Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01016250.1 Corchorus capsularis cultivar CVL-1 contig16271, whole genome shotgun sequence
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: 104460
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:92 original size:28 final size:31
Alignment explanation
Indices: 38--97 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 31
28 AAACTTTATG
* *
38 TTTCCAATTGTACCCTTATTTTTAAAACATA
1 TTTCCAATTATACCCTTATTTTTAAAAAATA
69 TTTCCAATTATA-CC-T-TTTTTAAAAAATA
1 TTTCCAATTATACCCTTATTTTTAAAAAATA
97 T
1 T
98 ATTTCTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 13 0.48
29 1 0.04
30 2 0.07
31 11 0.41
ACGTcount: A:0.35, C:0.17, G:0.02, T:0.47
Consensus pattern (31 bp):
TTTCCAATTATACCCTTATTTTTAAAAAATA
Found at i:102 original size:30 final size:31
Alignment explanation
Indices: 38--97 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
28 AAACTTTATG
* *
38 TTTCCAATTGTACCCTTATTTTTAAAACATA
1 TTTCCAATTATACCCTTATTTTAAAAACATA
69 TTTCCAATTATA-CCTT-TTTTAAAAA-ATA
1 TTTCCAATTATACCCTTATTTTAAAAACATA
97 T
1 T
98 ATTTCTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 4 0.15
29 8 0.30
30 4 0.15
31 11 0.41
ACGTcount: A:0.35, C:0.17, G:0.02, T:0.47
Consensus pattern (31 bp):
TTTCCAATTATACCCTTATTTTAAAAACATA
Found at i:3154 original size:2 final size:2
Alignment explanation
Indices: 3142--3174 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
3132 CGTGCAACGC
3142 AT AT GAT 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 AT AT
3175 TAACATATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3406 original size:4 final size:4
Alignment explanation
Indices: 3397--3453 Score: 75
Period size: 4 Copynumber: 14.8 Consensus size: 4
3387 AAGAAAATTC
*
3397 AATA AATA AATA AATA AAT- AATA AA-A AATTC AATA AATA AATA AATA
1 AATA AATA AATA AATA AATA AATA AATA AA-TA AATA AATA AATA AATA
3444 AAT- AATA AAT
1 AATA AATA AAT
3454 GAACAAAAGG
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
3 9 0.19
4 36 0.77
5 2 0.04
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (4 bp):
AATA
Found at i:3426 original size:31 final size:31
Alignment explanation
Indices: 3390--3452 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
3380 AATCAAGAAG
3390 AAAATTCAATAAATAAATAAATAAATAATAA
1 AAAATTCAATAAATAAATAAATAAATAATAA
3421 AAAATTCAATAAATAAATAAATAAATAATAA
1 AAAATTCAATAAATAAATAAATAAATAATAA
3452 A
1 A
3453 TGAACAAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.25
Consensus pattern (31 bp):
AAAATTCAATAAATAAATAAATAAATAATAA
Found at i:5851 original size:143 final size:139
Alignment explanation
Indices: 5466--5852 Score: 453
Period size: 137 Copynumber: 2.8 Consensus size: 139
5456 CCAAAAGCTA
* * *
5466 ATGATTATTTAATTTTGCCACAAATAAATGAATCAATTAAT-ATTATGTTACAAAAAAATAAATT
1 ATGATTATTT-ATTTTGTCATAAATAAATGAATCAATTAATAATTATGTTAAAAAAAAAT-AATT
* * * * *
5530 GATTGAACATCCAAAATAAGTAAATGAATCAAGTTAGTCCTTAGTTAACTTTACCAATCAAAGTT
64 GATTGAACATACTAAATAAATAAATGAATCAAGTTAGTCGTTAGTCAACTTTACCAATCAAAGTT
5595 ATAATTGATGG
129 ATAATTGATGG
* * **
5606 ATGATTATTTATTTT-TCCATAAATAAAT-AATTCAATTACTAATTATATT-ACCAAAAA-AATT
1 ATGATTATTTATTTTGT-CATAAATAAATGAA-TCAATTAATAATTATGTTAAAAAAAAATAATT
* ** *
5667 GATTGAACATGCTAAATAAATAAATGAATCAAGTTAGTCGTT-GATCAACTTTGTCAATTAAAGT
64 GATTGAACATACTAAATAAATAAATGAATCAAGTTAGTCGTTAG-TCAACTTTACCAATCAAAGT
*
5731 TATAATTGATTG
128 TATAATTGATGG
*
5743 ATGATTATTTGATTTTGTCATAAATAAATGAATCAATTAGTAATTATGTTAGAAAAAAAAATAGA
1 ATGATTATTT-ATTTTGTCATAAATAAATGAATCAATTAATAATTATGTT--AAAAAAAAATA-A
* ** *
5808 TTGATTGAACATACTAAATAAATTAGGGAATCAAATTAGTCGTTA
62 TTGATTGAACATACTAAATAAATAAATGAATCAAGTTAGTCGTTA
5853 ATTAATTGCC
Statistics
Matches: 209, Mismatches: 25, Indels: 22
0.82 0.10 0.09
Matches are distributed among these distances:
136 1 0.00
137 79 0.38
138 34 0.16
139 31 0.15
140 17 0.08
141 6 0.03
142 1 0.00
143 40 0.19
ACGTcount: A:0.44, C:0.09, G:0.11, T:0.36
Consensus pattern (139 bp):
ATGATTATTTATTTTGTCATAAATAAATGAATCAATTAATAATTATGTTAAAAAAAAATAATTGA
TTGAACATACTAAATAAATAAATGAATCAAGTTAGTCGTTAGTCAACTTTACCAATCAAAGTTAT
AATTGATGG
Found at i:6028 original size:166 final size:165
Alignment explanation
Indices: 5713--6030 Score: 399
Period size: 166 Copynumber: 1.9 Consensus size: 165
5703 GTCGTTGATC
* * * ** *
5713 AACTTTGTCAATTAAAGTTATAATTGATTGATGATTATTTGATTTTGTCATAAATAAATGAATCA
1 AACTTTGTCAATCAAAGTTATAACTAATTGATGATTATTACATTTTGCCATAAATAAATGAATCA
* * * * *
5778 ATTAGTAATTATGTTAGAAAAAAAAATAGATTGATTGAACATACTAAATAAATTAGGGAATCAAA
66 ATTAGTAATTATGTTAG-AAAAAAAATAAATTGATTCAACATACTAAATAAATAAAGGAACCAAA
* *
5843 TTAGTCGTTAATTAATTGCCAAAAAAATTAGTAATT
130 TTAGTCGCTAATAAATTGCCAAAAAAATTAGTAATT
*
5879 AACTTTG-CTAATCAAAGTTATAACTAATTGGTGATTATTACATTTTGCCATAAATAAATGAATC
1 AACTTTGTC-AATCAAAGTTATAACTAATTGATGATTATTACATTTTGCCATAAATAAATGAATC
* * * * *
5943 AATTAGTAATTATTTTAG-CAAAAAATAAATTGATTCAACATGCTAAATAAATAAATGAACCAAG
65 AATTAGTAATTATGTTAGAAAAAAAATAAATTGATTCAACATACTAAATAAATAAAGGAACCAAA
6007 TTAGTC-CTAAGTCAAAATTGCCAA
130 TTAGTCGCTAA-T--AAATTGCCAA
6031 TCAAAGTTAC
Statistics
Matches: 129, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
163 3 0.02
164 44 0.34
165 1 0.01
166 81 0.63
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (165 bp):
AACTTTGTCAATCAAAGTTATAACTAATTGATGATTATTACATTTTGCCATAAATAAATGAATCA
ATTAGTAATTATGTTAGAAAAAAAATAAATTGATTCAACATACTAAATAAATAAAGGAACCAAAT
TAGTCGCTAATAAATTGCCAAAAAAATTAGTAATT
