Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 53 of 199
Found at i:15549389 original size:21 final size:21
Alignment explanation
Indices: 15549335--15549392 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
15549325 GGTATCCATT
*
15549335 ATATTTATTAAAAATTTCAAA
1 ATATTTATTAAAAAATTCAAA
**
15549356 ATA-GCATTCAAAAAATT-AAA
1 ATATTTATT-AAAAAATTCAAA
15549376 ATATTTATTAAAAAATT
1 ATATTTATTAAAAAATT
15549393 TCTCAGTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (21 bp):
ATATTTATTAAAAAATTCAAA
Found at i:15550757 original size:22 final size:22
Alignment explanation
Indices: 15550732--15550799 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 22
15550722 TTTGACTACT
15550732 TTGTTGCATATAAATTATTGAA
1 TTGTTGCATATAAATTATTGAA
*
15550754 TTGTTG-AT-T--TTTATT-AA
1 TTGTTGCATATAAATTATTGAA
* *
15550771 TTTTCTGCATATAAAATATTGAA
1 TTGT-TGCATATAAATTATTGAA
15550794 TTGTTG
1 TTGTTG
15550800 ATTTCCAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 12
0.67 0.10 0.23
Matches are distributed among these distances:
17 5 0.14
18 7 0.20
19 2 0.06
20 2 0.06
21 2 0.06
22 12 0.34
23 5 0.14
ACGTcount: A:0.31, C:0.04, G:0.13, T:0.51
Consensus pattern (22 bp):
TTGTTGCATATAAATTATTGAA
Found at i:15552273 original size:41 final size:40
Alignment explanation
Indices: 15552035--15552273 Score: 196
Period size: 41 Copynumber: 5.8 Consensus size: 40
15552025 GATTTTTAAA
*
15552035 CCTTTAGCGGCGTTTTTA-CATGAGCGCCGCTAAAT-CTCTGG
1 CCTTTAGCGGCGTTTTTATC-TAAGCGCCGCT-AATGCTCT-G
* * * * *
15552076 CCTTTAGCGACATTTTTGTCTAAGCGCCGCTAAGGCTCGG
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTG
* * * * *
15552116 AGCTTTAGTGGCGTTTTTATCTCAGCGCCACTAATCCTCTGG
1 -CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCT-G
* ** *
15552158 CCTTTAGCGGCGTTTTTGTCTAAGAACCGCTAATGCTCGG
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTG
* * * * * *
15552198 ATCTTTAGTGACGTTTTTATCTGAGCGCCACTAATTCTCCTG
1 -CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCT-CTG
15552240 CCTTTAGCGGCGTTTGTT-TCTAAGCGCCGCTAAT
1 CCTTTAGCGGCGTTT-TTATCTAAGCGCCGCTAAT
15552274 AGTAACAAAA
Statistics
Matches: 151, Mismatches: 40, Indels: 14
0.74 0.20 0.07
Matches are distributed among these distances:
40 4 0.03
41 141 0.93
42 6 0.04
ACGTcount: A:0.17, C:0.26, G:0.23, T:0.34
Consensus pattern (40 bp):
CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTG
Found at i:15552273 original size:82 final size:82
Alignment explanation
Indices: 15552036--15552273 Score: 320
Period size: 82 Copynumber: 2.9 Consensus size: 82
15552026 ATTTTTAAAC
* * * * *
15552036 CTTTAGCGGCGTTTTTA-CATGAGCGCCGCTAAATCTCTGGCCTTTAGCGACATTTTTGTCTAAG
1 CTTTAGTGGCGTTTTTATC-TGAGCGCCACTAATTCTCTGGCCTTTAGCGGCGTTTTTGTCTAAG
*
15552100 CGCCGCTAAGGCTCGGAG
65 CGCCGCTAATGCTCGGAG
* * *
15552118 CTTTAGTGGCGTTTTTATCTCAGCGCCACTAATCCTCTGGCCTTTAGCGGCGTTTTTGTCTAAGA
1 CTTTAGTGGCGTTTTTATCTGAGCGCCACTAATTCTCTGGCCTTTAGCGGCGTTTTTGTCTAAGC
* *
15552183 ACCGCTAATGCTCGGAT
66 GCCGCTAATGCTCGGAG
*
15552200 CTTTAGTGACGTTTTTATCTGAGCGCCACTAATTCTCCT-GCCTTTAGCGGCGTTTGTT-TCTAA
1 CTTTAGTGGCGTTTTTATCTGAGCGCCACTAATTCT-CTGGCCTTTAGCGGCGTTT-TTGTCTAA
15552263 GCGCCGCTAAT
64 GCGCCGCTAAT
15552274 AGTAACAAAA
Statistics
Matches: 137, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
82 132 0.96
83 5 0.04
ACGTcount: A:0.17, C:0.26, G:0.23, T:0.34
Consensus pattern (82 bp):
CTTTAGTGGCGTTTTTATCTGAGCGCCACTAATTCTCTGGCCTTTAGCGGCGTTTTTGTCTAAGC
GCCGCTAATGCTCGGAG
Found at i:15552769 original size:15 final size:15
Alignment explanation
Indices: 15552748--15552785 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
15552738 TTTAAGGTTA
15552748 ATTTAGGGGTTAGAG
1 ATTTAGGGGTTAGAG
* *
15552763 GTTTAGGGGTTTGAG
1 ATTTAGGGGTTAGAG
15552778 ATTTAGGG
1 ATTTAGGG
15552786 TTTCAACGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.42, T:0.37
Consensus pattern (15 bp):
ATTTAGGGGTTAGAG
Found at i:15552788 original size:14 final size:14
Alignment explanation
Indices: 15552721--15552788 Score: 52
Period size: 15 Copynumber: 4.9 Consensus size: 14
15552711 TACGGGGTAT
*
15552721 AGATTTAAGGTTTG
1 AGATTTAGGGTTTG
* *
15552735 GGATTTAAGG-TT-
1 AGATTTAGGGTTTG
*
15552747 A-ATTTAGGGGTTAG
1 AGATTTA-GGGTTTG
*
15552761 AGGTTTAGGGGTTTG
1 AGATTTA-GGGTTTG
15552776 AGATTTAGGGTTT
1 AGATTTAGGGTTT
15552789 CAACGGTCAT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
11 5 0.12
12 2 0.05
13 3 0.07
14 16 0.37
15 17 0.40
ACGTcount: A:0.24, C:0.00, G:0.35, T:0.41
Consensus pattern (14 bp):
AGATTTAGGGTTTG
Found at i:15554224 original size:17 final size:18
Alignment explanation
Indices: 15554202--15554242 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
15554192 AGGGTTAATT
15554202 AGGGTTAGAG-GGATTTA
1 AGGGTTAGAGAGGATTTA
*
15554219 AGGGTTAGAGAGGTTTTA
1 AGGGTTAGAGAGGATTTA
*
15554237 GGGGTT
1 AGGGTT
15554243 TGGCCGGGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.24, C:0.00, G:0.44, T:0.32
Consensus pattern (18 bp):
AGGGTTAGAGAGGATTTA
Found at i:15554663 original size:27 final size:27
Alignment explanation
Indices: 15554633--15554684 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
15554623 AATAAACAAA
* *
15554633 TAAATAAGTAAGTAATTATTTATTTGT
1 TAAATAAATAAGTAATTAATTATTTGT
**
15554660 TAAATAAATTGGTAATTAATTATTT
1 TAAATAAATAAGTAATTAATTATTT
15554685 AAATGTAAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (27 bp):
TAAATAAATAAGTAATTAATTATTTGT
Found at i:15557529 original size:21 final size:21
Alignment explanation
Indices: 15557500--15557552 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
15557490 ACATCTTTGA
* *
15557500 TATATATATTTATATACAGTTT
1 TATATATATTTAT-TAAAATTT
15557522 TA-ATATATTTATTAAAATTT
1 TATATATATTTATTAAAATTT
15557542 TATATATATTT
1 TATATATATTT
15557553 GAAAAATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 8 0.29
21 18 0.64
22 2 0.07
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
TATATATATTTATTAAAATTT
Found at i:15557670 original size:13 final size:15
Alignment explanation
Indices: 15557637--15557677 Score: 59
Period size: 13 Copynumber: 2.8 Consensus size: 15
15557627 AATAATTTAA
15557637 ATAACTTACATAATAC
1 ATAACTTACAT-ATAC
15557653 ATAACTTACAT-T-C
1 ATAACTTACATATAC
15557666 ATAACTTACATA
1 ATAACTTACATA
15557678 AACTTATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.50
