Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_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: 11160956
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 25 of 55
Found at i:4851653 original size:24 final size:24
Alignment explanation
Indices: 4851623--4851668 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
4851613 AAATATTAAT
4851623 TTATAAATTATAAACA-TTACTAAG
1 TTATAAATTATAAA-ATTTACTAAG
*
4851647 TTATAAATTTTAAAATTTACTA
1 TTATAAATTATAAAATTTACTA
4851669 TTGTGGTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (24 bp):
TTATAAATTATAAAATTTACTAAG
Found at i:4859670 original size:3 final size:3
Alignment explanation
Indices: 4859662--4859687 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4859652 TGTGTGTAAT
4859662 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
4859688 TATTTTTAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:4860127 original size:20 final size:20
Alignment explanation
Indices: 4860044--4860120 Score: 100
Period size: 20 Copynumber: 3.8 Consensus size: 20
4860034 CAATTGATAT
*
4860044 GAAAATCTAAAGGTTGACCA
1 GAAAATCTAAAGGTTGACCC
* * *
4860064 TAAAATTTTAAAAGTTGACCC
1 GAAAA-TCTAAAGGTTGACCC
4860085 GAAAATCTAAAGGTTGACCC
1 GAAAATCTAAAGGTTGACCC
*
4860105 GAAAATCTACAGGTTG
1 GAAAATCTAAAGGTTG
4860121 GCTCGAATTA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
20 32 0.67
21 16 0.33
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.25
Consensus pattern (20 bp):
GAAAATCTAAAGGTTGACCC
Found at i:4870678 original size:46 final size:46
Alignment explanation
Indices: 4870577--4870689 Score: 124
Period size: 46 Copynumber: 2.4 Consensus size: 46
4870567 TAAAACATAG
* * * *
4870577 AGAAAGAAGAAAAGATATAGCAAGAAAAACACACAAAAAGAGAGAAAA
1 AGAAAGAAG-AAAGAAAAAG-AATAAAAACACAAAAAAAGAGAGAAAA
4870625 AGAAAGAA-ATAAGAAAAAGAATAAAAACA-AAAAAAAGAGAGACGAAA
1 AGAAAGAAGA-AAGAAAAAGAATAAAAACACAAAAAAAGAGAGA--AAA
4870672 A-AAAGAAGAAAGAAAAAG
1 AGAAAGAAGAAAGAAAAAG
4870690 GTCAAACACT
Statistics
Matches: 57, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
45 12 0.21
46 25 0.44
47 12 0.21
48 8 0.14
ACGTcount: A:0.73, C:0.05, G:0.19, T:0.04
Consensus pattern (46 bp):
AGAAAGAAGAAAGAAAAAGAATAAAAACACAAAAAAAGAGAGAAAA
Found at i:4875534 original size:23 final size:23
Alignment explanation
Indices: 4875491--4875534 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
4875481 TGTTTGTTTG
**
4875491 TTTATTTTTATTTGTTTTATTTC
1 TTTATTTTTATTTGTAATATTTC
4875514 TTTATTTTTAATTT-TAATATT
1 TTTATTTTT-ATTTGTAATATT
4875535 ACTTGTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 14 0.78
24 4 0.22
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.75
Consensus pattern (23 bp):
TTTATTTTTATTTGTAATATTTC
Found at i:4876698 original size:9 final size:9
Alignment explanation
Indices: 4876684--4876726 Score: 54
Period size: 9 Copynumber: 5.0 Consensus size: 9
4876674 GCAAAAAAGT
4876684 GAAAAAAAA
1 GAAAAAAAA
*
4876693 -AGAAAAAA
1 GAAAAAAAA
*
4876701 -AAAGAAAA
1 GAAAAAAAA
4876709 GAAAAAAAA
1 GAAAAAAAA
4876718 GAAAAAAAA
1 GAAAAAAAA
4876727 TGTGTACTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
8 13 0.45
9 16 0.55
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (9 bp):
GAAAAAAAA
Found at i:4876726 original size:10 final size:10
Alignment explanation
Indices: 4876684--4876724 Score: 57
Period size: 10 Copynumber: 4.0 Consensus size: 10
4876674 GCAAAAAAGT
4876684 GAAAAAAAAA
1 GAAAAAAAAA
4876694 GAAAAAAAAA
1 GAAAAAAAAA
4876704 GAAAAGAAAAA
1 GAAAA-AAAAA
4876715 -AAAGAAAAAA
1 GAAA-AAAAAA
4876725 AATGTGTACT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 23 0.79
11 6 0.21
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:4879002 original size:108 final size:106
Alignment explanation
Indices: 4878758--4879030 Score: 336
Period size: 108 Copynumber: 2.5 Consensus size: 106
4878748 GCTCCTTGAT
* * *
4878758 ATGA-TATTTTCAAATGAATTTTTAAAAGAATCTAAGCCTAATTTTAAGGGTTTCTTGATGTTTT
1 ATGATTATTTCCAAA-GAATTTTTAAAAGAAGCTAAGCCTAATTTTTAGGGTTTCTTGATGTTTT
* * * * *
4878822 CAAATGATTTTTAGAAAGTAAGCATGATTTTAGGGGTTTTTT
65 CAAACGATTTTTAGAAACTAAGCATAATTTCAGGGGTTTTTG
* *
4878864 ATGATGATTTCCAATGAATTTTTAAAAGAAGCTAAGCCTAATTTTTAGAGGTTTCTTGATGTTTT
1 ATGATTATTTCCAAAGAATTTTTAAAAGAAGCTAAGCCTAATTTTTAG-GGTTTCTTGATGTTTT
* *
4878929 TAAACGAGTTTTT-GAAACTAAGCCTAAATTTCAGGGGTTTCTTG
65 CAAACGA-TTTTTAGAAACTAAGCAT-AATTTCAGGGGTTT-TTG
* **
4878973 ATGATTATTTCCAAAG-ATTTTTTAAAGAAGCTAAATCTAATTTTTAGGGGTTTCTTGA
1 ATGATTATTTCCAAAGAATTTTTAAAAGAAGCTAAGCCTAATTTTTA-GGGTTTCTTGA
4879031 CGATAACTGA
Statistics
Matches: 144, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
106 35 0.24
107 38 0.26
108 54 0.38
109 17 0.12
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.42
Consensus pattern (106 bp):
ATGATTATTTCCAAAGAATTTTTAAAAGAAGCTAAGCCTAATTTTTAGGGTTTCTTGATGTTTTC
AAACGATTTTTAGAAACTAAGCATAATTTCAGGGGTTTTTG
Found at i:4879026 original size:57 final size:57
Alignment explanation
Indices: 4878758--4879030 Score: 213
Period size: 57 Copynumber: 5.0 Consensus size: 57
4878748 GCTCCTTGAT
* * * *
4878758 ATGA-TATTTTCAAATGAATTTTTAAAAGAATCTAAGCCTAA-TTTTAAGGGTTTCTTG
1 ATGATTATTTCCAAA-G-ATTTTTTAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTG
* * * *
4878815 ATG--T-TTT-CAAATGA-TTTTTAGA-AAG-TAAGCATGA-TTTTAGGGGTTT-TTT
1 ATGATTATTTCCAAA-GATTTTTTAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTG
* * * *
4878864 ATGATGATTTCCAATGAATTTTTAAAAGAAGCTAAGCCTAATTTTTAGAGGTTTCTTG
1 ATGATTATTTCCAAAG-ATTTTTTAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTG
* * * *
4878922 ATG-TT-TTT--AAACGAGTTTTT---GAAACTAAGCCTAAATTTCAGGGGTTTCTTG
1 ATGATTATTTCCAAA-GATTTTTTAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTG
**
4878973 ATGATTATTTCCAAAGATTTTTTAAAGAAGCTAAATCTAATTTTTAGGGGTTTCTTG
1 ATGATTATTTCCAAAGATTTTTTAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTG
4879030 A
1 A
4879031 CGATAACTGA
Statistics
Matches: 169, Mismatches: 29, Indels: 36
0.72 0.12 0.15
Matches are distributed among these distances:
49 5 0.03
50 18 0.11
51 32 0.19
52 12 0.07
53 8 0.05
54 26 0.15
55 10 0.06
56 11 0.07
57 42 0.25
58 5 0.03
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.42
Consensus pattern (57 bp):
ATGATTATTTCCAAAGATTTTTTAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTG
Found at i:4885679 original size:81 final size:81
Alignment explanation
Indices: 4885587--4885915 Score: 451
Period size: 81 Copynumber: 4.1 Consensus size: 81
4885577 CTGTTTTAAA
* * ** *
4885587 TAAAAGATTAATTGCGTAGATGTATATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTACATGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
4885652 GTTAAATACCTTTGAG
66 GCTAAATACCTTTGAG
4885668 TAAAAGATTAATTGCCTACATGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTACATGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
* *
4885733 GTTAAATACATTTGAG
66 GCTAAATACCTTTGAG
* ** *
4885749 TAAAAGATTAATTGTCTAGTTGTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTACATGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
4885814 GCTAAATGCCTTTGAG
66 GCTAAATACCTTTGAG
* * * * * * * *
4885830 TTAAAGATTAAATGCCTACCTGTGCATTTGGCAGAAAAGTGTCAATCATGCAACTTAGATGAAAG
1 TAAAAGATTAATTGCCTACATGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
* *
4885895 GCTAAATGCCTTTGGG
66 GCTAAATACCTTTGAG
4885911 TAAAA
1 TAAAA
4885916 AACTAAATGC
Statistics
Matches: 222, Mismatches: 26, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 222 1.00
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (81 bp):
TAAAAGATTAATTGCCTACATGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
GCTAAATACCTTTGAG
Found at i:4885923 original size:81 final size:81
Alignment explanation
Indices: 4885587--4885961 Score: 437
Period size: 81 Copynumber: 4.6 Consensus size: 81
4885577 CTGTTTTAAA
* * * ** *
4885587 TAAAAGATTAATTGCGTAGATGTATATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAAATGCCTACATGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
4885652 GTTAAATACCTTTGAG
66 GCTAAATACCTTTGAG
*
4885668 TAAAAGATTAATTGCCTACATGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAAATGCCTACATGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
* *
4885733 GTTAAATACATTTGAG
66 GCTAAATACCTTTGAG
* * ** *
4885749 TAAAAGATTAATTGTCTAGTTGTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAAATGCCTACATGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
4885814 GCTAAATGCCTTTGAG
66 GCTAAATACCTTTGAG
* * * * * * *
4885830 TTAAAGATTAAATGCCTACCTGTGCATTTGGCAGAAAAGTGTCAATCATGCAACTTAGATGAAAG
1 TAAAAGATTAAATGCCTACATGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
* *
4885895 GCTAAATGCCTTTGGG
66 GCTAAATACCTTTGAG
* * * * * *
4885911 TAAAAAACTAAATGCTTAACA-ATGCATTTTGACATAAACGGTGTCATTTAT
1 TAAAAGATTAAATGCCT-ACATGTGCA-TTTGACAGAAA-GGTGTCAATTAT
4885962 TGATTTGACT
Statistics
Matches: 255, Mismatches: 36, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
81 235 0.92
82 11 0.04
83 9 0.04
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.32
Consensus pattern (81 bp):
TAAAAGATTAAATGCCTACATGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
GCTAAATACCTTTGAG
Found at i:4897207 original size:25 final size:25
Alignment explanation
Indices: 4897171--4897221 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
4897161 GTGCACGGTA
4897171 GGAGATGCGACTTAATCGAGGGAGG
1 GGAGATGCGACTTAATCGAGGGAGG
* *
4897196 GGAGATGTGACTTAATCGGGGGAGG
1 GGAGATGCGACTTAATCGAGGGAGG
4897221 G
1 G
4897222 AAGACGCGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.25, C:0.10, G:0.47, T:0.18
Consensus pattern (25 bp):
GGAGATGCGACTTAATCGAGGGAGG
Found at i:4898801 original size:13 final size:13
Alignment explanation
Indices: 4898783--4898810 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4898773 ACGCCGCTAC
4898783 CGACCACCACTCA
1 CGACCACCACTCA
4898796 CGACCACCACTCA
1 CGACCACCACTCA
4898809 CG
1 CG
4898811 GTGGCCGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.54, G:0.11, T:0.07
Consensus pattern (13 bp):
CGACCACCACTCA
Found at i:4899544 original size:26 final size:23
Alignment explanation
Indices: 4899514--4899562 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 23
4899504 TAAACGGGTT
4899514 CCGGGTTATATTTGTAATATTGGGCC
1 CCGGGTTAT-TTTGT-AT-TTGGGCC
4899540 CCGGGTTATTTTGTATTTGGGCC
1 CCGGGTTATTTTGTATTTGGGCC
4899563 TTGATTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.30
24 2 0.09
25 5 0.22
26 9 0.39
ACGTcount: A:0.14, C:0.16, G:0.29, T:0.41
Consensus pattern (23 bp):
CCGGGTTATTTTGTATTTGGGCC
Found at i:4899609 original size:13 final size:12
Alignment explanation
Indices: 4899585--4899649 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 12
4899575 ATATTTGTAA
4899585 ATATAATAATAT
1 ATATAATAATAT
4899597 ATATAATTAATAT
1 ATATAA-TAATAT
*
4899610 ATTATATATAATAA
1 A-TATA-ATAATAT
* *
4899624 ATAT-GTAAGAT
1 ATATAATAATAT
4899635 A-ATAATAATA-
1 ATATAATAATAT
4899645 ATATA
1 ATATA
4899650 TTATTATTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
10 3 0.07
11 12 0.29
12 6 0.14
13 10 0.24
14 10 0.24
15 1 0.02
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (12 bp):
ATATAATAATAT
Found at i:4899664 original size:25 final size:25
Alignment explanation
Indices: 4899586--4899667 Score: 66
Period size: 25 Copynumber: 3.3 Consensus size: 25
4899576 TATTTGTAAA
*
4899586 TATAATAAT-ATATATAATTAATATAT
1 TATAATAATAATATATTATT-AT-TAT
*
4899612 TATATATAATAA-ATATGTA--A-GAT
1 TATA-ATAATAATATAT-TATTATTAT
*
4899635 AATAATAATAATATATTATTATTAT
1 TATAATAATAATATATTATTATTAT
4899660 TATAATAA
1 TATAATAA
4899668 AAAACTCAGA
Statistics
Matches: 44, Mismatches: 5, Indels: 15
0.69 0.08 0.23
Matches are distributed among these distances:
22 9 0.20
23 9 0.20
24 1 0.02
25 10 0.23
26 4 0.09
27 9 0.20
28 2 0.05
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (25 bp):
TATAATAATAATATATTATTATTAT
Found at i:4899932 original size:42 final size:42
Alignment explanation
Indices: 4899881--4899962 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
