Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000773.1 Hibiscus syriacus cultivar Beakdansim tig00001501_pilon, 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: 123021
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Found at i:2522 original size:19 final size:19
Alignment explanation
Indices: 2500--2537 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
2490 TATTTAGTTG
2500 CCTAAATTATAGCCTAATT
1 CCTAAATTATAGCCTAATT
2519 CCTAAATTATAGCCTAATT
1 CCTAAATTATAGCCTAATT
2538 GTTAGGATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.21, G:0.05, T:0.37
Consensus pattern (19 bp):
CCTAAATTATAGCCTAATT
Found at i:3308 original size:20 final size:20
Alignment explanation
Indices: 3283--3339 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
3273 ACTACAGAGC
3283 ATGAATACTCAACAAGGAAT
1 ATGAATACTCAACAAGGAAT
* * *
3303 ATGAATACTCAATTAGGGAGT
1 ATGAATACTCAA-CAAGGAAT
*
3324 ATGGATACTCAACAAG
1 ATGAATACTCAACAAG
3340 CAGTACAAGT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.44, C:0.14, G:0.19, T:0.23
Consensus pattern (20 bp):
ATGAATACTCAACAAGGAAT
Found at i:6146 original size:12 final size:12
Alignment explanation
Indices: 6129--6154 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6119 CACCTTCAAA
6129 AATAAATAAATG
1 AATAAATAAATG
6141 AATAAATAAATG
1 AATAAATAAATG
6153 AA
1 AA
6155 CACAATATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (12 bp):
AATAAATAAATG
Found at i:8881 original size:59 final size:59
Alignment explanation
Indices: 8776--8904 Score: 151
Period size: 59 Copynumber: 2.2 Consensus size: 59
8766 ATGTGACAAT
*
8776 TTTGTA-ACTTTTAATAGTCAGGGACTCAACAAAGTAGCACTATATAGTT-AGAGGATCA
1 TTTGTATACTTTTAATAGTCAGGGACTCAACAAAGTAGCACTATATAGTTGA-AGGACCA
** *
8834 TTT-TATTACTTTTAATAGTTGGGGGCTCAACAAAGTAGTGC-CT-TATAGTTGAAGGACCA
1 TTTGTA-TACTTTTAATAGTCAGGGACTCAACAAAGTA--GCACTATATAGTTGAAGGACCA
8893 TTTGTATACTTT
1 TTTGTATACTTT
8905 ACCGTTTTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 11
0.80 0.05 0.14
Matches are distributed among these distances:
57 2 0.03
58 3 0.05
59 49 0.80
60 5 0.08
61 2 0.03
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.36
Consensus pattern (59 bp):
TTTGTATACTTTTAATAGTCAGGGACTCAACAAAGTAGCACTATATAGTTGAAGGACCA
Found at i:10038 original size:25 final size:25
Alignment explanation
Indices: 10010--10064 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
10000 TGAGAATATT
10010 TCGAGTTCCAATTTTTGAGCTCGAG
1 TCGAGTTCCAATTTTTGAGCTCGAG
* * * **
10035 TCGAATTTCAATTTTTTATTTCGAG
1 TCGAGTTCCAATTTTTGAGCTCGAG
10060 TCGAG
1 TCGAG
10065 CTTGAAAATT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.42
Consensus pattern (25 bp):
TCGAGTTCCAATTTTTGAGCTCGAG
Found at i:13266 original size:30 final size:29
Alignment explanation
Indices: 13230--13289 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 29
13220 ATTAATATTA
*
13230 TGCATCGATACGCTACAGTAACTGCTACAG
1 TGCATCGATACACTACAGTAA-TGCTACAG
13260 TGCATCGATACACTACAGTAATGCTACAG
1 TGCATCGATACACTACAGTAATGCTACAG
13289 T
1 T
13290 AATTTAAGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 9 0.31
30 20 0.69
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (29 bp):
TGCATCGATACACTACAGTAATGCTACAG
Found at i:13725 original size:47 final size:45
Alignment explanation
Indices: 13655--13780 Score: 164
Period size: 47 Copynumber: 2.8 Consensus size: 45
13645 TATAAAATCT
*
13655 CTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* *
13700 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTTCCAATATA
1 CTTACCATTT--ATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * * *
13747 CTTGCCA-TTATTCCGTAAACTCATAAGCTTATTT
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
13781 GCATGGTTAC
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
44 22 0.31
45 10 0.14
46 2 0.03
47 38 0.53
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
Found at i:15282 original size:30 final size:30
Alignment explanation
Indices: 15225--15288 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 30
15215 TCTTCATCAA
* * *
15225 TTTTCCAAAATTTACGAATTTATCCCAAAC
1 TTTTCCAAAACTTACGAAATGATCCCAAAC
* *
15255 TTTT-CAAAACTTACGAAATGATCCCCAAT
1 TTTTCCAAAACTTACGAAATGATCCCAAAC
15284 TTTTC
1 TTTTC
15289 TAAGGCTTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
29 24 0.86
30 4 0.14
ACGTcount: A:0.34, C:0.23, G:0.05, T:0.38
Consensus pattern (30 bp):
TTTTCCAAAACTTACGAAATGATCCCAAAC
Found at i:17905 original size:6 final size:6
Alignment explanation
Indices: 17889--17984 Score: 67
Period size: 6 Copynumber: 16.3 Consensus size: 6
17879 TTCTAATATT
* * * *
17889 TTTTCTC TTTTTC -TTTTC TTTCTC ATTTTC -ATTT- TTTTTC TTATTC
1 TTTT-TC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
* * *
17935 GTTTTC ATTTTC TTTTTC TATTTT- TTTTTC TTCTTC TGTTTT- TTTTTC
1 TTTTTC TTTTTC TTTTTC T-TTTTC TTTTTC TTTTTC T-TTTTC TTTTTC
17983 TT
1 TT
17985 ATAATATATA
Statistics
Matches: 70, Mismatches: 12, Indels: 15
0.72 0.12 0.15
Matches are distributed among these distances:
5 19 0.27
6 40 0.57
7 11 0.16
ACGTcount: A:0.05, C:0.17, G:0.02, T:0.76
Consensus pattern (6 bp):
TTTTTC
Found at i:17923 original size:18 final size:17
Alignment explanation
Indices: 17890--17929 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
17880 TCTAATATTT
*
17890 TTTCTCTTTTTCTTTTC
1 TTTCTCATTTTCTTTTC
*
17907 TTTCTCATTTTCATTTTT
1 TTTCTCATTTTC-TTTTC
17925 TTTCT
1 TTTCT
17930 TATTCGTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTCTCATTTTCTTTTC
Found at i:17930 original size:22 final size:23
Alignment explanation
Indices: 17897--17950 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
17887 TTTTTTCTCT
17897 TTTTCTTTTCTT-TCTCATTTTCA
1 TTTTCTTTTCTTAT-TCATTTTCA
*
17920 TTTT-TTTTCTTATTCGTTTTCA