Found at i:6290 original size:135 final size:138
Alignment explanation
Indices: 6142--6468 Score: 475
Period size: 140 Copynumber: 2.4 Consensus size: 138
6132 AAGTTAGTGA
* *
6142 TCGTTAGCTAATTTTTCCAATCAAAGTTGTAATTGATTGATAATTATTTAATTTTACCAT-AAAT
1 TCGTTAGTTAATTTTTCCAATCAAAGTTGTAATTGATTGATAATTATATAATTTTACCATAAAAT
* *
6206 CGCTA-CAAAAAAATT-A-ACATAAATAAATCAATTAGTAATTATGTTACCAAAAAAATAAATTA
66 CGCCACCAAAAAAATTCATAAATAAATAAATCAATTAGTAATTATGTTA-CAAAAAAATAAATTA
6268 TTGAACATG
130 TTGAACATG
*
6277 TCGTTAGTTAATTTTGT-CAATCAAAGTTGTAATTGATTGATGATTATATAATTTTACCATAAAA
1 TCGTTAGTTAATTTT-TCCAATCAAAGTTGTAATTGATTGATAATTATATAATTTTACCATAAAA
* *
6341 TCGCCACCAAAAAGATTACCATAAATAAATAAATCAATTAGTAATTATGTTATAAAAAAATAAAT
65 TCGCCACCAAAAAAATT--CATAAATAAATAAATCAATTAGTAATTATGTTACAAAAAAATAAAT
6406 TATTGAACATG
128 TATTGAACATG
* * * * *
6417 TTGTTAATTAATTTTGCCAATCAAAGTTGTAATTGATTGATCATTATCTAAT
1 TCGTTAGTTAATTTTTCCAATCAAAGTTGTAATTGATTGATAATTATATAAT
6469 CAAAGTTGTA
Statistics
Matches: 172, Mismatches: 12, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
135 55 0.32
136 9 0.05
137 9 0.05
140 70 0.41
141 29 0.17
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.38
Consensus pattern (138 bp):
TCGTTAGTTAATTTTTCCAATCAAAGTTGTAATTGATTGATAATTATATAATTTTACCATAAAAT
CGCCACCAAAAAAATTCATAAATAAATAAATCAATTAGTAATTATGTTACAAAAAAATAAATTAT
TGAACATG
Found at i:6973 original size:13 final size:13
Alignment explanation
Indices: 6955--6980 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6945 TAAACTTCTT
6955 ATTATTATAATAA
1 ATTATTATAATAA
6968 ATTATTATAATAA
1 ATTATTATAATAA
6981 TAATAATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATTATTATAATAA
Found at i:6974 original size:16 final size:16
Alignment explanation
Indices: 6953--6983 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6943 GTTAAACTTC
*
6953 TTATTATTATAATAAA
1 TTATTATAATAATAAA
6969 TTATTATAATAATAA
1 TTATTATAATAATAA
6984 TAATATATTA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTATTATAATAATAAA
Found at i:7074 original size:40 final size:42
Alignment explanation
Indices: 7026--7107 Score: 141
Period size: 41 Copynumber: 2.0 Consensus size: 42
7016 TACGTTTTTC
7026 TTTCTTATC-TTTTTTATCTAATTTTTCTTCCTC-TTTCTTA
1 TTTCTTATCTTTTTTTATCTAATTTTTCTTCCTCTTTTCTTA
*
7066 TTTCTTATCTTTTTTTATGTAATTTTTCTTCCTCTTTTCTTA
1 TTTCTTATCTTTTTTTATCTAATTTTTCTTCCTCTTTTCTTA
7108 GATGATTATG
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
40 9 0.23
41 23 0.59
42 7 0.18
ACGTcount: A:0.12, C:0.18, G:0.01, T:0.68
Consensus pattern (42 bp):
TTTCTTATCTTTTTTTATCTAATTTTTCTTCCTCTTTTCTTA
Found at i:7742 original size:21 final size:21
Alignment explanation
Indices: 7670--7742 Score: 51
Period size: 21 Copynumber: 3.2 Consensus size: 21
7660 AGTGTTATGA
7670 TTTGCTCTAATCTCATAATATT
1 TTTGCTCTAATCTCATAATA-T
*
7692 TTTG-TATTAAT-TCATAAGTGTTAT
1 TTTGCT-CTAATCTCATAA----TAT
7716 GATTTGCTCTAATCTCATAATAT
1 --TTTGCTCTAATCTCATAATAT
7739 TTTG
1 TTTG
7743 GTAATATACT
Statistics
Matches: 40, Mismatches: 2, Indels: 19
0.66 0.03 0.31
Matches are distributed among these distances:
21 11 0.28
22 8 0.20
23 3 0.08
24 1 0.03
25 2 0.05
26 8 0.20
27 7 0.17
ACGTcount: A:0.27, C:0.12, G:0.10, T:0.51
Consensus pattern (21 bp):
TTTGCTCTAATCTCATAATAT
Found at i:8092 original size:68 final size:73
Alignment explanation
Indices: 8016--8170 Score: 198
Period size: 76 Copynumber: 2.2 Consensus size: 73
8006 AAGAAACTAC
* *
8016 TGCTAACTTTTTAAA-GAAAAA-A-CTA-C-TACTTATATACAGATTTAATTTTAAAAAGAAGTA
1 TGCTAACTTTTTAAAGGAAAAACACCAACCTTACTTATATACAGATTTAATTTTAAAAAGAAGAA
8076 TGTGTAAA
66 TGTGTAAA
*
8084 TGCTAACTTTTTAAAGGAAAAACTACCAACCATTTACTTATATACAGATTTAATTTTAAAAGGAA
1 TGCTAACTTTTTAAAGGAAAAAC-ACCAACC--TTACTTATATACAGATTTAATTTTAAAAAGAA
*
8149 GAATTTGTAAA
63 GAATGTGTAAA
8160 TG-TAA-TTTTTA
1 TGCTAACTTTTTA
8171 CAAATATAAT
Statistics
Matches: 75, Mismatches: 4, Indels: 10
0.84 0.04 0.11
Matches are distributed among these distances:
68 15 0.20
69 6 0.08
71 1 0.01
72 2 0.03
73 1 0.01
74 6 0.08
75 3 0.04
76 41 0.55
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.37
Consensus pattern (73 bp):
TGCTAACTTTTTAAAGGAAAAACACCAACCTTACTTATATACAGATTTAATTTTAAAAAGAAGAA
TGTGTAAA
Found at i:13841 original size:6 final size:6
Alignment explanation
Indices: 13825--13861 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
13815 TAAGCCCTTC
*
13825 AGAAAA CGAAAA AGAAAA AGAAAA AGAAAA AGAAAA A
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA A
13862 ATTAACCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.81, C:0.03, G:0.16, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:15036 original size:7 final size:7
Alignment explanation
Indices: 15010--15052 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
15000 CTACTATGTA
15010 TTGTTTT
1 TTGTTTT
*
15017 ATTTTTGTT
1 -TTGTT-TT
15026 TTGTTTT
1 TTGTTTT
15033 TTGTTTT
1 TTGTTTT
15040 TTGTTTT
1 TTGTTTT
15047 TT-TTTT
1 TTGTTTT
15053 CCTCTTTTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 4 0.12
7 18 0.56
8 8 0.25
9 2 0.06
ACGTcount: A:0.02, C:0.00, G:0.12, T:0.86
Consensus pattern (7 bp):
TTGTTTT
Found at i:15050 original size:11 final size:11
Alignment explanation
Indices: 15010--15052 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
15000 CTACTATGTA
*
15010 TTGTTTTATTT
1 TTGTTTTTTTT
15021 TTGTTTTGTTTT
1 TTGTTTT-TTTT
15033 TTGTTTTTTGTT
1 TTGTTTTTT-TT
15045 TT-TTTTTT
1 TTGTTTTTT
