Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 65 of 433
Found at i:18731525 original size:29 final size:28
Alignment explanation
Indices: 18731493--18731595 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
18731483 GGGACGAGAT
* *
18731493 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
18731522 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
18731551 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
18731580 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
18731596 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:18737872 original size:31 final size:30
Alignment explanation
Indices: 18737807--18737872 Score: 87
Period size: 31 Copynumber: 2.2 Consensus size: 30
18737797 GTGATGGCCC
*
18737807 GTGTGGCCCACATGGCCACGCCACACAAGT
1 GTGTGGCCCACATGGCCACGCCACACAAGG
* * *
18737837 GTGTGAGCCCACATGGGCACGCCATACAGGG
1 GTGTG-GCCCACATGGCCACGCCACACAAGG
18737868 GTGTG
1 GTGTG
18737873 TTTTTTGGGC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 5 0.16
31 26 0.84
ACGTcount: A:0.21, C:0.30, G:0.33, T:0.15
Consensus pattern (30 bp):
GTGTGGCCCACATGGCCACGCCACACAAGG
Found at i:18744143 original size:35 final size:35
Alignment explanation
Indices: 18744095--18744167 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 35
18744085 CTTCTGAGTG
* **
18744095 CAAATCTATATCTGTCTCTG-AGATGGGCTAAGGCC
1 CAAATCTACATCTGAATCTGTA-ATGGGCTAAGGCC
*
18744130 CAAATCTACATCTGAATCTGTAATGGGCTTAGGCC
1 CAAATCTACATCTGAATCTGTAATGGGCTAAGGCC
18744165 CAA
1 CAA
18744168 GTTTGTATCC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 32 0.97
36 1 0.03
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (35 bp):
CAAATCTACATCTGAATCTGTAATGGGCTAAGGCC
Found at i:18748942 original size:26 final size:26
Alignment explanation
Indices: 18748906--18748955 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
18748896 TCGGCTCGAA
18748906 GCAAAATTGAAAAAAGAAAAACAAAC
1 GCAAAATTGAAAAAAGAAAAACAAAC
18748932 GCAAAATTGAAAAAAGAAAAACAA
1 GCAAAATTGAAAAAAGAAAAACAA
18748956 TCTACTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.70, C:0.10, G:0.12, T:0.08
Consensus pattern (26 bp):
GCAAAATTGAAAAAAGAAAAACAAAC
Found at i:18751158 original size:24 final size:24
Alignment explanation
Indices: 18751107--18751160 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
18751097 GATTTGTGAC
*
18751107 TGCATCTGTATCTGAATCTATATC
1 TGCATCTGTATCTGAATCTATATA
* *
18751131 TGCATTTGTATCTGAATTTGA-ATA
1 TGCATCTGTATCTGAATCT-ATATA
18751155 TGCATC
1 TGCATC
18751161 CATACCTGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.43
Consensus pattern (24 bp):
TGCATCTGTATCTGAATCTATATA
Found at i:18752463 original size:21 final size:21
Alignment explanation
Indices: 18752421--18752463 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
18752411 AAATAGAAAG
* *
18752421 GAAAGAAAAGAAGAAGGGAAA
1 GAAAGAAAAGAAAAAGGCAAA
* *
18752442 GAAAGAAAGGAAAAATGCAAA
1 GAAAGAAAAGAAAAAGGCAAA
18752463 G
1 G
18752464 CTACGGTTTC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.65, C:0.02, G:0.30, T:0.02
Consensus pattern (21 bp):
GAAAGAAAAGAAAAAGGCAAA
Found at i:18763180 original size:18 final size:18
Alignment explanation
Indices: 18763140--18763177 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
18763130 TTTATTTCAG
*
18763140 ATTT-ATTTTTATTATTA
1 ATTTGATTTTTATTAATA
18763157 ATTTGATTTTTA-TAATA
1 ATTTGATTTTTATTAATA
18763174 ATTT
1 ATTT
18763178 TGAATGTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (18 bp):
ATTTGATTTTTATTAATA
Found at i:18766157 original size:40 final size:39
Alignment explanation
Indices: 18766066--18766216 Score: 135
Period size: 40 Copynumber: 3.8 Consensus size: 39
18766056 ATAACCACGT
* *
18766066 GCACAAATGCCTTCAGGTCTTAGCCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
*
18766106 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
* * ** *
18766146 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* * *
18766186 GCATAATTGTCTTCGGGGCTTAGCCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
18766217 TCATTCAATT
Statistics
Matches: 92, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
38 1 0.01
39 4 0.04
40 86 0.93
41 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:18769811 original size:43 final size:43
Alignment explanation
Indices: 18769735--18769820 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
18769725 AGTCCGTGTA
* * *
18769735 AAGAGGGGCACACAACTGTATGGCTGAGACACACGCCCATGTG
1 AAGAGGGGCACACAACTGTATGACTAAGACACACACCCATGTG
** * *
18769778 AAGAGGGGCACACGGCTGTGTGACTAAGGCACACACCCATGTG
1 AAGAGGGGCACACAACTGTATGACTAAGACACACACCCATGTG
18769821 GACCAGGGAC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.29, C:0.26, G:0.31, T:0.14
Consensus pattern (43 bp):
AAGAGGGGCACACAACTGTATGACTAAGACACACACCCATGTG
Found at i:18772053 original size:46 final size:46
Alignment explanation
Indices: 18771907--18772122 Score: 233
Period size: 46 Copynumber: 4.6 Consensus size: 46
18771897 ATTATTGGCT
* **
18771907 AGTGTAAGACATGTCTGGGACATGCATCGGCTAC-ATTATGAGAGTT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGAGAGCC
* * * * *
18771953 AGAGTAAGACCATGTCTAGGACATGGCATCGAC-ATTGAGATGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CGAGATGAGAGCC
*
18772001 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATG-AGAGCC
* *
18772047 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGAGAGCC
18772093 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
18772123 AGCACCCTAC
Statistics
Matches: 145, Mismatches: 14, Indels: 20
0.81 0.08 0.11
Matches are distributed among these distances:
45 3 0.02
46 70 0.48
47 43 0.30
48 28 0.19
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGAGAGCC
Found at i:18778288 original size:93 final size:93
Alignment explanation
Indices: 18778180--18778351 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
18778170 CGCCTATAAG
* *
18778180 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
18778245 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
*
18778273 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
18778338 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
18778352 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:18778348 original size:46 final size:46
Alignment explanation
Indices: 18778175--18778348 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 46
18778165 TAACCCGCCT
* * *
18778175 ATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCC
* *
18778221 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTTAC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--TCC
*** *
18778267 ATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCC
1 ATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCC
*
18778314 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
18778349 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 67 0.62
47 32 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCC
Found at i:18778367 original size:46 final size:46
Alignment explanation
Indices: 18778181--18778367 Score: 138
Period size: 46 Copynumber: 4.0 Consensus size: 46
18778171 GCCTATAAGC
** * *
18778181 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCC-T-AGT
*
18778227 GAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTTA-CATCTCT--C
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTC-A---ACCATC-CTAGT
* * * * *
18778274 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGCTCGG--ATGCTCAACCATCCTAGT
*
18778320 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCTAGT
18778366 GA
1 GA
18778368 CATGTCACTT
Statistics
Matches: 113, Mismatches: 13, Indels: 30
0.72 0.08 0.19
Matches are distributed among these distances:
44 9 0.08
45 1 0.01
46 62 0.55
47 30 0.27
49 4 0.04
50 6 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCTAGT
Found at i:18782558 original size:48 final size:48
Alignment explanation
Indices: 18782502--18782653 Score: 144
Period size: 48 Copynumber: 3.1 Consensus size: 48
18782492 CCTAGATATT
*
18782502 GTCTTACATGGGATCACCACA-CGATGCCAATGCCATGTCCAAGACGTG
1 GTCTTACATGGGATC-CCACATCGATGCCAATGCCATGTCCAAGACATG
* * * *
18782550 GTCTTACATGGGATCTCATATGTTGATGCCAATGCCATGTCCCAGACATG
1 GTCTTACATGGGATCCCACA--TCGATGCCAATGCCATGTCCAAGACATG
** * * * * * * *
18782600 GTCTTACATGATAACACATATCGATGCCGATGCCATATCCTAGATATG
1 GTCTTACATGGGATCCCACATCGATGCCAATGCCATGTCCAAGACATG
18782648 GTCTTA
1 GTCTTA
18782654 TACGATATCT
Statistics
Matches: 87, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
47 3 0.03
48 44 0.51
50 40 0.46
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (48 bp):
GTCTTACATGGGATCCCACATCGATGCCAATGCCATGTCCAAGACATG
Found at i:18782620 original size:50 final size:48
Alignment explanation
Indices: 18782523--18782653 Score: 145
Period size: 50 Copynumber: 2.7 Consensus size: 48
18782513 GATCACCACA
* * * *
18782523 CGATGCCAATGCCATGTCCAAGACGTGGTCTTACATGGGATCTCATATGT
1 CGATGCCAATGCCATGTCCAAGACATGGTCTTACATGAGAACACATA--T
* * *
18782573 TGATGCCAATGCCATGTCCCAGACATGGTCTTACATGATAACACATAT
1 CGATGCCAATGCCATGTCCAAGACATGGTCTTACATGAGAACACATAT
* * * *
18782621 CGATGCCGATGCCATATCCTAGATATGGTCTTA
1 CGATGCCAATGCCATGTCCAAGACATGGTCTTA
18782654 TACGATATCT
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
48 29 0.42
50 40 0.58
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (48 bp):
CGATGCCAATGCCATGTCCAAGACATGGTCTTACATGAGAACACATAT
Found at i:18786592 original size:39 final size:39
Alignment explanation
Indices: 18786519--18786708 Score: 319
Period size: 39 Copynumber: 4.9 Consensus size: 39
18786509 TATGGTAACC
* * *
18786519 CGCACAAATGCCTTCGGGACTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
*
18786559 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
18786598 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
*
18786637 CACACAATTGCCTTCGGGCTTAGCCCGG-TATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
18786675 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
18786709 CTCGAACATT
Statistics
Matches: 142, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
38 37 0.26
39 88 0.62
40 17 0.12
ACGTcount: A:0.22, C:0.32, G:0.23, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:18786704 original size:77 final size:78
Alignment explanation
Indices: 18786519--18786709 Score: 330
Period size: 77 Copynumber: 2.4 Consensus size: 78
18786509 TATGGTAACC
* *
18786519 CGCACAAATGCCTTCGGGACTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACTCACACAATTGCCTTCGGGCTTAGCC
18786584 CGGGTATCATAGCT
65 CGGGTATCATAGCT
* *
18786598 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCTCACACAATTGCCTTCGGGCTTAGCCC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCACACAATTGCCTTCGGGCTTAGCCC
