
46918235 CAATAAACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 10
0.66 0.08 0.26
Matches are distributed among these distances:
17 10 0.40
18 3 0.12
19 2 0.08
20 2 0.08
21 3 0.12
22 5 0.20
ACGTcount: A:0.44, C:0.20, G:0.05, T:0.31
Consensus pattern (22 bp):
TTTAAGCATATATCACATAACA
Found at i:46924205 original size:28 final size:28
Alignment explanation
Indices: 46924173--46924229 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
46924163 ATTTGGAAAG
46924173 TATGTGAAATTATGCTTAATTATATGAT
1 TATGTGAAATTATGCTTAATTATATGAT
46924201 TATGTGAAATTATGCTTAATTATATGAT
1 TATGTGAAATTATGCTTAATTATATGAT
46924229 T
1 T
46924230 TTCATGCATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.04, G:0.14, T:0.47
Consensus pattern (28 bp):
TATGTGAAATTATGCTTAATTATATGAT
Found at i:46932910 original size:27 final size:27
Alignment explanation
Indices: 46932730--46932909 Score: 245
Period size: 27 Copynumber: 6.7 Consensus size: 27
46932720 CAATTTGTAG
***
46932730 AATTACCATTTTACCCTCGATTTATGG
1 AATTACCATTTTACCCTCGATTTACAA
* * *
46932757 AATTACCGTTTCACCCTCGATTTATAA
1 AATTACCATTTTACCCTCGATTTACAA
* * *
46932784 AATTACCGTTTTACCCTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAA
46932811 AATTACCATTTTACCCTCGATTTACAA
1 AATTACCATTTTACCCTCGATTTACAA
46932838 AATTACCATTTTACCCTCGATTTACAA
1 AATTACCATTTTACCCTCGATTTACAA
*
46932865 AATTATCATTTTACCCTC-AGTTTACAA
1 AATTACCATTTTACCCTCGA-TTTACAA
*
46932892 AATTATCATTTTACCCTC
1 AATTACCATTTTACCCTC
46932910 AATTGTGAAA
Statistics
Matches: 142, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
26 1 0.01
27 141 0.99
ACGTcount: A:0.30, C:0.24, G:0.06, T:0.39
Consensus pattern (27 bp):
AATTACCATTTTACCCTCGATTTACAA
Found at i:46932975 original size:27 final size:27
Alignment explanation
Indices: 46932945--46933095 Score: 191
Period size: 27 Copynumber: 5.6 Consensus size: 27
46932935 TGTAGGATAG
46932945 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
46932972 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* **
46932999 AATTACCAAAATACCACTAGTTTGTTC
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
46933026 AATTACTAAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
**
46933053 AATTACCAAAATACCCCT-GATTTACAA
1 AATTACCAAAATACCCCTAG-TTTGTAA
46933080 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
46933096 TTGACTTTCT
Statistics
Matches: 108, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
26 5 0.05
27 99 0.92
28 4 0.04
ACGTcount: A:0.42, C:0.23, G:0.06, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:46932986 original size:54 final size:54
Alignment explanation
Indices: 46932912--46933067 Score: 172
Period size: 54 Copynumber: 2.9 Consensus size: 54
46932902 TTACCCTCAA
* * * *
46932912 TTGTGAAATTACTGAAATACCCCT-GTAGGATAGAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACTAAAATACCCCTAGTAGG-TAAAATTACCAAAATACCACTAGT
* **
46932966 TTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTAGT
1 TTGTAAAATTACTAAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGT
** * **
46933020 TTGTTCAATTACTAAAATA-CCCTCAATTTGTAAAATTACCAAAATACC
1 TTGTAAAATTACTAAAATACCCCT-AGTAGGTAAAATTACCAAAATACC
46933068 CCTGATTTAC
Statistics
Matches: 89, Mismatches: 11, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
53 4 0.04
54 82 0.92
55 3 0.03
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (54 bp):
TTGTAAAATTACTAAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGT
Found at i:46933082 original size:81 final size:81
Alignment explanation
Indices: 46932945--46933094 Score: 216
Period size: 81 Copynumber: 1.9 Consensus size: 81
46932935 TGTAGGATAG
* **
46932945 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCA-AA
1 AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTA-CAGAA
46933009 ATACCACTAGTTTGTTC
65 ATACCACTAGTTTGTTC
*
46933026 AATTACTAAAATA-CCCTCAATTTGTAAAATTACCAAAATACCCCT-GATTTACAAAATTACAGA
1 AATTACCAAAATACCCCT-AATTTGTAAAATTACCAAAATACCCCTAG-TTTACAAAATTACAGA
46933089 AATACC
64 AATACC
46933095 CTTGACTTTC
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
80 7 0.11
81 55 0.89
ACGTcount: A:0.43, C:0.22, G:0.06, T:0.29
Consensus pattern (81 bp):
AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTACAGAAA
TACCACTAGTTTGTTC
Found at i:46933084 original size:54 final size:54
Alignment explanation
