Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 134 of 253
Found at i:42758472 original size:20 final size:20
Alignment explanation
Indices: 42758429--42758475 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
42758419 CTAGCACATG
* * *
42758429 TTTTCATAAAACTTTAGAAT
1 TTTTCATAAAAATTTACAAC
*
42758449 TTTTCATAAAAATTTTCAAC
1 TTTTCATAAAAATTTACAAC
42758469 TTTTCAT
1 TTTTCAT
42758476 TTGTCCCTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTTTCATAAAAATTTACAAC
Found at i:42762255 original size:47 final size:46
Alignment explanation
Indices: 42762156--42762375 Score: 175
Period size: 46 Copynumber: 4.8 Consensus size: 46
42762146 GGGTTATTGT
* * *
42762156 GAGCTAGTGTCAGACATGTCTGGGACATGCATCGGCCA-C-ATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATC-GACATCGA-GATGA
*
42762202 GAGCTAGTGTAAGACCAT-TCTGGGACATGGCATCGACATTGAGATGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACATCGAGATGA
* * * * *
42762249 GTGCTAGTGTAAAACATGTCTGGGACATGCATCGGCCTCGAGACGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACATCGAGATG-A
* * * * * *
42762296 -AGCCAGTGTAAGATATGTCTAGGACATGCATTGGC-TACGAGATGT
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACAT-CGAGATGA
*
42762341 G-TC-AGTGTAAGACCATGTCTGGGACATGGCATCGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGA
42762376 AACAGATATG
Statistics
Matches: 141, Mismatches: 23, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
44 9 0.06
45 14 0.10
46 82 0.58
47 35 0.25
48 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACATCGAGATGA
Found at i:42762321 original size:93 final size:92
Alignment explanation
Indices: 42762158--42762374 Score: 212
Period size: 93 Copynumber: 2.3 Consensus size: 92
42762148 GTTATTGTGA
* * * * *
42762158 GCTAGTGTCAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCTAGTGTAAGACCATTCT
1 GCTAGTGTAAAACATGTCTGGGACATGCATCGGCCACATGACGAGAGCCAGTGTAAGACCATTCT
* *
42762223 GGGACATGGCATCGAC-ATTGAGATGAGT
66 AGGACAT-GCATCGACTA-CGAGATGAGT
* *
42762251 GCTAGTGTAAAACATGTCTGGGACATGCATCGGCCTCGA-GACGTA-AGCCAGTGTAAGA-TATG
1 GCTAGTGTAAAACATGTCTGGGACATGCATCGGCCAC-ATGACG-AGAGCCAGTGTAAGACCAT-
* * *
42762313 TCTAGGACATGCATTGGCTACGAGATGTGT
63 TCTAGGACATGCATCGACTACGAGATGAGT
*
42762343 -C-AGTGTAAGACCATGTCTGGGACATGGCATCG
1 GCTAGTGTAA-AACATGTCTGGGACAT-GCATCG
42762375 AAACAGATAT
Statistics
Matches: 105, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
90 7 0.07
91 16 0.15
92 22 0.21
93 58 0.55
94 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (92 bp):
GCTAGTGTAAAACATGTCTGGGACATGCATCGGCCACATGACGAGAGCCAGTGTAAGACCATTCT
AGGACATGCATCGACTACGAGATGAGT
Found at i:42776210 original size:42 final size:42
Alignment explanation
Indices: 42776151--42776231 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
42776141 CAGAATTGGG
*
42776151 CACACGGGCAGAGACACGAGAGTCTGTCTTAGCCATGTGTGC
1 CACACGGCCAGAGACACGAGAGTCTGTCTTAGCCATGTGTGC
* * * *
42776193 CACACGGCCTAGA-ACACGGGTGTGTGTCTTTGCCATGTG
1 CACACGGCC-AGAGACACGAGAGTCTGTCTTAGCCATGTG
42776232 AAACCTGCAC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
42 30 0.91
43 3 0.09
ACGTcount: A:0.21, C:0.26, G:0.31, T:0.22
Consensus pattern (42 bp):
CACACGGCCAGAGACACGAGAGTCTGTCTTAGCCATGTGTGC
Found at i:42776357 original size:21 final size:20
Alignment explanation
Indices: 42776333--42776388 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
42776323 ATGGCCTCCA
* *
42776333 ACACGGACGTGTCCCAGGGTC
1 ACACGGGCGTGTCCCA-AGTC
*
42776354 ACACGGGTGTGTCCCAAGTC
1 ACACGGGCGTGTCCCAAGTC
*
42776374 ACACGGGGGTGTCCC
1 ACACGGGCGTGTCCC
42776389 TTGGACCACA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 17 0.55
21 14 0.45
ACGTcount: A:0.18, C:0.32, G:0.34, T:0.16
Consensus pattern (20 bp):
ACACGGGCGTGTCCCAAGTC
Found at i:42776376 original size:20 final size:21
Alignment explanation
Indices: 42776341--42776388 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
42776331 CAACACGGAC
* *
42776341 GTGTCCCAGGGTCACACGGGT
1 GTGTCCCAGAGTCACACGGGG
42776362 GTGTCCCA-AGTCACACGGGG
1 GTGTCCCAGAGTCACACGGGG
42776382 GTGTCCC
1 GTGTCCC
42776389 TTGGACCACA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.15, C:0.31, G:0.35, T:0.19
Consensus pattern (21 bp):
GTGTCCCAGAGTCACACGGGG
Found at i:42779346 original size:108 final size:108
Alignment explanation
Indices: 42779157--42779375 Score: 384
Period size: 108 Copynumber: 2.0 Consensus size: 108
42779147 AACCTTGCAA
**
42779157 ATTTCCACATCCTTGAAAACATTGTCGTATGCATATATACTTAAACCAATATTAGCCAATATCAA
1 ATTTCCACATCCTTGAAAACATCATCGTATGCATATATACTTAAACCAATATTAGCCAATATCAA
*
42779222 TGGCCATTTATAAAATGAATTATCAACCAATATAGGCCAACAC
66 TGGCCATTTACAAAATGAATTATCAACCAATATAGGCCAACAC
* * *
42779265 ATTTCCACATCCTTGAAAACATCATTGTATGCATATATACTTAAACCAATATTAGCCAATGTCAG
1 ATTTCCACATCCTTGAAAACATCATCGTATGCATATATACTTAAACCAATATTAGCCAATATCAA
42779330 TGGCCATTTACAAAATGAATTATCAACCAATATAGGCCAACAC
66 TGGCCATTTACAAAATGAATTATCAACCAATATAGGCCAACAC
42779373 ATT
1 ATT
42779376 AGGCCAAATC
Statistics
Matches: 105, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
108 105 1.00
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (108 bp):
ATTTCCACATCCTTGAAAACATCATCGTATGCATATATACTTAAACCAATATTAGCCAATATCAA
TGGCCATTTACAAAATGAATTATCAACCAATATAGGCCAACAC
Found at i:42781393 original size:43 final size:43
Alignment explanation
Indices: 42781338--42781436 Score: 155
Period size: 43 Copynumber: 2.3 Consensus size: 43
42781328 GTCACACGCC
*
42781338 CGTGTGAACAGGCTGTGTACCACACACAGTCACCAGACACACT
1 CGTGTGAACAGGCCGTGTACCACACACAGTCACCAGACACACT
* *
42781381 CGTGTGAACAGGCCGTGTACCACGCACGGTCACCAGACACACT
1 CGTGTGAACAGGCCGTGTACCACACACAGTCACCAGACACACT
*
42781424 CGTGT-CACAGGCC
1 CGTGTGAACAGGCC
42781437 ATGTGAAAAC
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
42 7 0.13
43 45 0.87
ACGTcount: A:0.26, C:0.34, G:0.24, T:0.15
Consensus pattern (43 bp):
CGTGTGAACAGGCCGTGTACCACACACAGTCACCAGACACACT
Found at i:42783974 original size:40 final size:40
Alignment explanation
Indices: 42783930--42784030 Score: 123
Period size: 40 Copynumber: 2.5 Consensus size: 40
42783920 GATAAATCTA
* *
42783930 CTATATTTGGCACTTAGTGTGTG-TTTCGAGATAGCTTCGG
1 CTATATATGGCACTTAGTGTGTGAATTCGA-ATAGCTTCGG
* *
42783970 CTATATATCGCACTTAGTGTGTGAATTGGAATAGCTTCGG
1 CTATATATGGCACTTAGTGTGTGAATTCGAATAGCTTCGG
* * *
42784010 CTTTATGTGGCACTAAGTGTG
1 CTATATATGGCACTTAGTGTG
42784031 CGATACTGAG
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
40 48 0.92
41 4 0.08
ACGTcount: A:0.21, C:0.15, G:0.27, T:0.38
Consensus pattern (40 bp):
CTATATATGGCACTTAGTGTGTGAATTCGAATAGCTTCGG
Found at i:42786741 original size:42 final size:41
Alignment explanation
Indices: 42786612--42786741 Score: 113
Period size: 42 Copynumber: 3.1 Consensus size: 41
42786602 AGGTGCCAAA
* * *
42786612 GCCATGTCCCAGACATGGTCTTATATGGAACTAC-ACATCGAT
1 GCCATGTCCCAGACATGGTCTTATACGAAACCACTA-AT-GAT
* * *
42786654 GCCATATCCCAGACATGGTCTTATACGAGACGTCA-T-ATTAGT
1 GCCATGTCCCAGACATGGTCTTATACGAAAC--CACTAATGA-T
* *
42786696 GCCATGTCCCAAACCTGGTCTTATACGAAACCACTTAATGAT
1 GCCATGTCCCAGACATGGTCTTATACGAAACCAC-TAATGAT
42786738 GCCA
1 GCCA
42786742 AAGCCATATC
Statistics
Matches: 70, Mismatches: 11, Indels: 14
0.74 0.12 0.15
Matches are distributed among these distances:
40 2 0.03
41 1 0.01
42 63 0.90
43 3 0.04
44 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (41 bp):
GCCATGTCCCAGACATGGTCTTATACGAAACCACTAATGAT
Found at i:42786787 original size:48 final size:48
Alignment explanation
Indices: 42786735--42786829 Score: 109
Period size: 48 Copynumber: 2.0 Consensus size: 48
42786725 ACCACTTAAT
* ** *
42786735 GATGCCAAAGCCATATCCCTGGTATGGTCTTACACGGGATCTCATAAC
1 GATGCCAAAGCCATATCCCAGACATGGTCTTACACGGGACCTCATAAC
** * * *
42786783 GATGCTGATGCCATGTCCCAGACATGGTCTTACATGGGACCTCATAA
1 GATGCCAAAGCCATATCCCAGACATGGTCTTACACGGGACCTCATAA
42786830 ATCATGGTGT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (48 bp):
GATGCCAAAGCCATATCCCAGACATGGTCTTACACGGGACCTCATAAC
Found at i:42797273 original size:47 final size:47
Alignment explanation
Indices: 42797210--42797378 Score: 222
Period size: 47 Copynumber: 3.6 Consensus size: 47
42797200 ATCCATAAGT
*
42797210 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
* * *
42797257 GAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-TCA-C
42797303 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
*
42797350 GAACTCGGACTCAACTCAACGATTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
42797379 CATTCGCATC
Statistics
Matches: 105, Mismatches: 8, Indels: 18
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 29 0.28
47 56 0.53
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:42797276 original size:93 final size:93
Alignment explanation
Indices: 42797163--42797427 Score: 476
Period size: 93 Copynumber: 2.8 Consensus size: 93
42797153 CGCCCATAAG
* * * *
42797163 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
42797228 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
42797256 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
42797321 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
42797349 CGAACTCGGACTCAACTCAACGATTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCT
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
42797414 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
42797428 TCAACCATCC
Statistics
Matches: 166, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 166 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:42797424 original size:46 final size:46
Alignment explanation
Indices: 42797156--42797424 Score: 275
Period size: 46 Copynumber: 5.8 Consensus size: 46
42797146 TGTAACCCGC
* * *
42797156 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
42797202 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
42797252 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
42797295 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
42797345 -C-TCA-CGAACTCGGACTCAACTCAACGATTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
42797388 CCATAAGTGAACTCGGACTCAACTCTACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
42797425 TGCTCAACCA
Statistics
Matches: 184, Mismatches: 21, Indels: 36
0.76 0.09 0.15
Matches are distributed among these distances:
42 4 0.02
43 8 0.04
44 4 0.02
45 4 0.02
46 89 0.48
47 56 0.30
48 4 0.02
49 4 0.02
50 7 0.04
51 4 0.02
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:42801416 original size:15 final size:15
Alignment explanation
Indices: 42801398--42801426 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
42801388 CGAAAACTCA
42801398 GTCTCACAAAACCTC
1 GTCTCACAAAACCTC
42801413 GTCTCACAAAACCT
1 GTCTCACAAAACCT
42801427 TTATCAATCA
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:0.34, C:0.38, G:0.07, T:0.21
Consensus pattern (15 bp):
GTCTCACAAAACCTC
Found at i:42804858 original size:46 final size:47
Alignment explanation
Indices: 42804791--42804970 Score: 228
Period size: 46 Copynumber: 3.9 Consensus size: 47
42804781 TGTAACCCGC
*
42804791 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG-GCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAGCGTTCGCAT
* *
42804837 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA-G-C--GTTCGCAT
* *
42804887 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAGCGTTCGCAT
*
42804930 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCGT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAGCGT
42804971 CAACTCAACT
Statistics
Matches: 114, Mismatches: 10, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 63 0.55
47 31 0.27
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (47 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAGCGTTCGCAT
Found at i:42804911 original size:93 final size:93
Alignment explanation
Indices: 42804798--42804966 Score: 311
Period size: 93 Copynumber: 1.8 Consensus size: 93
42804788 CGCCCATAAG
* *
42804798 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
42804863 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
42804891 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
42804956 ACGAGTTCGGA
66 ACGAGTTCGGA
42804967 GCGTCAACTC
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:42820975 original size:46 final size:46
Alignment explanation