18786663 -GGTATCATAGCT
66 GGGTATCATAGCT
18786675 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
18786710 TCGAACATTC
Statistics
Matches: 107, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
77 46 0.43
78 44 0.41
79 17 0.16
ACGTcount: A:0.21, C:0.32, G:0.23, T:0.24
Consensus pattern (78 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCACACAATTGCCTTCGGGCTTAGCCC
GGGTATCATAGCT
Found at i:18790017 original size:38 final size:37
Alignment explanation
Indices: 18789965--18790144 Score: 239
Period size: 38 Copynumber: 4.9 Consensus size: 37
18789955 TATGGTAACC
** *
18789965 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAAT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCAC-AT
18790004 -GCACAATTGCCTTCGGGCTTAGCCCGGTATAT-AC-T
1 CGCACAATTGCCTTCGGGCTTAGCCCGG-ATATCACAT
*
18790039 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACA-T
18790077 CGCACAATTGCCTTCGGGCTTAGCCCGGATAT---AT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAT
18790111 -GCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
18790145 TCGAACATTC
Statistics
Matches: 129, Mismatches: 4, Indels: 19
0.85 0.03 0.12
Matches are distributed among these distances:
33 31 0.24
34 1 0.01
35 6 0.05
36 28 0.22
37 11 0.09
38 52 0.40
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (37 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAT
Found at i:18790137 original size:71 final size:73
Alignment explanation
Indices: 18789965--18790144 Score: 276
Period size: 74 Copynumber: 2.5 Consensus size: 73
18789955 TATGGTAACC
** *
18789965 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATGCACAATTGCCTTCGGGCTTAGCCCG
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAATGCACAATTGCCTTCGGGCTTAGCCCG
18790030 GTATATACT
65 GTATATACT
* *
18790039 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATACTCGCACAATTGCCTTCGGGCTTAGCCCG
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAAT-GCACAATTGCCTTCGGGCTTAGCCCG
18790104 G-ATATA-T
65 GTATATACT
18790111 -GCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
18790145 TCGAACATTC
Statistics
Matches: 99, Mismatches: 6, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
71 33 0.33
72 1 0.01
73 22 0.22
74 43 0.43
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (73 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATGCACAATTGCCTTCGGGCTTAGCCCGG
TATATACT
Found at i:18795265 original size:37 final size:39
Alignment explanation
Indices: 18795113--18795296 Score: 274
Period size: 37 Copynumber: 4.9 Consensus size: 39
18795103 TATGGTAACC
* * * *
18795113 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
18795153 CGCACAATT-CCTTCGGGCTTAGCCCGG-TAT-ATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
18795189 CG--CAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
18795226 CGCACAATTGCCTTCGGGCTTAGCCCGG-TATCATA-CT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
18795263 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
18795297 CTCGAACATT
Statistics
Matches: 134, Mismatches: 4, Indels: 14
0.88 0.03 0.09
Matches are distributed among these distances:
34 5 0.04
35 18 0.13
36 9 0.07
37 41 0.31
38 21 0.16
39 32 0.24
40 8 0.06
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:18801062 original size:31 final size:31
Alignment explanation
Indices: 18801025--18801121 Score: 178
Period size: 31 Copynumber: 3.1 Consensus size: 31
18801015 AGACTAAACA
18801025 TAGTGATCAAATTCACATATATGCTGCATAC
1 TAGTGATCAAATTCACATATATGCTGCATAC
18801056 -AGGTGATCAAATTCACATATATGCTGCATAC
1 TA-GTGATCAAATTCACATATATGCTGCATAC
18801087 TAGTGATCAAATTCACATATATGCTGCATAC
1 TAGTGATCAAATTCACATATATGCTGCATAC
18801118 TAGT
1 TAGT
18801122 ATGAAACACA
Statistics
Matches: 64, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
30 1 0.02
31 62 0.97
32 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (31 bp):
TAGTGATCAAATTCACATATATGCTGCATAC
Found at i:18804772 original size:16 final size:16
Alignment explanation
Indices: 18804751--18804781 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18804741 AGCCGTGTGT
*
18804751 CACACGTCCGTCTGTA
1 CACACGCCCGTCTGTA
18804767 CACACGCCCGTCTGT
1 CACACGCCCGTCTGT
18804782 CTACCCATGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.42, G:0.19, T:0.23
Consensus pattern (16 bp):
CACACGCCCGTCTGTA
Found at i:18805792 original size:48 final size:47
Alignment explanation
Indices: 18805715--18805892 Score: 153
Period size: 48 Copynumber: 3.7 Consensus size: 47
18805705 CAAATAATAA
* * *
18805715 GATGCCAACGCCATATCCCAGATATGGTCTTATATGCAATCACCATAC
1 GATGCCAATGCCATATCCCAGACATGGTCTTACATG-AATCACCATAC
* * * * *
18805763 GATGCCAATGCCATGTCCCAGACAAGGTCTTACATGGGATTTCA-TATGTC
1 GATGCCAATGCCATATCCCAGACATGGTCTTACAT--GA-ATCACCAT-AC
* * * *
18805813 GATGCAAATACCATGTCCCAGACATGGTCTTACATG-ATAACACATAC
1 GATGCCAATGCCATATCCCAGACATGGTCTTACATGAATCAC-CATAC
* *
18805860 TGATGCCGATGCCATATCCCAGATATGGTCTTA
1 -GATGCCAATGCCATATCCCAGACATGGTCTTA
18805893 TACTGGATCT
Statistics
Matches: 103, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
46 2 0.02
47 1 0.01
48 60 0.58
49 3 0.03
50 37 0.36
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (47 bp):
GATGCCAATGCCATATCCCAGACATGGTCTTACATGAATCACCATAC
Found at i:18810864 original size:21 final size:20
Alignment explanation
Indices: 18810825--18810865 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
18810815 TTTCAAATCA
*
18810825 AAATAATTATAATTATAATT
1 AAATAATTATAAATATAATT
*
18810845 AAATTATTATAAAATATAATT
1 AAATAATTAT-AAATATAATT
18810866 GGATTGATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AAATAATTATAAATATAATT
Found at i:18819059 original size:48 final size:48
Alignment explanation
Indices: 18819002--18819312 Score: 252
Period size: 48 Copynumber: 6.5 Consensus size: 48
18818992 ATACTAGAGT
* * * * **
18819002 TATGTGAGCTAGTGTAAGATCATGTTTGGAACGTGACATCGGTATTTA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGACATCGGCATCGA
* * * *
18819050 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGACATCGGCATCGA
* ** * *
18819098 TATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGTATCAGCGTCGA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGACATCGGCATCGA
* * * * * *
18819146 TAAGTGAGCTAGTGTAAGACCATGTCTAGG-ACATGGCATCGACTTCGA
1 TATGAGAGCTAGTGTAAGACCATGT-TTGGAACATGACATCGGCATCGA
* * * * **
18819194 TAT-ATGAGATAGTGTAAGACTATGTTTGGAACATGGCATCGACATTTA
1 TATGA-GAGCTAGTGTAAGACCATGTTTGGAACATGACATCGGCATCGA
* * * * * *
18819242 TATGAGAGCTACTGTAAGACCATGTCTAGG-ACATGGCATTGGCCTCAA
1 TATGAGAGCTAGTGTAAGACCATGT-TTGGAACATGACATCGGCATCGA
*
18819290 CT-TGTGAGCTAGTGTAAGACCAT
1 -TATGAGAGCTAGTGTAAGACCAT
18819313 TTCTGAGAAA
Statistics
Matches: 217, Mismatches: 40, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
47 3 0.01
48 206 0.95
49 8 0.04
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.28
Consensus pattern (48 bp):
TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGACATCGGCATCGA
Found at i:18819171 original size:96 final size:96
Alignment explanation
Indices: 18819002--18819328 Score: 349
Period size: 96 Copynumber: 3.4 Consensus size: 96
18818992 ATACTAGAGT
* * * * ** ** *
18819002 TATGTGAGCTAGTGTAAGATCATGTTTGGAACGTGACATCGGTATTTATATGAGAGCTAGTGTAA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACATCGATAAGAGAGCTAGTGTAA
*
18819067 GACCATGTCTGGGACATGGCATCGGCCTCGA
66 GACCATGTCTAGGACATGGCATCGGCCTCGA
* * * *
18819098 TATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGTATC-AGCGTCGATAAGTGAGCTAGTGTA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGA-CATCGATAAGAGAGCTAGTGTA
* *
18819162 AGACCATGTCTAGGACATGGCATCGACTTCGA
65 AGACCATGTCTAGGACATGGCATCGGCCTCGA
* * ** * *
18819194 TAT-ATGAGATAGTGTAAGACTATGTTTGGAACATGGCATCGACATTTATATGAGAGCTACTGTA
1 TATGA-GAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACATCGATAAGAGAGCTAGTGTA
* *
18819258 AGACCATGTCTAGGACATGGCATTGGCCTCAA
65 AGACCATGTCTAGGACATGGCATCGGCCTCGA
*
18819290 CT-TGTGAGCTAGTGTAAGACCAT-TTCTGAGAA-ATGGCAT
1 -TATGAGAGCTAGTGTAAGACCATGTT-TG-GAACATGGCAT
18819329 TATCATATTA
Statistics
Matches: 191, Mismatches: 33, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
95 3 0.02
96 183 0.96
97 5 0.03
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.28
Consensus pattern (96 bp):
TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACATCGATAAGAGAGCTAGTGTAA
GACCATGTCTAGGACATGGCATCGGCCTCGA
Found at i:18819265 original size:144 final size:145
Alignment explanation
Indices: 18819048--18819312 Score: 354
Period size: 144 Copynumber: 1.8 Consensus size: 145
18819038 CATCGGTATT
* * * *
18819048 TATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGAGAGCTAGTGT
1 TATATGAGA-CTAGTGTAAGACCATGTCTGGAACATGGCATCGACATCGATATGAGAGCTACTGT
* * * * *
18819113 AAGACCATGTTTGGGACATGGTATCAGCGTCGA-TAAGTGAGCTAGTGTAAGACCATGTCTAGGA
65 AAGACCATGTCTAGGACATGGCATCAGCCTCAACT-AGTGAGCTAGTGTAAGACCATGTCTAGGA
18819177 CATGGCATCGACTTCGA
129 CATGGCATCGACTTCGA
* * **
18819194 TATATGAGA-TAGTGTAAGACTATGTTTGGAACATGGCATCGACATTTATATGAGAGCTACTGTA
1 TATATGAGACTAGTGTAAGACCATGTCTGGAACATGGCATCGACATCGATATGAGAGCTACTGTA
** *
18819258 AGACCATGTCTAGGACATGGCATTGGCCTCAACTTGTGAGCTAGTGTAAGACCAT
66 AGACCATGTCTAGGACATGGCATCAGCCTCAACTAGTGAGCTAGTGTAAGACCAT
18819313 TTCTGAGAAA
Statistics
Matches: 102, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
144 92 0.90
145 1 0.01
146 9 0.09
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (145 bp):
TATATGAGACTAGTGTAAGACCATGTCTGGAACATGGCATCGACATCGATATGAGAGCTACTGTA
AGACCATGTCTAGGACATGGCATCAGCCTCAACTAGTGAGCTAGTGTAAGACCATGTCTAGGACA
TGGCATCGACTTCGA
Found at i:18825151 original size:4 final size:4
Alignment explanation
Indices: 18825142--18825169 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
18825132 ATTTAGTAAA
18825142 ATTT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT
18825170 TAAAATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:18826317 original size:15 final size:15
Alignment explanation
Indices: 18826297--18826326 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18826287 TATCCACATT
18826297 TAATCATAATTTAAA
1 TAATCATAATTTAAA
*
18826312 TAATCATGATTTAAA
1 TAATCATAATTTAAA
18826327 AAAAAAGACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (15 bp):
TAATCATAATTTAAA
Found at i:18838225 original size:50 final size:50
Alignment explanation
Indices: 18838150--18838294 Score: 191
Period size: 50 Copynumber: 2.9 Consensus size: 50
18838140 GGAAAATCCA
* *
18838150 TATTTAGGAAGCCTTTTGGGTGAGTCACCTATAAATCCTTTGTGGCAATT
1 TATTTAGGAAGCCTTTTTGGTGAGTCACCTGTAAATCCTTTGTGGCAATT