4899871 AAGGACTTAT
* * *
4899881 CATCTTGCTCGAAAGACTGACAAATGACTCGAAGGATTTAAA
1 CATCATGCTCGAAAGACTAACAAATGACCCGAAGGATTTAAA
* *
4899923 CATCATGCTCGAAGGACTAACAGATGACCCGAAGGATTTA
1 CATCATGCTCGAAAGACTAACAAATGACCCGAAGGATTTA
4899963 CAAAATTCGT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.22
Consensus pattern (42 bp):
CATCATGCTCGAAAGACTAACAAATGACCCGAAGGATTTAAA
Found at i:4900167 original size:42 final size:41
Alignment explanation
Indices: 4900107--4900213 Score: 126
Period size: 42 Copynumber: 2.6 Consensus size: 41
4900097 CCCAAAGGTT
* * * *
4900107 TGACAGATGGCCCTAAGGACTTTATCAT-ATTGTTCGAAAGAC
1 TGACAGATGACCCGAAGGA-TTTAACATCA-TGCTCGAAAGAC
*
4900149 TGACAGATGACCCGAAGGATTTAAACATCATGCTCGAAGGAC
1 TGACAGATGACCCGAAGGATTT-AACATCATGCTCGAAAGAC
*
4900191 TTACAGATGACCCGAAGGATTTA
1 TGACAGATGACCCGAAGGATTTA
4900214 CAAAATTCGT
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
41 4 0.07
42 52 0.91
43 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (41 bp):
TGACAGATGACCCGAAGGATTTAACATCATGCTCGAAAGAC
Found at i:4900208 original size:20 final size:20
Alignment explanation
Indices: 4900141--4900215 Score: 62
Period size: 20 Copynumber: 3.6 Consensus size: 20
4900131 TCATATTGTT
* *
4900141 CGAAAGACTGACAGATGACC
1 CGAAGGACTTACAGATGACC
* * *
4900161 CGAAGGATTTAAACATCATG-CT
1 CGAAGGACTT--ACA-GATGACC
4900183 CGAAGGACTTACAGATGACC
1 CGAAGGACTTACAGATGACC
*
4900203 CGAAGGATTTACA
1 CGAAGGACTTACA
4900216 AAATTCGTGA
Statistics
Matches: 42, Mismatches: 9, Indels: 8
0.71 0.15 0.14
Matches are distributed among these distances:
19 3 0.07
20 23 0.55
22 13 0.31
23 3 0.07
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (20 bp):
CGAAGGACTTACAGATGACC
Found at i:4900276 original size:251 final size:251
Alignment explanation
Indices: 4899833--4900559 Score: 1178
Period size: 251 Copynumber: 2.9 Consensus size: 251
4899823 AATTAAATAG
* *
4899833 TGTAAACATCCTGCCCCAAAGGTATGACGGATGGCCCTAAGGAC-TTATCATCTTGCTCGAAAGA
1 TGTAAACATCCT-ACCCAAAGGTTTGACGGATGGCCCTAAGGACTTTATCATCTTGCTCGAAAGA
* * *
4899897 CTGACAAATGACTCGAAGGATTTAAACATCATGCTCGAAGGACTAACAGATGACCCGAAGGATTT
65 CTGACAGATGACCCGAAGGATTTAAACATCATGCTCGAAGGACTTACAGATGACCCGAAGGATTT
* *
4899962 ACAAAATTCGTGATAAATAATTTACTGAGTAATAGACTTCTTACTTTTCAAAATTTTGATTTTCT
130 ACAAAATTCGTGATAAATAATTTACTGAGTAAGAGACTTCTTACTTTTCAAAAATTTGATTTTCT
4900027 AGAACATTAAATGAGAAACTTTGAAAATCGCTATCTCATTTTCATGCGAAAATCATA
195 AGAACATTAAATGAGAAACTTTGAAAATCGCTATCTCATTTTCATGCGAAAATCATA
* * *
4900084 TGTAAACATCCTACCCAAAGGTTTGACAGATGGCCCTAAGGACTTTATCATATTGTTCGAAAGAC
1 TGTAAACATCCTACCCAAAGGTTTGACGGATGGCCCTAAGGACTTTATCATCTTGCTCGAAAGAC
4900149 TGACAGATGACCCGAAGGATTTAAACATCATGCTCGAAGGACTTACAGATGACCCGAAGGATTTA
66 TGACAGATGACCCGAAGGATTTAAACATCATGCTCGAAGGACTTACAGATGACCCGAAGGATTTA
4900214 CAAAATTCGTGATAAATAATTTACTGAGTAAGAGACTTCTTACTTTTCAAAAATTTGATTTTCTA
131 CAAAATTCGTGATAAATAATTTACTGAGTAAGAGACTTCTTACTTTTCAAAAATTTGATTTTCTA
* *
4900279 GAACATTAAATAAGAAACTTTGAAAATCGCTATCTCATTTTCATGTGAAAATCATA
196 GAACATTAAATGAGAAACTTTGAAAATCGCTATCTCATTTTCATGCGAAAATCATA
4900335 TGTAAACATCCTACCCAAAGGTTT-AGCGGATGGCCCTAAGGACTTTATCATCTTGCTCGAAAGA
1 TGTAAACATCCTACCCAAAGGTTTGA-CGGATGGCCCTAAGGACTTTATCATCTTGCTCGAAAGA
* *
4900399 CTGACAGATGACCCGAAGGATTTAAAAATCATGCTCGAAAGACTTACAGATGACCCGAAGGATTT
65 CTGACAGATGACCCGAAGGATTTAAACATCATGCTCGAAGGACTTACAGATGACCCGAAGGATTT
** * * *
4900464 AC-AAATTCGTGGGAAATAATTTACTGGGTAAGAAACTTTCTTACTTTTCAAAAATTTCATTTT-
130 ACAAAATTCGTGATAAATAATTTACTGAGTAAGAGAC-TTCTTACTTTTCAAAAATTTGATTTTC
4900527 TAGCAA-AGTTTAAATGAGAAA-TGTTGAAAATCG
194 TAG-AACA--TTAAATGAGAAACT-TTGAAAATCG
4900560 TGTTCTCATT
Statistics
Matches: 446, Mismatches: 23, Indels: 13
0.93 0.05 0.03
Matches are distributed among these distances:
250 63 0.14
251 362 0.81
252 21 0.05
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (251 bp):
TGTAAACATCCTACCCAAAGGTTTGACGGATGGCCCTAAGGACTTTATCATCTTGCTCGAAAGAC
TGACAGATGACCCGAAGGATTTAAACATCATGCTCGAAGGACTTACAGATGACCCGAAGGATTTA
CAAAATTCGTGATAAATAATTTACTGAGTAAGAGACTTCTTACTTTTCAAAAATTTGATTTTCTA
GAACATTAAATGAGAAACTTTGAAAATCGCTATCTCATTTTCATGCGAAAATCATA
Found at i:4900434 original size:42 final size:42
Alignment explanation
Indices: 4900388--4900469 Score: 146
Period size: 42 Copynumber: 2.0 Consensus size: 42
4900378 TTTATCATCT
4900388 TGCTCGAAAGACTGACAGATGACCCGAAGGATTTAAAAATCA
1 TGCTCGAAAGACTGACAGATGACCCGAAGGATTTAAAAATCA
* *
4900430 TGCTCGAAAGACTTACAGATGACCCGAAGGATTTACAAAT
1 TGCTCGAAAGACTGACAGATGACCCGAAGGATTTAAAAAT
4900470 TCGTGGGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.21
Consensus pattern (42 bp):
TGCTCGAAAGACTGACAGATGACCCGAAGGATTTAAAAATCA
Found at i:4900465 original size:20 final size:20
Alignment explanation
Indices: 4900402--4900466 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 20
4900392 CGAAAGACTG
4900402 ACAGATGACCCGAAGGATTT
1 ACAGATGACCCGAAGGATTT
* * * * * *
4900422 AAAAATCATGCTCGAAAGACTT
1 ACAGATGA--CCCGAAGGATTT
4900444 ACAGATGACCCGAAGGATTT
1 ACAGATGACCCGAAGGATTT
4900464 ACA
1 ACA
4900467 AATTCGTGGG
Statistics
Matches: 31, Mismatches: 12, Indels: 4
0.66 0.26 0.09
Matches are distributed among these distances:
20 17 0.55
22 14 0.45
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (20 bp):
ACAGATGACCCGAAGGATTT
Found at i:4901242 original size:56 final size:57
Alignment explanation
Indices: 4901177--4901285 Score: 184
Period size: 57 Copynumber: 1.9 Consensus size: 57
4901167 GCAACACATT
4901177 ACAAGAAGGA-TTTATCCTAATTCCTTTCACGTCTCCACATCTAATCAAATCTATTC
1 ACAAGAAGGATTTTATCCTAATTCCTTTCACGTCTCCACATCTAATCAAATCTATTC
* * *
4901233 ACAAGAAGGATTTTATCCTAATTCCTTTCACGTCTCCTCCTCTAATCAGATCT
1 ACAAGAAGGATTTTATCCTAATTCCTTTCACGTCTCCACATCTAATCAAATCT
4901286 CAAATAAGGT
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
56 10 0.20
57 39 0.80
ACGTcount: A:0.29, C:0.28, G:0.08, T:0.35
Consensus pattern (57 bp):
ACAAGAAGGATTTTATCCTAATTCCTTTCACGTCTCCACATCTAATCAAATCTATTC
Found at i:4907613 original size:18 final size:18
Alignment explanation
Indices: 4907551--4907614 Score: 51
Period size: 18 Copynumber: 3.6 Consensus size: 18
4907541 AAATATTATA
* *
4907551 CTAAAAATATAATTTACC
1 CTAAATATATAATTTAAC
* * **
4907569 CTAAAT-TAAAATTCGAGG
1 CTAAATATATAATT-TAAC
4907587 CTAAA-ATATAATTTAAC
1 CTAAATATATAATTTAAC
4907604 CTAAATATATA
1 CTAAATATATA
4907615 TATATATATA
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
17 12 0.35
18 22 0.65
ACGTcount: A:0.50, C:0.12, G:0.05, T:0.33
Consensus pattern (18 bp):
CTAAATATATAATTTAAC
Found at i:4907615 original size:2 final size:2
Alignment explanation
Indices: 4907608--4907634 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4907598 TTTAACCTAA
4907608 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
4907635 AATGTAGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4908796 original size:13 final size:12
Alignment explanation
Indices: 4908772--4908831 Score: 52
Period size: 13 Copynumber: 4.9 Consensus size: 12
4908762 ATATTTGTAA
4908772 ATATAATAATAT
1 ATATAATAATAT
4908784 ATATAATTAATAT
1 ATATAA-TAATAT
*
4908797 ATTATATATAATAA
1 A-TATA-ATAATAT
* *
4908811 ATAT-GTAAGAT
1 ATATAATAATAT
4908822 A-ATAATAATA
1 ATATAATAATA
4908832 ATAATATATT
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
10 2 0.05
11 9 0.24
12 6 0.16
13 10 0.26
14 10 0.26
15 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (12 bp):
ATATAATAATAT
Found at i:4913294 original size:16 final size:17
Alignment explanation
Indices: 4913273--4913317 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
4913263 CTTAGTTGAG
4913273 AGTTTGAGAGTTT-CAA
1 AGTTTGAGAGTTTACAA
* *
4913289 AGTTTGAAAGTTTACAC
1 AGTTTGAGAGTTTACAA
4913306 A-TTTGAGAGTTT
1 AGTTTGAGAGTTT
4913318 GATATTTCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 22 0.88
17 3 0.12
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.40
Consensus pattern (17 bp):
AGTTTGAGAGTTTACAA
Found at i:4913536 original size:83 final size:83
Alignment explanation
Indices: 4913435--4914079 Score: 725
Period size: 83 Copynumber: 7.8 Consensus size: 83
4913425 TGGAACATGT
** * * *
4913435 GCCTTTCATTTTGGATGGGACGGAACACTATGACATGGAAGAGATGCTCTGAATAATAATGGAAA
1 GCCTTTCATTTCAGATGGGATGGAACACTATGACATGGCAGAGATTCTCTGAATAATAATGGAAA
* * *
4913500 ACGATTCACATGGAACGC
66 ACGATTCCCTTGGAATGC
* * * * *
4913518 GCCTTTAATTTCAGATGGGATAGAACACTATGACATGGTAGAGATTCTATGAATAAT-ATTGAAA
1 GCCTTTCATTTCAGATGGGATGGAACACTATGACATGGCAGAGATTCTCTGAATAATAATGGAAA
* *** **
4913582 ACTGGTTTATTTGGAACAC
66 AC-GATTCCCTTGGAATGC
** *
4913601 GCCAATCATTTC-GAATCGGATGGAACACTATGACATGGCAGAGATTCTCTGAATAATAATGGAA
1 GCCTTTCATTTCAG-ATGGGATGGAACACTATGACATGGCAGAGATTCTCTGAATAATAATGGAA
* * * * * *
4913665 AAAGCTTCCCCTAGAACGT
65 AACGATTCCCTTGGAATGC
* * * *
4913684 GCCTTTCATTTCAGATGGGATGGAACACTATGACATGGTAGATATTCTCTAAATAATAATGAAAA
1 GCCTTTCATTTCAGATGGGATGGAACACTATGACATGGCAGAGATTCTCTGAATAATAATGGAAA
4913749 AC-ACTTCCCTTGGAATGC
66 ACGA-TTCCCTTGGAATGC
* *
4913767 TCCTTTCATTTCAGATGGGATGGAACACTATGACATGGCAGAGATTCTCTGAATAATAATGGAGA
1 GCCTTTCATTTCAGATGGGATGGAACACTATGACATGGCAGAGATTCTCTGAATAATAATGGAAA
* *
4913832 ACGGTTCCCCTGGAATGC
66 ACGATTCCCTTGGAATGC
* * * *
4913850 ACCTTTCATTTC-GAATGGGATAGAACAGTATGACATGGCAGAGATTCTTTGAATAATAATGGAA
1 GCCTTTCATTTCAG-ATGGGATGGAACACTATGACATGGCAGAGATTCTCTGAATAATAATGGAA
*
4913914 AATG-TTCCCCTTGGAATGC
65 AACGATT-CCCTTGGAATGC
* *
4913933 GCCTTTCATTTC-GAATGGGATGGAACATTATGACATGCCAGAGATTCTCTGAATAATAATGG-A
1 GCCTTTCATTTCAG-ATGGGATGGAACACTATGACATGGCAGAGATTCTCTGAATAATAATGGAA
* *
4913996 AA--ATGCCCTTAGAATGC
65 AACGATTCCCTTGGAATGC
* * *
4914013 ACCTTTCATTTCAGATGGGAT-GAAGCACTATGACATGGTAGAGATTCTCTTAATAATAATGGAA
1 GCCTTTCATTTCAGATGGGATGGAA-CACTATGACATGGCAGAGATTCTCTGAATAATAATGGAA
4914077 AAC
65 AAC
4914080 ACTATGACAT
Statistics
Matches: 478, Mismatches: 71, Indels: 27
0.83 0.12 0.05
Matches are distributed among these distances:
79 3 0.01
80 62 0.13
81 5 0.01
82 15 0.03
83 385 0.81
84 8 0.02
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.28
Consensus pattern (83 bp):
GCCTTTCATTTCAGATGGGATGGAACACTATGACATGGCAGAGATTCTCTGAATAATAATGGAAA
ACGATTCCCTTGGAATGC
Found at i:4913884 original size:249 final size:246
Alignment explanation
Indices: 4913433--4914079 Score: 807
Period size: 249 Copynumber: 2.6 Consensus size: 246
4913423 AATGGAACAT
* * *
4913433 GTGCCTTTCATTTTGGATGGGACGGAACACTATGACATGGAAGAGATGCTCTGAATAATAATGGA
1 GTGCCTTTCA-TTTCGATGGGATGGAACACTATGACATGGAAGAGATTCTCTGAATAATAAT-GA
* * * * *
4913498 AAACGATTCACATGGAACGCGCCTTTAATTTCAGATGGGATAGAACACTATGACATGGTAGAGAT
64 AAAC-ATTCCCTTGGAATGCACCTTTCATTTCAGATGGGAT-GAACACTATGACATGGTAGAGAT
* * * ** * *
4913563 TCTATGAATAAT-ATTGAAAACTGGTTTATTTGGAACACGCCAATCATTTCGAATCGGATGGAAC
127 TCTCTGAATAATAATGGAAAACTGGTTCACCTGGAACACACCAATCATTTCGAATCGGATAGAAC
4913627 ACTATGACATGGCAGAGATTCTCTGAATAATAATGGAAAAAGCTTCCCC-TAGAAC
192 ACTATGACATGGCAGAGATTCTCTGAATAATAATGGAAAAAG-TTCCCCTTAGAAC
* * *
4913682 GTGCCTTTCATTTCAGATGGGATGGAACACTATGACATGGTAGATATTCTCTAAATAATAATGAA
1 GTGCCTTTCATTTC-GATGGGATGGAACACTATGACATGGAAGAGATTCTCTGAATAATAATG-A
* *
4913747 AAACACTTCCCTTGGAATGCTCCTTTCATTTCAGATGGGATGGAACACTATGACATGGCAGAGAT
64 AAACA-TTCCCTTGGAATGCACCTTTCATTTCAGATGGGAT-GAACACTATGACATGGTAGAGAT
* * ** ** *
4913812 TCTCTGAATAATAATGGAGAAC-GGTTCCCCTGGAATGCACCTTTCATTTCGAATGGGATAGAAC
127 TCTCTGAATAATAATGGAAAACTGGTTCACCTGGAACACACCAATCATTTCGAATCGGATAGAAC
* * * * *
4913876 AGTATGACATGGCAGAGATTCTTTGAATAATAATGGAAAATGTTCCCCTTGGAAT
192 ACTATGACATGGCAGAGATTCTCTGAATAATAATGGAAAAAGTTCCCCTTAGAAC
* * ** *
4913931 GCGCCTTTCATTTCGAATGGGATGGAACATTATGACATGCCAGAGATTCTCTGAATAATAATGGA
1 GTGCCTTTCATTTCG-ATGGGATGGAACACTATGACATGGAAGAGATTCTCTGAATAATAATGAA
* *
4913996 AA-ATGCCCTTAGAATGCACCTTTCATTTCAGATGGGATGAAGCACTATGACATGGTAGAGATTC
65 AACATTCCCTTGGAATGCACCTTTCATTTCAGATGGGATGAA-CACTATGACATGGTAGAGATTC
*
4914060 TCTTAATAATAATGGAAAAC
129 TCTGAATAATAATGGAAAAC
4914080 ACTATGACAT
Statistics
Matches: 346, Mismatches: 45, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