Indices: 42820908--42821082 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
42820898 TGTAACCCGC
*
42820908 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* * *
42820954 CCATAAGTGAACTTGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * **
42821004 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACACTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
42821047 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
42821083 ATGCCTAGTT
Statistics
Matches: 105, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 1 0.01
43 3 0.03
44 2 0.02
45 2 0.02
46 60 0.57
47 26 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:42821026 original size:47 final size:47
Alignment explanation
Indices: 42820962--42821133 Score: 219
Period size: 47 Copynumber: 3.7 Consensus size: 47
42820952 ATCCATAAGT
*
42820962 GAACTTGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
42821009 GAACTCGGACTCAACTCAACGAGTTCAGA--CACTCG---CATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTACAT-C-TCA-C
42821055 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
*
42821102 GAACTCAGACTCAACTCAACGAGTTCGGATGC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC
42821134 TCAACCATCC
Statistics
Matches: 106, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 3 0.03
46 31 0.29
47 61 0.58
48 3 0.03
49 1 0.01
50 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:42821149 original size:93 final size:93
Alignment explanation
Indices: 42820915--42821135 Score: 370
Period size: 93 Copynumber: 2.4 Consensus size: 93
42820905 CGCCCATAAG
* * * *
42820915 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTTGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
42820980 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
42821008 CGAACTCGGACTCAACTCAACGAGTTCAGACACTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
42821073 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
42821101 CGAACTCAGACTCAACTCAACGAGTTCGGATGCTC
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
42821136 AACCATCCTA
Statistics
Matches: 118, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 118 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:42823785 original size:42 final size:42
Alignment explanation
Indices: 42823640--42823794 Score: 143
Period size: 42 Copynumber: 3.7 Consensus size: 42
42823630 TACCATACCA
* * *
42823640 ATGCCATATCCCAGATATGGTCTTACATG-GGATCTCGCATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAG-TCTCACATCG
* * * *
42823682 ATGCCAATAGCCCAGCTATGGTCTTACAAGAAATCTCACATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCACATCG
* *** * * *
42823725 ATTCCATAT-ATTGAATATGGTCTCACACGAAGTCTCATATTG
1 ATGCCATATCCCAG-ATATGGTCTTACACGAAGTCTCACATCG
42823767 ATGCCATATCCCAGATATGGTCTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
42823795 ATAGTCTTAG
Statistics
Matches: 87, Mismatches: 22, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
41 1 0.01
42 51 0.59
43 35 0.40
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCACATCG
Found at i:42824878 original size:12 final size:13
Alignment explanation
Indices: 42824853--42824880 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
42824843 CTCAAACGTC
42824853 AAAATTTTCAAAA
1 AAAATTTTCAAAA
42824866 AAAATTTTCAAAA
1 AAAATTTTCAAAA
42824879 AA
1 AA
42824881 TCATTCCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (13 bp):
AAAATTTTCAAAA
Found at i:42827009 original size:44 final size:43
Alignment explanation
Indices: 42826949--42827049 Score: 109
Period size: 44 Copynumber: 2.3 Consensus size: 43
42826939 CCGATATGTG
*
42826949 TTATCGTGTAAAACCACATATGGGACA-TTGGCATCG-ACTTATGAT
1 TTAT-GTGTAAGACCACATATGGGA-AGTTGGCATCGTA-TT-TGAT
* * *
42826994 TTATGTGTAAGACCACGTCTGGGAAGTTGGCATTGTATTTGAT
1 TTATGTGTAAGACCACATATGGGAAGTTGGCATCGTATTTGAT
42827037 TT-TGTGTAAGACC
1 TTATGTGTAAGACC
42827050 CTGTTTGGGA
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
42 11 0.22
43 7 0.14
44 27 0.54
45 5 0.10
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.35
Consensus pattern (43 bp):
TTATGTGTAAGACCACATATGGGAAGTTGGCATCGTATTTGAT
Found at i:42827059 original size:42 final size:42
Alignment explanation
Indices: 42826990--42827115 Score: 130
Period size: 43 Copynumber: 3.0 Consensus size: 42
42826980 CATCGACTTA
42826990 TGATTTATGTGTAAGACCAC-GTCTGGGAAGTTGGCATTGTATT
1 TGATTT-TGTGTAAGACC-CTGTCTGGGAAGTTGGCATTGTATT
* *
42827033 TGATTTTGTGTAAGACCCTGTTTGGGATAG-TGGCATCTATATT
1 TGATTTTGTGTAAGACCCTGTCTGGGA-AGTTGGCAT-TGTATT
*** * * *
42827076 TGATTACATGTAAGACCATGTCTAGGACGTTGGCATTGTA
1 TGATTTTGTGTAAGACCCTGTCTGGGAAGTTGGCATTGTA
42827116 CGAGCTTTCT
Statistics
Matches: 69, Mismatches: 10, Indels: 9
0.78 0.11 0.10
Matches are distributed among these distances:
41 1 0.01
42 28 0.41
43 40 0.58
ACGTcount: A:0.24, C:0.13, G:0.26, T:0.37
Consensus pattern (42 bp):
TGATTTTGTGTAAGACCCTGTCTGGGAAGTTGGCATTGTATT
Found at i:42829848 original size:50 final size:47
Alignment explanation
Indices: 42829773--42829948 Score: 181
Period size: 51 Copynumber: 3.6 Consensus size: 47
42829763 TGAGTACACG
*
42829773 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTATTAAATCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA-A-TATT-GATCGCA
* ** * *
42829823 TGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAAT-A-TT-GATCGCA
* *
42829874 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA-A-TATTGATCGCA
* *
42829923 TGTGTAGTACAAAGTGCAAGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
42829949 TGCGTATCAG
Statistics
Matches: 105, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
49 29 0.28
50 36 0.34
51 39 0.37
52 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (47 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAATATTGATCGCA
Found at i:42829960 original size:49 final size:51
Alignment explanation
Indices: 42829773--42829960 Score: 179
Period size: 49 Copynumber: 3.7 Consensus size: 51
42829763 TGAGTACACG
* * * * * **
42829773 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACT-ATTAAATCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGATTGATTCGATCGCA
* * *
42829823 TGTGTAGTACTAAGTGCAGGCTACTATGCATACTCA-A-TGACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTA-TCAGATTGA-TTCGATCGCA
* * * *
42829874 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG-TT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGATTGATTCGATCGCA
* *
42829923 TGTGTAGTACAAAGTGCAAGCTACTATGCGTATCAGAT
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGAT
42829961 AGCTTCGGCT
Statistics
Matches: 113, Mismatches: 20, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
49 38 0.34
50 35 0.31
51 38 0.34
52 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (51 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGATTGATTCGATCGCA
Found at i:42835126 original size:19 final size:20
Alignment explanation
Indices: 42835083--42835119 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
42835073 GATGACACCA
*
42835083 AATTAACATTTTATTTTATT
1 AATTAACATTTTATTTTATC
42835103 AATTAAC-TTTTATTTTA
1 AATTAACATTTTATTTTA
42835120 CAGATTACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.59
Consensus pattern (20 bp):
AATTAACATTTTATTTTATC
Found at i:42839662 original size:119 final size:120
Alignment explanation
Indices: 42839480--42839702 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 120
42839470 TCCTCGTTCA
*
42839480 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
42839545 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * * **
42839600 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATTCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
42839662 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
42839703 CATCATTCAA
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.04
119 65 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:42839702 original size:40 final size:40
Alignment explanation
Indices: 42839478--42839702 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
42839468 GCTCCTCGTT
* *
42839478 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
42839518 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
42839558 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
42839598 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * * *
42839637 CAAATTCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
42839678 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
42839703 CATCATTCAA
Statistics
Matches: 162, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
38 2 0.01
39 30 0.19
40 118 0.73
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:42847533 original size:40 final size:40
Alignment explanation
Indices: 42847489--42847713 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
42847479 GCTCCTCGTT
* * *
42847489 CAAATTCCTTCGGGACATAGCCC-GATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
42847529 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
42847569 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
42847609 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
42847648 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
42847689 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
42847714 CATCATTCAA
Statistics
Matches: 164, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 115 0.70
41 15 0.09
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:42847673 original size:79 final size:80
Alignment explanation
Indices: 42847489--42847713 Score: 269
Period size: 79 Copynumber: 2.8 Consensus size: 80
42847479 GCTCCTCGTT
* * * * *
42847489 CAAATTCCTTCGGGACATAGCCC-GATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCG
*
42847553 GATTTAGTAACTCGCA
65 GAATTAGTAACTCGCA
42847569 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGG
*
42847633 AATTAGTATCTCGCA
66 AATTAGTAACTCGCA
** * * * * *
42847648 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACCAATGCCTTCGGGACTTAGCCC
42847711 GGA
64 GGA
42847714 CATCATTCAA
Statistics
Matches: 127, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
78 3 0.02
79 60 0.47
80 60 0.47
81 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCGCA
Found at i:42847673 original size:119 final size:120
Alignment explanation
Indices: 42847495--42847713 Score: 293
Period size: 119 Copynumber: 1.8 Consensus size: 120
42847485 CGTTCAAATT
* *
42847495 CCTTCGGGACATAGCCCGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAG
1 CCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAG
*
42847560 TAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATG
66 TAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATG
* * **
42847615 CCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATAT
1 CCTTCGGGACATAGCCC-GAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATAT
* * *
42847677 GGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 AGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
42847714 CATCATTCAA
Statistics
Matches: 86, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 3 0.03
119 64 0.74
120 19 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
CCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAG
TAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATG
Found at i:42851075 original size:43 final size:42
Alignment explanation
Indices: 42850995--42851106 Score: 152
Period size: 43 Copynumber: 2.6 Consensus size: 42
42850985 TGAGATTATG
* **
42850995 TGTAAGACCATATCTAGGATATGGCATCGATATGAGATTTCA
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATCCCA
* *
42851037 TGTAAGACCATATTTGGGCTAATGGCATCGATATGAGATCCCA
1 TGTAAGACCATATCTGGGAT-ATGGCATCGATATGAGATCCCA
* *
42851080 TGTAAAATCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
42851107 TGTTATGATA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
42 24 0.40
43 36 0.60
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGATCCCA
Found at i:42858629 original size:43 final size:42
Alignment explanation
Indices: 42858566--42858663 Score: 115
Period size: 43 Copynumber: 2.3 Consensus size: 42
42858556 AGGCCATATT
* * ** *
42858566 TGGGATATGGCATTGGTATGAGATTTCATGTAAGACCATAGC
1 TGGGATATGGCATCGATATGAGATCCCATGTAAAACCATAGC
* * *
42858608 TGGGCTAATGGCATCGATATGAGATCCCATGTAAAATCATATC