* * * * * *
18838200 TATTTTGGAAGGCTTTTTGGCGAGTCACTTGTAAATCCTTTCTGGCGATT
1 TATTTAGGAAGCCTTTTTGGTGAGTCACCTGTAAATCCTTTGTGGCAATT
* * *
18838250 TATTTAGGAAGCCTTTGTGGTGAGTCACCTGTAAAGCCTATGTGG
1 TATTTAGGAAGCCTTTTTGGTGAGTCACCTGTAAATCCTTTGTGG
18838295 TAGGTTACTT
Statistics
Matches: 79, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 79 1.00
ACGTcount: A:0.21, C:0.16, G:0.25, T:0.38
Consensus pattern (50 bp):
TATTTAGGAAGCCTTTTTGGTGAGTCACCTGTAAATCCTTTGTGGCAATT
Found at i:18842012 original size:23 final size:23
Alignment explanation
Indices: 18841982--18842029 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
18841972 CCTTAGTAAA
18841982 TAAGGATCAGTAAAATGCGTATT
1 TAAGGATCAGTAAAATGCGTATT
18842005 TAAGGATCAGTAAAATGCGTATT
1 TAAGGATCAGTAAAATGCGTATT
18842028 TA
1 TA
18842030 CTAAGTAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (23 bp):
TAAGGATCAGTAAAATGCGTATT
Found at i:18849851 original size:89 final size:88
Alignment explanation
Indices: 18849700--18849861 Score: 288
Period size: 89 Copynumber: 1.8 Consensus size: 88
18849690 ACTCATAATT
*
18849700 ATTTTTTTAAATTTATAGTGATTTTCAAAAGTTAAGACAGTGGAGTCTAGAATCACTCCAACTCT
1 ATTTTTTTAAATTTATAGTGATTTTCAAAAGTTAAGACAGGGGAGTCTAGAATCACTCCAACTCT
*
18849765 ATCTCACAAGAATTCAAATATCC
66 ACCTCACAAGAATTCAAATATCC
*
18849788 ATTTTTTTAAAATTTATAGTGATTTTCAAAAGTTAAGACAGGGGAGTCTAGAATCACTTCAACTC
1 ATTTTTTT-AAATTTATAGTGATTTTCAAAAGTTAAGACAGGGGAGTCTAGAATCACTCCAACTC
18849853 TACCTCACA
65 TACCTCACA
18849862 TATTCAAAAG
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
88 8 0.11
89 62 0.89
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (88 bp):
ATTTTTTTAAATTTATAGTGATTTTCAAAAGTTAAGACAGGGGAGTCTAGAATCACTCCAACTCT
ACCTCACAAGAATTCAAATATCC
Found at i:18850632 original size:25 final size:25
Alignment explanation
Indices: 18850603--18850650 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
18850593 TACAAATATC
18850603 ATAATAG-GAAATGTATGTACATAGT
1 ATAATAGTG-AATGTATGTACATAGT
*
18850628 ATAATAGTGCATGTATGTACATA
1 ATAATAGTGAATGTATGTACATA
18850651 TTGATGCTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 20 0.95
26 1 0.05
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.33
Consensus pattern (25 bp):
ATAATAGTGAATGTATGTACATAGT
Found at i:18850920 original size:123 final size:122
Alignment explanation
Indices: 18850658--18850934 Score: 346
Period size: 123 Copynumber: 2.3 Consensus size: 122
18850648 ATATTGATGC
* * *
18850658 TAGGGACCATGTACA-AGGTCACATATCATAATGGGAGTAAGGCATGCATTTACATTGAGATGTT
1 TAGGGACTATGTACATAAGTCACATATCATAATGGGAGTAAGACATGCATTTACATTGAGATGTT
* * * *
18850722 AGGGACTATTTATGTAGGTCAAATATCACAAAAGGGAATGCATGTAATTTGAGTTAG
66 AAGGACTATGTATATAGATCAAATATCACAAAAGGGAATGCATGTAATTTGAGTTAG
* * *
18850779 TAGGGACTATGTGCATAAGTCGCATATCATAATGGGAGTAAGACATGCATTTACATTGTGATGTT
1 TAGGGACTATGTACATAAGTCACATATCATAATGGGAGTAAGACATGCATTTACATTGAGATGTT
* * * *
18850844 AAGGA-TATAGTATAATA-ATACACATATCATAAGAGGTAATGCATGTAATTTGAGTT-G
66 AAGGACTAT-GTAT-ATAGAT-CAAATATCACAAAAGGGAATGCATGTAATTTGAGTTAG
* *
18850901 ATAGGGGCTATGTACATAAGTCACTTATCATAAT
1 -TAGGGACTATGTACATAAGTCACATATCATAAT
18850935 AAGGTATGCA
Statistics
Matches: 133, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
121 16 0.12
122 54 0.41
123 63 0.47
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.31
Consensus pattern (122 bp):
TAGGGACTATGTACATAAGTCACATATCATAATGGGAGTAAGACATGCATTTACATTGAGATGTT
AAGGACTATGTATATAGATCAAATATCACAAAAGGGAATGCATGTAATTTGAGTTAG
Found at i:18851085 original size:141 final size:141
Alignment explanation
Indices: 18850830--18851152 Score: 409
Period size: 141 Copynumber: 2.3 Consensus size: 141
18850820 GACATGCATT
* * * * *
18850830 TACATTGTGATGTTAAGGATATAGTATAATAATACACATATCATAAGAGGTAATGCATGTAATTT
1 TACATTGTGATGTTAGGGACATAGTATAATAGTACACATATCATAAGAGGTAACGCATGCAATTT
* * * * *
18850895 GAGTTGATAGGGGCTATGTACATAAGTCACTTATCATAATAAGGTATGCATGTACACATTGATGT
66 CAGTTGATAGGGACTATGTAAATAAGTCACATATCATAATAAGGCATGCATGTACACATTGATGT
18850960 CAGGGAAAATG-
131 CAGGGAAAA-GA
*
18850971 TACATTGTGATGTTTGGGACATAGTATAATAGTACACATATCATAAGAAGG-AACGCATGCAATT
1 TACATTGTGATGTTAGGGACATAGTATAATAGTACACATATCATAAG-AGGTAACGCATGCAATT
*
18851035 TCAGTT-ATTAGGGACTATGTAAATAAGTCACATATCATAATAAGGCATGCATGTACATATTGAT
65 TCAGTTGA-TAGGGACTATGTAAATAAGTCACATATCATAATAAGGCATGCATGTACACATTGAT
* **
18851099 GTTAGGGACTAGA
129 GTCAGGGAAAAGA
* ** * * *
18851112 TATATCATGATGTTGGGGACGTAGTACAATAGTACACATAT
1 TACATTGTGATGTTAGGGACATAGTATAATAGTACACATAT
18851153 TATAGTAAGG
Statistics
Matches: 158, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
140 2 0.01
141 153 0.97
142 3 0.02
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.31
Consensus pattern (141 bp):
TACATTGTGATGTTAGGGACATAGTATAATAGTACACATATCATAAGAGGTAACGCATGCAATTT
CAGTTGATAGGGACTATGTAAATAAGTCACATATCATAATAAGGCATGCATGTACACATTGATGT
CAGGGAAAAGA
Found at i:18851189 original size:141 final size:140
Alignment explanation
Indices: 18850850--18851218 Score: 360
Period size: 141 Copynumber: 2.6 Consensus size: 140
18850840 TGTTAAGGAT
* * * * * *
18850850 ATAGTATAATAATACACATATCATAAG-AGGTAATGCATGTAATTTGAGTTGA-TAGGGGCTATG
1 ATAGTACAATAGTACACATATCATAAGAAGG-AACGCATGCAAATT-AG-TGATTAGGGACTATG
* * * **
18850913 TACATAAGTCACTTATCATAATAAGGTATGCATGTACACATTGATGTCAGGGAAAATGTACATTG
63 TAAATAAGTCACATATCATAATAAGGCATGCATGTACACATTGATGTCAGGGAAAATGTACATCA
*
18850978 TGATGTTTGGGAC
128 TGATGTTGGGGAC
* * *
18850991 ATAGTATAATAGTACACATATCATAAGAAGGAACGCATGCAATTTCAGTTATTAGGGACTATGTA
1 ATAGTACAATAGTACACATATCATAAGAAGGAACGCATGCAAATT-AGTGATTAGGGACTATGTA
* * ** *
18851056 AATAAGTCACATATCATAATAAGGCATGCATGTACATATTGATGTTAGGGACTA-GATATATCAT
65 AATAAGTCACATATCATAATAAGGCATGCATGTACACATTGATGTCAGGGAAAATG-TACATCAT
18851120 GATGTTGGGGAC
129 GATGTTGGGGAC
* * * * *
18851132 GTAGTACAATAGTACACATATTAT-AGTAAGGCATGCATGTAAATT-GTGATGTCAGGGAC-AT-
1 ATAGTACAATAGTACACATATCATAAG-AAGGAACGCATGCAAATTAGTGAT-T-AGGGACTATG
18851193 TATAAT-AGTACACATATCATAA-AAGG
63 TA-AATAAGT-CACATATCATAATAAGG
18851219 GAATGCATAT
Statistics
Matches: 195, Mismatches: 25, Indels: 18
0.82 0.11 0.08
Matches are distributed among these distances:
139 13 0.07
140 23 0.12
141 156 0.80
142 3 0.02
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.30
Consensus pattern (140 bp):
ATAGTACAATAGTACACATATCATAAGAAGGAACGCATGCAAATTAGTGATTAGGGACTATGTAA
ATAAGTCACATATCATAATAAGGCATGCATGTACACATTGATGTCAGGGAAAATGTACATCATGA
TGTTGGGGAC
Found at i:18851343 original size:198 final size:199
Alignment explanation
Indices: 18850968--18851343 Score: 465
Period size: 198 Copynumber: 1.9 Consensus size: 199
18850958 GTCAGGGAAA
* ** *
18850968 ATGTACATTGTGATGTTTGGGACATAGTATAATAGTACACATATCATAAGAAGGAACGCATGCAA
1 ATGTAAATTGTGATGTCAGGGACATA-TATAATAGTACACATATCATAAGAAGGAACGCATACAA
* * * *
18851033 TTTCAGTTATTAGGGACTATGTAAATAAGTCACATATCATAATAAGGCATGCATGTACATATTGA
65 TTTCAGTTAGTAAGGACTATATAAATAAGTCACATATCATAATAAGGCATGCATGTACATATTAA
* * * *
18851098 TGTTAGGGACTAGATATATCATGATGTTGGGGACGTAGTACAATAGTACACATATTATAGTAAGG
130 TGTTAGAGACTAGATACATCATGATGTTAGGGACATAGTACAATAGTACACATATTATAGTAAGG
18851163 CATGC
195 CATGC
* *
18851168 ATGTAAATTGTGATGTCAGGGACAT-TATAATAGTACACATATCATAA-AAGGGAATGCATATAA
1 ATGTAAATTGTGATGTCAGGGACATATATAATAGTACACATATCATAAGAA-GGAACGCATACAA
* * * * *
18851231 TTTGAGTTGGTAAGGACTATATACATAGGTCACATATTATAATAAGGCATGCATG--CATAATTT
65 TTTCAGTTAGTAAGGACTATATAAATAAGTCACATATCATAATAAGGCATGCATGTACAT-A-TT
* ** *
18851294 AATGTTAGAGATTATG-TACATTGTGATGTTAGGGACATAGTATAATAGTA
128 AATGTTAGAGACTA-GATACATCATGATGTTAGGGACATAGTACAATAGTA
18851344 TAAATAACAT
Statistics
Matches: 149, Mismatches: 23, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
196 3 0.02
197 3 0.02
198 120 0.81
199 1 0.01
200 22 0.15
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.32
Consensus pattern (199 bp):
ATGTAAATTGTGATGTCAGGGACATATATAATAGTACACATATCATAAGAAGGAACGCATACAAT
TTCAGTTAGTAAGGACTATATAAATAAGTCACATATCATAATAAGGCATGCATGTACATATTAAT
GTTAGAGACTAGATACATCATGATGTTAGGGACATAGTACAATAGTACACATATTATAGTAAGGC
ATGC
Found at i:18851440 original size:141 final size:141
Alignment explanation
Indices: 18851168--18851475 Score: 320
Period size: 141 Copynumber: 2.2 Consensus size: 141
18851158 TAAGGCATGC
* * * * *
18851168 ATGTAAATTGTGATGTCAGGGACAT--TATAATAGTACACATATCATAAAAGGGAATGCATATAA
1 ATGTACATTGTGATGTTAGGGACATAGTATAATAGTACAAATAACATAAAAGGGAATGCATACAA
* * * * * *
18851231 TTTGAGTTGGTAAGGACTATATACATAGGTCACATATTATAATAAGGCATGCATGCATAATTTAA
66 TTTGAGTTAGTAAGAACTATATACAGAAGTCACATATCATAATAAGGCATACATGCATAATTTAA
*
18851296 TGTTAGAGATT
131 TGTTAGAGACT
* * *
18851307 ATGTACATTGTGATGTTAGGGACATAGTATAATAGTATAAATAACATAAGAA-GGAATGCGTGCA
1 ATGTACATTGTGATGTTAGGGACATAGTATAATAGTACAAATAACATAA-AAGGGAATGCATACA
** * * *
18851371 ATTTGAGTTAGTTTGAACTATTTACAGAAGTCACATATCATGATAAGGTATACATG--TACATAT
65 ATTTGAGTTAGTAAGAACTATATACAGAAGTCACATATCATAATAAGGCATACATGCATA-AT-T
* *
18851434 TGATGTTAGGGACT
128 TAATGTTAGAGACT
* * * *
18851448 ATATACATTATGATCTTAGGAACATAGT
1 ATGTACATTGTGATGTTAGGGACATAGT
18851476 TGTTAGGCAT
Statistics
Matches: 138, Mismatches: 26, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
139 25 0.18
140 2 0.01
141 109 0.79
142 2 0.01
ACGTcount: A:0.38, C:0.09, G:0.20, T:0.33
Consensus pattern (141 bp):
ATGTACATTGTGATGTTAGGGACATAGTATAATAGTACAAATAACATAAAAGGGAATGCATACAA
TTTGAGTTAGTAAGAACTATATACAGAAGTCACATATCATAATAAGGCATACATGCATAATTTAA
TGTTAGAGACT
Found at i:18856661 original size:48 final size:48
Alignment explanation
Indices: 18856518--18856748 Score: 201
Period size: 48 Copynumber: 4.9 Consensus size: 48
18856508 AACATAGTAA
* *
18856518 GATGCCAATGCCATATCCCAGATATGATCTTACATGGGATCACAGAT-
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATC
* * *** * *
18856565 --TG--AA-GCCAATAGCCCAGCTATGGTCTTACACAATG-TCTCATATT
1 GATGCCAATGCC-ATATCCCAGATATGGTCTTACA-TGGGATCACATATC
*
18856609 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATGTC
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATC
* * * * * *
18856657 GATGCCAATTCCATGTCCCAGACACGGTCTTATATGGGAT-ATCATAAC
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCA-CATATC
* *
18856705 GATGCCAATGCCATGTCCCA-AGCATGGTCTTACATGGGATCACA
1 GATGCCAATGCCATATCCCAGA-TATGGTCTTACATGGGATCACA
18856749 CATAACCCTA
Statistics
Matches: 146, Mismatches: 26, Indels: 23
0.75 0.13 0.12
Matches are distributed among these distances:
42 3 0.02
43 27 0.18
44 1 0.01
45 2 0.01
46 2 0.01
47 3 0.02
48 104 0.71
49 4 0.03
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATC
Found at i:18865488 original size:25 final size:25
Alignment explanation
Indices: 18865416--18865474 Score: 118