14 1 0.04
16 11 0.46
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (15 bp):
ATAACTTACATATAC
Found at i:15557757 original size:25 final size:25
Alignment explanation
Indices: 15557729--15558045 Score: 181
Period size: 25 Copynumber: 12.4 Consensus size: 25
15557719 ATTTTATATA
* * *
15557729 AACTCACATAATACATAGCATACAT
1 AACTTACATAATACATAACTTACAT
*
15557754 AACTTACATAATACAAAACTTACAT
1 AACTTACATAATACATAACTTACAT
* * *
15557779 AACTTAAATATCTTACACAACTTACAT
1 AACTTACATA--ATACATAACTTACAT
*
15557806 AACCTACATAATACATAACTTACAT
1 AACTTACATAATACATAACTTACAT
*
15557831 AACTTACATAACTTACATAATACATA-AT
1 AACTTACATAA--TACAT-A-ACTTACAT
* *
15557859 AACTTACA-ACTTACATAACATACATT
1 AACTTACATA-ATACATAACTTACA-T
** *
15557885 AA-TTTGATAACTTACATAAGTTACAT
1 AACTTACATAA--TACATAACTTACAT
15557911 AA--TACATAACTTAC--AACTTACAT
1 AACTTACATAA--TACATAACTTACAT
* ***
15557934 AACATACATTAATTTGGTAACTTACAT
1 AACTTACA-TAA-TACATAACTTACAT
15557961 AAGC-TACATAATACATAACTTAC--
1 AA-CTTACATAATACATAACTTACAT
* **
15557984 AACTTACATAACATACATTACTTTGAT
1 AACTTACAT-A-ATACATAACTTACAT
*
15558011 AACTTACATAAGTTACATAA--TACAC
1 AACTTACATAA--TACATAACTTACAT
15558036 AACTTACATA
1 AACTTACATA
15558046 GCTTACTTAA
Statistics
Matches: 233, Mismatches: 34, Indels: 50
0.74 0.11 0.16
Matches are distributed among these distances:
22 1 0.00
23 17 0.07
24 6 0.03
25 106 0.45
26 19 0.08
27 68 0.29
28 12 0.05
29 4 0.02
ACGTcount: A:0.46, C:0.20, G:0.03, T:0.31
Consensus pattern (25 bp):
AACTTACATAATACATAACTTACAT
Found at i:15557761 original size:9 final size:9
Alignment explanation
Indices: 15557749--15558102 Score: 254
Period size: 9 Copynumber: 41.3 Consensus size: 9
15557739 ATACATAGCA
15557749 TACATAACT
1 TACATAACT
15557758 TACATAA--
1 TACATAACT
*
15557765 TACAAAACT
1 TACATAACT
15557774 TACATAACT
1 TACATAACT
* *
15557783 TAAATATCT
1 TACATAACT
*
15557792 TACACAACT
1 TACATAACT
*
15557801 TACATAACC
1 TACATAACT
15557810 TACATAA--
1 TACATAACT
15557817 TACATAACT
1 TACATAACT
15557826 TACATAACT
1 TACATAACT
15557835 TACATAACT
1 TACATAACT
*
15557844 TACATAATACA
1 TACAT-A-ACT
15557855 TA-ATAACT
1 TACATAACT
15557863 TAC--AACT
1 TACATAACT
*
15557870 TACATAACA
1 TACATAACT
15557879 TACATTAA-T
1 TACA-TAACT
**
15557888 TTGATAACT
1 TACATAACT
*
15557897 TACATAAGT
1 TACATAACT
15557906 TACATAA--
1 TACATAACT
15557913 TACATAACT
1 TACATAACT
15557922 TAC--AACT
1 TACATAACT
*
15557929 TACATAACA
1 TACATAACT
15557938 TACATTAA-T
1 TACA-TAACT
***
15557947 TTGGTAACT
1 TACATAACT
15557956 TACATAAGC-
1 TACATAA-CT
15557965 TACATAA--
1 TACATAACT
15557972 TACATAACT
1 TACATAACT
15557981 TAC--AACT
1 TACATAACT
*
15557988 TACATAACA
1 TACATAACT
*
15557997 TACATTACT
1 TACATAACT
**
15558006 TTGATAACT
1 TACATAACT
*
15558015 TACATAAGT
1 TACATAACT
15558024 TACATAA--
1 TACATAACT
*
15558031 TACACAACT
1 TACATAACT
*
15558040 TACATAGCT
1 TACATAACT
*
15558049 TACTTAA--
1 TACATAACT
*
15558056 TACATGACT
1 TACATAACT
15558065 TACATAACT
1 TACATAACT
15558074 T--ATACACGT
1 TACATA-AC-T
15558083 T-CATAACT
1 TACATAACT
*
15558091 TACATAATT
1 TACATAACT
15558100 TAC
1 TAC
15558103 TTAATACATA
Statistics
Matches: 271, Mismatches: 44, Indels: 60
0.72 0.12 0.16
Matches are distributed among these distances:
7 62 0.23
8 14 0.05
9 178 0.66
10 13 0.05
11 4 0.01
ACGTcount: A:0.45, C:0.20, G:0.03, T:0.33
Consensus pattern (9 bp):
TACATAACT
Found at i:15557807 original size:43 final size:41
Alignment explanation
Indices: 15557749--15557859 Score: 141
Period size: 43 Copynumber: 2.6 Consensus size: 41
15557739 ATACATAGCA
*
15557749 TACATAACTTACATAATACAAAACTTACATAACTTAAATATCT
1 TACATAACTTACATAATACAAAA--TACATAACTTAAATAACT
* * *
15557792 TACACAACTTACATAACCTACATAATACATAACTTACATAACT
1 TACATAACTTACATAA--TACAAAATACATAACTTAAATAACT
*
15557835 TACATAACTTACATAATACATAATA
1 TACATAACTTACATAATACAAAATA
15557860 ACTTACAACT
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
41 9 0.15
43 46 0.75
45 6 0.10
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.31
Consensus pattern (41 bp):
TACATAACTTACATAATACAAAATACATAACTTAAATAACT
Found at i:15557807 original size:52 final size:52
Alignment explanation
Indices: 15557749--15557847 Score: 162
Period size: 52 Copynumber: 1.9 Consensus size: 52
15557739 ATACATAGCA
* *
15557749 TACATAACTTACATAATACAAAACTTACATAACTTAAATATCTTACACAACT
1 TACATAACCTACATAATACAAAACTTACATAACTTAAATAACTTACACAACT
* *
15557801 TACATAACCTACATAATACATAACTTACATAACTTACATAACTTACA
1 TACATAACCTACATAATACAAAACTTACATAACTTAAATAACTTACA
15557848 TAATACATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.30
Consensus pattern (52 bp):
TACATAACCTACATAATACAAAACTTACATAACTTAAATAACTTACACAACT
Found at i:15557945 original size:59 final size:59
Alignment explanation
Indices: 15557829--15558043 Score: 358
Period size: 59 Copynumber: 3.6 Consensus size: 59
15557819 CATAACTTAC
*
15557829 ATAACTTACATAACTTACATAATACATAATAACTTACAACTTACATAACATACATTAATTTG
1 ATAACTTACATAAGTTACATAATAC---ATAACTTACAACTTACATAACATACATTAATTTG
15557891 ATAACTTACATAAGTTACATAATACATAACTTACAACTTACATAACATACATTAATTTG
1 ATAACTTACATAAGTTACATAATACATAACTTACAACTTACATAACATACATTAATTTG
* * *
15557950 GTAACTTACATAAGCTACATAATACATAACTTACAACTTACATAACATACATTACTTTG
1 ATAACTTACATAAGTTACATAATACATAACTTACAACTTACATAACATACATTAATTTG
*
15558009 ATAACTTACATAAGTTACATAATACACAACTTACA
1 ATAACTTACATAAGTTACATAATACATAACTTACA
15558044 TAGCTTACTT
Statistics
Matches: 146, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
59 122 0.84
62 24 0.16
ACGTcount: A:0.46, C:0.19, G:0.03, T:0.33
Consensus pattern (59 bp):
ATAACTTACATAAGTTACATAATACATAACTTACAACTTACATAACATACATTAATTTG
Found at i:15558051 original size:25 final size:25
Alignment explanation
Indices: 15558011--15558075 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
15558001 TTACTTTGAT
15558011 AACTTACATAAG-TTACATAATACAC
1 AACTTACAT-AGCTTACATAATACAC
* *
15558036 AACTTACATAGCTTACTTAATACAT
1 AACTTACATAGCTTACATAATACAC
* *
15558061 GACTTACATAACTTA
1 AACTTACATAGCTTA
15558076 TACACGTTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 2 0.06
25 33 0.94
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.32
Consensus pattern (25 bp):
AACTTACATAGCTTACATAATACAC
Found at i:15558059 original size:118 final size:119
Alignment explanation
Indices: 15557792--15558075 Score: 382