Indices: 46932945--46933150 Score: 163
Period size: 54 Copynumber: 3.8 Consensus size: 54
46932935 TGTAGGATAG
* ** * *
46932945 AATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCACTGA-TTTACAAAATTACTAAAATACCCTC-AATTTGTAA
* *
46932999 AATTACCAAAATACCACTAGTTTGTTC--AATTACTAAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCACT-GATT-TACAAAATTACTAAAATACCCTCAATTTGTAA
* * * *
46933053 AATTACCAAAATACCCCTGATTTACAAAATTAC-AGAAATACCCTTGACTTTCTAAA
1 AATTACCAAAATACCACTGATTTACAAAATTACTA-AAATACCC-TCAATTTGT-AA
* * * *
46933109 AATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACC
1 AATTACCA-AAATACCACTGATTTACAAAATTACTAAAATACC
46933151 TTTGGTTTGT
Statistics
Matches: 124, Mismatches: 17, Indels: 20
0.77 0.11 0.12
Matches are distributed among these distances:
52 2 0.02
53 4 0.03
54 71 0.57
55 10 0.08
56 37 0.30
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (54 bp):
AATTACCAAAATACCACTGATTTACAAAATTACTAAAATACCCTCAATTTGTAA
Found at i:46933146 original size:27 final size:27
Alignment explanation
Indices: 46933073--46933158 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 27
46933063 ATACCCCTGA
* * *
46933073 TTTACAAAATTACAGAAATACCCTTGAC
1 TTTACAAAATTACTGAAATACCATTG-G
46933101 TTT-CTAAAAATTA-TAGAAATACCATTGG
1 TTTAC--AAAATTACT-GAAATACCATTGG
*
46933129 TTTACAAAATTACTGAAATACCTTTGG
1 TTTACAAAATTACTGAAATACCATTGG
46933156 TTT
1 TTT
46933159 GTAGATTTAC
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
27 23 0.47
28 7 0.14
29 19 0.39
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.36
Consensus pattern (27 bp):
TTTACAAAATTACTGAAATACCATTGG
Found at i:46934154 original size:52 final size:52
Alignment explanation
Indices: 46934078--46934252 Score: 282
Period size: 52 Copynumber: 3.4 Consensus size: 52
46934068 GAGGAAGTGC
* * * *
46934078 AAAAGGGCTTATGCCCAATTTTATTGAAAAGGGCTTATGCCCCAATTTACCA
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*
46934130 AAAAGGGCTTATGCCCCAGTTTATTGAAAAAGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*
46934182 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGACTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
46934233 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
46934253 ATTAAAGAGG
Statistics
Matches: 116, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
50 10 0.09
51 25 0.22
52 81 0.70
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
Found at i:46934227 original size:25 final size:26
Alignment explanation
Indices: 46934078--46934252 Score: 228
Period size: 26 Copynumber: 6.8 Consensus size: 26
46934068 GAGGAAGTGC
* * **
46934078 AAAAGGGCTTATGCCCAATTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* *
46934104 AAAAGGGCTTATGCCCCAATTTACCA
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
46934130 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
46934156 AAAAAGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
46934182 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
46934208 AAAAGGACTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
46934233 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
46934253 ATTAAAGAGG
Statistics
Matches: 130, Mismatches: 19, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
25 32 0.25
26 98 0.75
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:46934456 original size:42 final size:42
Alignment explanation
Indices: 46934397--46934488 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
46934387 TAGTGTCCCC
* ** *
46934397 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
46934439 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
46934481 AAATGGGC
1 AAATGGGC
46934489 CTATGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:46934547 original size:31 final size:31
Alignment explanation
Indices: 46934512--46934590 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
46934502 CGTTTACAGT
46934512 AAAGGCTTCGGCCCAGTGAAATGATTTAAGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTAAGA
* * *
46934543 AAAGGCTTCGTCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTAAGA
46934574 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
46934591 AACCGTTAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGAAATGATTTAAGA
Found at i:46936863 original size:19 final size:19
Alignment explanation
Indices: 46936839--46936875 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