Period size: 25 Copynumber: 2.4 Consensus size: 25
18865406 CTATAACATG
18865416 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCGTTTTGCCCCTAGGTA
18865441 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCGTTTTGCCCCTAGGTA
18865466 AAAATGACC
1 AAAATGACC
18865475 ATTATACCTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (25 bp):
AAAATGACCGTTTTGCCCCTAGGTA
Found at i:18865572 original size:11 final size:11
Alignment explanation
Indices: 18865536--18865591 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
18865526 CATGGGATGT
18865536 ATGATATGCAC
1 ATGATATGCAC
* *
18865547 ATGACAT--AT
1 ATGATATGCAC
18865556 ATGATATGCAC
1 ATGATATGCAC
*
18865567 ATGATATG--T
1 ATGATATGCAC
18865576 ATGATATGCAC
1 ATGATATGCAC
18865587 ATGAT
1 ATGAT
18865592 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:18865591 original size:20 final size:20
Alignment explanation
Indices: 18865532--18865591 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
18865522 TAAACATGGG
*
18865532 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAT
*
18865552 ATATATGATATGCACATGAT
1 ATGTATGATATGCACATGAT
18865572 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAT
18865592 GTAATCATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (20 bp):
ATGTATGATATGCACATGAT
Found at i:18865696 original size:24 final size:23
Alignment explanation
Indices: 18865640--18865838 Score: 308
Period size: 24 Copynumber: 8.4 Consensus size: 23
18865630 GAGGAAGTGA
18865640 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
18865663 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
18865686 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
18865710 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
18865734 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
18865757 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
18865781 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
18865805 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
18865829 AAAAGAGGCT
1 AAAAG-GGCT
18865839 AGGCCTCCAG
Statistics
Matches: 165, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
23 65 0.39
24 96 0.58
25 4 0.02
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:18865709 original size:47 final size:47
Alignment explanation
Indices: 18865640--18865838 Score: 319
Period size: 47 Copynumber: 4.2 Consensus size: 47
18865630 GAGGAAGTGA
*
18865640 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
18865686 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
*
18865734 TAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
* * *
18865781 TAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
18865829 AAAAGAGGCT
1 AAAAG-GGCT
18865839 AGGCCTCCAG
Statistics
Matches: 144, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
47 113 0.78
48 27 0.19
49 4 0.03
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
Found at i:18865756 original size:71 final size:70
Alignment explanation
Indices: 18865640--18865838 Score: 344
Period size: 71 Copynumber: 2.8 Consensus size: 70
18865630 GAGGAAGTGA
18865640 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
18865705 GTTAT
66 GTTAT
18865710 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 -AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
18865775 AGTTAT
65 AGTTAT
* * *
18865781 TAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTATCAAAAG-GGCT
18865839 AGGCCTCCAG
Statistics
Matches: 123, Mismatches: 3, Indels: 3
0.95 0.02 0.02
Matches are distributed among these distances:
70 23 0.19
71 96 0.78
72 4 0.03
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (70 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
GTTAT
Found at i:18866080 original size:31 final size:31
Alignment explanation
Indices: 18866045--18866105 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
18866035 CGTTTACAGT
18866045 AAAGGCTTCGGCCCAGTAATATGAAATATGG
1 AAAGGCTTCGGCCCAGTAATATGAAATATGG
**
18866076 AAAGGCTTCGGCCCAGTGTTATGAAATATG
1 AAAGGCTTCGGCCCAGTAATATGAAATATG
18866106 AAATATGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGG
Found at i:18867923 original size:40 final size:39
Alignment explanation
Indices: 18867879--18867985 Score: 121
Period size: 39 Copynumber: 2.7 Consensus size: 39
18867869 GAAATTATAA
*
18867879 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC-AT
1 CCGGG-TAAGACCCGAAGGCAATTGTGCGAGT--CATACTAT
*
18867919 CCGGGTAAGACCCGAAGGC-ATTCGTGCGAGTCATTCTAT
1 CCGGGTAAGACCCGAAGGCAATT-GTGCGAGTCATACTAT
*
18867958 CCGGGCTAAGACCCGAAGGCATTTGTGC
1 CCGGG-TAAGACCCGAAGGCAATTGTGC
18867986 AAATCGTGAT
Statistics
Matches: 59, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
37 1 0.02
38 5 0.08
39 28 0.47
40 23 0.39
41 2 0.03
ACGTcount: A:0.23, C:0.25, G:0.30, T:0.21
Consensus pattern (39 bp):
CCGGGTAAGACCCGAAGGCAATTGTGCGAGTCATACTAT
Found at i:18867999 original size:40 final size:39
Alignment explanation
Indices: 18867835--18868017 Score: 129
Period size: 40 Copynumber: 4.6 Consensus size: 39
18867825 AAATTGAATG
* * *
18867835 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
18867875 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
18867915 ACATCCGGG-TAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
18867954 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
18867993 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
18868018 CTTGGTGCGG
Statistics
Matches: 112, Mismatches: 25, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 34 0.30
40 72 0.64
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:18868000 original size:79 final size:80
Alignment explanation
Indices: 18867879--18868026 Score: 183
Period size: 79 Copynumber: 1.9 Consensus size: 80
18867869 GAAATTATAA
* * * *
18867879 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGG-TAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGTTAAGACCCGAAGGCATTCG
18867943 TGCGAGTCATTCTAT
66 TGCGAGTCATTCTAT
* * * * * *
18867958 CCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGCCTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGTTAAGACCCGAAGGCATTC
18868022 GTGCG
65 GTGCG
18868027 GGTTACCATA
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
78 1 0.02
79 37 0.65
80 19 0.33
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGTTAAGACCCGAAGGCATTCG
TGCGAGTCATTCTAT
Found at i:18872603 original size:26 final size:26
Alignment explanation
Indices: 18872542--18872605 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 26
18872532 ACCTTAAATT
* *
18872542 GATAAATGACTATTATGCCCCTGTGA
1 GATAAATGACTATTATGCCCCTATAA
* *
18872568 GGTAAAATGACTATTATGCCCTTATAA
1 GAT-AAATGACTATTATGCCCCTATAA
*
18872595 GATATATGACT
1 GATAAATGACT
18872606 GATTGAGCAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
26 9 0.29
27 22 0.71
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (26 bp):
GATAAATGACTATTATGCCCCTATAA
Found at i:18874721 original size:40 final size:40
Alignment explanation
Indices: 18874677--18874940 Score: 395
Period size: 40 Copynumber: 6.6 Consensus size: 40
18874667 AACCCAATTA
* * ** *
18874677 CCTTCGGGATTTAGCCCGGATGTAACAACCAGCACAAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
* *
18874717 CCTTCGGGACTTAACCCGGAAATAGCAACCAGCATGAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
18874757 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
* *
18874797 CCTTCGGGACTTAACCCGGGAATAACAACCAGCACGAATA
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
* *
18874837 CCTTCGGGACTTAACCCGGGAATAAC-ACCAGCATGAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
* *
18874876 CCTTCGGGACTTAACTCGGAAATAACAACCAGCATGAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
*
18874916 CCTTCGGGACTTAACCCGGATATAA
1 CCTTCGGGACTTAACCCGGAAATAA
18874941 TCCTCAATTG
Statistics
Matches: 206, Mismatches: 17, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
39 35 0.17
40 171 0.83
ACGTcount: A:0.33, C:0.28, G:0.21, T:0.18
Consensus pattern (40 bp):
CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
Found at i:18874909 original size:119 final size:121
Alignment explanation
Indices: 18874677--18874940 Score: 419
Period size: 119 Copynumber: 2.2 Consensus size: 121
18874667 AACCCAATTA
* * * *
18874677 CCTTCGGGATTTAGCCC-GGATGTAACAACCAGCACAAATGCCTTCGGGACTTAACCCGGAAATA
1 CCTTCGGGACTTAACCCGGGATATAACAACCAGCACAAATACCTTCGGGACTTAACCCGGAAATA
*
18874741 GCAACCAGCATGAATGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
66 ACAACCAGCATGAATGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
* *
18874797 CCTTCGGGACTTAACCCGGGA-ATAACAACCAGCACGAATACCTTCGGGACTTAACCCGGGAATA
1 CCTTCGGGACTTAACCCGGGATATAACAACCAGCACAAATACCTTCGGGACTTAACCCGGAAATA
* *
18874861 AC-ACCAGCATGAATGCCTTCGGGACTTAACTCGGAAATAACAACCAGCATGAATG
66 ACAACCAGCATGAATGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
18874916 CCTTCGGGACTTAACCC-GGATATAA
1 CCTTCGGGACTTAACCCGGGATATAA
18874941 TCCTCAATTG
Statistics
Matches: 133, Mismatches: 9, Indels: 5
0.90 0.06 0.03
Matches are distributed among these distances:
118 3 0.02
119 72 0.54
120 55 0.41
121 3 0.02
ACGTcount: A:0.33, C:0.28, G:0.21, T:0.18
Consensus pattern (121 bp):
CCTTCGGGACTTAACCCGGGATATAACAACCAGCACAAATACCTTCGGGACTTAACCCGGAAATA
ACAACCAGCATGAATGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
Found at i:18878924 original size:20 final size:20
Alignment explanation
Indices: 18878887--18878924 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
18878877 TTTATTTTAA
*
18878887 TTAATTTGATTAATTTAATT
1 TTAATTTGATTAAATTAATT
18878907 TTAA-TTGATTAAAATTAA
1 TTAATTTGATT-AAATTAA
18878925 AAATTTCTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (20 bp):
TTAATTTGATTAAATTAATT
Found at i:18883261 original size:7 final size:6
Alignment explanation
Indices: 18883224--18883257 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
18883214 AGGTGAAATT
*
18883224 AATAAA AACATAA AATAAA AATAAA AATAAA AAT
1 AATAAA AATA-AA AATAAA AATAAA AATAAA AAT
18883258 TAAATTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (6 bp):
AATAAA
Found at i:18887716 original size:45 final size:45
Alignment explanation
Indices: 18887665--18887756 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
18887655 TACCAAGAGA
18887665 AAGAAAAAGTACATTAATAAATAATAATAATAATTAAATTAAATT
1 AAGAAAAAGTACATTAATAAATAATAATAATAATTAAATTAAATT
18887710 AAGAAAAAGTACATTAATAAATAATAATAATAATTAAATTAAATT
1 AAGAAAAAGTACATTAATAAATAATAATAATAATTAAATTAAATT
18887755 AA
1 AA
18887757 CTTGCGCGAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.30
Consensus pattern (45 bp):
AAGAAAAAGTACATTAATAAATAATAATAATAATTAAATTAAATT