1 TTTTCTTTTCTTATTCATTTTCA
17942 TTTTCTTTT
1 TTTTCTTTT
17951 TCTATTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 19 0.68
23 9 0.32
ACGTcount: A:0.07, C:0.17, G:0.02, T:0.74
Consensus pattern (23 bp):
TTTTCTTTTCTTATTCATTTTCA
Found at i:17963 original size:18 final size:18
Alignment explanation
Indices: 17868--17984 Score: 82
Period size: 18 Copynumber: 6.6 Consensus size: 18
17858 AAGTGAAATA
*
17868 TTTTTTTT-TATTTCTAAT
1 TTTTTTTTCTTTTTCT-AT
*
17886 ATTTTTTCTCTTTTTCT-T
1 -TTTTTTTTCTTTTTCTAT
* * *
17904 TTCTTTCTCATTTTC-A-
1 TTTTTTTTCTTTTTCTAT
*
17920 TTTTTTTTCTTATTCGT-T
1 TTTTTTTTCTTTTTC-TAT
**
17938 TTCATTTTCTTTTTCTAT
1 TTTTTTTTCTTTTTCTAT
* *
17956 TTTTTTTTCTTCTTCTGT
1 TTTTTTTTCTTTTTCTAT
17974 TTTTTTTTCTT
1 TTTTTTTTCTT
17985 ATAATATATA
Statistics
Matches: 77, Mismatches: 15, Indels: 13
0.73 0.14 0.12
Matches are distributed among these distances:
16 11 0.14
17 14 0.18
18 39 0.51
19 7 0.09
20 6 0.08
ACGTcount: A:0.08, C:0.15, G:0.02, T:0.76
Consensus pattern (18 bp):
TTTTTTTTCTTTTTCTAT
Found at i:20405 original size:30 final size:30
Alignment explanation
Indices: 20369--20429 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
20359 ATTAATATTA
**
20369 TGCATCGATACACTACAGTAATTGCTACAG
1 TGCATCGATACACTACAGTAACCGCTACAG
*
20399 TGCATCGATACGCTACAGTAACCGCTACAG
1 TGCATCGATACACTACAGTAACCGCTACAG
20429 T
1 T
20430 AACTGCTACA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (30 bp):
TGCATCGATACACTACAGTAACCGCTACAG
Found at i:20426 original size:12 final size:12
Alignment explanation
Indices: 20409--20443 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
20399 TGCATCGATA
20409 CGCTACAGTAAC
1 CGCTACAGTAAC
20421 CGCTACAGTAAC
1 CGCTACAGTAAC
*
20433 TGCTACAGTAA
1 CGCTACAGTAA
20444 TTTAAGCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (12 bp):
CGCTACAGTAAC
Found at i:20877 original size:47 final size:45
Alignment explanation
Indices: 20807--20932 Score: 146
Period size: 47 Copynumber: 2.8 Consensus size: 45
20797 TATAAAATCT
*
20807 CTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * * *
20852 CTTACCATTTAAATTCCATAAGCTCGTAATCTTATTTTTCTAATATA
1 CTTACCATTT--ATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * * *
20899 CTTGCTA-TTATTCCGTAAGCTCATAAGCTTATTT
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
20933 GCATGGTTAC
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
44 22 0.32
45 10 0.14
46 2 0.03
47 35 0.51
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.41
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
Found at i:22428 original size:29 final size:29
Alignment explanation
Indices: 22376--22438 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
22366 CTTCATCAAT
* * *
22376 TTTTCAAAATTTACGAATTTATCCCAAAC
1 TTTTCAAAACTTACGAAATGATCCCAAAC
* *
22405 TTTTCAAAACTTACGAAATGATCCCCAAT
1 TTTTCAAAACTTACGAAATGATCCCAAAC
22434 TTTTC
1 TTTTC
22439 TAAGGCTGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.35, C:0.22, G:0.05, T:0.38
Consensus pattern (29 bp):
TTTTCAAAACTTACGAAATGATCCCAAAC
Found at i:24516 original size:20 final size:20
Alignment explanation
Indices: 24493--24561 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
24483 GAACTCCAAT
24493 TTCGCAACATAGTTTTCAAA
1 TTCGCAACATAGTTTTCAAA
** * *
24513 TTCGCAACGCAATTTCCAAA
1 TTCGCAACATAGTTTTCAAA
* *
24533 TTCGCAACATTGAATTTCAAA
1 TTCGCAACATAG-TTTTCAAA
*
24554 TTCACAAC
1 TTCGCAAC
24562 TCGATTTTTG
Statistics
Matches: 37, Mismatches: 11, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
20 24 0.65
21 13 0.35
ACGTcount: A:0.36, C:0.25, G:0.09, T:0.30
Consensus pattern (20 bp):
TTCGCAACATAGTTTTCAAA
Found at i:24531 original size:40 final size:41
Alignment explanation
Indices: 24469--24561 Score: 109
Period size: 40 Copynumber: 2.3 Consensus size: 41
24459 AAATGACCAA
* *
24469 CAAATTCGCAACACGAACTCCAATTTCGCAACATAG-TTTT
1 CAAATTCGCAACACGAACTCCAAATTCGCAACATAGAATTT
* * *
24509 CAAATTCGCAACGC-AATTTCCAAATTCGCAACATTGAATTT
1 CAAATTCGCAACACGAA-CTCCAAATTCGCAACATAGAATTT
*
24550 CAAATTCACAAC
1 CAAATTCGCAAC
24562 TCGATTTTTG
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
39 2 0.04
40 29 0.64
41 14 0.31
ACGTcount: A:0.38, C:0.27, G:0.09, T:0.27
Consensus pattern (41 bp):
CAAATTCGCAACACGAACTCCAAATTCGCAACATAGAATTT
Found at i:24581 original size:20 final size:20
Alignment explanation
Indices: 24531--24639 Score: 103
Period size: 20 Copynumber: 5.4 Consensus size: 20
24521 GCAATTTCCA
* **
24531 AATTCGCAACATTGAATTTCA
1 AATTCGCAAC-TCGAATTTTG
* *
24552 AATTCACAACTCGATTTTTG
1 AATTCGCAACTCGAATTTTG
*
24572 AATTCGCAACGCGAATTTTG
1 AATTCGCAACTCGAATTTTG
** *
24592 TTTTCGCAACTCGATTTTTG
1 AATTCGCAACTCGAATTTTG
*
24612 AATTCGCAACACGAATTTT-
1 AATTCGCAACTCGAATTTTG
24631 AATTTCGCA
1 AA-TTCGCA
24640 TCAGGTTTTA
Statistics
Matches: 71, Mismatches: 16, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
19 2 0.03
20 60 0.85
21 9 0.13
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (20 bp):
AATTCGCAACTCGAATTTTG
Found at i:24602 original size:40 final size:40
Alignment explanation
Indices: 24531--24639 Score: 146
Period size: 40 Copynumber: 2.7 Consensus size: 40
24521 GCAATTTCCA
* * * *
24531 AATTCGCAACATTGAATTTCAAATTCACAACTCGATTTTTG
1 AATTCGCAACA-CGAATTTTAATTTCGCAACTCGATTTTTG
* **
24572 AATTCGCAACGCGAATTTTGTTTTCGCAACTCGATTTTTG
1 AATTCGCAACACGAATTTTAATTTCGCAACTCGATTTTTG
24612 AATTCGCAACACGAATTTTAATTTCGCA
1 AATTCGCAACACGAATTTTAATTTCGCA
24640 TCAGGTTTTA
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
40 48 0.83
41 10 0.17
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (40 bp):
AATTCGCAACACGAATTTTAATTTCGCAACTCGATTTTTG
Found at i:25451 original size:12 final size:12
Alignment explanation
Indices: 25430--25463 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