15053 CCTCTTTTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 15 0.52
12 14 0.48
ACGTcount: A:0.02, C:0.00, G:0.12, T:0.86
Consensus pattern (11 bp):
TTGTTTTTTTT
Found at i:15060 original size:19 final size:19
Alignment explanation
Indices: 15019--15060 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
15009 ATTGTTTTAT
* *
15019 TTTTGTTTTGTTTTTTGTT
1 TTTTGTTTTGTTTTTTCTC
15038 TTTTGTTTT-TTTTTTCCTC
1 TTTTGTTTTGTTTTTT-CTC
15057 TTTT
1 TTTT
15061 CTTGTGGAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.00, C:0.07, G:0.10, T:0.83
Consensus pattern (19 bp):
TTTTGTTTTGTTTTTTCTC
Found at i:18090 original size:144 final size:145
Alignment explanation
Indices: 17815--18090 Score: 482
Period size: 144 Copynumber: 1.9 Consensus size: 145
17805 TTTGTATGGA
* * * * *
17815 TGCATCTGGCAAATTGGTTTAGTCTTTTCCATTTTCCTTGCAATATGGTAGATGAAGGGAGTGGA
1 TGCATCTGGCAAATCGGTTTAGTCATTTCCATTTTCATTGCAATATGATAGATGAAGGCAGTGGA
*
17880 TGCTTGCATTTGTTTCCTAAGGTTTCCTTCCTGTGTAAAATGCATTCTTCACAAAGCATTCAGAC
66 TGCTTGCATTTGTTTCCTAAGGTTTCCTTCCTGTGTAAAATGCATTCTTCACAAAACATTCAGAC
17945 CTAAGGTTTCCTTCC
131 CTAAGGTTTCCTTCC
*
17960 TGCATCTGGCAAATCGGTTTAGTCATTTCCATTTTCATTGCAATATGATAGATGAATGCAGTGGA
1 TGCATCTGGCAAATCGGTTTAGTCATTTCCATTTTCATTGCAATATGATAGATGAAGGCAGTGGA
18025 TGC-TGCATTTGTTTCCTAAGGTTTCCTTCCTGTGTAAAATGCATTCTTCACAAAACATTCAGAC
66 TGCTTGCATTTGTTTCCTAAGGTTTCCTTCCTGTGTAAAATGCATTCTTCACAAAACATTCAGAC
18089 CT
131 CT
18091 GACTATTATA
Statistics
Matches: 124, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
144 62 0.50
145 62 0.50
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (145 bp):
TGCATCTGGCAAATCGGTTTAGTCATTTCCATTTTCATTGCAATATGATAGATGAAGGCAGTGGA
TGCTTGCATTTGTTTCCTAAGGTTTCCTTCCTGTGTAAAATGCATTCTTCACAAAACATTCAGAC
CTAAGGTTTCCTTCC
Found at i:29639 original size:30 final size:30
Alignment explanation
Indices: 29603--29663 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
29593 AAGGTTTCTG
29603 GTTAGGTTCCAGATATATTGAATCGGAATC
1 GTTAGGTTCCAGATATATTGAATCGGAATC
29633 GTTAGGTTCCAGATATATTGAATCGGAATC
1 GTTAGGTTCCAGATATATTGAATCGGAATC
29663 G
1 G
29664 AAACCGTCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.33
Consensus pattern (30 bp):
GTTAGGTTCCAGATATATTGAATCGGAATC
Found at i:31107 original size:3 final size:3
Alignment explanation
Indices: 31101--31131 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
31091 TATAGTATAT
31101 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
31132 CTGAAAGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:31962 original size:175 final size:176
Alignment explanation
Indices: 31731--32072 Score: 458
Period size: 178 Copynumber: 1.9 Consensus size: 176
31721 TTAAATTGAG
* *
31731 GTTTATATATTGAACCAATGTTATAAACTCATATGGTTTTTGAAGTTTATGAAATTTAAATCGAT
1 GTTTATACATTGAACCAATGTTATAAACCCATATGGTTTTTGAAGTTTATGAAATTTAAATCGAT
* * * * * ***
31796 -G-ATTGCAAATATTGATGGAATAATTTATATATACATATGGTCTTGTTATCAAAGTTTCAAAAG
66 GGAATTACAAATATTGATAGAATAATTTATATACACATAGGGTCTTATTATCAAAGGAACAAAAG
* *
31859 AAATTATCCCAT-TAAATCAAAATATTAACAAAATATTAATTTGGT
131 AAATTATCCCATCCAAAACAAAATATTAACAAAATATTAATTTGGT
* * *
31904 GTTTATACATTGAATCAATGTTATATAAGCCCATATGTTTTTTGAA-TTTAATGAAATTTAAATT
1 GTTTATACATTGAACCAATGTTATA-AA-CCCATATGGTTTTTGAAGTTT-ATGAAATTTAAATC
* *
31968 GATGGACATTACAAATATTGATAGAATAATTTGTATACATATAGGGTCTTATTATCAAAGGAACA
63 GATGGA-ATTACAAATATTGATAGAATAATTTATATACACATAGGGTCTTATTATCAAAGGAACA
*
32033 AAAGAAATTATCTCATCCAAAACAAAATATTAACAAAATA
127 AAAGAAATTATCCCATCCAAAACAAAATATTAACAAAATA
32073 AAATACCAAA
Statistics
Matches: 144, Mismatches: 18, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
173 23 0.16
174 5 0.03
175 31 0.22
176 1 0.01
178 63 0.44
179 21 0.15
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (176 bp):
GTTTATACATTGAACCAATGTTATAAACCCATATGGTTTTTGAAGTTTATGAAATTTAAATCGAT
GGAATTACAAATATTGATAGAATAATTTATATACACATAGGGTCTTATTATCAAAGGAACAAAAG
AAATTATCCCATCCAAAACAAAATATTAACAAAATATTAATTTGGT
Found at i:32502 original size:23 final size:24
Alignment explanation
Indices: 32450--32502 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
32440 CTCATTTAGA
32450 TATTTGTACATAGAGATTTACTTG
1 TATTTGTACATAGAGATTTACTTG
* *
32474 GA-TTGTA-AT-GATATTTCACTTG
1 TATTTGTACATAGAGATTT-ACTTG
32496 TATTTGT
1 TATTTGT
32503 TGGGGAACGG
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
21 6 0.25
22 8 0.33
23 9 0.38
24 1 0.04
ACGTcount: A:0.26, C:0.08, G:0.17, T:0.49
Consensus pattern (24 bp):
TATTTGTACATAGAGATTTACTTG
Found at i:34168 original size:28 final size:29
Alignment explanation
Indices: 34105--34177 Score: 121
Period size: 28 Copynumber: 2.6 Consensus size: 29
34095 TTGAATCCCT
34105 AATGATGACTTCATTTTCTGGCCAAAAAA
1 AATGATGACTTCATTTTCTGGCCAAAAAA
* *
34134 AACGATGACTTCATTTTCTGG-GAAAAAA
1 AATGATGACTTCATTTTCTGGCCAAAAAA
34162 AATGATGACTTCATTT
1 AATGATGACTTCATTT
34178 GGTATTTTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 21 0.51
29 20 0.49
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (29 bp):
AATGATGACTTCATTTTCTGGCCAAAAAA
Found at i:36789 original size:21 final size:21
Alignment explanation
Indices: 36756--36796 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
36746 TCCCCATACA
36756 CAATACATATACATTCCAAAC
1 CAATACATATACATTCCAAAC
36777 CAAT-CATACTACATTCCAAA
1 CAATACATA-TACATTCCAAA
36797 TTAGTCTCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.46, C:0.29, G:0.00, T:0.24
Consensus pattern (21 bp):