Found at i:18893904 original size:40 final size:40
Alignment explanation
Indices: 18893859--18894026 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
18893849 CGGAATATAA
18893859 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
18893899 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
18893939 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
18893979 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
18894019 CCGGATAT
1 CCGGATAT
18894027 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:18900153 original size:42 final size:42
Alignment explanation
Indices: 18900107--18900257 Score: 158
Period size: 42 Copynumber: 3.6 Consensus size: 42
18900097 AGTTATCATT
* * * *
18900107 TAAGACCATATTTGGGATATGGCATTGATATGAGATTTTGTG
1 TAAGACCATATCTGGGACATGGCATCGATATGAGATTTCGTG
* * * * * *
18900149 TAAGACCATATCTGGGACATTGCGTCGAAATGATAATTCGTA
1 TAAGACCATATCTGGGACATGGCATCGATATGAGATTTCGTG
* * * *
18900191 TAAGACCATATCTGGGATATGGCATCGATGTGAGATTCCATG
1 TAAGACCATATCTGGGACATGGCATCGATATGAGATTTCGTG
* *
18900233 TAAGACCATGTTTGGGACATGGCAT
1 TAAGACCATATCTGGGACATGGCAT
18900258 TGGCATCTTA
Statistics
Matches: 86, Mismatches: 23, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
42 86 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (42 bp):
TAAGACCATATCTGGGACATGGCATCGATATGAGATTTCGTG
Found at i:18907919 original size:42 final size:42
Alignment explanation
Indices: 18907872--18908020 Score: 174
Period size: 42 Copynumber: 3.5 Consensus size: 42
18907862 ACTTATCATT
* * *
18907872 TAAGACCATATCTGGGATATGGTGTTGATATGAGATTTCGTG
1 TAAGACCATATCTGGGACATGGCGTCGATATGAGATTTCGTG
* * *
18907914 TAAGACCATGTCTGGGACATGGCGTCGAAATGAGAATTT-GTA
1 TAAGACCATATCTGGGACATGGCGTCGATATGAG-ATTTCGTG
* * * * *
18907956 TAAGACCATATCTGGGATATGGCATCGATGTGAGATTCCATG
1 TAAGACCATATCTGGGACATGGCGTCGATATGAGATTTCGTG
*
18907998 TAAGACCATGTCTGGGACATGGC
1 TAAGACCATATCTGGGACATGGC
18908021 ATTGGCATCT
Statistics
Matches: 89, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
41 3 0.03
42 82 0.92
43 4 0.04
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (42 bp):
TAAGACCATATCTGGGACATGGCGTCGATATGAGATTTCGTG
Found at i:18919191 original size:16 final size:16
Alignment explanation
Indices: 18919170--18919201 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
18919160 AGAGGGGTAG
18919170 GAGCAAGAGGGATTCA
1 GAGCAAGAGGGATTCA
18919186 GAGCAAGAGGGATTCA
1 GAGCAAGAGGGATTCA
18919202 AAGCCCTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.38, T:0.12
Consensus pattern (16 bp):
GAGCAAGAGGGATTCA
Found at i:18920578 original size:19 final size:19
Alignment explanation
Indices: 18920544--18920582 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
18920534 GATTTCGTAC
*
18920544 TTTGGCCCATTTTCTCCGTT
1 TTTGGCCCAGTTTCT-CGTT
18920564 TTTGGCCC-GTTTCTCGTT
1 TTTGGCCCAGTTTCTCGTT
18920582 T
1 T
18920583 CTTTCTCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 5 0.28
20 8 0.44
ACGTcount: A:0.03, C:0.28, G:0.18, T:0.51
Consensus pattern (19 bp):
TTTGGCCCAGTTTCTCGTT
Found at i:18928921 original size:20 final size:21
Alignment explanation
Indices: 18928893--18928935 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
18928883 TCCGGGTACT
*
18928893 AGTATTTCACCA-CCACCGAG
1 AGTAGTTCACCAGCCACCGAG
**
18928913 AGTAGTTCAGTAGCCACCGAG
1 AGTAGTTCACCAGCCACCGAG
18928934 AG
1 AG
18928936 GCCGTGGTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.30, C:0.28, G:0.23, T:0.19
Consensus pattern (21 bp):
AGTAGTTCACCAGCCACCGAG
Found at i:18933274 original size:15 final size:15
Alignment explanation
Indices: 18933256--18933286 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
18933246 CATATTCATC
*
18933256 TTATCAAAAATTCAA
1 TTATAAAAAATTCAA
18933271 TTATAAAAAATTCAA
1 TTATAAAAAATTCAA
18933286 T
1 T
18933287 CACATATCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (15 bp):
TTATAAAAAATTCAA
Found at i:18933539 original size:38 final size:38
Alignment explanation
Indices: 18933496--18933788 Score: 192
Period size: 38 Copynumber: 7.0 Consensus size: 38
18933486 TTTCAAATTA
*
18933496 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
*
18933534 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACG-T--T
* ** *
18933575 GAATCAATATATGTAATTGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGTATATCCACTTAGCACCACGTT
*
18933619 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACG-T--T
* ** *
18933660 GAATCAATATATGTAACTTTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGTATATCCACTTAGCACCACGTT
* *
18933704 ACATGTATCAATATGTGTAATCGTGGTACATCCACTTAGCACCACGTT
1 ACATG------TA----TAACCGTGGTATATCCACTTAGCACCACGTT
* *
18933752 ACACGTATAACCATGGTATAT-CACTTAGCACCACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
18933789 TTTCCATTCT
Statistics
Matches: 202, Mismatches: 27, Indels: 53
0.72 0.10 0.19
Matches are distributed among these distances:
37 16 0.08
38 71 0.35
39 2 0.01
40 5 0.02
41 4 0.02
42 4 0.02
43 2 0.01
44 4 0.02
45 6 0.03
46 4 0.02
47 52 0.26
48 32 0.16
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (38 bp):
ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
Found at i:18933600 original size:85 final size:86
Alignment explanation
Indices: 18933508--18933709 Score: 390
Period size: 85 Copynumber: 2.4 Consensus size: 86
18933498 ATGTATAACC
18933508 GTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTA
1 GTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTA
18933573 ATGAATCAATATATGTAA-TT
66 ATGAATCAATATATGTAACTT
18933593 GTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTA
1 GTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTA
18933658 ATGAATCAATATATGTAACTT
66 ATGAATCAATATATGTAACTT
18933679 -TGGCATATCCACTTAGCACCACGTTACATGT
1 GTGGCATATCCACTTAGCACCACGTTACATGT
18933710 ATCAATATGT
Statistics
Matches: 116, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
85 114 0.98
86 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (86 bp):
GTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTA
ATGAATCAATATATGTAACTT
Found at i:18933737 original size:48 final size:47
Alignment explanation
Indices: 18933621--18933759 Score: 181
Period size: 48 Copynumber: 2.9 Consensus size: 47
18933611 ACCACGTTAC
* *
18933621 ATGTTTAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAAT
1 ATGTGTAA-CGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* * *
18933668 ATATGTAACTTTGGCATATCCACTTAGCACCACGTTACATGTATCAAT
1 ATGTGTAAC-GTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* *
18933716 ATGTGTAATCGTGGTACATCCACTTAGCACCACGTTACACGTAT
1 ATGTGTAA-CGTGGTATATCCACTTAGCACCACGTTACATGTAT
18933760 AACCATGGTA
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
46 1 0.01
47 31 0.39
48 46 0.58
49 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (47 bp):
ATGTGTAACGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
Found at i:18933745 original size:133 final size:131
Alignment explanation
Indices: 18933551--18933788 Score: 386
Period size: 133 Copynumber: 1.8 Consensus size: 131
18933541 TAACCGTGGT
* *
18933551 ATATCCACTTAGCACCACGTTAATGAATCAATATATGTAATTGTGGCATATCCACTTAGCACCAC
1 ATATCCACTTAGCACCACGTTAATGAATCAATATATGTAATCGTGGCACATCCACTTAGCACCAC
* * *
18933616 GTTACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACTTTG
66 GTTACACGTATAACCATGGTATAT-CACTTAGCACCACGTTAATGAATCAATATATGTAACTTTG
18933681 GC
130 GC
* * *
18933683 ATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCGTGGTACATCCACTTAGCACCA
1 ATATCCACTTAGCACCACGTTA-ATGAATCAATATATGTAATCGTGGCACATCCACTTAGCACCA
18933748 CGTTACACGTATAACCATGGTATATCACTTAGCACCACGTT
65 CGTTACACGTATAACCATGGTATATCACTTAGCACCACGTT
18933789 TTTCCATTCT
Statistics
Matches: 97, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
132 38 0.39
133 59 0.61
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (131 bp):
ATATCCACTTAGCACCACGTTAATGAATCAATATATGTAATCGTGGCACATCCACTTAGCACCAC
GTTACACGTATAACCATGGTATATCACTTAGCACCACGTTAATGAATCAATATATGTAACTTTGG
C
Found at i:18934287 original size:26 final size:26
Alignment explanation
Indices: 18934250--18934385 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
18934240 TGATACAAAT
* *
18934250 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
18934276 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
18934302 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
18934328 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
18934354 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
18934380 TGATAA
1 TGATAA
18934386 GAATATCATG
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:18935923 original size:26 final size:26
Alignment explanation
Indices: 18935871--18935923 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
18935861 TTTACAGTTT
*
18935871 TACCCCTAGGAGATAAATTATCGAAA
1 TACCCCTAGGAGATAAATTACCGAAA
* *
18935897 TACCCCTAGG-GTTAAATTGACCTAAA
1 TACCCCTAGGAGATAAATT-ACCGAAA
18935923 T
1 T
18935924 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGAGATAAATTACCGAAA
Found at i:18938610 original size:27 final size:27
Alignment explanation
Indices: 18938551--18938611 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
18938541 ATATATATAC
* *
18938551 ATCACATAGGGGCAAAACAGTCATCTT
1 ATCATATAAGGGCAAAACAGTCATCTT
* *
18938578 ACCATATAAGGGCAAAATAGTCAT-TT
1 ATCATATAAGGGCAAAACAGTCATCTT
18938604 AATCATAT
1 -ATCATAT
18938612 GTAAGGGGTC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
26 2 0.07
27 26 0.93
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (27 bp):
ATCATATAAGGGCAAAACAGTCATCTT
Found at i:18946222 original size:2 final size:2
Alignment explanation
Indices: 18946215--18946242 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
18946205 GCTCTTGCAC
18946215 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18946243 GTTTGCACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18947057 original size:28 final size:28
Alignment explanation
Indices: 18946994--18947049 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
18946984 GACTATATCC
*
18946994 GGACTAAGATCCGAAGGCATTCGTGCGAA
1 GGACTAAG-CCCGAAGGCATTCGTGCGAA
* *
18947023 GGGCTAAGCCCGAAGGCATTTGTGCGA
1 GGACTAAGCCCGAAGGCATTCGTGCGA
18947050 GTTACTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.27, C:0.21, G:0.34, T:0.18
Consensus pattern (28 bp):
GGACTAAGCCCGAAGGCATTCGTGCGAA
Found at i:18947063 original size:68 final size:69
Alignment explanation
Indices: 18946954--18947089 Score: 179
Period size: 68 Copynumber: 2.0 Consensus size: 69
18946944 AATGATGTCC
*
18946954 GGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGAT-CCGAAGGCATTCGT
1 GGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAG-TCCCGAAGGCATTCGT