25420 ACCATATTTC
*
25430 CAATACCAAACA
1 CAATATCAAACA
25442 CAATATCAAACA
1 CAATATCAAACA
*
25454 CAATCTCAAA
1 CAATATCAAA
25464 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:25640 original size:24 final size:24
Alignment explanation
Indices: 25589--25642 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
25579 GTATTCGAAA
*
25589 TTTGATCTTGGTCAATACCCGTAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
25613 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
25637 TTTGAT
1 TTTGAT
25643 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:29664 original size:21 final size:20
Alignment explanation
Indices: 29635--29729 Score: 84
Period size: 21 Copynumber: 4.6 Consensus size: 20
29625 CATGTGAATC
29635 GGGCC-CTTGAACTGTGGGAG
1 GGGCCTCTTGAAC-GTGGGAG
* ** *
29655 GGACCTCTTGAACGATGACAA
1 GGGCCTCTTGAACG-TGGGAG
*
29676 GGGCCTATTGAACGGTGGGAG
1 GGGCCTCTTGAAC-GTGGGAG
* *
29697 GGGCCTCTTGAACAATAGGAG
1 GGGCCTCTTGAAC-GTGGGAG
29718 GGGCCTCTTGAA
1 GGGCCTCTTGAA
29730 TGATGACTGG
Statistics
Matches: 59, Mismatches: 13, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
20 5 0.08
21 53 0.90
22 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.37, T:0.20
Consensus pattern (20 bp):
GGGCCTCTTGAACGTGGGAG
Found at i:29729 original size:42 final size:42
Alignment explanation
Indices: 29635--29729 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 42
29625 CATGTGAATC
* *
29635 GGGCC-CTTGAACTGTGGGAGGGACCTCTTGAACGATGACAA
1 GGGCCTCTTGAACGGTGGGAGGGACCTCTTGAACAATGACAA
* * * *
29676 GGGCCTATTGAACGGTGGGAGGGGCCTCTTGAACAAT-AGGAG
1 GGGCCTCTTGAACGGTGGGAGGGACCTCTTGAACAATGA-CAA
29718 GGGCCTCTTGAA
1 GGGCCTCTTGAA
29730 TGATGACTGG
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
41 6 0.13
42 39 0.87
ACGTcount: A:0.23, C:0.20, G:0.37, T:0.20
Consensus pattern (42 bp):
GGGCCTCTTGAACGGTGGGAGGGACCTCTTGAACAATGACAA
Found at i:30109 original size:21 final size:21
Alignment explanation
Indices: 30085--30128 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
30075 ATTGTCATCG
30085 CGTAAA-ACATCTACCTCACCA
1 CGTAAAGAC-TCTACCTCACCA
* *
30106 CGTAAAGACTGTACCTCATCA
1 CGTAAAGACTCTACCTCACCA
30127 CG
1 CG
30129 CCATGCACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.34, C:0.34, G:0.11, T:0.20
Consensus pattern (21 bp):
CGTAAAGACTCTACCTCACCA
Found at i:30362 original size:42 final size:42
Alignment explanation
Indices: 30287--30385 Score: 153
Period size: 42 Copynumber: 2.4 Consensus size: 42
30277 GTGATGGAAT
* * * *
30287 AGGTGATGGCTCTCGTTGTGGAGGTGTATAATCGGCTCGATC
1 AGGTGATGGCTCTCGGTGTCGAGCTGTAGAATCGGCTCGATC
*
30329 AGGTGATGGCTCTGGGTGTCGAGCTGTAGAATCGGCTCGATC
1 AGGTGATGGCTCTCGGTGTCGAGCTGTAGAATCGGCTCGATC
30371 AGGTGATGGCTCTCG
1 AGGTGATGGCTCTCG
30386 AAGTGGGGGG
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.16, C:0.18, G:0.37, T:0.28
Consensus pattern (42 bp):
AGGTGATGGCTCTCGGTGTCGAGCTGTAGAATCGGCTCGATC
Found at i:31793 original size:20 final size:20
Alignment explanation
Indices: 31768--31806 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
31758 TCGCGTTGCG
*
31768 ATTTTCGTGTTGCGAATTTC
1 ATTTTCGTGTTGCAAATTTC
31788 ATTTTCGTGTTGCAAATTT
1 ATTTTCGTGTTGCAAATTT
31807 AAGTTTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.13, G:0.18, T:0.51
Consensus pattern (20 bp):
ATTTTCGTGTTGCAAATTTC
Found at i:31813 original size:20 final size:20
Alignment explanation
Indices: 31770--31813 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
31760 GCGTTGCGAT
* * *
31770 TTTCGTGTTGCGAATTTCAT
1 TTTCGTGTTGCAAATTTAAG
31790 TTTCGTGTTGCAAATTTAAG
1 TTTCGTGTTGCAAATTTAAG
31810 TTTC
1 TTTC
31814 AAAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.18, C:0.14, G:0.18, T:0.50
Consensus pattern (20 bp):
TTTCGTGTTGCAAATTTAAG
Found at i:32174 original size:22 final size:22
Alignment explanation
Indices: 32147--32204 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
32137 GATGGAGATA
32147 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
32169 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
32191 GACGGATGTCGCCG
1 GACGGATTTCGCCG
32205 TAGAGAGTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.17, C:0.19, G:0.45, T:0.19
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:32330 original size:19 final size:20
Alignment explanation
Indices: 32308--32345 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
32298 AATATTGTGT
32308 TTCGAATT-CGAAAATAAAA
1 TTCGAATTGCGAAAATAAAA
**
32327 TTCGCGTTGCGAAAATAAA
1 TTCGAATTGCGAAAATAAA
32346 CACGCTTTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (20 bp):
TTCGAATTGCGAAAATAAAA
Found at i:33421 original size:2 final size:2
Alignment explanation
Indices: 33416--33454 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
33406 TTATAATAAT
33416 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
33455 TTAAGACTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:36488 original size:3 final size:3
Alignment explanation
Indices: 36475--36505 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
36465 TTATCGTATA
36475 ATT ATTT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT
36506 GTTAATAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:37722 original size:15 final size:14
Alignment explanation
Indices: 37704--37737 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
37694 TAATTTTGTA
37704 TATTTTTATTTATTT
1 TATTTTTATTT-TTT
*
37719 TATTATTATTTTTT
1 TATTTTTATTTTTT
37733 TATTT
1 TATTT
37738 CGTTTTCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TATTTTTATTTTTT
Found at i:39929 original size:21 final size:21
Alignment explanation
Indices: 39905--39948 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
39895 CATGACATCT
*
39905 ATAACAACAAACTTTAATTCC