245 3 0.01
246 71 0.21
247 1 0.00
248 15 0.04
249 249 0.72
250 7 0.02
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.28
Consensus pattern (246 bp):
GTGCCTTTCATTTCGATGGGATGGAACACTATGACATGGAAGAGATTCTCTGAATAATAATGAAA
ACATTCCCTTGGAATGCACCTTTCATTTCAGATGGGATGAACACTATGACATGGTAGAGATTCTC
TGAATAATAATGGAAAACTGGTTCACCTGGAACACACCAATCATTTCGAATCGGATAGAACACTA
TGACATGGCAGAGATTCTCTGAATAATAATGGAAAAAGTTCCCCTTAGAAC
Found at i:4915007 original size:27 final size:26
Alignment explanation
Indices: 4914956--4915007 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
4914946 TGAACTATAA
* *
4914956 AAACAACAAGCCATAAACATTACATT
1 AAACAACAAACCATAAACATGACATT
*
4914982 AAACAACAAACTATTAAACATGACAT
1 AAACAACAAACCA-TAAACATGACAT
4915008 GAAGCATATC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.56, C:0.21, G:0.04, T:0.19
Consensus pattern (26 bp):
AAACAACAAACCATAAACATGACATT
Found at i:4916988 original size:12 final size:12
Alignment explanation
Indices: 4916971--4916996 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4916961 ATATAAATAC
4916971 AATTAAATTAAA
1 AATTAAATTAAA
4916983 AATTAAATTAAA
1 AATTAAATTAAA
4916995 AA
1 AA
4916997 ACGTACCTCT
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:0.00, T:0.31
Consensus pattern (12 bp):
AATTAAATTAAA
Found at i:4917967 original size:19 final size:19
Alignment explanation
Indices: 4917931--4917968 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
4917921 TTTCAAAAGT
*
4917931 ATTTAAATAAATTTTAATA
1 ATTTAAATAAATTATAATA
4917950 ATTTAAAT-AATATATAATA
1 ATTTAAATAAAT-TATAATA
4917969 TTTTCATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTTAAATAAATTATAATA
Found at i:4918189 original size:24 final size:24
Alignment explanation
Indices: 4918134--4918215 Score: 71
Period size: 24 Copynumber: 3.4 Consensus size: 24
4918124 TTAAATAATC
*
4918134 AAATAA-AAAAATACT-A-AAATA
1 AAATAATAAAAATATTAATAAATA
* * *
4918155 AAATAAGAATAAAATAATTAATTAATT
1 AAATAA-TA-AAAAT-ATTAATAAATA
*
4918182 AAATAATAAAAATTTTAATAAATA
1 AAATAATAAAAATATTAATAAATA
4918206 AAATAATAAA
1 AAATAATAAA
4918216 TTATAAAAAC
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
21 6 0.12
23 1 0.02
24 23 0.48
25 7 0.15
26 2 0.04
27 9 0.19
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.28
Consensus pattern (24 bp):
AAATAATAAAAATATTAATAAATA
Found at i:4918215 original size:8 final size:8
Alignment explanation
Indices: 4918126--4918215 Score: 58
Period size: 8 Copynumber: 11.2 Consensus size: 8
4918116 GTTTAAAATT
*
4918126 AAATAATC
1 AAATAATA
*
4918134 AAATAAAA
1 AAATAATA
*
4918142 AAATACTA
1 AAATAATA
4918150 AAATAA-A
1 AAATAATA
*
4918157 ATAAGAATA
1 A-AATAATA
*
4918166 AAATAATT
1 AAATAATA
* *
4918174 AATTAATT
1 AAATAATA
4918182 AAATAATA
1 AAATAATA
* *
4918190 AAA-ATTT
1 AAATAATA
*
4918197 TAATAAATA
1 AAAT-AATA
4918206 AAATAATA
1 AAATAATA
4918214 AA
1 AA
4918216 TTATAAAAAC
Statistics
Matches: 61, Mismatches: 17, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
7 6 0.10
8 48 0.79
9 7 0.11
ACGTcount: A:0.69, C:0.02, G:0.01, T:0.28
Consensus pattern (8 bp):
AAATAATA
Found at i:4924022 original size:22 final size:22
Alignment explanation
Indices: 4923994--4924043 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
4923984 TTGACCCTTT
4923994 TGCCACTAAGAAAATGATGTCA
1 TGCCACTAAGAAAATGATGTCA
4924016 TGCCACTAAGAAAATGATGTCA
1 TGCCACTAAGAAAATGATGTCA
4924038 TGCCAC
1 TGCCAC
4924044 CAATAGAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (22 bp):
TGCCACTAAGAAAATGATGTCA
Found at i:4927599 original size:21 final size:22
Alignment explanation
Indices: 4927575--4927618 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
4927565 AAACATTTTC
4927575 TTAAGATAATAA-AAATTTATT
1 TTAAGATAATAAGAAATTTATT
* * *
4927596 TTAATATAGTAAGATATTTATT
1 TTAAGATAATAAGAAATTTATT
4927618 T
1 T
4927619 ATTCAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (22 bp):
TTAAGATAATAAGAAATTTATT
Found at i:4927933 original size:20 final size:22
Alignment explanation
Indices: 4927908--4927968 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 22
4927898 ATTTAAACAT
*
4927908 ATAAAATTAAA-ATATAAA-TA
1 ATAAAATTAAATATAAAAAGTA
4927928 ATAAAATTAAATATAAAAAGTA
1 ATAAAATTAAATATAAAAAGTA
4927950 ATAAAACTTATAAT-TAAAA
1 ATAAAA-TTA-AATATAAAA
4927969 TTAGTGACAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
20 11 0.31
21 6 0.17
22 8 0.22
23 8 0.22
24 3 0.08
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (22 bp):
ATAAAATTAAATATAAAAAGTA
Found at i:4929180 original size:3 final size:3
Alignment explanation
Indices: 4929162--4929212 Score: 57
Period size: 3 Copynumber: 16.3 Consensus size: 3
4929152 TTGTAATATT
* * *
4929162 TAA TAAA TAA TAAA TAA TAT TAC TAT TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4929209 TAA T
1 TAA T
4929213 TTTAAATTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
3 36 0.86
4 6 0.14
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:4929833 original size:227 final size:227
Alignment explanation
Indices: 4929373--4930386 Score: 1897
Period size: 227 Copynumber: 4.5 Consensus size: 227
4929363 AGGTCTTAAA
* *
4929373 AAACATCATGCACTGCAGGACTTACAGATGACCCTAGGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
*
4929438 AGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
66 AGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAA
* * *
4929503 AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGAACTTACAGATGACCCTAAGGCTTT
131 AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGC-TT
4929568 GAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
195 GAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
4929601 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
4929666 AGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGC-TTGAAAACATCAA
66 AGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAA
*
4929730 AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTT
131 AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGC-TT
4929795 GAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
195 GAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
4929828 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
*
4929893 AGGCTTTTTGTAAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGC-TTGAAAACATCAA
66 AGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAA
4929957 AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGCTTG
131 AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGCTTG
4930022 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
196 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
4930054 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
*
4930119 AGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
66 AGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAA
4930184 AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGCTTG
131 AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGCTTG
4930249 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
196 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
*
4930281 AAACATCATGCACTTCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
*
4930346 AGGCTTTTTGGAAACATCATGCACTGCAAGACTTACAGATG
66 AGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATG
4930387 TGGGAAATAG
Statistics
Matches: 774, Mismatches: 11, Indels: 3
0.98 0.01 0.00
Matches are distributed among these distances:
226 149 0.19
227 512 0.66
228 113 0.15
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.22
Consensus pattern (227 bp):
AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAA
AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGCTTG
AAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
Found at i:4930412 original size:151 final size:152
Alignment explanation
Indices: 4929373--4930386 Score: 1901
Period size: 151 Copynumber: 6.7 Consensus size: 152
4929363 AGGTCTTAAA
* *
4929373 AAACATCATGCACTGCAGGACTTACAGATGACCCTAGGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
4929438 AGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
66 AGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
4929503 AAAGCTCCCGAAGGCTTTTTGG
131 AAAGCTCCCGAAGGCTTTTTGG
* *
4929525 AAACATCATGCACTGTAGAACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
4929590 AGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
66 AGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
4929655 AAAGCTCCCGAAGGCTTTTTGG
131 AAAGCTCCCGAAGGCTTTTTGG
*
4929677 AAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGC-TTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
4929741 AGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
66 AGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
4929806 AAAGCTCCCGAAGGCTTTTTGG
131 AAAGCTCCCGAAGGCTTTTTGG
4929828 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
* *
4929893 AGGCTTTTTGTAAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGC-TTGAAAACATCAA
66 AGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
4929957 AAAGCTCCCGAAGGCTTTTTGG
131 AAAGCTCCCGAAGGCTTTTTGG
*
4929979 AAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGC-TTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
4930043 AGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
66 AGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
4930108 AAAGCTCCCGAAGGCTTTTTGG
131 AAAGCTCCCGAAGGCTTTTTGG
4930130 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
*
4930195 AGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGC-TTGAAAACATCAA
66 AGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
4930259 AAAGCTCCCGAAGGCTTTTTGG
131 AAAGCTCCCGAAGGCTTTTTGG
*
4930281 AAACATCATGCACTTCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
*
4930346 AGGCTTTTTGGAAACATCATGCACTGCAAGACTTACAGATG
66 AGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATG
4930387 TGGGAAATAG
Statistics
Matches: 842, Mismatches: 17, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
150 73 0.09
151 437 0.52
152 332 0.39
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.22
Consensus pattern (152 bp):
AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
AAAGCTCCCGAAGGCTTTTTGG
Found at i:4930413 original size:76 final size:76
Alignment explanation
Indices: 4929373--4930386 Score: 1901
Period size: 76 Copynumber: 13.4 Consensus size: 76
4929363 AGGTCTTAAA
* *
4929373 AAACATCATGCACTGCAGGACTTACAGATGACCCTAGGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
4929438 AGGCTTTTTGG
66 AGGCTTTTTGG
4929449 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
4929514 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
4929525 AAACATCATGCACTGTAGAACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
4929590 AGGCTTTTTGG
66 AGGCTTTTTGG
4929601 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
4929666 AGGCTTTTTGG
66 AGGCTTTTTGG
*
4929677 AAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGC-TTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
4929741 AGGCTTTTTGG
66 AGGCTTTTTGG
4929752 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
4929817 AGGCTTTTTGG
66 AGGCTTTTTGG
4929828 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
*
4929893 AGGCTTTTTGT
66 AGGCTTTTTGG
*
4929904 AAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGC-TTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
4929968 AGGCTTTTTGG
66 AGGCTTTTTGG
*
4929979 AAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGC-TTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
4930043 AGGCTTTTTGG
66 AGGCTTTTTGG
4930054 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
4930119 AGGCTTTTTGG
66 AGGCTTTTTGG
4930130 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
4930195 AGGCTTTTTGG
66 AGGCTTTTTGG
*
4930206 AAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGC-TTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
4930270 AGGCTTTTTGG
66 AGGCTTTTTGG
*
4930281 AAACATCATGCACTTCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