1 TGGGAT-ATGGCATCGATATGAGATCCCATGTAAAACCATAGC
42858651 TGGGATATGGCAT
1 TGGGATATGGCAT
42858664 TGGTATGATA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
42 12 0.26
43 34 0.74
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (42 bp):
TGGGATATGGCATCGATATGAGATCCCATGTAAAACCATAGC
Found at i:42874652 original size:42 final size:42
Alignment explanation
Indices: 42874549--42874701 Score: 155
Period size: 42 Copynumber: 3.6 Consensus size: 42
42874539 TACCATACCA
* * ** *
42874549 ATGCCATATCCCAGATATAGTCTTACATGGGATCTCGCATCG
1 ATGCCATATCCCAGATATGGTCTTACAAGAAATCTCACATCG
* * * *
42874591 ATGCAATAGCCCAGCTATGGTCTTATAAGAAATCTCACATCG
1 ATGCCATATCCCAGATATGGTCTTACAAGAAATCTCACATCG
* * * * * *
42874633 ATTCCATATCCC-GAATATGGTCTCACACGAAGTCTCATATTG
1 ATGCCATATCCCAG-ATATGGTCTTACAAGAAATCTCACATCG
42874675 ATGCCATATCCCAGATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
42874702 CATAGTCTTA
Statistics
Matches: 88, Mismatches: 21, Indels: 4
0.78 0.19 0.04
Matches are distributed among these distances:
41 1 0.01
42 86 0.98
43 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACAAGAAATCTCACATCG
Found at i:42877967 original size:42 final size:42
Alignment explanation
Indices: 42877865--42878026 Score: 168
Period size: 43 Copynumber: 3.8 Consensus size: 42
42877855 ATGTGTTATC
* * *
42877865 GTGTAAAACCACGTCTGGGACGTTGGCATCG-ACTTATGATTTAT
1 GTGTAAGACCACGTCTGGGAAGTTGGCATTGTA-TT-TGATTT-T
42877909 GTGTAAGACCACGTCTGGGAAGTTGGCATTGTATTTGATTTT
1 GTGTAAGACCACGTCTGGGAAGTTGGCATTGTATTTGATTTT
* **
42877951 GTGTAAGACC-CTGTCTGGGACAG-TGGCATCTATATTTGATTAC
1 GTGTAAGACCAC-GTCTGGGA-AGTTGGCAT-TGTATTTGATTTT
* * *
42877994 ATGTAAGACCACGTCTAGGACGTTGGCATTGTA
1 GTGTAAGACCACGTCTGGGAAGTTGGCATTGTA
42878027 CGAGCTTTCT
Statistics
Matches: 102, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
41 1 0.01
42 29 0.28
43 40 0.39
44 31 0.30
45 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.33
Consensus pattern (42 bp):
GTGTAAGACCACGTCTGGGAAGTTGGCATTGTATTTGATTTT
Found at i:42880759 original size:50 final size:49
Alignment explanation
Indices: 42880684--42880858 Score: 217
Period size: 50 Copynumber: 3.5 Consensus size: 49
42880674 TGAGTACACG
* **
42880684 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTATTAAATCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TATTAGGTCGCA
* * * *
42880734 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGATGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-ATTAGGTCGCA
* * *
42880784 TGTGCAGTACTATGTGCAGGCTACTACGTGTACCAGAT-TGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAT-TAGGTCGCA
*
42880833 TGTGTAGTACTAAGTGCATGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
42880859 TGCGTATCAG
Statistics
Matches: 106, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
48 1 0.01
49 29 0.27
50 76 0.72
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATATTAGGTCGCA
Found at i:42880868 original size:99 final size:100
Alignment explanation
Indices: 42880680--42880870 Score: 285
Period size: 100 Copynumber: 1.9 Consensus size: 100
42880670 ATTGTGAGTA
* *
42880680 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTATTAAATCGCATGTGTAGTACT
1 CACGTGTGCAGTACTAAGTGCAGGCTACTACGTGTACCAGACTATTAAATCGCATGTGTAGTACT
*
42880745 AAGTGCAGGCTACTACGTGTATCAGATGATGAGGT
66 AAGTGCAGGCTACTACGCGTATCAGATGATGAGGT
* * * **
42880780 CACGTGTGCAGTACTATGTGCAGGCTACTACGTGTACCAGATTGTT-GGTCGCATGTGTAGTACT
1 CACGTGTGCAGTACTAAGTGCAGGCTACTACGTGTACCAGACTATTAAATCGCATGTGTAGTACT
* *
42880844 AAGTGCATGCTACTATGCGTATCAGAT
66 AAGTGCAGGCTACTACGCGTATCAGAT
42880871 AGCTTCGGCT
Statistics
Matches: 81, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
99 40 0.49
100 41 0.51
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (100 bp):
CACGTGTGCAGTACTAAGTGCAGGCTACTACGTGTACCAGACTATTAAATCGCATGTGTAGTACT
AAGTGCAGGCTACTACGCGTATCAGATGATGAGGT
Found at i:42888264 original size:50 final size:49
Alignment explanation
Indices: 42888094--42888335 Score: 216
Period size: 50 Copynumber: 4.9 Consensus size: 49
42888084 ATTGTGAGTA
* * * *
42888094 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGGTAGGT
* * * ** * ** * * *
42888144 CGCATGTGTAGTACTAAGTACAAACTACTATGCATACTCA-ATGACTTCGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAGATG--GTAGGT
42888195 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGT-AGGT
* * * * *
42888245 CACGTGCGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTGTTGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTAGGT
* * * *
42888294 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT
42888336 AGCTTCGGCT
Statistics
Matches: 152, Mismatches: 35, Indels: 11
0.77 0.18 0.06
Matches are distributed among these distances:
49 41 0.27
50 75 0.49
51 36 0.24
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTAGGT
Found at i:42896239 original size:42 final size:41
Alignment explanation
Indices: 42896127--42896239 Score: 127
Period size: 42 Copynumber: 2.7 Consensus size: 41
42896117 TATGTATAAG
* **
42896127 ACCATATCTAGGATATGGCATTGATATGAGATTTCATGTAA
1 ACCATATCTGGGATATGGCATTGATATGAGATCCCATGTAA
* * *
42896168 ACCATAGCTGGGCTAATGGCATCGATATGAGATCCCATGTAAA
1 ACCATATCTGGGAT-ATGGCATTGATATGAGATCCCATGT-AA
* * *
42896211 ATCATATCTGGGATATCGCATTGGTATGA
1 ACCATATCTGGGATATGGCATTGATATGA
42896240 TACTATGCGT
Statistics
Matches: 58, Mismatches: 12, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
41 11 0.19
42 34 0.59
43 13 0.22
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (41 bp):
ACCATATCTGGGATATGGCATTGATATGAGATCCCATGTAA
Found at i:42903719 original size:43 final size:42
Alignment explanation
Indices: 42903644--42903755 Score: 143
Period size: 43 Copynumber: 2.6 Consensus size: 42
42903634 TGGGATTACG
* * **
42903644 TGTAAGACCATATTTGGGATATGGCATTGATATGAGATTTCA
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATCCCA
* *
42903686 TGTAAGACCATAGCTGGGCTAATGGCATCGATATGAGATCCCA
1 TGTAAGACCATATCTGGGAT-ATGGCATCGATATGAGATCCCA
* *
42903729 TGTAAAATCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
42903756 TGGTATAATA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 24 0.41
43 35 0.59
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGATCCCA
Found at i:42905517 original size:43 final size:40
Alignment explanation
Indices: 42905459--42905545 Score: 97
Period size: 43 Copynumber: 2.1 Consensus size: 40
42905449 TGACTCCGAT
* *
42905459 ATATGTGTACAGTAAGACC-CTGTTTGGGATAGTGGCATTG
1 ATATGTGTACAGTAAGACCAC-GTCTGGGACAGTGGCATTG
*
42905499 ATATGTGGTTACATGTAAGACCACGTCTGGGACATTGGCATTG
1 ATATGT-G-TACA-GTAAGACCACGTCTGGGACAGTGGCATTG
42905542 -TATG
1 ATATG
42905546 ATATATGTGT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
40 6 0.15
41 1 0.03
42 8 0.20
43 24 0.60
44 1 0.03
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.32
Consensus pattern (40 bp):
ATATGTGTACAGTAAGACCACGTCTGGGACAGTGGCATTG
Found at i:42913112 original size:40 final size:40
Alignment explanation
Indices: 42913007--42913183 Score: 227
Period size: 40 Copynumber: 4.5 Consensus size: 40
42912997 CGGATGATAA
* * *
42913007 CCGGGCTAAGTCCCGAAGTCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
42913047 TCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
42913086 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
42913126 CCGGGCTAAGTCCTGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
42913166 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
42913184 TACTTGGTTT
Statistics
Matches: 123, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
39 48 0.39
40 75 0.61
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:42913172 original size:79 final size:79
Alignment explanation
Indices: 42913007--42913183 Score: 225
Period size: 79 Copynumber: 2.2 Consensus size: 79
42912997 CGGATGATAA
* * * *
42913007 CCGGGCTAAGTCCCGAAGTCATTTGTGCTAGTGACTAATTTCGGGCTAAGCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTTGA
*
42913072 GCGAGTTACTATAT
66 GCAAGTTACTATAT
* *
42913086 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCCGGGCTAAGTCCTGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCCGGGCTAAG-CCCGAAGGCATTT
42913150 GAGCAAG-TAGCTATAT
64 GAGCAAGTTA-CTATAT
* *
42913166 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
42913184 TACTTGGTTT
Statistics
Matches: 86, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
78 2 0.02
79 59 0.69
80 25 0.29
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTTGA
GCAAGTTACTATAT
Found at i:42923969 original size:48 final size:46
Alignment explanation
Indices: 42923867--42923998 Score: 171
Period size: 47 Copynumber: 2.8 Consensus size: 46
42923857 CATAGGGTAT
*
42923867 AATGCCGATGCCATGTCCTAGACATGTCTTACACTAGCTCTCGTTTC
1 AATGCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCG-TTC
*
42923914 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTTGCTCTCG-T-
1 AATGCCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTCGTTC
*
42923959 AATGTGGCCGATG-CATGTCCCAAACATGTCTTACACTAGC
1 AA--T-GCCGATGCCATGTCCCAGACATGTCTTACACTAGC
42923999 ACACAATTAA
Statistics
Matches: 77, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
45 2 0.03
46 13 0.17
47 38 0.49
48 24 0.31
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.29
Consensus pattern (46 bp):
AATGCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCGTTC
Found at i:42927685 original size:49 final size:49
Alignment explanation
Indices: 42927612--42927705 Score: 143
Period size: 49 Copynumber: 1.9 Consensus size: 49
42927602 TGCCATGTAA
* *
42927612 TGCTAAAATTGGTCTTCCATTGTCTACACTCTTATCAATATTTATACAT
1 TGCTAAAATTAGTCTTCCACTGTCTACACTCTTATCAATATTTATACAT
* * *
42927661 TGCTAAACTTAGTCTTCCACTGTCTACACTCTTATTACTATTTAT
1 TGCTAAAATTAGTCTTCCACTGTCTACACTCTTATCAATATTTAT
42927706 CCCTTCTTGA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.27, C:0.22, G:0.07, T:0.44
Consensus pattern (49 bp):
TGCTAAAATTAGTCTTCCACTGTCTACACTCTTATCAATATTTATACAT
Found at i:42939059 original size:43 final size:43
Alignment explanation
Indices: 42938997--42939083 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
42938987 AACATAGTAT
* *
42938997 ACATTTCAGACATAACTGATTCGAATACACATTTCATATATTC
1 ACATTTCAAACATAACTGATTCGAATACACATTTAATATATTC
* * *
42939040 ACATTTCAAACGTACCTGATTTGAATACACATTTAATATATTC
1 ACATTTCAAACATAACTGATTCGAATACACATTTAATATATTC
42939083 A
1 A
42939084 TTCTTTTCTC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.36
Consensus pattern (43 bp):
ACATTTCAAACATAACTGATTCGAATACACATTTAATATATTC
Found at i:42948767 original size:46 final size:46
Alignment explanation
Indices: 42948639--42948807 Score: 123
Period size: 46 Copynumber: 3.6 Consensus size: 46
42948629 AGGCCGACAC
* ** * *
42948639 CATGTCCCAGACATGGTCTTACACTGGCTCTCACATCTCTG-TGCCAATTC
1 CATGTCCCAGACAT-GTCTTACACTAGCT-T-ACATCTC-GAACCCGA-TG
* *
42948689 CATGTCCTAGACATGGCCTTACACT-GAC--ACATCTC-ATACCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAG-CTTACATCTCGA-ACCCGATG
* **
42948734 CATGTCCCAGACATTTCTTACACTAGCTTACATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAACCCGATG
* *
42948780 TATGTCCTAGACATGTCTTACACTAGCT
1 CATGTCCCAGACATGTCTTACACTAGCT
42948808 CTCGTCTCGA
Statistics
Matches: 98, Mismatches: 14, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
44 9 0.09
45 15 0.15
46 48 0.49
47 1 0.01
49 1 0.01
50 24 0.24
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAACCCGATG
Found at i:42948816 original size:46 final size:46
Alignment explanation
Indices: 42948728--42948849 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 46
42948718 CATCTCATAC
* *
42948728 CCGATGCATGTCCCAGACATTTCTTACACTAGCTTACATCTCGAGG
1 CCGATGCATGTCCTAGACATGTCTTACACTAGCTTACATCTCGAGG
* * *
42948774 CCGATGTATGTCCTAGACATGTCTTACACTAGCTCT-CGTCTCGATG
1 CCGATGCATGTCCTAGACATGTCTTACACTAGCT-TACATCTCGAGG
* *
42948820 TCGTTGCCATGTCCTAGACATGGTCTTACA
1 CCGATG-CATGTCCTAGACAT-GTCTTACA
42948850 TTGTGTAACA
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
46 43 0.66
47 14 0.22
48 8 0.12
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.31
Consensus pattern (46 bp):
CCGATGCATGTCCTAGACATGTCTTACACTAGCTTACATCTCGAGG
Found at i:42951116 original size:94 final size:92
Alignment explanation
Indices: 42950964--42951138 Score: 237
Period size: 94 Copynumber: 1.9 Consensus size: 92