18947018 GCGAA
65 GCGAA
* * ** *
18947023 GGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAATCCGGACTAAGTCCCGAAGGCATTCGT
18947086 GCGA
65 GCGA
18947090 GTTACTATAA
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
67 1 0.02
68 43 0.73
69 15 0.25
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (69 bp):
GGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGTCCCGAAGGCATTCGTG
CGAA
Found at i:18947138 original size:40 final size:40
Alignment explanation
Indices: 18947023--18947124 Score: 163
Period size: 40 Copynumber: 2.6 Consensus size: 40
18947013 TTCGTGCGAA
18947023 GGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC
*
18947062 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
*
18947102 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
18947125 AACGAGTAGC
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
39 7 0.12
40 49 0.84
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
Found at i:18949653 original size:25 final size:25
Alignment explanation
Indices: 18949625--18949675 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
18949615 CTTTTATGAT
18949625 TTAGTCCTTTTCACTTAATTAACTA
1 TTAGTCCTTTTCACTTAATTAACTA
18949650 TTAGTCCTTTTCACTTAATTAACTA
1 TTAGTCCTTTTCACTTAATTAACTA
18949675 T
1 T
18949676 CTAAATGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.20, G:0.04, T:0.49
Consensus pattern (25 bp):
TTAGTCCTTTTCACTTAATTAACTA
Found at i:18954256 original size:25 final size:25
Alignment explanation
Indices: 18954222--18954270 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
18954212 TAAATTAAAT
*
18954222 TATAAAAACTCAAGCAAAACATAAC
1 TATAAAAACTCAAGAAAAACATAAC
18954247 TATAAAAACTCAAGAAAAACATAA
1 TATAAAAACTCAAGAAAAACATAA
18954271 TAAAAATGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.63, C:0.16, G:0.04, T:0.16
Consensus pattern (25 bp):
TATAAAAACTCAAGAAAAACATAAC
Found at i:18955687 original size:26 final size:26
Alignment explanation
Indices: 18955607--18955703 Score: 83
Period size: 26 Copynumber: 3.8 Consensus size: 26
18955597 TCTCATCCCT
* *
18955607 ATTTTA-CCCTAGCAAAATTTTGACT
1 ATTTTACCCCTAGTAAAATTTTGACA
**
18955632 ATTTTACCCCT-GATAAACA-TTAAACA
1 ATTTTACCCCTAG-TAAA-ATTTTGACA
* *
18955658 ATTTTACCCCTGGTAAAATTTTGACG
1 ATTTTACCCCTAGTAAAATTTTGACA
* *
18955684 ATTTTTCCACTAGTAAAATT
1 ATTTTACCCCTAGTAAAATT
18955704 CAAAAAAATA
Statistics
Matches: 57, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
25 8 0.14
26 47 0.82
27 2 0.04
ACGTcount: A:0.34, C:0.20, G:0.08, T:0.38
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTGACA
Found at i:18957639 original size:20 final size:20
Alignment explanation
Indices: 18957591--18957631 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
18957581 ATTTGTAGTA
18957591 TCCATTTCATCAACAATGCT
1 TCCATTTCATCAACAATGCT
*
18957611 TCCATTTCATCAATAATGCT
1 TCCATTTCATCAACAATGCT
18957631 T
1 T
18957632 TCTCTTCAAA
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:0.29, C:0.27, G:0.05, T:0.39
Consensus pattern (20 bp):
TCCATTTCATCAACAATGCT
Found at i:18958025 original size:19 final size:20
Alignment explanation
Indices: 18957993--18958030 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
18957983 AACTCCCAAA
18957993 TAATAATTACCATACAAATG
1 TAATAATTACCATACAAATG
* *
18958013 TAAT-ATTAGCATATAAAT
1 TAATAATTACCATACAAAT
18958031 TAACGTTAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.50, C:0.11, G:0.05, T:0.34
Consensus pattern (20 bp):
TAATAATTACCATACAAATG
Found at i:18959297 original size:26 final size:27
Alignment explanation
Indices: 18959247--18959297 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
18959237 ATTTTTAAAA
* * *
18959247 TTTTAACATTTTTCTATTTTTTTTATT
1 TTTTAACATTTTTATAATTTATTTATT
18959274 TTTTAA-ATTTTTATAATTTATTTA
1 TTTTAACATTTTTATAATTTATTTA
18959298 AAAATATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 15 0.71
27 6 0.29
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (27 bp):
TTTTAACATTTTTATAATTTATTTATT
Found at i:18959336 original size:18 final size:19
Alignment explanation
Indices: 18959313--18959377 Score: 71
Period size: 18 Copynumber: 3.5 Consensus size: 19
18959303 ATAAATTTAG
*
18959313 AAATTTTATAAA-TATTTT
1 AAATTTTAAAAACTATTTT
18959331 AAATTTTAAAAACTATTTT
1 AAATTTTAAAAACTATTTT
* * *
18959350 GAATTTTTGAAAATTATTTT
1 -AAATTTTAAAAACTATTTT
18959370 -AATTTTAA
1 AAATTTTAA
18959378 TTTTTTGTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
18 17 0.44
19 6 0.15
20 16 0.41
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (19 bp):
AAATTTTAAAAACTATTTT
Found at i:18959362 original size:20 final size:19
Alignment explanation
Indices: 18959316--18959375 Score: 68
Period size: 20 Copynumber: 3.2 Consensus size: 19
18959306 AATTTAGAAA
* *
18959316 TTTTATAAA-TATTTTAAA
1 TTTTAAAAACTATTTTAAT
18959334 TTTTAAAAACTATTTTGAAT
1 TTTTAAAAACTATTTT-AAT
* *
18959354 TTTTGAAAATTATTTTAAT
1 TTTTAAAAACTATTTTAAT
18959373 TTT
1 TTT
18959376 AATTTTTTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
18 8 0.22
19 12 0.33
20 16 0.44
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (19 bp):
TTTTAAAAACTATTTTAAT
Found at i:18961792 original size:14 final size:14
Alignment explanation
Indices: 18961773--18961802 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18961763 TTGGGATATG
18961773 ATTTAAGATTTTTT
1 ATTTAAGATTTTTT
*
18961787 ATTTAATATTTTTT
1 ATTTAAGATTTTTT
18961801 AT
1 AT
18961803 CAATACTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (14 bp):
ATTTAAGATTTTTT
Found at i:18963227 original size:44 final size:44
Alignment explanation
Indices: 18963140--18963229 Score: 119
Period size: 44 Copynumber: 2.0 Consensus size: 44
18963130 GTTGAAATAA
* * *
18963140 AATAGAAGTTATGATAATTATACATCTAAAAGAAGTTATAATTT
1 AATAGAAGTTATGATAATTACACATCTAAAAGAAATTAGAATTT
* *
18963184 AATAGAATTTATGATAATTACACATTTAAAA-ATAATTAGAATTT
1 AATAGAAGTTATGATAATTACACATCTAAAAGA-AATTAGAATTT
18963228 AA
1 AA
18963230 ATTATAATCA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
43 1 0.03
44 39 0.98
ACGTcount: A:0.50, C:0.04, G:0.09, T:0.37
Consensus pattern (44 bp):
AATAGAAGTTATGATAATTACACATCTAAAAGAAATTAGAATTT
Found at i:18963237 original size:18 final size:18
Alignment explanation
Indices: 18963197--18963230 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18963187 AGAATTTATG
18963197 ATAATTACACATTTAAAA
1 ATAATTACACATTTAAAA
*
18963215 ATAATTAGA-ATTTAAA
1 ATAATTACACATTTAAA
18963231 TTATAATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (18 bp):
ATAATTACACATTTAAAA
Found at i:18964329 original size:11 final size:10
Alignment explanation
Indices: 18964297--18964334 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
18964287 AATCTCTGAT
18964297 AATCTTGCCA
1 AATCTTGCCA
18964307 AATCCTTG-CA
1 AAT-CTTGCCA
18964317 AATCTTGCCCA
1 AATCTTG-CCA
18964328 AATCTTG
1 AATCTTG
18964335 ATACCAATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 4 0.16
10 8 0.32
11 13 0.52
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.32
Consensus pattern (10 bp):
AATCTTGCCA
Found at i:18966861 original size:40 final size:40
Alignment explanation
Indices: 18966737--18966863 Score: 121
Period size: 40 Copynumber: 3.2 Consensus size: 40
18966727 AAACCACCAT
* * ** * * *
18966737 TATTGCAGATAAGCTACCAATATTGTGGACAAGTCACCAG
1 TATTGCAGATAAACTGCCAGCATTATGGACAAGCCATCAG
* * *
18966777 TATTACAGATAAACTGTCAGCATTATGGACAAGCCATCAA
1 TATTGCAGATAAACTGCCAGCATTATGGACAAGCCATCAG
* * *
18966817 TATTGCAGATAAATTGCCAGTATTATGGAGAAGCCAAT-AG
1 TATTGCAGATAAACTGCCAGCATTATGGACAAGCC-ATCAG
18966857 TATTGCA
1 TATTGCA
18966864 AAAAAGCTTC
Statistics
Matches: 70, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
40 68 0.97
41 2 0.03
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (40 bp):
TATTGCAGATAAACTGCCAGCATTATGGACAAGCCATCAG
Found at i:18968566 original size:23 final size:23
Alignment explanation
Indices: 18968539--18968666 Score: 120
Period size: 23 Copynumber: 5.6 Consensus size: 23
18968529 TCAGCTTGTA
*
18968539 AGAGCTTACTTTTTCAGCTCATT
1 AGAGCTTACTGTTTCAGCTCATT
* * *
18968562 GGAGCTTACGGATTCAGCTCATT
1 AGAGCTTACTGTTTCAGCTCATT
* * *
18968585 GGAGCTTACGGATTCAGCTCA-T
1 AGAGCTTACTGTTTCAGCTCATT
18968607 ATGAGCTTACTGTTT-AGCTCGA-T
1 A-GAGCTTACTGTTTCAGCTC-ATT
**
18968630 AGAGCTTACCATTTCAGCT-ATAT
1 AGAGCTTACTGTTTCAGCTCAT-T
18968653 AGAGCTTACTGTTT
1 AGAGCTTACTGTTT
18968667 ATTAGCTCAG
Statistics
Matches: 89, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
21 1 0.01
22 17 0.19
23 71 0.80
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.36
Consensus pattern (23 bp):
AGAGCTTACTGTTTCAGCTCATT
Found at i:18968646 original size:45 final size:46
Alignment explanation
Indices: 18968539--18968667 Score: 133
Period size: 45 Copynumber: 2.8 Consensus size: 46
18968529 TCAGCTTGTA
** * * *
18968539 AGAGCTTACTTTTTCAGCTCAT-TGGAGCTTACGGATTCAGCTCATT
1 AGAGCTTACCATTTCAGCTCATATAGAGCTTACTG-TTTAGCTCATT
* *
18968585 GGAGCTTACGGA-TTCAGCTCATAT-GAGCTTACTGTTTAGCTCGA-T
1 AGAGCTTAC-CATTTCAGCTCATATAGAGCTTACTGTTTAGCTC-ATT
18968630 AGAGCTTACCATTTCAGCT-ATATAGAGCTTACTGTTTA
1 AGAGCTTACCATTTCAGCTCATATAGAGCTTACTGTTTA
18968668 TTAGCTCAGG
Statistics
Matches: 71, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
44 5 0.07
45 37 0.52
46 28 0.39
47 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (46 bp):
AGAGCTTACCATTTCAGCTCATATAGAGCTTACTGTTTAGCTCATT
Found at i:18968858 original size:20 final size:20
Alignment explanation
Indices: 18968833--18968873 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
18968823 ATGAGCTATG
*
18968833 TTGAAATGTATGAATTACTA
1 TTGAAATGAATGAATTACTA
18968853 TTGAAATGAATGAATTACTA
1 TTGAAATGAATGAATTACTA
18968873 T
1 T
18968874 AGATACGGAT
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:0.41, C:0.05, G:0.15, T:0.39
Consensus pattern (20 bp):
TTGAAATGAATGAATTACTA
Found at i:18968885 original size:20 final size:20
Alignment explanation
Indices: 18968842--18968890 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
18968832 GTTGAAATGT
* *
18968842 ATGAATTACTATTGAAATGA
1 ATGAATTACTATAGAAACGA
* *
18968862 ATGAATTACTATAGATACGG
1 ATGAATTACTATAGAAACGA
18968882 ATGAATTAC
1 ATGAATTAC
18968891 AGTTTATACG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.33
Consensus pattern (20 bp):
ATGAATTACTATAGAAACGA
Found at i:18973190 original size:6 final size:6
Alignment explanation
Indices: 18973179--18973289 Score: 73
Period size: 6 Copynumber: 17.8 Consensus size: 6
18973169 TATCAAAACT
* * *
18973179 AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AAAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* * * * *