Period size: 118 Copynumber: 2.4 Consensus size: 119
15557782 TTAAATATCT
* *
15557792 TACACAACTTACATAACCTACATAATACA-TAACTTACATAACTTACATAACTTACATAATACAT
1 TACACAACTTACAT-ACTTACTTAATACATTAACTTACATAACTTACATAACTTACATAATAC--
15557856 AATAACTTACAACTTACATAACATACATTAATTTGATAACTTACATAAGTTACATAA
63 AATAACTTACAACTTACATAACATACATTAATTTGATAACTTACATAAGTTACATAA
* * ***
15557913 TACATAACTTACA-ACTTACATAACATACATTAA-TTTGGTAACTTACATAAGC-TACATAATAC
1 TACACAACTTACATACTTAC-TTA-ATACATTAACTTACATAACTTACATAA-CTTACATAATAC
*
15557975 -ATAACTTACAACTTACATAACATACATTACTTTGATAACTTACATAAGTTACATAA
63 AATAACTTACAACTTACATAACATACATTAATTTGATAACTTACATAAGTTACATAA
*
15558031 TACACAACTTACATAGCTTACTTAATACA-TGACTTACATAACTTA
1 TACACAACTTACATA-CTTACTTAATACATTAACTTACATAACTTA
15558076 TACACGTTCA
Statistics
Matches: 142, Mismatches: 14, Indels: 17
0.82 0.08 0.10
Matches are distributed among these distances:
117 2 0.01
118 81 0.57
119 8 0.06
120 6 0.04
121 41 0.29
122 4 0.03
ACGTcount: A:0.45, C:0.20, G:0.03, T:0.32
Consensus pattern (119 bp):
TACACAACTTACATACTTACTTAATACATTAACTTACATAACTTACATAACTTACATAATACAAT
AACTTACAACTTACATAACATACATTAATTTGATAACTTACATAAGTTACATAA
Found at i:15558072 original size:59 final size:59
Alignment explanation
Indices: 15557816--15558075 Score: 326
Period size: 59 Copynumber: 4.4 Consensus size: 59
15557806 AACCTACATA
* *
15557816 ATACATAACTTACATAACTTACATAACTTACATAATACATAATAACTTACAACTTACATAAC
1 ATACATTACTTACATAACTTACATAAGTTACATAATAC---ATAACTTACAACTTACATAAC
* **
15557878 ATACATTAATTTGATAACTTACATAAGTTACATAATACATAACTTACAACTTACATAAC
1 ATACATTACTTACATAACTTACATAAGTTACATAATACATAACTTACAACTTACATAAC
* *** *
15557937 ATACATTAATTTGGTAACTTACATAAGCTACATAATACATAACTTACAACTTACATAAC
1 ATACATTACTTACATAACTTACATAAGTTACATAATACATAACTTACAACTTACATAAC
** * *
15557996 ATACATTACTTTGATAACTTACATAAGTTACATAATACACAACTTACATAGCTTAC-TTA-
1 ATACATTACTTACATAACTTACATAAGTTACATAATACATAACTTACA-A-CTTACATAAC
*
15558055 ATACATGACTTACATAACTTA
1 ATACATTACTTACATAACTTA
15558076 TACACGTTCA
Statistics
Matches: 181, Mismatches: 15, Indels: 7
0.89 0.07 0.03
Matches are distributed among these distances:
59 140 0.77
60 3 0.02
61 5 0.03
62 33 0.18
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.33
Consensus pattern (59 bp):
ATACATTACTTACATAACTTACATAAGTTACATAATACATAACTTACAACTTACATAAC
Found at i:15564585 original size:16 final size:16
Alignment explanation
Indices: 15564564--15564602 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
15564554 AATTATGGAG
*
15564564 ATATATGAAAGCATGT
1 ATATATAAAAGCATGT
*
15564580 ATATATAAAAGTATGT
1 ATATATAAAAGCATGT
15564596 ATATATA
1 ATATATA
15564603 TGTATACATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.49, C:0.03, G:0.13, T:0.36
Consensus pattern (16 bp):
ATATATAAAAGCATGT
Found at i:15564588 original size:34 final size:34
Alignment explanation
Indices: 15564540--15564604 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
15564530 ATATATATAT
*
15564540 GCATATATACATAAAATTATGGAGATATATGAAA
1 GCATATATACATAAAAGTATGGAGATATATGAAA
* * * *
15564574 GCATGTATATATAAAAGTATGTATATATATG
1 GCATATATACATAAAAGTATGGAGATATATG
15564605 TATACATTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.46, C:0.05, G:0.15, T:0.34
Consensus pattern (34 bp):
GCATATATACATAAAAGTATGGAGATATATGAAA
Found at i:15566710 original size:41 final size:43
Alignment explanation
Indices: 15566565--15567338 Score: 239
Period size: 44 Copynumber: 17.7 Consensus size: 43
15566555 GGTGGCTTAA
* * * ** *
15566565 ATCTACTTCACTATAATCTCAGGGAGATAAGATCTCTGGCTT-CA
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGA-C-CTGAATTGCG
* * *
15566609 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCG
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGACCTG-AA-T-TGCG
15566655 ATCTACTCCACTGTAACCTCAGGGAGATAAGACCTG-A-TGCG
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGACCTGAATTGCG
** * * ** ***
15566696 ATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGA-CCTGAATTGCG
** * * ** ** *
15566740 ATCCGCTCCACTATAACTTCAGGGAGATTGGATAGTGTATT-CG
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGA-CCTGAATTGCG
** * * * ** *
15566783 ATCTGTTCCGCTATAATCTCAGGGAGATAAGATCTCTGGCTT-CA
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGA-C-CTGAATTGCG
* * * *
15566827 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTAAAATTCTTCG
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGACCT-GAA-T-TGCG
* *
15566873 GTCTACTCCACTGTAACCTCAGGGAGATAAGACCTG-A-TGTG
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGACCTGAATTGCG
*** * * * * ** ***
15566914 ATCTACTTTGCTGTAACTTAAGAGAGATAAAATCCTTTATTTTA
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGA-CCTGAATTGCG
** * * * * ** **
15566958 ATCCGCTCCACTATAACTTTAGGGAGAT-AGA-ATAGTGTCTTTG
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGACCT-GAAT-TGCG
* ** * ** *
15567001 ATCTGCTCTGCTGTAATCTCAGGGAGATAAGATCTCTGGCTT-CA
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGA-C-CTGAATTGCG
* * *
15567045 ATTTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATT-CTTTG
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGACCTG-AATTGC---G
* *
15567091 GTCTACTCCACTGTAACCTCAAGGAGATAAGACCTG-A-TGCG
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGACCTGAATTGCG
** * * * ** ***
15567132 ATCTACTCTGCTGTAACTTTAGAGAGATAAGATCCTTTATTTTA
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGA-CCTGAATTGCG
** * * * ** *
15567176 ATCTGTTCCACTGTAACTTTAGGGAGATATGATAGTGTATT-CG
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGA-CCTGAATTGCG
* ** * * ** *
15567219 ATCTGCTCTGCTGTAATCTTAGGGAGATAAGATCTCTGGCTT-CA
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGA-C-CTGAATTGCG
* ** *
15567263 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTT-CA
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGA-C-CTGAATTGCG
*
15567307 ATCTGCTCCACTGTAACCTCAGGGAGATAAGA
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGA
15567339 TTTGAAATAT
Statistics
Matches: 555, Mismatches: 145, Indels: 60
0.73 0.19 0.08
Matches are distributed among these distances:
41 84 0.15
42 19 0.03
43 86 0.15
44 261 0.47
45 3 0.01
46 101 0.18
47 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (43 bp):
ATCTACTCCACTGTAACCTCAGGGAGATAAGACCTGAATTGCG
Found at i:15566815 original size:218 final size:218
Alignment explanation