46936829 GCATTATTGA
*
46936839 TGTTTGAAGTATTGTTCTG
1 TGTTTGAACTATTGTTCTG
46936858 TGTTTGAACTATTGTTCT
1 TGTTTGAACTATTGTTCT
46936876 ATCTATATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.16, C:0.08, G:0.22, T:0.54
Consensus pattern (19 bp):
TGTTTGAACTATTGTTCTG
Found at i:46938746 original size:28 final size:27
Alignment explanation
Indices: 46938689--46938840 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
46938679 TAAATTGTGC
*
46938689 AGCACTAAGTGTGCGAATTGATTATGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
*
46938716 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGATTATGT
*
46938744 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
46938771 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGATTATGT
*
46938799 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTATGT
*
46938826 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
46938841 GACTTAATAT
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATGT
Found at i:46938753 original size:55 final size:55
Alignment explanation
Indices: 46938689--46938840 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
46938679 TAAATTGTGC
*
46938689 AGCACTAAGTGTGCGAATTGATTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGATTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* *
46938744 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGATTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* *
46938799 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGATTATGTAGCACTAAGTGTGCG
46938841 GACTTAATAT
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 91 1.00
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGATTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:46944050 original size:60 final size:62
Alignment explanation
Indices: 46943949--46944097 Score: 164
Period size: 60 Copynumber: 2.5 Consensus size: 62
46943939 TTATTCAGAA
** * *
46943949 ATCAGAGT-TAACTGGGCCTTAGCCCATATCCTTATTAATCTGGGCCATAGCCC-CTTAC-AGT
1 ATCAGAGTAT-ACTGGGCC-TAGCCCATATCAGTATCAATCTGGGCCATAGCCCTATTACAAGT
**
46944010 ATCAGAGTATACTGGGCCTAGCCCATATCAGTATCAATCTGGGCTGTAGCCCTATTACAAGT
1 ATCAGAGTATACTGGGCCTAGCCCATATCAGTATCAATCTGGGCCATAGCCCTATTACAAGT
* * *
46944072 -CCAGA-TATATTGGGCCTTGCCCATAT
1 ATCAGAGTATACTGGGCCTAGCCCATAT
46944098 TAACACAGTT
Statistics
Matches: 76, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
60 48 0.63
61 24 0.32
62 4 0.05
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (62 bp):
ATCAGAGTATACTGGGCCTAGCCCATATCAGTATCAATCTGGGCCATAGCCCTATTACAAGT
Found at i:46944115 original size:20 final size:20
Alignment explanation
Indices: 46944090--46944135 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
46944080 ATTGGGCCTT
46944090 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
46944110 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
46944129 GCCCATA
1 GCCCATA
46944136 ACAAAACAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:46944144 original size:19 final size:20
Alignment explanation
Indices: 46944102--46944144 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
46944092 CCATATTAAC
** *
46944102 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
46944122 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
46944141 ACAG
1 ACAG
46944145 GCTCATATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.21
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:46948022 original size:61 final size:63
Alignment explanation
Indices: 46947889--46948022 Score: 170
Period size: 60 Copynumber: 2.2 Consensus size: 63
46947879 CCTAGGCCTA
** *
46947889 AGCCCTATT-CAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCCTTATTAATCTGGGCCAT
1 AGCCCTATTACAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAGTATCAATCTGGGCCAT
* * *
46947951 AGCCC-CTTACAG-TATCAGAG-TATACTGGGCC-TAGCCCATATCAGTATCAATCTGGGCCGT
1 AGCCCTATTACAGAAATCAGAGTTA-ACTGGGCCTTAGCCCATATCAGTATCAATCTGGGCCAT
46948011 AGCCCTATTACA
1 AGCCCTATTACA
46948023 AGTCAAGATA
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
60 32 0.52
61 22 0.35
62 8 0.13
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.27
Consensus pattern (63 bp):
AGCCCTATTACAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAGTATCAATCTGGGCCAT
Found at i:46948050 original size:60 final size:59