18973228 AGTATC AGGTAA-C AGAATC AAAATC AGAATC AGTATC ATGTACC AGAATC
1 AGAATC A-G-AATC AGAATC AGAATC AGAATC AGAATC A-GAATC AGAATC
*
18973278 AAAAATC AGAAT
1 -AGAATC AGAAT
18973290 GTGAATGCAA
Statistics
Matches: 81, Mismatches: 16, Indels: 16
0.72 0.14 0.14
Matches are distributed among these distances:
5 3 0.04
6 61 0.75
7 15 0.19
8 2 0.02
ACGTcount: A:0.49, C:0.15, G:0.16, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:18973215 original size:31 final size:31
Alignment explanation
Indices: 18973179--18973289 Score: 150
Period size: 31 Copynumber: 3.5 Consensus size: 31
18973169 TATCAAAACT
* * *
18973179 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGGTAAC
*
18973210 AGAATCAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGGTAAC
* * *
18973241 AGAATCAAAATCAGAATCAGTATCATGTACC
1 AGAATCAAAATCAGAATCAGAATCAGGTAAC
18973272 AGAATCAAAAATCAGAAT
1 AGAATC-AAAATCAGAAT
18973290 GTGAATGCAA
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
31 62 0.85
32 11 0.15
ACGTcount: A:0.49, C:0.15, G:0.16, T:0.20
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGAATCAGGTAAC
Found at i:18973509 original size:53 final size:53
Alignment explanation
Indices: 18973426--18973526 Score: 141
Period size: 53 Copynumber: 1.9 Consensus size: 53
18973416 GCTCAGTTAT
* * *
18973426 CAGATATTGTGACAGAGTCACCAGATACAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGACAGAGCCACCAGATACAGATAATGTGGCAAAGCCACCAGAA
* *
18973479 CAGATATTTGTGGCATAGCCACCAGA-ACAGATAATGTGGCAAAGCCAC
1 CAGATA-TTGTGACAGAGCCACCAGATACAGATAATGTGGCAAAGCCAC
18973527 TTAACAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
53 26 0.62
54 16 0.38
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (53 bp):
CAGATATTGTGACAGAGCCACCAGATACAGATAATGTGGCAAAGCCACCAGAA
Found at i:18973524 original size:26 final size:26
Alignment explanation
Indices: 18973426--18973526 Score: 139
Period size: 27 Copynumber: 3.8 Consensus size: 26
18973416 GCTCAGTTAT
* *
18973426 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
18973453 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
18973479 CAGATATTTGTGGCATAGCCACCAGAA
1 CAGATA-TTGTGGCAGAGCCACCAGAA
* *
18973506 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
18973527 TTAACAAAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
26 20 0.29
27 48 0.71
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:18975071 original size:20 final size:20
Alignment explanation
Indices: 18975033--18975071 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
18975023 TGGTCCGTAA
*
18975033 GCCCATTGGGCCCAGTTTTG
1 GCCCATTGGGCCCACTTTTG
18975053 GCCCATTGAGGCCC-CTTTT
1 GCCCATTG-GGCCCACTTTT
18975072 TCCGAAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.10, C:0.33, G:0.26, T:0.31
Consensus pattern (20 bp):
GCCCATTGGGCCCACTTTTG
Found at i:18977133 original size:27 final size:27
Alignment explanation
Indices: 18977094--18977405 Score: 453
Period size: 27 Copynumber: 11.6 Consensus size: 27
18977084 TACCACGCAA
* * *
18977094 GGTATCTCGGTAATTCCACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
** *
18977121 GGTATTTTAGTAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
18977148 GGTATTTCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * *
18977175 GGCATTGCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
18977202 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * *
18977229 GGCATTGCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
18977256 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
18977283 GGTATTTCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
18977310 GGTATTCCGGTAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
18977337 GGTATTCCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
18977364 GGTATTCCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
18977391 AGTATTTCGGTAATT
1 GGTATTTCGGTAATT
18977406 TTATAAACAA
Statistics
Matches: 259, Mismatches: 26, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 259 1.00
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.32
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTACAGG
Found at i:18977431 original size:81 final size:81
Alignment explanation
Indices: 18977094--18977459 Score: 319
Period size: 81 Copynumber: 4.5 Consensus size: 81
18977084 TACCACGCAA
* * * ** * * *
18977094 GGTATCTCGGTAATTCCACCCTATAGGGGTATTTTAGTAATTCTACCCTATAGGGGTATTTCGAT
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTCCGGT
* ***
18977159 AATTCTACCCTAC-AGG
66 AATTTTA-TAAACAAGG
* * * * * *
18977175 GGCATTGCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGCATTGCGAT
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTCCGGT
* ***
18977240 AATTCTACCCTAC-AGG
66 AATTTTA-TAAACAAGG
*
18977256 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTCCGGT
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTCCGGT
* **
18977321 AA--TTCTACCCTATAGG
66 AATTTTATAAAC-A-AGG
* * * *
18977337 GGTATTCCGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAGGAGTATTTCGGT
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTCCGGT
*
18977402 AATTTTATAAACAATG
66 AATTTTATAAACAAGG
** * ** *
18977418 GGTATTTTAGTAATTTTA-CAAACCAGGGGTATTTTGGTAATT
1 GGTATTTCGGTAATTCTACCCTA-CAGGGGTATTTCGGTAATT
18977460 TTGTAAACCA
Statistics
Matches: 238, Mismatches: 41, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
78 1 0.00
79 1 0.00
80 2 0.01
81 228 0.96
82 1 0.00
83 5 0.02
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (81 bp):
GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTCCGGT
AATTTTATAAACAAGG
Found at i:18977575 original size:54 final size:54
Alignment explanation
Indices: 18977387--18977568 Score: 294
Period size: 54 Copynumber: 3.4 Consensus size: 54
18977377 TTCTACCCTA
* *
18977387 CAGGAGTATTTCGGTAATTTTATAAA-CAATGGGTATTTTAGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTATAAACCAA-GGGTATTTTAGTAATTTTACAAAC
* *
18977441 CAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAAC
*
18977495 CAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAAC
*
18977549 TAGGGGTATTTTGGTAATTT
1 CAGGGGTATTTTGGTAATTT
18977569 GGTAAACTAA
Statistics
Matches: 118, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
54 115 0.97
55 3 0.03
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (54 bp):
CAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAAC
Found at i:18977577 original size:27 final size:27
Alignment explanation
Indices: 18977387--18977568 Score: 238
Period size: 27 Copynumber: 6.7 Consensus size: 27
18977377 TTCTACCCTA
* *
18977387 CAGGAGTATTTCGGTAATTTTATAAAC
1 CAGGGGTATTTTGGTAATTTTATAAAC
* * * *
18977414 AATGGGTATTTTAGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTATAAAC
*
18977441 CAGGGGTATTTTGGTAATTTTGTAAAC
1 CAGGGGTATTTTGGTAATTTTATAAAC
* *
18977468 CAAGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTATAAAC
*
18977495 CAGGGGTATTTTGGTGATTTTATAAAC
1 CAGGGGTATTTTGGTAATTTTATAAAC
* * *
18977522 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTATAAAC
*
18977549 TAGGGGTATTTTGGTAATTT
1 CAGGGGTATTTTGGTAATTT
18977569 GGTAAACTAA
Statistics
Matches: 131, Mismatches: 24, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 131 1.00
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTATAAAC
Found at i:18982141 original size:40 final size:39
Alignment explanation
Indices: 18982086--18982266 Score: 184
Period size: 40 Copynumber: 4.6 Consensus size: 39
18982076 TAAATGATAT
* * *
18982086 CGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAAATT
1 CGGGCTAAGACCCGAAGGCATTTATGCTAGT-GTTAAATC
* * * *
18982126 TGGGTTAAGACCCGAAGGCAATTATGCTAGTGACTAAATC
1 CGGGCTAAGACCCGAAGGCATTTATGCTAGTG-TTAAATC
** *
18982166 CGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATC
1 CGGGCTAAGACCCGAAGGCATTTATGCTAG-TGTTAAATC
* * * **
18982206 CGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCTATC
1 CGGGCTAAGACCCGAAGGCATTTATGCTAGT-GTTAAATC
18982246 CGGGCTAAGA-CCGAAGGCATT
1 CGGGCTAAGACCCGAAGGCATT
18982267 CGTGCATGTG
Statistics
Matches: 119, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
39 13 0.11
40 104 0.87
41 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (39 bp):
CGGGCTAAGACCCGAAGGCATTTATGCTAGTGTTAAATC
Found at i:18982219 original size:80 final size:80
Alignment explanation
Indices: 18982086--18982287 Score: 212
Period size: 80 Copynumber: 2.5 Consensus size: 80
18982076 TAAATGATAT
* * ** * ** *
18982086 CGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAAATTTGGGTTAAGACCCGAAGGCAATTAT
1 CGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAATTAT
*
18982151 GCTAGT-G-ACTAAATC
66 GCAAGTCGTACT--ATC
* * * *
18982166 CGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATTTGT
1 CGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAATTAT
*
18982231 GCAAGTCGTTCTATC
66 GCAAGTCGTACTATC
* * *
18982246 CGGGCTAAGA-CCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 CGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGG
18982288 TTGTATTCCG
Statistics
Matches: 103, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 29 0.28
80 71 0.69
81 1 0.01
82 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
CGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAATTAT
GCAAGTCGTACTATC
Found at i:18982272 original size:39 final size:40
Alignment explanation
Indices: 18982163--18982287 Score: 180
Period size: 40 Copynumber: 3.1 Consensus size: 40
18982153 TAGTGACTAA
* *
18982163 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAT
* * *
18982203 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAT
* *
18982243 ATCCGGGCTAAGA-CCGAAGGCATTCGTGCATGTGGTTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAT
18982282 ATCCGG
1 ATCCGG
18982288 TTGTATTCCG
Statistics
Matches: 75, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 28 0.37
40 47 0.63
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAT
Found at i:18990075 original size:40 final size:39
Alignment explanation
Indices: 18990018--18990202 Score: 217
Period size: 40 Copynumber: 4.6 Consensus size: 39
18990008 ATTAAATGAT
* * *
18990018 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
* * * *
18990058 ATCCGGGTTAAGACCCGAAGGCAATTATGCTAGTGACTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTG-TTAA
**
18990098 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAG-TGTTAA
* * **
18990138 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
18990178 ATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATT
18990203 CGTGCATGTG
Statistics
Matches: 126, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.02