Indices: 15566575--15567338 Score: 1230
Period size: 218 Copynumber: 3.5 Consensus size: 218
15566565 ATCTACTTCA
15566575 CTATAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAG
1 CTATAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAG
15566640 ATCTGAAATTCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCT
66 ATCTGAAATTCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCT
* *
15566705 GCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTATAACTTCAGGGAGATTG
131 GCTGTAACTTAAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTATAACTTTAGGGAGATTG
* *
15566770 GATAGTGTATTCGATCTGTTCCG
196 GATAGTGTATTCGATCTGCTCTG
15566793 CTATAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAG
1 CTATAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAG
* * * *
15566858 ATCTAAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGTGATCTACTTT
66 ATCTGAAATTCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCT
* *
15566923 GCTGTAACTTAAGAGAGATAAAATCCTTTATTTTAATCCGCTCCACTATAACTTTAGGGAGATAG
131 GCTGTAACTTAAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTATAACTTTAGGGAGATTG
* * *
15566988 AATAGTGTCTTTGATCTGCTCTG
196 GATAGTGTATTCGATCTGCTCTG
* *
15567011 CTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATTTGCTCCACTGTAACCTCAGGGAGATAAG
1 CTATAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAG
* * *
15567076 ATCTGAAATTCTTTGGTCTACTCCACTGTAACCTCAAGGAGATAAGACCTGATGCGATCTACTCT
66 ATCTGAAATTCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCT
* * * *
15567141 GCTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCTGTTCCACTGTAACTTTAGGGAGATAT
131 GCTGTAACTTAAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTATAACTTTAGGGAGAT-T
15567206 -GATAGTGTATTCGATCTGCTCTG
195 GGATAGTGTATTCGATCTGCTCTG
* *
15567229 CTGTAATCTTAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAG
1 CTATAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAG
* * * *
15567294 ATCT---CTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGA
66 ATCTGAAAT-TCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGA
15567339 TTTGAAATAT
Statistics
Matches: 506, Mismatches: 38, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
215 1 0.00
216 32 0.06
218 473 0.93
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (218 bp):
CTATAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAG
ATCTGAAATTCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCT
GCTGTAACTTAAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTATAACTTTAGGGAGATTG
GATAGTGTATTCGATCTGCTCTG
Found at i:15567141 original size:131 final size:130
Alignment explanation
Indices: 15567000--15567346 Score: 344
Period size: 131 Copynumber: 2.6 Consensus size: 130
15566990 TAGTGTCTTT
*
15567000 GATCTGCTCTGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATTTGCTCCACTGTAACCTC
1 GATCTGCTCTGCTGTAA-CTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTC
*
15567065 AGGGAGATAAGATCTGAAATTCTTTGGTCTACTCCACTGTAACCTCAAGGAGATAAGA-C-CT-G
65 AGGGAGATAAGATCTGAAATTC---GATCTACTCCACTGTAACCTCAAGGAGATAAGATCTCTGG
15567127 ATGC
127 ATGC
* * * *** * * *
15567131 GATCTACTCTGCTGTAACTTTAGAGAGATAAGATC-CTTTATTTTAATCTGTTCCACTGTAACTT
1 GATCTGCTCTGCTGTAAC-TCAGGGAGATAAGATCTC-TGGCTTCAATCTGCTCCACTGTAACCT
* * * * * ** * * * *
15567195 TAGGGAGATATGATAGTG-TATTCGATCTGCTCTGCTGTAATCTTAGGGAGATAAGATCTCTGGC
64 CAGGGAGATAAGAT-CTGAAATTCGATCTACTCCACTGTAACCTCAAGGAGATAAGATCTCTGGA
*
15567259 TTC
128 TGC
* **
15567262 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTC
1 GATCTGCTCTGCTGTAA-CTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTC
*
15567327 AGGGAGATAAGATTTGAAAT
65 AGGGAGATAAGATCTGAAAT
15567347 ATTCACTGAT
Statistics
Matches: 168, Mismatches: 39, Indels: 18
0.75 0.17 0.08
Matches are distributed among these distances:
128 26 0.15
129 1 0.01
130 6 0.04
131 131 0.78
132 4 0.02
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.32
Consensus pattern (130 bp):
GATCTGCTCTGCTGTAACTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCA
GGGAGATAAGATCTGAAATTCGATCTACTCCACTGTAACCTCAAGGAGATAAGATCTCTGGATGC
Found at i:15567266 original size:87 final size:87
Alignment explanation
Indices: 15567096--15567291 Score: 220
Period size: 87 Copynumber: 2.3 Consensus size: 87
15567086 CTTTGGTCTA
* * ** *
15567096 CTCCACTGTAACCTCAAGGAGATAAGA-CCTG-ATGCGATCTACTCTGCTGTAACTTTAGAGAGA
1 CTCCACTGTAACCTCAGGGAGATATGATAGTGTATTCGATCTACTCTGCTGTAACTTTAGAGAGA
* * *
15567159 TAAGATCCTTTATTTTAATCTG
66 TAAGATCCTTGACTTCAATCTG
* * * * *
15567181 TTCCACTGTAACTTTAGGGAGATATGATAGTGTATTCGATCTGCTCTGCTGTAA-TCTTAGGGAG
1 CTCCACTGTAACCTCAGGGAGATATGATAGTGTATTCGATCTACTCTGCTGTAACT-TTAGAGAG
*
15567245 ATAAGAT-CTCTGGCTTCAATCTG
65 ATAAGATCCT-TGACTTCAATCTG
15567268 CTCCACTGTAACCTCAGGGAGATA
1 CTCCACTGTAACCTCAGGGAGATA
15567292 AGATCTCTGG
Statistics
Matches: 90, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
85 22 0.24
86 5 0.06
87 63 0.70
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.32
Consensus pattern (87 bp):
CTCCACTGTAACCTCAGGGAGATATGATAGTGTATTCGATCTACTCTGCTGTAACTTTAGAGAGA
TAAGATCCTTGACTTCAATCTG
Found at i:15568577 original size:6 final size:7
Alignment explanation
Indices: 15568563--15568596 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
15568553 TTAGCCTCTC
15568563 CATTTTT
1 CATTTTT
15568570 CA-TTTT
1 CATTTTT
15568576 CATTTTT
1 CATTTTT
15568583 CATTTTT
1 CATTTTT
15568590 CATTTTT
1 CATTTTT
15568597 TTGACTCAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (7 bp):
CATTTTT
Found at i:15569434 original size:60 final size:60
Alignment explanation
Indices: 15569370--15569501 Score: 157
Period size: 60 Copynumber: 2.2 Consensus size: 60
15569360 TTCATCTAGA
* * *
15569370 TTTC-TCTTTTTTCATTCTTCTTT-CTTTTTCTCATTTTTATTTTGA-TCTTGATTTTGATTT
1 TTTCTTCTTTCTTC-TTCTTCTTTGATTTTT-TCATTTTCATTTTGACT-TTGATTTTGATTT
* *
15569430 TTTCTTCTTTCTTCTTTTTTTTTGATTTTTTCATTTTCATTTTGACTTTGATTTTGA-TT
1 TTTCTTCTTTCTTCTTCTTCTTTGATTTTTTCATTTTCATTTTGACTTTGATTTTGATTT
15569489 TTTCTT-TTTCTTC
1 TTTCTTCTTTCTTC
15569502 CATTTTTTGA
Statistics
Matches: 64, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
58 7 0.11
59 8 0.12
60 35 0.55
61 14 0.22
ACGTcount: A:0.09, C:0.14, G:0.05, T:0.71
Consensus pattern (60 bp):
TTTCTTCTTTCTTCTTCTTCTTTGATTTTTTCATTTTCATTTTGACTTTGATTTTGATTT