CAATACATATACATTCCAAAC
Found at i:40823 original size:62 final size:62
Alignment explanation
Indices: 40747--41158 Score: 452
Period size: 63 Copynumber: 6.6 Consensus size: 62
40737 AAACATGGCT
*
40747 AAACTGACCCTTTGTCCGAAAGGGTATTTTGGGAAATAGAATCTAAGTGTAGGAATGTGACG
1 AAACTGACCCTTTGTCCGAAAGGGTATTTTGGGAAATAGAATCTAAGTGCAGGAATGTGACG
* *
40809 AAACTGACCCTTTGTCTGAAAGGGTATTTTGGGAATACTA-AA-CTTAAGTGTAGGAATGTGACG
1 AAACTGACCCTTTGTCCGAAAGGGTATTTTGGGAA-A-TAGAATC-TAAGTGCAGGAATGTGACG
* * * * * *
40872 AAACTGACTCTTTGTCTGAAAGGATATTTTGGGAAATAGAATTTAACTGCAGGAATGTGAAG
1 AAACTGACCCTTTGTCCGAAAGGGTATTTTGGGAAATAGAATCTAAGTGCAGGAATGTGACG
* * * * * * * *
40934 AAACTGACCCTTTGTCGGAAAAGGGTATTCTGGGAAATTGAAACTAAATGCAAGAGTGTGACA
1 AAACTGACCCTTTGTCCG-AAAGGGTATTTTGGGAAATAGAATCTAAGTGCAGGAATGTGACG
* * * * * * * *
40997 AAATTAACCCTTTGTCCGAAAGGTTATTTTGGGAAAATTGAAACTGAA-TGATAGAAATGTGACA
1 AAACTGACCCTTTGTCCGAAAGGGTATTTTGGG-AAATAGAATCT-AAGTG-CAGGAATGTGACG
* * * * * * *
41061 AAACTAACCCTTTGTCTGAAAGGGTATTTTGGGAACTTGAATCTAAGAGCAAGAATGTGAAG
1 AAACTGACCCTTTGTCCGAAAGGGTATTTTGGGAAATAGAATCTAAGTGCAGGAATGTGACG
41123 AAACTGACCCTTTGTCCGAAAGGGTATTTTGGGAAA
1 AAACTGACCCTTTGTCCGAAAGGGTATTTTGGGAAA
41159 ACTAGAACCT
Statistics
Matches: 298, Mismatches: 42, Indels: 20
0.83 0.12 0.06
Matches are distributed among these distances:
61 2 0.01
62 126 0.42
63 127 0.43
64 43 0.14
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.28
Consensus pattern (62 bp):
AAACTGACCCTTTGTCCGAAAGGGTATTTTGGGAAATAGAATCTAAGTGCAGGAATGTGACG
Found at i:40886 original size:63 final size:62
Alignment explanation
Indices: 40747--41158 Score: 406
Period size: 62 Copynumber: 6.6 Consensus size: 62
40737 AAACATGGCT
*
40747 AAACTGACCCTTTGTCCGAAAGGGTATTTTGGGAAA-TAGAA-TCTAAGTGTAGGAATGTGACG
1 AAACTGACCCTTTGTCCGAAAGGGTATTTTGGGAAACTA-AACT-TAAGTGCAGGAATGTGACG
* *
40809 AAACTGACCCTTTGTCTGAAAGGGTATTTTGGGAATACTAAACTTAAGTGTAGGAATGTGACG
1 AAACTGACCCTTTGTCCGAAAGGGTATTTTGGGAA-ACTAAACTTAAGTGCAGGAATGTGACG
* * * * * *
40872 AAACTGACTCTTTGTCTGAAAGGATATTTTGGGAAA-TAGAATTTAACTGCAGGAATGTGAAG
1 AAACTGACCCTTTGTCCGAAAGGGTATTTTGGGAAACTA-AACTTAAGTGCAGGAATGTGACG
* * * * * * *
40934 AAACTGACCCTTTGTCGGAAAAGGGTATTCTGGGAAATTGAAAC-TAAATGCAAGAGTGTGACA
1 AAACTGACCCTTTGTCCG-AAAGGGTATTTTGGGAAACT-AAACTTAAGTGCAGGAATGTGACG
* * * * * * * *
40997 AAATTAACCCTTTGTCCGAAAGGTTATTTTGGGAAAATTGAAACTGAA-TGATAGAAATGTGACA
1 AAACTGACCCTTTGTCCGAAAGGGTATTTTGGG-AAACT-AAACTTAAGTG-CAGGAATGTGACG
* * * * * *
41061 AAACTAACCCTTTGTCTGAAAGGGTATTTTGGG-AACTTGAA-TCTAAGAGCAAGAATGTGAAG
1 AAACTGACCCTTTGTCCGAAAGGGTATTTTGGGAAAC-TAAACT-TAAGTGCAGGAATGTGACG
41123 AAACTGACCCTTTGTCCGAAAGGGTATTTTGGGAAA
1 AAACTGACCCTTTGTCCGAAAGGGTATTTTGGGAAA
41159 ACTAGAACCT
Statistics
Matches: 295, Mismatches: 41, Indels: 27
0.81 0.11 0.07
Matches are distributed among these distances:
61 3 0.01
62 128 0.43
63 116 0.39
64 47 0.16
65 1 0.00
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.28
Consensus pattern (62 bp):
AAACTGACCCTTTGTCCGAAAGGGTATTTTGGGAAACTAAACTTAAGTGCAGGAATGTGACG
Found at i:40910 original size:125 final size:123
Alignment explanation
Indices: 40747--41158 Score: 488
Period size: 125 Copynumber: 3.3 Consensus size: 123
40737 AAACATGGCT
40747 AAACTGACCCTTTGTCCGAAAGGGTATTTTGGGAAATAGAATCTAAGTGTAGGAATGTGACGAAA
1 AAACTGACCCTTTGTCCGAAAGGGTATTTTGGGAAATAGAATCTAA-TGTAGGAATGTGACGAAA
* *
40812 CTGACCCTTTGTCTGAAAGGGTATTTTGGGAATACTAAACTTAAGTGTAGGAATGTGACG
65 CTGACCCTTTGTCTGAAAGGGTATTTTGGGAA-ACTAAACTTAAGTGCAAGAATGTGACG
* * * * * *
40872 AAACTGACTCTTTGTCTGAAAGGATATTTTGGGAAATAGAATTTAACTGCAGGAATGTGAAGAAA
1 AAACTGACCCTTTGTCCGAAAGGGTATTTTGGGAAATAGAATCTAA-TGTAGGAATGTGACGAAA
* * * * * *
40937 CTGACCCTTTGTCGGAAAAGGGTATTCTGGGAAATTGAAAC-TAAATGCAAGAGTGTGACA
65 CTGACCCTTTGTCTG-AAAGGGTATTTTGGGAAACT-AAACTTAAGTGCAAGAATGTGACG
* * * * * * *
40997 AAATTAACCCTTTGTCCGAAAGGTTATTTTGGGAAAATTGAAACTGAATGATAGAAATGTGACAA
1 AAACTGACCCTTTGTCCGAAAGGGTATTTTGGG-AAATAGAATCT-AATG-TAGGAATGTGACGA
* * * *
41062 AACTAACCCTTTGTCTGAAAGGGTATTTTGGG-AACTTGAA-TCTAAGAGCAAGAATGTGAAG
63 AACTGACCCTTTGTCTGAAAGGGTATTTTGGGAAAC-TAAACT-TAAGTGCAAGAATGTGACG
41123 AAACTGACCCTTTGTCCGAAAGGGTATTTTGGGAAA
1 AAACTGACCCTTTGTCCGAAAGGGTATTTTGGGAAA
41159 ACTAGAACCT
Statistics
Matches: 239, Mismatches: 40, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
125 123 0.51
126 89 0.37
127 27 0.11
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.28
Consensus pattern (123 bp):
AAACTGACCCTTTGTCCGAAAGGGTATTTTGGGAAATAGAATCTAATGTAGGAATGTGACGAAAC
TGACCCTTTGTCTGAAAGGGTATTTTGGGAAACTAAACTTAAGTGCAAGAATGTGACG
Found at i:47408 original size:96 final size:96
Alignment explanation
Indices: 47244--47531 Score: 540
Period size: 96 Copynumber: 3.0 Consensus size: 96
47234 AAAGTTTTAA
* * *
47244 GGTACATTAAAGGTACAATCGGTCAAGGCTTATTCTTTCCAATAGATTGTTCTTTAACTCTTAAA
1 GGTACCTTAAAGGTACAATCGGTCAAGACTTATTCTTTCCAACAGATTGTTCTTTAACTCTTAAA
47309 GCATACTCTGATTCTGATTGGGGAACTTGTT
66 GCATACTCTGATTCTGATTGGGGAACTTGTT
47340 GGTACCTTAAAGGTACAATCGGTCAAGACTTATTCTTTCCAACAGATTGTTCTTTAACTCTTAAA
1 GGTACCTTAAAGGTACAATCGGTCAAGACTTATTCTTTCCAACAGATTGTTCTTTAACTCTTAAA
47405 GCATACTCTGATTCTGATTGGGGAACTTGTT
66 GCATACTCTGATTCTGATTGGGGAACTTGTT
47436 GGTACCTTAAAGGTACAATCGGTCAAGACTTATTCTTTCCAACAGATTGTTCTTTAACTCTTAAA
1 GGTACCTTAAAGGTACAATCGGTCAAGACTTATTCTTTCCAACAGATTGTTCTTTAACTCTTAAA
*
47501 GCATACTCTGATTCCGATTGGGGAACTTGTT
66 GCATACTCTGATTCTGATTGGGGAACTTGTT
47532 TAGATACAAG