4930346 AGGCTTTTTGG
66 AGGCTTTTTGG
*
4930357 AAACATCATGCACTGCAAGACTTACAGATG
1 AAACATCATGCACTGCAGGACTTACAGATG
4930387 TGGGAAATAG
Statistics
Matches: 918, Mismatches: 17, Indels: 6
0.98 0.02 0.01
Matches are distributed among these distances:
75 295 0.32
76 623 0.68
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.22
Consensus pattern (76 bp):
AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGG
Found at i:4931088 original size:22 final size:22
Alignment explanation
Indices: 4931063--4931117 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
4931053 TATAAAGCTT
*
4931063 TCATTTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
4931085 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
4931107 TCATCTTTGAA
1 TCATCTTTGAA
4931118 GAGTGTAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:4931570 original size:54 final size:54
Alignment explanation
Indices: 4931483--4931644 Score: 225
Period size: 54 Copynumber: 3.0 Consensus size: 54
4931473 AAAATAGCAG
* * *
4931483 GTTCTTAAAACATTTGACAGCGCATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
* * *
4931537 GTTCGTAAAACATTTGACAACACATTCATCCTTTCTTGTGGTTTCTGCTCAGAC
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
* * * * *
4931591 GTTCGTAAAGCGTTTGACAACACATTCATCCTTTTCTATGGCTTCTGCTAAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
4931645 TTTTCAATCA
Statistics
Matches: 94, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 94 1.00
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
Found at i:4941910 original size:21 final size:22
Alignment explanation
Indices: 4941886--4941929 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
4941876 AAACATTTTC
4941886 TTAAGATAATAA-AAATTTATT
1 TTAAGATAATAAGAAATTTATT
* * *
4941907 TTAATATAGTAAGATATTTATT
1 TTAAGATAATAAGAAATTTATT
4941929 T
1 T
4941930 ATTCAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (22 bp):
TTAAGATAATAAGAAATTTATT
Found at i:4942244 original size:20 final size:22
Alignment explanation
Indices: 4942219--4942266 Score: 73
Period size: 20 Copynumber: 2.3 Consensus size: 22
4942209 ATTTAAACAT
*
4942219 ATAAAATTAAA-ATATAAA-TA
1 ATAAAATTAAATATAAAAAGTA
4942239 ATAAAATTAAATATAAAAAGTA
1 ATAAAATTAAATATAAAAAGTA
4942261 ATAAAA
1 ATAAAA
4942267 CTTATAACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 11 0.44
21 6 0.24
22 8 0.32
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (22 bp):
ATAAAATTAAATATAAAAAGTA
Found at i:4942257 original size:13 final size:14
Alignment explanation
Indices: 4942174--4942256 Score: 59
Period size: 13 Copynumber: 5.9 Consensus size: 14
4942164 ATTTATATGA
*
4942174 ATAAGATAATAATAAA
1 ATAA-ATAATAA-AAT
*
4942190 AT-AATTATAAAA-
1 ATAAATAATAAAAT
4942202 ATAAATAATTTAAACAT
1 ATAAATAA--TAAA-AT
*
4942219 ATAAA-ATTAAAAT
1 ATAAATAATAAAAT
4942232 ATAAATAATAAAAT
1 ATAAATAATAAAAT
4942246 -TAAAT-ATAAAA
1 ATAAATAATAAAA
4942257 AGTAATAAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
12 8 0.14
13 18 0.32
14 17 0.30
15 5 0.09
16 4 0.07
17 5 0.09
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (14 bp):
ATAAATAATAAAAT
Found at i:4942681 original size:20 final size:19
Alignment explanation
Indices: 4942656--4942699 Score: 79
Period size: 20 Copynumber: 2.3 Consensus size: 19
4942646 CTTCTCATTT
4942656 TCTCTCTTCTGGTTCTCTC
1 TCTCTCTTCTGGTTCTCTC
4942675 GTCTCTCTTCTGGTTCTCTC
1 -TCTCTCTTCTGGTTCTCTC
4942695 TCTCT
1 TCTCT
4942700 AACGAGAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.00, C:0.36, G:0.11, T:0.52
Consensus pattern (19 bp):
TCTCTCTTCTGGTTCTCTC
Found at i:4943494 original size:3 final size:3
Alignment explanation
Indices: 4943476--4943559 Score: 96
Period size: 3 Copynumber: 27.3 Consensus size: 3
4943466 TTGTAATATT
* * * *
4943476 TAA TAAA TAA TAAA TAA TAT TAC TAT TAA TAA TAG TAA TAA TAA TAA
1 TAA T-AA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
4943523 TAA TAA TAA TAA TAA TAA TAA TTT TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
4943560 TTTAAATTTA
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
3 63 0.91
4 6 0.09
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:4949203 original size:19 final size:19
Alignment explanation
Indices: 4949181--4949232 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
4949171 CATTATCTTT
4949181 TTAATTTTTAATTATAGTA
1 TTAATTTTTAATTATAGTA
* * *
4949200 TTAAATTTTAATTTTAGTG
1 TTAATTTTTAATTATAGTA
* *
4949219 TAAATTTTTTATTA
1 TTAATTTTTAATTA
4949233 CAAGTGTGTA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.60
Consensus pattern (19 bp):
TTAATTTTTAATTATAGTA
Found at i:4951582 original size:19 final size:19
Alignment explanation
Indices: 4951555--4951592 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
4951545 AAGAAAAAGA
4951555 AAATATTTAGAATTATAAT
1 AAATATTTAGAATTATAAT
* *
4951574 AAATGTTTATAATTATAAT
1 AAATATTTAGAATTATAAT
4951593 CGTAAACTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (19 bp):
AAATATTTAGAATTATAAT
Found at i:4962046 original size:2 final size:2
Alignment explanation
Indices: 4962039--4962068 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4962029 TACATGTTGC
4962039 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4962069 GAAATTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4962207 original size:19 final size:19
Alignment explanation
Indices: 4962179--4962217 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
4962169 CCTTTCCCCC
*
4962179 TTGTTTCAGGCTTCCAGCG
1 TTGTTCCAGGCTTCCAGCG
*
4962198 TTGTTCCAGGCTTCTAGCG
1 TTGTTCCAGGCTTCCAGCG
4962217 T
1 T
4962218 GATAAGGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.10, C:0.26, G:0.26, T:0.38
Consensus pattern (19 bp):
TTGTTCCAGGCTTCCAGCG
Found at i:4962509 original size:56 final size:56
Alignment explanation
Indices: 4962423--4962535 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
4962413 AGGGCGACCC
4962423 TCCCAACCCAGTTTGCTCTATTCGCAAACGCCATAATTCGAACCCCTGACCTTGCT
1 TCCCAACCCAGTTTGCTCTATTCGCAAACGCCATAATTCGAACCCCTGACCTTGCT
4962479 TCCCAACCCAGTTTGCTCTATTCGCAAACGCCATAATTCGAACCCCTGACCTTGCT
1 TCCCAACCCAGTTTGCTCTATTCGCAAACGCCATAATTCGAACCCCTGACCTTGCT
4962535 T
1 T
4962536 AAAGGACCTA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.23, C:0.37, G:0.12, T:0.27
Consensus pattern (56 bp):
TCCCAACCCAGTTTGCTCTATTCGCAAACGCCATAATTCGAACCCCTGACCTTGCT
Found at i:4965043 original size:65 final size:64
Alignment explanation
Indices: 4964909--4965061 Score: 220
Period size: 65 Copynumber: 2.4 Consensus size: 64
4964899 TGCACTAAGG
* * * *
4964909 GTGCATCAATGCATAAAATGCATTCTATGTTTTAAAATAGCCTGAGTGCATCGATGCATGGCTT
1 GTGCATCGATGCATAAAATGCATTCAATGTTTTAAAATAACCGGAGTGCATCGATGCATGGCTT
*
4964973 GTGCATCGATGCATAAAATACATTCAATGTTTTCATAAA-AACCGGAGTGCATCGATGCATGG-T
1 GTGCATCGATGCATAAAATGCATTCAATGTTTT-A-AAATAACCGGAGTGCATCGATGCATGGCT
4965036 AT
64 -T
4965038 GTGCATCGATGCATAAAATGCATT
1 GTGCATCGATGCATAAAATGCATT
4965062 ATATGTTCAA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
64 31 0.39
65 46 0.57
66 3 0.04
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATAAAATGCATTCAATGTTTTAAAATAACCGGAGTGCATCGATGCATGGCTT
Found at i:4972315 original size:19 final size:20
Alignment explanation
Indices: 4972272--4972319 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
4972262 TCTAAATCCT
*
4972272 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
4972292 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
4972311 TTTTCAAAA
1 TTTTCAAAA
4972320 GAAAATCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:4973794 original size:65 final size:64
Alignment explanation
Indices: 4973660--4973819 Score: 216
Period size: 65 Copynumber: 2.5 Consensus size: 64
4973650 TGCACTAAGG
* **
4973660 GTGCATCGATGCATAAAAAGCATTCGATGTTTTAAAATAGCTTAAGTGCATCGATGCATGGCTT
1 GTGCATCGATGCATAAAAAGCATTCGATGTTTTAAAATAACCGAAGTGCATCGATGCATGGCTT
* * *
4973724 GTGCATCCATGCATAAAACGCATTCGATGTTTTCATAAA-AACCGGAGTGCATCGATGCATGG-T
1 GTGCATCGATGCATAAAAAGCATTCGATGTTTT-A-AAATAACCGAAGTGCATCGATGCATGGCT
4973787 AT
64 -T
*
4973789 GTGCATCGATGCATAAAATGCATTCGATGTT
1 GTGCATCGATGCATAAAAAGCATTCGATGTT
4973820 CAATTTATTC
Statistics
Matches: 85, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
64 32 0.38
65 50 0.59
66 3 0.04
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (64 bp):
GTGCATCGATGCATAAAAAGCATTCGATGTTTTAAAATAACCGAAGTGCATCGATGCATGGCTT
Found at i:4973858 original size:65 final size:60
Alignment explanation
Indices: 4973660--4973861 Score: 167
Period size: 65 Copynumber: 3.1 Consensus size: 60
4973650 TGCACTAAGG
**
4973660 GTGCATCGATGCATAAAAAGCATTCGATGTTTTAAAATAGCTTAA-GTGCATCGATGCATGGCTT
1 GTGCATCGATGCATAAAAAGCATTCGATG--TTAATTTA--TTAAGGTGCATCGATGCATGG-TT
* * **
4973724 GTGCATCCATGCATAAAACGCATTCGATGTT--TTCATAAAAACCGGAGTGCATCGATGCATGGT
1 GTGCATCGATGCATAAAAAGCATTCGATGTTAATT--TATTAA---G-GTGCATCGATGCATGGT
4973787 AT
60 -T
*
4973789 GTGCATCGATGCATAAAATGCATTCGATGTTCAATTTATTCAATGGTGCATCGATGCATGGATT
1 GTGCATCGATGCATAAAAAGCATTCGATGTT-AATTTATT-AA-GGTGCATCGATGCATGG-TT
4973853 GGTGCATCG
1 -GTGCATCG
4973862 GTACACTCTT
Statistics
Matches: 113, Mismatches: 11, Indels: 27
0.75 0.07 0.18
Matches are distributed among these distances:
60 2 0.02
62 4 0.04
64 45 0.40
65 56 0.50
66 2 0.02
67 2 0.02
68 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (60 bp):
GTGCATCGATGCATAAAAAGCATTCGATGTTAATTTATTAAGGTGCATCGATGCATGGTT
Found at i:4975087 original size:25 final size:24
Alignment explanation
Indices: 4975030--4975094 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 24
4975020 TCCACTTATT
* * * *
4975030 TTTTTAATTATATAATATATATTA
1 TTTTTATTTATATAGTATAAAATA
4975054 TTTTATATTTATATAGTATACAAATA
1 TTTT-TATTTATATAGTATA-AAATA
*
4975080 TTTTTATTTTTATAG
1 TTTTTATTTATATAG
4975095 ATTAGGTTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
24 4 0.12
25 23 0.68
26 7 0.21
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (24 bp):
TTTTTATTTATATAGTATAAAATA
Found at i:4981875 original size:16 final size:16
Alignment explanation
Indices: 4981854--4981886 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
4981844 CTCGCACTTC
4981854 CCTCATTGACCTATTA
1 CCTCATTGACCTATTA
4981870 CCTCATTGACCTATTA
1 CCTCATTGACCTATTA
4981886 C
1 C
4981887 AAATAGTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.33, G:0.06, T:0.36
Consensus pattern (16 bp):
CCTCATTGACCTATTA
Found at i:4987387 original size:24 final size:23
Alignment explanation
Indices: 4987353--4987416 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
4987343 CATTTAAACG
4987353 ATAAACGAACACAAAAGAATGAAC
1 ATAAACGAACACAAAA-AATGAAC
* * * *
4987377 ATAAACTAACATAATAAATGAAT
1 ATAAACGAACACAAAAAATGAAC
4987400 ATAAACGACAACACAAA
1 ATAAACG--AACACAAA
4987417 CACAAAAAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
23 12 0.39
24 13 0.42
25 6 0.19
ACGTcount: A:0.62, C:0.16, G:0.08, T:0.14
Consensus pattern (23 bp):
ATAAACGAACACAAAAAATGAAC
Found at i:4993190 original size:15 final size:15
Alignment explanation
Indices: 4993170--4993199 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4993160 ATACCTCCCT
*
4993170 TATGGTATCGGTACC
1 TATGGTATCGATACC
4993185 TATGGTATCGATACC
1 TATGGTATCGATACC
4993200 ACCTTCCCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.33
Consensus pattern (15 bp):
TATGGTATCGATACC
Found at i:4994992 original size:14 final size:14
Alignment explanation
Indices: 4994975--4995063 Score: 77
Period size: 14 Copynumber: 6.9 Consensus size: 14
4994965 GATTGGGTTA
4994975 AACATAAATGAACG
1 AACATAAATGAACG
4994989 AACAT--A--AACG
1 AACATAAATGAACG
**
4994999 AACATAACCGAACG
1 AACATAAATGAACG
*
4995013 AATATAAAT----G
1 AACATAAATGAACG
*
4995023 AACATAAATGAATG
1 AACATAAATGAACG
4995037 AACATAAATGAACG
1 AACATAAATGAACG
*
4995051 AACATAAACGAAC
1 AACATAAATGAAC
4995064 ATATAACTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 16
0.72 0.08 0.19
Matches are distributed among these distances:
10 18 0.30
12 1 0.02
14 41 0.68