1 ATAACAACAAACTTTAAATCC
*
39926 ATAACAACCAACTTTAAATCC
1 ATAACAACAAACTTTAAATCC
39947 AT
1 AT
39949 TATAATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (21 bp):
ATAACAACAAACTTTAAATCC
Found at i:41843 original size:41 final size:41
Alignment explanation
Indices: 41798--41925 Score: 120
Period size: 41 Copynumber: 3.1 Consensus size: 41
41788 ATGTTTGTAT
41798 AAAAACGCCGCTAAAGTAGTATTCCTTTACAGCGTTTATTG
1 AAAAACGCCGCTAAAGTAGTATTCCTTTACAGCGTTTATTG
* * * * ** * *
41839 AAAAAACGTCACTTAGGT--TAACCCTATTAC-GATGTTTGTAT-
1 -AAAAACGCCGCTAAAGTAGTATTCCT-TTACAG-CGTTTAT-TG
41880 AAAAACGCCGCTAAAGTAGTATTCCTTTACAGCGTTTATTG
1 AAAAACGCCGCTAAAGTAGTATTCCTTTACAGCGTTTATTG
41921 AAAAA
1 AAAAA
41926 ACGTCACTTA
Statistics
Matches: 63, Mismatches: 16, Indels: 15
0.67 0.17 0.16
Matches are distributed among these distances:
40 20 0.32
41 23 0.37
42 20 0.32
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (41 bp):
AAAAACGCCGCTAAAGTAGTATTCCTTTACAGCGTTTATTG
Found at i:41844 original size:42 final size:42
Alignment explanation
Indices: 41798--41928 Score: 128
Period size: 42 Copynumber: 3.2 Consensus size: 42
41788 ATGTTTGTAT
41798 AAAAACGCCGCTAAAGTAGTATTCCTTTACAGCGTTTATTGA
1 AAAAACGCCGCTAAAGTAGTATTCCTTTACAGCGTTTATTGA
* * * * ** * *
41840 AAAAACGTCACTTAGGT--TAACCCTATTAC-G-ATGT-TTGTA
1 AAAAACGCCGCTAAAGTAGTATTCCT-TTACAGCGTTTATTG-A
41879 TAAAAACGCCGCTAAAGTAGTATTCCTTTACAGCGTTTATTGA
1 -AAAAACGCCGCTAAAGTAGTATTCCTTTACAGCGTTTATTGA
41922 AAAAACG
1 AAAAACG
41929 TCACTTAGGT
Statistics
Matches: 65, Mismatches: 16, Indels: 16
0.67 0.16 0.16
Matches are distributed among these distances:
38 3 0.05
39 3 0.05
40 19 0.29
41 8 0.12
42 26 0.40
43 3 0.05
44 3 0.05
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGTAGTATTCCTTTACAGCGTTTATTGA
Found at i:41871 original size:82 final size:84
Alignment explanation
Indices: 41756--42117 Score: 389
Period size: 82 Copynumber: 4.4 Consensus size: 84
41746 TTGTGAGAAA
* *
41756 AAAAAATGCCACTATAGGTGAACCCTATTAC-GATGTTTGTATAAAAACGCCGCTAAAGTAGTAT
1 AAAAAACGTCACTATAGGTGAACCCTATTACGGATGTTTGTATAAAAACGCCGCTAAAGTAGTAT
41820 TCCTTTACAGCGTTTATTG
66 TCCTTTACAGCGTTTATTG
*
41839 AAAAAACGTCACT-TAGGTTAACCCTATTAC-GATGTTTGTATAAAAACGCCGCTAAAGTAGTAT
1 AAAAAACGTCACTATAGGTGAACCCTATTACGGATGTTTGTATAAAAACGCCGCTAAAGTAGTAT
41902 TCCTTTACAGCGTTTATTG
66 TCCTTTACAGCGTTTATTG
* * * * * * *
41921 AAAAAACGTCACT-TAGGTTAACCATATCACTG-CGTTTGTATAAATACGCCGCTAAAGTAGTAC
1 AAAAAACGTCACTATAGGTGAACCCTATTACGGATGTTTGTATAAAAACGCCGCTAAAGTAGTAT
* * * *
41984 TCTTTTACGGCATTTGTTG
66 TCCTTTACAGCGTTTATTG
* * * * ** *
42003 AAAAAACGACACTATAGATGGA-CCTATTGCGGA-GTTTGTATAAAAAACGCCGCTAAAAAACTA
1 AAAAAACGTCACTATAGGTGAACCCTATTACGGATGTTTGTAT-AAAAACGCCGCTAAAGTAGTA
* * * *
42066 TTCCCTTACGGTGTTTGTTG
65 TTCCTTTACAGCGTTTATTG
* ** * *
42086 AAAAAGCAACACTATAGATGGA-CCTATTACGG
1 AAAAAACGTCACTATAGGTGAACCCTATTACGG
42118 CGTTTATCAA
Statistics
Matches: 243, Mismatches: 32, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
82 165 0.68
83 78 0.32
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (84 bp):
AAAAAACGTCACTATAGGTGAACCCTATTACGGATGTTTGTATAAAAACGCCGCTAAAGTAGTAT
TCCTTTACAGCGTTTATTG
Found at i:42140 original size:41 final size:42
Alignment explanation
Indices: 42095--42173 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
42085 GAAAAAGCAA
*
42095 CACTATAGATGGA-CCTATTACGGCGTTTATCAACAAAACGC
1 CACTATAGATGAACCCTATTACGGCGTTTATCAACAAAACGC
* * *
42136 CACTATAGATTAACCCTATTACGGCGTTTCTCCACAAA
1 CACTATAGATGAACCCTATTACGGCGTTTATCAACAAA
42174 TGCCGCTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
41 11 0.33
42 22 0.67
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.27
Consensus pattern (42 bp):
CACTATAGATGAACCCTATTACGGCGTTTATCAACAAAACGC
Found at i:42159 original size:83 final size:83
Alignment explanation
Indices: 41988--42140 Score: 202
Period size: 83 Copynumber: 1.8 Consensus size: 83
41978 TAGTACTCTT
* * *
41988 TTACGGCATTTGTTGAAAAAACGACACTATAGATGGACCTATTGCGGAGTTTGTATAAAAAACGC
1 TTACGGCGTTTGTTGAAAAAACAACACTATAGATGGACCTATTACGGAGTTTGTATAAAAAACGC
* *
42053 CGCTAAAAAACTATTCCC
66 CACTAAAAAACTATACCC
* * *
42071 TTACGGTGTTTGTTGAAAAAGCAACACTATAGATGGACCTATTACGGCG-TT-TATCAACAAAAC
1 TTACGGCGTTTGTTGAAAAAACAACACTATAGATGGACCTATTACGGAGTTTGTAT-AA-AAAAC
42134 GCCACTA
64 GCCACTA
42141 TAGATTAACC
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
81 3 0.05
82 4 0.07
83 54 0.89
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (83 bp):
TTACGGCGTTTGTTGAAAAAACAACACTATAGATGGACCTATTACGGAGTTTGTATAAAAAACGC
CACTAAAAAACTATACCC
Found at i:42838 original size:38 final size:37
Alignment explanation
Indices: 42796--42958 Score: 151
Period size: 37 Copynumber: 4.5 Consensus size: 37
42786 GATAATGTTC
*
42796 TATTATTTA-AATATTTATATTTAATTAAAATATCAATA
1 TATTATTTATAA-ATTTATATTTGATTAAAATAT-AATA
* * * *
42834 TATTA-TTACAAATTTATATGTGATTGAAATAGAAATA
1 TATTATTTATAAATTTATATTTGATTAAAATA-TAATA
*
42871 TATTATTTATAAATTTATATATGATT--AA-A-AATA
1 TATTATTTATAAATTTATATTTGATTAAAATATAATA
* * *
42904 TATTATCTATGAATTTATATTTTATTAAAATATGAATA
1 TATTATTTATAAATTTATATTTGATTAAAATAT-AATA
*
42942 TATTA-TTACAAATTTAT
1 TATTATTTATAAATTTAT
42959 GTTCGATTGG
Statistics
Matches: 104, Mismatches: 13, Indels: 17
0.78 0.10 0.13
Matches are distributed among these distances:
33 26 0.25
35 3 0.03
36 3 0.03
37 38 0.37
38 34 0.33
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.48
Consensus pattern (37 bp):
TATTATTTATAAATTTATATTTGATTAAAATATAATA
Found at i:42841 original size:19 final size:19
Alignment explanation
Indices: 42796--42846 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 19
42786 GATAATGTTC
* **
42796 TATTATTTAAATATTTATA
1 TATTATTAAAATATCAATA
42815 T-TTAATTAAAATATCAATA
1 TATT-ATTAAAATATCAATA
42834 TATTATTACAAAT