Found at i:15569444 original size:54 final size:53
Alignment explanation
Indices: 15569376--15569484 Score: 132
Period size: 54 Copynumber: 2.0 Consensus size: 53
15569366 TAGATTTCTC
* *
15569376 TTTTTTCATTCTTCTTTCTTTTTCTCA-TTTTT-ATTTTGATCTTGATTTTGATT
1 TTTTTTCATTCTTCTTT-TTTTT-TCATTTTTTCATTTTCATCTTGACTTTGATT
* * *
15569429 TTTTCTTCTTTCTTCTTTTTTTTTGATTTTTTCATTTTCATTTTGACTTTGATT
1 TTTT-TTCATTCTTCTTTTTTTTTCATTTTTTCATTTTCATCTTGACTTTGATT
15569483 TT
1 TT
15569485 GATTTTTCTT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
52 2 0.04
53 14 0.29
54 32 0.67
ACGTcount: A:0.10, C:0.13, G:0.06, T:0.72
Consensus pattern (53 bp):
TTTTTTCATTCTTCTTTTTTTTTCATTTTTTCATTTTCATCTTGACTTTGATT
Found at i:15570615 original size:12 final size:12
Alignment explanation
Indices: 15570598--15570624 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
15570588 CATTTGGGAT
15570598 AAGGAGGTTGTA
1 AAGGAGGTTGTA
15570610 AAGGAGGTTGTA
1 AAGGAGGTTGTA
15570622 AAG
1 AAG
15570625 TAACGAGGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.41, T:0.22
Consensus pattern (12 bp):
AAGGAGGTTGTA
Found at i:15573537 original size:13 final size:13
Alignment explanation
Indices: 15573519--15573544 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15573509 GAATCATAAA
15573519 ATATAAAATACAT
1 ATATAAAATACAT
15573532 ATATAAAATACAT
1 ATATAAAATACAT
15573545 GTTTTAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
ATATAAAATACAT
Found at i:15573710 original size:20 final size:19
Alignment explanation
Indices: 15573657--15573711 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
15573647 AGGGTACGTG
15573657 TATATATATAT-ATATAGA
1 TATATATATATAATATAGA
* * *
15573675 TAGATCATAAAAAATATAGA
1 TATAT-ATATATAATATAGA
15573695 TATTATATATATAATAT
1 TA-TATATATATAATAT
15573712 GAAAACGCAT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
18 4 0.14
19 4 0.14
20 18 0.64
21 2 0.07
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (19 bp):
TATATATATATAATATAGA
Found at i:15573814 original size:5 final size:5
Alignment explanation
Indices: 15573804--15573828 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
15573794 AATAATTTTT
15573804 ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA
15573829 CAATAACAAA
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:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:15574986 original size:21 final size:21
Alignment explanation
Indices: 15574960--15574999 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
15574950 CAGCAGCTTA
*
15574960 AAGCAGATGCAGCAGCGAGAG
1 AAGCAGAGGCAGCAGCGAGAG
*
15574981 AAGCAGAGGCTGCAGCGAG
1 AAGCAGAGGCAGCAGCGAG
15575000 GGAATTGGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.20, G:0.40, T:0.05
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCGAGAG
Found at i:15575809 original size:43 final size:43
Alignment explanation
Indices: 15575334--15575802 Score: 566
Period size: 43 Copynumber: 10.9 Consensus size: 43
15575324 CAAAATTAGC
** * * * *
15575334 GGCGTTTTTTGGGTAAGCACCGCTAAAGAACACGGCCTATAGT
1 GGCGTTTTTTGTCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * * *
15575377 GGCATTTTTCGTATACGCGCCGCTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTGTCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* *
15575420 GGCGTTTTTTGTCTAAGCGCCGCTAAAGACCATGGTATATAGA
1 GGCGTTTTTTGTCTAAGCGCCGCTAAAGACCATGGTCTATAGT
*
15575463 GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTGTCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * *
15575506 GGCGTTTTTTGTCTAAACGCCGCTAAAGACAATGGCCTATAGT
1 GGCGTTTTTTGTCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * *
15575549 GGC-TTTTTTTTCCAAGCGCCGCTAAAGACCAGGGTCTATAGT
1 GGCGTTTTTTGTCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * * *
15575591 GGCGTTTTTTGTCCAATCGCCGCTAAAGAACACGGTCTATAGT
1 GGCGTTTTTTGTCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * *
15575634 GGCGCTTTTTGTCCAAGCGCCGCTAAAGACCATGGTTTATAGT
1 GGCGTTTTTTGTCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * * *
15575677 GGCGTTTTATGTAC-AAACGCTGCTAAAAGACCATGATCTATAGT
1 GGCGTTTTTTGT-CTAAGCGCCGCT-AAAGACCATGGTCTATAGT
* * * *
15575721 GGCGTTTTTTGTAT-AGCGCCGCGAAAGACTATGGTCTATAGC
1 GGCGTTTTTTGTCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * *
15575763 GGCGTGTTTTGTGTAAGCGCCGCTAAAGACCATAGTCTAT
1 GGCGTTTTTTGTCTAAGCGCCGCTAAAGACCATGGTCTAT
15575803 TGCGGCGCTT
Statistics
Matches: 365, Mismatches: 56, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
42 64 0.18
43 272 0.75
44 29 0.08
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (43 bp):
GGCGTTTTTTGTCTAAGCGCCGCTAAAGACCATGGTCTATAGT
Found at i:15578595 original size:25 final size:25
Alignment explanation
Indices: 15578561--15578613 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
15578551 ATAACATCAC
15578561 ACATTTTTTACACTCTTTATTGTGG
1 ACATTTTTTACACTCTTTATTGTGG
15578586 ACATTTTTTACACTCTTTATTGTGG
1 ACATTTTTTACACTCTTTATTGTGG
15578611 ACA
1 ACA
15578614 AAATCAAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.23, C:0.17, G:0.11, T:0.49
Consensus pattern (25 bp):
ACATTTTTTACACTCTTTATTGTGG
Found at i:15581862 original size:125 final size:124
Alignment explanation
Indices: 15581570--15581939 Score: 391
Period size: 125 Copynumber: 3.0 Consensus size: 124
15581560 TTAGGTTTTT
* * * **
15581570 TAGGTCCTGTAAGAAAGAATTTCGAGTTGACGTTTCTGAGAAAATAGTATAAAATCGCTTTTACC
1 TAGGTCCTG-AAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCAACC
* * * * * * *
15581635 AGGATGCTTTATGAGAAGAATTTGTTAAATCGCGTCCA----G---CGCTTTTGCTATAG
65 AGGATGCTTTACGAGAAGAATGTCTAAAATCACGCCCACGTGGACACGCTTTTGCTACAG
* *
15581688 TAGGTCCTGAAAAAATTATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAT-GCTTCAAGC
1 TAGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT-AAAATCGCTTCAACC
* *
15581752 AGGATGCTATT-TGAGAAGAATGTCTAAAATCATG-CCATCGTGGACACGCTTTTGCTACAG
65 AGGATGCT-TTACGAGAAGAATGTCTAAAATCACGCCCA-CGTGGACACGCTTTTGCTACAG
* * * * *
15581812 TTGGTCTTGGAAAAAATAATTTCGAGTTGATGTTTCTGAGCAAATTGTATAAAATCGCTTCTACC
1 TAGGTCCT-GAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCAACC
* * * * *
15581877 AGGATGCTTTACGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
65 AGGATGCTTTACGAGAAGAATGTCTAAAATCACGCCCACGTGGACACGCTTTTGCTACAG
15581937 TAG
1 TAG
15581940 CATGTTTGGG
Statistics