ACGTcount: A:0.57, C:0.16, G:0.12, T:0.15
Consensus pattern (14 bp):
AACATAAATGAACG
Found at i:4995011 original size:24 final size:24
Alignment explanation
Indices: 4994975--4995075 Score: 105
Period size: 24 Copynumber: 4.1 Consensus size: 24
4994965 GATTGGGTTA
*
4994975 AACATAAATGAACGAACATAAACG
1 AACATAAATGAACGAACATAAATG
** *
4994999 AACATAACCGAACGAATATAAATG
1 AACATAAATGAACGAACATAAATG
*
4995023 AACATAAATGAATGAACATAAATG
1 AACATAAATGAACGAACATAAATG
* *
4995047 AACGA-ACATAAACGAACATATAACTG
1 AAC-ATAAATGAACGAACATA-AA-TG
4995073 AAC
1 AAC
4995076 GTCAACGAAC
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
24 55 0.87
25 3 0.05
26 5 0.08
ACGTcount: A:0.56, C:0.16, G:0.12, T:0.16
Consensus pattern (24 bp):
AACATAAATGAACGAACATAAATG
Found at i:4995416 original size:13 final size:12
Alignment explanation
Indices: 4995398--4995432 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
4995388 TAATATCTGG
4995398 TTTAATCTTAAAT
1 TTTAAT-TTAAAT
*
4995411 TTTAATTAAAAT
1 TTTAATTTAAAT
4995423 TTTAATTTAA
1 TTTAATTTAA
4995433 TTTCTCTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 14 0.70
13 6 0.30
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (12 bp):
TTTAATTTAAAT
Found at i:5000066 original size:41 final size:41
Alignment explanation
Indices: 5000009--5000088 Score: 151
Period size: 41 Copynumber: 2.0 Consensus size: 41
4999999 ATTGAGGAAC
*
5000009 ATTGACCAGAATGTCACACTAGTCATCTTAATATTCTTTCT
1 ATTGACCAGAATGTCACACTAGTCATCTTAATATCCTTTCT
5000050 ATTGACCAGAATGTCACACTAGTCATCTTAATATCCTTT
1 ATTGACCAGAATGTCACACTAGTCATCTTAATATCCTTT
5000089 ATTATCTCAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.38
Consensus pattern (41 bp):
ATTGACCAGAATGTCACACTAGTCATCTTAATATCCTTTCT
Found at i:5002370 original size:17 final size:18
Alignment explanation
Indices: 5002345--5002390 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
5002335 TTCATAATTG
5002345 TTTTT-AAATTATAT-TA
1 TTTTTAAAATTATATATA
5002361 TTTTTAAAATATATATATA
1 TTTTTAAAAT-TATATATA
* *
5002380 ATTCTAAAATT
1 TTTTTAAAATT
5002391 TAAATTTCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 5 0.20
17 4 0.16
18 6 0.24
19 10 0.40
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTTTAAAATTATATATA
Found at i:5002565 original size:15 final size:16
Alignment explanation
Indices: 5002541--5002593 Score: 58
Period size: 15 Copynumber: 3.4 Consensus size: 16
5002531 AATTTGAAAT
5002541 AATTTAAGAAATTTAA
1 AATTTAAGAAATTTAA
*
5002557 AATTT-AG-AATGTTAT
1 AATTTAAGAAAT-TTAA
5002572 AATTTAAGAAA-TTAA
1 AATTTAAGAAATTTAA
5002587 GAATTTA
1 -AATTTA
5002594 GAATGTTAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
14 3 0.10
15 13 0.42
16 13 0.42
17 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (16 bp):
AATTTAAGAAATTTAA
Found at i:5002568 original size:39 final size:38
Alignment explanation
Indices: 5002516--5002627 Score: 116
Period size: 31 Copynumber: 3.1 Consensus size: 38
5002506 ATATTTAAAA
5002516 AAAATTTAGAATGTTAATTTGAAATAATTTAAGAAATTT
1 AAAATTTAGAATGTTAA-TTGAAATAATTTAAGAAATTT
5002555 AAAATTTAGAATG----TT---ATAATTTAAGAAA-TT
1 AAAATTTAGAATGTTAATTGAAATAATTTAAGAAATTT
*
5002585 AAGAATTTAGAATGTTAGAGTGAAATAATTTAA-AAATTAT
1 AA-AATTTAGAATGTTA-ATTGAAATAATTTAAGAAATT-T
5002625 AAA
1 AAA
5002628 TAAACATTTA
Statistics
Matches: 61, Mismatches: 1, Indels: 22
0.73 0.01 0.26
Matches are distributed among these distances:
30 4 0.07
31 24 0.39
34 2 0.03
36 1 0.02
38 3 0.05
39 24 0.39
40 3 0.05
ACGTcount: A:0.51, C:0.00, G:0.12, T:0.38
Consensus pattern (38 bp):
AAAATTTAGAATGTTAATTGAAATAATTTAAGAAATTT
Found at i:5003177 original size:5 final size:5
Alignment explanation
Indices: 5003167--5003224 Score: 116
Period size: 5 Copynumber: 11.6 Consensus size: 5
5003157 CATCTTCTCC
5003167 TTTGT TTTGT TTTGT TTTGT TTTGT TTTGT TTTGT TTTGT TTTGT TTTGT
1 TTTGT TTTGT TTTGT TTTGT TTTGT TTTGT TTTGT TTTGT TTTGT TTTGT
5003217 TTTGT TTT
1 TTTGT TTT
5003225 TTTGAATTGG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 53 1.00
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (5 bp):
TTTGT
Found at i:5005814 original size:21 final size:20
Alignment explanation
Indices: 5005781--5005820 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
5005771 TTTTAAATTA
*
5005781 AAACTTTTCAATTTACTCATT
1 AAACTTTGCAA-TTACTCATT
*
5005802 AAACTTTGGAATTACTCAT
1 AAACTTTGCAATTACTCAT
5005821 AGTTTGGTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.35, C:0.17, G:0.05, T:0.42
Consensus pattern (20 bp):
AAACTTTGCAATTACTCATT
Found at i:5007445 original size:46 final size:47
Alignment explanation
Indices: 5007378--5007469 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
5007368 AGCATTATCA
5007378 ATAATTAAAAAATACTCAAT-AAATATTATTTTTTAATCATTCATTG
1 ATAATTAAAAAATACTCAATAAAATATTATTTTTTAATCATTCATTG
5007424 ATAATTAAAAAATACTCAATAAAATATTATTTTTTAATCATTCATT
1 ATAATTAAAAAATACTCAATAAAATATTATTTTTTAATCATTCATT
5007470 ACTAAAAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 20 0.44
47 25 0.56
ACGTcount: A:0.47, C:0.09, G:0.01, T:0.43
Consensus pattern (47 bp):
ATAATTAAAAAATACTCAATAAAATATTATTTTTTAATCATTCATTG
Found at i:5008047 original size:14 final size:14
Alignment explanation
Indices: 5008027--5008095 Score: 95
Period size: 14 Copynumber: 4.9 Consensus size: 14
5008017 TCGATAATAT
5008027 GTTCGTTTATGTTC
1 GTTCGTTTATGTTC
*
5008041 ATTCGTTTATGTTC
1 GTTCGTTTATGTTC
*
5008055 GTTCATTTATGTTC
1 GTTCGTTTATGTTC
5008069 GTTCGTTTATGTGT-
1 GTTCGTTTATGT-TC
*
5008083 GTTCATTTATGTT
1 GTTCGTTTATGTT
5008096 TAGCCTAATA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
13 1 0.02
14 47 0.96
15 1 0.02
ACGTcount: A:0.12, C:0.12, G:0.19, T:0.58
Consensus pattern (14 bp):
GTTCGTTTATGTTC
Found at i:5008063 original size:28 final size:28
Alignment explanation
Indices: 5008026--5008095 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
5008016 TTCGATAATA
*
5008026 TGTTCGTTTATGTTCATTCGTTTATGT-
1 TGTTCATTTATGTTCATTCGTTTATGTG
*
5008053 TCGTTCATTTATGTTCGTTCGTTTATGTG
1 T-GTTCATTTATGTTCATTCGTTTATGTG
5008082 TGTTCATTTATGTT
1 TGTTCATTTATGTT
5008096 TAGCCTAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
27 1 0.03
28 37 0.95
29 1 0.03
ACGTcount: A:0.11, C:0.11, G:0.19, T:0.59
Consensus pattern (28 bp):
TGTTCATTTATGTTCATTCGTTTATGTG
Found at i:5008341 original size:24 final size:24
Alignment explanation
Indices: 5008308--5008375 Score: 118
Period size: 24 Copynumber: 2.8 Consensus size: 24
5008298 TTATTGTGTT
*
5008308 CGTTCGTTTGTGTTCGTTTACATC
1 CGTTCATTTGTGTTCGTTTACATC
5008332 CGTTCATTTGTGTTCGTTTACATC
1 CGTTCATTTGTGTTCGTTTACATC
*
5008356 CGTTCATTTATGTTCGTTTA
1 CGTTCATTTGTGTTCGTTTA
5008376 ACGAACATGA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.12, C:0.19, G:0.18, T:0.51
Consensus pattern (24 bp):
CGTTCATTTGTGTTCGTTTACATC
Found at i:5012134 original size:15 final size:15
Alignment explanation
Indices: 5012114--5012144 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
5012104 TAAGACCAAT
5012114 CCCTAAGCCTAGTTA
1 CCCTAAGCCTAGTTA
5012129 CCCTAAGCCTAGTTA
1 CCCTAAGCCTAGTTA
5012144 C
1 C
5012145 GAATCACTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.35, G:0.13, T:0.26
Consensus pattern (15 bp):
CCCTAAGCCTAGTTA
Found at i:5012298 original size:20 final size:20
Alignment explanation
Indices: 5012255--5012298 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
5012245 TTCAAGTCAC
**
5012255 CACCATACCCTGCTGCCAGT
1 CACCATACCCTGCTGCCAAA
5012275 CACCATACCCTGCT-CCACAA
1 CACCATACCCTGCTGCCA-AA
5012295 CACC
1 CACC
5012299 GTCACGCCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.25, C:0.50, G:0.09, T:0.16
Consensus pattern (20 bp):
CACCATACCCTGCTGCCAAA
Found at i:5013839 original size:15 final size:15
Alignment explanation
Indices: 5013821--5013869 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
5013811 ATTTTAGTTA
*
5013821 TTTATTTTTCAGCAC
1 TTTATTTTCCAGCAC
** *
5013836 TTTAAATTCCAGCAT
1 TTTATTTTCCAGCAC
*
5013851 TTTATTTTCCAGCCC
1 TTTATTTTCCAGCAC
5013866 TTTA
1 TTTA
5013870 ACTTGTTAGC
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.22, C:0.22, G:0.06, T:0.49
Consensus pattern (15 bp):
TTTATTTTCCAGCAC
Found at i:5013856 original size:30 final size:31
Alignment explanation
Indices: 5013821--5013894 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 31
5013811 ATTTTAGTTA
5013821 TTTATTTTTCAGCACTTTAAATT-CCAGCAT
1 TTTATTTTTCAGCACTTTAAATTGCCAGCAT
* * * **
5013851 TTTATTTTCCAGCCCTTTAACTTGTTAGCAT
1 TTTATTTTTCAGCACTTTAAATTGCCAGCAT
5013882 TTTATTATTTCAG
1 TTTATT-TTTCAG
5013895 TCCTTAATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
30 20 0.56
31 11 0.31
32 5 0.14
ACGTcount: A:0.23, C:0.19, G:0.08, T:0.50
Consensus pattern (31 bp):
TTTATTTTTCAGCACTTTAAATTGCCAGCAT
Found at i:5020436 original size:22 final size:21
Alignment explanation
Indices: 5020393--5020462 Score: 83
Period size: 22 Copynumber: 3.4 Consensus size: 21
5020383 ATATTCGTCT
5020393 CGAAGGACCAC---TATGTCC
1 CGAAGGACCACTGATATGTCC
*
5020411 CGAAGGACCACTAGATATGTCT
1 CGAAGGACCACT-GATATGTCC
*
5020433 CGAAGGACCACTGGATACGTCC
1 CGAAGGACCACT-GATATGTCC
5020455 CGAAGGAC
1 CGAAGGAC
5020463 TAATATACCC
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
18 11 0.25
22 33 0.75
ACGTcount: A:0.30, C:0.29, G:0.26, T:0.16
Consensus pattern (21 bp):
CGAAGGACCACTGATATGTCC
Found at i:5021359 original size:2 final size:2
Alignment explanation
Indices: 5021352--5021402 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
5021342 TACAAATTCC
5021352 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
5021394 TA TA TA TA T
1 TA TA TA TA T
5021403 CTAACTCATG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5022130 original size:64 final size:64
Alignment explanation
Indices: 5022021--5022179 Score: 146
Period size: 64 Copynumber: 2.5 Consensus size: 64
5022011 TTGACGGGTG
** * * * *
5022021 CATCGATGCACTACCCATGCATTGGTGCATAAATCCTATTTGATGTT-TGT-ATTTTAA-GCAGG
1 CATCGATGCACTACTTATGCATCGATGCATAAATCCTATTCGATGTTAT-TAATTTAAATG-A-G
5022083 TA
63 TA
* *
5022085 CATCGATGCACTTCTTATGCATCGATGCATAAATGGC-ATTCGATGTTCAATTAATTTAAATGAG
1 CATCGATGCACTACTTATGCATCGATGCATAAAT-CCTATTCGATGTT--ATTAATTTAAATGAG
*
5022149 TG
63 TA
*
5022151 CATCGATGCACTCCTTATGCATCGATGCA
1 CATCGATGCACTACTTATGCATCGATGCA
5022180 CCTTCAACAA
Statistics
Matches: 79, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
64 38 0.48
65 1 0.01
66 31 0.39
67 8 0.10
68 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (64 bp):
CATCGATGCACTACTTATGCATCGATGCATAAATCCTATTCGATGTTATTAATTTAAATGAGTA
Found at i:5023424 original size:181 final size:181
Alignment explanation
Indices: 5023120--5024564 Score: 2780
Period size: 181 Copynumber: 8.0 Consensus size: 181
5023110 TTGAGCCAAA
*
5023120 AATGTATTTTTTACTATGATAAAGAAATATTTGTACAAAAGAATAGCCATTGAAAGAACATAATT
1 AATGTATTTTTTACTATGATAAAGAAATATTTGTACAAAAGAATAGCCATTGAAAGAATATAATT
5023185 CCCCCCTCATAATTGATTATGTACATTGAAGTAAACCAATGAAGATTTATTATAGTAACTAATTA
66 CCCCCCTCATAATTGATTATGTACATTGAAGTAAACCAATGAAGATTTATTATAGTAACTAATTA
*
5023250 TGTACAAAAGTATAATTTCTTCATTTCATTACAATTTCATTTACAACCTAT
131 TGTACAAAAGTATAATTTCTTCATTTCATTACAGTTTCATTTACAACCTAT
5023301 AATGTATTTTTTACTATGATAAAGAAATATTTGTACAAAAGAATAGCCATTGAAAGAATATAATT
1 AATGTATTTTTTACTATGATAAAGAAATATTTGTACAAAAGAATAGCCATTGAAAGAATATAATT
5023366 CCCCCCTCATAATTGATTATGTACATTGAAGTAAACCAATGAAGATTTATTATAGTAACTAATTA
66 CCCCCCTCATAATTGATTATGTACATTGAAGTAAACCAATGAAGATTTATTATAGTAACTAATTA
5023431 TGTACAAAAGTATAATTTCTTCATTTCATTACAGTTTCATTTACAACCTAT
131 TGTACAAAAGTATAATTTCTTCATTTCATTACAGTTTCATTTACAACCTAT
5023482 AATGTATTTTTTACTATGATAAAGAAATATTTGTACAAAAGAATAGCCATTGAAAGAATATAATT
1 AATGTATTTTTTACTATGATAAAGAAATATTTGTACAAAAGAATAGCCATTGAAAGAATATAATT
5023547 CCCCCCTCATAATTGATTATGTACATTGAAGTAAACCAATGAAGATTTATTATAGTAACTAATTA
66 CCCCCCTCATAATTGATTATGTACATTGAAGTAAACCAATGAAGATTTATTATAGTAACTAATTA
5023612 TGTACAAAAGTATAA-TTCTTCATTTCATTACAGTTTCATTTACAACCTAT
131 TGTACAAAAGTATAATTTCTTCATTTCATTACAGTTTCATTTACAACCTAT
*