Statistics
Matches: 188, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
96 188 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (96 bp):
GGTACCTTAAAGGTACAATCGGTCAAGACTTATTCTTTCCAACAGATTGTTCTTTAACTCTTAAA
GCATACTCTGATTCTGATTGGGGAACTTGTT
Found at i:48043 original size:31 final size:33
Alignment explanation
Indices: 47985--48056 Score: 114
Period size: 31 Copynumber: 2.2 Consensus size: 33
47975 GGGTTTAGAG
47985 AAGTTAG-TAGTTAAGTTAATCCTTAGTTAAGCT
1 AAGTTAGTTAGTT-AGTTAATCCTTAGTTAAGCT
48018 AAGTTAGTTAGTT-GTTAA-CCTTAGTTAAGCT
1 AAGTTAGTTAGTTAGTTAATCCTTAGTTAAGCT
48049 AAGTTAGT
1 AAGTTAGT
48057 CAGGAGTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
31 21 0.55
32 5 0.13
33 7 0.18
34 5 0.13
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.40
Consensus pattern (33 bp):
AAGTTAGTTAGTTAGTTAATCCTTAGTTAAGCT
Found at i:48066 original size:31 final size:32
Alignment explanation
Indices: 47998--48066 Score: 104
Period size: 31 Copynumber: 2.2 Consensus size: 32
47988 TTAGTAGTTA
* *
47998 AGTTAATCCTTAGTTAAGCTAAGTTAGTTAGT
1 AGTTAATCCTTAGTTAAGCTAAGTTAGTCAGG
*
48030 TGTTAA-CCTTAGTTAAGCTAAGTTAGTCAGG
1 AGTTAATCCTTAGTTAAGCTAAGTTAGTCAGG
48061 AGTTAA
1 AGTTAA
48067 GGTTGTTAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
31 28 0.85
32 5 0.15
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (32 bp):
AGTTAATCCTTAGTTAAGCTAAGTTAGTCAGG
Found at i:48861 original size:8 final size:8
Alignment explanation
Indices: 48842--48892 Score: 61
Period size: 8 Copynumber: 6.2 Consensus size: 8
48832 TTCCTGCCAC
48842 TATATATAT
1 TATAT-TAT
48851 TATATTAT
1 TATATTAT
48859 TATATTAT
1 TATATTAT
48867 TATATTA-
1 TATATTAT
48874 TAT-TTAT
1 TATATTAT
48881 TACTATTGAT
1 TA-TATT-AT
48891 TA
1 TA
48893 AGATCAAACT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
6 3 0.08
7 5 0.13
8 19 0.50
9 7 0.18
10 4 0.11
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (8 bp):
TATATTAT
Found at i:48864 original size:13 final size:13
Alignment explanation
Indices: 48846--48882 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
48836 TGCCACTATA
48846 TATATTATATTAT
1 TATATTATATTAT
48859 TATATTAT-TATAT
1 TATATTATAT-TAT
48872 TATATT-TATTA
1 TATATTATATTA
48883 CTATTGATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 4 0.18
13 18 0.82
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TATATTATATTAT
Found at i:50787 original size:16 final size:16
Alignment explanation
Indices: 50768--50813 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
50758 ATTTCACCTT
50768 TTTTCTTAATTTTTTC
1 TTTTCTTAATTTTTTC
*
50784 TTTTC----TTTTTCC
1 TTTTCTTAATTTTTTC
50796 TTTTCTTAATTTTTTC
1 TTTTCTTAATTTTTTC
50812 TT
1 TT
50814 AAATTTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 8
0.71 0.06 0.24
Matches are distributed among these distances:
12 11 0.46
16 13 0.54
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTCTTAATTTTTTC
Found at i:50798 original size:30 final size:30
Alignment explanation
Indices: 50736--50819 Score: 93
Period size: 28 Copynumber: 2.9 Consensus size: 30
50726 ACGTTGTATA
50736 TTTTTTCTTAAATTTTTTC-TTAATTTCACC
1 TTTTTTCTT-AATTTTTTCTTTAATTTCACC
** **
50766 TTTTTTCTTAATTTTTTCTTTTCTTTTTCC
1 TTTTTTCTTAATTTTTTCTTTAATTTCACC
*
50796 --TTTTCTTAATTTTTTCTTAAATTT
1 TTTTTTCTTAATTTTTTCTTTAATTT
50820 ATTTTTCACC
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
28 21 0.46
29 9 0.20
30 16 0.35
ACGTcount: A:0.15, C:0.14, G:0.00, T:0.70
Consensus pattern (30 bp):
TTTTTTCTTAATTTTTTCTTTAATTTCACC
Found at i:50980 original size:24 final size:23
Alignment explanation
Indices: 50936--50982 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
50926 TTTCTAAATA
*
50936 ATTTGGGAATGGTGCATATGATT
1 ATTTGGGAATGGTGCAAATGATT
* *
50959 ATTTGGGGATGGTGAGAAATGATT
1 ATTTGGGAATGGTG-CAAATGATT
50983 TGGGTATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.28, C:0.02, G:0.34, T:0.36
Consensus pattern (23 bp):
ATTTGGGAATGGTGCAAATGATT
Found at i:51221 original size:221 final size:220
Alignment explanation
Indices: 50830--51342 Score: 782
Period size: 221 Copynumber: 2.3 Consensus size: 220
50820 ATTTTTCACC
** *
50830 ATCATATAAGACGTGGTTTATTCAATTAATTAG-ATCCCTAAAATATGGA-TTAAAGCACTTTTA
1 ATCATAT-AGACGTGGTTTATTCAATTAATTAGAAT--GAAAAATAT-GATTTAAAGCACTTTTT
* * *
50893 AAAGTCAAATTTGTGTATATGAGAAAATATCAATTTCTAAATAATTTGGGAATGGTGCATATGAT
62 AAAGTCAAATTTGTGTATATGAGAAAATATCAATCTCTAAAGAATTTGGGAATGGTGCATAAGAT
* * *
50958 TATTTGGGGATGGTGAGAAATGATTTGGGTATAAACTATATCATTTTGGGGATACTGAATTTTGC
127 TATTTGGGGATGATGAGAAATGATTTGGGTATAAACTATATCATTCTGGGGATACTGAACTTTGC
51023 ATTTTGTTTAATTATGAGACG-GCGCTAAA
192 ATTTTGTTTAATTATGAGA-GAGCGCTAAA
*
51052 ATCATATAGACGTGGTTTATTCAATTAATTTAGAATGAAAAATATGATTTAAAACACTTTTTAAA
1 ATCATATAGACGTGGTTTATTCAATTAA-TTAGAATGAAAAATATGATTTAAAGCACTTTTTAAA
* * *
51117 GTCAAATTTGTGTATATGAGAAAATGTCAGTCTCTAAAGAATTTGGGGATGGTGCATAAGATTCA
65 GTCAAATTTGTGTATATGAGAAAATATCAATCTCTAAAGAATTTGGGAATGGTGCATAAGATT-A
*
51182 -TTGGGGATGATGAGAAATGATTTGGGTATAAAGTATATCATTCTGGGGATACTGAACTTTGCAT
129 TTTGGGGATGATGAGAAATGATTTGGGTATAAACTATATCATTCTGGGGATACTGAACTTTGCAT
51246 TTTGTTTAATTATGAGAGAGCGCTAAA
194 TTTGTTTAATTATGAGAGAGCGCTAAA
* * *
51273 ATCATATAGACGTGGTTTATTCAATTAATCAGAACGAAAAATATGGTTTAAAGCACTTTTTAAAG
1 ATCATATAGACGTGGTTTATTCAATTAATTAGAATGAAAAATATGATTTAAAGCACTTTTTAAAG
51338 TCAAA
66 TCAAA
51343 AATTGTGAAA
Statistics