Matches: 210, Mismatches: 28, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
116 3 0.01
117 68 0.32
118 16 0.08
121 1 0.00
124 26 0.12
125 93 0.44
126 3 0.01
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (124 bp):
TAGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCAACCA
GGATGCTTTACGAGAAGAATGTCTAAAATCACGCCCACGTGGACACGCTTTTGCTACAG
Found at i:15583485 original size:25 final size:25
Alignment explanation
Indices: 15583447--15583593 Score: 180
Period size: 25 Copynumber: 6.1 Consensus size: 25
15583437 GGCGTTGGAG
*
15583447 AATAAACTTATATTTTATTACATCA
1 AATAAACTTCTATTTTATTACATCA
*
15583472 AATAAACTTCTATTATATTACATCA
1 AATAAACTTCTATTTTATTACATCA
** *
15583497 AAT-AA-TATC-A--AAATAAC-TCA
1 AATAAACT-TCTATTTTATTACATCA
* *
15583517 AAAAAATTTCTATTTTATTACATCA
1 AATAAACTTCTATTTTATTACATCA
15583542 AATAAACTTCTATTTTATTACATCA
1 AATAAACTTCTATTTTATTACATCA
15583567 AATAAACTTCTATTTTATTACATCA
1 AATAAACTTCTATTTTATTACATCA
15583592 AA
1 AA
15583594 AAATATCAAA
Statistics
Matches: 105, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
20 5 0.05
21 9 0.09
22 2 0.02
23 2 0.02
24 8 0.08
25 79 0.75
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.40
Consensus pattern (25 bp):
AATAAACTTCTATTTTATTACATCA
Found at i:15584048 original size:18 final size:18
Alignment explanation
Indices: 15584025--15584064 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
15584015 GACTCGGAAA
* *
15584025 AGGATAGATATAAGGGTT
1 AGGATACATATAAGGGCT
15584043 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
15584061 AGGA
1 AGGA
15584065 AACGCACCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.33, T:0.23
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:15584725 original size:7 final size:7
Alignment explanation
Indices: 15584715--15584747 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
15584705 TTATATACAT
15584715 AATACTA
1 AATACTA
15584722 AATACTA
1 AATACTA
15584729 AATACTA
1 AATACTA
15584736 AATACTA
1 AATACTA
15584743 AATAC
1 AATAC
15584748 CAATCGACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:15584954 original size:20 final size:20
Alignment explanation
Indices: 15584917--15584954 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
15584907 TTTATTTTTA
*
15584917 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
15584937 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
15584955 TACCTCATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:15585993 original size:11 final size:11
Alignment explanation
Indices: 15585979--15586055 Score: 63
Period size: 11 Copynumber: 6.9 Consensus size: 11
15585969 TTAAATATGG
15585979 ATTTGAGAGAA
1 ATTTGAGAGAA
*
15585990 ATTTG-GAAGGA
1 ATTTGAG-AGAA
15586001 ATTTGAGAGTAA
1 ATTTGAGAG-AA
15586013 A-TTGAGAGGAA
1 ATTTGAGA-GAA
*
15586024 ATTT-ACAGGAA
1 ATTTGAGA-GAA
15586035 ATTT-AGAGGAA
1 ATTTGAGA-GAA
15586046 ATTTGAGAGA
1 ATTTGAGAGA
15586056 GGATTAGTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
10 1 0.02
11 46 0.82
12 9 0.16
ACGTcount: A:0.43, C:0.01, G:0.29, T:0.27
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:15586022 original size:22 final size:22
Alignment explanation
Indices: 15585979--15586055 Score: 79
Period size: 22 Copynumber: 3.5 Consensus size: 22
15585969 TTAAATATGG
15585979 ATTTGAGAGAAATTTG-GAAGG-A
1 ATTTGAGAGAAA-TTGAG-AGGAA
15586001 ATTTGAGAGTAAATTGAGAGGAA
1 ATTTGAGAG-AAATTGAGAGGAA
* *
15586024 ATTT-ACAGGAAATTTAGAGGAA
1 ATTTGAGA-GAAATTGAGAGGAA
15586046 ATTTGAGAGA
1 ATTTGAGAGA
15586056 GGATTAGTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
22 35 0.74
23 12 0.26
ACGTcount: A:0.43, C:0.01, G:0.29, T:0.27
Consensus pattern (22 bp):
ATTTGAGAGAAATTGAGAGGAA
Found at i:15586034 original size:33 final size:34
Alignment explanation
Indices: 15585979--15586054 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 34
15585969 TTAAATATGG
*
15585979 ATTTGAGA-GAAATTTGGAAGG-AATTTGAGAGTAA
1 ATTTGAGAGGAAATTT-GAAGGAAATTT-AGAGGAA
15586013 A-TTGAGAGGAAATTT-ACAGGAAATTTAGAGGAA
1 ATTTGAGAGGAAATTTGA-AGGAAATTTAGAGGAA
15586046 ATTTGAGAG
1 ATTTGAGAG
15586055 AGGATTAGTT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
32 1 0.03
33 16 0.43
34 20 0.54
ACGTcount: A:0.42, C:0.01, G:0.29, T:0.28
Consensus pattern (34 bp):
ATTTGAGAGGAAATTTGAAGGAAATTTAGAGGAA
Found at i:15586628 original size:21 final size:22
Alignment explanation
Indices: 15586585--15586644 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 22
15586575 AAATTGCGCA
*
15586585 AGAATATAATAAAAAGGAAAAAT
1 AGAATAAAATAAAAAGG-AAAAT
15586608 AGAATAAAATAAAAAGG-AAAT
1 AGAATAAAATAAAAAGGAAAAT
* *
15586629 AGGATGAAATTAAAAA
1 AGAAT-AAAATAAAAA
15586645 AGGGTAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 8 0.24
22 9 0.27
23 16 0.48
ACGTcount: A:0.68, C:0.00, G:0.15, T:0.17
Consensus pattern (22 bp):
AGAATAAAATAAAAAGGAAAAT
Found at i:15587883 original size:94 final size:93
Alignment explanation
Indices: 15587765--15588079 Score: 290
Period size: 94 Copynumber: 3.4 Consensus size: 93
15587755 AGTTTCATCT
* * * * * * * *
15587765 TACTCCATTGCAACTTCAAAGAGATAAGATTTGTTGTTATAGTTTCAATCCAATCCACTACAACT
1 TACTCCACTGCAAATTCAAGGAGATAAGATTCG-TGTTATAGATTCAATCTAACCCACTGCAACT
* * *
15587830 TCAGAGGTATATGATTTCTAGCTTCAATC
65 TCAGGGGTATAAGATTTGTAGCTTCAATC
* * *
15587859 TACTCCACTGTAAATTCAAGGAGATAAGATTCG-GTATAGTAGAATCAATCTTACCCACTGCAAC
1 TACTCCACTGCAAATTCAAGGAGATAAGATTCGTGT-TA-TAGATTCAATCTAACCCACTGCAAC
* *
15587923 TTCAGGGGTATAAGATTTGTAGTTTCAATT
64 TTCAGGGGTATAAGATTTGTAGCTTCAATC
* * * * * ** * * * *
15587953 TGCTCCACTGCAATTTTAGGGAGATAAGATTCGCTATGGTAGATCCAATCTGAGCCACTGTAACT
1 TACTCCACTGCAAATTCAAGGAGATAAGATTCG-TGTTATAGATTCAATCTAACCCACTGCAACT
* *
15588018 TTAGGGGTATAGGATTTGTAGCTTCAATC
65 TCAGGGGTATAAGATTTGTAGCTTCAATC
* * * *
15588047 TACTCCACTGCAATTTTAGGGAGATAAAATTCG
1 TACTCCACTGCAAATTCAAGGAGATAAGATTCG
15588080 CTATGGTAGA
Statistics
Matches: 182, Mismatches: 35, Indels: 8
0.81 0.16 0.04
Matches are distributed among these distances:
92 2 0.01
93 2 0.01
94 177 0.97
96 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (93 bp):
TACTCCACTGCAAATTCAAGGAGATAAGATTCGTGTTATAGATTCAATCTAACCCACTGCAACTT
CAGGGGTATAAGATTTGTAGCTTCAATC
Found at i:15587980 original size:44 final size:44
Alignment explanation
Indices: 15587913--15588450 Score: 186