42950954 CACATATCCG
* * *
42950964 TGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGCTGATACATGTCCTAGA
1 TGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAGGCCGATACATGTCCCAGA
*
42951029 CATGTCCTACACTAGCTCTTGTCTCAA
66 CATGTCATACACTAGCTCTTGTCTCAA
* *
42951056 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCGATGCATGTCC
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-ATCGAGGCCGATACATGTCC
*
42951119 CAGATATGTCATACACTAGC
62 CAGACATGTCATACACTAGC
42951139 ACACATACAT
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
92 8 0.11
93 14 0.19
94 48 0.67
95 2 0.03
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (92 bp):
TGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAGGCCGATACATGTCCCAGA
CATGTCATACACTAGCTCTTGTCTCAA
Found at i:42958250 original size:55 final size:55
Alignment explanation
Indices: 42958191--42958380 Score: 222
Period size: 55 Copynumber: 3.5 Consensus size: 55
42958181 GCAAGGAAAT
* * *
42958191 CATGTAGGACCATGTCAAGACATGGCATTAATAAACTACTATAAGGCAAAGATCC
1 CATGTAAGACCATGCCAAGACATGGCATTGATAAACTACTATAAGGCAAAGATCC
* * * * * * * * *
42958246 CATGTAAGACCATGCCAAGGCATGGAAATGGT-GAGTTC-ATAAGGCAAGGATAC
1 CATGTAAGACCATGCCAAGACATGGCATTGATAAACTACTATAAGGCAAAGATCC
* * *
42958299 CACGTAAGACCATGTCAAGACATGGCATTGATAAACTATTATAAGGCAAAGATCC
1 CATGTAAGACCATGCCAAGACATGGCATTGATAAACTACTATAAGGCAAAGATCC
*
42958354 CATGTAAGACCATGCCAAGGCATGGCA
1 CATGTAAGACCATGCCAAGACATGGCA
42958381 ATGGTGAGTT
Statistics
Matches: 106, Mismatches: 27, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
53 39 0.37
54 5 0.05
55 62 0.58
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (55 bp):
CATGTAAGACCATGCCAAGACATGGCATTGATAAACTACTATAAGGCAAAGATCC
Found at i:42958306 original size:53 final size:53
Alignment explanation
Indices: 42958132--42958443 Score: 237
Period size: 53 Copynumber: 5.8 Consensus size: 53
42958122 AGGGTTTAAG
* ** ** * * *
42958132 GATACCAAGTAAGACCATGCCAAGGTATGGCTTTGGTAAGTTTTACAAGGCAAG
1 GATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGCAAA
* * * * * * ** * *
42958186 GAAATCATGTAGGACCATGTCAAGACATGGCATTAATAAACTACTATAAGGCAAA
1 GATACCACGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGCAAA
* * * * * *
42958241 GATCCCATGTAAGACCATGCCAAGGCATGGAAATGGTGAGTTCATAAGGCAAG
1 GATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAA
* * * * *
42958294 GATACCACGTAAGACCATGTCAAGACATGGCATTGATAAACTATTATAAGGCAAA
1 GATACCACGTAAGACCATGCCAAGACATGGCAATGGT-AAGT-TCATAAGGCAAA
* * * * *
42958349 GATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGCAAG
1 GATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAA
** * *
42958402 GATACCACAAAAGACTATGTCAAGACATGGCAATGGTAAGTT
1 GATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
42958444 TAAAAAGGAA
Statistics
Matches: 196, Mismatches: 58, Indels: 9
0.75 0.22 0.03
Matches are distributed among these distances:
53 83 0.42
54 35 0.18
55 78 0.40
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.21
Consensus pattern (53 bp):
GATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAA
Found at i:42958333 original size:108 final size:108
Alignment explanation
Indices: 42958140--42958433 Score: 435
Period size: 108 Copynumber: 2.7 Consensus size: 108
42958130 AGGATACCAA
* ** * * * * * * *
42958140 GTAAGACCATGCCAAGGTATGGCTTTGGTAAGTTTTACAAGGCAAGGAAATCATGTAGGACCATG
1 GTAAGACCATGCCAAGGCATGGCAATGGTGAG-TTCATAAGGCAAGGATACCACGTAAGACCATG
42958205 TCAAGACATGGCATTAATAAACTACTATAAGGCAAAGATCCCAT
65 TCAAGACATGGCATTAATAAACTACTATAAGGCAAAGATCCCAT
*
42958249 GTAAGACCATGCCAAGGCATGGAAATGGTGAGTTCATAAGGCAAGGATACCACGTAAGACCATGT
1 GTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGCAAGGATACCACGTAAGACCATGT
* *
42958314 CAAGACATGGCATTGATAAACTATTATAAGGCAAAGATCCCAT
66 CAAGACATGGCATTAATAAACTACTATAAGGCAAAGATCCCAT
** *
42958357 GTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGCAAGGATACCACAAAAGACTATGT
1 GTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGCAAGGATACCACGTAAGACCATGT
42958422 CAAGACATGGCA
66 CAAGACATGGCA
42958434 ATGGTAAGTT
Statistics
Matches: 168, Mismatches: 17, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
108 141 0.84
109 27 0.16
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.21
Consensus pattern (108 bp):
GTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGCAAGGATACCACGTAAGACCATGT
CAAGACATGGCATTAATAAACTACTATAAGGCAAAGATCCCAT
Found at i:42960674 original size:20 final size:21
Alignment explanation
Indices: 42960649--42960688 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
42960639 TTATTGAAAC
42960649 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
42960669 AGGGCAACACGCCTGTGTGG
1 AGGGCAACACGCCCGTGTGG
42960689 TCATTATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.20, C:0.28, G:0.40, T:0.12
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:42962065 original size:46 final size:47
Alignment explanation
Indices: 42961921--42962179 Score: 180
Period size: 46 Copynumber: 5.5 Consensus size: 47
42961911 TGTCCGACGC
** *
42961921 CATGTCCCAGACATCATCTTACACTGGCTCTCACATCTCTG-CGCCGATG
1 CATGTCCCAGACATGTTCTTACACTGGCTCT--CATCTC-GAGGCCGATG
* * * * * * *
42961970 CCATGTCCTAGACA-GAGTCATACACT-G-ACGCATCTC-ATAGCCGGTG
1 -CATGTCCCAGACATG-TTCTTACACTGGCTCTCATCTCGA-GGCCGATG
*
42962016 CATGTCCCAGACATGTT-TTACGCTGGCT-TACATCTCGAGGCCGATG
1 CATGTCCCAGACATGTTCTTACACTGGCTCT-CATCTCGAGGCCGATG
* * * * *
42962062 CATGTCCCAGACAT-TTCTTACACTAGCTCTCATCTCAATGTCGTTG
1 CATGTCCCAGACATGTTCTTACACTGGCTCTCATCTCGAGGCCGATG
* * *
42962108 CCATG-CCCTAGACATGTTCTTACACTGGCTCTCATAAT-GTGGCAGATG
1 -CATGTCCC-AGACATGTTCTTACACTGGCTCTCAT-CTCGAGGCCGATG
42962156 CATGTCCCAGACATG-TCTTACACT
1 CATGTCCCAGACATGTTCTTACACT
42962180 AGCGCACAAA
Statistics
Matches: 164, Mismatches: 30, Indels: 34
0.72 0.13 0.15
Matches are distributed among these distances:
44 5 0.03
45 16 0.10
46 72 0.44
47 23 0.14
48 26 0.16
49 2 0.01
50 20 0.12
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACATGTTCTTACACTGGCTCTCATCTCGAGGCCGATG
Found at i:42971680 original size:42 final size:44
Alignment explanation
Indices: 42971621--42971740 Score: 138
Period size: 42 Copynumber: 2.8 Consensus size: 44
42971611 ATGTTATCAA
* *
42971621 ATATCGATGCCACTGTCCCAGACAGGGTCTTATAC-TAAAT-T-
1 ATATCGATGCCAATGTCCCAGACAGGGTCTTACACATAAATCTC
*
42971662 ATATACGATGCCAATGTCCCAGACATGGTCTTACACATAAATCTC
1 ATAT-CGATGCCAATGTCCCAGACAGGGTCTTACACATAAATCTC
* * * **
42971707 AAATCGATGCCGATGTTCCAGACATAGTCTTACA
1 ATATCGATGCCAATGTCCCAGACAGGGTCTTACA
42971741 TGATATCACA
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
41 4 0.06
42 28 0.41
43 5 0.07
44 28 0.41
45 3 0.04
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.28
Consensus pattern (44 bp):
ATATCGATGCCAATGTCCCAGACAGGGTCTTACACATAAATCTC
Found at i:42971728 original size:44 final size:40
Alignment explanation
Indices: 42971623--42971740 Score: 128
Period size: 44 Copynumber: 2.8 Consensus size: 40
42971613 GTTATCAAAT
* * *
42971623 ATCGATGCCACTGTCCCAGACAGGGTCTTATACTAAATTAT
1 ATCGATGCCA-TGTCCCAGACATGGTCTTACACTAAATTAA
42971664 ATACGATGCCAATGTCCCAGACATGGTCTTACACATAAATCTCAA
1 AT-CGATGCC-ATGTCCCAGACATGGTCTTACAC-TAAAT-T-AA
* *
42971709 ATCGATGCCGATGTTCCAGACATAGTCTTACA
1 ATCGATGCC-ATGTCCCAGACATGGTCTTACA
42971741 TGATATCACA
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
41 2 0.03
42 27 0.41
43 6 0.09
44 28 0.42
45 3 0.05
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.27
Consensus pattern (40 bp):
ATCGATGCCATGTCCCAGACATGGTCTTACACTAAATTAA
Found at i:42976238 original size:41 final size:42
Alignment explanation
Indices: 42976133--42976254 Score: 138
Period size: 43 Copynumber: 2.9 Consensus size: 42
42976123 TAGGGTTTCT
* * * * *
42976133 GATATGTGTTCTCGTGTAAGACTACGTTTGGGACGTTGGCATC
1 GATATGTGAT-TCGTGTAAGACCACGTTTAGGACATTGACATC
* *
42976176 GATATGTGATTATGTGTAAGACCATGTTTAGGACATTGACATC
1 GATATGTGATT-CGTGTAAGACCACGTTTAGGACATTGACATC
* *
42976219 -ATATTTGATTCGTGTAAGACCACGTCTAGGACATTG
1 GATATGTGATTCGTGTAAGACCACGTTTAGGACATTG
42976255 TCATTGTATG
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
41 23 0.34
42 10 0.15
43 34 0.51
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.34
Consensus pattern (42 bp):
GATATGTGATTCGTGTAAGACCACGTTTAGGACATTGACATC
Found at i:42986027 original size:26 final size:26
Alignment explanation
Indices: 42985998--42986049 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
42985988 ACCAATGAAA
*
42985998 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
42986024 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
42986050 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:42986030 original size:104 final size:103
Alignment explanation
Indices: 42985758--42986127 Score: 591
Period size: 103 Copynumber: 3.6 Consensus size: 103
42985748 TAGCCGTTAT
** *
42985758 TGGTGGATCCCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
42985823 AATCAGCACATAGCAACCCCCTTTTTATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
*
42985861 TGGTGGATATCGCACCTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
42985926 AATCAGCACATAGCAACCCCCCTTTTCATTTCAAAGATA
66 AATCAGCACATAGCAA-CCCCCTTTTCATTTCAAAGATA
42985965 TGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTC-GGG
1 TGGTGGATATCGCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
*
42986029 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTT-TCATTTCAAAGATA
* * * **
42986069 TGGTGGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
42986128 TTTATATACA
Statistics
Matches: 251, Mismatches: 12, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
103 112 0.45
104 108 0.43
105 31 0.12
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.19
Consensus pattern (103 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
Found at i:42986490 original size:30 final size:29
Alignment explanation
Indices: 42986456--42986520 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
42986446 TAATCCACCA
42986456 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
42986486 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
42986516 CCCAA
1 CCCAA
42986521 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:42986494 original size:31 final size:30
Alignment explanation
Indices: 42986463--42986520 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
42986453 CCACCCAACT
42986463 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
42986493 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
42986521 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:42989219 original size:40 final size:40
Alignment explanation
Indices: 42989174--42989325 Score: 207
Period size: 40 Copynumber: 3.8 Consensus size: 40
42989164 ATAACCACAA
* * *
42989174 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
42989214 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
42989254 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
42989294 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
42989326 CATTCAAATG
Statistics
Matches: 102, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 1 0.01
40 97 0.95
41 4 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:42997367 original size:40 final size:40
Alignment explanation
Indices: 42997322--42997513 Score: 226
Period size: 40 Copynumber: 4.8 Consensus size: 40
42997312 ATAACCACAA
* * *
42997322 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
42997362 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
42997402 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* * * * *
42997442 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
42997482 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
42997514 CATTCAAATG
Statistics
Matches: 142, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 1 0.01
40 137 0.96
41 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:42997406 original size:80 final size:80
Alignment explanation
Indices: 42997293--42997512 Score: 248
Period size: 80 Copynumber: 2.8 Consensus size: 80
42997283 ACCCAAGTTT
* * * * * * * * *
42997293 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAG
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAG
*
42997356 CAACTCGCACAAATGC
66 C-ACTAGCACAAATGC
* * *