Matches: 268, Mismatches: 18, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
220 41 0.15
221 213 0.79
222 12 0.04
223 2 0.01
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.36
Consensus pattern (220 bp):
ATCATATAGACGTGGTTTATTCAATTAATTAGAATGAAAAATATGATTTAAAGCACTTTTTAAAG
TCAAATTTGTGTATATGAGAAAATATCAATCTCTAAAGAATTTGGGAATGGTGCATAAGATTATT
TGGGGATGATGAGAAATGATTTGGGTATAAACTATATCATTCTGGGGATACTGAACTTTGCATTT
TGTTTAATTATGAGAGAGCGCTAAA
Found at i:51841 original size:11 final size:12
Alignment explanation
Indices: 51821--51880 Score: 50
Period size: 12 Copynumber: 4.7 Consensus size: 12
51811 AAAGGTGAAA
51821 TTAAGAAAAAAT
1 TTAAGAAAAAAT
51833 TTAAGAAAAAAT
1 TTAAGAAAAAAT
* *
51845 ATACAACGTATAAAAAC
1 -T-TAA-G-A-AAAAAT
51862 TTAAGAAAAAA-
1 TTAAGAAAAAAT
51873 TTAAGAAA
1 TTAAGAAA
51881 TTGGGGAAGA
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
11 8 0.20
12 17 0.43
13 2 0.05
14 3 0.08
15 3 0.08
16 2 0.05
17 5 0.12
ACGTcount: A:0.65, C:0.05, G:0.08, T:0.22
Consensus pattern (12 bp):
TTAAGAAAAAAT
Found at i:53902 original size:118 final size:119
Alignment explanation
Indices: 53693--53916 Score: 346
Period size: 118 Copynumber: 1.9 Consensus size: 119
53683 ACATGTCTAT
* * * *
53693 TTTTTGAATTATTTAAGTTTTAAATATTTCAATCTAGTCCCTAAGGGACACATGTCACCCTTCAG
1 TTTTTAAATTAATTAAGTTTTAAATATTTCAATCTAGTCCCTAAGAGACACATGTCACCCTTCAA
*
53758 GACCCGCTTGTGTAGTCTGCTAAACTCCAC-GGCCGGTGTATCATATATAAACCC
66 AACCCGCTTGTGTAGTCTGCTAAACTCCACTGG-CGGTGTATCATATATAAACCC
53812 TTTTTAAATTAATTAAGTTTTAAATATTTCAATCTAGT-CCT-AGAAGACACATGTCACCCTTCA
1 TTTTTAAATTAATTAAGTTTTAAATATTTCAATCTAGTCCCTAAG-AGACACATGTCACCCTTCA
* *
53875 AAATCCGCTTGTGTAGTCTGTTAAACTCCACTGGCGGTGTAT
65 AAACCCGCTTGTGTAGTCTGCTAAACTCCACTGGCGGTGTAT
53917 TGTATAATTT
Statistics
Matches: 96, Mismatches: 7, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
117 2 0.02
118 56 0.58
119 38 0.40
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.35
Consensus pattern (119 bp):
TTTTTAAATTAATTAAGTTTTAAATATTTCAATCTAGTCCCTAAGAGACACATGTCACCCTTCAA
AACCCGCTTGTGTAGTCTGCTAAACTCCACTGGCGGTGTATCATATATAAACCC
Found at i:54953 original size:18 final size:18
Alignment explanation
Indices: 54930--54966 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
54920 ACGTACGAGC
54930 ACCATAAAAATGACAAGT
1 ACCATAAAAATGACAAGT
54948 ACCATAAAAATGACAAGT
1 ACCATAAAAATGACAAGT
54966 A
1 A
54967 TCCTAACCGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.16, G:0.11, T:0.16
Consensus pattern (18 bp):
ACCATAAAAATGACAAGT
Found at i:60395 original size:1 final size:1
Alignment explanation
Indices: 60389--60426 Score: 76
Period size: 1 Copynumber: 38.0 Consensus size: 1
60379 CAGATTAAAG
60389 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
60427 CTACAAAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:66887 original size:250 final size:249
Alignment explanation
Indices: 66163--66911 Score: 1067
Period size: 250 Copynumber: 3.0 Consensus size: 249
66153 ACAAAACTTA
66163 AAGCAACTTTTCACCCTTACTGTTATCATCTGGCACCAGTATCGACTCTTTTGCATCCTCCCCCT
1 AAGCAACTTTTCACCCTTACTGTTATCATCTGGCACCAGTATCGACTCTTTTGCATCCTCCCCCT
* * *
66228 TTTCTGGACTACTTTCTCTGCTAACTGCAGAAACTTGCTATGATAAATACACTACGCTTTTAACT
66 TTTCTGGACTACTTTCTCTGCTAACTGCAGAAACTTACTATAATAAATACACTACACTTTTAACT
*
66293 AAAAAAGCAAGCAGGAAAAGAAGGGTGCAAATTTCATAAATAGCTG-CACAATCATAATGTTAAG
131 AAAAAAGCAAGCAGGAAAAGAAGGGTACAAATTTCATAAATAGCTGACACAATCATAATGTTAAG
** **** ** * * *
66357 CCAACAATTTATCATGGAGAAAA-AAAAAAAAAAAAAAAAAAGACAACAACAACAACAAC
196 CCAACAATTTATCATGGA-AAAATGTAACTTCATCACATAAA-A-AA-AATAA-AA-AAC
*
66416 AA-CAAC-TTT-AACCTTACTGTTATCATCTGGCACCACCAGTATCGACTCTTTTG-----T-CC
1 AAGCAACTTTTCACCCTTACTGTTATCATCTGG---CACCAGTATCGACTCTTTTGCATCCTCCC
66472 CCTTTTC-GGTACTACTTTCTCTGCTAACTGCAG-AACTTACTATAATAAATACACTACACTTTT
63 CCTTTTCTGG-ACTACTTTCTCTGCTAACTGCAGAAACTTACTATAATAAATACACTACACTTTT
66535 AACTAAAAAAGCAAGCAGGAAAAGAAGGGTACAAAAATTTCATAAATAGCTGCACACAATCATAA
127 AACTAAAAAAGCAAGCAGGAAAAGAAGGGTAC--AAATTTCATAAATAGCTG-ACACAATCATAA
*
66600 TGTTAAGCCAACAATTTATCATGGAAAAATGTAACTTCATCCCATAAAAAAAATAAAAAAC
189 TGTTAAGCCAACAATTTATCATGGAAAAATGTAACTTCATCACATAAAAAAAATAAAAAAC
*
66661 AAGCAACTTTTCACCCTTACTGTTATCATCTGGCACCAGTATCGATTCTTTTGCATCCTCCCCCT
1 AAGCAACTTTTCACCCTTACTGTTATCATCTGGCACCAGTATCGACTCTTTTGCATCCTCCCCCT
66726 TTTCTGGACTACTTTCTCTGCTAACTGCAGAAACTTACTATAATAAATACACTACACTTTTAACT
66 TTTCTGGACTACTTTCTCTGCTAACTGCAGAAACTTACTATAATAAATACACTACACTTTTAACT
* *
66791 AAAAAAGCAAGAAGGAAAAGAAGGGTACAAATTTCATAAATAGCTGAACTCAATCATAATGTTAA
131 AAAAAAGCAAGCAGGAAAAGAAGGGTACAAATTTCATAAATAGCTG-ACACAATCATAATGTTAA
* * *
66856 GCCAACAATATATCATGGAAAAATGTAACTTCATCACAT-ACAAAAATCAAAAAC
195 GCCAACAATTTATCATGGAAAAATGTAACTTCATCACATAAAAAAAATAAAAAAC
66910 AA
1 AA
66912 AACAACTAAC
Statistics
Matches: 450, Mismatches: 26, Indels: 44
0.87 0.05 0.08
Matches are distributed among these distances:
245 24 0.05
246 66 0.15
247 39 0.09
248 41 0.09
249 20 0.04
250 136 0.30
251 35 0.08
252 67 0.15
253 22 0.05
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.27
Consensus pattern (249 bp):
AAGCAACTTTTCACCCTTACTGTTATCATCTGGCACCAGTATCGACTCTTTTGCATCCTCCCCCT
TTTCTGGACTACTTTCTCTGCTAACTGCAGAAACTTACTATAATAAATACACTACACTTTTAACT
AAAAAAGCAAGCAGGAAAAGAAGGGTACAAATTTCATAAATAGCTGACACAATCATAATGTTAAG
CCAACAATTTATCATGGAAAAATGTAACTTCATCACATAAAAAAAATAAAAAAC
Found at i:73914 original size:33 final size:34
Alignment explanation
Indices: 73877--73950 Score: 107
