Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 83 of 193
Found at i:27456664 original size:26 final size:27
Alignment explanation
Indices: 27456610--27456663 Score: 69
Period size: 25 Copynumber: 2.1 Consensus size: 27
27456600 AAACCAACCT
*
27456610 AACCCAAAACCTTTATTACCCATTTAA
1 AACCCAAAACCTTTATAACCCATTTAA
27456637 AACCC-AAACC-TTATAAACCC-TTTAA
1 AACCCAAAACCTTTAT-AACCCATTTAA
27456662 AA
1 AA
27456664 ATCTTTAAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 11 0.44
26 9 0.36
27 5 0.20
ACGTcount: A:0.44, C:0.30, G:0.00, T:0.26
Consensus pattern (27 bp):
AACCCAAAACCTTTATAACCCATTTAA
Found at i:27456726 original size:15 final size:16
Alignment explanation
Indices: 27456694--27456728 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
27456684 ACCCAATAGC
27456694 CCAAACCCAAAGTGAA
1 CCAAACCCAAAGTGAA
*
27456710 CCAAACCC-AATTGAA
1 CCAAACCCAAAGTGAA
27456725 CCAA
1 CCAA
27456729 GTCCAAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.49, C:0.34, G:0.09, T:0.09
Consensus pattern (16 bp):
CCAAACCCAAAGTGAA
Found at i:27456767 original size:11 final size:11
Alignment explanation
Indices: 27456751--27456846 Score: 54
Period size: 11 Copynumber: 8.7 Consensus size: 11
27456741 ACCAAGTCAA
27456751 ACCGTTGATCG
1 ACCGTTGATCG
*
27456762 ACCGTTGA-CC
1 ACCGTTGATCG
* *
27456772 AGCCGTTAACCG
1 A-CCGTTGATCG
27456784 ACCGTTGA-CTG
1 ACCGTTGATC-G
* *
27456795 ATCGTTGATTG
1 ACCGTTGATCG
* *
27456806 GCCATTGATCG
1 ACCGTTGATCG
27456817 ACCGTTGA-CTG
1 ACCGTTGATC-G
**
27456828 GTCGTTGATCG
1 ACCGTTGATCG
*
27456839 ACTGTTGA
1 ACCGTTGA
27456847 CTGTAGATCT
Statistics
Matches: 62, Mismatches: 17, Indels: 12
0.68 0.19 0.13
Matches are distributed among these distances:
10 4 0.06
11 55 0.89
12 3 0.05
ACGTcount: A:0.19, C:0.25, G:0.27, T:0.29
Consensus pattern (11 bp):
ACCGTTGATCG
Found at i:27456801 original size:33 final size:33
Alignment explanation
Indices: 27456751--27456835 Score: 82
Period size: 33 Copynumber: 2.6 Consensus size: 33
27456741 ACCAAGTCAA
* *
27456751 ACCGTTGA-TCGACCGTTGACCAGCCGTTAACCG
1 ACCGTTGACT-GATCGTTGACCAGCCATTAACCG
*** * *
27456784 ACCGTTGACTGATCGTTGATTGGCCATTGATCG
1 ACCGTTGACTGATCGTTGACCAGCCATTAACCG
*
27456817 ACCGTTGACTGGTCGTTGA
1 ACCGTTGACTGATCGTTGA
27456836 TCGACTGTTG
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
33 42 0.98
34 1 0.02
ACGTcount: A:0.19, C:0.26, G:0.27, T:0.28
Consensus pattern (33 bp):
ACCGTTGACTGATCGTTGACCAGCCATTAACCG
Found at i:27456822 original size:22 final size:22
Alignment explanation
Indices: 27456797--27456849 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
27456787 GTTGACTGAT
*
27456797 CGTTGATTGGCCATTGATCGAC
1 CGTTGACTGGCCATTGATCGAC
* *
27456819 CGTTGACTGGTCGTTGATCGAC
1 CGTTGACTGGCCATTGATCGAC
*
27456841 TGTTGACTG
1 CGTTGACTG
27456850 TAGATCTTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.15, C:0.21, G:0.30, T:0.34
Consensus pattern (22 bp):
CGTTGACTGGCCATTGATCGAC
Found at i:27483243 original size:20 final size:20
Alignment explanation
Indices: 27483215--27483255 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
27483205 ATAGCAATAC
*
27483215 TCTTTAATGTTTTCTTTATT
1 TCTTGAATGTTTTCTTTATT
27483235 TCTTGAATGTTTTCTTTATT
1 TCTTGAATGTTTTCTTTATT
27483255 T
1 T
27483256 AAGCCATAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.15, C:0.10, G:0.07, T:0.68
Consensus pattern (20 bp):
TCTTGAATGTTTTCTTTATT
Found at i:27487629 original size:128 final size:127
Alignment explanation
Indices: 27487398--27487653 Score: 395
Period size: 128 Copynumber: 2.0 Consensus size: 127
27487388 CTTGAGGGCT
* *
27487398 CCACCAAGGACAACAGGAGTTATTGTAACTAAGGTATGTGTCAAACCACAAAACTATTTGCTTTC
1 CCACCAAGGACAACAGGAGTTATTGCAACTAAGGTATGTGTCAAACCACAAAAATATTTGCTTTC
* * *
27487463 TAAACAATATAAGGAAGTAACTAACAAAAATTGCCTTCAGGAAAGTTTCCACACTTTTACAG
66 TAAACAATATAAGAAAGCAACAAACAAAAATTGCCTTCAGGAAAGTTTCCACACTTTTACAG
*
27487525 CCACCATGGACAACAGGAGTTATTGCAACTAAGGTATGTGTCAAAACCACAAAAATATTTGCTTT
1 CCACCAAGGACAACAGGAGTTATTGCAACTAAGGTATGTGTC-AAACCACAAAAATATTTGCTTT
* * * * * *
27487590 CTAAATAATGTAATAAAGCAACAAACAAAAATTGCCTTCAGGGAATTTTTCACACTTTTACAG
65 CTAAACAATATAAGAAAGCAACAAACAAAAATTGCCTTCAGGAAAGTTTCCACACTTTTACAG
27487653 C
1 C
27487654 AAGGTTCACA
Statistics
Matches: 116, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
127 40 0.34
128 76 0.66
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (127 bp):
CCACCAAGGACAACAGGAGTTATTGCAACTAAGGTATGTGTCAAACCACAAAAATATTTGCTTTC
TAAACAATATAAGAAAGCAACAAACAAAAATTGCCTTCAGGAAAGTTTCCACACTTTTACAG
Found at i:27494790 original size:59 final size:60
Alignment explanation
Indices: 27494694--27495010 Score: 382
Period size: 59 Copynumber: 5.4 Consensus size: 60
27494684 TATGGATACC
* * *
27494694 CGGGGGCAAAATGGTAA-TTTTGGTGTAATCGGGGTT-AAAATGGAATTTTAGAAAATTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTT
* * *
27494752 AGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTA-AAAGATT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTT
* * *
27494811 CGGGGGTAAAATGGTAATTTTCGGTGAAATCAGGGTTAAAAATGGAATTTTAG-AAGCTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTT
* * * *
27494870 CGGGGGTAAAATGGTAATTTTCGATGAAATTGGGGTTAAAAAATGGAATTTTA-AAAGGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTT-AAAAATGGAATTTTAGAAAGTTT
* * * *
27494930 CGAGGGTGAAATGGTAAATTTTT-GTGAAATCGGGGTTAAAAATGGGA-TTTAGGGAAGTTT
1 CGGGGGTAAAATGGT-AATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTA-GAAAGTTT
*
27494990 --GGGGTAAAATGATAATTTTTG
1 CGGGGGTAAAATGGTAATTTTTG
27495011 AAAGTTTTAG
Statistics
Matches: 224, Mismatches: 26, Indels: 18
0.84 0.10 0.07
Matches are distributed among these distances:
57 7 0.03
58 29 0.13
59 118 0.53
60 64 0.29
61 6 0.03
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.32
Consensus pattern (60 bp):
CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTT
Found at i:27494792 original size:30 final size:29
Alignment explanation
Indices: 27494701--27494921 Score: 110
Period size: 29 Copynumber: 7.4 Consensus size: 29
27494691 ACCCGGGGGC
*
27494701 AAAATGGTAA-TTTTGGTGTAATCGGGGTT
1 AAAATGG-AATTTTTGGTGAAATCGGGGTT
* * * *
27494730 AAAATGGAA-TTTTAG-AAAATTTAGGGGGT
1 AAAATGGAATTTTTGGTGAAA--TCGGGGTT
*
27494759 AAAATGGTAATTTTTGGTGAAATCGAGGTT
1 AAAATGG-AATTTTTGGTGAAATCGGGGTT
**** * *
27494789 AAAAATGGAATTTTAAAAG-ATTCGGGGGT
1 -AAAATGGAATTTTTGGTGAAATCGGGGTT
* *
27494818 AAAATGGTAATTTTCGGTGAAATCAGGGTT
1 AAAATGG-AATTTTTGGTGAAATCGGGGTT
* ** ** *
27494848 AAAAATGGAATTTTAGAAG-CTTCGGGGGT
1 -AAAATGGAATTTTTGGTGAAATCGGGGTT
* * *
27494877 AAAATGGTAATTTTCGATGAAATTGGGGTT
1 AAAATGG-AATTTTTGGTGAAATCGGGGTT
27494907 AAAAAATGGAATTTT
1 --AAAATGGAATTTT
27494922 AAAAGGTTCG
Statistics
Matches: 142, Mismatches: 37, Indels: 24
0.70 0.18 0.12
Matches are distributed among these distances:
27 2 0.01
28 21 0.15
29 49 0.35
30 35 0.25
31 25 0.18
32 10 0.07
ACGTcount: A:0.36, C:0.04, G:0.27, T:0.33
Consensus pattern (29 bp):
AAAATGGAATTTTTGGTGAAATCGGGGTT
Found at i:27494821 original size:29 final size:29
Alignment explanation
Indices: 27494724--27494936 Score: 112
Period size: 30 Copynumber: 7.2 Consensus size: 29
27494714 TGGTGTAATC
* * *
27494724 GGGGTTAAAATGGAATTTTAGAAAATTTAG
1 GGGGTAAAAATGGAATTTTAGAAGA-TTCG
* ** *
27494754 GGGGT-AAAATGGTAATTTTTGGTGAAATCG
1 GGGGTAAAAATGG-AATTTTAGAAG-ATTCG
* * *
27494784 AGGTTAAAAATGGAATTTTAAAAGATTCG
1 GGGGTAAAAATGGAATTTTAGAAGATTCG
* ** * *
27494813 GGGGT-AAAATGGTAATTTTCGGTGAAATCA
1 GGGGTAAAAATGG-AATTTTAGAAG-ATTCG
* *
27494843 GGGTTAAAAATGGAATTTTAGAAGCTTCG
1 GGGGTAAAAATGGAATTTTAGAAGATTCG
27494872 GGGGT-AAAATGGTAATTTTCGATGAA-ATT-G
1 GGGGTAAAAATGG-AATTTT--A-GAAGATTCG
* * *
27494902 GGGTTAAAAAATGGAATTTTAAAAGGTTCG
1 GGGGT-AAAAATGGAATTTTAGAAGATTCG
*
27494932 AGGGT
1 GGGGT
27494937 GAAATGGTAA
Statistics
Matches: 134, Mismatches: 35, Indels: 28
0.68 0.18 0.14
Matches are distributed among these distances:
28 16 0.12
29 36 0.27
30 48 0.36
31 24 0.18
32 10 0.07
ACGTcount: A:0.36, C:0.04, G:0.29, T:0.31
Consensus pattern (29 bp):
GGGGTAAAAATGGAATTTTAGAAGATTCG
Found at i:27494945 original size:119 final size:115
Alignment explanation
Indices: 27494701--27495008 Score: 386
Period size: 119 Copynumber: 2.6 Consensus size: 115
27494691 ACCCGGGGGC
* *
27494701 AAAATGGTAATTTTGGTGTAATCGGGGTT-AAAATGGAATTTTAGAAAATTTAGGGGGTAAAATG
1 AAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAG--AAGTT-GGGGGTAAAATG
* * *
27494765 GTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
63 GTAATTTTCGATGAAATCGAGGTTAAAAATGGAATTTTAAAAGATTCGAGGGT
*
27494818 AAAATGGTAATTTTCGGTGAAATCAGGGTTAAAAATGGAATTTTAGAAGCTTCGGGGGTAAAATG
1 AAAATGGTAATTTT-GGTGAAATCGGGGTTAAAAATGGAATTTTAGAAG-TT-GGGGGTAAAATG
* * *
27494883 GTAATTTTCGATGAAATTGGGGTTAAAAAATGGAATTTTAAAAGGTTCGAGGGT
63 GTAATTTTCGATGAAATCGAGGTT-AAAAATGGAATTTTAAAAGATTCGAGGGT
* * * *
27494937 GAAATGGTAAATTTTTGTGAAATCGGGGTTAAAAATGGGA-TTTAGGGAAGTTTGGGGTAAAATG
1 AAAATGGT-AATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTA--GAAGTTGGGGGTAAAATG
*
27495001 ATAATTTT
63 GTAATTTT
27495009 TGAAAGTTTT
Statistics
Matches: 168, Mismatches: 16, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
117 16 0.10
118 69 0.41
119 73 0.43
120 10 0.06
ACGTcount: A:0.36, C:0.03, G:0.28, T:0.33
Consensus pattern (115 bp):
AAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGTTGGGGGTAAAATGGTA
ATTTTCGATGAAATCGAGGTTAAAAATGGAATTTTAAAAGATTCGAGGGT
Found at i:27495036 original size:29 final size:29
Alignment explanation
Indices: 27494987--27495088 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 29
27494977 TTTAGGGAAG
*
27494987 TTTGGGGTAAAATGATAATTTTTG-AAAGT
1 TTTGGGGTAAAATG-TAATTTTGGAAAAGT
* *
27495016 TTTAGGGTAAAAATGTGATTTTGGAAAAGT
1 TTTGGGGT-AAAATGTAATTTTGGAAAAGT
27495046 TTTGGGGTCAAAATGTAATTTTGGAAAAGT
1 TTTGGGGT-AAAATGTAATTTTGGAAAAGT
*
27495076 TTTGGGGTCAAAT
1 TTTGGGGTAAAAT
27495089 ATGATTTTCT
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
29 18 0.28
30 46 0.72
ACGTcount: A:0.33, C:0.02, G:0.26, T:0.38
Consensus pattern (29 bp):
TTTGGGGTAAAATGTAATTTTGGAAAAGT
Found at i:27495067 original size:59 final size:58
Alignment explanation
Indices: 27494966--27495096 Score: 151
Period size: 59 Copynumber: 2.3 Consensus size: 58
27494956 AAATCGGGGT
* * * *
27494966 TAAAAATGGGATTTAGGGAAGTTTGGGGTAAAATGATAATTTTTG-AAAGTTTTAGGG
1 TAAAAATGTGATTTTGGAAAGTTTGGGGTAAAATGATAATTTTGGAAAAGTTTTAGGG
*
27495023 TAAAAATGTGATTTTGGAAAAGTTTTGGGGTCAAAATG-TAATTTTGGAAAAGTTTTGGGG
1 TAAAAATGTGATTTTGG-AAAG-TTTGGGGT-AAAATGATAATTTTGGAAAAGTTTTAGGG
* *
27495083 T-CAAATATGATTTT
1 TAAAAATGTGATTTT
27495097 CTGGACAATT
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
57 15 0.24
58 3 0.05
59 27 0.43
60 18 0.29
ACGTcount: A:0.34, C:0.02, G:0.27, T:0.37
Consensus pattern (58 bp):
TAAAAATGTGATTTTGGAAAGTTTGGGGTAAAATGATAATTTTGGAAAAGTTTTAGGG
Found at i:27496355 original size:3 final size:3
Alignment explanation
Indices: 27496349--27496387 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
27496339 TTTTTTTGTT
* *
27496349 TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
27496388 ACGCTTCTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:27497113 original size:17 final size:17
Alignment explanation
Indices: 27497091--27497182 Score: 93
Period size: 17 Copynumber: 5.5 Consensus size: 17
27497081 TTTTATTATT
*
27497091 AATTTAAATTTTAATTA
1 AATTTAAATTTAAATTA
**
27497108 AATTTAAATTTAAAGCA
1 AATTTAAATTTAAATTA
27497125 AATTTAAATTT---TTA
1 AATTTAAATTTAAATTA
* *
27497139 CATTTAAATTTAAAATA
1 AATTTAAATTTAAATTA
27497156 AATTTAAATTTAACCA-TA
1 AATTTAAATTTAA--ATTA
27497174 AATTTAAAT
1 AATTTAAAT
27497183 CTTGTTCAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 9
0.78 0.10 0.11
Matches are distributed among these distances:
14 11 0.18
17 39 0.63
18 11 0.18
19 1 0.02
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (17 bp):
AATTTAAATTTAAATTA
Found at i:27497114 original size:6 final size:6
Alignment explanation
Indices: 27497091--27497182 Score: 73
Period size: 6 Copynumber: 15.5 Consensus size: 6
27497081 TTTTATTATT
* **
27497091 AATTTA AATTTT AA-TTA AATTTA AATTTA AA-GCA AATTTA AATTTTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AA--TTTA
* * ***
27497139 CATTTA AATTTA AA-ATA AATTTA AATTTA ACCATA AATTTA AAT
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AAT
27497183 CTTGTTCAAA
Statistics
Matches: 65, Mismatches: 16, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
5 11 0.17
6 49 0.75
8 5 0.08
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (6 bp):
AATTTA
Found at i:27503287 original size:20 final size:19
Alignment explanation
Indices: 27503259--27503301 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
27503249 TTTTTAAAAA
*
27503259 TTTATTTAACCATTTCAAAT
1 TTTACTTAA-CATTTCAAAT
* *
27503279 TTTACTTAAGATTTTAAAT
1 TTTACTTAACATTTCAAAT
27503298 TTTA
1 TTTA
27503302 TTTATTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.35, C:0.09, G:0.02, T:0.53
Consensus pattern (19 bp):
TTTACTTAACATTTCAAAT
Found at i:27503966 original size:15 final size:15
Alignment explanation
Indices: 27503946--27503975 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
27503936 TCAGTAGTCA
27503946 CTTAGACTCTAGAGT
1 CTTAGACTCTAGAGT
27503961 CTTAGACTCTAGAGT
1 CTTAGACTCTAGAGT