42997372 CTTCGGGTCTTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAA
1 CTTCGGGACTTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAA
* *
42997436 TCACTAGCATAAATGC
65 GCACTAGCACAAATGC
* *
42997452 CTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATA
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATA
42997513 TCATTCAAAT
Statistics
Matches: 117, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
79 12 0.10
80 98 0.84
81 7 0.06
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAG
CACTAGCACAAATGC
Found at i:43005246 original size:43 final size:42
Alignment explanation
Indices: 43005179--43005281 Score: 109
Period size: 43 Copynumber: 2.4 Consensus size: 42
43005169 AGCTCGTAAA
* * *
43005179 ATGCCAATGTCCTAGACGCAGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCTAGACGAAGTCTTACAAGAAATCAAATA-CG
* **
43005222 ATGCCATTGTCCTAGAC-AAGGTCTTGTAAGAAATCAAATACG
1 ATGCCAATGTCCTAGACGAA-GTCTTACAAGAAATCAAATACG
* *
43005264 ATGCCAACGTCCCAGACG
1 ATGCCAATGTCCTAGACG
43005282 TGGTCTTATA
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
42 17 0.35
43 32 0.65
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (42 bp):
ATGCCAATGTCCTAGACGAAGTCTTACAAGAAATCAAATACG
Found at i:43005287 original size:42 final size:43
Alignment explanation
Indices: 43005210--43005333 Score: 110
Period size: 44 Copynumber: 2.9 Consensus size: 43
43005200 TCTTACATGT
** * ** *
43005210 AATCAAATATCGATGCCATTGTCCTAGACAAGGTCTTGTAAG-A
1 AATCAAATA-CGATGCCAACGTCCCAGACGTGGTCTTATAAGCA
*
43005253 AATCAAATACGATGCCAACGTCCCAGACGTGGTCTTATACGCCA
1 AATCAAATACGATGCCAACGTCCCAGACGTGGTCTTATAAG-CA
* *
43005297 AA-CATAAGT-CGATGCCAACGTCCCAAACGTAGTCTTA
1 AATCA-AA-TACGATGCCAACGTCCCAGACGTGGTCTTA
43005334 CACGAAAACA
Statistics
Matches: 68, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
42 25 0.37
43 11 0.16
44 31 0.46
45 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (43 bp):
AATCAAATACGATGCCAACGTCCCAGACGTGGTCTTATAAGCA
Found at i:43006802 original size:29 final size:29
Alignment explanation
Indices: 43006735--43006859 Score: 180
Period size: 29 Copynumber: 4.3 Consensus size: 29
43006725 AACTCTACAT
* *
43006735 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
43006763 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
43006792 ACATTCGTATGACCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
43006821 ATATTCATACGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
43006850 ACATTCATAT
1 ACATTCATAT
43006860 ACAAGCTTTC
Statistics
Matches: 84, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
28 21 0.25
29 63 0.75
ACGTcount: A:0.30, C:0.31, G:0.14, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:43008803 original size:29 final size:29
Alignment explanation
Indices: 43008764--43008842 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
43008754 CTTAATAATC
*
43008764 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
43008794 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
43008823 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
43008843 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:43016952 original size:29 final size:29
Alignment explanation
Indices: 43016877--43016955 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
43016867 CTTAATAATC
* *
43016877 AACCACGCACACTTAGTACCATGTACTTTA
1 AACC-CGCACACTTAGTGCCATGCACTTTA
*
43016907 AACTCGCACACTTAGTGCCATGCA-TTTCA
1 AACCCGCACACTTAGTGCCATGCACTTT-A
*
43016936 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
43016956 ATCTCACAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 3 0.07
29 37 0.86
30 3 0.07
ACGTcount: A:0.29, C:0.33, G:0.14, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCACTTTA
Found at i:43022153 original size:24 final size:24
Alignment explanation
Indices: 43022103--43022156 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
43022093 AATCGAATTT
*
43022103 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
43022127 GCACACATAGTGCCATAG-CACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
43022151 GCACAC
1 GCACAC
43022157 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 6 0.22
26 2 0.07
ACGTcount: A:0.30, C:0.39, G:0.17, T:0.15
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:43025065 original size:43 final size:43
Alignment explanation
Indices: 43025011--43025096 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
43025001 TCATATTTCA
*
43025011 TTTCTCGTCTCATAATCATTTCTCATATTTGTCATTTCAATAT
1 TTTCTCATCTCATAATCATTTCTCATATTTGTCATTTCAATAT
* * * *
43025054 TTTCTCATCTCATATTTATTTCTCATCTTTGTCATTTTAATAT
1 TTTCTCATCTCATAATCATTTCTCATATTTGTCATTTCAATAT
43025097 CAATCACATA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.22, C:0.20, G:0.03, T:0.55
Consensus pattern (43 bp):
TTTCTCATCTCATAATCATTTCTCATATTTGTCATTTCAATAT
Found at i:43026253 original size:23 final size:23
Alignment explanation
Indices: 43026212--43026256 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
43026202 GTGTCATGAG
*
43026212 TTTCTTTTCCCTTTCTTTCTTTC
1 TTTCTTTTCCCTTTATTTCTTTC
**
43026235 TTTCTTTTCTTTTTATTTCTTT
1 TTTCTTTTCCCTTTATTTCTTT
43026257 TCGAATTTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (23 bp):
TTTCTTTTCCCTTTATTTCTTTC
Found at i:43030987 original size:39 final size:39
Alignment explanation
Indices: 43030944--43031144 Score: 267
Period size: 39 Copynumber: 5.2 Consensus size: 39
43030934 GGAGTATCGG
* * * *
43030944 AGTACAACAAGGGCATGTAATTGCGTTCAGGGGTACCAA
1 AGTACAACAGGGGCACGTAAGTGCATTCAGGGGTACCAA
* * *
43030983 AGTACAACAGGGGCACGTAAGTGCATCCAGGGATACCGA
1 AGTACAACAGGGGCACGTAAGTGCATTCAGGGGTACCAA
* *
43031022 AGTACAACAGGGGCATGTAAGTGCATTCAGGGGTCCCAA
1 AGTACAACAGGGGCACGTAAGTGCATTCAGGGGTACCAA
* ** * *
43031061 AGTACAATAACGACACGTAAGTGCATTCAGGGGTACCAC
1 AGTACAACAGGGGCACGTAAGTGCATTCAGGGGTACCAA
*
43031100 AGTACAACAGGGGCACGTAAGTGCATTCAGGGGTACCGA
1 AGTACAACAGGGGCACGTAAGTGCATTCAGGGGTACCAA
43031139 AGTACA
1 AGTACA
43031145 TTAGTTTCCC
Statistics
Matches: 137, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 137 1.00
ACGTcount: A:0.33, C:0.21, G:0.29, T:0.17
Consensus pattern (39 bp):
AGTACAACAGGGGCACGTAAGTGCATTCAGGGGTACCAA
Found at i:43030993 original size:19 final size:19
Alignment explanation
Indices: 43030971--43031034 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
43030961 TAATTGCGTT
43030971 CAGGGGTACCAAAGTACAA
1 CAGGGGTACCAAAGTACAA
* ** * *
43030990 CAGGGGCACGTAAGTGCATC
1 CAGGGGTACCAAAGTACA-A
* *
43031010 CAGGGATACCGAAGTACAA
1 CAGGGGTACCAAAGTACAA
43031029 CAGGGG
1 CAGGGG
43031035 CATGTAAGTG
Statistics
Matches: 32, Mismatches: 12, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
19 19 0.59
20 13 0.41
ACGTcount: A:0.34, C:0.22, G:0.33, T:0.11
Consensus pattern (19 bp):
CAGGGGTACCAAAGTACAA
Found at i:43031132 original size:20 final size:20
Alignment explanation
Indices: 43030990--43031132 Score: 64
Period size: 20 Copynumber: 7.3 Consensus size: 20
43030980 CAAAGTACAA
*
43030990 CAGGGGCACGTAAGTGCATC
1 CAGGGGCACGTAAGTGCATT
** * *
43031010 CAGGGATACCG-AAGTACA-A
1 CAGGGGCA-CGTAAGTGCATT
*
43031029 CAGGGGCATGTAAGTGCATT
1 CAGGGGCACGTAAGTGCATT
** * *
43031049 CAGGGGTC-CCAAAGTACAAT
1 CAGGGG-CACGTAAGTGCATT
** *
43031069 -AACGACACGTAAGTGCATT
1 CAGGGGCACGTAAGTGCATT
* * * *
43031088 CAGGGGTAC-CACAGTACA-A
1 CAGGGGCACGTA-AGTGCATT
43031107 CAGGGGCACGTAAGTGCATT
1 CAGGGGCACGTAAGTGCATT
43031127 CAGGGG
1 CAGGGG
43031133 TACCGAAGTA
Statistics
Matches: 82, Mismatches: 32, Indels: 18
0.62 0.24 0.14
Matches are distributed among these distances:
18 2 0.02
19 36 0.44
20 41 0.50
21 3 0.04
ACGTcount: A:0.31, C:0.22, G:0.31, T:0.16
Consensus pattern (20 bp):
CAGGGGCACGTAAGTGCATT
Found at i:43031141 original size:20 final size:20
Alignment explanation
Indices: 43031079--43031146 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
43031069 AACGACACGT
*
43031079 AAGTGCATTCAGGGGTACC-
1 AAGTACATTCAGGGGTACCG
* *
43031098 ACAGTACA-ACAGGGGCA-CG
1 A-AGTACATTCAGGGGTACCG
*
43031117 TAAGTGCATTCAGGGGTACCG
1 -AAGTACATTCAGGGGTACCG
43031138 AAGTACATT
1 AAGTACATT
43031147 AGTTTCCCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
18 1 0.03
19 13 0.35
20 21 0.57
21 2 0.05
ACGTcount: A:0.31, C:0.21, G:0.29, T:0.19
Consensus pattern (20 bp):
AAGTACATTCAGGGGTACCG
Found at i:43036784 original size:7 final size:7
Alignment explanation
Indices: 43036767--43036796 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
43036757 ATTTTATAAG
43036767 ATAATTAT
1 ATAA-TAT
43036775 ATAATAT
1 ATAATAT
43036782 ATAATAT
1 ATAATAT
43036789 ATAATAT
1 ATAATAT
43036796 A
1 A
43036797 AAAGTATATG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 18 0.82
8 4 0.18
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
ATAATAT
Found at i:43036959 original size:16 final size:17
Alignment explanation
Indices: 43036927--43036961 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
43036917 TAATACATGA
*
43036927 AATAATATATTAAAAGT
1 AATAATATATGAAAAGT
43036944 AATAATATA-GAAAAGT
1 AATAATATATGAAAAGT
43036960 AA
1 AA
43036962 AAGAATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.29
Consensus pattern (17 bp):
AATAATATATGAAAAGT
Found at i:43039114 original size:206 final size:206
Alignment explanation
Indices: 43038771--43039919 Score: 1697
Period size: 206 Copynumber: 5.6 Consensus size: 206
43038761 TTTGTTTCCA
* *
43038771 GACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACGTGAAAACCAAATCAG
1 GACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCACGCGAAAACCAAATCAG
* *
43038836 CTATGTCTTCGATTTGCTCATTGTAAGCATAAGGATACCAAACCATCTTGGATCTGCTTCAGTCT
66 CTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATCTGCTTCAGTCT
*
43038901 AATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCATCGAATATGGAGACGCCAATA-TTT
131 AATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGACGCCAA-ACTTT
43038965 GATTTGTTCTCT
195 GATTTGTTCTCT
* *
43038977 GACAACACAGAGATTCCAAATCATCTTAGACTTGCTTCAGCGTAAGCACGCGAAAACCAAATCAG
1 GACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCACGCGAAAACCAAATCAG
*
43039042 CTATGTCTTTGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATCTGCTTCAGTCT
66 CTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATCTGCTTCAGTCT
* *
43039107 AATCATCTGAAGGTTAGATCTGCTACGTGTCTACCCTCCGTCGAATATGGAGACGCCAAACTTTG
131 AATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGACGCCAAACTTTG
*
43039172 ATTTGTTCTAT
196 ATTTGTTCTCT
43039183 GACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCACGCGAAAACCAAATCAG
1 GACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCACGCGAAAACCAAATCAG
*
43039248 CTATGTCTTCGATTTGCTCATTGTAAGCACAAGGATACCAAACCATCTTGGATCTGCTTCAGTCT
66 CTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATCTGCTTCAGTCT
* * * *
43039313 AATCATCTGAAGGTTAGATCTGTTATCTGTCTGCCCTCCGTCGAATATGGAGACGCAAAACTTCG
131 AATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGACGCCAAACTTTG
*
43039378 ATTTGTTTTCT
196 ATTTGTTCTCT
* * * * * * * * *
43039389 GAAAATACCGAGATGCCAAATCATCTTAAATTTGTTTCATCGTAAGCACGTGAAAGCCAAATTAG
1 GACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCACGCGAAAACCAAATCAG
* * *
43039454 CTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATACCAAATCATCTTGGATCTGC-T---TC-
66 CTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATCTGCTTCAGTCT
** * * * * *
43039514 -AT-A--TGAAGGCCAGATCTGCTATGTGTCTGCTCTCTGTCAAATTTGGAGACGCCAAACTTCG
131 AATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGACGCCAAACTTTG
43039575 ATTTGTTCTCT
196 ATTTGTTCTCT
*
43039586 GACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCATGCGAAAACCAAATCAG
1 GACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCACGCGAAAACCAAATCAG
* * * *
43039651 CTATGTCTTCAATTTACTTCTTGTAAGCACAAGGATACCAAACCATCTTGGATCTGCTTCAGTAT
66 CTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATCTGCTTCAGTCT
* * * * *
43039716 AAACATATGAAGGCTAGATCTGCTATGTGTCTGCTCTTCGTCGAATATGGAGACGCCAAACTTTG
131 AATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGACGCCAAACTTTG
43039781 ATTTGTTCTCT
196 ATTTGTTCTCT
* * * * * * * *
43039792 GACAATACAGAGATGCCAAATCATCTTAGATTTGCTTAATCGCAAGCACGTGAAAGCCAAATTAT
1 GACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCACGCGAAAACCAAATCAG
* * *
43039857 CCATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTGCTTCAG
66 CTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATC-TGCTTCAG
43039920 CTAGATCTGC
Statistics
Matches: 847, Mismatches: 85, Indels: 21
0.89 0.09 0.02
Matches are distributed among these distances:
197 165 0.19
198 1 0.00
199 1 0.00
200 2 0.00
201 1 0.00
202 2 0.00
203 1 0.00
204 1 0.00
205 2 0.00
206 663 0.78
207 8 0.01
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (206 bp):
GACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCACGCGAAAACCAAATCAG
CTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATCTGCTTCAGTCT
AATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGACGCCAAACTTTG
ATTTGTTCTCT
Found at i:43039749 original size:403 final size:405
Alignment explanation
Indices: 43038771--43039918 Score: 1737
Period size: 403 Copynumber: 2.8 Consensus size: 405
43038761 TTTGTTTCCA
* *
43038771 GACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACGTGAAAACCAAATCAG
1 GACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCACGCGAAAACCAAATCAG
*
43038836 CTATGTCTTCGATTTGCTCATTGTAAGCATAAGGATACCAAACCATCTTGGATCTGCTTCAGTCT
66 CTATGTCTTCGATTTGCTCATTGTAAGCACAAGGATACCAAACCATCTTGGATCTGCTTCAGTCT
* *
43038901 AATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCATCGAATATGGAGACGCCAATA-TTT
131 AATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGACG-CAAAACTTT
* * * * *
43038965 GATTTGTTCTCTGACAACACAGAGATTCCAAATCATCTTAGACTTGCTTCAGCGTAAGCACGCGA
195 GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGA
* * * *
43039030 AAACCAAATCAGCTATGTCTTTGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTTGGAT
260 AAGCCAAATTAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTTGGAT
** *
43039095 CTGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTACGTGTCTACCCTCCGTCGAATATGGAGA
325 CTGC-T---TC--ATCA-CTGAAGGCCAGATCTGCTACGTGTCTACCCTCCGTCAAATATGGAGA
*
43039160 CGCCAAACTTTGATTTGTTCTAT
383 CGCCAAACTTCGATTTGTTCTAT
43039183 GACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCACGCGAAAACCAAATCAG
1 GACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCACGCGAAAACCAAATCAG
43039248 CTATGTCTTCGATTTGCTCATTGTAAGCACAAGGATACCAAACCATCTTGGATCTGCTTCAGTCT
66 CTATGTCTTCGATTTGCTCATTGTAAGCACAAGGATACCAAACCATCTTGGATCTGCTTCAGTCT
* * *
43039313 AATCATCTGAAGGTTAGATCTGTTATCTGTCTGCCCTCCGTCGAATATGGAGACGCAAAACTTCG
131 AATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGACGCAAAACTTTG
* * * * *
43039378 ATTTGTTTTCTGAAAATACCGAGATGCCAAATCATCTTAAATTTGTTTCATCGTAAGCACGTGAA
196 ATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAA
* *
43039443 AGCCAAATTAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATACCAAATCATCTTGGATC
261 AGCCAAATTAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATC
* * * * *
43039508 TGCTTCAT-A-TGAAGGCCAGATCTGCTATGTGTCTGCTCTCTGTCAAATTTGGAGACGCCAAAC
326 TGCTTCATCACTGAAGGCCAGATCTGCTACGTGTCTACCCTCCGTCAAATATGGAGACGCCAAAC
*
43039571 TTCGATTTGTTCTCT
391 TTCGATTTGTTCTAT
*
43039586 GACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCATGCGAAAACCAAATCAG
1 GACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCACGCGAAAACCAAATCAG
* * *
43039651 CTATGTCTTCAATTTACTTC-TTGTAAGCACAAGGATACCAAACCATCTTGGATCTGCTTCAGTA
66 CTATGTCTTCGATTTGC-TCATTGTAAGCACAAGGATACCAAACCATCTTGGATCTGCTTCAGTC
* * * * * *
43039715 TAAACATATGAAGGCTAGATCTGCTATGTGTCTGCTCTTCGTCGAATATGGAGACGCCAAACTTT
130 TAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGACGCAAAACTTT
* *
43039780 GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTAATCGCAAGCACGTGA
195 GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGA
* * *
43039845 AAGCCAAATTATCCATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGAT
260 AAGCCAAATTAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTTGGAT
43039910 CTTGCTTCA
325 C-TGCTTCA
43039919 GCTAGATCTG
Statistics
Matches: 674, Mismatches: 59, Indels: 14
0.90 0.08 0.02
Matches are distributed among these distances:
403 356 0.53
404 9 0.01
405 1 0.00
406 2 0.00
408 2 0.00
411 5 0.01
412 299 0.44
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (405 bp):
GACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCACGCGAAAACCAAATCAG
CTATGTCTTCGATTTGCTCATTGTAAGCACAAGGATACCAAACCATCTTGGATCTGCTTCAGTCT
AATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGACGCAAAACTTTG
ATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAA
AGCCAAATTAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATC
TGCTTCATCACTGAAGGCCAGATCTGCTACGTGTCTACCCTCCGTCAAATATGGAGACGCCAAAC
TTCGATTTGTTCTAT
Found at i:43040825 original size:18 final size:17
Alignment explanation
Indices: 43040799--43040837 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
43040789 GGCCTCTCCA
*
43040799 TTTTCTCTTTTTCCTCTT
1 TTTTATCTTTTT-CTCTT
*
43040817 TTTTATCTTTTTTTCTT
1 TTTTATCTTTTTCTCTT
43040834 TTTT
1 TTTT
43040838 TTTATTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTATCTTTTTCTCTT
Found at i:43040829 original size:20 final size:19
Alignment explanation
Indices: 43040806--43040848 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
43040796 CCATTTTCTC
43040806 TTTTTCCTCTTTTTTATCTT
1 TTTTTCCTCTTTTTTAT-TT
* *
43040826 TTTTTCTTTTTTTTTATTT
1 TTTTTCCTCTTTTTTATTT
43040845 TTTT
1 TTTT
43040849 GAAACCCCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.84
Consensus pattern (19 bp):
TTTTTCCTCTTTTTTATTT
Found at i:43048431 original size:48 final size:49
Alignment explanation
Indices: 43048259--43048487 Score: 211
Period size: 48 Copynumber: 4.7 Consensus size: 49
43048249 CATAGGGTAT
* * * *
43048259 AATGCTGATGCCATGTCCGAGACATGGTCTTACACT-GACTATGA-AAATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCT-ACATATC
* * *
43048308 GAGGCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-ACATATC
** * * * *
43048358 TGTGCCGATGTCATGTCCCAGACATGGTCTTATACTAGCTCT-CGTCTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATATC
* * *
43048406 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-GATAAC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATATC
* *
43048454 -GTGGCCGATG-CATGTCCTAGACAT-GTCTTACACT
1 AAT-GCCGATGCCATGTCCCAGACATGGTCTTACACT
43048488 GGCACACAAA
Statistics
Matches: 150, Mismatches: 27, Indels: 9
0.81 0.15 0.05
Matches are distributed among these distances:
46 10 0.07
47 14 0.09
48 50 0.33
49 35 0.23
50 41 0.27
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (49 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATATC
Found at i:43050953 original size:46 final size:48
Alignment explanation
Indices: 43050821--43051133 Score: 233
Period size: 46 Copynumber: 6.6 Consensus size: 48
43050811 ATTGTGAGCT
* * * * * *
43050821 AGTGTAAGACCATGGCTGAGACATGGCATCGGC-ATTGAGACG-AGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTA-CGAGATGTA-AGCC
* * *
43050869 AGTGTAAGA-CATGTTTGGGACAT-GCATCAGCCT-TGAGATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GGCTACGAGATGTAAGCC
* *
43050915 ACTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGT--GTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGAGATGTAAGCC
* *
43050959 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGGATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTAC-GAGATGT-A-AGCC
* * * * *
43051009 AGTGTAAGACCATGTCTGGGACATGGCATCGACCT-TGA-TTTTGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCG-GCTACGAGATGT-A-AGCC
** *
43051058 AGTGTAAGACCATGTCTGGGACATGGCATCAACT-TGATGGATG--AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGA--GATGTAAGCC
43051105 AGTGTAAGACCATGTCTGGGACATGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
43051134 TGATATTATA
Statistics
Matches: 221, Mismatches: 28, Indels: 33
0.78 0.10 0.12
Matches are distributed among these distances:
44 10 0.05
45 19 0.09
46 60 0.27
47 46 0.21
48 14 0.06
49 36 0.16
50 34 0.15
51 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGAGATGTAAGCC
Found at i:43051081 original size:49 final size:49
Alignment explanation
Indices: 43050956--43051133 Score: 222
Period size: 49 Copynumber: 3.7 Consensus size: 49
43050946 TACGAGATGT
* * * *
43050956 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GGATATGTGAGA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-CTTGAT-TTTGATA
43051006 G-CTAGTGTAAGACCATGTCTGGGACATGGCATCGACCTTGATTTTGATA
1 GTC-AGTGTAAGACCATGTCTGGGACATGGCATCGACCTTGATTTTGATA
* *
43051055 GTCAGTGTAAGACCATGTCTGGGACATGGCATC-AACTTGA--TGGATGA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTTGATTTTGAT-A
*
43051102 GCCAGTGTAAGACCATGTCTGGGACATGGCAT
1 GTCAGTGTAAGACCATGTCTGGGACATGGCAT
43051134 TGATATTATA
Statistics
Matches: 117, Mismatches: 7, Indels: 11
0.87 0.05 0.08
Matches are distributed among these distances:
46 4 0.03
47 32 0.27
48 6 0.05
49 38 0.32
50 37 0.32
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (49 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTTGATTTTGATA
Found at i:43051131 original size:96 final size:93
Alignment explanation
Indices: 43050815--43051133 Score: 280
Period size: 96 Copynumber: 3.4 Consensus size: 93
43050805 TGGGTTATTG
* * * * * * *
43050815 TGAGCTAGTGTAAGACCATGGCTGAGACATGGCATCGGC-ATTGAGACGAGTGCTAGTGTAAGA-
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGCCTA-CGAGATGTGT-C-AGTGTAAGAC
* *
43050878 CATGTTTGGGACAT-GCATCAGCCTTGA--GA
63 CATGTCTGGGACATGGCATCA-ACTTGATGGA
* *
43050907 TGTAAGCCACTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGTGTCAGTGTAAGACC
1 TG--AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGCCTACGAGATGTGTCAGTGTAAGACC
* *
43050970 ATGTCTGGGACATGGCATCGGCAC-GGATATGTGA
64 ATGTCTGGGACATGGCATC--AACTTG--ATG-GA
* * **
43051004 -GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCT-TGATTTTGATAGTCAGTGTAAGA
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG-CCTACGA-GATG-T-GTCAGTGTAAGA
43051067 CCATGTCTGGGACATGGCATCAACTTGATGGA
62 CCATGTCTGGGACATGGCATCAACTTGATGGA
43051099 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
43051134 TGATATTATA
Statistics
Matches: 187, Mismatches: 20, Indels: 36
0.77 0.08 0.15
Matches are distributed among these distances:
90 9 0.05
91 14 0.07
92 23 0.12
93 14 0.07
94 23 0.12
95 16 0.09
96 45 0.24
97 8 0.04
98 2 0.01
99 33 0.18
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.25
Consensus pattern (93 bp):
TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGCCTACGAGATGTGTCAGTGTAAGACCAT
GTCTGGGACATGGCATCAACTTGATGGA
Found at i:43057873 original size:25 final size:25
Alignment explanation
Indices: 43057845--43057898 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
43057835 AAAATGAATC
43057845 TAAAACCCCAAATC-AAA-CCCTAAAT
1 TAAAA-CCCAAATCGAAATCCC-AAAT
*
43057870 TAAAACCTAAATCGAAATCCCAAAT
1 TAAAACCCAAATCGAAATCCCAAAT
43057895 TAAA
1 TAAA
43057899 GGATTTCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 7 0.27
25 16 0.62
26 3 0.12
ACGTcount: A:0.54, C:0.26, G:0.02, T:0.19
Consensus pattern (25 bp):
TAAAACCCAAATCGAAATCCCAAAT
Found at i:43058745 original size:141 final size:143
Alignment explanation
Indices: 43058490--43058770 Score: 467
Period size: 141 Copynumber: 2.0 Consensus size: 143
43058480 AATCAAATCA
* * * *
43058490 CCAAATCTTAGACGAATCTAAAACCCCAAACTAGACCCTAAATTTAGACCTAAGTCAAAATCCCA
1 CCAAATCGTAGACAAATCTAAAACCCCAAACTAGACACTAAATTTAGACCAAAGTCAAAATCCCA
* **
43058555 AATTGAAACTTTCAATAGATTTGGGTAACTAAATTTCAAGCTTTCTAAAACATTC-ATTGTTGCT
66 AATTGAAACTTTCAACAGATTTGGGTAACTAAATTTCAAGCTTTCTAAAACATTCTATTGTCACT
43058619 CATTCTAGTCAAC
131 CATTCTAGTCAAC
*
43058632 CCAAATCGTAGACAAATCTAAAACCCCAAACTAGACACTAAGTTTA-ACCAAAGTCAAAATCCCA
1 CCAAATCGTAGACAAATCTAAAACCCCAAACTAGACACTAAATTTAGACCAAAGTCAAAATCCCA
*
43058696 AATTGAAGCTTTCAACAGATTTGGGTAACTAAATTTCAAGCTTTCTAAAACATTCTATTGTCACT
66 AATTGAAACTTTCAACAGATTTGGGTAACTAAATTTCAAGCTTTCTAAAACATTCTATTGTCACT
43058761 CATTCTAGTC
131 CATTCTAGTC
43058771 GACGTGAGAT
Statistics
Matches: 129, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
141 70 0.54
142 59 0.46
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.29
Consensus pattern (143 bp):
CCAAATCGTAGACAAATCTAAAACCCCAAACTAGACACTAAATTTAGACCAAAGTCAAAATCCCA
AATTGAAACTTTCAACAGATTTGGGTAACTAAATTTCAAGCTTTCTAAAACATTCTATTGTCACT
CATTCTAGTCAAC
Found at i:43060910 original size:7 final size:7
Alignment explanation
Indices: 43060900--43060954 Score: 53
Period size: 7 Copynumber: 8.3 Consensus size: 7