1 TATTATTA-AAAT
42847 TTATATGTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 2 0.08
19 18 0.69
20 6 0.23
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (19 bp):
TATTATTAAAATATCAATA
Found at i:42890 original size:19 final size:17
Alignment explanation
Indices: 42868--42958 Score: 62
Period size: 19 Copynumber: 5.1 Consensus size: 17
42858 TGAAATAGAA
42868 ATATATTATTTATAAATTT
1 ATATATTA-TTA-AAATTT
*
42887 ATATATGATTAAAA---
1 ATATATTATTAAAATTT
*
42901 ATATATTATCTATGAATTT
1 ATATATTAT-TA-AAATTT
* *
42920 ATATTTTATTAAAATATGA
1 ATATATTATTAAAAT-T-T
42939 ATATATTATTACAAATTT
1 ATATATTATTA-AAATTT
42957 AT
1 AT
42959 GTTCGATTGG
Statistics
Matches: 56, Mismatches: 8, Indels: 17
0.69 0.10 0.21
Matches are distributed among these distances:
14 8 0.14
15 2 0.04
16 2 0.04
17 6 0.11
18 8 0.14
19 26 0.46
20 4 0.07
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.49
Consensus pattern (17 bp):
ATATATTATTAAAATTT
Found at i:42908 original size:33 final size:33
Alignment explanation
Indices: 42830--42933 Score: 102
Period size: 33 Copynumber: 3.0 Consensus size: 33
42820 TTAAAATATC
* *
42830 AATATATTA-TTACAAATTTATATGTGATTGAAATAGA
1 AATATATTATTTATAAATTTATATATGATT---A-A-A
42867 AATATATTATTTATAAATTTATATATGATTAAA
1 AATATATTATTTATAAATTTATATATGATTAAA
* * * *
42900 AATATATTATCTATGAATTTATATTTTATTAAA
1 AATATATTATTTATAAATTTATATATGATTAAA
42933 A
1 A
42934 TATGAATATA
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
33 31 0.52
34 1 0.02
35 1 0.02
37 9 0.15
38 18 0.30
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (33 bp):
AATATATTATTTATAAATTTATATATGATTAAA
Found at i:45552 original size:37 final size:37
Alignment explanation
Indices: 45507--45620 Score: 165
Period size: 37 Copynumber: 3.1 Consensus size: 37
45497 TTTATATTCA
45507 ATTAAAATATCAATATATTATTACAAATTTATATGGG
1 ATTAAAATATCAATATATTATTACAAATTTATATGGG
* ** * **
45544 ATTGAAATAGAAATATATTATTTATAAATTTATATATG
1 ATTAAAATATCAATATATTA-TTACAAATTTATATGGG
45582 ATTAAAATATCAATATATTATTACAAATTTATATGGG
1 ATTAAAATATCAATATATTATTACAAATTTATATGGG
45619 AT
1 AT
45621 CTCACCATCT
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
37 33 0.52
38 31 0.48
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (37 bp):
ATTAAAATATCAATATATTATTACAAATTTATATGGG
Found at i:46195 original size:15 final size:15
Alignment explanation
Indices: 46177--46211 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
46167 TAATTTTGTA
46177 TATTTTTATTTATTT
1 TATTTTTATTTATTT
46192 TATTTTTATTTATTT
1 TATTTTTATTTATTT
46207 TATTT
1 TATTT
46212 CATTTTCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (15 bp):
TATTTTTATTTATTT
Found at i:50072 original size:106 final size:106
Alignment explanation
Indices: 49887--52882 Score: 5241
Period size: 106 Copynumber: 28.3 Consensus size: 106
49877 ATTTTGCTCG
* *
49887 AGAGCCAATTTCAACTTCACAACGAAGGATACTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
49952 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
* * *
49993 AGAGCCAATTTCAACTTCACAGTGAAGGATATTGGACTCAAGACAACGCAAGCTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
50058 CGAAGGGACCGCTGGTTGTCAAAAAATAACTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
*
50099 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGAATCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * *
50164 CGAAGAGACCGCTGGTTGTCAACAAAAAATTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
50205 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
50270 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
* *
50311 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACAA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * *
50376 TGAAGGGACTGCTGGTTGTCAAAAAACAACTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
50417 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* ** *
50482 CGAAGGGACCGCTGGTTGTCAACAAATATTTTCCTAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
50523 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
50588 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
50629 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
50694 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
50735 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
50800 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
*
50841 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
50906 CGAAGGGACCGCTGGTTGTCAAAAAACAACTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
*
50947 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
51012 CGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
51053 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
51118 CGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
51159 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
51224 CGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
*
51265 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGAATCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * *
51330 CGAAGAGACCGCTGGTTGTCAACAAAAAATTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
51371 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
51436 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
* *
51477 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACAA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * *
51542 TGAAGGGACTGCTGGTTGTCAAAAAACAACTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
51583 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* ** *
51648 CGAAGGGACCGCTGGTTGTCAACAAATATTTTCCTAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
51689 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
51754 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
51795 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