Period size: 33 Copynumber: 2.2 Consensus size: 34
73867 CCGAGTCATT
73877 TGGCCGGTTG-TAGCCGGACATGTCCATGTCGCG
1 TGGCCGGTTGATAGCCGGACATGTCCATGTCGCG
* * *
73910 TGGCCAG-TGATGGCCGGATATGTCCATGTCGCG
1 TGGCCGGTTGATAGCCGGACATGTCCATGTCGCG
73943 TGGCCGGT
1 TGGCCGGT
73951 GTTGCGCGGC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
32 2 0.06
33 33 0.94
ACGTcount: A:0.12, C:0.26, G:0.38, T:0.24
Consensus pattern (34 bp):
TGGCCGGTTGATAGCCGGACATGTCCATGTCGCG
Found at i:75758 original size:30 final size:30
Alignment explanation
Indices: 75718--75780 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
75708 CATCTTCAAG
*
75718 TCCATTATAAGTCCTTGG-CGCATCATTCCC
1 TCCATGATAAG-CCTTGGTCGCATCATTCCC
75748 TCCATGATAAGCCTTGGTCGCATCATTCCC
1 TCCATGATAAGCCTTGGTCGCATCATTCCC
75778 TCC
1 TCC
75781 CCTTGAAGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 6 0.19
30 25 0.81
ACGTcount: A:0.19, C:0.35, G:0.14, T:0.32
Consensus pattern (30 bp):
TCCATGATAAGCCTTGGTCGCATCATTCCC
Found at i:77615 original size:20 final size:20
Alignment explanation
Indices: 77590--77627 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
77580 AAGAACCCTA
77590 GTACCACTTAAATCCAATTT
1 GTACCACTTAAATCCAATTT
*
77610 GTACCACTTGAATCCAAT
1 GTACCACTTAAATCCAAT
77628 AGGGTTCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.26, G:0.08, T:0.32
Consensus pattern (20 bp):
GTACCACTTAAATCCAATTT
Found at i:79056 original size:18 final size:19
Alignment explanation
Indices: 79022--79059 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
79012 GTCTATCGTT
*
79022 ATCTCCATGGTCTCCATGC
1 ATCTCCATGGCCTCCATGC
79041 ATCTCCAT-GCCTCCATGC
1 ATCTCCATGGCCTCCATGC
79059 A
1 A
79060 GCCCATGCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.18, C:0.39, G:0.13, T:0.29
Consensus pattern (19 bp):
ATCTCCATGGCCTCCATGC
Found at i:80899 original size:10 final size:9
Alignment explanation
Indices: 80884--80949 Score: 64
Period size: 10 Copynumber: 7.1 Consensus size: 9
80874 TCATAAATCT
80884 ACTAATTATA
1 ACTAATTA-A
80894 ACTAA-TAA
1 ACTAATTAA
80902 ACTAATTAAA
1 ACTAATT-AA
80912 ACTAA-TAA
1 ACTAATTAA
80920 ACTAATTAA
1 ACTAATTAA
*
80929 CAATAATTAA
1 -ACTAATTAA
*
80939 TCTTAATTAA
1 AC-TAATTAA
80949 A
1 A
80950 ATTCAAAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
8 13 0.28
9 7 0.15
10 27 0.57
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (9 bp):
ACTAATTAA
Found at i:80906 original size:8 final size:8
Alignment explanation
Indices: 80893--80934 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 8
80883 TACTAATTAT
80893 AACTAATA
1 AACTAATA
80901 AACTAATTAA
1 AACTAA-T-A
80911 AACTAATA
1 AACTAATA
*
80919 AACTAATT
1 AACTAATA
80927 AAC-AATA
1 AACTAATA
80934 A
1 A
80935 TTAATCTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
7 4 0.13
8 17 0.57
9 2 0.07
10 7 0.23
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.26
Consensus pattern (8 bp):
AACTAATA
Found at i:80907 original size:18 final size:18
Alignment explanation
Indices: 80884--80950 Score: 82
Period size: 18 Copynumber: 3.6 Consensus size: 18
80874 TCATAAATCT
*
80884 ACTAATTATAACTAATAA
1 ACTAATTAAAACTAATAA
80902 ACTAATTAAAACTAATAA
1 ACTAATTAAAACTAATAA
80920 ACTAATTAACAA-TAATTAA
1 ACTAATTAA-AACTAA-TAA
*
80939 TCTTAATTAAAA
1 AC-TAATTAAAA
80951 TTCAAAATTC
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
18 29 0.66
19 8 0.18
20 7 0.16
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (18 bp):
ACTAATTAAAACTAATAA
Found at i:80959 original size:7 final size:7
Alignment explanation
Indices: 80943--81009 Score: 64
Period size: 7 Copynumber: 9.6 Consensus size: 7
80933 AATTAATCTT
80943 AATT-AA
1 AATTCAA
80949 AATTCAA
1 AATTCAA
80956 AATTCAA
1 AATTCAA
*
80963 AATTTAA
1 AATTCAA
*
80970 ATTTCAA
1 AATTCAA
**
80977 AATAAAA
1 AATTCAA
*
80984 AATTTTAA
1 AA-TTCAA
*
80992 ATTTCAA
1 AATTCAA
80999 AATTCAA
1 AATTCAA
81006 AATT
1 AATT
81010 TAGATTAATC
Statistics
Matches: 48, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
6 4 0.08
7 40 0.83
8 4 0.08
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (7 bp):
AATTCAA
Found at i:80969 original size:21 final size:21
Alignment explanation
Indices: 80945--81011 Score: 98
Period size: 21 Copynumber: 3.1 Consensus size: 21
80935 TTAATCTTAA
*
80945 TTAAAATTCAAAATTCAAAAT
1 TTAAATTTCAAAATTCAAAAT
**
80966 TTAAATTTCAAAATAAAAAATT
1 TTAAATTTCAAAATTCAAAA-T
80988 TTAAATTTCAAAATTCAAAAT
1 TTAAATTTCAAAATTCAAAAT
81009 TTA
1 TTA
81012 GATTAATCAA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
21 21 0.52
22 19 0.47
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.37
Consensus pattern (21 bp):
TTAAATTTCAAAATTCAAAAT
Found at i:80993 original size:22 final size:22
Alignment explanation
Indices: 80945--81010 Score: 98
Period size: 22 Copynumber: 3.0 Consensus size: 22
80935 TTAATCTTAA
*
80945 TTAAAATTCAAAATTCAAAA-T
1 TTAAATTTCAAAATTCAAAATT
**
80966 TTAAATTTCAAAATAAAAAATT
1 TTAAATTTCAAAATTCAAAATT
80988 TTAAATTTCAAAATTCAAAATT
1 TTAAATTTCAAAATTCAAAATT
81010 T
1 T
81011 AGATTAATCA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
21 17 0.44
22 22 0.56
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.38
Consensus pattern (22 bp):
TTAAATTTCAAAATTCAAAATT
Found at i:81064 original size:18 final size:18
Alignment explanation
Indices: 81037--81091 Score: 60
Period size: 18 Copynumber: 3.0 Consensus size: 18
81027 ATTAATCATA
81037 AATT-AACTAATTAAAACT
1 AATTAAACTAATTAAAA-T