43060890 CCACAAACTA
43060900 TAAACCC
1 TAAACCC
43060907 TAAACCC
1 TAAACCC
*
43060914 CAAACCC
1 TAAACCC
43060921 -AAACCC
1 TAAACCC
43060927 -AAACCC
1 TAAACCC
*
43060933 -AAACCT
1 TAAACCC
**
43060939 TAAAAAC
1 TAAACCC
43060946 TAAACCC
1 TAAACCC
43060953 TA
1 TA
43060955 TTTCTTATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
6 17 0.43
7 23 0.57
ACGTcount: A:0.49, C:0.40, G:0.00, T:0.11
Consensus pattern (7 bp):
TAAACCC
Found at i:43060923 original size:6 final size:6
Alignment explanation
Indices: 43060901--43060937 Score: 56
Period size: 6 Copynumber: 5.8 Consensus size: 6
43060891 CACAAACTAT
43060901 AAACCC TAAACCCC AAACCC AAACCC AAACCC AAACC
1 AAACCC -AAA-CCC AAACCC AAACCC AAACCC AAACC
43060938 TTAAAAACTA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 20 0.69
7 6 0.21
8 3 0.10
ACGTcount: A:0.49, C:0.49, G:0.00, T:0.03
Consensus pattern (6 bp):
AAACCC
Found at i:43066716 original size:48 final size:48
Alignment explanation
Indices: 43066615--43066881 Score: 225
Period size: 48 Copynumber: 5.6 Consensus size: 48
43066605 CATTGGTGTC
* * * * *** * *
43066615 GATGCCATGTCCTAGACATGGTCTTACACTGACACATATAACAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATTGAGGCT
* * * *
43066663 AATGCCATGTTCCAAGA-ATGGTCTTACACTGGCTCGCGTATTGAGGCT
1 GATGCCATG-TCCCAGACATGGTCTTACACTGGCTCACATATTGAGGCT
* * *
43066711 GATGCCATG-CCCTAGACATGGTCTTACACTGGCTCTCATAATGTGGCT
1 GATGCCATGTCCC-AGACATGGTCTTACACTGGCTCACATATTGAGGCT
* * * ** **
43066759 GATGCCATGTCCCAGACGTGGTCTTACACTAGCACACATATCAACACT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATTGAGGCT
* * ** *
43066807 GATGCCATGTCCCAGACATGATCTTACACTGGCTCTCATA-AAATGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATTGA-GGCT
*
43066855 GATGCCATGTCCCAGATATGGTCTTAC
1 GATGCCATGTCCCAGACATGGTCTTAC
43066882 CCAGATATGG
Statistics
Matches: 175, Mismatches: 39, Indels: 10
0.78 0.17 0.04
Matches are distributed among these distances:
46 2 0.01
47 5 0.03
48 159 0.91
49 9 0.05
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATTGAGGCT
Found at i:43066764 original size:96 final size:96
Alignment explanation
Indices: 43066615--43066881 Score: 299
Period size: 96 Copynumber: 2.8 Consensus size: 96
43066605 CATTGGTGTC
* * * * *
43066615 GATGCCATGTCCTAGACATGGTCTTACACTGACACAT-ATAACAAT-GCCAATGCCATGTTCCAA
1 GATGCCATGCCCTAGACATGGTCTTACACTGGCTC-TCATAA-AATGGCCGATGCCATG-TCCCA
* * * * ** **
43066678 GA-ATGGTCTTACACTGGCTCGCGTATTGAGGCT
63 GACATGGTCTTACACTAGCACACATATCAACACT
** *
43066711 GATGCCATGCCCTAGACATGGTCTTACACTGGCTCTCATAATGTGGCTGATGCCATGTCCCAGAC
1 GATGCCATGCCCTAGACATGGTCTTACACTGGCTCTCATAAAATGGCCGATGCCATGTCCCAGAC
*
43066776 GTGGTCTTACACTAGCACACATATCAACACT
66 ATGGTCTTACACTAGCACACATATCAACACT
*
43066807 GATGCCATGTCCC-AGACATGATCTTACACTGGCTCTCATAAAATGGCCGATGCCATGTCCCAGA
1 GATGCCATG-CCCTAGACATGGTCTTACACTGGCTCTCATAAAATGGCCGATGCCATGTCCCAGA
*
43066871 TATGGTCTTAC
65 CATGGTCTTAC
43066882 CCAGATATGG
Statistics
Matches: 144, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
95 8 0.06
96 133 0.92
97 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (96 bp):
GATGCCATGCCCTAGACATGGTCTTACACTGGCTCTCATAAAATGGCCGATGCCATGTCCCAGAC
ATGGTCTTACACTAGCACACATATCAACACT
Found at i:43066859 original size:144 final size:144
Alignment explanation
Indices: 43066581--43066881 Score: 346
Period size: 144 Copynumber: 2.1 Consensus size: 144
43066571 ATGTCATGGT
* *
43066581 CATGGTCTTACACTAGCTCTCAGACATTGGTGTCGATGCCATGTCCTAGACATGGTCTTACACTG
1 CATGGTCTTACACTAGCTCTCAGACATTGGTCTCGATGCCATGTCCCAGACATGGTCTTACACTG
* * ** *
43066646 ACACATATAACAATGCCAATGCCATGTTCCAAGAATGGTCTTACACTGGCTCGCGTATTGAGGCT
66 ACACATATAACAATG-C-ATGCCATGTTCCAAGAATGATCTTACACTGGCTCGCATATAAAGGCC
43066711 GATGCCATG-CCCTAGA
129 GATGCCATGTCCC-AGA
* * *
43066727 CATGGTCTTACACTGGCTCTCATA-ATGTGG-CT-GATGCCATGTCCCAGACGTGGTCTTACACT
1 CATGGTCTTACACTAGCTCTCAGACAT-TGGTCTCGATGCCATGTCCCAGACATGGTCTTACACT
* * *
43066789 AGCACACATATCAACACTG-ATGCCATG-TCCCAGACATGATCTTACACTGGCTCTCATA-AAAT
65 -G-ACACATAT-AACAATGCATGCCATGTTCCAAGA-ATGATCTTACACTGGCTCGCATATAAA-
43066851 GGCCGATGCCATGTCCCAGA
125 GGCCGATGCCATGTCCCAGA
*
43066871 TATGGTCTTAC
1 CATGGTCTTAC
43066882 CCAGATATGG
Statistics
Matches: 134, Mismatches: 14, Indels: 16
0.82 0.09 0.10
Matches are distributed among these distances:
143 7 0.05
144 81 0.60
145 7 0.05
146 33 0.25
147 6 0.04
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.27
Consensus pattern (144 bp):
CATGGTCTTACACTAGCTCTCAGACATTGGTCTCGATGCCATGTCCCAGACATGGTCTTACACTG
ACACATATAACAATGCATGCCATGTTCCAAGAATGATCTTACACTGGCTCGCATATAAAGGCCGA
TGCCATGTCCCAGA
Found at i:43066886 original size:16 final size:16
Alignment explanation
Indices: 43066865--43066897 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
43066855 GATGCCATGT
43066865 CCCAGATATGGTCTTA
1 CCCAGATATGGTCTTA
43066881 CCCAGATATGGTCTTA
1 CCCAGATATGGTCTTA
43066897 C
1 C
43066898 ACTGGCACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.30
Consensus pattern (16 bp):
CCCAGATATGGTCTTA
Found at i:43071695 original size:16 final size:15
Alignment explanation
Indices: 43071670--43071701 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
43071660 ATGGATAATT
43071670 AAGCTTACAAGCCAC
1 AAGCTTACAAGCCAC
43071685 AAGCATTACAAGCCAC
1 AAGC-TTACAAGCCAC
43071701 A
1 A
43071702 TCTCGTGGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.44, C:0.31, G:0.12, T:0.12
Consensus pattern (15 bp):
AAGCTTACAAGCCAC
Found at i:43072600 original size:16 final size:15
Alignment explanation
Indices: 43072576--43072605 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
43072566 AACTATTTTA
43072576 TTACAAATTTCACTC
1 TTACAAATTTCACTC
43072591 TTACATAATTTCACT
1 TTACA-AATTTCACT
43072606 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:43072874 original size:49 final size:50
Alignment explanation
Indices: 43072817--43072935 Score: 170
Period size: 49 Copynumber: 2.4 Consensus size: 50
43072807 CTGGTATGCA
*
43072817 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AACAATCCAG-TACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAAT-CAGATACACG
* * * *
43072866 TAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCAGATACACG
43072916 TAGTAGCCTGCACTTAGTAC
1 TAGTAGCCTGCACTTAGTAC
43072936 GACAAACGTG
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
49 32 0.52
50 30 0.48
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCAGATACACG
Found at i:43072930 original size:50 final size:49
Alignment explanation
Indices: 43072817--43072945 Score: 170
Period size: 50 Copynumber: 2.6 Consensus size: 49
43072807 CTGGTATGCA
* *
43072817 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAATCCAGTACACG
* * *
43072866 TAGTAGCCTACACTTAGTACTACACACGTGACCTAACCAT-CTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AACAATCCAG-TACACG
* *
43072916 TAGTAGCCTGCACTTAGTACGACAAACGTG
1 TAGTAGCCTGCACTTAGTACTACACACGTG
43072946 GTTGATGTAA
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
49 32 0.46
50 38 0.54
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAATCCAGTACACG
Found at i:43074298 original size:50 final size:50
Alignment explanation
Indices: 43074233--43074559 Score: 302
Period size: 50 Copynumber: 6.5 Consensus size: 50
43074223 TTAAGTCACG
* * *
43074233 TGTGTAGCACGAAGTGCAGGCTACTACGTGTACCAAATTGTTAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGATAGGTCGCA
* * * * * *
43074283 TGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGGTCAG-G
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGATAGGTC-GCA
* * * *
43074333 TGTGCAGTACTAAGTGCAGGTTACTACGTGAACCAAATTGATAGGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGATAGGTCGCA
* * * * ** * **
43074383 TGTGTAGTACTAACTTCAGACTACTATGCATACC-CATT-A-ACTTCGATCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGATAGGTCG--CA
* * * * *
43074432 TGTGTGCAGTACTAAGTGTAGGCTACTACGTGTACCAAATGGATAAGTCACG
1 TGTGT--AGTACTAAGTGCAGGCTACTACGTGTACCAAATTGATAGGTCGCA
* *
43074484 TGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGATAGGTCGCA
* *
43074534 TGTATAATACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
43074560 TTCGTACCAG
Statistics
Matches: 215, Mismatches: 53, Indels: 18
0.75 0.19 0.06
Matches are distributed among these distances:
47 3 0.01
48 1 0.00
49 10 0.05
50 166 0.77
51 23 0.11
52 8 0.04
53 1 0.00
54 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.28
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGATAGGTCGCA
Found at i:43074464 original size:151 final size:151
Alignment explanation
Indices: 43074283--43074560 Score: 385
Period size: 151 Copynumber: 1.8 Consensus size: 151
43074273 TTAGGTCGCA
* * * * * *
43074283 TGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGGTCAGGTGTGCAGTACTAAGT
1 TGTGCAGTACTAAGTGCAAGCTACTACGTGTACCAAATGGATAAGTCACGTGTGCAGTACTAAGT
* * * * *
43074348 GCAGGTTACTACGTGAACCAAATTGATAGGTCACATGTGTAGTACTAACTTCAGACTACTATGCA
66 ACAGGCTACTACGTGAACCAAATTGATAGGTCACATGTATAATACTAACTGCAGACTACTATGCA
43074413 TACCCATTAACTTCGATCATG
131 TACCCATTAACTTCGATCATG
* * *
43074434 TGTGCAGTACTAAGTGTAGGCTACTACGTGTACCAAATGGATAAGTCACGTGTGTAGTACTAAGT
1 TGTGCAGTACTAAGTGCAAGCTACTACGTGTACCAAATGGATAAGTCACGTGTGCAGTACTAAGT
* * * * *
43074499 ACAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTATAATACTAAGTGCAGGCTACTAT
66 ACAGGCTACTACGTGAACCAAATTGATAGGTCACATGTATAATACTAACTGCAGACTACTAT
43074561 TCGTACCAGA
Statistics
Matches: 108, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
151 108 1.00
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (151 bp):
TGTGCAGTACTAAGTGCAAGCTACTACGTGTACCAAATGGATAAGTCACGTGTGCAGTACTAAGT
ACAGGCTACTACGTGAACCAAATTGATAGGTCACATGTATAATACTAACTGCAGACTACTATGCA
TACCCATTAACTTCGATCATG
Found at i:43076243 original size:29 final size:29
Alignment explanation
Indices: 43076156--43076274 Score: 143
Period size: 29 Copynumber: 4.2 Consensus size: 29
43076146 GTGAGCATGA
43076156 ATAT-AATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* * *
43076184 ACATAGATGTGATTTGGGCCTAAAGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
43076213 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* * * * * *
43076242 ATGTGAATAT-AATTGGGTCTAGTGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
43076270 ATATA
1 ATATA
43076275 CAGGTATGTG
Statistics
Matches: 76, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 21 0.28
29 55 0.72
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGGGCC
Found at i:43082404 original size:30 final size:30
Alignment explanation
Indices: 43082346--43082406 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
43082336 TTTCCGAGCC
*
43082346 TAGGGGCAAAAGTGTAAATATGTAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
43082376 TAGGGGCAAAATTGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
43082406 T
1 T
43082407 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:43083182 original size:68 final size:64
Alignment explanation
Indices: 43083072--43083323 Score: 228
Period size: 68 Copynumber: 3.8 Consensus size: 64
43083062 ATACATATAG
** * * * *
43083072 TATGTAGCTAGGTCACATGTATGGTGCTGAGTGCACATCATGT-GTACAAGAGAGCTACAAGACA
1 TATGTAGCTAGGTCACATGGGTGGTACTGAGTGTACACCATGTAG-ACAAGAGAGCTAC--GAGA
43083136 TTA
63 -TA
* *
43083139 TGATGTAGCTAGGTCACATGGGTGATACT-ATGTGTACACCATGTAGACAAGAGAGCTACGGGAT
1 T-ATGTAGCTAGGTCACATGGGTGGTACTGA-GTGTACACCATGTAGACAAGAGAGCTACGAGAT
43083203 A
64 A
* * *
43083204 TATGTAGCTAGGTAACATGCGTGGTTCCAGGTGAAG-G-ACACCATGTAGACAAGAGAGCTACGA
1 TATGTAGCTAGGTCACATGGGTGG-T--A-CTG-AGTGTACACCATGTAGACAAGAGAGCTACGA
43083267 GATA
61 GATA
* * *
43083271 AAT-TGGCTAGGTCACATGGGTGGTACTGAGTGTTCACCATGT-GTACAAGAGAG
1 TATGTAGCTAGGTCACATGGGTGGTACTGAGTGTACACCATGTAG-ACAAGAGAG
43083324 TCGAACTATA
Statistics
Matches: 154, Mismatches: 19, Indels: 28
0.77 0.09 0.14
Matches are distributed among these distances:
61 2 0.01
62 4 0.03
63 18 0.12
64 20 0.13
65 5 0.03
66 19 0.12
67 34 0.22
68 49 0.32
69 2 0.01
70 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.25
Consensus pattern (64 bp):
TATGTAGCTAGGTCACATGGGTGGTACTGAGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:43086053 original size:20 final size:20
Alignment explanation
Indices: 43086030--43086070 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
43086020 TGAGATCATT