5023662 AATGTATTTTTTACTATGATAAAGAAATATTTGTACAAAAGAATAGCCATTGAAAGAATATAGTT
1 AATGTATTTTTTACTATGATAAAGAAATATTTGTACAAAAGAATAGCCATTGAAAGAATATAATT
5023727 CCCCCCTCATAATTGATTATGTACATTGAAGTAAACCAATGAAGATTTATTATAGTAACTAATTA
66 CCCCCCTCATAATTGATTATGTACATTGAAGTAAACCAATGAAGATTTATTATAGTAACTAATTA
5023792 TGTACAAAAGTATAATTTCTTCATTTCATTACAGTTTCATTTACAACCTAT
131 TGTACAAAAGTATAATTTCTTCATTTCATTACAGTTTCATTTACAACCTAT
5023843 AATGTATTTTTTACTATGATAAAGAAATATTTGTACAAAAGAATAGCCATTGAAAGAATATAATT
1 AATGTATTTTTTACTATGATAAAGAAATATTTGTACAAAAGAATAGCCATTGAAAGAATATAATT
5023908 CCCCCCTCATAATTGATTATGT--ATTGAAGTAAACCAATGAAGATTTATTATAGTAACTAATTA
66 CCCCCCTCATAATTGATTATGTACATTGAAGTAAACCAATGAAGATTTATTATAGTAACTAATTA
5023971 TGTACAAAAGTATAATTTCTTCATTTCATTACAGTTTCATTTACAACCTAT
131 TGTACAAAAGTATAATTTCTTCATTTCATTACAGTTTCATTTACAACCTAT
5024022 AATGTATTTTTTACTATGATAAAGAAATATTTGTACAAAAGAATAGCCATTGAAAGAATATAATT
1 AATGTATTTTTTACTATGATAAAGAAATATTTGTACAAAAGAATAGCCATTGAAAGAATATAATT
5024087 CCCCCCTCATAATTGATTATGTACATTGAAGTAAACCAATGAAGATTTATTATAGTAACTAATTA
66 CCCCCCTCATAATTGATTATGTACATTGAAGTAAACCAATGAAGATTTATTATAGTAACTAATTA
5024152 TGTACAAAAGTATAATTTCTTCATTTCATTACAGTTTCATTTACAACCTAT
131 TGTACAAAAGTATAATTTCTTCATTTCATTACAGTTTCATTTACAACCTAT
5024203 AATGTA--TTTTACTATGATAAAGAAATATTTGTACAAAAGAATAGCCATTGAAAGAATATAATT
1 AATGTATTTTTTACTATGATAAAGAAATATTTGTACAAAAGAATAGCCATTGAAAGAATATAATT
5024266 -CCCCCTCATAATTGATTATGTACATTGAAGTAAACCAATGAAGATTTATTATAGTAACTAATTA
66 CCCCCCTCATAATTGATTATGTACATTGAAGTAAACCAATGAAGATTTATTATAGTAACTAATTA
5024330 TGTACAAAAGTATAATTTCTTCATTTCATTACAGTTTCATTTACAACCTAT
131 TGTACAAAAGTATAATTTCTTCATTTCATTACAGTTTCATTTACAACCTAT
*
5024381 AATGTATTTTTTACTATGATAAAGAAATATTTGTTCAAAAGAATAGCCATTGAAAGAATATAATT
1 AATGTATTTTTTACTATGATAAAGAAATATTTGTACAAAAGAATAGCCATTGAAAGAATATAATT
*
5024446 -CCCCC-CATAATTGATTATGTACATTGAAGTAAACCAATGAAGATTTATTGTAGTAACTAATTA
66 CCCCCCTCATAATTGATTATGTACATTGAAGTAAACCAATGAAGATTTATTATAGTAACTAATTA
*
5024509 TGTACAAAAGTATAATTTCTTCATTTCATTACAATTTCATTTACAACCTAT
131 TGTACAAAAGTATAATTTCTTCATTTCATTACAGTTTCATTTACAACCTAT
5024560 AATGT
1 AATGT
5024565 TATCTACAAC
Statistics
Matches: 1252, Mismatches: 7, Indels: 12
0.99 0.01 0.01
Matches are distributed among these distances:
178 121 0.10
179 348 0.28
180 240 0.19
181 543 0.43
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (181 bp):
AATGTATTTTTTACTATGATAAAGAAATATTTGTACAAAAGAATAGCCATTGAAAGAATATAATT
CCCCCCTCATAATTGATTATGTACATTGAAGTAAACCAATGAAGATTTATTATAGTAACTAATTA
TGTACAAAAGTATAATTTCTTCATTTCATTACAGTTTCATTTACAACCTAT
Found at i:5023785 original size:361 final size:362
Alignment explanation
Indices: 5023120--5024564 Score: 2780
Period size: 361 Copynumber: 4.0 Consensus size: 362
5023110 TTGAGCCAAA
*
5023120 AATGTATTTTTTACTATGATAAAGAAATATTTGTACAAAAGAATAGCCATTGAAAGAACATAATT
1 AATGTATTTTTTACTATGATAAAGAAATATTTGTACAAAAGAATAGCCATTGAAAGAATATAATT
5023185 CCCCCCTCATAATTGATTATGTACATTGAAGTAAACCAATGAAGATTTATTATAGTAACTAATTA
66 CCCCCCTCATAATTGATTATGTACATTGAAGTAAACCAATGAAGATTTATTATAGTAACTAATTA
*
5023250 TGTACAAAAGTATAATTTCTTCATTTCATTACAATTTCATTTACAACCTATAATGTATTTTTTAC
131 TGTACAAAAGTATAATTTCTTCATTTCATTACAGTTTCATTTACAACCTATAATGTATTTTTTAC
5023315 TATGATAAAGAAATATTTGTACAAAAGAATAGCCATTGAAAGAATATAATTCCCCCCTCATAATT
196 TATGATAAAGAAATATTTGTACAAAAGAATAGCCATTGAAAGAATATAATTCCCCCCTCATAATT
5023380 GATTATGTACATTGAAGTAAACCAATGAAGATTTATTATAGTAACTAATTATGTACAAAAGTATA
261 GATTATGTACATTGAAGTAAACCAATGAAGATTTATTATAGTAACTAATTATGTACAAAAGTATA
5023445 ATTTCTTCATTTCATTACAGTTTCATTTACAACCTAT
326 ATTTCTTCATTTCATTACAGTTTCATTTACAACCTAT
5023482 AATGTATTTTTTACTATGATAAAGAAATATTTGTACAAAAGAATAGCCATTGAAAGAATATAATT
1 AATGTATTTTTTACTATGATAAAGAAATATTTGTACAAAAGAATAGCCATTGAAAGAATATAATT
5023547 CCCCCCTCATAATTGATTATGTACATTGAAGTAAACCAATGAAGATTTATTATAGTAACTAATTA
66 CCCCCCTCATAATTGATTATGTACATTGAAGTAAACCAATGAAGATTTATTATAGTAACTAATTA
5023612 TGTACAAAAGTATAA-TTCTTCATTTCATTACAGTTTCATTTACAACCTATAATGTATTTTTTAC
131 TGTACAAAAGTATAATTTCTTCATTTCATTACAGTTTCATTTACAACCTATAATGTATTTTTTAC
*
5023676 TATGATAAAGAAATATTTGTACAAAAGAATAGCCATTGAAAGAATATAGTTCCCCCCTCATAATT
196 TATGATAAAGAAATATTTGTACAAAAGAATAGCCATTGAAAGAATATAATTCCCCCCTCATAATT
5023741 GATTATGTACATTGAAGTAAACCAATGAAGATTTATTATAGTAACTAATTATGTACAAAAGTATA
261 GATTATGTACATTGAAGTAAACCAATGAAGATTTATTATAGTAACTAATTATGTACAAAAGTATA
5023806 ATTTCTTCATTTCATTACAGTTTCATTTACAACCTAT
326 ATTTCTTCATTTCATTACAGTTTCATTTACAACCTAT
5023843 AATGTATTTTTTACTATGATAAAGAAATATTTGTACAAAAGAATAGCCATTGAAAGAATATAATT
1 AATGTATTTTTTACTATGATAAAGAAATATTTGTACAAAAGAATAGCCATTGAAAGAATATAATT
5023908 CCCCCCTCATAATTGATTATGT--ATTGAAGTAAACCAATGAAGATTTATTATAGTAACTAATTA
66 CCCCCCTCATAATTGATTATGTACATTGAAGTAAACCAATGAAGATTTATTATAGTAACTAATTA
5023971 TGTACAAAAGTATAATTTCTTCATTTCATTACAGTTTCATTTACAACCTATAATGTATTTTTTAC
131 TGTACAAAAGTATAATTTCTTCATTTCATTACAGTTTCATTTACAACCTATAATGTATTTTTTAC
5024036 TATGATAAAGAAATATTTGTACAAAAGAATAGCCATTGAAAGAATATAATTCCCCCCTCATAATT
196 TATGATAAAGAAATATTTGTACAAAAGAATAGCCATTGAAAGAATATAATTCCCCCCTCATAATT
5024101 GATTATGTACATTGAAGTAAACCAATGAAGATTTATTATAGTAACTAATTATGTACAAAAGTATA
261 GATTATGTACATTGAAGTAAACCAATGAAGATTTATTATAGTAACTAATTATGTACAAAAGTATA
5024166 ATTTCTTCATTTCATTACAGTTTCATTTACAACCTAT
326 ATTTCTTCATTTCATTACAGTTTCATTTACAACCTAT
5024203 AATGTA--TTTTACTATGATAAAGAAATATTTGTACAAAAGAATAGCCATTGAAAGAATATAATT
1 AATGTATTTTTTACTATGATAAAGAAATATTTGTACAAAAGAATAGCCATTGAAAGAATATAATT
5024266 -CCCCCTCATAATTGATTATGTACATTGAAGTAAACCAATGAAGATTTATTATAGTAACTAATTA
66 CCCCCCTCATAATTGATTATGTACATTGAAGTAAACCAATGAAGATTTATTATAGTAACTAATTA
5024330 TGTACAAAAGTATAATTTCTTCATTTCATTACAGTTTCATTTACAACCTATAATGTATTTTTTAC
131 TGTACAAAAGTATAATTTCTTCATTTCATTACAGTTTCATTTACAACCTATAATGTATTTTTTAC
*
5024395 TATGATAAAGAAATATTTGTTCAAAAGAATAGCCATTGAAAGAATATAATT-CCCCC-CATAATT
196 TATGATAAAGAAATATTTGTACAAAAGAATAGCCATTGAAAGAATATAATTCCCCCCTCATAATT
*
5024458 GATTATGTACATTGAAGTAAACCAATGAAGATTTATTGTAGTAACTAATTATGTACAAAAGTATA
261 GATTATGTACATTGAAGTAAACCAATGAAGATTTATTATAGTAACTAATTATGTACAAAAGTATA
*
5024523 ATTTCTTCATTTCATTACAATTTCATTTACAACCTAT
326 ATTTCTTCATTTCATTACAGTTTCATTTACAACCTAT
5024560 AATGT
1 AATGT
5024565 TATCTACAAC
Statistics
Matches: 1073, Mismatches: 7, Indels: 11
0.98 0.01 0.01
Matches are distributed among these distances:
357 133 0.12
358 62 0.06
359 212 0.20
360 221 0.21
361 301 0.28
362 144 0.13
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (362 bp):
AATGTATTTTTTACTATGATAAAGAAATATTTGTACAAAAGAATAGCCATTGAAAGAATATAATT
CCCCCCTCATAATTGATTATGTACATTGAAGTAAACCAATGAAGATTTATTATAGTAACTAATTA
TGTACAAAAGTATAATTTCTTCATTTCATTACAGTTTCATTTACAACCTATAATGTATTTTTTAC
TATGATAAAGAAATATTTGTACAAAAGAATAGCCATTGAAAGAATATAATTCCCCCCTCATAATT
GATTATGTACATTGAAGTAAACCAATGAAGATTTATTATAGTAACTAATTATGTACAAAAGTATA
ATTTCTTCATTTCATTACAGTTTCATTTACAACCTAT
Found at i:5027203 original size:3 final size:3
Alignment explanation
Indices: 5027190--5027248 Score: 86
Period size: 3 Copynumber: 20.0 Consensus size: 3
5027180 TTTTTTATCG
5027190 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
*
5027235 -TA TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA
5027249 CATTTTACAT
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
2 4 0.08
3 44 0.86
4 3 0.06
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:5027302 original size:11 final size:11
Alignment explanation
Indices: 5027282--5027313 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
5027272 CCCAATACAA
*
5027282 CAAGGTCCAAC
1 CAAGGCCCAAC
5027293 CAAGGCCCAAC
1 CAAGGCCCAAC
5027304 CAAGGCCCAA
1 CAAGGCCCAA
5027314 ACACGAGCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.38, C:0.41, G:0.19, T:0.03
Consensus pattern (11 bp):
CAAGGCCCAAC
Found at i:5034241 original size:11 final size:11
Alignment explanation
Indices: 5034213--5034250 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
5034203 AAAGAGAAAG
5034213 AGAAAAATCAA
1 AGAAAAATCAA
5034224 AGCAAAAATCAA
1 AG-AAAAATCAA
*
5034236 AGAAAAAGCAA
1 AGAAAAATCAA
5034247 AGAA
1 AGAA
5034251 CAAAAGAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 14 0.56
12 11 0.44
ACGTcount: A:0.71, C:0.11, G:0.13, T:0.05
Consensus pattern (11 bp):
AGAAAAATCAA
Found at i:5035454 original size:14 final size:14
Alignment explanation
Indices: 5035424--5035461 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
5035414 CGAGAAAAGT
*
5035424 ATACATACCACATAC
1 ATACATA-CACACAC
5035439 ATACATACACACAC
1 ATACATACACACAC
5035453 ATACATACA
1 ATACATACA
5035462 TGATACATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 15 0.68
15 7 0.32
ACGTcount: A:0.50, C:0.32, G:0.00, T:0.18
Consensus pattern (14 bp):
ATACATACACACAC
Found at i:5036107 original size:105 final size:103
Alignment explanation
Indices: 5035920--5036158 Score: 292
Period size: 105 Copynumber: 2.3 Consensus size: 103
5035910 TGAGAATATT
*
5035920 AAAACAAATTGCGTCTCGCTTGAGACAATTTTCCTTTGAGATACAAATTGTGAATTTGATTCACT
1 AAAACAAATTTCGTCTCGCTTGAGACAATTTTCCTTTGAGATACAAATTGTGAATTTGATTCACT
*
5035985 TAAAACAAAATTAATCTCACCTT-AGATTGTTGTTTCTTTC-
66 TAAAACAAAATTAATCTCACCTTGAGATCG-T-TTTC--TCA
* * *
5036025 AAAACAAATTTCGTCTCGCTTGAGAC-CTTTTCCCTTTGAGATCCAAATT-TCGAATTTGTTTCA
1 AAAACAAATTTCGTCTCGCTTGAGACAATTTT-CCTTTGAGATACAAATTGT-GAATTTGATTCA
* * *
5036088 CATT-AAACAAAGTTGATCTCACTTTGAGATCGTTTTCTCA
64 C-TTAAAACAAAATTAATCTCACCTTGAGATCGTTTTCTCA
5036128 AAAACAAACTTT-GTCTCGCTTGAGACAATTT
1 AAAACAAA-TTTCGTCTCGCTTGAGACAATTT
5036159 CTCTAAAAAC
Statistics
Matches: 118, Mismatches: 9, Indels: 15
0.83 0.06 0.11
Matches are distributed among these distances:
102 2 0.02
103 22 0.19
104 15 0.13
105 72 0.61
106 7 0.06
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (103 bp):
AAAACAAATTTCGTCTCGCTTGAGACAATTTTCCTTTGAGATACAAATTGTGAATTTGATTCACT
TAAAACAAAATTAATCTCACCTTGAGATCGTTTTCTCA
Found at i:5036167 original size:36 final size:35
Alignment explanation
Indices: 5036121--5036224 Score: 115
Period size: 36 Copynumber: 3.0 Consensus size: 35
5036111 TTGAGATCGT
5036121 TTTCTC-AAAAACAAACTTTGTCTCGCTTGAGACAA
1 TTTCTCTAAAAACAAA-TTTGTCTCGCTTGAGACAA
** *
5036156 TTTCTCTAAAAACAAATTTTGTCTCATTTGAGACTA
1 TTTCTCTAAAAACAAA-TTTGTCTCGCTTGAGACAA
* *
5036192 TATCT-T-AAAGCAAATTTCGTCTCGCTTGAGACA
1 TTTCTCTAAAAACAAATTT-GTCTCGCTTGAGACA
5036225 TCATTTTCTC
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
33 3 0.05
34 19 0.33
35 7 0.12
36 29 0.50
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.36
Consensus pattern (35 bp):
TTTCTCTAAAAACAAATTTGTCTCGCTTGAGACAA
Found at i:5036510 original size:28 final size:28
Alignment explanation
Indices: 5036458--5036557 Score: 134
Period size: 28 Copynumber: 3.6 Consensus size: 28
5036448 ACAGTTTCTC
*
5036458 TGAAAAAAATCTTGGAGTTT-TTCCTTT
1 TGAATAAAATCTTGGAGTTTGTTCCTTT
5036485 TGAATAAAATCTTGGAGTTTGTTCCTTT
1 TGAATAAAATCTTGGAGTTTGTTCCTTT
* *
5036513 TGAATAAATATCTTTGAG-TTGTTTCTTT
1 TGAATAAA-ATCTTGGAGTTTGTTCCTTT
*
5036541 TGAA-AAAATCTTTGAGT
1 TGAATAAAATCTTGGAGT
5036558 CTATTTATTT
Statistics
Matches: 67, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
26 9 0.13
27 22 0.33
28 28 0.42
29 8 0.12
ACGTcount: A:0.29, C:0.09, G:0.16, T:0.46
Consensus pattern (28 bp):
TGAATAAAATCTTGGAGTTTGTTCCTTT
Found at i:5036730 original size:65 final size:65
Alignment explanation
Indices: 5036620--5036747 Score: 179
Period size: 65 Copynumber: 2.0 Consensus size: 65
5036610 TCTCTGAGTC
* * * *
5036620 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTT
1 TGAAACAAAATTTTGTCTCTCTTAAGACAATTTTTTGAAACAAAAATCTTTGAATCTGTTTCTTT
*
5036685 TGAAACAAAATTTTGTCTCTCTTAAGATAATTCCTTTTG-AA-AAAAATCTTTGAATCTGTTTCT
1 TGAAACAAAATTTTGTCTCTCTTAAGACAATT--TTTTGAAACAAAAATCTTTGAATCTGTTTCT
5036748 CTTAAAATGA
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
65 49 0.88
66 2 0.04
67 5 0.09
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44
Consensus pattern (65 bp):
TGAAACAAAATTTTGTCTCTCTTAAGACAATTTTTTGAAACAAAAATCTTTGAATCTGTTTCTTT
Found at i:5037049 original size:64 final size:62
Alignment explanation
Indices: 5036970--5037094 Score: 178
Period size: 64 Copynumber: 2.0 Consensus size: 62