81055 AA-TAAACTAATTAACAAT
1 AATTAAACTAATTAA-AAT
*
81073 AATTAATCTTAATTAAAAT
1 AATTAAAC-TAATTAAAAT
81092 TAAGAATTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
17 1 0.03
18 15 0.47
19 9 0.28
20 7 0.22
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (18 bp):
AATTAAACTAATTAAAAT
Found at i:81275 original size:32 final size:32
Alignment explanation
Indices: 81209--81296 Score: 104
Period size: 32 Copynumber: 2.8 Consensus size: 32
81199 GCATGTCGTG
* * *
81209 GGGCGGCATGCCATGTCAAAGCCGCCCCCCTA
1 GGGCGGCATACCATGGCAAAGCCGCCCCACTA
* *
81241 GGGCGGCATACCATGGCACAGCCGCCCCAGTA
1 GGGCGGCATACCATGGCAAAGCCGCCCCACTA
* * *
81273 GGGTGGCATACCGTGGCATAGCCG
1 GGGCGGCATACCATGGCAAAGCCG
81297 TCCTCCTGGG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.19, C:0.35, G:0.33, T:0.12
Consensus pattern (32 bp):
GGGCGGCATACCATGGCAAAGCCGCCCCACTA
Found at i:82571 original size:16 final size:16
Alignment explanation
Indices: 82547--82577 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
82537 TCGGATTCAG
82547 GTTCGGGTTTTTTCGA
1 GTTCGGGTTTTTTCGA
*
82563 GTTCTGGTTTTTTCG
1 GTTCGGGTTTTTTCG
82578 GGTTTGAGAT
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:0.03, C:0.13, G:0.29, T:0.55
Consensus pattern (16 bp):
GTTCGGGTTTTTTCGA
Found at i:82590 original size:16 final size:16
Alignment explanation
Indices: 82571--82615 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
82561 GAGTTCTGGT
82571 TTTTTCGGGTTTGAGA
1 TTTTTCGGGTTTGAGA
*
82587 TTTTTCAGGTTTGAGA
1 TTTTTCGGGTTTGAGA
*
82603 TTTTTCGGATTTG
1 TTTTTCGGGTTTG
82616 GGGTTTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.13, C:0.07, G:0.27, T:0.53
Consensus pattern (16 bp):
TTTTTCGGGTTTGAGA
Found at i:85637 original size:4 final size:4
Alignment explanation
Indices: 85628--85658 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
85618 AATATTGTGT
85628 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
85659 TACATATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:88892 original size:21 final size:22
Alignment explanation
Indices: 88868--88910 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
88858 CCACTTTTAA
88868 TTTAGATTAGCTA-ATT-CATTT
1 TTTAG-TTAGCTAGATTGCATTT
*
88889 TTTAGTTATCTAGATTGCATTT
1 TTTAGTTAGCTAGATTGCATTT
88911 AAAAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 6 0.32
21 8 0.42
22 5 0.26
ACGTcount: A:0.26, C:0.09, G:0.12, T:0.53
Consensus pattern (22 bp):
TTTAGTTAGCTAGATTGCATTT
Found at i:92270 original size:13 final size:14
Alignment explanation
Indices: 92252--92281 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
92242 AATAATCGGA
92252 ATTTGCATTCAT-C
1 ATTTGCATTCATGC
92265 ATTTGCATTCATGC
1 ATTTGCATTCATGC
92279 ATT
1 ATT
92282 GAGTAGAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.23, C:0.20, G:0.10, T:0.47
Consensus pattern (14 bp):
ATTTGCATTCATGC
Found at i:92535 original size:41 final size:39
Alignment explanation
Indices: 92478--92582 Score: 151
Period size: 41 Copynumber: 2.7 Consensus size: 39
92468 TTTCTATTTA
*
92478 AGCAATTCCAAGAGAAGACTTTTGGAAAATAAATGTCCTTT
1 AGCAAATCCAAGAGAAGACTTTTGGAAAATAAATGT--TTT
*
92519 AGCAAATCCAAAAGAAGACTTTTGG-AAATAAATGTTTT
1 AGCAAATCCAAGAGAAGACTTTTGGAAAATAAATGTTTT
*
92557 A-AAAATCCAAGAGAAGACTTTTGGAA
1 AGCAAATCCAAGAGAAGACTTTTGGAA
92583 GTTAATAAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
37 21 0.36
38 5 0.08
40 10 0.17
41 23 0.39
ACGTcount: A:0.44, C:0.12, G:0.17, T:0.27
Consensus pattern (39 bp):
AGCAAATCCAAGAGAAGACTTTTGGAAAATAAATGTTTT
Found at i:92572 original size:37 final size:39
Alignment explanation
Indices: 92484--92582 Score: 148
Period size: 37 Copynumber: 2.5 Consensus size: 39
92474 TTTAAGCAAT
*
92484 TCCAAGAGAAGACTTTTGGAAAATAAATGTCCTTTAGCAAA
1 TCCAAGAGAAGACTTTTGG-AAATAAATGT-CTTTAGAAAA
*
92525 TCCAAAAGAAGACTTTTGGAAATAAATGT-TTTA-AAAA
1 TCCAAGAGAAGACTTTTGGAAATAAATGTCTTTAGAAAA
92562 TCCAAGAGAAGACTTTTGGAA
1 TCCAAGAGAAGACTTTTGGAA
92583 GTTAATAAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
37 23 0.42
38 4 0.07
40 10 0.18
41 18 0.33
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.27
Consensus pattern (39 bp):
TCCAAGAGAAGACTTTTGGAAATAAATGTCTTTAGAAAA
Found at i:102106 original size:33 final size:32
Alignment explanation
Indices: 102064--102143 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 32
102054 ACAAAGGATC
102064 GTGTGGCCGGGCATGGCCAAGTCAAGTGGCCGG
1 GTGTGGCCGGGCATGGCCAAGTCAAGTGGCC-G
* **
102097 GTGTGGCCGGGCATGGCCATGTCGCGTGGCCG
1 GTGTGGCCGGGCATGGCCAAGTCAAGTGGCCG
*
102129 GTGATGACCGGGCAT
1 GTG-TGGCCGGGCAT
102144 CTCCATGTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
32 4 0.10
33 38 0.90
ACGTcount: A:0.12, C:0.25, G:0.45, T:0.17
Consensus pattern (32 bp):
GTGTGGCCGGGCATGGCCAAGTCAAGTGGCCG
Found at i:102150 original size:33 final size:31
Alignment explanation
Indices: 102090--102196 Score: 97
Period size: 33 Copynumber: 3.3 Consensus size: 31
102080 CCAAGTCAAG
** *
102090 TGGCCGGGTGTGGCCGGGCATGGCCATGTCGCG
1 TGGCC-GGTGT-GCCGGGCATCTCCATGTCGCA
*
102123 TGGCCGGTGATGACCGGGCATCTCCATGTTGCA
1 TGGCCGGTG-TG-CCGGGCATCTCCATGTCGCA
* *
102156 TGGCCGGTGTTGCGTGGGCATCTCCAAGTCGCA
1 TGGCCGGTG-TGC-CGGGCATCTCCATGTCGCA
*
102189 TGGTCGGT
1 TGGCCGGT
102197 CACTTGTGCT
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
32 6 0.10
33 56 0.90
ACGTcount: A:0.10, C:0.26, G:0.40, T:0.23
Consensus pattern (31 bp):
TGGCCGGTGTGCCGGGCATCTCCATGTCGCA
Done.