Alignment explanation
Indices: 46947905--46948051 Score: 147
Period size: 60 Copynumber: 2.4 Consensus size: 59
46947895 ATTCAGAAAT
** * *
46947905 CAGAGT-TAACTGGGCCTTAGCCCATATCCTTATTAATCTGGGCCATAGCCCCTTACAGTA
1 CAGAGTAT-ACTGGGCCTT-GCCCATATCAGTATCAATCTGGGCCATAGCCCATTACAGTA
* *
46947965 TCAGAGTATACTGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGT-
1 -CAGAGTATACTGGGCCTTGCCCATATCAGTATCAATCTGGGCCATAGCCC-ATTAC-AGTA
* *
46948026 CA-AGATATATTGGGCCTTGTCCATAT
1 CAGAG-TATACTGGGCCTTGCCCATAT
46948052 TAACACAGTT
Statistics
Matches: 73, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
59 2 0.03
60 48 0.66
61 19 0.26
62 4 0.05
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.29
Consensus pattern (59 bp):
CAGAGTATACTGGGCCTTGCCCATATCAGTATCAATCTGGGCCATAGCCCATTACAGTA
Found at i:46951906 original size:43 final size:42
Alignment explanation
Indices: 46951782--46951941 Score: 164
Period size: 43 Copynumber: 3.7 Consensus size: 42
46951772 TTATGTGTTA
*
46951782 TCGTGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTGTGATT
1 TCGTGTAAGACCACGTCTGGGAAG-TGGCATCGATATT-TGATT
* * *
46951825 TACGTGTAAGACCATGTCTGGGACATTAGCATCG-TATTTGATT
1 T-CGTGTAAGACCACGTCTGGGA-AGTGGCATCGATATTTGATT
*
46951868 TCGTGTAAGACC-CTGTCTGGAATAGTGGCATCGATATTTGATT
1 TCGTGTAAGACCAC-GTCTGGGA-AGTGGCATCGATATTTGATT
* * *
46951911 ACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TCGTGTAAGACCACGTCTGGGAAG-TGGCAT
46951942 TTTACGAGCT
Statistics
Matches: 97, Mismatches: 13, Indels: 14
0.78 0.10 0.11
Matches are distributed among these distances:
42 27 0.28
43 40 0.41
44 30 0.31
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (42 bp):
TCGTGTAAGACCACGTCTGGGAAGTGGCATCGATATTTGATT
Found at i:46955061 original size:46 final size:46
Alignment explanation
Indices: 46954987--46955162 Score: 164
Period size: 46 Copynumber: 3.8 Consensus size: 46
46954977 AGATTGGGCA
* *
46954987 TCCGAACTCATTGAGTTGTGTCTGAGTTCACTTATGGATGTGAACG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
* * * * *
46955033 TCCGAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--AATGT-AACTAGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAC---G
* *
46955078 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
* *
46955126 -CCCAAGCTCATTGAATTGAGTCCGAGTTCACTTATGG
1 TCCGAA-CTCATTGAGTTGAGTCCGAGTTCACTTATGG
46955163 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 7 0.07
46 54 0.51
47 28 0.27
48 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (46 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
Found at i:46955145 original size:93 final size:93
Alignment explanation
Indices: 46954983--46955154 Score: 256
Period size: 93 Copynumber: 1.8 Consensus size: 93
46954973 GAATAGATTG
* * * * * *
46954983 GGCATCCGAACTCATTGAGTTGTGTCTGAGTTCACTTATGGATGTGAACGTCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCATTGAA
46955048 TTGAGTCCAAGTTCGTGAAATGTAACTA
66 TTGAGTCCAAGTTCGTGAAATGTAACTA
*
46955076 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCCAAGCTCATTGA
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAA-CTCATTGA
*
46955140 ATTGAGTCCGAGTTC
65 ATTGAGTCCAAGTTC
46955155 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
92 4 0.06
93 66 0.94
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCATTGAA
TTGAGTCCAAGTTCGTGAAATGTAACTA
Found at i:46962703 original size:16 final size:16
Alignment explanation
Indices: 46962678--46962713 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
46962668 GACAAATCCT
*
46962678 GAAATACTGAAAAGTC
1 GAAATACTGAAAAGCC
*
46962694 GAAATGCTGAAAAGCC
1 GAAATACTGAAAAGCC
46962710 GAAA
1 GAAA
46962714 GTCTGGCTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.14, G:0.22, T:0.14
Consensus pattern (16 bp):
GAAATACTGAAAAGCC
Found at i:46962972 original size:29 final size:29
Alignment explanation
Indices: 46962930--46962996 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
46962920 ACATGGCTTG
*
46962930 GAAT-TGATTCGGGCC-AGATGGGCCATAT
1 GAATGTGATTCGGGCCTA-ATCGGCCATAT
*
46962958 GAATGTGATTTGGGCCTAATCGGCCATAT
1 GAATGTGATTCGGGCCTAATCGGCCATAT
*
46962987 GAATGAGATT
1 GAATGTGATT
46962997 AAGCCTAGTG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 4 0.12
29 29 0.85
30 1 0.03
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.28
Consensus pattern (29 bp):
GAATGTGATTCGGGCCTAATCGGCCATAT
Done.