27503976 GTGTGCTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (15 bp):
CTTAGACTCTAGAGT
Found at i:27504568 original size:33 final size:35
Alignment explanation
Indices: 27504510--27504583 Score: 109
Period size: 33 Copynumber: 2.2 Consensus size: 35
27504500 TCTCAATCCT
*
27504510 ATAAATAATTCTTATTAATACAAAATCCT-ATTAGC
1 ATAAATAATTCTTATTAATAAAAAAT-CTAATTAGC
27504545 ATAAA-AATTCTTA-TAATAAAAAATCTAATTAGC
1 ATAAATAATTCTTATTAATAAAAAATCTAATTAGC
27504578 ATAAAT
1 ATAAAT
27504584 TATAACATAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
32 2 0.06
33 21 0.58
34 8 0.22
35 5 0.14
ACGTcount: A:0.51, C:0.11, G:0.03, T:0.35
Consensus pattern (35 bp):
ATAAATAATTCTTATTAATAAAAAATCTAATTAGC
Found at i:27507292 original size:20 final size:20
Alignment explanation
Indices: 27507267--27507307 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
27507257 GAGTTTAAGA
27507267 TAGATTAAGAAGAAAATATC
1 TAGATTAAGAAGAAAATATC
27507287 TAGATTAAGAAGAAAATATC
1 TAGATTAAGAAGAAAATATC
27507307 T
1 T
27507308 TCTCTCTCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.54, C:0.05, G:0.15, T:0.27
Consensus pattern (20 bp):
TAGATTAAGAAGAAAATATC
Found at i:27508866 original size:29 final size:29
Alignment explanation
Indices: 27508792--27508917 Score: 139
Period size: 29 Copynumber: 4.4 Consensus size: 29
27508782 TCTAAAAAAT
27508792 GAGCCTTTGTGGCTAATTCTATTATATGA
1 GAGCCTTTGTGGCTAATTCTATTATATGA
* * * *
27508821 GAGCCTTTATTGTTGATTCTATTATATGA
1 GAGCCTTTGTGGCTAATTCTATTATATGA
** * *
27508850 GAGCCTTTGTGAATGATTCTGTTATAT-A
1 GAGCCTTTGTGGCTAATTCTATTATATGA
* *
27508878 TGAGCCTTTGTGGCTAATTCTGTTACATG-
1 -GAGCCTTTGTGGCTAATTCTATTATATGA
27508907 GAGCCTTTGTG
1 GAGCCTTTGTG
27508918 TCTATCTCCG
Statistics
Matches: 82, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
28 12 0.15
29 70 0.85
ACGTcount: A:0.21, C:0.13, G:0.22, T:0.43
Consensus pattern (29 bp):
GAGCCTTTGTGGCTAATTCTATTATATGA
Found at i:27509024 original size:28 final size:28
Alignment explanation
Indices: 27508991--27509088 Score: 94
Period size: 28 Copynumber: 3.5 Consensus size: 28
27508981 TAAGGATGTC
27508991 TTTGTGGCTATCTTTGTCTATAGACGCT
1 TTTGTGGCTATCTTTGTCTATAGACGCT
* **
27509019 TTTGTGGCTATCTTTG-CTTATGGGTGCCT
1 TTTGTGGCTATCTTTGTC-TATAGACG-CT
* *
27509048 TTT-TGGCTATCTATTGT-TAAAAGACGCC
1 TTTGTGGCTATCT-TTGTCT-ATAGACGCT
27509076 TTTGTGGCTATCT
1 TTTGTGGCTATCT
27509089 CTGTTAAAGG
Statistics
Matches: 56, Mismatches: 8, Indels: 11
0.75 0.11 0.15
Matches are distributed among these distances:
27 1 0.02
28 35 0.62
29 20 0.36
ACGTcount: A:0.14, C:0.17, G:0.22, T:0.46
Consensus pattern (28 bp):
TTTGTGGCTATCTTTGTCTATAGACGCT
Found at i:27517616 original size:643 final size:635
Alignment explanation
Indices: 27516296--27518386 Score: 2755
Period size: 615 Copynumber: 3.3 Consensus size: 635
27516286 TGTTTCGACA
* *
27516296 CACCTCATTTGATTTAATATGATCTAGTCCTCCTCCTTGCCTTCGACTTAATTCTTCGCTTGTTT
1 CACCTCATTTGATTTAATATGATCTAGTCCTCCTCCTTGCCTTCGACTCAGTTCTTCGCTTGTTT
* * * * *
27516361 GACCTCCTTTTTTTTATCATCGTACTTGGATTAATCGTCATCCCTCTTTCTCTAAACTGGACATG
66 GACCTCC-TTTTTTGATCACCCTACTTGGATTAAACGTCATCCCTCTTTCTCTAAACTGGACAGG
* * ** *
27516426 CATTCTTGCTTGAATCTACCCAAAATCCATTTTCTCGCTCCTTTCATCCATATCCATTTTTTTCT
130 CATTCTTGCTTGAATCTACCCAAAATCCCTTTTCTCGCTCCCTTCATCCATATCCATTCCTGTC-
* * *
27516491 TACCTCCTTCTCTCAGTTCATCCCTCATCCATTTACATGAGATTTAGAAATTTTAAACTAATGTT
194 TACCTCCTTCTCT-TGTTCATCCCTCAACCATCTACATGAGATTTAGAAATTTTAAACTAATGTT
*
27516556 TAAGTTATCCTTCTAGCCTAACGACAAACCTCTTCTCGATCCTTCAACACCCACATCAATCCCAT
258 TAAGTTATCCTTCTAGCCTAACGACAAACCTCCTCTCGATCCTTCAACA-CCACATCAATCCCAT
* * *
27516621 TCACGTAGCCACACTTCCTTCTGATTTTTTTCCATACTTTTCATACTAACTTTTGTTTCTATAAG
322 TCACATAGCCACACTTCCTTCTTA-TTATTTCCATACTTTTCATACTAACTTTTGTTTCTATAAG
* *
27516686 AAACAATAGTTGAGGCTAAATTTGTCTCAATTTGTGTTTGAGACGTCTAATTGTCTGTGGTTGCC
386 AAACAATAGTTGAGGCTGAATTTGTCTCAATTTGTGTTTGAGACGTCTAATTGTCCGTGGTTGCC
* * * * * * * *
27516751 TCAGGCCACAAACATTCCAACTTAAGGTTTTCATTTTGATCGGTC-AGCTTGCTTATTAGCAGCC
451 TCAAGCCACGAGCATTCCAGCTTAAGGTTTTCATTATGA-CAGTCGA-CCTGCTTATTAGCGGCC
* * * * *
27516815 ACCAATATTTCATTATCCAACTCTGTAACCATTGAGACATTGTTATTTGTGTAATTTGTTTGTTA
514 ATCAATATTTCATTATCCAACTTTGTATCCATTGAGACATTGTTATTTGTGTAATTCGTTTGTTG
* * * *
27516880 CACTCTTTTTCTTTTATTTCCTTCCATTAGCCCCATCGGCTTGTCTTCCAGCTCCTAATT
579 CAC-CTTGTT-TTTTCTTTCCTTCCACTAGCCCCATCGG-TTGTCTTCCAGCTCCTGATT
* * *
27516940 CACCTCATTTTATTTAATATGATCTAGTCCTCCTCCTTGTCTTTGACTCAGTTCTTCGCTTGTTT
1 CACCTCATTTGATTTAATATGATCTAGTCCTCCTCCTTGCCTTCGACTCAGTTCTTCGCTTGTTT
* * * *
27517005 GACCTCCTTTTTTGATCGCCCTACTTGGATTTAACGTCATCCCTCTTTCTCTAAACTGAACAGGA
66 GACCTCCTTTTTTGATCACCCTACTTGGATTAAACGTCATCCCTCTTTCTCTAAACTGGACAGGC
* *
27517070 ATTCTTTCTTGAATCTACCCAAAATCCCTTTTTTCGCTCCCTTCATCCATATCCATTCCTGTCTC
131 ATTCTTGCTTGAATCTACCCAAAATCCCTTTTCTCGCTCCCTTCATCCATATCCATTCCTGTCT-
* * *
27517135 ACCTCCTTCTCTTGGTTCATCCCTCAGCCATCTACACGCGATTTAGAAATTTTAAACTAATGTTT
195 ACCTCCTTCTCTT-GTTCATCCCTCAACCATCTACATGAGATTTAGAAATTTTAAACTAATGTTT
* *
27517200 AAGTTATCCTTCTAGCCTAACGACAAACCTCCTCTCGATCCTTCATCACTCACATTAATCCCATT
259 AAGTTATCCTTCTAGCCTAACGACAAACCTCCTCTCGATCCTTCAACAC-CACATCAATCCCATT
*
27517265 CACATAGCCACACTTCCTTCTTATTATTTCTATACTTTTCATACTAAC-TTTGTTTTCTATAAGA
323 CACATAGCCACACTTCCTTCTTATTATTTCCATACTTTTCATACTAACTTTTG-TTTCTATAAGA
* *** * * * * *
27517329 AACAATAGTTGAGGTTGAATTTGTAAAAAATTGTATTTCAGACGTCTAACTGTCCATGGTTGCCT
387 AACAATAGTTGAGGCTGAATTTGTCTCAATTTGTGTTTGAGACGTCTAATTGTCCGTGGTTGCCT
* * * * *
27517394 CAAGCCACGAGCA-T-CAGCTTAAGATTTTTATTGTGACCAGTCGACCTGCTTATTAGCGGTCGT
452 CAAGCCACGAGCATTCCAGCTTAAGGTTTTCATTATGA-CAGTCGACCTGCTTATTAGCGGCCAT
* *
27517457 CGATATTTCATTATCCAACTTTGTATCCATTGAGACATTGTTATTTGTGTAATCCGTTTGTTGCA
516 CAATATTTCATTATCCAACTTTGTATCCATTGAGACATTGTTATTTGTGTAATTCGTTTGTTGCA
*
27517522 CCGTTCGTTTTTTCTTTCCTTCCACTAGCCCCATCGAGTTGTCTTCCAGCTCTTGATT
581 CC-TT-GTTTTTTCTTTCCTTCCACTAGCCCCATCG-GTTGTCTTCCAGCTCCTGATT
* * *
27517580 CACCTCCTTTGATTTAATATTATCTAGTCCTCCTCCTTGTCTTCGACTCAGTTCTTCGCTT-TTT
1 CACCTCATTTGATTTAATATGATCTAGTCCTCCTCCTTGCCTTCGACTCAGTTCTTCGCTTGTTT
* * * *
27517644 GGCCTCCTTTTTTGATCACCCTAATTGGATTAAACGTCATCCCTTTTTCTCTAAACTGGATAGGC
66 GACCTCCTTTTTTGATCACCCTACTTGGATTAAACGTCATCCCTCTTTCTCTAAACTGGACAGGC
* * * * * *
27517709 ATTCCTGCTTGAATCTGCCTAAAATCCCTTTTCT---T-GC-T-A---AT-TTCA-TCC---ATA
131 ATTCTTGCTTGAATCTACCCAAAATCCCTTTTCTCGCTCCCTTCATCCATATCCATTCCTGTCTA
* * *
27517760 --TCCAT-TCTTG-TC-T---TCAACCATCTACATGTGGTTTAGAAATTTTAAACTAATGTTTAA
196 CCTCCTTCTCTTGTTCATCCCTCAACCATCTACATGAGATTTAGAAATTTTAAACTAATGTTTAA
* * * * * * *
27517817 GTTATTCTTCTAGCCTATCGACAAACCTACTCTTGACCCTTCAGCACCTACATCAATCTCATTCA
261 GTTATCCTTCTAGCCTAACGACAAACCTCCTCTCGATCCTTCAACACC-ACATCAATCCCATTCA
* *
27517882 CAAAGCCACACTTCCTTCTTATTATTTCCATACTTTTAATACTAACTTTTGTTTCTATAAGAAAC
325 CATAGCCACACTTCCTTCTTATTATTTCCATACTTTTCATACTAACTTTTGTTTCTATAAGAAAC
27517947 -A-AGTTGAGGCTGAATTTGTCTCAATTTGTGTTTGAGACGTCTAATTGTCCGTGGTTGCCTCAA
390 AATAGTTGAGGCTGAATTTGTCTCAATTTGTGTTTGAGACGTCTAATTGTCCGTGGTTGCCTCAA
* * * *
27518010 GCCATGGGCATTCCAGCTTAAGGTTTTCATTATGACAGGTCGATCAGCTTATTAGCGGCCATCAA
455 GCCACGAGCATTCCAGCTTAAGGTTTTCATTATGACA-GTCGACCTGCTTATTAGCGGCCATCAA
* *
27518075 TATTTCATTATCCAACTTTGTATCCATTGAGACATTATTATTTGTGTAATTCATTTGTTGCACCC
519 TATTTCATTATCCAACTTTGTATCCATTGAGACATTGTTATTTGTGTAATTCGTTTGTTGCA-CC
* * *
27518140 TTTGTCTTTTCTTTCCTTCCACTAGCCTCATCGGTCTGTCTTCTAGCTCCTGATT
583 -TTGTTTTTTCTTTCCTTCCACTAGCCCCATCGGT-TGTCTTCCAGCTCCTGATT
*
27518195 CACCTCATTTGATTTAATATGATCTAGTCCTCCTCCTTGCCTTCGACTCAGTTCTTCACTTGTTT
1 CACCTCATTTGATTTAATATGATCTAGTCCTCCTCCTTGCCTTCGACTCAGTTCTTCGCTTGTTT
* * * *
27518260 GACCTCCTTTTTTGATCACCCTACTTGGATTAAACGTAATTCCTCTTTCTTTAAACTGGACAAGC
66 GACCTCCTTTTTTGATCACCCTACTTGGATTAAACGTCATCCCTCTTTCTCTAAACTGGACAGGC
* * * *
27518325 ATTCTTGCTTGAATCTGCCTAAAATCCCTTTTCTCTCTCCTTTCATCCATATCCATTCCTGT
131 ATTCTTGCTTGAATCTACCCAAAATCCCTTTTCTCGCTCCCTTCATCCATATCCATTCCTGT
27518387 ATTGCCTCCT
Statistics
Matches: 1269, Mismatches: 148, Indels: 74
0.85 0.10 0.05
Matches are distributed among these distances:
613 61 0.05
614 7 0.01
615 354 0.28
616 101 0.08
618 1 0.00
619 3 0.00
620 1 0.00
621 5 0.00
622 5 0.00
624 1 0.00
625 3 0.00
626 3 0.00
627 3 0.00
628 3 0.00
629 3 0.00
630 2 0.00
633 1 0.00
634 1 0.00
635 1 0.00
636 1 0.00
639 90 0.07
640 198 0.16
641 9 0.01
642 100 0.08
643 245 0.19
644 67 0.05
ACGTcount: A:0.22, C:0.26, G:0.12, T:0.40
Consensus pattern (635 bp):
CACCTCATTTGATTTAATATGATCTAGTCCTCCTCCTTGCCTTCGACTCAGTTCTTCGCTTGTTT
GACCTCCTTTTTTGATCACCCTACTTGGATTAAACGTCATCCCTCTTTCTCTAAACTGGACAGGC
ATTCTTGCTTGAATCTACCCAAAATCCCTTTTCTCGCTCCCTTCATCCATATCCATTCCTGTCTA
CCTCCTTCTCTTGTTCATCCCTCAACCATCTACATGAGATTTAGAAATTTTAAACTAATGTTTAA
GTTATCCTTCTAGCCTAACGACAAACCTCCTCTCGATCCTTCAACACCACATCAATCCCATTCAC
ATAGCCACACTTCCTTCTTATTATTTCCATACTTTTCATACTAACTTTTGTTTCTATAAGAAACA
ATAGTTGAGGCTGAATTTGTCTCAATTTGTGTTTGAGACGTCTAATTGTCCGTGGTTGCCTCAAG
CCACGAGCATTCCAGCTTAAGGTTTTCATTATGACAGTCGACCTGCTTATTAGCGGCCATCAATA
TTTCATTATCCAACTTTGTATCCATTGAGACATTGTTATTTGTGTAATTCGTTTGTTGCACCTTG
TTTTTTCTTTCCTTCCACTAGCCCCATCGGTTGTCTTCCAGCTCCTGATT
Found at i:27523190 original size:83 final size:82
Alignment explanation
Indices: 27523103--27523291 Score: 204
Period size: 84 Copynumber: 2.3 Consensus size: 82
27523093 ATTTCAGCTG
* *
27523103 AATAGTAGATTAGATAGCTCAAGA-AAAAATTGGAGACTATCAACCTCAGATTCTCCTACTG-TA
1 AATAGAAGATT-GATAGCTCAA-ACAAAAATTGGAGACTATCAACCTCAGATCCTCCTACTGCT-
*
27523166 GGAATTTAAGATCTCATA-TA
63 GGAATTAAAGATCTCA-ACTA
* * * * **
27523186 AATAGAAGATTGGATAGTTCAAACCAAAGATTGGAGGCTATCAACGTCAGATCCTCCTTTTGCTG
1 AATAGAAGATT-GATAGCTCAAA-CAAAAATTGGAGACTATCAACCTCAGATCCTCCTACTGCTG
*
27523251 GAATTAAAGATTTCAACTA
64 GAATTAAAGATCTCAACTA
27523270 AATAGAAGATTGAATAGCTCAA
1 AATAGAAGATTG-ATAGCTCAA
27523292 CTAGAAATCA
Statistics
Matches: 89, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
82 1 0.01
83 21 0.24
84 66 0.74
85 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.28
Consensus pattern (82 bp):
AATAGAAGATTGATAGCTCAAACAAAAATTGGAGACTATCAACCTCAGATCCTCCTACTGCTGGA
ATTAAAGATCTCAACTA
Found at i:27523254 original size:84 final size:84
Alignment explanation
Indices: 27523131--27523291 Score: 209
Period size: 84 Copynumber: 1.9 Consensus size: 84
27523121 TCAAGAAAAA
* *
27523131 ATTGGAGACTATCAACCTCAGATTCTCCTACTGTAGGAATTTAAGATCTCATA-TAAATAGAAGA
1 ATTGGAGACTATCAACCTCAGATCCTCCTACTGTAGGAATTAAAGATCTCA-ACTAAATAGAAGA
* *
27523195 TTGGATAGTTCAAACCAAAG
65 TTGAATAGCTCAAACCAAAG
* * ** *
27523215 ATTGGAGGCTATCAACGTCAGATCCTCCTTTTGCT-GGAATTAAAGATTTCAACTAAATAGAAGA
1 ATTGGAGACTATCAACCTCAGATCCTCCTACTG-TAGGAATTAAAGATCTCAACTAAATAGAAGA
27523279 TTGAATAGCTCAA
65 TTGAATAGCTCAA
27523292 CTAGAAATCA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
83 1 0.02
84 64 0.97
85 1 0.02
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (84 bp):
ATTGGAGACTATCAACCTCAGATCCTCCTACTGTAGGAATTAAAGATCTCAACTAAATAGAAGAT
TGAATAGCTCAAACCAAAG
Found at i:27526794 original size:41 final size:41
Alignment explanation
Indices: 27526700--27526839 Score: 163
Period size: 41 Copynumber: 3.4 Consensus size: 41
27526690 TTATGCTCTA
* * * * * *
27526700 TCGAGTCATAAGTCTTCCTTTAACCATATTCTCATTCTTATC
1 TCGAGACATGAGTCTTCC-TTAATCATAATCTCATTCTCATT
*
27526742 TCGAGACATGAGTCTTCCTTAATCAAAATCTCATTCTCATT
1 TCGAGACATGAGTCTTCCTTAATCATAATCTCATTCTCATT
* * * * *
27526783 TTGAGATATGAGTTTTCCTTATTCGTAATCTCATTCTCATT
1 TCGAGACATGAGTCTTCCTTAATCATAATCTCATTCTCATT
27526824 TCGAGACATGAGTCTT
1 TCGAGACATGAGTCTT
27526840 TCACTTATAC
Statistics
Matches: 82, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
41 66 0.80
42 16 0.20
ACGTcount: A:0.25, C:0.22, G:0.11, T:0.41
Consensus pattern (41 bp):
TCGAGACATGAGTCTTCCTTAATCATAATCTCATTCTCATT
Found at i:27532163 original size:40 final size:39
Alignment explanation
Indices: 27532112--27532244 Score: 142
Period size: 40 Copynumber: 3.3 Consensus size: 39
27532102 AGGTTCATGT
27532112 GTCTTCCTTTTAACAATCTTATGCTCTA-CTGAGTCATAA
1 GTCTTCCTTTTAACAATCTTATGCTCTATC-GAGTCATAA
* *
27532151 GTCTTCCATTTTAATAGTCTTATGCTCTATCGAGTCATAA
1 GTCTTCC-TTTTAACAATCTTATGCTCTATCGAGTCATAA
* * * *
27532191 GTCTTCCTTTTTAACAATATTCTCACGCTCATTTCGAGTCATGA
1 GTCTTCC-TTTTAAC-A-A-TCTTATGCTC-TATCGAGTCATAA
27532235 GTCTTCCTTT
1 GTCTTCCTTT
27532245 ATCACATTCT
Statistics
Matches: 79, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
39 7 0.09
40 41 0.52
41 2 0.03
43 11 0.14
44 18 0.23
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.43
Consensus pattern (39 bp):
GTCTTCCTTTTAACAATCTTATGCTCTATCGAGTCATAA
Found at i:27538083 original size:78 final size:78
Alignment explanation
Indices: 27538001--27538202 Score: 189
Period size: 78 Copynumber: 2.6 Consensus size: 78
27537991 GCAGAAATAG
* * * *
27538001 AATCCTGAAATAGAATTGTTCAATTTATTTCTGTTTGAAAACA-AAAATTTGATTAAAT-TCTGT
1 AATCCTGAAATAAAATTATTCAATTTATTTCTGTTTGAAAACAGAAAA-TCGAATAAATAT-TGT
27538064 TGAATAGTAGAAACA
64 TGAATAGTAGAAACA
* * * * * *
27538079 AATCCTGAAACAAAATTCTTTAA-TTACTTTCTCTTTGGAAATAGAAAATCGAATAAATATTGTT
1 AATCCTGAAATAAAATTATTCAATTTA-TTTCTGTTTGAAAACAGAAAATCGAATAAATATTGTT
* * *
27538143 GAATGGTAGGAATA
65 GAATAGTAGAAACA
* *
27538157 AATTCC-GAAATAAAATTATTCAATTAATTTTTGTTT-ACAAACAGAA
1 AA-TCCTGAAATAAAATTATTCAATTTATTTCTGTTTGA-AAACAGAA