*
43086030 TCTCATGAGTTTTGTACACA
1 TCTCATGAGTTTTGCACACA
43086050 TCTCATGAGTTTTGCACACA
1 TCTCATGAGTTTTGCACACA
43086070 T
1 T
43086071 ACTCGTACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (20 bp):
TCTCATGAGTTTTGCACACA
Found at i:43086429 original size:96 final size:96
Alignment explanation
Indices: 43086185--43086466 Score: 275
Period size: 96 Copynumber: 2.9 Consensus size: 96
43086175 ATACAAAAGG
* *
43086185 ATAA-AATGCTGATGCCATGTCCCAGACATGGTCTTACATTGGCTGTTATACATCG-GTGCCAAT
1 ATAACAATGCTGATGCCATGTCCCAGACATGGTCTTACATTGGC--TTACATATCGAG-GCCAAT
*
43086248 GCCATGTCCCAGACATAGTCTTACACTGACATAT
63 GCCATGTCCCAGACATGGTCTTACACTGACATAT
* * * * * *
43086282 ATAACAATACTGATACCATGTTCCAAACATGGTCTTACATTGGCTTGCATATTGAGGCCAATGCC
1 ATAACAATGCTGATGCCATGTCCCAGACATGGTCTTACATTGGCTTACATATCGAGGCCAATGCC
* *
43086347 ATGTCCCAGACATGGTCTTACACTGGC-TCT
66 ATGTCCCAGACATGGTCTTACACTGACATAT
** * * ** * *** *
43086377 CATAA-TGTGGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACATCGATG
1 -ATAACAAT-GCTGATGCCATGTCCCAGACATGGTCTTACATTGGCTTACATATCGAGGCCAATG
* *
43086441 CCATATCCCAGATATGGTCTTACACT
64 CCATGTCCCAGACATGGTCTTACACT
43086467 AGCACACATA
Statistics
Matches: 151, Mismatches: 30, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
95 3 0.02
96 108 0.72
97 5 0.03
98 35 0.23
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (96 bp):
ATAACAATGCTGATGCCATGTCCCAGACATGGTCTTACATTGGCTTACATATCGAGGCCAATGCC
ATGTCCCAGACATGGTCTTACACTGACATAT
Found at i:43086441 original size:48 final size:48
Alignment explanation
Indices: 43086246--43086481 Score: 176
Period size: 48 Copynumber: 4.9 Consensus size: 48
43086236 ATCGGTGCCA
* *
43086246 ATGCCATGTCCCAGACATAGTCTTACACT-G-ACATATAT-AACAATACTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAC-AT-C-G
* * * * * *** ** *** *
43086294 ATACCATGTTCCAAACATGGTCTTACATTGGCTTGCATATTGAGGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACATCG
* * * ***
43086342 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGC-T-G
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACAT-AT-CAACATCG
43086390 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACATCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACATCG
* *
43086438 ATGCCATATCCCAGATATGGTCTTACACTAGCACACATATCAAC
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAC
43086482 CAAATGTCTT
Statistics
Matches: 149, Mismatches: 32, Indels: 14
0.76 0.16 0.07
Matches are distributed among these distances:
46 1 0.01
47 3 0.02
48 134 0.90
49 4 0.03
50 6 0.04
51 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACATCG
Found at i:43086458 original size:144 final size:146
Alignment explanation
Indices: 43086196--43086464 Score: 352
Period size: 144 Copynumber: 1.9 Consensus size: 146
43086186 TAAAATGCTG
* * *
43086196 ATGCCATGTCCCAGACATGGTCTTACATTGGCTGTTATACATCGGTGCCAATGCCATGTCCCAGA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACATCGGTGCCAATGCCATGTCCCAGA
* * *
43086261 CATAGTCTTACACTGACATATATAACAATACTGATACCATGTTCCAAACATGGTCTTACATTGGC
66 CATAGTCTTACACTGACACATATAACAATACTGATACCATATCCCAAACATGGTCTTACATTGGC
43086326 TTGCATATTGAGGCCA
131 TTGCATATTGAGGCCA
**
43086342 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-AT--GTGGCTGATGCCATGTCCCAG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACATCGGT-GCCAATGCCATGTCCCAG
* * * *
43086404 ACATGGTCTTACACTAGCACACATATCAAC-AT-C-GATGCCATATCCCAGATATGGTCTTACA
65 ACATAGTCTTACACT-G-ACACATAT-AACAATACTGATACCATATCCCAAACATGGTCTTACA
43086465 CTAGCACACA
Statistics
Matches: 107, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
143 2 0.02
144 53 0.50
145 4 0.04
146 45 0.42
147 3 0.03
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (146 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACATCGGTGCCAATGCCATGTCCCAGA
CATAGTCTTACACTGACACATATAACAATACTGATACCATATCCCAAACATGGTCTTACATTGGC
TTGCATATTGAGGCCA
Found at i:43089368 original size:26 final size:26
Alignment explanation
Indices: 43089339--43089472 Score: 205
Period size: 26 Copynumber: 5.2 Consensus size: 26
43089329 TGGTACAAAT
* *
43089339 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATATTCCA
*
43089365 TGATAATGGATTAGGTAAATATTTCA
1 TGATAATGGATTAGGTAAATATTCCA
43089391 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATATTCCA
* *
43089417 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATATTCCA
* *
43089443 TGATAATGGTTTAGGTAAATTTTCCA
1 TGATAATGGATTAGGTAAATATTCCA
43089469 TGAT
1 TGAT
43089473 GGGCATTTCT
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 100 1.00
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.37
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATATTCCA
Found at i:43090987 original size:26 final size:26
Alignment explanation
Indices: 43090958--43091010 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
43090948 TTTACAGTTT
43090958 TACCCTTAGGAGATAAATT-ACCGAAA
1 TACCCTTAGG-GATAAATTGACCGAAA
* *
43090984 TACCCTTAGGGTTAAATTGACCTAAA
1 TACCCTTAGGGATAAATTGACCGAAA
43091010 T
1 T
43091011 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (26 bp):
TACCCTTAGGGATAAATTGACCGAAA
Found at i:43095362 original size:22 final size:22
Alignment explanation
Indices: 43095347--43095405 Score: 91
Period size: 24 Copynumber: 2.6 Consensus size: 22
43095337 TCAGCTTGAA
43095347 AGAGCTTACTGTTCAGCTCAAT
1 AGAGCTTACTGTTCAGCTCAAT
*
43095369 AGAGCTTACCGTTTTCAGCTCAAT
1 AGAGCTTA-C-TGTTCAGCTCAAT
43095393 AGAGCTTACTGTT
1 AGAGCTTACTGTT
43095406 TTTTAGCTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 11 0.33
23 2 0.06
24 20 0.61
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (22 bp):
AGAGCTTACTGTTCAGCTCAAT
Found at i:43097916 original size:78 final size:78
Alignment explanation
Indices: 43097785--43097940 Score: 294
Period size: 78 Copynumber: 2.0 Consensus size: 78
43097775 GATATTGGAT
* *
43097785 TGGTGGATATATGTTTGTGAGTTTTGGTGCAGGAAAATGGTAAGTTTTTGTGACAAATGAGGCTA
1 TGGTGGATATATGTTTGTGAGTTTTAGTGCAGGAAAATGGTAAGTTTTGGTGACAAATGAGGCTA
43097850 GGAAATTGCTACA
66 GGAAATTGCTACA
43097863 TGGTGGATATATGTTTGTGAGTTTTAGTGCAGGAAAATGGTAAGTTTTGGTGACAAATGAGGCTA
1 TGGTGGATATATGTTTGTGAGTTTTAGTGCAGGAAAATGGTAAGTTTTGGTGACAAATGAGGCTA
43097928 GGAAATTGCTACA
66 GGAAATTGCTACA
43097941 CACGGGCGTG
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 76 1.00
ACGTcount: A:0.29, C:0.06, G:0.31, T:0.34
Consensus pattern (78 bp):
TGGTGGATATATGTTTGTGAGTTTTAGTGCAGGAAAATGGTAAGTTTTGGTGACAAATGAGGCTA
GGAAATTGCTACA
Found at i:43107813 original size:15 final size:15
Alignment explanation
Indices: 43107793--43107822 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
43107783 ACAGTTAGAG
43107793 ATTCAGTCTTCAACT
1 ATTCAGTCTTCAACT
43107808 ATTCAGTCTTCAACT
1 ATTCAGTCTTCAACT
43107823 GTGTCTTCAA
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:0.27, C:0.27, G:0.07, T:0.40
Consensus pattern (15 bp):
ATTCAGTCTTCAACT
Found at i:43121991 original size:40 final size:40
Alignment explanation
Indices: 43121930--43122121 Score: 145
Period size: 40 Copynumber: 4.8 Consensus size: 40
43121920 ATAACCACAA
* * *
43121930 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGCTCTTAACCCGGATATAGCAACTC
* * *
43121970 GCACAAATGCCTTCGTCTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGCTCTTAACCCGGATATAGCAACTC
* * * * * *
43122010 GCAAAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGCTCTTAACCCGGAT-ATAGCAACTC
* ** * * * *
43122050 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGCTCTTAACCCGGAT-ATAGCAACTC
* ** *
43122090 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGCTCTTAACCCGGATAT
43122122 CATTCAAATG
Statistics
Matches: 137, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 132 0.96
41 4 0.03
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGCTCTTAACCCGGATATAGCAACTC
Found at i:43122058 original size:80 final size:81
Alignment explanation
Indices: 43121910--43122120 Score: 223
Period size: 80 Copynumber: 2.6 Consensus size: 81
43121900 TCTTCAGAAT
* * * * * * * * *
43121910 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAGCAACTCGCA
1 TTAGCCCGGATAAAATCACTAGCAAAAATGCCTTCGGGTCTTAGCCCGGATAAAAGCAACTAGCA
* *
43121973 CAAATGCCTTCGTCTC
66 CAAATGCCTTCGGCAC
* * *
43121989 TTAGCCCGGAT-ATATCAACTCGCAAAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTAGC
1 TTAGCCCGGATAAAATC-ACTAGCAAAAATGCCTTCGGGTCTTAGCCCGGATAAAAGCAACTAGC
* *
43122052 ATAAATGCCTTCGGGAC
65 ACAAATGCCTTCGGCAC
* *
43122069 TTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATA
1 TTAGCCCGGATAAAATCACTAGCAAAAATGCCTTCGGGTCTTAGCCCGGATA
43122121 TCATTCAAAT
Statistics
Matches: 108, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
79 6 0.06
80 95 0.88
81 7 0.06
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (81 bp):
TTAGCCCGGATAAAATCACTAGCAAAAATGCCTTCGGGTCTTAGCCCGGATAAAAGCAACTAGCA
CAAATGCCTTCGGCAC
Found at i:43130378 original size:41 final size:41
Alignment explanation
Indices: 43130256--43130403 Score: 138
Period size: 40 Copynumber: 3.6 Consensus size: 41
43130246 TTTTATCAAA
* * *
43130256 TCACCGGCATTTAGCCTGCTAGGTTTTAAACCCGAATTCA-
1 TCACCGGCATTTAGCCTGCTAGGCTTTAAGCCCGAACTCAT
** * * *
43130296 TCACCGGCATGAAGCCTGCTAGACTTTAAGTCTGAACTCAT
1 TCACCGGCATTTAGCCTGCTAGGCTTTAAGCCCGAACTCAT
* * *
43130337 TGACCGGCATTTTGCCTGCTAGGCTTGAAGCCCGATA-TCATT
1 TCACCGGCATTTAGCCTGCTAGGCTTTAAGCCCGA-ACTCA-T
* *
43130379 TCACCGGTATTATAGCATGCTAGGC
1 TCACCGGCATT-TAGCCTGCTAGGC
43130404 CCGAAGCTTG
Statistics
Matches: 84, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
40 32 0.38
41 30 0.36
42 11 0.13
43 11 0.13
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (41 bp):
TCACCGGCATTTAGCCTGCTAGGCTTTAAGCCCGAACTCAT
Found at i:43130644 original size:28 final size:28
Alignment explanation
Indices: 43130584--43130654 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
43130574 TGATATTTTC
* *
43130584 CACACTAAGTGTCATTCTCAATATCTCG
1 CACACTAAGTGCCATTCTCAATATCTAG
*
43130612 CACACTAAGTGCCATTCTCAATATTTAG
1 CACACTAAGTGCCATTCTCAATATCTAG
* * *
43130640 TACACTGAGTACCAT
1 CACACTAAGTGCCAT
43130655 ATTTGATTGC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.31, C:0.27, G:0.11, T:0.31
Consensus pattern (28 bp):
CACACTAAGTGCCATTCTCAATATCTAG
Found at i:43132666 original size:17 final size:18
Alignment explanation
Indices: 43132630--43132666 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
43132620 ATAATAGTAA
43132630 TAATAAAATGCTAATAAG
1 TAATAAAATGCTAATAAG
43132648 TAAT-AAATG-TAATATAG
1 TAATAAAATGCTAATA-AG
43132665 TA
1 TA
43132667 CTAGAAATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.28
17 9 0.50
18 4 0.22
ACGTcount: A:0.54, C:0.03, G:0.11, T:0.32
Consensus pattern (18 bp):
TAATAAAATGCTAATAAG
Found at i:43133212 original size:3 final size:3
Alignment explanation
Indices: 43132952--43133201 Score: 65
Period size: 3 Copynumber: 85.0 Consensus size: 3
43132942 TTGCATTAAC
* * * * * *
43132952 AAT AAT AAT AGT AAG AAT AAT AAC GAT AAT -AT AAA AAT AAT AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
43132999 AA- AA- AAT AAT AAC AAT AAT AGA- AAT AAT AAA AAT AAA AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * *
43133041 AA- AAGGT AAGG AA- AAT AAT ACT GAC ACT GAC AAT AAT ACT AAT AAT
1 AAT AA--T AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * *
43133087 AAC AAT -AT ATT GAT AAT ACT GAT -AT ATT CAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * **
43133133 AAT AGT AGA- AAT AAC AAT CAT -AT AAGT AGT AAT AAT ACA- CAT AGG
1 AAT AAT A-AT AAT AAT AAT AAT AAT AA-T AAT AAT AAT A-AT AAT AAT
*
43133178 AAT AAT AAT AAT AAT AGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT
43133202 TTGAATAATA
Statistics
Matches: 170, Mismatches: 61, Indels: 32
0.65 0.23 0.12
Matches are distributed among these distances:
2 21 0.12
3 140 0.82
4 7 0.04
5 2 0.01
ACGTcount: A:0.60, C:0.06, G:0.08, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:43139686 original size:19 final size:20
Alignment explanation
Indices: 43139654--43139691 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
43139644 TCGCCATTCT
*
43139654 ATTGTTATTTGTATTGAATA
1 ATTGTTATTTGTATGGAATA
43139674 ATTGTTA-TTGTATGGAAT
1 ATTGTTATTTGTATGGAAT
43139692 GTGCGATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (20 bp):
ATTGTTATTTGTATGGAATA
Done.