51860 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
51901 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
51966 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
*
52007 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
52072 CGAAGGGACCGCTGGTTGTCAAAAAACAACTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
*
52113 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
52178 CGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
52219 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
52284 CGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
52325 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
52390 CGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
52431 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * *
52496 CGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAATTTT
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
52537 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * * *
52602 CGAAGGGACCACTGGTTGTCAATAAACAATTTACCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
*
52643 AGAGCCAATTTCAACTTCACAGCGAAGGATATTAGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
52708 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
** * * * *
52749 AGAGCCAATTTTGACTTCTCAGCGAAGGATCTTGGAC-CCAAGACAACACAAGCTCAACTTCACG
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC-AGACAACGCAAGTTCAACTTCACG
* * * *
52813 ACGAAGGGGCGGCTGATTGTCAAC-AA-AA-TT-TC-A-TTC
65 ACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
*
52849 AGAGTCAATTTCAACTTCACAGCGAAGGATATTG
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTG
52883 ACATCGAAAC
Statistics
Matches: 2772, Mismatches: 117, Indels: 8
0.96 0.04 0.00
Matches are distributed among these distances:
100 32 0.01
101 1 0.00
102 1 0.00
103 2 0.00
104 2 0.00
105 4 0.00
106 2730 0.98
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (106 bp):
AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTC
Found at i:53178 original size:18 final size:18
Alignment explanation
Indices: 53157--53200 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
53147 TAATTATTTT
* *
53157 TTATTTTTATTAGTATTA
1 TTATTTTTAATAATATTA
* *
53175 TTATTGTTAATAATATTT
1 TTATTTTTAATAATATTA
53193 TTATTTTT
1 TTATTTTT
53201 TAATTTTACA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (18 bp):
TTATTTTTAATAATATTA
Found at i:54399 original size:15 final size:15
Alignment explanation
Indices: 54381--54415 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
54371 AATTTTTGTA
54381 TATTTTTATTTATTT
1 TATTTTTATTTATTT
* *
54396 TATTATTATTTTTTT
1 TATTTTTATTTATTT
54411 TATTT
1 TATTT
54416 CGTTTTCTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (15 bp):
TATTTTTATTTATTT
Found at i:56608 original size:21 final size:21
Alignment explanation
Indices: 56584--56627 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
56574 CATGACATCT
*
56584 ATAACAACAAACTTTAATTCC
1 ATAACAACAAACTTTAAATCC
*
56605 ATAACAACCAACTTTAAATCC
1 ATAACAACAAACTTTAAATCC
56626 AT
1 AT
56628 TATAATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (21 bp):
ATAACAACAAACTTTAAATCC
Found at i:58567 original size:82 final size:82
Alignment explanation
Indices: 58435--58656 Score: 241
Period size: 82 Copynumber: 2.7 Consensus size: 82
58425 TTGTGAGAAA
* * * * *
58435 AAAAAACGCCACTATAGGTGAACCCTATTAC-GATGTTTGTATAAAAACGCCGCTAAAGTAGTAT
1 AAAAAACGACACTATAGATTAA-CCTATCACGGA-GTTTGTATAAAAACGCCGCTAAAGTAGTAC
*
58499 TCCTTTACAGCGTTTATTG
64 TCCTTTACAGCATTTATTG
* * * * *
58518 AAAAAACGTCACT-TAGGTTAACCATATCACTGCGTTTGTATAAATACGCCGCTAAAGTAGTACT
1 AAAAAACGACACTATAGATTAACC-TATCACGGAGTTTGTATAAAAACGCCGCTAAAGTAGTACT
* * *
58582 CTTTTACGGCATTTGTTG
65 CCTTTACAGCATTTATTG
* **
58600 AAAAAACGACACTATAGATTGACCTATTGCGGAGTTTGTATAAAAAACGCCGCTAAA
1 AAAAAACGACACTATAGATTAACCTATCACGGAGTTTGTAT-AAAAACGCCGCTAAA
58657 AAACTATTCC
Statistics
Matches: 117, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
81 2 0.02
82 80 0.68
83 35 0.30
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (82 bp):
AAAAAACGACACTATAGATTAACCTATCACGGAGTTTGTATAAAAACGCCGCTAAAGTAGTACTC
CTTTACAGCATTTATTG
Found at i:58673 original size:83 final size:82
Alignment explanation
Indices: 58435--58719 Score: 288
Period size: 83 Copynumber: 3.5 Consensus size: 82
58425 TTGTGAGAAA
* *
58435 AAAAAACGCCACTATAG-GTGAACCCTATTAC-GATGTTTGTATAAAAACGCCGCTAAAGTAGTA
1 AAAAAACGACACTATAGATTG-A-CCTATTACGGA-GTTTGTATAAAAACGCCGCTAAAGTAGTA
* *
58498 TTCCTTTACAGCGTTTATTG
63 TTCCTTTACGGCGTTTGTTG
* * * * * * * *
58518 AAAAAACGTCACT-TAGGTTAACCATATCACTGCGTTTGTATAAATACGCCGCTAAAGTAGTACT
1 AAAAAACGACACTATAGATTGACC-TATTACGGAGTTTGTATAAAAACGCCGCTAAAGTAGTATT
* *
58582 CTTTTACGGCATTTGTTG
65 CCTTTACGGCGTTTGTTG
* ** *
58600 AAAAAACGACACTATAGATTGACCTATTGCGGAGTTTGTATAAAAAACGCCGCTAAAAAACTATT
1 AAAAAACGACACTATAGATTGACCTATTACGGAGTTTGTAT-AAAAACGCCGCTAAAGTAGTATT
* *
58665 CCCTTACGGTGTTTGTTG
65 CCTTTACGGCGTTTGTTG
* * * *
58683 AAAAAGCAACACTATAGATGGACCTATTACGGCGTTT
1 AAAAAACGACACTATAGATTGACCTATTACGGAGTTT
58720 ATCAACAAAA
Statistics
Matches: 165, Mismatches: 32, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
81 2 0.01
82 77 0.47
83 86 0.52
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.30
Consensus pattern (82 bp):
AAAAAACGACACTATAGATTGACCTATTACGGAGTTTGTATAAAAACGCCGCTAAAGTAGTATTC
CTTTACGGCGTTTGTTG
Found at i:58737 original size:41 final size:42
Alignment explanation
Indices: 58692--58770 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
58682 GAAAAAGCAA
*
58692 CACTATAGATGGA-CCTATTACGGCGTTTATCAACAAAACGC
1 CACTATAGATGAACCCTATTACGGCGTTTATCAACAAAACGC
* * *
58733 CACTATAGATTAACCCTATTACGGCGTTTCTCCACAAA
1 CACTATAGATGAACCCTATTACGGCGTTTATCAACAAA
58771 TGCCGCTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