27538203 TACAATTTCA
Statistics
Matches: 98, Mismatches: 20, Indels: 12
0.75 0.15 0.09
Matches are distributed among these distances:
77 3 0.03
78 85 0.87
79 10 0.10
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.36
Consensus pattern (78 bp):
AATCCTGAAATAAAATTATTCAATTTATTTCTGTTTGAAAACAGAAAATCGAATAAATATTGTTG
AATAGTAGAAACA
Found at i:27544450 original size:29 final size:30
Alignment explanation
Indices: 27544386--27544450 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
27544376 ATAATTTACA
* * *
27544386 AAAATTATATCAAATCAAAATTTCATTTAT
1 AAAATTACATAAAATCAAAATTTCATATAT
27544416 AAAATTACATAAAATCAAAA-TTCATATAT
1 AAAATTACATAAAATCAAAATTTCATATAT
*
27544445 ATAATT
1 AAAATT
27544451 GCACATTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 13 0.42
30 18 0.58
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (30 bp):
AAAATTACATAAAATCAAAATTTCATATAT
Found at i:27545737 original size:17 final size:17
Alignment explanation
Indices: 27545715--27545747 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
27545705 GGAACAACCA
27545715 TTAAGTTGTTCTATAAC
1 TTAAGTTGTTCTATAAC
*
27545732 TTAAGTTGTTTTATAA
1 TTAAGTTGTTCTATAA
27545748 AAGGTCTACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.06, G:0.12, T:0.52
Consensus pattern (17 bp):
TTAAGTTGTTCTATAAC
Found at i:27549892 original size:13 final size:13
Alignment explanation
Indices: 27549864--27549914 Score: 50
Period size: 13 Copynumber: 4.0 Consensus size: 13
27549854 GGTACAAGAT
*
27549864 TTTTCTTTTAA-A
1 TTTTCTTTTAATC
27549876 TTTTCTTTTAATC
1 TTTTCTTTTAATC
* * *
27549889 TTTTCTCTTATTG
1 TTTTCTTTTAATC
*
27549902 TATTCTTTTAATC
1 TTTTCTTTTAATC
27549915 AACTCCTAAT
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
12 11 0.37
13 19 0.63
ACGTcount: A:0.18, C:0.14, G:0.02, T:0.67
Consensus pattern (13 bp):
TTTTCTTTTAATC
Found at i:27553078 original size:61 final size:62
Alignment explanation
Indices: 27552995--27553113 Score: 136
Period size: 61 Copynumber: 1.9 Consensus size: 62
27552985 GGCTACATAG
* * *
27552995 TTTATAACAACCGATAAAAGATTTG-ATTGGTCTCTATTGACT-GACTCTCCTACATACACGA
1 TTTATAACAACCGAAAAAAGA-TTGAACTGGTCTCGATTGACTCGACTCTCCTACATACACGA
* * *
27553056 TTTATAACAATC-AAAAACAGATTGAACTGGTCTCGGTTGACTCGGACTCTGCTACATA
1 TTTATAACAACCGAAAAA-AGATTGAACTGGTCTCGATTGACTC-GACTCTCCTACATA
27553114 TAAGAGCATA
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
60 7 0.15
61 28 0.58
63 13 0.27
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (62 bp):
TTTATAACAACCGAAAAAAGATTGAACTGGTCTCGATTGACTCGACTCTCCTACATACACGA
Found at i:27556656 original size:5 final size:5
Alignment explanation
Indices: 27556646--27556670 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
27556636 TAGTGATAGA
27556646 GAGAG GAGAG GAGAG GAGAG GAGAG
1 GAGAG GAGAG GAGAG GAGAG GAGAG
27556671 AGATCCAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (5 bp):
GAGAG
Found at i:27559232 original size:54 final size:54
Alignment explanation
Indices: 27559150--27559308 Score: 228
Period size: 54 Copynumber: 2.9 Consensus size: 54
27559140 AGTATCCGAC
* *** * *
27559150 AGTAAACAAGTTGATGGTAAGTATCCTATCCGTTAAGATCCATTCTAATCTGGT
1 AGTAAACAAGCTGATGGTAAGCCCCCTATCCGTTAAGATCCATTCAAATCTGAT
*
27559204 AGTAAACAAGCTGATGGTAAGCCCCCTATCCGTTAAGATCCATTCCAATCTGAT
1 AGTAAACAAGCTGATGGTAAGCCCCCTATCCGTTAAGATCCATTCAAATCTGAT
* * *
27559258 AGTAAACAAGCTGATGGTAAGCCCCTTGTTCGTTAAGATCCATTCAAATCT
1 AGTAAACAAGCTGATGGTAAGCCCCCTATCCGTTAAGATCCATTCAAATCT
27559309 TCCGTCTCCC
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 95 1.00
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (54 bp):
AGTAAACAAGCTGATGGTAAGCCCCCTATCCGTTAAGATCCATTCAAATCTGAT
Found at i:27565968 original size:13 final size:13
Alignment explanation
Indices: 27565950--27565977 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
27565940 AATATATAGA
27565950 TCAATATAGAAAT
1 TCAATATAGAAAT
27565963 TCAATATAGAAAT
1 TCAATATAGAAAT
27565976 TC
1 TC
27565978 TATTTTAACC
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:0.50, C:0.11, G:0.07, T:0.32
Consensus pattern (13 bp):
TCAATATAGAAAT
Found at i:27567373 original size:15 final size:17
Alignment explanation
Indices: 27567348--27567383 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
27567338 ATATTGTTCT
27567348 CGTGTCCACGTCAG-CA
1 CGTGTCCACGTCAGTCA
27567364 CGTG-CCACGTCAGTCA
1 CGTGTCCACGTCAGTCA
27567380 CGTG
1 CGTG
27567384 ACCCCTTGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.17, C:0.36, G:0.28, T:0.19
Consensus pattern (17 bp):
CGTGTCCACGTCAGTCA
Found at i:27567440 original size:18 final size:18
Alignment explanation
Indices: 27567417--27567481 Score: 67
Period size: 18 Copynumber: 3.5 Consensus size: 18
27567407 CCCTTCGACT
**
27567417 CCCGAGACGTTTCCTCTG
1 CCCGAGACCCTTCCTCTG
27567435 CCCGAGACCCTTCCTCTG
1 CCCGAGACCCTTCCTCTG
* *
27567453 CCCAAGAAACCTCTCCTCTG
1 CCCGAG-ACCCT-TCCTCTG
*
27567473 TCCGAGACC
1 CCCGAGACC
27567482 TTTTTGCTAC
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
18 21 0.55
19 6 0.16
20 11 0.29
ACGTcount: A:0.17, C:0.45, G:0.17, T:0.22
Consensus pattern (18 bp):
CCCGAGACCCTTCCTCTG
Found at i:27569225 original size:41 final size:41
Alignment explanation
Indices: 27569174--27569331 Score: 183
Period size: 41 Copynumber: 3.8 Consensus size: 41
27569164 TTAACCATAT
*
27569174 TCTCATTCTCAACTAGAGATATGAGTCTTCCTTAATCAAAA
1 TCTCATTCTCAACTCGAGATATGAGTCTTCCTTAATCAAAA
* ** *
27569215 TCTTATTCTCATTTCGAGATATGAGTCTTCCTTATTCAAAA
1 TCTCATTCTCAACTCGAGATATGAGTCTTCCTTAATCAAAA
* * **
27569256 TCTCATTCTCATCTCGAGATATGAGTCTTCCATTTATACAATT
1 TCTCATTCTCAACTCGAGATATGAGTCTTCC-TTAAT-CAAAA
* *
27569299 TCTCATGCTCAAC-CTGAGACATGAGTCTTCCTT
1 TCTCATTCTCAACTC-GAGATATGAGTCTTCCTT
27569332 TTTATACACC
Statistics
Matches: 100, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
41 65 0.65
42 6 0.06
43 29 0.29
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.39
Consensus pattern (41 bp):
TCTCATTCTCAACTCGAGATATGAGTCTTCCTTAATCAAAA
Found at i:27571033 original size:186 final size:187
Alignment explanation
Indices: 27570718--27571092 Score: 734
Period size: 186 Copynumber: 2.0 Consensus size: 187
27570708 TGTACTGTCT
27570718 CAGCATCAAAACGTGAAAACACATTATGAATCTTCTCTAATTCTGGTGGCAAAGCCAGCTTATAT
1 CAGCATCAAAACGTGAAAACACATTATGAATCTTCTCTAATTCTGGTGGCAAAGCCAGCTTATAT
27570783 ACCATAGGACCAACTCGTTCAATGATCTCATACGATCCTATAAACCGTGGACTCAACTTTCCTCT
66 ACCATAGGACCAACTCGTTCAATGATCTCATACGATCCTATAAACCGTGGACTCAACTTTCCTCT
*
27570848 TCTTCCAAACCTTAGCACTTTCTTTCAAGGTGAAACTCTCAAGAAGAGTTGGTCTTC
131 TCTTCCAAACCTTAGCACTTTCTTTCAAGGTGAAACTCTCAAGAAGACTTGGTCTTC
27570905 CAGCATCAAAACGTG-AAACACATTATGAATCTTCTCTAATTCTGGTGGCAAAGCCAGCTTATAT
1 CAGCATCAAAACGTGAAAACACATTATGAATCTTCTCTAATTCTGGTGGCAAAGCCAGCTTATAT
27570969 ACCATAGGACCAACTCGTTCAATGATCTCATACGATCCTATAAACCGTGGACTCAACTTTCCTCT
66 ACCATAGGACCAACTCGTTCAATGATCTCATACGATCCTATAAACCGTGGACTCAACTTTCCTCT
27571034 TCTTCCAAACCTTAGCACTTTCTTTCAAGGTGAAACTCTCAAGAAGACTTGGTCTTC
131 TCTTCCAAACCTTAGCACTTTCTTTCAAGGTGAAACTCTCAAGAAGACTTGGTCTTC
27571091 CA
1 CA
27571093 CTGCAAATTC
Statistics
Matches: 187, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
186 172 0.92
187 15 0.08
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.29
Consensus pattern (187 bp):
CAGCATCAAAACGTGAAAACACATTATGAATCTTCTCTAATTCTGGTGGCAAAGCCAGCTTATAT
ACCATAGGACCAACTCGTTCAATGATCTCATACGATCCTATAAACCGTGGACTCAACTTTCCTCT
TCTTCCAAACCTTAGCACTTTCTTTCAAGGTGAAACTCTCAAGAAGACTTGGTCTTC
Found at i:27583683 original size:60 final size:60
Alignment explanation
Indices: 27583610--27583805 Score: 195
Period size: 60 Copynumber: 3.2 Consensus size: 60
27583600 GTTTTCTTTA
* * *
27583610 AAAAACTAT-ATTTTAAACCCCAAACTTTCT-AAAATTTTATTTTCGA-CCCTTAAATTTTCT
1 AAAAA-TATCATTTTAAACCCCAAACCTTCTGAAAATTTCATTTT-GAGCCC-TAAACTTTCT
* *
27583670 AAAAATTTCATTTTAACCCCCAAACCTTCTGAAAATTTCATTTTGAGCCCTAAACTTTCT
1 AAAAATATCATTTTAAACCCCAAACCTTCTGAAAATTTCATTTTGAGCCCTAAACTTTCT
* ** * * * *
27583730 AAAAATATCATTTT-AACCCCTAAACCTTTTTTAAATTACATTTTGACCCCTAAAATTTTT
1 AAAAATATCATTTTAAACCCC-AAACCTTCTGAAAATTTCATTTTGAGCCCTAAACTTTCT
27583790 GAAAAA-ATGCATTTTA
1 -AAAAATAT-CATTTTA
27583806 GCCTCTAAAA
Statistics
Matches: 115, Mismatches: 14, Indels: 12
0.82 0.10 0.09
Matches are distributed among these distances:
59 7 0.06
60 82 0.71
61 26 0.23
ACGTcount: A:0.37, C:0.20, G:0.04, T:0.39
Consensus pattern (60 bp):
AAAAATATCATTTTAAACCCCAAACCTTCTGAAAATTTCATTTTGAGCCCTAAACTTTCT
Found at i:27583707 original size:30 final size:30
Alignment explanation
Indices: 27583619--27583783 Score: 156
Period size: 30 Copynumber: 5.5 Consensus size: 30
27583609 AAAAAACTAT
*
27583619 ATTTTAAACCCC-AAACTTTCT-AAAATTTT
1 ATTTT-AACCCCTAAACTTTCTAAAAATTTC
* * *
27583648 ATTTTCGACCCTTAAATTTTCTAAAAATTTC
1 ATTTT-AACCCCTAAACTTTCTAAAAATTTC
* * *
27583679 ATTTTAACCCCCAAACCTTCTGAAAATTTC
1 ATTTTAACCCCTAAACTTTCTAAAAATTTC
* * *
27583709 ATTTTGAGCCCTAAACTTTCTAAAAATATC
1 ATTTTAACCCCTAAACTTTCTAAAAATTTC
** *
27583739 ATTTTAACCCCTAAACCTTT-TTTAAATTAC
1 ATTTTAACCCCTAAA-CTTTCTAAAAATTTC
*
27583769 ATTTTGACCCCTAAA
1 ATTTTAACCCCTAAA
27583784 ATTTTTGAAA
Statistics
Matches: 109, Mismatches: 24, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
29 9 0.08
30 84 0.77
31 16 0.15
ACGTcount: A:0.35, C:0.23, G:0.03, T:0.39
Consensus pattern (30 bp):
ATTTTAACCCCTAAACTTTCTAAAAATTTC
Found at i:27599661 original size:15 final size:15
Alignment explanation
Indices: 27599643--27599674 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
27599633 GCTTAAGGGT
*
27599643 AAAATAGTAATTATA
1 AAAATAATAATTATA
27599658 AAAATAATAATTATA
1 AAAATAATAATTATA
27599673 AA
1 AA
27599675 CAAAACCTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (15 bp):
AAAATAATAATTATA
Found at i:27600706 original size:25 final size:25
Alignment explanation
Indices: 27600657--27600761 Score: 95
Period size: 25 Copynumber: 4.2 Consensus size: 25
27600647 GTATACTGGT
* *
27600657 TAAACTCTGTCTAGGCTTGTAAGAGC
1 TAAAC-CTATCTAGGCTCGTAAGAGC
* * *
27600683 TAACCCTATCTAGGCTCGTTAGAGA
1 TAAACCTATCTAGGCTCGTAAGAGC
*
27600708 TAAACTTATCT-GAGCTCGTAAGAGC
1 TAAACCTATCTAG-GCTCGTAAGAGC
* * * *
27600733 TAAATCTGTCTGGGCTCGTATGAGC
1 TAAACCTATCTAGGCTCGTAAGAGC
27600758 TAAA
1 TAAA
27600762 TTTTGGAAGA
Statistics
Matches: 64, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
24 1 0.02
25 58 0.91
26 5 0.08
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.30
Consensus pattern (25 bp):
TAAACCTATCTAGGCTCGTAAGAGC
Found at i:27617915 original size:16 final size:17
Alignment explanation
Indices: 27617883--27617917 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
27617873 ATTTAATCTT
*
27617883 TATATAACATAACATAA
1 TATATAACATAAAATAA
27617900 TATATAA-ATAAAATAA
1 TATATAACATAAAATAA
27617916 TA
1 TA
27617918 AGTTACATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (17 bp):
TATATAACATAAAATAA
Found at i:27630372 original size:23 final size:22
Alignment explanation
Indices: 27630333--27630378 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
27630323 TTAATTAAAA
* *
27630333 TAATTTTAAGTAATATTTATAT
1 TAATTTTAAATAATATTCATAT
*
27630355 TAATATTTAAATATTATTCATAT
1 TAAT-TTTAAATAATATTCATAT
27630378 T
1 T
27630379 TTTTATTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (22 bp):
TAATTTTAAATAATATTCATAT
Found at i:27630451 original size:6 final size:6
Alignment explanation
Indices: 27630442--27630480 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
27630432 AAAATAAATA
*
27630442 AATTTT AATTTT AATTTT AATATTTT AATTTT AAATTT A
1 AATTTT AATTTT AATTTT -A-ATTTT AATTTT AATTTT A
27630481 TAATATTCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
6 23 0.77
7 2 0.07
8 5 0.17
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (6 bp):
AATTTT
Found at i:27630468 original size:14 final size:13
Alignment explanation
Indices: 27630442--27630484 Score: 61
Period size: 14 Copynumber: 3.2 Consensus size: 13
27630432 AAAATAAATA
27630442 AATTTT-AATTTT
1 AATTTTAAATTTT
27630454 AATTTTAATATTTT
1 AATTTTAA-ATTTT
27630468 AATTTTAAATTTAT
1 AATTTTAAATTT-T
27630482 AAT
1 AAT
27630485 ATTCATGATA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 6 0.21
13 5 0.18
14 17 0.61
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
AATTTTAAATTTT
Found at i:27630468 original size:20 final size:22
Alignment explanation
Indices: 27630439--27630487 Score: 77
Period size: 20 Copynumber: 2.4 Consensus size: 22
27630429 ATAAAAATAA
27630439 ATAA-ATTTTAATTTT-AATTT
1 ATAATATTTTAATTTTAAATTT
27630459 -TAATATTTTAATTTTAAATTT
1 ATAATATTTTAATTTTAAATTT
27630480 ATAATATT
1 ATAATATT
27630488 CATGATATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 3 0.12
20 11 0.42
21 5 0.19
22 7 0.27
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
ATAATATTTTAATTTTAAATTT
Found at i:27631805 original size:27 final size:26
Alignment explanation
Indices: 27631774--27631838 Score: 67
Period size: 28 Copynumber: 2.4 Consensus size: 26
27631764 AAACAAAATT
27631774 AAATATTATTTAATTAGTAATTTTTAA
1 AAATATTATTTAATT-GTAATTTTTAA
* * *
27631801 AAATATTTATATTTATTTTATTTTTTAA
1 AAATA-TTAT-TTAATTGTAATTTTTAA
*
27631829 AAATACTATT
1 AAATATTATT
27631839 AAAAATTTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
26 1 0.03
27 8 0.25
28 18 0.56
29 5 0.16