5036960 GATGGGATCC
* *
5036970 ATCTTTGAGTCTGTTTCTTTTGAAACAAAATTTTATCTCTTAAAGACAATTTCTTTTGGAAAAA
1 ATCTTTGAGTCTGTTTCCTTTGAAACAAAATTTTATCTC-TAAAGACAACTTCTTTT-GAAAAA
* * **
5037034 ATCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTCTCGAGACAACTTCTTTTGAAAA
1 ATCTTTGAGTCTGTTTCCTTTGAAACAAAATTTTATCTCTAAAGACAACTTCTTTTGAAAA
5037095 TACCCATATT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
62 5 0.09
63 14 0.25
64 36 0.65
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.43
Consensus pattern (62 bp):
ATCTTTGAGTCTGTTTCCTTTGAAACAAAATTTTATCTCTAAAGACAACTTCTTTTGAAAAA
Found at i:5037139 original size:40 final size:40
Alignment explanation
Indices: 5037076--5037155 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
5037066 TTGTCTCTCG
*
5037076 AGACAACTTCTTTTGAAAATACCCATATTTGAGATCGTTT
1 AGACAACTTCTTTTGAAAATACCCACATTTGAGATCGTTT
* * *
5037116 AGACAATTTCTTTT-AAAATTACCCACCTTTGAGATTGTTT
1 AGACAACTTCTTTTGAAAA-TACCCACATTTGAGATCGTTT
5037156 TTATTAAAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.40
Consensus pattern (40 bp):
AGACAACTTCTTTTGAAAATACCCACATTTGAGATCGTTT
Found at i:5037625 original size:34 final size:36
Alignment explanation
Indices: 5037554--5037627 Score: 91
Period size: 34 Copynumber: 2.1 Consensus size: 36
5037544 TTTATTTTTG
* *
5037554 GAAACAAAATTCACCATCTTTGAATCGGTTTCCCTT
1 GAAACAAAATTAAACATCTTTGAATCGGTTTCCCTT
*
5037590 GAAACAAAA-TAAACATC-TTGAGATC-GTTTCTCTT
1 GAAACAAAATTAAACATCTTTGA-ATCGGTTTCCCTT
5037624 GAAA
1 GAAA
5037628 TGAATTTGTC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
34 16 0.47
35 9 0.26
36 9 0.26
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.31
Consensus pattern (36 bp):
GAAACAAAATTAAACATCTTTGAATCGGTTTCCCTT
Found at i:5037962 original size:28 final size:28
Alignment explanation
Indices: 5037912--5037965 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
5037902 TCAAAATCCA
* *
5037912 ATCTTTGAGTTTGTTTCTATTGAAACAC
1 ATCTTTGAGTTGGTTCCTATTGAAACAC
5037940 ATCTTTGAGTTGGTCTCCT-TTGAAAC
1 ATCTTTGAGTTGGT-TCCTATTGAAAC
5037966 CATTATCCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 20 0.87
29 3 0.13
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (28 bp):
ATCTTTGAGTTGGTTCCTATTGAAACAC
Found at i:5038134 original size:43 final size:43
Alignment explanation
Indices: 5038034--5038387 Score: 220
Period size: 43 Copynumber: 8.5 Consensus size: 43
5038024 GGCCAGAACT
* * ** *
5038034 TCATCACGTATGAGCCGTGTCATCCCCAG---ACCAGATCTCC
1 TCATCACGTAGGAGCCGTGTCAACCTTAGATAACCAGACCTCC
*
5038074 TCAT--CGTAGGAGCCGTGTCAACCATAGATAACCAG-CCGTCC
1 TCATCACGTAGGAGCCGTGTCAACCTTAGATAACCAGACC-TCC
* * * * ** * *
5038115 TCATCACGTAGGAACCGTGTTATCTTTAGATGGCCAGAACTCT
1 TCATCACGTAGGAGCCGTGTCAACCTTAGATAACCAGACCTCC
* * ** * *
5038158 TCATCACGTATGAGCCGTGTCATTCC-CCG---ACCAGATCTCT
1 TCATCACGTAGGAGCCGTGTCA-ACCTTAGATAACCAGACCTCC
*
5038198 TCATCACGTAGGAGCCGTGTCAACCATAGATAACCAG-CCGTCC
1 TCATCACGTAGGAGCCGTGTCAACCTTAGATAACCAGACC-TCC
* * ** * *
5038241 TCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
1 TCATCACGTAGGAGCCGTGTCA--ACC-TTAGATAACCAGACCTCC
* * * *
5038287 TCAT-ACGTATGAGCCGTGTC-A--TCAG-TGACCAGATCTCC
1 TCATCACGTAGGAGCCGTGTCAACCTTAGATAACCAGACCTCC
*
5038325 TCATCACGTAGGAGCCGTGTCACCCTTAGATAACCAG-CCGTCC
1 TCATCACGTAGGAGCCGTGTCAACCTTAGATAACCAGACC-TCC
* *
5038368 TCGTCACGTAGGAACCGTGT
1 TCATCACGTAGGAGCCGTGT
5038388 TATCACCTTT
Statistics
Matches: 242, Mismatches: 49, Indels: 43
0.72 0.15 0.13
Matches are distributed among these distances:
38 33 0.14
39 20 0.08
40 36 0.15
41 12 0.05
42 6 0.02
43 100 0.41
44 3 0.01
45 16 0.07
46 15 0.06
47 1 0.00
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (43 bp):
TCATCACGTAGGAGCCGTGTCAACCTTAGATAACCAGACCTCC
Found at i:5038379 original size:127 final size:128
Alignment explanation
Indices: 5037977--5038440 Score: 716
Period size: 127 Copynumber: 3.7 Consensus size: 128
5037967 ATTATCCTAG
*
5037977 AGATAACCAGCCGT-C-C-TCACGTAGGAACCATGTTATCACCTTTAGATGGCCAGAA--CTTCA
1 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
5038037 TCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCAT--CGTAGGAGCCGTGTCAACCAT
66 TCACGTATGAGCCGTGTCAT-CCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
5038099 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTAT---CTTTAGATGGCCAGAACTCTTCA
1 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
* *
5038161 TCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCTTCATCACGTAGGAGCCGTGTCAACCAT
66 TCACGTATGAGCCGTGTCA-TCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
5038225 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
1 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
*** * *
5038290 T-ACGTATGAGCCGTGTCATCAGTGACCAGATCTCCTCATCACGTAGGAGCCGTGTCACCCTT
66 TCACGTATGAGCCGTGTCATCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
* *
5038352 AGATAACCAGCCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAAGAAATCTTC
1 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCC-AGAACTCTTC
* *
5038417 ATCACGTATGAGCAGTGTCGTCCC
65 ATCACGTATGAGCCGTGTCATCCC
5038441 CAGCAACCAA
Statistics
Matches: 314, Mismatches: 15, Indels: 19
0.90 0.04 0.05
Matches are distributed among these distances:
122 30 0.10
123 1 0.00
124 43 0.14
125 20 0.06
126 60 0.19
127 91 0.29
128 28 0.09
129 41 0.13
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (128 bp):
AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
TCACGTATGAGCCGTGTCATCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
Found at i:5038602 original size:3 final size:3
Alignment explanation
Indices: 5038589--5038647 Score: 86
Period size: 3 Copynumber: 20.0 Consensus size: 3
5038579 TTTTTTATCG
5038589 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
*
5038634 -TA TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA
5038648 CATTTTACAT
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
2 4 0.08
3 44 0.86
4 3 0.06
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:5038704 original size:11 final size:11
Alignment explanation
Indices: 5038684--5038715 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
5038674 CCCAATACAA
*
5038684 CAAGGTCCAAC
1 CAAGGCCCAAC
5038695 CAAGGCCCAAC
1 CAAGGCCCAAC
5038706 CAAGGCCCAA
1 CAAGGCCCAA
5038716 ACACGAGCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.38, C:0.41, G:0.19, T:0.03
Consensus pattern (11 bp):
CAAGGCCCAAC
Found at i:5041716 original size:40 final size:40
Alignment explanation
Indices: 5041662--5042053 Score: 274
Period size: 40 Copynumber: 9.8 Consensus size: 40
5041652 CATTTCTTTG
* *
5041662 TATTTAGGTATGTATCTCGTACAATACATCACCACTCT-A
1 TATTTAGGTGTGTATCTCGTGCAATACATCACCACTCTCA
* * * * *
5041701 GTATTTATGTGTGTATCCCGTGCAATAAATCA-CATTTCTTA
1 -TATTTAGGTGTGTATCTCGTGCAATACATCACCA-CTCTCA
* * * * * *
5041742 TAATTGGGTGTGTATCCCGTGTAGTACATCACCACTATCA
1 TATTTAGGTGTGTATCTCGTGCAATACATCACCACTCTCA
* * * * * ** * **
5041782 TATTTAGGTATGTATCACGTGTAATATATCATCTTTATTG
1 TATTTAGGTGTGTATCTCGTGCAATACATCACCACTCTCA
* * *
5041822 TAATTGGGTGTGTATCAT-GTGCAATACATCATCACTCTCA
1 TATTTAGGTGTGTATC-TCGTGCAATACATCACCACTCTCA
* * * * *
5041862 TATGTAGGTGTGTATCTTGTACAATACACCACAACTCTCA
1 TATTTAGGTGTGTATCTCGTGCAATACATCACCACTCTCA
* * *
5041902 TATTTAGGTGTGTAACTCGTACAATACATCACAACTCTCA
1 TATTTAGGTGTGTATCTCGTGCAATACATCACCACTCTCA
* * *
5041942 TATTTAGATGTGTATCTCGTGCAATACATCA-C-CTTTAA
1 TATTTAGGTGTGTATCTCGTGCAATACATCACCACTCTCA
* * * * * **
5041980 TGTAATTGGGTGTGTATCCCATGCAATACATCACCACTTTTT
1 --TATTTAGGTGTGTATCTCGTGCAATACATCACCACTCTCA
* *
5042022 TATTTACGTGTCTATC-CTGTGCAATACATCAC
1 TATTTAGGTGTGTATCTC-GTGCAATACATCAC
5042054 TTTTATTGTA
Statistics
Matches: 276, Mismatches: 66, Indels: 20
0.76 0.18 0.06
Matches are distributed among these distances:
38 4 0.01
39 4 0.01
40 260 0.94
41 4 0.01
42 4 0.01
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (40 bp):
TATTTAGGTGTGTATCTCGTGCAATACATCACCACTCTCA
Found at i:5041787 original size:80 final size:80
Alignment explanation
Indices: 5041624--5042066 Score: 359
Period size: 80 Copynumber: 5.5 Consensus size: 80
5041614 ATTCTTATAG
* ** * * * * * * * *
5041624 TTAGGCGTGTATCATGTACAATACATCACATTTCTTTGTATTTAGGTATGTATCTCGTACAATAC
1 TTAGGTGTGTATCCCGTGCAATACATCACATTT-ATTATAATTGGGTGTGTATCCCGTGCAATAC
5041689 ATCACCACTCT-AGTAT
65 ATCACCACTCTCA-TAT
* * * * *
5041705 TTATGTGTGTATCCCGTGCAATAAATCACATTTCTTATAATTGGGTGTGTATCCCGTGTAGTACA
1 TTAGGTGTGTATCCCGTGCAATACATCACATTTATTATAATTGGGTGTGTATCCCGTGCAATACA
*
5041770 TCACCACTATCATAT
66 TCACCACTCTCATAT
* * * * * **
5041785 TTAGGTATGTATCACGTGTAATATATCATC-TTTATTGTAATTGGGTGTGTATCATGTGCAATAC
1 TTAGGTGTGTATCCCGTGCAATACATCA-CATTTATTATAATTGGGTGTGTATCCCGTGCAATAC
*
5041849 ATCATCACTCTCATAT
65 ATCACCACTCTCATAT
* ** * * ** * * * * * * *
5041865 GTAGGTGTGTATCTTGTACAATACACCACAACTCTCATATTTAGGTGTGTAACTCGTACAATACA
1 TTAGGTGTGTATCCCGTGCAATACATCACATTTATTATAATTGGGTGTGTATCCCGTGCAATACA
*
5041930 TCACAACTCTCATAT
66 TCACCACTCTCATAT
* * * * * *
5041945 TTAGATGTGTATCTCGTGCAATACATCACCTTTAATGTAATTGGGTGTGTATCCCATGCAATACA
1 TTAGGTGTGTATCCCGTGCAATACATCACATTTATTATAATTGGGTGTGTATCCCGTGCAATACA
* **
5042010 TCACCACTTTTTTAT
66 TCACCACTCTCATAT
* * * * *
5042025 TTACGTGTCTATCCTGTGCAATACATCACTTTTATTGTAATT
1 TTAGGTGTGTATCCCGTGCAATACATCACATTTATTATAATT
5042067 TGTACCAATA
Statistics
Matches: 280, Mismatches: 79, Indels: 7
0.77 0.22 0.02
Matches are distributed among these distances:
79 1 0.00
80 250 0.89
81 29 0.10
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (80 bp):
TTAGGTGTGTATCCCGTGCAATACATCACATTTATTATAATTGGGTGTGTATCCCGTGCAATACA
TCACCACTCTCATAT
Found at i:5041875 original size:160 final size:159
Alignment explanation
Indices: 5041683--5042053 Score: 409
Period size: 160 Copynumber: 2.3 Consensus size: 159
5041673 GTATCTCGTA
* * * ** * *
5041683 CAATACATCACCACTCTAGTATTTATGTGTGTATCCCGTGCAATAAATCACATTTCTTATAATTG
1 CAATACATCACCACTCTA-TATTTACGTGTGTATCCTGTGCAATACATCACAACTCTCATAATTA
* ** * * * * *
5041748 GGTGTGTATCCCGTGTAGTACATCACCACTATCATATTTAGGTATGTATCACGTGTAATATATCA
65 GGTGTGTAACCCGTACAATACATCACAACTATCATATTTAGATATGTATCACGTGCAATACATCA
* * **
5041813 TCTTTATTGTAATTGGGTGTGTATCATGTG
130 CCTTTAATGTAATTGGGTGTGTATCACATG
* * * * * * *
5041843 CAATACATCATCACTCTCATATGTAGGTGTGTATCTTGTACAATACACCACAACTCTCATATTTA
1 CAATACATCACCACTCT-ATATTTACGTGTGTATCCTGTGCAATACATCACAACTCTCATAATTA
* * * *
5041908 GGTGTGTAACTCGTACAATACATCACAACTCTCATATTTAGATGTGTATCTCGTGCAATACATCA
65 GGTGTGTAACCCGTACAATACATCACAACTATCATATTTAGATATGTATCACGTGCAATACATCA
*
5041973 CCTTTAATGTAATTGGGTGTGTATCCCATG
130 CCTTTAATGTAATTGGGTGTGTATCACATG
* * *
5042003 CAATACATCACCACTTTTTTATTTACGTGTCTATCCTGTGCAATACATCAC
1 CAATACATCACCAC-TCTATATTTACGTGTGTATCCTGTGCAATACATCAC
5042054 TTTTATTGTA
Statistics
Matches: 170, Mismatches: 39, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
160 167 0.98
161 3 0.02
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.37
Consensus pattern (159 bp):
CAATACATCACCACTCTATATTTACGTGTGTATCCTGTGCAATACATCACAACTCTCATAATTAG
GTGTGTAACCCGTACAATACATCACAACTATCATATTTAGATATGTATCACGTGCAATACATCAC
CTTTAATGTAATTGGGTGTGTATCACATG
Found at i:5043284 original size:16 final size:17
Alignment explanation
Indices: 5043265--5043306 Score: 63
Period size: 15 Copynumber: 2.6 Consensus size: 17
5043255 TTATTTTATT
5043265 TATTTAATAT-TTAAAA
1 TATTTAATATATTAAAA
5043281 TA-TTAAT-TATTAAAA
1 TATTTAATATATTAAAA
5043296 TATTTAATATA
1 TATTTAATATA
5043307 CATATAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 1 0.04
15 13 0.57
16 7 0.30
17 2 0.09
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TATTTAATATATTAAAA
Found at i:5043286 original size:15 final size:15
Alignment explanation
Indices: 5043268--5043345 Score: 56
Period size: 15 Copynumber: 5.1 Consensus size: 15
5043258 TTTTATTTAT
5043268 TTAATATTTAAAATA
1 TTAATATTTAAAATA
5043283 TTAAT-TATTAAAATA
1 TTAATAT-TTAAAATA
* *
5043298 TTTAATATACATATAATA
1 -TTAATAT--TTAAAATA
5043316 -TAAT-TTTAATAATA
1 TTAATATTTAA-AATA
*