Period size: 44 Copynumber: 11.6 Consensus size: 44
15587903 TCAATCTTAC
* * *
15587913 CCACTGCAACTTCAGGGGTATAAGATTTGTAGTTTCAATTTGCT
1 CCACTGCAACTTTAGGGGTATAAGATTTGTAGATTCAATCTGCT
* * **
15587957 CCACTGCAATTTTAGGGAG-ATAAGATTCGCTATGGTAGATCCAATCTGAG
1 CCACTGCAACTTTAGGG-GTATAAGA-T---T-T-GTAGATTCAATCTGCT
* * * *
15588007 CCACTGTAACTTTAGGGGTATAGGATTTGTAGCTTCAATCTACT
1 CCACTGCAACTTTAGGGGTATAAGATTTGTAGATTCAATCTGCT
* * * *
15588051 CCACTGCAATTTTAGGGAG-ATAAAATTCGCTATGGTAGATTTAGTAC-G-T
1 CCACTGCAACTTTAGGG-GTATAAGA-T---T-T-GTAGATTCAAT-CTGCT
* * **
15588100 CTCACTGCAACTTTAGGGGTATAGGATTTGTTGTATTTTCAATCCAAC-
1 C-CACTGCAACTTTAGGGGTATAAGATTTGTAG-A--TTCAAT-CTGCT
* * *
15588148 CCACTACAACTTCAGGGGTATAAGATTTGTAGCTTCAATCTAG-T
1 CCACTGCAACTTTAGGGGTATAAGATTTGTAGATTCAATCT-GCT
* * *
15588192 CCACTGCAACTTCAGGGAG-ATAAGATTCACTATAGTAGAATT-ACTTTGACT
1 CCACTGCAACTTTAGGG-GTATAAGA-T---T-T-GTAG-ATTCAATCTG-CT
** * * * * * **
15588243 -CGTTACAACTTCAGGGGTATAAAAATTGTAGCTTCAATCTAAT
1 CCACTGCAACTTTAGGGGTATAAGATTTGTAGATTCAATCTGCT
* * *
15588286 CCACTGCAACTTTAGGGATATAGGATTTGTAGCTTC-ATCTTGCT
1 CCACTGCAACTTTAGGGGTATAAGATTTGTAGATTCAATC-TGCT
* * * **
15588330 CTACTGCAACTTTAGGGAG-ATAAGATTTGCTATCATAGTTTCATTCCAAC-
1 CCACTGCAACTTTAGGG-GTATAAGATTTG------TAGATTCAAT-CTGCT
* *
15588380 CCACTGCAACTTTAGGGGTATAATATTTGTAGCTTC-ATCTTGCT
1 CCACTGCAACTTTAGGGGTATAAGATTTGTAGATTCAATC-TGCT
* * *
15588424 CTACTGTAACTTCAGGGAG-ATAAGATT
1 CCACTGCAACTTTAGGG-GTATAAGATT
15588451 CACCCTCATA
Statistics
Matches: 363, Mismatches: 79, Indels: 104
0.66 0.14 0.19
Matches are distributed among these distances:
42 1 0.00
43 9 0.02
44 170 0.47
45 11 0.03
46 3 0.01
47 32 0.09
48 4 0.01
49 12 0.03
50 114 0.31
51 6 0.02
52 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (44 bp):
CCACTGCAACTTTAGGGGTATAAGATTTGTAGATTCAATCTGCT
Found at i:15588080 original size:94 final size:93
Alignment explanation
Indices: 15587819--15588130 Score: 365
Period size: 94 Copynumber: 3.3 Consensus size: 93
15587809 TCAATCCAAT
* * * * * * * *
15587819 CCACTACAACTTCAGAGGTATATGATTTCTAGCTTCAATCTACTCCACTGTAAATTCAAGGAGAT
1 CCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTACTCCACTGCAATTTTAGGGAGAT
* * *
15587884 AAGATTCGGTATAGTAGAATCAATCTTAC
66 AAGATTCGCTATGGTAG-ATCAATCTGAC
* * * *
15587913 CCACTGCAACTTCAGGGGTATAAGATTTGTAGTTTCAATTTGCTCCACTGCAATTTTAGGGAGAT
1 CCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTACTCCACTGCAATTTTAGGGAGAT
*
15587978 AAGATTCGCTATGGTAGATCCAATCTGAG
66 AAGATTCGCTATGGTAGAT-CAATCTGAC
* *
15588007 CCACTGTAACTTTAGGGGTATAGGATTTGTAGCTTCAATCTACTCCACTGCAATTTTAGGGAGAT
1 CCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTACTCCACTGCAATTTTAGGGAGAT
* * * *
15588072 AAAATTCGCTATGGTAGATTTAGTAC-GTC
66 AAGATTCGCTATGGTAGA-TCAAT-CTGAC
* *
15588101 TCACTGCAACTTTAGGGGTATAGGATTTGT
1 CCACTGCAACTTCAGGGGTATAGGATTTGT
15588131 TGTATTTTCA
Statistics
Matches: 187, Mismatches: 28, Indels: 6
0.85 0.13 0.03
Matches are distributed among these distances:
93 2 0.01
94 183 0.98
95 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (93 bp):
CCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTACTCCACTGCAATTTTAGGGAGAT
AAGATTCGCTATGGTAGATCAATCTGAC
Found at i:15588167 original size:141 final size:138
Alignment explanation
Indices: 15588014--15588362 Score: 394
Period size: 141 Copynumber: 2.5 Consensus size: 138
15588004 GAGCCACTGT
* *
15588014 AACTTTAGGGGTATAGGATTTGTAGCTTCAATCTACTCCACTGCAATTTTAGGGAGATAAAATTC
1 AACTTTAGGGGTATAGGATTTGTAGCTTCAATCTACTCCACTGCAACTTTAGGGAGATAAGATTC
* * * * * * *** **
15588079 GCTATGGTAGATTTAGTACGTCTCACTGCAACTTTAGGGGTATAGGATTTGTTGTATTTTCAATC
66 GCTATAGTAGAATTACTACGACTCACTACAACTTCAGGGGTATA--A-AAATTGTAGCTTCAATC
15588144 CAACCCACTAC
128 CAACCCACTAC
* * * *
15588155 AACTTCAGGGGTATAAGATTTGTAGCTTCAATCTAGTCCACTGCAACTTCAGGGAGATAAGATTC
1 AACTTTAGGGGTATAGGATTTGTAGCTTCAATCTACTCCACTGCAACTTTAGGGAGATAAGATTC
* ** ** *
15588220 ACTATAGTAGAATTACTTTGACTCGTTACAACTTCAGGGGTATAAAAATTGTAGCTTCAATCTAA
66 GCTATAGTAGAATTACTACGACTCACTACAACTTCAGGGGTATAAAAATTGTAGCTTCAATCCAA
* *
15588285 TCCACTGC
131 CCCACTAC
* * *
15588293 AACTTTAGGGATATAGGATTTGTAGCTTC-ATCTTGCTCTACTGCAACTTTAGGGAGATAAGATT
1 AACTTTAGGGGTATAGGATTTGTAGCTTCAATC-TACTCCACTGCAACTTTAGGGAGATAAGATT
*
15588357 TGCTAT
65 CGCTAT
15588363 CATAGTTTCA
Statistics
Matches: 173, Mismatches: 34, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
137 3 0.02
138 77 0.45
139 1 0.01
141 92 0.53
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.34
Consensus pattern (138 bp):
AACTTTAGGGGTATAGGATTTGTAGCTTCAATCTACTCCACTGCAACTTTAGGGAGATAAGATTC
GCTATAGTAGAATTACTACGACTCACTACAACTTCAGGGGTATAAAAATTGTAGCTTCAATCCAA
CCCACTAC
Found at i:15588435 original size:138 final size:137
Alignment explanation
Indices: 15588007--15588450 Score: 396
Period size: 138 Copynumber: 3.2 Consensus size: 137
15587997 CCAATCTGAG
* * * * * *
15588007 CCACTGTAACTTTAGGGGTATAGGATTTGTAGCTTCAATC-TACTCCACTGCAATTTTAGGGAGA
1 CCACTGCAACTTCAGGGATATAAGATTTGTAGCTTCAATCTTGCTCCACTGCAACTTTAGGGAGA
* * * * * *
15588071 TAAAATTCGCTATGGTAGATTTAGTACGTCTCACTGCAACTTTAGGGGTATAGGATTTGTTGTAT
66 TAAGATTCGCTAT-ATAGATTTA-TTCGACTCACTGCAACTTTAGGGGTATA--ATAT-TTGTAG
* *
15588136 TTTCAATCCAAC-
126 CTTCAAT-CTACT
* * * *
15588148 CCACTACAACTTCAGGGGTATAAGATTTGTAGCTTCAATCTAG-TCCACTGCAACTTCAGGGAGA
1 CCACTGCAACTTCAGGGATATAAGATTTGTAGCTTCAATCTTGCTCCACTGCAACTTTAGGGAGA
* * * ** * * * *
15588212 TAAGATTCACTATAGTAGAATTACTTTGACTCGTTACAACTTCAGGGGTATAAAAATTGTAGCTT
66 TAAGATTCGCTATA-TAGATTTA-TTCGACTCACTGCAACTTTAGGGGTATAATATTTGTAGCTT
*
15588277 CAATCTAAT
129 CAATCTACT
* * *
15588286 CCACTGCAACTTTAGGGATATAGGATTTGTAGCTTC-ATCTTGCTCTACTGCAACTTTAGGGAGA
1 CCACTGCAACTTCAGGGATATAAGATTTGTAGCTTCAATCTTGCTCCACTGCAACTTTAGGGAGA
* * *
15588350 TAAGATTTGCTATCATAG-TTTCATTCCAACCCACTGCAACTTTAGGGGTATAATATTTGTAGCT
66 TAAGATTCGCTAT-ATAGATTT-ATT-CGACTCACTGCAACTTTAGGGGTATAATATTTGTAGCT
*
15588414 TC-ATCTTGCT
128 TCAATC-TACT
* * *
15588424 CTACTGTAACTTCAGGGAGATAAGATT
1 CCACTGCAACTTCAGGGATATAAGATT
15588451 CACCCTCATA
Statistics
Matches: 242, Mismatches: 53, Indels: 19
0.77 0.17 0.06
Matches are distributed among these distances:
137 14 0.06
138 132 0.55
139 2 0.01
141 94 0.39
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (137 bp):
CCACTGCAACTTCAGGGATATAAGATTTGTAGCTTCAATCTTGCTCCACTGCAACTTTAGGGAGA