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (26 bp):
AAATATTATTTAATTGTAATTTTTAA
Found at i:27633513 original size:29 final size:30
Alignment explanation
Indices: 27633461--27633517 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
27633451 GTATTTTTGA
27633461 TTGGCGAACCCTAGTTAACAACTTAACTCT
1 TTGGCGAACCCTAGTTAACAACTTAACTCT
* * *
27633491 TTGGCGAATCC-AGTTCACTACTTAACT
1 TTGGCGAACCCTAGTTAACAACTTAACT
27633518 GGCGAACACT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
TTGGCGAACCCTAGTTAACAACTTAACTCT
Found at i:27635738 original size:37 final size:37
Alignment explanation
Indices: 27635675--27635967 Score: 318
Period size: 37 Copynumber: 7.9 Consensus size: 37
27635665 CATCTAAAAA
* * *
27635675 TTCAAGCTATGTGCCTAGTAGGCTTCGTGTGGGTGCT
1 TTCAGGCTATGTGCCTAGTAGGCTTCGTGTCGGTGTT
* * * *** * *
27635712 TTCAGGCTTTGTCCCTAGTAGACTTCGCACCGATGAT
1 TTCAGGCTATGTGCCTAGTAGGCTTCGTGTCGGTGTT
* *
27635749 TTCAGGCTATGTGCTTAGTAGGCTTCGTGCCGGTGTT
1 TTCAGGCTATGTGCCTAGTAGGCTTCGTGTCGGTGTT
* *
27635786 TTCAGGCTATGTGCCTAGTAGGTTTCGTGCCGGTGTT
1 TTCAGGCTATGTGCCTAGTAGGCTTCGTGTCGGTGTT
* ** * *
27635823 TTCAGGCTTTGTGCCTAGTAGATTTCATGTCAGTGTT
1 TTCAGGCTATGTGCCTAGTAGGCTTCGTGTCGGTGTT
* * * *
27635860 TTCAAGATATGTGCCTACTAGGCTTTGTGTCGGTGTT
1 TTCAGGCTATGTGCCTAGTAGGCTTCGTGTCGGTGTT
*
27635897 TTCAGGCTATGTGCCTAGTAGGCTTCGTG-CTAGTGTT
1 TTCAGGCTATGTGCCTAGTAGGCTTCGTGTC-GGTGTT
* * *
27635934 TTCAGGCTATGTGCCTAGCAGGCTTTGTGCCGGT
1 TTCAGGCTATGTGCCTAGTAGGCTTCGTGTCGGT
27635968 AATCCAAGAA
Statistics
Matches: 212, Mismatches: 42, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
36 1 0.00
37 210 0.99
38 1 0.00
ACGTcount: A:0.14, C:0.20, G:0.29, T:0.37
Consensus pattern (37 bp):
TTCAGGCTATGTGCCTAGTAGGCTTCGTGTCGGTGTT
Found at i:27635840 original size:111 final size:110
Alignment explanation
Indices: 27635675--27635951 Score: 351
Period size: 111 Copynumber: 2.5 Consensus size: 110
27635665 CATCTAAAAA
* ** * *
27635675 TTCAAGCTATGTGCCTAGTAGGCTTCGTGTGGGTGCTTTCAGGCTTTGTCCCTAGTAGACTTC-G
1 TTCAGGCTATGTGCCTAGTAGGCTTCGTGCCGGTGTTTTCAGGCTTTGTGCCTAGTAGACTTCAG
* * * *
27635739 -CACCGATGATTTCAGGCTATGTGCTTAGTAGGCTTCGTGCCGGTGTT
66 TCA--G-TGATTTCAAGATATGTGCCTACTAGGCTTCGTGCCGGTGTT
* *
27635786 TTCAGGCTATGTGCCTAGTAGGTTTCGTGCCGGTGTTTTCAGGCTTTGTGCCTAGTAGATTTCAT
1 TTCAGGCTATGTGCCTAGTAGGCTTCGTGCCGGTGTTTTCAGGCTTTGTGCCTAGTAGACTTCA-
* * *
27635851 GTCAGTGTTTTCAAGATATGTGCCTACTAGGCTTTGTGTCGGTGTT
65 GTCAGTGATTTCAAGATATGTGCCTACTAGGCTTCGTGCCGGTGTT
** *
27635897 TTCAGGCTATGTGCCTAGTAGGCTTCGTGCTAGTGTTTTCAGGCTATGTGCCTAG
1 TTCAGGCTATGTGCCTAGTAGGCTTCGTGCCGGTGTTTTCAGGCTTTGTGCCTAG
27635952 CAGGCTTTGT
Statistics
Matches: 145, Mismatches: 18, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
111 141 0.97
112 1 0.01
113 1 0.01
114 2 0.01
ACGTcount: A:0.14, C:0.19, G:0.29, T:0.38
Consensus pattern (110 bp):
TTCAGGCTATGTGCCTAGTAGGCTTCGTGCCGGTGTTTTCAGGCTTTGTGCCTAGTAGACTTCAG
TCAGTGATTTCAAGATATGTGCCTACTAGGCTTCGTGCCGGTGTT
Found at i:27637528 original size:19 final size:19
Alignment explanation
Indices: 27637506--27637567 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
27637496 CAGCATTTGC
27637506 TTGATCGTGCAACATTTCT
1 TTGATCGTGCAACATTTCT
* * ** *
27637525 TTGAAAAC-TGAAATGTTTGT
1 TTG--ATCGTGCAACATTTCT
27637545 TTGATCGTGCAACATTTCT
1 TTGATCGTGCAACATTTCT
27637564 TTGA
1 TTGA
27637568 AAAGTGAAAT
Statistics
Matches: 30, Mismatches: 10, Indels: 6
0.65 0.22 0.13
Matches are distributed among these distances:
18 2 0.07
19 15 0.50
20 11 0.37
21 2 0.07
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.42
Consensus pattern (19 bp):
TTGATCGTGCAACATTTCT
Found at i:27637560 original size:39 final size:39
Alignment explanation
Indices: 27637501--27637582 Score: 146
Period size: 39 Copynumber: 2.1 Consensus size: 39
27637491 TTCTGCAGCA
27637501 TTTGCTTGATCGTGCAACATTTCTTTGAAAACTGAAATG
1 TTTGCTTGATCGTGCAACATTTCTTTGAAAACTGAAATG
* *
27637540 TTTGTTTGATCGTGCAACATTTCTTTGAAAAGTGAAATG
1 TTTGCTTGATCGTGCAACATTTCTTTGAAAACTGAAATG
27637579 TTTG
1 TTTG
27637583 GGCATTCCAC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.41
Consensus pattern (39 bp):
TTTGCTTGATCGTGCAACATTTCTTTGAAAACTGAAATG
Found at i:27640336 original size:630 final size:630
Alignment explanation
Indices: 27639082--27640973 Score: 3732
Period size: 630 Copynumber: 3.0 Consensus size: 630
27639072 ATTAAAGGAG
27639082 TATCAAATATGATTGTCCAATTAGTCCAAGAGTTTAGCAAATGAATCCATAAGTAAATGATGGGT
1 TATCAAATATGATTGTCCAATTAGTCCAAGAGTTTAGCAAATGAATCCATAAGTAAATGAT-GGT
27639147 GTAATATGACAGTTCAATTGTTTAAGTTCAGTCTAAAAATATAACATATGACATTATAATCACTT
65 GTAATATGACAGTTCAATTGTTTAAGTTCAGTCTAAAAATATAACATATGACATTATAATCACTT
27639212 GATAACTTCAATACTTATAAAAAGATTTCAAATATTTATTATGTCAATTTTTATGTCTACAACAA
130 GATAACTTCAATACTTATAAAAAGATTTCAAATATTTATTATGTCAATTTTTATGTCTACAACAA
27639277 ATCAAGGTTAATTTATCCAAGCATTCATTGTGTCATATATTATCTATAACAAATAAAATATCTTA
195 ATCAAGGTTAATTTATCCAAGCATTCATTGTGTCATATATTATCTATAACAAATAAAATATCTTA
27639342 CTTTACAAGTATGATTATAACAAGTGGTTGATAATTAATTTTAGCTCAAATGATGAGTATAGAAT
260 CTTTACAAGTATGATTATAACAAGTGGTTGATAATTAATTTTAGCTCAAATGATGAGTATAGAAT
27639407 TTACCTTAATATTTGCCAAGAGTTTCACCTTTCACCTCAGCATTGAAAACTTAGAATAACATAAC
325 TTACCTTAATATTTGCCAAGAGTTTCACCTTTCACCTCAGCATTGAAAACTTAGAATAACATAAC
27639472 AAAATTGAACTCAAACTTATATGAAAAATACATATTAGATATAAGAAACTTGAAATTTTACACGA
390 AAAATTGAACTCAAACTTATATGAAAAATACATATTAGATATAAGAAACTTGAAATTTTACACGA
27639537 ATAATGTAACAAACAAAGACTTAAGAAGAAAATGATCTTGATTTCAACTTCAAGATGCCTTCTAT
455 ATAATGTAACAAACAAAGACTTAAGAAGAAAATGATCTTGATTTCAACTTCAAGATGCCTTCTAT
27639602 GTTGAAACCAAAGGATATTTATAGAAATTTGTGAAGAGGAAAATGACAATACAAAGGACTTGCTA
520 GTTGAAACCAAAGGATATTTATAGAAATTTGTGAAGAGGAAAATGACAATACAAAGGACTTGCTA
27639667 ATAGTAAATTTCTAGGCCTACTTCTTTGTCATCTTTTTAGTCATTT
585 ATAGTAAATTTCTAGGCCTACTTCTTTGTCATCTTTTTAGTCATTT
27639713 TATCAAATATGATTGTCCAATTAGTCCAAGAGTTTAGCAAATGAATCCATAAGTAAATGATGGTG
1 TATCAAATATGATTGTCCAATTAGTCCAAGAGTTTAGCAAATGAATCCATAAGTAAATGATGGTG
27639778 TAATATGACAGTTCAATTGTTTAAGTTCAGTCTAAAAATATAACATATGACATTATAATCACTTG
66 TAATATGACAGTTCAATTGTTTAAGTTCAGTCTAAAAATATAACATATGACATTATAATCACTTG
27639843 ATAACTTCAATACTTATAAAAAGATTTCAAATATTTATTATGTCAATTTTTATGTCTACAACAAA
131 ATAACTTCAATACTTATAAAAAGATTTCAAATATTTATTATGTCAATTTTTATGTCTACAACAAA
27639908 TCAAGGTTAATTTATCCAAGCATTCATTGTGTCATATATTATCTATAACAAATAAAATATCTTAC
196 TCAAGGTTAATTTATCCAAGCATTCATTGTGTCATATATTATCTATAACAAATAAAATATCTTAC
27639973 TTTACAAGTATGATTATAACAAGTGGTTGATAATTAATTTTAGCTCAAATGATGAGTATAGAATT
261 TTTACAAGTATGATTATAACAAGTGGTTGATAATTAATTTTAGCTCAAATGATGAGTATAGAATT
27640038 TACCTTAATATTTGCCAAGAGTTTCACCTTTCACCTCAGCATTGAAAACTTAGAATAACATAACA
326 TACCTTAATATTTGCCAAGAGTTTCACCTTTCACCTCAGCATTGAAAACTTAGAATAACATAACA
27640103 AAATTGAACTCAAACTTATATGAAAAATACATATTTAGATATAAGAAACTTGAAATTTTACACGA
391 AAATTGAACTCAAACTTATATGAAAAATACATA-TTAGATATAAGAAACTTGAAATTTTACACGA
27640168 ATAATGTAACAAACAAAGACTTAAGAAGAAAATGATCTTGATTTCAACTTCAAGATGCCTTCTAT
455 ATAATGTAACAAACAAAGACTTAAGAAGAAAATGATCTTGATTTCAACTTCAAGATGCCTTCTAT
27640233 GTTGAAACCAAAGGATATTTATAGAAATTTGTGAAGAGGAAAATGACAATACAAAGGACTTGCTA
520 GTTGAAACCAAAGGATATTTATAGAAATTTGTGAAGAGGAAAATGACAATACAAAGGACTTGCTA
27640298 ATAGTAAATTTCTAGGCCTACTTCTTTGTCAT-TTTTTAGTCATTT
585 ATAGTAAATTTCTAGGCCTACTTCTTTGTCATCTTTTTAGTCATTT
27640343 TATCAAATATGATTGTCCAATTAGTCCAAGAGTTTAGCAAATGAATCCATAAGTAAATGATGGTG
1 TATCAAATATGATTGTCCAATTAGTCCAAGAGTTTAGCAAATGAATCCATAAGTAAATGATGGTG
27640408 TAATATGACAGTTCAATTGTTTAAGTTCAGTCTAAAAATATAACATATGACATTATAATCACTTG
66 TAATATGACAGTTCAATTGTTTAAGTTCAGTCTAAAAATATAACATATGACATTATAATCACTTG
27640473 ATAACTTCAATACTTATAAAAAGATTTCAAATATTTATTATGTCAATTTTTATGTCTACAACAAA
131 ATAACTTCAATACTTATAAAAAGATTTCAAATATTTATTATGTCAATTTTTATGTCTACAACAAA
27640538 TCAAGGTTAATTTATCCAAGCATTCATTGTGTCATATATTATCTATAACAAATAAAATATCTTAC
196 TCAAGGTTAATTTATCCAAGCATTCATTGTGTCATATATTATCTATAACAAATAAAATATCTTAC
27640603 TTTACAAGTATGATTATAACAAGTGGTTGATAATTAATTTTAGCTCAAATGATGAGTATAGAATT
261 TTTACAAGTATGATTATAACAAGTGGTTGATAATTAATTTTAGCTCAAATGATGAGTATAGAATT
*
27640668 TACCTTAATATTTGCTAAGAGTTTCACCTTTCACCTCAGCATTGAAAACTTAGAATAACATAACA
326 TACCTTAATATTTGCCAAGAGTTTCACCTTTCACCTCAGCATTGAAAACTTAGAATAACATAACA
27640733 AAATTGAACTCAAACTTATATGAAAAATACATATTAGATATAAGAAACTTGAAATTTTACACGAA
391 AAATTGAACTCAAACTTATATGAAAAATACATATTAGATATAAGAAACTTGAAATTTTACACGAA
* *
27640798 TAATGTAACAAACAAAAACTTAAGAAGAAAATGATCTTGGTTTCAACTTCAAGATGCCTTCTATG
456 TAATGTAACAAACAAAGACTTAAGAAGAAAATGATCTTGATTTCAACTTCAAGATGCCTTCTATG
27640863 TTGAAACCAAAGGATATTTATAGAAATTTGTGAAGAGGAAAATGACAATACAAAGGACTTGCTAA
521 TTGAAACCAAAGGATATTTATAGAAATTTGTGAAGAGGAAAATGACAATACAAAGGACTTGCTAA
27640928 TAGTAAATTTCTAGGCCTACTTCTTTGTCATCTTTTTAGTCATTT
586 TAGTAAATTTCTAGGCCTACTTCTTTGTCATCTTTTTAGTCATTT
27640973 T
1 T
27640974 TCACATGTTA
Statistics
Matches: 1256, Mismatches: 3, Indels: 5
0.99 0.00 0.00
Matches are distributed among these distances:
629 191 0.15
630 811 0.65
631 254 0.20
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (630 bp):
TATCAAATATGATTGTCCAATTAGTCCAAGAGTTTAGCAAATGAATCCATAAGTAAATGATGGTG
TAATATGACAGTTCAATTGTTTAAGTTCAGTCTAAAAATATAACATATGACATTATAATCACTTG
ATAACTTCAATACTTATAAAAAGATTTCAAATATTTATTATGTCAATTTTTATGTCTACAACAAA
TCAAGGTTAATTTATCCAAGCATTCATTGTGTCATATATTATCTATAACAAATAAAATATCTTAC
TTTACAAGTATGATTATAACAAGTGGTTGATAATTAATTTTAGCTCAAATGATGAGTATAGAATT
TACCTTAATATTTGCCAAGAGTTTCACCTTTCACCTCAGCATTGAAAACTTAGAATAACATAACA
AAATTGAACTCAAACTTATATGAAAAATACATATTAGATATAAGAAACTTGAAATTTTACACGAA
TAATGTAACAAACAAAGACTTAAGAAGAAAATGATCTTGATTTCAACTTCAAGATGCCTTCTATG
TTGAAACCAAAGGATATTTATAGAAATTTGTGAAGAGGAAAATGACAATACAAAGGACTTGCTAA
TAGTAAATTTCTAGGCCTACTTCTTTGTCATCTTTTTAGTCATTT
Found at i:27641572 original size:20 final size:20
Alignment explanation
Indices: 27641543--27641588 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
27641533 CTCAAATATT
*
27641543 GATACTCGTATTAAGGTATC
1 GATACCCGTATTAAGGTATC
27641563 GATACCCGTATTAAGGTATC
1 GATACCCGTATTAAGGTATC
27641583 GATACC
1 GATACC
27641589 AACAAGCACA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (20 bp):
GATACCCGTATTAAGGTATC
Found at i:27644069 original size:14 final size:14
Alignment explanation
Indices: 27644044--27644111 Score: 66
Period size: 14 Copynumber: 4.9 Consensus size: 14
27644034 TTTGGCAAAA
* *
27644044 GTCAACGGTCAATT
1 GTCAATGGTCAACT
* *
27644058 GTTAATGGTCAACA
1 GTCAATGGTCAACT
27644072 GTCAATGGTCAACT
1 GTCAATGGTCAACT
*
27644086 GTCAACGGTCAA-T
1 GTCAATGGTCAACT
*
27644099 GATTAATGGTCAA
1 G-TCAATGGTCAA
27644112 TGGTTGAGTC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
13 2 0.05
14 42 0.95
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (14 bp):
GTCAATGGTCAACT
Found at i:27644070 original size:21 final size:21
Alignment explanation
Indices: 27644044--27644111 Score: 77
Period size: 21 Copynumber: 3.2 Consensus size: 21
27644034 TTTGGCAAAA
27644044 GTCAACGGTCAATTGTTAATG
1 GTCAACGGTCAATTGTTAATG
* * *
27644065 GTCAACAGTCAATGGTCAACT-
1 GTCAACGGTCAATTGTTAA-TG
27644086 GTCAACGGTCAA-TGATTAATG
1 GTCAACGGTCAATTG-TTAATG
27644107 GTCAA
1 GTCAA
27644112 TGGTTGAGTC
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
20 2 0.05
21 35 0.92
22 1 0.03
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (21 bp):
GTCAACGGTCAATTGTTAATG
Found at i:27644082 original size:7 final size:7
Alignment explanation
Indices: 27644044--27644115 Score: 56
Period size: 7 Copynumber: 10.3 Consensus size: 7
27644034 TTTGGCAAAA
*
27644044 GTCAACG
1 GTCAATG
*
27644051 GTCAATT
1 GTCAATG
*
27644058 GTTAATG
1 GTCAATG
**
27644065 GTCAACA
1 GTCAATG
27644072 GTCAATG
1 GTCAATG
27644079 GTCAACT-
1 GTCAA-TG
*
27644086 GTCAACG
1 GTCAATG
27644093 GTCAATG
1 GTCAATG
* *
27644100 ATTAATG
1 GTCAATG
27644107 GTCAATG
1 GTCAATG
27644114 GT
1 GT
27644116 TGAGTCAAAT
Statistics
Matches: 48, Mismatches: 15, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
7 47 0.98
8 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.29
Consensus pattern (7 bp):
GTCAATG
Found at i:27648281 original size:3 final size:3
Alignment explanation
Indices: 27648273--27648314 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
27648263 CCACAAGTTT
27648273 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
27648315 ATTTTTTTCC
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:27650681 original size:20 final size:20
Alignment explanation
Indices: 27650656--27650693 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
27650646 GGTTTTTCGA
27650656 AAAAAGTCAACGGTCAACCC
1 AAAAAGTCAACGGTCAACCC
27650676 AAAAAGTCAACGGTCAAC
1 AAAAAGTCAACGGTCAAC
27650694 GGTCAACTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.26, G:0.16, T:0.11
Consensus pattern (20 bp):
AAAAAGTCAACGGTCAACCC
Found at i:27650691 original size:7 final size:7
Alignment explanation
Indices: 27650681--27650757 Score: 64
Period size: 7 Copynumber: 11.0 Consensus size: 7
27650671 AACCCAAAAA
27650681 GTCAACG
1 GTCAACG
27650688 GTCAACG
1 GTCAACG
*
27650695 GTCAACT
1 GTCAACG
**
27650702 GTCAATA
1 GTCAACG
*
27650709 GTCAACA
1 GTCAACG
* *
27650716 ATCAACT
1 GTCAACG
*
27650723 GTCAATG
1 GTCAACG
*
27650730 GTTAACG
1 GTCAACG
27650737 GTCAACG
1 GTCAACG
* *
27650744 ATCAATG
1 GTCAACG
27650751 GTCAACG
1 GTCAACG
27650758 ATCGAGTCAA
Statistics
Matches: 54, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
7 54 1.00