41 11 0.33
42 22 0.67
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.27
Consensus pattern (42 bp):
CACTATAGATGAACCCTATTACGGCGTTTATCAACAAAACGC
Found at i:59434 original size:38 final size:37
Alignment explanation
Indices: 59392--59554 Score: 151
Period size: 37 Copynumber: 4.5 Consensus size: 37
59382 GATAATGTTC
*
59392 TATTATTTA-AATATTTATATTTAATTAAAATATCAATA
1 TATTATTTATAA-ATTTATATTTGATTAAAATAT-AATA
* * * *
59430 TATTA-TTACAAATTTATATGTGATTGAAATAGAAATA
1 TATTATTTATAAATTTATATTTGATTAAAATA-TAATA
*
59467 TATTATTTATAAATTTATATATGATT--AA-A-AATA
1 TATTATTTATAAATTTATATTTGATTAAAATATAATA
* * *
59500 TATTATCTATGAATTTATATTTTATTAAAATATGAATA
1 TATTATTTATAAATTTATATTTGATTAAAATAT-AATA
*
59538 TATTA-TTACAAATTTAT
1 TATTATTTATAAATTTAT
59555 GTTCGATTGG
Statistics
Matches: 104, Mismatches: 13, Indels: 17
0.78 0.10 0.13
Matches are distributed among these distances:
33 26 0.25
35 3 0.03
36 3 0.03
37 38 0.37
38 34 0.33
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.48
Consensus pattern (37 bp):
TATTATTTATAAATTTATATTTGATTAAAATATAATA
Found at i:59437 original size:19 final size:19
Alignment explanation
Indices: 59392--59442 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 19
59382 GATAATGTTC
* **
59392 TATTATTTAAATATTTATA
1 TATTATTAAAATATCAATA
59411 T-TTAATTAAAATATCAATA
1 TATT-ATTAAAATATCAATA
59430 TATTATTACAAAT
1 TATTATTA-AAAT
59443 TTATATGTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 2 0.08
19 18 0.69
20 6 0.23
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (19 bp):
TATTATTAAAATATCAATA
Found at i:59486 original size:19 final size:17
Alignment explanation
Indices: 59464--59554 Score: 62
Period size: 19 Copynumber: 5.1 Consensus size: 17
59454 TGAAATAGAA
59464 ATATATTATTTATAAATTT
1 ATATATTA-TTA-AAATTT
*
59483 ATATATGATTAAAA---
1 ATATATTATTAAAATTT
*
59497 ATATATTATCTATGAATTT
1 ATATATTAT-TA-AAATTT
* *
59516 ATATTTTATTAAAATATGA
1 ATATATTATTAAAAT-T-T
59535 ATATATTATTACAAATTT
1 ATATATTATTA-AAATTT
59553 AT
1 AT
59555 GTTCGATTGG
Statistics
Matches: 56, Mismatches: 8, Indels: 17
0.69 0.10 0.21
Matches are distributed among these distances:
14 8 0.14
15 2 0.04
16 2 0.04
17 6 0.11
18 8 0.14
19 26 0.46
20 4 0.07
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.49
Consensus pattern (17 bp):
ATATATTATTAAAATTT
Found at i:59504 original size:33 final size:33
Alignment explanation
Indices: 59426--59529 Score: 102
Period size: 33 Copynumber: 3.0 Consensus size: 33
59416 TTAAAATATC
* *
59426 AATATATTA-TTACAAATTTATATGTGATTGAAATAGA
1 AATATATTATTTATAAATTTATATATGATT---A-A-A
59463 AATATATTATTTATAAATTTATATATGATTAAA
1 AATATATTATTTATAAATTTATATATGATTAAA
* * * *
59496 AATATATTATCTATGAATTTATATTTTATTAAA
1 AATATATTATTTATAAATTTATATATGATTAAA
59529 A
1 A
59530 TATGAATATA
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
33 31 0.52
34 1 0.02
35 1 0.02
37 9 0.15
38 18 0.30
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (33 bp):
AATATATTATTTATAAATTTATATATGATTAAA
Found at i:81043 original size:37 final size:38
Alignment explanation
Indices: 80986--81156 Score: 122
Period size: 37 Copynumber: 4.6 Consensus size: 38
80976 GATAATGTTC
*
80986 TATTATTTA-AGAATTTATATT-AAATTAAAATGTGAATA
1 TATTATTTACA-AATTTATATTCAAA-TAAAATATGAATA
* *
81024 TATTA-TTACAAATTTATATTCTAATGAAATATGAATA
1 TATTATTTACAAATTTATATTCAAATAAAATATGAATA
* ** * * *
81061 TATTATTTATAAATTTATATTTGATTAAACACA--AATT
1 TATTATTTACAAATTTATATTCAAATAAA-ATATGAATA
* ** *
81098 TATTACTTATGAATTTATATTC-AATAAAAATACGAATA
1 TATTATTTACAAATTTATATTCAAAT-AAAATATGAATA
**
81136 TATTA-TTATGAATTTATATTC
1 TATTATTTACAAATTTATATTC
81157 GATTGGAATA
Statistics
Matches: 110, Mismatches: 16, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
36 4 0.04
37 70 0.64
38 34 0.31
39 2 0.02
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (38 bp):
TATTATTTACAAATTTATATTCAAATAAAATATGAATA
Found at i:81065 original size:75 final size:75
Alignment explanation
Indices: 80986--81155 Score: 179
Period size: 75 Copynumber: 2.3 Consensus size: 75
80976 GATAATGTTC
**
80986 TATTATTTAAGAATTTATATTAAATTAAA-ATGTGAATATATTA-TTACAAATTTATATTCTAAT
1 TATTATTTAAGAATTTATATTAAATTAAACA--CAAATATATTACTTACAAATTTATATTC-AAT
* *
81049 -GAAATATGAATA
63 AAAAATACGAATA
** * **
81061 TATTATTTATA-AATTTATATTTGATTAAACACAAATTTATTACTTATGAATTTATATTCAATAA
1 TATTATTTA-AGAATTTATATTAAATTAAACACAAATATATTACTTACAAATTTATATTCAATAA
81125 AAATACGAATA
65 AAATACGAATA
*
81136 TATTA-TTATGAATTTATATT
1 TATTATTTAAGAATTTATATT
81156 CGATTGGAAT
Statistics
Matches: 80, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
74 24 0.30
75 54 0.68
76 2 0.03
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (75 bp):
TATTATTTAAGAATTTATATTAAATTAAACACAAATATATTACTTACAAATTTATATTCAATAAA
AATACGAATA
Found at i:81167 original size:37 final size:38
Alignment explanation
Indices: 81019--81180 Score: 145
Period size: 37 Copynumber: 4.4 Consensus size: 38
81009 ATTAAAATGT
* * * *
81019 GAATATATTA-TTACAAATTTATATTCTAATGAAATAT
1 GAATATATTACTTATAAATTTATATTCGATTGAAATAC
* * *
81056 GAATATATTATTTATAAATTTATATTTGATT-AAACAC
1 GAATATATTACTTATAAATTTATATTCGATTGAAATAC
* * * * **
81093 AAATTTATTACTTATGAATTTATATTCAATAAAAATAC
1 GAATATATTACTTATAAATTTATATTCGATTGAAATAC
* *
81131 GAATATATTA-TTATGAATTTATATTCGATTGGAATAC
1 GAATATATTACTTATAAATTTATATTCGATTGAAATAC
81168 -AATAT-TATACTTA
1 GAATATAT-TACTTA
81181 AATATGAAAT
Statistics
Matches: 101, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
35 1 0.01
36 7 0.07
37 64 0.63
38 29 0.29
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (38 bp):
GAATATATTACTTATAAATTTATATTCGATTGAAATAC
Found at i:81330 original size:37 final size:37
Alignment explanation
Indices: 81284--81378 Score: 136
Period size: 37 Copynumber: 2.6 Consensus size: 37