40 122 0.97
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGTTAA
Found at i:18990154 original size:80 final size:80
Alignment explanation
Indices: 18990017--18990223 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
18990007 AATTAAATGA
* * ** * *
18990017 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAAATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
*
18990082 TTATGCTAGT-G-AC
66 TTATGCAAGTCGTAC
* *
18990095 TAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGC
* * *
18990160 ATTTGTGCAAGTCGTTC
64 AATTATGCAAGTCGTAC
* * *
18990177 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGG
18990224 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
78 1 0.01
80 106 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
TTATGCAAGTCGTAC
Found at i:18990208 original size:40 final size:39
Alignment explanation
Indices: 18990016--18990223 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 39
18990006 CAATTAAATG
* * ** *
18990016 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* * * * *
18990056 AAATCCGGGTTAAGACCCGAAGGCAATT-ATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTG-TT
*
18990096 AAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAG-TGTT
* * *
18990136 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* *
18990176 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
18990216 ATATCCGG
1 ATATCCGG
18990224 TTGTATTCCG
Statistics
Matches: 145, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
39 5 0.03
40 135 0.93
41 5 0.03
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTT
Found at i:18992486 original size:13 final size:13
Alignment explanation
Indices: 18992468--18992492 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18992458 ACACGAGTGT
18992468 ATGGACCACACAG
1 ATGGACCACACAG
18992481 ATGGACCACACA
1 ATGGACCACACA
18992493 ACCATGTGCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.32, G:0.20, T:0.08
Consensus pattern (13 bp):
ATGGACCACACAG
Found at i:18995417 original size:43 final size:43
Alignment explanation
Indices: 18995370--18995526 Score: 167
Period size: 43 Copynumber: 3.7 Consensus size: 43
18995360 TGAGATTACA
18995370 TGTAAGACCATGTCTGGGACATTGGCATTATATTGTGATTATG
1 TGTAAGACCATGTCTGGGACATTGGCATTATATTGTGATTATG
** * * *
18995413 TGTAAGACCATGTCTGGGACATTGATATCAT-TATATGATTTTG
1 TGTAAGACCATGTCTGGGACATTGGCATTATAT-TGTGATTATG
* * * * *
18995456 TGTAAGACCATGTCTGCGACATTGGCATCGATA-TGAGATAATA
1 TGTAAGACCATGTCTGGGACATTGGCAT-TATATTGTGATTATG
* *
18995499 TGTAAGACCATATCTGGGATA-TGGCATT
1 TGTAAGACCATGTCTGGGACATTGGCATT
18995527 GTTTGAGTTT
Statistics
Matches: 93, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
42 7 0.08
43 84 0.90
44 2 0.02
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.34
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATTATATTGTGATTATG
Found at i:19001509 original size:12 final size:12
Alignment explanation
Indices: 19001480--19001518 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
19001470 TAATTATTGT
*
19001480 ATTTTTTGTA-A
1 ATTTTTTTTATA
*
19001491 ATCTTTTTTATA
1 ATTTTTTTTATA
19001503 ATTTTTTTTATA
1 ATTTTTTTTATA
19001515 ATTT
1 ATTT
19001519 ATATGTTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
11 8 0.33
12 16 0.67
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (12 bp):
ATTTTTTTTATA
Found at i:19001887 original size:13 final size:13
Alignment explanation
Indices: 19001869--19001895 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
19001859 AGTAATCTAA
19001869 AACAAAATTTTCT
1 AACAAAATTTTCT
19001882 AACAAAATTTTCT
1 AACAAAATTTTCT
19001895 A
1 A
19001896 TTTTAGGGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (13 bp):
AACAAAATTTTCT
Found at i:19014995 original size:23 final size:23
Alignment explanation
Indices: 19014965--19015009 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
19014955 CACTGAGTGC
19014965 CAAAGTATGTAAATATGAAATGG
1 CAAAGTATGTAAATATGAAATGG
19014988 CAAAGTATGTAAATATGAAATG
1 CAAAGTATGTAAATATGAAATG
19015010 AAAAATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.49, C:0.04, G:0.20, T:0.27
Consensus pattern (23 bp):
CAAAGTATGTAAATATGAAATGG
Found at i:19015547 original size:28 final size:28
Alignment explanation
Indices: 19015516--19015674 Score: 101
Period size: 28 Copynumber: 5.3 Consensus size: 28
19015506 TAGTAACTTG
19015516 TGAAAAACATTATAAATTTAAGTTTACT
1 TGAAAAACATTATAAATTTAAGTTTACT
* * *
19015544 TGAACAACAACTCTTAATTAATTT-AG-TAACTT
1 TG-A-AA-AAC-ATT-ATAAATTTAAGTTTAC-T
19015576 GTGAAAAACATTATAAATTTAAGTTTACT
1 -TGAAAAACATTATAAATTTAAGTTTACT
* * *
19015605 TGAACAACAACTCTTAATTAATTT-AG-TAACTT
1 TG-A-AA-AAC-ATT-ATAAATTTAAGTTTAC-T
19015637 GTGAAAAACATTATAAATTTAAGTTTACT
1 -TGAAAAACATTATAAATTTAAGTTTACT
*
19015666 TGAACAACA
1 TGAAAAACA
19015675 ACCTTTAAAA
Statistics
Matches: 100, Mismatches: 13, Indels: 36
0.67 0.09 0.24
Matches are distributed among these distances:
28 26 0.26
29 12 0.12
30 16 0.16
31 16 0.16
32 12 0.12
33 18 0.18
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.36
Consensus pattern (28 bp):
TGAAAAACATTATAAATTTAAGTTTACT
Found at i:19015586 original size:61 final size:61
Alignment explanation
Indices: 19015491--19015676 Score: 372
Period size: 61 Copynumber: 3.0 Consensus size: 61
19015481 TTAATCCTTA
19015491 AACTCTTAATTAATTTAGTAACTTGTGAAAAACATTATAAATTTAAGTTTACTTGAACAAC
1 AACTCTTAATTAATTTAGTAACTTGTGAAAAACATTATAAATTTAAGTTTACTTGAACAAC
19015552 AACTCTTAATTAATTTAGTAACTTGTGAAAAACATTATAAATTTAAGTTTACTTGAACAAC
1 AACTCTTAATTAATTTAGTAACTTGTGAAAAACATTATAAATTTAAGTTTACTTGAACAAC
19015613 AACTCTTAATTAATTTAGTAACTTGTGAAAAACATTATAAATTTAAGTTTACTTGAACAAC
1 AACTCTTAATTAATTTAGTAACTTGTGAAAAACATTATAAATTTAAGTTTACTTGAACAAC
19015674 AAC
1 AAC
19015677 CTTTAAAAGG
Statistics
Matches: 125, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 125 1.00
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.37
Consensus pattern (61 bp):
AACTCTTAATTAATTTAGTAACTTGTGAAAAACATTATAAATTTAAGTTTACTTGAACAAC
Found at i:19020522 original size:80 final size:80
Alignment explanation
Indices: 19020438--19020586 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
19020428 TATGGTAACC
* * * *
19020438 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
19020502 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
19020518 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
19020583 CCGG
66 CCGG
19020587 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:19020528 original size:40 final size:38
Alignment explanation
Indices: 19020479--19020586 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
19020469 ATCACGATTT
*
19020479 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
19020519 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
19020559 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
19020587 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:19028023 original size:40 final size:39
Alignment explanation
Indices: 19027978--19028184 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
19027968 CGGAATACAA
*
19027978 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
19028018 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
19028058 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** *
19028098 CCGGATGTAGTCACTAGCAC-AATGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
19028137 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
19028177 CCGGATAT
1 CCGGATAT
19028185 CATTCAATTG
Statistics
Matches: 143, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
39 35 0.24
40 108 0.76
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:19028118 original size:80 final size:80
Alignment explanation
Indices: 19027978--19028182 Score: 245
Period size: 79 Copynumber: 2.6 Consensus size: 80
19027968 CGGAATACAA
* * *
19027978 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCAC-AAT
*
19028042 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* *
19028058 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAT
*
19028121 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
19028137 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
19028183 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 55 0.51
80 49 0.45
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAATG
CCTTCGGGTATTAAC
Found at i:19036074 original size:40 final size:39
Alignment explanation
Indices: 19036029--19036235 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
19036019 CGGAATACAA
*
19036029 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
19036069 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
19036109 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** *
19036149 CCGGATGTAGTCACTAGCAC-AATGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
19036188 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
19036228 CCGGATAT
1 CCGGATAT
19036236 CATTCAATTG
Statistics
Matches: 143, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
39 35 0.24
40 108 0.76
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:19036169 original size:80 final size:80
Alignment explanation
Indices: 19036029--19036233 Score: 245
Period size: 79 Copynumber: 2.6 Consensus size: 80
19036019 CGGAATACAA
* * *
19036029 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCAC-AAT
*
19036093 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* *
19036109 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAT
*
19036172 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
19036188 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
19036234 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 55 0.51
80 49 0.45
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAATG
CCTTCGGGTATTAAC
Found at i:19040110 original size:21 final size:21
Alignment explanation
Indices: 19040060--19040110 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
19040050 GCACAAAGAG
*
19040060 AAAATGCCCCAAAACACTCTC
1 AAAATGCCGCAAAACACTCTC
19040081 AAAATGCCGCAAAACACTCTC
1 AAAATGCCGCAAAACACTCTC
19040102 AAAATGCCG
1 AAAATGCCG
19040111 AAATACCCAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.43, C:0.33, G:0.10, T:0.14
Consensus pattern (21 bp):
AAAATGCCGCAAAACACTCTC
Found at i:19046446 original size:17 final size:19
Alignment explanation
Indices: 19046404--19046447 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
19046394 ATGAAATTTT
*
19046404 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
19046423 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
19046441 AA-TATTA
1 AATTATTA
19046448 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Done.