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (7 bp):
GTCAACG
Found at i:27650712 original size:21 final size:21
Alignment explanation
Indices: 27650681--27650757 Score: 93
Period size: 21 Copynumber: 3.7 Consensus size: 21
27650671 AACCCAAAAA
*
27650681 GTCAACGGTCAACGGTCAACT
1 GTCAATGGTCAACGGTCAACT
* **
27650702 GTCAATAGTCAACAATCAACT
1 GTCAATGGTCAACGGTCAACT
*
27650723 GTCAATGGTTAACGGTCAAC-
1 GTCAATGGTCAACGGTCAACT
27650743 GATCAATGGTCAACG
1 G-TCAATGGTCAACG
27650758 ATCGAGTCAA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
20 1 0.02
21 45 0.98
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (21 bp):
GTCAATGGTCAACGGTCAACT
Found at i:27657806 original size:15 final size:15
Alignment explanation
Indices: 27657786--27657817 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
27657776 TTTGAAATGT
*
27657786 TTTAATATAATATAA
1 TTTAATATAAAATAA
27657801 TTTAATATAAAATAA
1 TTTAATATAAAATAA
27657816 TT
1 TT
27657818 ATATTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTTAATATAAAATAA
Found at i:27657854 original size:13 final size:12
Alignment explanation
Indices: 27657811--27657912 Score: 65
Period size: 12 Copynumber: 8.6 Consensus size: 12
27657801 TTTAATATAA
27657811 AATAATTATATT
1 AATAATTATATT
* *
27657823 AAAAATTTTATT
1 AATAATTATATT
27657835 -A-AATTATATGT
1 AATAATTATAT-T
27657846 AATAATTATATT
1 AATAATTATATT
27657858 AA-AA-TATGATT
1 AATAATTAT-ATT
*
27657869 AAATTATT-TATT
1 -AATAATTATATT
27657881 AAATTATATT-TATT
1 -AA-TA-ATTATATT
*
27657895 AATAATTCTATT
1 AATAATTATATT
27657907 AA-AATT
1 AATAATT
27657913 TAATAACAAT
Statistics
Matches: 75, Mismatches: 5, Indels: 21
0.74 0.05 0.21
Matches are distributed among these distances:
10 10 0.13
11 14 0.19
12 30 0.40
13 13 0.17
14 8 0.11
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (12 bp):
AATAATTATATT
Found at i:27657857 original size:23 final size:21
Alignment explanation
Indices: 27657814--27657890 Score: 82
Period size: 23 Copynumber: 3.4 Consensus size: 21
27657804 AATATAAAAT
*
27657814 AATTATATTAAAAATTTTATTA
1 AATTATATTAATAA-TTTATTA
27657836 AATTATATGTAATAATTATATTA
1 AATTATAT-TAATAATT-TATTA
* *
27657859 AAATATGATTAAATTATTTATTA
1 AATTAT-ATT-AATAATTTATTA
27657882 AATTATATT
1 AATTATATT
27657891 TATTAATAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
22 13 0.28
23 26 0.55
24 8 0.17
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (21 bp):
AATTATATTAATAATTTATTA
Found at i:27663576 original size:21 final size:22
Alignment explanation
Indices: 27663550--27663596 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
27663540 TCAAAATGAC
27663550 ATAATTTT-ACCTTTTAAC-TTA
1 ATAATTTTGA-CTTTTAACTTTA
*
27663571 ATAATTTTGACTTTTTACTTTA
1 ATAATTTTGACTTTTAACTTTA
27663593 ATAA
1 ATAA
27663597 AGGTAAACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.34, C:0.11, G:0.02, T:0.53
Consensus pattern (22 bp):
ATAATTTTGACTTTTAACTTTA
Found at i:27673819 original size:13 final size:15
Alignment explanation
Indices: 27673786--27673822 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
27673776 TTAGGTAACG
*
27673786 TTTGAAAATTAGGAT
1 TTTGAAATTTAGGAT
27673801 TTTGAAATTTA-GA-
1 TTTGAAATTTAGGAT
27673814 TTTGAAATT
1 TTTGAAATT
27673823 AAAAAACAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.43
14 2 0.10
15 10 0.48
ACGTcount: A:0.38, C:0.00, G:0.16, T:0.46
Consensus pattern (15 bp):
TTTGAAATTTAGGAT
Found at i:27674702 original size:14 final size:15
Alignment explanation
Indices: 27674676--27674707 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
27674666 CCATAGTGTA
27674676 AAATTATAAAAAATT
1 AAATTATAAAAAATT
27674691 AAATTA-AAAAAATT
1 AAATTATAAAAAATT
27674705 AAA
1 AAA
27674708 CTTTAGAGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AAATTATAAAAAATT
Found at i:27678379 original size:16 final size:16
Alignment explanation
Indices: 27678346--27678377 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
27678336 AATTAACATG
27678346 TATTTTTTTAAATATT
1 TATTTTTTTAAATATT
27678362 TATTTTTTT-AATATT
1 TATTTTTTTAAATATT
27678377 T
1 T
27678378 TACTATAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TATTTTTTTAAATATT
Found at i:27681264 original size:50 final size:50
Alignment explanation
Indices: 27681181--27681314 Score: 175
Period size: 50 Copynumber: 2.7 Consensus size: 50
27681171 TGCTTATGTA
* *
27681181 AAAACA-CTAGATCTTAAACAAAAACAATTTAAATAAATATTTATATTTATTT
1 AAAACATC-AGAT-TTAAA-AAAAATAAATTAAATAAATATTTATATTTATTT
* *
27681233 AAAATATCAGATTTAAAAAAAATAAATTAAATAAATGTTTATATTTATTT
1 AAAACATCAGATTTAAAAAAAATAAATTAAATAAATATTTATATTTATTT
*
27681283 AAAACATCAGATCT-AAAAAAAT-AATTAAATAA
1 AAAACATCAGATTTAAAAAAAATAAATTAAATAA
27681315 GATCTGAAAC
Statistics
Matches: 75, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
48 10 0.13
49 8 0.11
50 42 0.56
51 5 0.07
52 9 0.12
53 1 0.01
ACGTcount: A:0.56, C:0.07, G:0.03, T:0.34
Consensus pattern (50 bp):
AAAACATCAGATTTAAAAAAAATAAATTAAATAAATATTTATATTTATTT
Found at i:27694114 original size:19 final size:20
Alignment explanation
Indices: 27694090--27694131 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
27694080 TCAGCTTATA
*
27694090 ATTTTAAAAT-TTTAAAATT
1 ATTTTAAAATCATTAAAATT
27694109 ATTTTAAAATCATTAAAATT
1 ATTTTAAAATCATTAAAATT
27694129 ATT
1 ATT
27694132 AAAAAAAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTTTAAAATCATTAAAATT
Found at i:27698980 original size:3 final size:3
Alignment explanation
Indices: 27698923--27698968 Score: 55
Period size: 3 Copynumber: 16.3 Consensus size: 3
27698913 CGGGGTAACA
27698923 TCT TCT T-T T-T TCTT TCT T-T TCT TCT TCT TCT TCT TCT TCT T-T
1 TCT TCT TCT TCT TC-T TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
27698965 TCT T
1 TCT T
27698969 TATCCTTCTT
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
2 8 0.21
3 28 0.72
4 3 0.08
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (3 bp):
TCT
Found at i:27730280 original size:12 final size:12
Alignment explanation
Indices: 27730263--27730287 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27730253 TCGGGGCATC
27730263 TTCCTTCCTTCT
1 TTCCTTCCTTCT
27730275 TTCCTTCCTTCT
1 TTCCTTCCTTCT
27730287 T
1 T
27730288 GTTCCTCTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (12 bp):
TTCCTTCCTTCT
Found at i:27734677 original size:6 final size:6
Alignment explanation
Indices: 27734666--27734725 Score: 57
Period size: 6 Copynumber: 9.3 Consensus size: 6
27734656 AAACAACCTA
* * *
27734666 ATTTTT ATTTTT ATTTTT ACTTTT ATATTT ATTTTTCT ATTTATT AATTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT A-TTTT-T ATTT-TT ATTTTT
27734717 ATTTATT AT
1 ATTT-TT AT
27734726 ATGTTCAGGA
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
6 27 0.61
7 14 0.32
8 3 0.07
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (6 bp):
ATTTTT
Found at i:27738989 original size:51 final size:51
Alignment explanation
Indices: 27738934--27739453 Score: 220
Period size: 51 Copynumber: 10.5 Consensus size: 51
27738924 TTTTTTTTAG
* *
27738934 AAAGTTTAAAATTTTAAATAAAGTTTTGATTTTTTTAACTATTTCGAAATA
1 AAAGTTTAAATTTTTAAATAAAGTTTTGATTTTTTTAACTATTTCGAAAAA
* * **
27738985 AAAGTTTAGATTTTT-AAGAAAGTAGTGA---TTTT--C-A-TT--AAAAA
1 AAAGTTTAAATTTTTAAATAAAGTTTTGATTTTTTTAACTATTTCGAAAAA
* ** * ** *
27739026 AAAGTTTATATTTTTAAAAATAAAAATATG-TTTTTTTAGTTATTT-TAAAGAA
1 AAAGTTTAAATTTTT--AAATAAAGTTTTGATTTTTTTAACTATTTCGAAA-AA
*
27739078 AAAATTTAAATTTTTAAATAAAGTTTTGATTTTTTTAACTATTTC-AAAATA
1 AAAGTTTAAATTTTTAAATAAAGTTTTGATTTTTTTAACTATTTCGAAAA-A
** * ** * *
27739129 AAAGTTTGGATTTTTAAGTAAAGTAGTGATTTTCATTAA--A----AAAGAAA
1 AAAGTTTAAATTTTTAAATAAAGTTTTGATTTT-TTTAACTATTTCGAA-AAA
* * ** * ** *
27739176 AAAGTTTATATGTTTAAAATAAAAATCTG--TTTTTTAGTTATTTTGAAGAAA
1 AAAGTTTAAAT-TTTTAAATAAAGTTTTGATTTTTTTAACTATTTCGAA-AAA
*
27739227 AAAGTTTAAATTTTTAAATAAAGTTTTAATTTTTTTAACTATTTCGAAATAA
1 AAAGTTTAAATTTTTAAATAAAGTTTTGATTTTTTTAACTATTTCGAAA-AA
** * ** * **
27739279 AAA-TTTGGATTTTTAAGTAAAGTAATGATTTTCATTAA--A--AAGAAAAGA
1 AAAGTTTAAATTTTTAAATAAAGTTTTGATTTT-TTTAACTATTTCGAAAA-A
* ** ** * ** **
27739327 AAA-TTTATATGTTAAAAAATAAAAATCTG--TTTTTTAGTTATTTTAAAGAAAA
1 AAAGTTTAAAT-TT-TTAAATAAAGTTTTGATTTTTTTAACTA-TTTCGA-AAAA
*
27739379 AAAGTTT-AATTTTTAAATAAAGTTTTGATTTTTTTCAGCTATTTC-AAAATA
1 AAAGTTTAAATTTTTAAATAAAGTTTTGATTTTTTT-AACTATTTCGAAAA-A
*
27739430 AAAGTTTAGATTTTTAAATAAAGT
1 AAAGTTTAAATTTTTAAATAAAGT
27739454 AGTAATTTTC
Statistics
Matches: 347, Mismatches: 78, Indels: 87
0.68 0.15 0.17
Matches are distributed among these distances:
41 18 0.05
43 2 0.01
44 8 0.02
45 4 0.01
46 7 0.02
47 21 0.06
48 29 0.08
49 4 0.01
50 58 0.17
51 111 0.32
52 75 0.22
53 10 0.03
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.44
Consensus pattern (51 bp):
AAAGTTTAAATTTTTAAATAAAGTTTTGATTTTTTTAACTATTTCGAAAAA
Found at i:27739266 original size:149 final size:149
Alignment explanation
Indices: 27738934--27739505 Score: 856
Period size: 151 Copynumber: 3.8 Consensus size: 149
27738924 TTTTTTTTAG
* *
27738934 AAAGTTTAAAATTTTAAATAAAGTTTTGATTTTTTTAACTATTTCGAAATAAAAGTTTAGATTTT
1 AAAGTTTAAATTTTTAAATAAAGTTTTGATTTTTTTAACTATTTCAAAATAAAAGTTTAGATTTT
* *
27738999 TAAG-AAAGTAGTGATTTTCATTAAAAAAAAG----TTTATATTTTTAAAAATAAAAATATGTTT
66 TAAGTAAAGTAGTGATTTTCATTAAAAAAAAGAAAATTTATATGTTTAAAAATAAAAATCTG-TT
27739059 TTTTAGTTATTTTAAAGAAA
130 TTTTAGTTATTTTAAAGAAA
*
27739079 AAA-TTTAAATTTTTAAATAAAGTTTTGATTTTTTTAACTATTTCAAAATAAAAGTTTGGATTTT
1 AAAGTTTAAATTTTTAAATAAAGTTTTGATTTTTTTAACTATTTCAAAATAAAAGTTTAGATTTT
27739143 TAAGTAAAGTAGTGATTTTCATTAAAAAAGAA-AAAAGTTTATATGTTT-AAAATAAAAATCTGT
66 TAAGTAAAGTAGTGATTTTCATTAAAAAA-AAGAAAA-TTTATATGTTTAAAAATAAAAATCTGT
*
27739206 TTTTTAGTTATTTTGAAGAAA
129 TTTTTAGTTATTTTAAAGAAA
* * * *
27739227 AAAGTTTAAATTTTTAAATAAAGTTTTAATTTTTTTAACTATTTCGAAATAAAAATTTGGATTTT
1 AAAGTTTAAATTTTTAAATAAAGTTTTGATTTTTTTAACTATTTCAAAATAAAAGTTTAGATTTT
* *
27739292 TAAGTAAAGTAATGATTTTCATTAAAAAGAAAAGAAAATTTATATGTTAAAAAATAAAAATCTGT
66 TAAGTAAAGTAGTGATTTTCATT-AAAA-AAAAGAAAATTTATATGTTTAAAAATAAAAATCTGT
27739357 TTTTTAGTTATTTTAAAGAAAA
129 TTTTTAGTTATTTTAAAG-AAA
*
27739379 AAAGTTT-AATTTTTAAATAAAGTTTTGATTTTTTTCAGCTATTTCAAAATAAAAGTTTAGATTT
1 AAAGTTTAAATTTTTAAATAAAGTTTTGATTTTTTT-AACTATTTCAAAATAAAAGTTTAGATTT
* * * *
27739443 TTAAATAAAGTAGTAATTTTCATTAAAAAAAAAGAAAATTTAAATTTTTAAAAATAAAAATCT
65 TTAAGTAAAGTAGTGATTTTCATT-AAAAAAAAGAAAATTTATATGTTTAAAAATAAAAATCT
27739506 ATTTATATTT
Statistics
Matches: 390, Mismatches: 23, Indels: 22
0.90 0.05 0.05
Matches are distributed among these distances:
144 62 0.16
145 27 0.07
146 2 0.01
148 24 0.06
149 93 0.24
150 26 0.07
151 96 0.25
152 60 0.15
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.43
Consensus pattern (149 bp):
AAAGTTTAAATTTTTAAATAAAGTTTTGATTTTTTTAACTATTTCAAAATAAAAGTTTAGATTTT
TAAGTAAAGTAGTGATTTTCATTAAAAAAAAGAAAATTTATATGTTTAAAAATAAAAATCTGTTT
TTTAGTTATTTTAAAGAAA
Found at i:27739410 original size:151 final size:150
Alignment explanation
Indices: 27738934--27739505 Score: 867
Period size: 149 Copynumber: 3.8 Consensus size: 150
27738924 TTTTTTTTAG
* *
27738934 AAAGTTTAAAATTTTAAATAAAGTTTTGATTTTTTTAACTATTTCGAAATAAAAGTTTAGATTTT
1 AAAGTTTAAATTTTTAAATAAAGTTTTGATTTTTTTAACTATTTCAAAATAAAAGTTTAGATTTT
* *
27738999 TAAG-AAAGTAGTGATTTTCATT-AAAAAAAAG----TTTATATTTTTAAAAATAAAAATATGTT
66 TAAGTAAAGTAGTGATTTTCATTAAAAAAAAAGAAAATTTATATGTTTAAAAATAAAAATCTG-T
27739058 TTTTTAGTTATTTTAAAGAAA
130 TTTTTAGTTATTTTAAAGAAA
*
27739079 AAA-TTTAAATTTTTAAATAAAGTTTTGATTTTTTTAACTATTTCAAAATAAAAGTTTGGATTTT
1 AAAGTTTAAATTTTTAAATAAAGTTTTGATTTTTTTAACTATTTCAAAATAAAAGTTTAGATTTT
*
27739143 TAAGTAAAGTAGTGATTTTCATTAAAAAAGAAA-AAAGTTTATATGTTT-AAAATAAAAATCTGT
66 TAAGTAAAGTAGTGATTTTCATTAAAAAA-AAAGAAAATTTATATGTTTAAAAATAAAAATCTGT
*
27739206 TTTTTAGTTATTTTGAAGAAA
130 TTTTTAGTTATTTTAAAGAAA
* * * *
27739227 AAAGTTTAAATTTTTAAATAAAGTTTTAATTTTTTTAACTATTTCGAAATAAAAATTTGGATTTT
1 AAAGTTTAAATTTTTAAATAAAGTTTTGATTTTTTTAACTATTTCAAAATAAAAGTTTAGATTTT
* *
27739292 TAAGTAAAGTAATGATTTTCATTAAAAAGAAAAGAAAATTTATATGTTAAAAAATAAAAATCTGT
66 TAAGTAAAGTAGTGATTTTCATTAAAAA-AAAAGAAAATTTATATGTTTAAAAATAAAAATCTGT
27739357 TTTTTAGTTATTTTAAAGAAAA
130 TTTTTAGTTATTTTAAAG-AAA
*
27739379 AAAGTTT-AATTTTTAAATAAAGTTTTGATTTTTTTCAGCTATTTCAAAATAAAAGTTTAGATTT
1 AAAGTTTAAATTTTTAAATAAAGTTTTGATTTTTTT-AACTATTTCAAAATAAAAGTTTAGATTT
* * * *
27739443 TTAAATAAAGTAGTAATTTTCATTAAAAAAAAAGAAAATTTAAATTTTTAAAAATAAAAATCT
65 TTAAGTAAAGTAGTGATTTTCATTAAAAAAAAAGAAAATTTATATGTTTAAAAATAAAAATCT
27739506 ATTTATATTT
Statistics
Matches: 390, Mismatches: 24, Indels: 20
0.90 0.06 0.05
Matches are distributed among these distances:
144 62 0.16
145 21 0.05
146 5 0.01
147 3 0.01
148 24 0.06
149 101 0.26
150 24 0.06
151 90 0.23
152 60 0.15
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.43
Consensus pattern (150 bp):
AAAGTTTAAATTTTTAAATAAAGTTTTGATTTTTTTAACTATTTCAAAATAAAAGTTTAGATTTT
TAAGTAAAGTAGTGATTTTCATTAAAAAAAAAGAAAATTTATATGTTTAAAAATAAAAATCTGTT
TTTTAGTTATTTTAAAGAAA
Found at i:27743298 original size:2 final size:2
Alignment explanation
Indices: 27743293--27743327 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
27743283 TCTGTTTTTT
27743293 TA TA TA TA TA -A TA TA TA T- TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
27743328 TATCTGTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:27743308 original size:9 final size:8