81274 ATTATTTAAG
* *
81284 AATTTATATTCAATTAAAATGTGAAAATATTATTACA
1 AATTTATATTCAATTGAAATATGAAAATATTATTACA
* * **
81321 AATTTATATTCTATTGAAATATGAATATATTATTATG
1 AATTTATATTCAATTGAAATATGAAAATATTATTACA
81358 AATTTATATTCAATTGAAATA
1 AATTTATATTCAATTGAAATA
81379 CAATACTATA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.44
Consensus pattern (37 bp):
AATTTATATTCAATTGAAATATGAAAATATTATTACA
Found at i:83172 original size:44 final size:43
Alignment explanation
Indices: 83118--83248 Score: 165
Period size: 44 Copynumber: 3.0 Consensus size: 43
83108 TTGGAGGAAG
* *
83118 TTTCTTAAGGCTCATTTGTTATGTGTAAGGGTAAGACCTTACCA
1 TTTCTGAAGGCTC-TTTGCTATGTGTAAGGGTAAGACCTTACCA
*
83162 TTTCTGAAGGCTTCTTTGCTATGTGCAAGGGTAAGACCTTACCA
1 TTTCTGAAGGC-TCTTTGCTATGTGTAAGGGTAAGACCTTACCA
* * *
83206 TTTCTGAAAGCTCCTCTACTATGTGCT-AGGGTAAGACCTTACC
1 TTTCTGAAGGCT-CTTTGCTATGTG-TAAGGGTAAGACCTTACC
83249 GCTTTCCGCA
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
43 1 0.01
44 74 0.96
45 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.35
Consensus pattern (43 bp):
TTTCTGAAGGCTCTTTGCTATGTGTAAGGGTAAGACCTTACCA
Found at i:86625 original size:19 final size:18
Alignment explanation
Indices: 86602--86654 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 18
86592 TTTTTATATT
86602 TTATTTTTATTTAAATTA
1 TTATTTTTATTTAAATTA
* *
86620 TATATTTGGTACTTAAATTA
1 T-TATTT-TTATTTAAATTA
86640 TTATTTTTTATTTAA
1 TTA-TTTTTATTTAA
86655 TTTTTTATCT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
18 1 0.04
19 13 0.46
20 14 0.50
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (18 bp):
TTATTTTTATTTAAATTA
Found at i:86943 original size:23 final size:23
Alignment explanation
Indices: 86917--86961 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
86907 AAATAATAGT
86917 TTAAGTATTAAACATATAATTTC
1 TTAAGTATTAAACATATAATTTC
*
86940 TTAAGTATTAAACGTATAATTT
1 TTAAGTATTAAACATATAATTT
86962 ATTTTTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (23 bp):
TTAAGTATTAAACATATAATTTC
Found at i:89619 original size:12 final size:12
Alignment explanation
Indices: 89602--89626 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
89592 GGGAGTAAAA
89602 ATACAAAACAAG
1 ATACAAAACAAG
89614 ATACAAAACAAG
1 ATACAAAACAAG
89626 A
1 A
89627 GTCTCGTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.16, G:0.08, T:0.08
Consensus pattern (12 bp):
ATACAAAACAAG
Found at i:99908 original size:17 final size:17
Alignment explanation
Indices: 99886--99943 Score: 80
Period size: 17 Copynumber: 3.4 Consensus size: 17
99876 ATAAAACAAA
99886 AGTAAAAGATACAATAT
1 AGTAAAAGATACAATAT
99903 AGTAAAAGATACAATAT
1 AGTAAAAGATACAATAT
* * *
99920 AGTAAGAGAAATAATAT
1 AGTAAAAGATACAATAT
*
99937 AATAAAA
1 AGTAAAA
99944 AAATTATACA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 36 1.00
ACGTcount: A:0.62, C:0.03, G:0.12, T:0.22
Consensus pattern (17 bp):
AGTAAAAGATACAATAT
Found at i:100892 original size:23 final size:23
Alignment explanation
Indices: 100861--100906 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
100851 CTATGGTTCT
100861 AAACAAGATTACCTTCTTACCGA
1 AAACAAGATTACCTTCTTACCGA
* **
100884 AAACGAGATTGTCTTCTTACCGA
1 AAACAAGATTACCTTCTTACCGA
100907 GATAAAAGTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.28
Consensus pattern (23 bp):
AAACAAGATTACCTTCTTACCGA
Found at i:111235 original size:4 final size:4
Alignment explanation
Indices: 111226--111267 Score: 59
Period size: 4 Copynumber: 10.5 Consensus size: 4
111216 TAATATAAAG
*
111226 AATA AATA AATA AAT- AATA TTATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA -AATA AATA AATA AATA AATA AA
111268 GAATATATTC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 3 0.09
4 28 0.82
5 3 0.09
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (4 bp):
AATA
Found at i:111242 original size:24 final size:24
Alignment explanation
Indices: 111215--111266 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
111205 AAAATTTTAT
111215 ATAATA-TAAAGAATAAATAAATAA
1 ATAATATTAAA-AATAAATAAATAA
*
111239 ATAATATTATAAATAAATAAATAA
1 ATAATATTAAAAATAAATAAATAA
111263 ATAA
1 ATAA
111267 AGAATATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (24 bp):
ATAATATTAAAAATAAATAAATAA
Found at i:111831 original size:3 final size:3
Alignment explanation
Indices: 111779--111814 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
111769 ATGTCAAGTT
* *
111779 ATG AAG ATG ATG ATG ATG ATG ATG ATG ACG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
111815 GTGGTGGTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.36, C:0.03, G:0.33, T:0.28
Consensus pattern (3 bp):
ATG
Found at i:112357 original size:22 final size:23
Alignment explanation
Indices: 112331--112376 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
112321 AATATATAGA
*
112331 ATTTTTATATTTGT-AGTTATGT
1 ATTTTTATATTTCTAAGTTATGT
* *
112353 ATTTTTTTCTTTCTAAGTTATGT
1 ATTTTTATATTTCTAAGTTATGT
112376 A
1 A
112377 AAATGAACAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.22, C:0.04, G:0.11, T:0.63
Consensus pattern (23 bp):
ATTTTTATATTTCTAAGTTATGT
Found at i:118040 original size:2 final size:2
Alignment explanation
Indices: 118033--118074 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
118023 AATACCCAAT
118033 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
118075 AGAATAAAAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:121453 original size:2 final size:2
Alignment explanation
Indices: 121446--121491 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
121436 AAGCATATTA
*
121446 AT AT AT AT AT AT AT CT 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 AT AT AT AT AT
121488 AT AT
1 AT AT
121492 TACACTATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.