5043330 TT-ATATTTATAATA
1 TTAATATTTAAAATA
5043344 TT
1 TT
5043346 CTATTAATAT
Statistics
Matches: 50, Mismatches: 6, Indels: 15
0.70 0.08 0.21
Matches are distributed among these distances:
13 2 0.04
14 13 0.26
15 19 0.38
16 9 0.18
17 1 0.02
18 6 0.12
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (15 bp):
TTAATATTTAAAATA
Found at i:5043345 original size:14 final size:14
Alignment explanation
Indices: 5043309--5043350 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
5043299 TTAATATACA
*
5043309 TATAATATAAT-TT
1 TATAATATTATATT
5043322 TAATAATATTATATT
1 T-ATAATATTATATT
*
5043337 TATAATATTCTATT
1 TATAATATTATATT
5043351 AATATGTACT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 1 0.04
14 21 0.84
15 3 0.12
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (14 bp):
TATAATATTATATT
Found at i:5045243 original size:31 final size:31
Alignment explanation
Indices: 5045208--5045266 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
5045198 AAATATGATA
*
5045208 ACTTTTATTTTTGCTTAATTAAGATATAATC
1 ACTTTTATTTTTACTTAATTAAGATATAATC
* *
5045239 ACTTTTGTTTTTATTTAATTAAGATATA
1 ACTTTTATTTTTACTTAATTAAGATATA
5045267 GTTACCACGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.32, C:0.07, G:0.07, T:0.54
Consensus pattern (31 bp):
ACTTTTATTTTTACTTAATTAAGATATAATC
Found at i:5045481 original size:13 final size:13
Alignment explanation
Indices: 5045465--5045489 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5045455 GGTTGACCAA
5045465 CTGATTTGATTAG
1 CTGATTTGATTAG
5045478 CTGATTTGATTA
1 CTGATTTGATTA
5045490 TCTGTTTATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.20, T:0.48
Consensus pattern (13 bp):
CTGATTTGATTAG
Found at i:5046244 original size:30 final size:31
Alignment explanation
Indices: 5046203--5046261 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
5046193 ATATTTTATG
*
5046203 TTAATTTATTAAATATATTAT-ATTATTACT
1 TTAAATTATTAAATATATTATCATTATTACT
*
5046233 TTAAATTATTAAATATATTTTCATTATTA
1 TTAAATTATTAAATATATTATCATTATTA
5046262 TCTAACTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 19 0.73
31 7 0.27
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (31 bp):
TTAAATTATTAAATATATTATCATTATTACT
Found at i:5052092 original size:14 final size:14
Alignment explanation
Indices: 5052073--5052102 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
5052063 AGAAGAGAGA
5052073 CTCTGTTCTTATTG
1 CTCTGTTCTTATTG
5052087 CTCTGTTCTTATTG
1 CTCTGTTCTTATTG
5052101 CT
1 CT
5052103 TACTTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.07, C:0.23, G:0.13, T:0.57
Consensus pattern (14 bp):
CTCTGTTCTTATTG
Found at i:5062207 original size:18 final size:18
Alignment explanation
Indices: 5062184--5062246 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
5062174 TTTTTTTTAA
*
5062184 AAATAATATAATAATAAT
1 AAATAATAAAATAATAAT
* *
5062202 AAATAAAAAAACGAA-AAT
1 AAATAATAAAA-TAATAAT
5062220 AAATAA-AAAATAAT-AT
1 AAATAATAAAATAATAAT
5062236 AAATATATAAA
1 AAATA-ATAAA
5062247 GTTATAAGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
16 9 0.24
17 5 0.14
18 21 0.57
19 2 0.05
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (18 bp):
AAATAATAAAATAATAAT
Found at i:5062278 original size:25 final size:22
Alignment explanation
Indices: 5062216--5062278 Score: 58
Period size: 25 Copynumber: 2.8 Consensus size: 22
5062206 AAAAAAACGA
5062216 AAATAAATAAA-AAAT-AATAT
1 AAATAAATAAAGAAATAAATAT
* **
5062236 AAATATATAAAGTTATAAGATAT
1 AAATAAATAAAGAAATAA-ATAT
5062259 ATACATAAATAAAGAAATAA
1 A-A-ATAAATAAAGAAATAA
5062279 TCAAATAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
20 10 0.31
21 2 0.06
22 1 0.03
23 5 0.16
24 1 0.03
25 13 0.41
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.27
Consensus pattern (22 bp):
AAATAAATAAAGAAATAAATAT
Found at i:5062478 original size:68 final size:69
Alignment explanation
Indices: 5062406--5062536 Score: 158
Period size: 68 Copynumber: 1.9 Consensus size: 69
5062396 TTAGACTTAT
* *
5062406 AAATAAAATATTAAAGAAATATATATATA-ATAATAATAATAATAAAAT-ATAGTAAAAAAATCA
1 AAATAAAATAATAAAGAAATATATATATACAT-ATAATAATAATAAAATAATAATAAAAAAATCA
5062469 AATGA
65 AATGA
** * * * *
5062474 AAATAATTTAATATATATATATATATATACATATAATAATAATAACATGAATAATAAAAAAAT
1 AAATAAAATAATAAAGAAATATATATATACATATAATAATAATAAAAT-AATAATAAAAAAAT
5062537 GAATAAAATA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
68 38 0.73
69 2 0.04
70 12 0.23
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.31
Consensus pattern (69 bp):
AAATAAAATAATAAAGAAATATATATATACATATAATAATAATAAAATAATAATAAAAAAATCAA
ATGA
Found at i:5062528 original size:15 final size:15
Alignment explanation
Indices: 5062508--5062546 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
5062498 ATATACATAT
*
5062508 AATAATAATAACATG
1 AATAATAATAAAATG
*
5062523 AATAATAAAAAAATG
1 AATAATAATAAAATG
5062538 AATAA-AATA
1 AATAATAATA
5062547 TCCATATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 3 0.14
15 18 0.86
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (15 bp):
AATAATAATAAAATG
Found at i:5063001 original size:34 final size:34
Alignment explanation
Indices: 5062960--5063025 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
5062950 GAATCCTAGC
5062960 AAAATTCTATCATATCTTTAAGAGTTTGAATCTT
1 AAAATTCTATCATATCTTTAAGAGTTTGAATCTT
* * *
5062994 AAAATTCTATCCTATTTTTAGGAGTTTGAATC
1 AAAATTCTATCATATCTTTAAGAGTTTGAATC
5063026 CTAGTAGGAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.44
Consensus pattern (34 bp):
AAAATTCTATCATATCTTTAAGAGTTTGAATCTT
Found at i:5063793 original size:98 final size:98
Alignment explanation
Indices: 5063624--5063882 Score: 304
Period size: 98 Copynumber: 2.6 Consensus size: 98
5063614 TGGAACCGGA
* * *
5063624 AAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCA
1 AAATTGTTTGTTGACAACCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAGTCCA
* * *
5063689 ATATCCTTCGTTGTGAAGTTGAGATTGGCTCCG
66 ATATCCTCCGCTGTGAAGTTGAAATTGGCTCCG
** * * *
5063722 AAATTGTTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGGGTCCA
1 AAATTGTTTGTTGACAACCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAGTCCA
*
5063787 ATATCCTCCGCTGTGAAGTTGAAATTGGCCATGAAACTGGG
66 ATATCCTCCGCTGTGAAGTTGAAATTGG-C-T----C--CG
* * *
5063828 AAATTG-TTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTC
1 AAATTGTTTGTTGACAACCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTC
5063883 ATAGGTAGCA
Statistics
Matches: 135, Mismatches: 18, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
98 82 0.61
99 1 0.01
100 1 0.01
104 1 0.01
105 43 0.32
106 7 0.05
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.34
Consensus pattern (98 bp):
AAATTGTTTGTTGACAACCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAGTCCA
ATATCCTCCGCTGTGAAGTTGAAATTGGCTCCG
Found at i:5063876 original size:105 final size:102
Alignment explanation
Indices: 5063624--5064016 Score: 327
Period size: 105 Copynumber: 3.8 Consensus size: 102
5063614 TGGAACCGGA
* *
5063624 AAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT-CC
1 AAATTG-TTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGGGTACC
* * ** * ** **
5063688 A-ATATCCTTCGTTGT-GAAGTTGAG--ATTG-GCTCCG
65 AGATATCCTCCGTCGTGGAAAATCAGCCA-TGAAATGGG
** * * * *
5063722 AAATTGTTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGGGT-CC
1 AAATTG-TTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGGGTACC
* **
5063786 A-ATATCCTCCG-CTGTGAAGTTGAAATTGGCCATGAAACTGGG
65 AGATATCCTCCGTC-GTG--G--AAAATCAGCCATGAAA-TGGG
* * *
5063828 AAATTGTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCATAGGTAGCA
1 AAATTGTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGGGTACCA
** *
5063893 TGATATCCTCCGTCGTGGAAAATCAGCTTTGAAATTGG
66 -GATATCCTCCGTCGTGGAAAATCAGCCATGAAATGGG
* * **
5063931 AAAGTTGTTCGTTGACAACCAGCCGTCCATTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGTGG
1 AAA-TTGTT-GTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGGGTAC
*
5063996 CACGATATCCTCCATCGTGGA
64 CA-GATATCCTCCGTCGTGGA
5064017 GTTGAAATCG
Statistics
Matches: 238, Mismatches: 41, Indels: 25
0.78 0.13 0.08
Matches are distributed among these distances:
98 68 0.29
101 1 0.00
103 9 0.04
104 18 0.08
105 117 0.49
106 11 0.05
108 13 0.05
109 1 0.00
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.33
Consensus pattern (102 bp):
AAATTGTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGGGTACCA
GATATCCTCCGTCGTGGAAAATCAGCCATGAAATGGG
Found at i:5064743 original size:12 final size:11
Alignment explanation
Indices: 5064721--5064759 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
5064711 TGAACCCACC
*
5064721 TTTTTGTTCTT
1 TTTTTTTTCTT
5064732 TTTTTTTCTCTT
1 TTTTTTT-TCTT
5064744 GTTTTTTTTCTT
1 -TTTTTTTTCTT
5064756 TTTT
1 TTTT
5064760 CGATTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 10 0.40
12 8 0.32
13 7 0.28
ACGTcount: A:0.00, C:0.10, G:0.05, T:0.85
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:5075484 original size:20 final size:20
Alignment explanation
Indices: 5075411--5075484 Score: 50
Period size: 20 Copynumber: 3.7 Consensus size: 20
5075401 ACTAGTAAAG
5075411 ATAATTAATAT-ATATATAGTA
1 ATAA-TAATATAATATATA-TA
*
5075432 ATATTAGATTATAA-ATA-A-A
1 ATAATA-A-TATAATATATATA
*
5075451 ATATTAA-ATAAATATATATA
1 ATAATAATAT-AATATATATA
5075471 ATAATAATATAATA
1 ATAATAATATAATA
5075485 AAAATAGTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 17
0.69 0.03 0.27
Matches are distributed among these distances:
16 2 0.05
17 2 0.05
18 4 0.09
19 8 0.19
20 13 0.30
21 7 0.16
22 6 0.14
23 1 0.02
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (20 bp):
ATAATAATATAATATATATA
Found at i:5076009 original size:34 final size:34
Alignment explanation
Indices: 5075966--5076031 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
5075956 GAATCCTAGC
5075966 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
1 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
* *
5076000 AAAATTCTATCCTATTTTTAGGAGTTTGAATC
1 AAAATTCTATCATATCTTTAGGAGTTTGAATC
5076032 TAGTAGGACA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (34 bp):
AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
Found at i:5076882 original size:165 final size:165
Alignment explanation
Indices: 5076515--5077006 Score: 865
Period size: 162 Copynumber: 3.0 Consensus size: 165
5076505 AAGAAAAATC
5076515 TCACAAGATATGTGTTTACAAATTTAATCTCACAACAAAAATAATTAAAAGATTTGCAATGAG-T
1 TCACAAG--ATGTGTTTACAAATTTAATCTCACAACAAAAATAATTAAAAGATTTGCAATGAGTT
*
5076579 AAACACTTATGTCAGAAAGGGGGAAATAAAGAGTGACAGTTTTT-TCTTGATCTTCATTGTTTGG
64 AAACACTTATGTCAGAAAGGGGGAAATAAAGAGTGACAGTTTTTCTCTTGATCTTCATTGCTTGG
5076643 ATGAGTGTTGTAACA-TTTTCAAGTGTTCTTGTGTTG
129 ATGAGTGTTGTAACATTTTTCAAGTGTTCTTGTGTTG
*
5076679 TCACAAGATATGTTTACAAATTTAATCTCACAACAAAAATAATTAAAAGATTTGCAATGAGTTAA
1 TCACAAGATGTGTTTACAAATTTAATCTCACAACAAAAATAATTAAAAGATTTGCAATGAGTTAA
5076744 ACACTTATGTCAGAAAGGGGGAAATAAAGAGTGACAGTTTTTCTCTTGATCTTCATTGCTTGGAT
66 ACACTTATGTCAGAAAGGGGGAAATAAAGAGTGACAGTTTTTCTCTTGATCTTCATTGCTTGGAT
5076809 GAGTGTTGTAACATTTTTCAAGTGTTCTTGTGTTG
131 GAGTGTTGTAACATTTTTCAAGTGTTCTTGTGTTG
5076844 TCACAAGATGTGTTTACAAATTTAATCTCACAACAAAAATAATTAAAAGATTTGCAATGAGTT-A
1 TCACAAGATGTGTTTACAAATTTAATCTCACAACAAAAATAATTAAAAGATTTGCAATGAGTTAA
*
5076908 A-ACTTATGTCAGAAAGGGGG-AAT-AAGAGTGACA-TAGTTTTCTCTTGATCTCCATTGCTTGG
66 ACACTTATGTCAGAAAGGGGGAAATAAAGAGTGACAGT--TTTTCTCTTGATCTTCATTGCTTGG
5076969 ATGAGTGTTGTAACATTTTTCAAGTGTTCTTGTGTTG
129 ATGAGTGTTGTAACATTTTTCAAGTGTTCTTGTGTTG
5077006 T
1 T
5077007 GTTTATAAGT
Statistics
Matches: 319, Mismatches: 4, Indels: 12
0.95 0.01 0.04
Matches are distributed among these distances:
160 1 0.00
161 10 0.03
162 118 0.37
163 64 0.20
164 43 0.13
165 83 0.26
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.36
Consensus pattern (165 bp):
TCACAAGATGTGTTTACAAATTTAATCTCACAACAAAAATAATTAAAAGATTTGCAATGAGTTAA
ACACTTATGTCAGAAAGGGGGAAATAAAGAGTGACAGTTTTTCTCTTGATCTTCATTGCTTGGAT
GAGTGTTGTAACATTTTTCAAGTGTTCTTGTGTTG
Done.