Alignment explanation
Indices: 27743293--27743327 Score: 56
Period size: 7 Copynumber: 4.6 Consensus size: 8
27743283 TCTGTTTTTT
27743293 TATATATA
1 TATATATA
27743301 TA-ATATA
1 TATATATA
27743308 TAT-TATA
1 TATATATA
27743315 TATATATA
1 TATATATA
27743323 TATAT
1 TATAT
27743328 TATCTGTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 14 0.56
8 11 0.44
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (8 bp):
TATATATA
Found at i:27745855 original size:6 final size:6
Alignment explanation
Indices: 27745839--27745872 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
27745829 TCAGTTATTA
27745839 TTTTA- TTTTAT TTTTAT TTTTAT TTTTAT ATTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT -TTTT
27745873 TTTATGATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 18 0.67
7 4 0.15
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTAT
Found at i:27745855 original size:11 final size:11
Alignment explanation
Indices: 27745839--27745877 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
27745829 TCAGTTATTA
27745839 TTTTATTTTAT
1 TTTTATTTTAT
27745850 TTTTATTTTTAT
1 TTTTA-TTTTAT
*
27745862 TTTTATATT-T
1 TTTTATTTTAT
27745872 TTTTAT
1 TTTTAT
27745878 GATGACAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 7 0.27
11 8 0.31
12 11 0.42
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:27751210 original size:2 final size:2
Alignment explanation
Indices: 27751205--27751281 Score: 75
Period size: 2 Copynumber: 39.0 Consensus size: 2
27751195 ACACACAAAC
* ** **
27751205 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT GC GC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
27751247 AC AT CT AT TT AT -T AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27751282 TATTTTTCCT
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
1 1 0.02
2 61 0.98
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:27751386 original size:21 final size:21
Alignment explanation
Indices: 27751361--27751411 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
27751351 AAAAAATAAG
*
27751361 GCTCGATCTTGCTAGATCGGA
1 GCTCGATCTTGCTAGATCAGA
*
27751382 GCTCGATCTTGTTAGATCAGA
1 GCTCGATCTTGCTAGATCAGA
27751403 GCTCGATCT
1 GCTCGATCT
27751412 ATAATTTGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.20, C:0.24, G:0.25, T:0.31
Consensus pattern (21 bp):
GCTCGATCTTGCTAGATCAGA
Found at i:27751957 original size:30 final size:30
Alignment explanation
Indices: 27751921--27752071 Score: 143
Period size: 30 Copynumber: 5.1 Consensus size: 30
27751911 TATTTTATTT
* *
27751921 AAAAATTATGTTTTGACCCCCAAACTTTCC
1 AAAAATTATGATTTGACCCTCAAACTTTCC
* * *
27751951 AAAAATTATGTTTTAACCCTCAAACTTTCT
1 AAAAATTATGATTTGACCCTCAAACTTTCC
*
27751981 AAAAATT-TAGATTTGACCCTCAAAC-TTCTT
1 AAAAATTAT-GATTTGACCCTCAAACTTTC-C
*
27752011 AAAAATTCA-AATTTGACCCTCAAAC-TTCC
1 AAAAATT-ATGATTTGACCCTCAAACTTTCC
* *
27752040 TAAAATT-TGAATTTGGCCC-CAAACTTTCC
1 AAAAATTATG-ATTTGACCCTCAAACTTTCC
27752069 AAA
1 AAA
27752072 TTTCATTTTT
Statistics
Matches: 103, Mismatches: 11, Indels: 15
0.80 0.09 0.12
Matches are distributed among these distances:
28 5 0.05
29 24 0.23
30 74 0.72
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.34
Consensus pattern (30 bp):
AAAAATTATGATTTGACCCTCAAACTTTCC
Found at i:27767624 original size:21 final size:21
Alignment explanation
Indices: 27767595--27767635 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
27767585 TATTTCTTTC
27767595 AATTCTGTTTCTTTTATTTTT
1 AATTCTGTTTCTTTTATTTTT
*
27767616 AATTTTGTTTCTTTTATTTT
1 AATTCTGTTTCTTTTATTTT
27767636 CCTCAGATCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.15, C:0.07, G:0.05, T:0.73
Consensus pattern (21 bp):
AATTCTGTTTCTTTTATTTTT
Found at i:27773205 original size:8 final size:8
Alignment explanation
Indices: 27773192--27773246 Score: 65
Period size: 8 Copynumber: 6.6 Consensus size: 8
27773182 AACCCATATT
27773192 TTTTTTTA
1 TTTTTTTA
27773200 TTTTTTTA
1 TTTTTTTA
*
27773208 TTTTTCTA
1 TTTTTTTA
27773216 TCTTATTTTA
1 T-TT-TTTTA
*
27773226 TTTATTTA
1 TTTTTTTA
*
27773234 TTTATTTA
1 TTTTTTTA
27773242 TTTTT
1 TTTTT
27773247 ATCTAGGAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
8 32 0.78
9 4 0.10
10 5 0.12
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTTTA
Found at i:27773231 original size:4 final size:4
Alignment explanation
Indices: 27773188--27773244 Score: 57
Period size: 4 Copynumber: 14.2 Consensus size: 4
27773178 AGGCAACCCA
*
27773188 TATT T-TT T-TT TATT TTTT TATT T-TT CTATCT TATTT TATT TATT TATT
1 TATT TATT TATT TATT TATT TATT TATT -TAT-T TA-TT TATT TATT TATT
27773236 TATT TATT T
1 TATT TATT T
27773245 TTATCTAGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
3 8 0.17
4 30 0.65
5 6 0.13
6 2 0.04
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.79
Consensus pattern (4 bp):
TATT
Found at i:27774802 original size:19 final size:19
Alignment explanation
Indices: 27774780--27774824 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
27774770 TTATTTTAGG
27774780 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATAT
* *
27774799 ATTTATTATTTAAATTTAT
1 ATTTAATATTTAAATATAT
27774818 ATTTAAT
1 ATTTAAT
27774825 TTTTGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATAT
Found at i:27775678 original size:20 final size:21
Alignment explanation
Indices: 27775641--27775681 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
27775631 TATTTCTTTC
*
27775641 AATTCTTTTTCTTTTATTTTT
1 AATTCTGTTTCTTTTATTTTT
27775662 AATTCTGTTTC-TTTATTTTT
1 AATTCTGTTTCTTTTATTTTT
27775682 CCTCAGATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.15, C:0.10, G:0.02, T:0.73
Consensus pattern (21 bp):
AATTCTGTTTCTTTTATTTTT
Found at i:27782803 original size:19 final size:19
Alignment explanation
Indices: 27782779--27782819 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
27782769 TGAGAAGTCT
27782779 GAGCCCAAATCCCCTACCA
1 GAGCCCAAATCCCCTACCA
27782798 GAGCCCAAATCCCCTACCA
1 GAGCCCAAATCCCCTACCA
27782817 GAG
1 GAG
27782820 TTCCTTGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.32, C:0.44, G:0.15, T:0.10
Consensus pattern (19 bp):
GAGCCCAAATCCCCTACCA
Found at i:27786288 original size:10 final size:10
Alignment explanation
Indices: 27786273--27786299 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
27786263 ATTTTGACCT
27786273 TATTCTTTCA
1 TATTCTTTCA
27786283 TATTCTTTCA
1 TATTCTTTCA
27786293 TATTCTT
1 TATTCTT
27786300 GTTTAAGCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.63
Consensus pattern (10 bp):
TATTCTTTCA
Found at i:27787103 original size:48 final size:48
Alignment explanation
Indices: 27787042--27787180 Score: 163
Period size: 48 Copynumber: 2.9 Consensus size: 48
27787032 AAACTCCCAT
* * *
27787042 CTTCTTGATGAGATACAAAGAAGTGGATCAGAATAATGAAGCGGTCAC
1 CTTCCTGATGAGATACAAAGAAGTGGATCAAAACAATGAAGCGGTCAC
* * *
27787090 CTTTCTGATGAGATACAGAA-AAGTGGATCAAAACAATGAAGTGGTCAT
1 CTTCCTGATGAGATACA-AAGAAGTGGATCAAAACAATGAAGCGGTCAC
* * * * *
27787138 CTTCCTGATGAAATATAGAGAAGTAGACCAAAACAATGAAGCG
1 CTTCCTGATGAGATACAAAGAAGTGGATCAAAACAATGAAGCG
27787181 AACCTTAACG
Statistics
Matches: 76, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
47 1 0.01
48 73 0.96
49 2 0.03
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.22
Consensus pattern (48 bp):
CTTCCTGATGAGATACAAAGAAGTGGATCAAAACAATGAAGCGGTCAC
Found at i:27787255 original size:172 final size:172
Alignment explanation
Indices: 27786960--27787302 Score: 467
Period size: 172 Copynumber: 2.0 Consensus size: 172
27786950 AACTTCAAAC
* * * *
27786960 GGTCATATTCCTGATGAGATACAGAGAAGTGAATCAAGAAAATAAAGCAAAGCTTAATGTGAGTG
1 GGTCATATTCCTGATGAAATACAGAGAAGTGAACCAAGAAAATAAAGCAAACCTTAACGTGAGTG
* *
27787025 AAACTTCAAACTCCCATCTTCTTGATGAGATACAAAGAAGTGGATCAGAATAATGAAGCGGTCAC
66 AAACTTCAAACCCCCATCTTCCTGATGAGATACAAAGAAGTGGATCAGAATAATGAAGCGGTCAC
* *
27787090 CTTTCTGATGAGATACAGAAAAGTGGATCAAAACAATGAAGT
131 CTTCCTGATGAGATACAGAAAAGTGGACCAAAACAATGAAGT
* * * *
27787132 GGTCATCTTCCTGATGAAATATAGAGAAGT-AGACCAA-AACAATGAAGCGAACCTTAACGTGAG
1 GGTCATATTCCTGATGAAATACAGAGAAGTGA-ACCAAGAA-AATAAAGCAAACCTTAACGTGAG
* * *
27787195 TGAAACTTCACACCCCCATCTTCCTGATGAGATACAGAGAAGTGGATCA-AACTGATGAAGCGGT
64 TGAAACTTCAAACCCCCATCTTCCTGATGAGATACAAAGAAGTGGATCAGAA-TAATGAAGCGGT
* * * *
27787259 TATCTTCCTGATGAGATACAGAGAAGTGGACCAAAACATTGAAG
128 CACCTTCCTGATGAGATACAGAAAAGTGGACCAAAACAATGAAG
27787303 CAAAGCTCAA
Statistics
Matches: 149, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
171 5 0.03
172 144 0.97
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (172 bp):
GGTCATATTCCTGATGAAATACAGAGAAGTGAACCAAGAAAATAAAGCAAACCTTAACGTGAGTG
AAACTTCAAACCCCCATCTTCCTGATGAGATACAAAGAAGTGGATCAGAATAATGAAGCGGTCAC
CTTCCTGATGAGATACAGAAAAGTGGACCAAAACAATGAAGT
Found at i:27787532 original size:249 final size:248
Alignment explanation
Indices: 27787094--27787627 Score: 692
Period size: 249 Copynumber: 2.1 Consensus size: 248
27787084 GGTCACCTTT
* * * * *
27787094 CTGATGAGATACAGAAAAGTGGATCAAAACAATGAAGTGGTCATCTTCCTGATGAAATATAGAGA
1 CTGATGAGATACAGAGAAGTGGATCAAAACAATAAAGTGGTCATATTCCTAATGAAATACAGAGA
* * * * *
27787159 AGTAGACCAAAACAATGAAGCGAACCTTAACGTGAGTGAAACTTCACACCCCCATCTTCCTGATG
66 AGTAGACCAAAACAATAAAGCGAACCTCAAAGTGAGTGAAACTTCAAAACCCCATCTTCCTGATG
* * * * * *
27787224 AGATACAGAGAAGTGGATCAAACTGATGAAGCGGTTATCTTCCTGATGAGATACAGAGAAGTGGA
131 AGATACAAAGAAGTGGATAAAACTAATGAAGCGGTCATCTTCCTAATGAGATACAGAGAAGTAGA
* * *
27787289 CCAAAACATTGAAGCAAAGCTCAATGTGAGTGAAACTTCAAAACCCCATCTTC
196 CCAAAACAATGAAGCAAACCTCAACGTGAGTGAAACTTCAAAACCCCATCTTC
* ** * *
27787342 TTGATGAGATACAGAGAAGTGGATTGAAATAATAAAGTGGTCATATTCCTAATGAGATACAGAGA
1 CTGATGAGATACAGAGAAGTGGATCAAAACAATAAAGTGGTCATATTCCTAATGAAATACAGAGA
* * * * *
27787407 AGTGGACTAAAATAATAAAGTGAAGCTCAAAGTTGAGTGAAACTTCAAAACCCCATCTTCCTGAT
66 AGTAGACCAAAACAATAAAGCGAACCTCAAAG-TGAGTGAAACTTCAAAACCCCATCTTCCTGAT
* *
27787472 GAGATACAAAGAAGTGGATAAAAAC-AATGAAGTGGTCATCTTCTTAATGAGATACAGAGAAGTA
130 GAGATACAAAGAAGTGGAT-AAAACTAATGAAGCGGTCATCTTCCTAATGAGATACAGAGAAGTA
* * * * *
27787536 GACCAAAATAATGAAGCGAACCTTAACGTGAGTGAAACTTCACACCCCCATCTTC
194 GACCAAAACAATGAAGCAAACCTCAACGTGAGTGAAACTTCAAAACCCCATCTTC
* * *
27787591 CTGATGAGATATAGAGAAGTGGACCAAAACATTAAAG
1 CTGATGAGATACAGAGAAGTGGATCAAAACAATAAAG
27787628 CAAAGCTCAA
Statistics
Matches: 241, Mismatches: 43, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
248 79 0.33
249 158 0.66
250 4 0.02
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.22
Consensus pattern (248 bp):
CTGATGAGATACAGAGAAGTGGATCAAAACAATAAAGTGGTCATATTCCTAATGAAATACAGAGA
AGTAGACCAAAACAATAAAGCGAACCTCAAAGTGAGTGAAACTTCAAAACCCCATCTTCCTGATG
AGATACAAAGAAGTGGATAAAACTAATGAAGCGGTCATCTTCCTAATGAGATACAGAGAAGTAGA
CCAAAACAATGAAGCAAACCTCAACGTGAGTGAAACTTCAAAACCCCATCTTC
Found at i:27787549 original size:48 final size:48
Alignment explanation
Indices: 27787460--27787551 Score: 121
Period size: 48 Copynumber: 1.9 Consensus size: 48
27787450 TTCAAAACCC
* * *
27787460 CATCTTCCTGATGAGATACAAAGAAGTGGATAAAAACAATGAAGTGGT
1 CATCTTCCTAATGAGATACAAAGAAGTAGACAAAAACAATGAAGTGGT
* * * *
27787508 CATCTTCTTAATGAGATACAGAGAAGTAGACCAAAATAATGAAG
1 CATCTTCCTAATGAGATACAAAGAAGTAGACAAAAACAATGAAG
27787552 CGAACCTTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 37 1.00
ACGTcount: A:0.43, C:0.13, G:0.21, T:0.23
Consensus pattern (48 bp):
CATCTTCCTAATGAGATACAAAGAAGTAGACAAAAACAATGAAGTGGT
Found at i:27787620 original size:124 final size:124
Alignment explanation
Indices: 27787094--27787621 Score: 689
Period size: 124 Copynumber: 4.2 Consensus size: 124
27787084 GGTCACCTTT
* * * *
27787094 CTGATGAGATACAGAAAAGTGGATCAAAACAATGAAGTGGTCATCTTCCTGATGAAATATAGAGA
1 CTGATGAGATACAGAGAAGTGGATCAAAACAATGAAGTGGTCATCTTCCTAATGAGATACAGAGA
* * *
27787159 AGTAGACCAAAACAATGAAGCGAACCTTAACGTGAGTGAAACTTCACACCCCCATCTTC
66 AGTAGACCAAAACAATGAAGCGAACCTCAACGTGAGTGAAACTTCAAAACCCCATCTTC
* * * *
27787218 CTGATGAGATACAGAGAAGTGGATC-AAACTGATGAAGCGGTTATCTTCCTGATGAGATACAGAG
1 CTGATGAGATACAGAGAAGTGGATCAAAAC-AATGAAGTGGTCATCTTCCTAATGAGATACAGAG
* * * * *
27787282 AAGTGGACCAAAACATTGAAGCAAAGCTCAATGTGAGTGAAACTTCAAAACCCCATCTTC
65 AAGTAGACCAAAACAATGAAGCGAACCTCAACGTGAGTGAAACTTCAAAACCCCATCTTC
* ** * * *
27787342 TTGATGAGATACAGAGAAGTGGATTGAAATAATAAAGTGGTCATATTCCTAATGAGATACAGAGA
1 CTGATGAGATACAGAGAAGTGGATCAAAACAATGAAGTGGTCATCTTCCTAATGAGATACAGAGA
* * * * * * *
27787407 AGTGGACTAAAATAATAAAGTGAAGCTCAAAGTTGAGTGAAACTTCAAAACCCCATCTTC
66 AGTAGACCAAAACAATGAAGCGAACCTCAACG-TGAGTGAAACTTCAAAACCCCATCTTC
* * *
27787467 CTGATGAGATACAAAGAAGTGGATAAAAACAATGAAGTGGTCATCTTCTTAATGAGATACAGAGA
1 CTGATGAGATACAGAGAAGTGGATCAAAACAATGAAGTGGTCATCTTCCTAATGAGATACAGAGA
* * * *
27787532 AGTAGACCAAAATAATGAAGCGAACCTTAACGTGAGTGAAACTTCACACCCCCATCTTC
66 AGTAGACCAAAACAATGAAGCGAACCTCAACGTGAGTGAAACTTCAAAACCCCATCTTC
* *
27787591 CTGATGAGATATAGAGAAGTGGACCAAAACA
1 CTGATGAGATACAGAGAAGTGGATCAAAACA
27787622 TTAAAGCAAA
Statistics
Matches: 350, Mismatches: 51, Indels: 6
0.86 0.13 0.01
Matches are distributed among these distances:
123 4 0.01
124 234 0.67
125 112 0.32
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.22
Consensus pattern (124 bp):
CTGATGAGATACAGAGAAGTGGATCAAAACAATGAAGTGGTCATCTTCCTAATGAGATACAGAGA
AGTAGACCAAAACAATGAAGCGAACCTCAACGTGAGTGAAACTTCAAAACCCCATCTTC
Found at i:27787643 original size:76 final size:76
Alignment explanation
Indices: 27787508--27787684 Score: 237
Period size: 76 Copynumber: 2.3 Consensus size: 76
27787498 ATGAAGTGGT
* * * * *
27787508 CATCTTCTTAATGAGATACAGAGAAGTAGACCAAAATAATGAAGCGAACCTTAACGTGAGTGAAA
1 CATCTTCTTGATGAGATACAGAGAAGTAGACCAAAACAATAAAGCAAACCTCAACGTGAGTGAAA
* *
27787573 CTTCACACCCC
66 CTTCAAAACCC
* * * * * *
27787584 CATCTTCCTGATGAGATATAGAGAAGTGGACCAAAACATTAAAGCAAAGCTCAATGTGAGTGAAA
1 CATCTTCTTGATGAGATACAGAGAAGTAGACCAAAACAATAAAGCAAACCTCAACGTGAGTGAAA
27787649 CTTCAAAACCC
66 CTTCAAAACCC
27787660 CATCTTCTTGATGAGATACAGAGAA
1 CATCTTCTTGATGAGATACAGAGAA
27787685 AAAGGATCGA
Statistics
Matches: 86, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
76 86 1.00
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (76 bp):
CATCTTCTTGATGAGATACAGAGAAGTAGACCAAAACAATAAAGCAAACCTCAACGTGAGTGAAA
CTTCAAAACCC
Found at i:27787743 original size:201 final size:201
Alignment explanation
Indices: 27787387--27787809 Score: 578
Period size: 201 Copynumber: 2.1 Consensus size: 201
27787377 AGTGGTCATA
* * * **
27787387 TTCCTAATGAGATACAGAGAAGTGGACTAAAATAATAAAGTGAAGCTCAAAGTTGAGTGAAACTT
1 TTCCTGATGAGATACAGAGAAGTGGACCAAAACAATAAAGCAAAGCTCAAAGTTGAGTGAAACTT
** * * *
27787452 CAAAACCCCATCTTCCTGATGAGATACAAAGAAGTGGATAAAAACAATGAAGTGGTCATCTTCTT
66 CAAAACCCCATCTTCCTGATGAGATACAAAGAAAAGGATAAAAACAATGAAGTGATCATATTCCT
* * * * *
27787517 AATGAGATACAGAGAAGTAGACCAAAATAATGAAGCGAACCTTAACGTGAGTGAAACTTCACACC
131 AATGAGATACAGAGAAGTAGACCAAAACAATGAAGCAAACCTCAACGTGAGTGAAACTTCAAAAC
27787582 CCCATC
196 CCCATC
* * *
27787588 TTCCTGATGAGATATAGAGAAGTGGACCAAAACATTAAAGCAAAGCTCAATG-TGAGTGAAACTT
1 TTCCTGATGAGATACAGAGAAGTGGACCAAAACAATAAAGCAAAGCTCAAAGTTGAGTGAAACTT
* * ** *
27787652 CAAAACCCCATCTTCTTGATGAGATACAGAGAAAAAGGATCGAAATAATGAAGTGATCATATTCC
66 CAAAACCCCATCTTCCTGATGAGATACAAAG-AAAAGGATAAAAACAATGAAGTGATCATATTCC
* * * *
27787717 TGATGAGATACAGAGAAGTGGACCAAAACAATGAAGCAAAGCTCAATGTGAGTGAAACTTCAAAA
130 TAATGAGATACAGAGAAGTAGACCAAAACAATGAAGCAAACCTCAACGTGAGTGAAACTTCAAAA
27787782 CCCCATC
195 CCCCATC
*
27787789 TTCTTGATGAGATACAGAGAA
1 TTCCTGATGAGATACAGAGAA
27787810 AAAGGATCGA
Statistics
Matches: 192, Mismatches: 29, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
200 41 0.21
201 151 0.79
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (201 bp):
TTCCTGATGAGATACAGAGAAGTGGACCAAAACAATAAAGCAAAGCTCAAAGTTGAGTGAAACTT
CAAAACCCCATCTTCCTGATGAGATACAAAGAAAAGGATAAAAACAATGAAGTGATCATATTCCT
AATGAGATACAGAGAAGTAGACCAAAACAATGAAGCAAACCTCAACGTGAGTGAAACTTCAAAAC
CCCATC
Found at i:27787771 original size:325 final size:327
Alignment explanation
Indices: 27787260--27787948 Score: 1006
Period size: 325 Copynumber: 2.1 Consensus size: 327
27787250 TGAAGCGGTT
*
27787260 ATCTTCCTGATGAGATACAGAGAAGTGGACCAAAACATTGAAGCAAAGCTCAATGTGAGTGAAAC
1 ATCTTCCTGATGAGATACAGAGAAGTGGACCAAAACATTAAAGCAAAGCTCAATGTGAGTGAAAC
** * *
27787325 TTCAAAACCCCATCTTCTTGATGAGATACAGAGAAGTGGATTGAAATAATAAAGTGGTCATATTC
66 TTCAAAACCCCATCTTCTTGATGAGATACAGAGAAAAGGATCGAAATAATAAAGTGATCATATTC
* * **
27787390 CTAATGAGATACAGAGAAGTGGACTAAAATAATAAAGTGAAGCTCAAAGTTGAGTGAAACTTCAA
131 CTAATGAGATACAGAGAAGTGGACCAAAACAATAAAGCAAAGCTCAAAGTTGAGTGAAACTTCAA
** * * *
27787455 AACCCCATCTTCCTGATGAGATACAAAG-AAGTGGATAAAAACAATGAAGTGGTCATCTTCTTAA
196 AACCCCATCTTCCTGATGAGATACAAAGAAAAAGGATAAAAACAATGAAGTGATCATATTCCTAA
* * *
27787519 TGAGATACAGAGAAGTAGACCAAAATAATGAAGCGAACCT-TAACGTGAGTGAAACTTCACACCC
261 TGAGATACAGAGAAGTAGACCAAAATAATGAAGCGAACCTCAAACGTGAGTGAAACTTCAAAACC
27787583 CC
326 CC
*
27787585 ATCTTCCTGATGAGATATAGAGAAGTGGACCAAAACATTAAAGCAAAGCTCAATGTGAGTGAAAC
1 ATCTTCCTGATGAGATACAGAGAAGTGGACCAAAACATTAAAGCAAAGCTCAATGTGAGTGAAAC
*
27787650 TTCAAAACCCCATCTTCTTGATGAGATACAGAGAAAAAGGATCGAAATAATGAAGTGATCATATT
66 TTCAAAACCCCATCTTCTTGATGAGATACAGAG-AAAAGGATCGAAATAATAAAGTGATCATATT
* * *
27787715 CCTGATGAGATACAGAGAAGTGGACCAAAACAATGAAGCAAAGCTCAATG-TGAGTGAAACTTCA
130 CCTAATGAGATACAGAGAAGTGGACCAAAACAATAAAGCAAAGCTCAAAGTTGAGTGAAACTTCA
* * ** * *
27787779 AAACCCCATCTTCTTGATGAGATACAGAGAAAAAGGATCGAAATAATGAAGTGATCATATTCCTG
195 AAACCCCATCTTCCTGATGAGATACAAAGAAAAAGGATAAAAACAATGAAGTGATCATATTCCTA
* * * * * *
27787844 ATGAGATACAGAGAAGTGGACTAAAATAATGAAGTGAAGCTCAAATGTGAGTGAAACTTTAAAAC
260 ATGAGATACAGAGAAGTAGACCAAAATAATGAAGCGAACCTCAAACGTGAGTGAAACTTCAAAAC
*
27787909 CTC
325 CCC
* * *
27787912 ATCTTTCTGCTGAGATACAGAGAAGTGGATCAAAACA
1 ATCTTCCTGATGAGATACAGAGAAGTGGACCAAAACA
27787949 ATGAAGTGGT
Statistics
Matches: 322, Mismatches: 39, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
325 137 0.43
326 132 0.41
327 53 0.16
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.22
Consensus pattern (327 bp):
ATCTTCCTGATGAGATACAGAGAAGTGGACCAAAACATTAAAGCAAAGCTCAATGTGAGTGAAAC
TTCAAAACCCCATCTTCTTGATGAGATACAGAGAAAAGGATCGAAATAATAAAGTGATCATATTC
CTAATGAGATACAGAGAAGTGGACCAAAACAATAAAGCAAAGCTCAAAGTTGAGTGAAACTTCAA
AACCCCATCTTCCTGATGAGATACAAAGAAAAAGGATAAAAACAATGAAGTGATCATATTCCTAA
TGAGATACAGAGAAGTAGACCAAAATAATGAAGCGAACCTCAAACGTGAGTGAAACTTCAAAACC
CC
Found at i:27787810 original size:125 final size:125
Alignment explanation
Indices: 27787588--27788059 Score: 714
Period size: 125 Copynumber: 3.8 Consensus size: 125
27787578 CACCCCCATC
* * *
27787588 TTCCTGATGAGATATAGAGAAGTGGACCAAAACATTAAAGCAAAGCTCAATGTGAGTGAAACTTC
1 TTCCTGATGAGATACAGAGAAGTGGACCAAAACAATGAAGCAAAGCTCAATGTGAGTGAAACTTC
27787653 AAAACCCCATCTTCTTGATGAGATACAGAGAAAAAGGATCGAAATAATGAAGTGATCATA
66 AAAACCCCATCTTCTTGATGAGATACAGAGAAAAAGGATCGAAATAATGAAGTGATCATA
27787713 TTCCTGATGAGATACAGAGAAGTGGACCAAAACAATGAAGCAAAGCTCAATGTGAGTGAAACTTC
1 TTCCTGATGAGATACAGAGAAGTGGACCAAAACAATGAAGCAAAGCTCAATGTGAGTGAAACTTC
27787778 AAAACCCCATCTTCTTGATGAGATACAGAGAAAAAGGATCGAAATAATGAAGTGATCATA
66 AAAACCCCATCTTCTTGATGAGATACAGAGAAAAAGGATCGAAATAATGAAGTGATCATA
* * **
27787838 TTCCTGATGAGATACAGAGAAGTGGACTAAAATAATGAAGTGAAGCTCAAATGTGAGTGAAACTT
1 TTCCTGATGAGATACAGAGAAGTGGACCAAAACAATGAAGCAAAGCTC-AATGTGAGTGAAACTT
* * * ** * * * *
27787903 TAAAACCTCATCTT-TCTGCTGAGATACAGAG-AAGTGGATCAAAACAATGAAGTGGTCATC
65 CAAAACCCCATCTTCT-TGATGAGATACAGAGAAAAAGGATCGAAATAATGAAGTGATCATA
* * *
27787963 TTCCTGATGAGATACAGAGAAGTAGACCAAAACAATGAAGCGAAGCTCAACGTGAGTGAAACTTC
1 TTCCTGATGAGATACAGAGAAGTGGACCAAAACAATGAAGCAAAGCTCAATGTGAGTGAAACTTC
* * *
27788028 ACACCCCCATCTTCTTGATGAGATATAGAGAA
66 AAAACCCCATCTTCTTGATGAGATACAGAGAA
27788060 GTGGACCAAA
Statistics
Matches: 316, Mismatches: 27, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
124 38 0.12
125 236 0.75
126 42 0.13
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.22
Consensus pattern (125 bp):
TTCCTGATGAGATACAGAGAAGTGGACCAAAACAATGAAGCAAAGCTCAATGTGAGTGAAACTTC
AAAACCCCATCTTCTTGATGAGATACAGAGAAAAAGGATCGAAATAATGAAGTGATCATA
Found at i:27787975 original size:451 final size:446
Alignment explanation
Indices: 27787135--27788523 Score: 1919
Period size: 451 Copynumber: 3.1 Consensus size: 446
27787125 ATGAAGTGGT
* * * * *
27787135 CATCTTCCTGATGAAATATAGAGAAGTAGACCAAAACAATGAAGCGAACCTTAACGTGAGTGAAA
1 CATCTTCCTGATGAGATATAGAGAAGTGGACCAAAACAATGAAGCGAAGCTCAATGTGAGTGAAA
* * * * * * *
27787200 CTTCACACCCCCATCTTCCTGATGAGATACAGAGAAGTGGATCAAACTGATGAAGCGGTTATCTT
66 CTTCAAAACCCCATCTTCTTGATGAGATACAGAGAAATGGATCAAA-TAATGAAGTGG-TATATT
*
27787265 CCTGATGAGATACAGAGAAGTGGACCAAAACATTGAAGCAAAGCTCAATGTGAGTGAAACTTCAA
129 CCTGATGAGATACAGAGAAGTGGACCAAAACAATGAAGCAAAGCTCAATGTGAGTGAAACTTCAA
* * *
27787330 AACCCCATCTTCTTGATGAGATACAGAGAAGTGGATTGAAATAATAAAGTGGTCATATTCCTAAT
194 AACCCCATCTTCTTGATGAGATACAGAGAAGTGGATCGAAATAATGAAGTGGTCATATTCCTGAT
* *
27787395 GAGATACAGAGAAGTGGACTAAAATAATAAAGTGAAGCTCAAA-GTTGAGTGAAACTTCAAAACC
259 GAGATACAGAGAAGTGGACTAAAATAATGAAGTGAAGCTCAAATG-TGAGTGAAACTTTAAAA-C
* * * *
27787459 CCATCTTCCTGATGAGATACAAAGAAGTGGATAAAAACAATGAAGTGGTCATCTTCTTAATGAGA
322 CCATCTTCCTGATGAGATACAGAGAAGTGGATCAAAACAATGAAGTGGTCATCTTCCTGATGAGA
* *
27787524 TACAGAGAAGTAGACCAAAATAATGAAGCGAACCTTAACGTGAGTGAAACTTCACACCCC
387 TACAGAGAAGTAGACCAAAATAATGAAGCGAAGCTCAACGTGAGTGAAACTTCACACCCC
* * *
27787584 CATCTTCCTGATGAGATATAGAGAAGTGGACCAAAACATTAAAGCAAAGCTCAATGTGAGTGAAA
1 CATCTTCCTGATGAGATATAGAGAAGTGGACCAAAACAATGAAGCGAAGCTCAATGTGAGTGAAA
* *
27787649 CTTCAAAACCCCATCTTCTTGATGAGATACAGAGAAAAAGGATCGAAATAATGAAGTGATCATAT
66 CTTCAAAACCCCATCTTCTTGATGAGATACAGAG-AAATGGATC-AAATAATGAAGTGGT-ATAT
27787714 TCCTGATGAGATACAGAGAAGTGGACCAAAACAATGAAGCAAAGCTCAATGTGAGTGAAACTTCA
128 TCCTGATGAGATACAGAGAAGTGGACCAAAACAATGAAGCAAAGCTCAATGTGAGTGAAACTTCA
** *
27787779 AAACCCCATCTTCTTGATGAGATACAGAGAAAAAGGATCGAAATAATGAAGTGATCATATTCCTG
193 AAACCCCATCTTCTTGATGAGATACAGAG-AAGTGGATCGAAATAATGAAGTGGTCATATTCCTG
27787844 ATGAGATACAGAGAAGTGGACTAAAATAATGAAGTGAAGCTCAAATGTGAGTGAAACTTTAAAAC
257 ATGAGATACAGAGAAGTGGACTAAAATAATGAAGTGAAGCTCAAATGTGAGTGAAACTTTAAAAC
* *
27787909 CTCATCTTTCTGCTGAGATACAGAGAAGTGGATCAAAACAATGAAGTGGTCATCTTCCTGATGAG
322 C-CATCTTCCTGATGAGATACAGAGAAGTGGATCAAAACAATGAAGTGGTCATCTTCCTGATGAG
*
27787974 ATACAGAGAAGTAGACCAAAACAATGAAGCGAAGCTCAACGTGAGTGAAACTTCACACCCC
386 ATACAGAGAAGTAGACCAAAATAATGAAGCGAAGCTCAACGTGAGTGAAACTTCACACCCC
* *
27788035 CATCTTCTTGATGAGATATAGAGAAGTGGACCAAAACAATGAAGCGAAGCGCAAATGTGAGTGAA
1 CATCTTCCTGATGAGATATAGAGAAGTGGACCAAAACAATGAAGCGAAGCTC-AATGTGAGTGAA
* * * * * *
27788100 ACTTCAAAACCCAATTTTCTTGATTAGATACAGAGAACTGGATCAAAACAATGAAGTGGTATTTT
65 ACTTCAAAACCCCATCTTCTTGATGAGATACAGAGAAATGGATC-AAATAATGAAGTGGTATATT
* * * **
27788165 CCTGATGAGATATAGAGAAGTAGACCAAAACAATGAAGCGAAGCTCAACATGAGTGAAACTTCAC
129 CCTGATGAGATACAGAGAAGTGGACCAAAACAATGAAGCAAAGCTCAATGTGAGTGAAACTTCA-
** * * * * * *
27788230 ACCCCCCATCTTCCTGATGAGAT--ATAGAAGTGGATCAAAATGATGAAGCGGTCATCTTCCTGA
193 AAACCCCATCTTCTTGATGAGATACAGAGAAGTGGATCGAAATAATGAAGTGGTCATATTCCTGA
* * * * * *
27788293 TGAGATACAGAGAAGTAGACCAAAACAACGAAGCGAAGCTC-AATGTGAGTGAAA-TTTCAAACC
258 TGAGATACAGAGAAGTGGACTAAAATAATGAAGTGAAGCTCAAATGTGAGTGAAACTTTAAAACC
* * *
27788356 CTATCTTCCTGATGAGATACAGAGAATTGGATCAAAATAATGAAGCGGTCATCTTCCTGATGAGA
323 C-ATCTTCCTGATGAGATACAGAGAAGTGGATCAAAACAATGAAGTGGTCATCTTCCTGATGAGA
* * * ** * *
27788421 TACAGAGAAGTAGACCAGAATAATGAAGCGGAGCTCAATGAAAGTGAAACTTCA-AACCT
387 TACAGAGAAGTAGACCAAAATAATGAAGCGAAGCTCAACGTGAGTGAAACTTCACACCCC
* * * * *
27788480 CATCTTCTTAATGAGATACAGAGAAGTGGACTAAAA-GATGAAGC
1 CATCTTCCTGATGAGATATAGAGAAGTGGACCAAAACAATGAAGC
27788524 TACAACACCA
Statistics
Matches: 843, Mismatches: 88, Indels: 23
0.88 0.09 0.02
Matches are distributed among these distances:
444 7 0.01
445 37 0.04
446 114 0.14
447 13 0.02
448 65 0.08
449 92 0.11
450 176 0.21
451 294 0.35
452 45 0.05
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.22
Consensus pattern (446 bp):
CATCTTCCTGATGAGATATAGAGAAGTGGACCAAAACAATGAAGCGAAGCTCAATGTGAGTGAAA
CTTCAAAACCCCATCTTCTTGATGAGATACAGAGAAATGGATCAAATAATGAAGTGGTATATTCC
TGATGAGATACAGAGAAGTGGACCAAAACAATGAAGCAAAGCTCAATGTGAGTGAAACTTCAAAA
CCCCATCTTCTTGATGAGATACAGAGAAGTGGATCGAAATAATGAAGTGGTCATATTCCTGATGA
GATACAGAGAAGTGGACTAAAATAATGAAGTGAAGCTCAAATGTGAGTGAAACTTTAAAACCCAT
CTTCCTGATGAGATACAGAGAAGTGGATCAAAACAATGAAGTGGTCATCTTCCTGATGAGATACA
GAGAAGTAGACCAAAATAATGAAGCGAAGCTCAACGTGAGTGAAACTTCACACCCC
Found at i:27787981 original size:48 final size:48
Alignment explanation
Indices: 27787910--27788002 Score: 150
Period size: 48 Copynumber: 1.9 Consensus size: 48
27787900 CTTTAAAACC
* * * *
27787910 TCATCTTTCTGCTGAGATACAGAGAAGTGGATCAAAACAATGAAGTGG
1 TCATCTTCCTGATGAGATACAGAGAAGTAGACCAAAACAATGAAGTGG
27787958 TCATCTTCCTGATGAGATACAGAGAAGTAGACCAAAACAATGAAG
1 TCATCTTCCTGATGAGATACAGAGAAGTAGACCAAAACAATGAAG
27788003 CGAAGCTCAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.23
Consensus pattern (48 bp):
TCATCTTCCTGATGAGATACAGAGAAGTAGACCAAAACAATGAAGTGG
Found at i:27788092 original size:201 final size:201
Alignment explanation
Indices: 27787838--27788279 Score: 687
Period size: 201 Copynumber: 2.2 Consensus size: 201
27787828 AGTGATCATA
* * * *
27787838 TTCCTGATGAGATACAGAGAAGTGGACTAAAATAATGAAGTGAAGCTCAAATGTGAGTGAAACTT
1 TTCCTGATGAGATATAGAGAAGTGGACCAAAATAATGAAGCGAAGCGCAAATGTGAGTGAAACTT
* * *
27787903 TAAAACCTC-ATCTTTC-TGCTGAGATACAGAGAAGTGGATCAAAACAATGAAGTGGTCATCTTC
66 CAAAACC-CAAT-TTTCTTGATGAGATACAGAGAACTGGATCAAAACAATGAAGTGGT-ATCTTC
*
27787966 CTGATGAGATACAGAGAAGTAGACCAAAACAATGAAGCGAAGCTCAACGTGAGTGAAACTTCACA
128 CTGATGAGATACAGAGAAGTAGACCAAAACAATGAAGCGAAGCTCAACATGAGTGAAACTTCACA
27788031 -CCCCCATC
193 CCCCCCATC
* *
27788039 TTCTTGATGAGATATAGAGAAGTGGACCAAAACAATGAAGCGAAGCGCAAATGTGAGTGAAACTT
1 TTCCTGATGAGATATAGAGAAGTGGACCAAAATAATGAAGCGAAGCGCAAATGTGAGTGAAACTT
* *
27788104 CAAAACCCAATTTTCTTGATTAGATACAGAGAACTGGATCAAAACAATGAAGTGGTATTTTCCTG
66 CAAAACCCAATTTTCTTGATGAGATACAGAGAACTGGATCAAAACAATGAAGTGGTATCTTCCTG
*
27788169 ATGAGATATAGAGAAGTAGACCAAAACAATGAAGCGAAGCTCAACATGAGTGAAACTTCACACCC
131 ATGAGATACAGAGAAGTAGACCAAAACAATGAAGCGAAGCTCAACATGAGTGAAACTTCACACCC
27788234 CCCATC
196 CCCATC
* *
27788240 TTCCTGATGAGATAT--AGAAGTGGATCAAAATGATGAAGCG
1 TTCCTGATGAGATATAGAGAAGTGGACCAAAATAATGAAGCG
27788280 GTCATCTTCC
Statistics
Matches: 221, Mismatches: 17, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
199 22 0.10
200 73 0.33
201 126 0.57
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.22
Consensus pattern (201 bp):
TTCCTGATGAGATATAGAGAAGTGGACCAAAATAATGAAGCGAAGCGCAAATGTGAGTGAAACTT
CAAAACCCAATTTTCTTGATGAGATACAGAGAACTGGATCAAAACAATGAAGTGGTATCTTCCTG
ATGAGATACAGAGAAGTAGACCAAAACAATGAAGCGAAGCTCAACATGAGTGAAACTTCACACCC
CCCATC
Found at i:27788135 original size:77 final size:76
Alignment explanation
Indices: 27787960--27788155 Score: 275
Period size: 77 Copynumber: 2.6 Consensus size: 76
27787950 TGAAGTGGTC
* * *
27787960 ATCTTCCTGATGAGATACAGAGAAGTAGACCAAAACAATGAAGCGAAGCTCAACGTGAGTGAAAC
1 ATCTTCTTGATGAGATACAGAGAAGTGGACCAAAACAATGAAGCGAAGCGCAACGTGAGTGAAAC
* * *
27788025 TTCACACCCCC
66 TTCAAAACCCA
* *
27788036 ATCTTCTTGATGAGATATAGAGAAGTGGACCAAAACAATGAAGCGAAGCGCAAATGTGAGTGAAA
1 ATCTTCTTGATGAGATACAGAGAAGTGGACCAAAACAATGAAGCGAAGCGC-AACGTGAGTGAAA
27788101 CTTCAAAACCCA
65 CTTCAAAACCCA
* * * *
27788113 ATTTTCTTGATTAGATACAGAGAACTGGATCAAAACAATGAAG
1 ATCTTCTTGATGAGATACAGAGAAGTGGACCAAAACAATGAAG
27788156 TGGTATTTTC
Statistics
Matches: 106, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
76 47 0.44
77 59 0.56
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.20
Consensus pattern (76 bp):
ATCTTCTTGATGAGATACAGAGAAGTGGACCAAAACAATGAAGCGAAGCGCAACGTGAGTGAAAC
TTCAAAACCCA
Found at i:27788182 original size:47 final size:47
Alignment explanation
Indices: 27788113--27788202 Score: 126
Period size: 47 Copynumber: 1.9 Consensus size: 47
27788103 TCAAAACCCA
* * * *
27788113 ATTTTCTTGATTAGATACAGAGAACTGGATCAAAACAATGAAGTGGT
1 ATTTTCCTGATGAGATACAGAGAACTAGACCAAAACAATGAAGTGGT
* *
27788160 ATTTTCCTGATGAGATATAGAGAAGTAGACCAAAACAATGAAG
1 ATTTTCCTGATGAGATACAGAGAACTAGACCAAAACAATGAAG
27788203 CGAAGCTCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 37 1.00
ACGTcount: A:0.41, C:0.11, G:0.21, T:0.27
Consensus pattern (47 bp):
ATTTTCCTGATGAGATACAGAGAACTAGACCAAAACAATGAAGTGGT
Found at i:27788309 original size:123 final size:121
Alignment explanation
Indices: 27788035--27788509 Score: 562
Period size: 123 Copynumber: 3.9 Consensus size: 121
27788025 TTCACACCCC
* * * *
27788035 CATCTTCTTGATGAGATATAGAGAAGTGGACCAAAACAATGAAGCGAAGCGCAAATGTGAGTGAA
1 CATCTTCCTGATGAGATACAGAGAAGTAGACCAAAACAATGAAGCGAAGCTCAAA--TGAGTGAA
* * * * *
27788100 ACTTCAAAACCCAATTTTCTTGATTAGATACAGAGAACTGGATCAAAACAATGAAGTGGT
64 ACTTC-AAACCCAATCTTCCTGATGAGATA-AGAGAACTGGATCAAAATAATGAAGCGGT
* *
27788160 -ATTTTCCTGATGAGATATAGAGAAGTAGACCAAAACAATGAAGCGAAGCTCAACATGAGTGAAA
1 CATCTTCCTGATGAGATACAGAGAAGTAGACCAAAACAATGAAGCGAAGCTCAA-ATGAGTGAAA
* * * * *
27788224 CTTCACACCCCCCATCTTCCTGATGAGAT-ATAGAAGTGGATCAAAATGATGAAGCGGT
65 CTTCA-A-ACCCAATCTTCCTGATGAGATAAGAGAACTGGATCAAAATAATGAAGCGGT
* *
27788282 CATCTTCCTGATGAGATACAGAGAAGTAGACCAAAACAACGAAGCGAAGCTCAATGTGAGTGAAA
1 CATCTTCCTGATGAGATACAGAGAAGTAGACCAAAACAATGAAGCGAAGCTCAA-ATGAGTGAAA
* * *
27788347 TTTCAAACCCTATCTTCCTGATGAGATACAGAGAATTGGATCAAAATAATGAAGCGGT
65 CTTCAAACCCAATCTTCCTGATGAGATA-AGAGAACTGGATCAAAATAATGAAGCGGT
* * *
27788405 CATCTTCCTGATGAGATACAGAGAAGTAGACCAGAATAATGAAGCGGAGCTC-AATGAAAGTGAA
1 CATCTTCCTGATGAGATACAGAGAAGTAGACCAAAACAATGAAGCGAAGCTCAAATG--AGTGAA
* * *
27788469 ACTTCAAACCTC-ATCTTCTTAATGAGATACAGAGAAGTGGA
64 ACTTCAAACC-CAATCTTCCTGATGAGATA-AGAGAACTGGA
27788510 CTAAAAGATG
Statistics
Matches: 307, Mismatches: 34, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
121 21 0.07
122 27 0.09
123 192 0.63
124 66 0.21
125 1 0.00
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.22
Consensus pattern (121 bp):
CATCTTCCTGATGAGATACAGAGAAGTAGACCAAAACAATGAAGCGAAGCTCAAATGAGTGAAAC
TTCAAACCCAATCTTCCTGATGAGATAAGAGAACTGGATCAAAATAATGAAGCGGT
Found at i:27788326 original size:48 final size:46
Alignment explanation
Indices: 27788236--27788327 Score: 112
Period size: 48 Copynumber: 2.0 Consensus size: 46
27788226 TCACACCCCC
* * * ** *
27788236 CATCTTCCTGATGAGATATAGAAGTGGATCAAAATGATGAAGCGGT
1 CATCTTCCTGATGAGATAGAGAAGTAGACCAAAACAACGAAGCGGT
27788282 CATCTTCCTGATGAGATACAGAGAAGTAGACCAAAACAACGAAGCG
1 CATCTTCCTGATGAGAT--AGAGAAGTAGACCAAAACAACGAAGCG
27788328 AAGCTCAATG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
46 17 0.45
48 21 0.55
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (46 bp):
CATCTTCCTGATGAGATAGAGAAGTAGACCAAAACAACGAAGCGGT
Found at i:27788429 original size:48 final size:48
Alignment explanation
Indices: 27788358--27788451 Score: 152
Period size: 48 Copynumber: 2.0 Consensus size: 48
27788348 TTCAAACCCT
* * *
27788358 ATCTTCCTGATGAGATACAGAGAATTGGATCAAAATAATGAAGCGGTC
1 ATCTTCCTGATGAGATACAGAGAAGTAGACCAAAATAATGAAGCGGTC
*
27788406 ATCTTCCTGATGAGATACAGAGAAGTAGACCAGAATAATGAAGCGG
1 ATCTTCCTGATGAGATACAGAGAAGTAGACCAAAATAATGAAGCGG
27788452 AGCTCAATGA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.22
Consensus pattern (48 bp):
ATCTTCCTGATGAGATACAGAGAAGTAGACCAAAATAATGAAGCGGTC
Found at i:27788507 original size:246 final size:246
Alignment explanation
Indices: 27788035--27788523 Score: 659
Period size: 246 Copynumber: 2.0 Consensus size: 246
27788025 TTCACACCCC
* * * *
27788035 CATCTTCTTGATGAGATATAGAGAAGTGGACCAAAACAATGAAGCGAAGCGCAAATGTGAGTGAA
1 CATCTTCCTGATGAGATACAGAGAAGTAGACCAAAACAACGAAGCGAAGCGCAAATGTGAGTGAA
* * * * *
27788100 ACTTCAAAACCCAATTTTCTTGATTAGATACAGAGAACTGGATCAAAACAATGAAGTGGTATTTT
66 ACTTCAAAACCCAATCTTCCTGATGAGATACAGAGAACTGGATCAAAACAATGAAGCGGTATCTT
*
27788165 CCTGATGAGATATAGAGAAGTAGACCAAAACAATGAAGCGAAGCTCAACATGAGTGAAACTTCAC
131 CCTGATGAGATACAGAGAAGTAGACCAAAACAATGAAGCGAAGCTCAACATGAGTGAAACTTCAC
* * *
27788230 ACCCCCCATCTTCCTGATGAGATATAGAAGTGGA-TCAAAATGATGAAGCGGT
196 ACACCCCATCTTCCTAATGAGATAGAGAAGTGGACT-AAAA-GATGAAGCGGT
*
27788282 CATCTTCCTGATGAGATACAGAGAAGTAGACCAAAACAACGAAGCGAAGCTC-AATGTGAGTGAA
1 CATCTTCCTGATGAGATACAGAGAAGTAGACCAAAACAACGAAGCGAAGCGCAAATGTGAGTGAA
* * * *
27788346 ATTTC-AAACCCTATCTTCCTGATGAGATACAGAGAATTGGATCAAAATAATGAAGCGGTCATCT
66 ACTTCAAAACCCAATCTTCCTGATGAGATACAGAGAACTGGATCAAAACAATGAAGCGGT-ATCT
* * *
27788410 TCCTGATGAGATACAGAGAAGTAGACCAGAATAATGAAGCGGAGCTC-A-ATGAAAGTGAAACTT
130 TCCTGATGAGATACAGAGAAGTAGACCAAAACAATGAAGCGAAGCTCAACATG--AGTGAAACTT
* *
27788473 CA-A-ACCTCATCTTCTTAATGAGATACAGAGAAGTGGACTAAAAGATGAAGC
193 CACACACCCCATCTTCCTAATGAGAT--AGAGAAGTGGACTAAAAGATGAAGC
27788524 TACAACACCA
Statistics
Matches: 213, Mismatches: 23, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
244 20 0.09
245 57 0.27
246 88 0.41
247 48 0.23
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.22
Consensus pattern (246 bp):
CATCTTCCTGATGAGATACAGAGAAGTAGACCAAAACAACGAAGCGAAGCGCAAATGTGAGTGAA
ACTTCAAAACCCAATCTTCCTGATGAGATACAGAGAACTGGATCAAAACAATGAAGCGGTATCTT
CCTGATGAGATACAGAGAAGTAGACCAAAACAATGAAGCGAAGCTCAACATGAGTGAAACTTCAC
ACACCCCATCTTCCTAATGAGATAGAGAAGTGGACTAAAAGATGAAGCGGT
Found at i:27789009 original size:16 final size:16
Alignment explanation
Indices: 27788977--27789019 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
27788967 AACAAACCAC
* *
27788977 AACCCAATTAAATCCA
1 AACCCAATTACACCCA
27788993 AACCCAATTACACCCA
1 AACCCAATTACACCCA
* *
27789009 AGCCTAATTAC
1 AACCCAATTAC
27789020 CCAACAAGCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.44, C:0.35, G:0.02, T:0.19
Consensus pattern (16 bp):
AACCCAATTACACCCA
Found at i:27790120 original size:29 final size:28
Alignment explanation
Indices: 27790087--27790165 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 28
27790077 GCTCCTTTTA
*
27790087 TTTAAAAATTATATTTTGACCACTAAACT
1 TTTAAAAATTATATTTTGACC-CCAAACT
* *
27790116 TTTAAAAA-TATGTTTTCACCCCAAACT
1 TTTAAAAATTATATTTTGACCCCAAACT
*
27790143 TTTCAAGAATTA-AGTTTTGACCC
1 TTT-AAAAATTATA-TTTTGACCC
27790166 TTGAACTTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
27 9 0.22
28 14 0.34
29 18 0.44
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.39
Consensus pattern (28 bp):
TTTAAAAATTATATTTTGACCCCAAACT
Found at i:27790192 original size:30 final size:30
Alignment explanation
Indices: 27790139--27790241 Score: 136
Period size: 30 Copynumber: 3.4 Consensus size: 30
27790129 TTTCACCCCA
* * * * *
27790139 AACTTTTCAAGAATTAAGTTTTGACCCTTG
1 AACTTTCCAAAAATTTAGATTTGACCCTCG
*
27790169 AACTTTCCAAACATTTAGATTTGACCCTCG
1 AACTTTCCAAAAATTTAGATTTGACCCTCG
27790199 AACTTTCCAAAAATTTAGATTTGACCCTCG
1 AACTTTCCAAAAATTTAGATTTGACCCTCG
27790229 AAC-TTCCTAAAAA
1 AACTTTCC-AAAAA
27790242 ATTCAAATTT
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
29 4 0.06
30 61 0.94
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (30 bp):
AACTTTCCAAAAATTTAGATTTGACCCTCG
Found at i:27790252 original size:31 final size:30
Alignment explanation
Indices: 27790158--27790252 Score: 111
Period size: 30 Copynumber: 3.1 Consensus size: 30
27790148 AGAATTAAGT
* * * *
27790158 TTTGACCCTTGAACTTTCCAAACATTTAGA
1 TTTGACCCTCGAACTTTCCAAAAATTCAAA
* *
27790188 TTTGACCCTCGAACTTTCCAAAAATTTAGA
1 TTTGACCCTCGAACTTTCCAAAAATTCAAA
27790218 TTTGACCCTCGAAC-TTCCTAAAAAATTCAAA
1 TTTGACCCTCGAACTTTCC--AAAAATTCAAA
27790249 TTTG
1 TTTG
27790253 GCCTCAAAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
29 4 0.07
30 42 0.71
31 13 0.22
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.35
Consensus pattern (30 bp):
TTTGACCCTCGAACTTTCCAAAAATTCAAA
Found at i:27794198 original size:27 final size:27
Alignment explanation
Indices: 27794140--27794199 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
27794130 TATCTCTTTT
* *
27794140 TTTTTTAAAAAAGACAAATTATTTTAA
1 TTTTTTAAAAAAGACAAATTAATATAA
* *
27794167 TTTTTTAATAAA-ATAAATTAATATAA
1 TTTTTTAAAAAAGACAAATTAATATAA
27794193 TATTTTT
1 T-TTTTT
27794200 TATATTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 12 0.43
27 16 0.57
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (27 bp):
TTTTTTAAAAAAGACAAATTAATATAA
Found at i:27798497 original size:24 final size:24
Alignment explanation
Indices: 27798447--27798507 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
27798437 GACTTGGGTT
*
27798447 GTATCGGTA-ATTGTA--TAGTAG
1 GTATCGGTAGTTTGTACTTAGTAG
27798468 GTATCGGTAGTTCTGTACTTAGTA-
1 GTATCGGTAGTT-TGTACTTAGTAG
27798492 GTATCGGTAGTTTGTA
1 GTATCGGTAGTTTGTA
27798508 TACTTGTATC
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
21 9 0.26
22 1 0.03
23 8 0.23
24 12 0.34
25 5 0.14
ACGTcount: A:0.23, C:0.08, G:0.28, T:0.41
Consensus pattern (24 bp):
GTATCGGTAGTTTGTACTTAGTAG
Found at i:27798512 original size:25 final size:25
Alignment explanation
Indices: 27798462--27798507 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
27798452 GGTAATTGTA
27798462 TAGTAGGTATCGGTAGTTCTGTACT
1 TAGTAGGTATCGGTAGTTCTGTACT
27798487 TAGTA-GTATCGGTAGTT-TGTA
1 TAGTAGGTATCGGTAGTTCTGTA
27798508 TACTTGTATC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 4 0.19
24 12 0.57
25 5 0.24
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.41
Consensus pattern (25 bp):
TAGTAGGTATCGGTAGTTCTGTACT
Found at i:27798518 original size:21 final size:21
Alignment explanation
Indices: 27798444--27798522 Score: 79
Period size: 21 Copynumber: 3.6 Consensus size: 21
27798434 ACTGACTTGG
*
27798444 GTTGTATCGGTA-ATTGTATA
1 GTTGTATCGGTAGTTTGTATA
*
27798464 GTAGGTATCGGTAGTTCTGTACTTA
1 GT-TGTATCGGTAGTT-TGTA--TA
*
27798489 GTAGTATCGGTAGTTTGTATA
1 GTTGTATCGGTAGTTTGTATA
*
27798510 CTTGTATCGGTAG
1 GTTGTATCGGTAG
27798523 AAGTTGCAGG
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
20 2 0.04
21 22 0.45
22 1 0.02
23 8 0.16
24 12 0.24
25 4 0.08
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.42
Consensus pattern (21 bp):
GTTGTATCGGTAGTTTGTATA
Found at i:27800305 original size:71 final size:70
Alignment explanation
Indices: 27800190--27800370 Score: 299
Period size: 71 Copynumber: 2.6 Consensus size: 70
27800180 AACAAATTTT
* *
27800190 ATATCCAAAATCAAATATAAACAACTATTGATAAAACTAAATTACACATAAATAAGTAAAACATA
1 ATATCCAAAACCAAACATAAACAACTATTGATAAAACTAAATTACACATAAATAAGTAAAACAT-
27800255 AATTCA
65 AATTCA
* *
27800261 ATATCCAAAACCAAACATAAACAACTATTGATAAAATTAGATTACACATAAATAAGTAAAACATA
1 ATATCCAAAACCAAACATAAACAACTATTGATAAAACTAAATTACACATAAATAAGTAAAACATA
27800326 ATTCA
66 ATTCA
*
27800331 ATATTCAAAAACCAAACATAAACAACTATTGATAAAACTA
1 ATA-TCCAAAACCAAACATAAACAACTATTGATAAAACTA
27800371 GTTTAGCATT
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
70 9 0.09
71 94 0.91
ACGTcount: A:0.57, C:0.15, G:0.03, T:0.24
Consensus pattern (70 bp):
ATATCCAAAACCAAACATAAACAACTATTGATAAAACTAAATTACACATAAATAAGTAAAACATA
ATTCA
Found at i:27807829 original size:51 final size:51
Alignment explanation
Indices: 27807773--27807992 Score: 188
Period size: 51 Copynumber: 4.5 Consensus size: 51
27807763 AAATCAGTAC
27807773 TTTATTTAAAAATCTAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAAT
1 TTTATTTAAAAATCTAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAAT
* * * ** * ****
27807824 TTTATTTAAAAATTTAAACTTTTCTTT-AAAATAACTAAAACAGATTTTTAT
1 TTTATTTAAAAATCTAAACTTTTATTTCGAAATAGTTAAAA-AAATCAAAAT
* ** ** *
27807875 TTT-TTTAAAAATATAAACTTTCT-TTTTTAAAT-G-----AAAATCACTAC
1 TTTATTTAAAAATCTAAACTTT-TATTTCGAAATAGTTAAAAAAATCAAAAT
* *
27807919 TTTACTTAAAAATCTAAATTTTTATTTCGAAATAGTTAAAAAAATCAAAAT
1 TTTATTTAAAAATCTAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAAT
*
27807970 TTTATTTAAAAATTTAAACTTTT
1 TTTATTTAAAAATCTAAACTTTT
27807993 TCTTAAAAAC
Statistics
Matches: 129, Mismatches: 29, Indels: 22
0.72 0.16 0.12
Matches are distributed among these distances:
44 9 0.07
45 23 0.18
46 1 0.01
50 30 0.23
51 66 0.51
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.44
Consensus pattern (51 bp):
TTTATTTAAAAATCTAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAAT
Done.