TAAGATTCGCTATATAGATTTATTCGACTCACTGCAACTTTAGGGGTATAATATTTGTAGCTTCA
ATCTACT
Found at i:15588447 original size:94 final size:94
Alignment explanation
Indices: 15588286--15588544 Score: 295
Period size: 94 Copynumber: 2.8 Consensus size: 94
15588276 TCAATCTAAT
* * *
15588286 CCACTGCAACTTTAGGGATATAGGATTTGTAGCTTCATCTTGCTCTACTGCAACTTTAGGGAGAT
1 CCACTGCAACTTTAGGGGTATAAGATTTGTAGCTTCATCTTGCTCTACTGCAACTTCAGGGAGAT
** *
15588351 AAGATTTGCTATCATAGTTTCATTCCAAC
66 AAGATTCACCATCATAGTTTCATTCCAAC
* *
15588380 CCACTGCAACTTTAGGGGTATAATATTTGTAGCTTCATCTTGCTCTACTGTAACTTCAGGGAGAT
1 CCACTGCAACTTTAGGGGTATAAGATTTGTAGCTTCATCTTGCTCTACTGCAACTTCAGGGAGAT
* * *
15588445 AAGATTCACCCTCATAGTTTCATTTCGAC
66 AAGATTCACCATCATAGTTTCATTCCAAC
* * * * * * * * * * *
15588474 CTACTGCAACTTCAGGAGTATATGAATTGTAACTTTAATC-TGATCCACTGCGACTTCAGGGATA
1 CCACTGCAACTTTAGGGGTATAAGATTTGTAGC-TTCATCTTGCTCTACTGCAACTTCAGGGAGA
*
15588538 TAGGATT
65 TAAGATT
15588545 TGTAGTTTTA
Statistics
Matches: 139, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
94 134 0.96
95 5 0.04
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.34
Consensus pattern (94 bp):
CCACTGCAACTTTAGGGGTATAAGATTTGTAGCTTCATCTTGCTCTACTGCAACTTCAGGGAGAT
AAGATTCACCATCATAGTTTCATTCCAAC
Found at i:15588548 original size:44 final size:43
Alignment explanation
Indices: 15588476--15588590 Score: 124
Period size: 44 Copynumber: 2.6 Consensus size: 43
15588466 ATTTCGACCT
* *
15588476 ACTGCAACTTCAGGAGTATATGAATTGTAACTTTAATC-TGATCC
1 ACTGCAACTTCAGGA-TATAAGATTTGT-ACTTTAATCTTGATCC
* * * * *
15588520 ACTGCGACTTCAGGGATATAGGATTTGTAGTTTTATCTTGCTCC
1 ACTGCAACTTCA-GGATATAAGATTTGTACTTTAATCTTGATCC
15588564 ACTGCAACTTCAAGGATATAAGATTTG
1 ACTGCAACTTC-AGGATATAAGATTTG
15588591 CTATGGTAAG
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
43 7 0.12
44 49 0.82
45 4 0.07
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (43 bp):
ACTGCAACTTCAGGATATAAGATTTGTACTTTAATCTTGATCC
Found at i:15588622 original size:232 final size:231
Alignment explanation
Indices: 15587808--15588633 Score: 610
Period size: 232 Copynumber: 3.5 Consensus size: 231
15587798 TTGTTATAGT
* * * * * *
15587808 TTCAATCCAATCCACTACAACTTCAGAGG-TATATGATTTCTAGCTTCAATC-TACTCCACTGTA
1 TTCAATCTAATCCACTGCAACTTCAG-GGATATAGGATTTGTAGCTTC-ATCTTGCTCCACTGCA
* * * ** * **
15587871 AATTCAAGGAGATAAGATTCGGTAT-AGTAGAATCAATCTTACCCACTGCAACTTCAGGGGTATA
64 ACTTCAAGGAGATAAGATTTGCTATCA-TAGTTTCATTCCAACCCACTGCAACTTCAGGGGTATA
* * * * * * *
15587935 AGATTTGTAGTTTCAAT-TTGCTCCACTGCAATTTTAGGGAGATAAGATTCGCTATGGTAG-ATC
128 AGATTTGTAGCTTCAATCTAG-TCCACTGCAACTTCAGGGAGATAAGATTCACCATAGTAGAAT-
* * * * * * ** * *
15587998 CAATCTGAGCCACTGT--AACTTTAGGGGTATAGGATTTGTAGC
191 TACTTTGA--CTC-GTACAACTTCAGGAGTATAAAAATTGTAAC
* * * * ** * * **
15588040 TTCAATCTACTCCACTGCAATTTTAGGGAGATAAAATTCGCTATGGTAGAT-TTAGTACGTCTCA
1 TTCAATCTAATCCACTGCAACTTCAGGGATATAGGATTTG-TA-GCTTCATCTT-G--C-TC-CA
* * * * * * *
15588104 CTGCAACTT-TAGGGGTATAGGATTTG-T-T-GTATTTTCAATCCAACCCACTACAACTTCAGGG
59 CTGCAACTTCAAGGAG-ATAAGATTTGCTATCATAGTTTCATTCCAACCCACTGCAACTTCAGGG
*
15588165 GTATAAGATTTGTAGCTTCAATCTAGTCCACTGCAACTTCAGGGAGATAAGATTCACTATAGTAG
123 GTATAAGATTTGTAGCTTCAATCTAGTCCACTGCAACTTCAGGGAGATAAGATTCACCATAGTAG
* *
15588230 AATTACTTTGACTCGTTACAACTTCAGGGGTATAAAAATTGTAGC
188 AATTACTTTGACTCG-TACAACTTCAGGAGTATAAAAATTGTAAC
* *
15588275 TTCAATCTAATCCACTGCAACTTTAGGGATATAGGATTTGTAGCTTCATCTTGCTCTACTGCAAC
1 TTCAATCTAATCCACTGCAACTTCAGGGATATAGGATTTGTAGCTTCATCTTGCTCCACTGCAAC
* * * *
15588340 TTTAGGGAGATAAGATTTGCTATCATAGTTTCATTCCAACCCACTGCAACTTTAGGGGTATAATA
66 TTCAAGGAGATAAGATTTGCTATCATAGTTTCATTCCAACCCACTGCAACTTCAGGGGTATAAGA
* * * * *
15588405 TTTGTAGCTTC-ATCTTGCTCTACTGTAACTTCAGGGAGATAAGATTCACCCTCA-TAG--TTTC
131 TTTGTAGCTTCAATCTAG-TCCACTGCAACTTCAGGGAGATAAGATTCACCAT-AGTAGAATTAC
* **
15588466 ATTTCGACCTAC-TGCAACTTCAGGAGTATATGAATTGTAAC
194 -TTT-GA-CT-CGTACAACTTCAGGAGTATAAAAATTGTAAC
* * * * *
15588507 TTTAATCTGATCCACTGCGACTTCAGGGATATAGGATTTGTAGTTTTATCTTGCTCCACTGCAAC
1 TTCAATCTAATCCACTGCAACTTCAGGGATATAGGATTTGTAGCTTCATCTTGCTCCACTGCAAC
* ** * * *
15588572 TTCAAGGATATAAGATTTGCTATGGTAAG-TTCAATT-CGACCCATTGCAACTTCAAGGGTATA
66 TTCAAGGAGATAAGATTTGCTATCAT-AGTTTC-ATTCCAACCCACTGCAACTTCAGGGGTATA
15588634 GGATCTGTGG
Statistics
Matches: 478, Mismatches: 88, Indels: 56
0.77 0.14 0.09
Matches are distributed among these distances:
229 19 0.04
230 9 0.02
231 12 0.03
232 237 0.50
233 21 0.04
234 7 0.01
235 143 0.30
236 6 0.01
237 7 0.01
238 17 0.04
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.33
Consensus pattern (231 bp):
TTCAATCTAATCCACTGCAACTTCAGGGATATAGGATTTGTAGCTTCATCTTGCTCCACTGCAAC
TTCAAGGAGATAAGATTTGCTATCATAGTTTCATTCCAACCCACTGCAACTTCAGGGGTATAAGA
TTTGTAGCTTCAATCTAGTCCACTGCAACTTCAGGGAGATAAGATTCACCATAGTAGAATTACTT
TGACTCGTACAACTTCAGGAGTATAAAAATTGTAAC
Found at i:15593001 original size:25 final size:26
Alignment explanation
Indices: 15592967--15593017 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
15592957 TAATTATAGA
*
15592967 TATACATTGCTGAATTTG-ATTGTTT
1 TATACATTGCTGAATTCGAATTGTTT
*
15592992 TATATATTGCTGAATTCGAATTGTTT
1 TATACATTGCTGAATTCGAATTGTTT
15593018 ATAGTTATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.25, C:0.08, G:0.16, T:0.51
Consensus pattern (26 bp):
TATACATTGCTGAATTCGAATTGTTT
Found at i:15593042 original size:56 final size:55
Alignment explanation
Indices: 15592932--15593043 Score: 127
Period size: 56 Copynumber: 2.0 Consensus size: 55
15592922 TAAATGTATA
* * * *
15592932 TGTTTTATACATTGCTGGATTTGATTAATTATAGATATACATTGCTGAATTTGAT
1 TGTTTTATACATTGCTGAATTCGATTAATTATAGATATACATTGCTAAAATTGAT
* ** *
15592987 TGTTTTATATATTGCTGAATTCGAATTGTTTATAGTTATACATTG-TCAAAATTGAT
1 TGTTTTATACATTGCTGAATTCG-ATTAATTATAGATATACATTGCT-AAAATTGAT
15593043 T
1 T
15593044 TGCATATGGA
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
55 21 0.45
56 26 0.55
ACGTcount: A:0.29, C:0.07, G:0.15, T:0.48
Consensus pattern (55 bp):
TGTTTTATACATTGCTGAATTCGATTAATTATAGATATACATTGCTAAAATTGAT
Found at i:15593100 original size:61 final size:61
Alignment explanation
Indices: 15593022--15593394 Score: 325
Period size: 61 Copynumber: 6.1 Consensus size: 61
15593012 TTGTTTATAG
* * *
15593022 TTATACATTG-TCAAAATTGATTTGCATATGGATATA-AGTTGCCGAATTGATTTGTATATGA
1 TTATACATTGCT-GAAATTGATTTGTATATGGATATACA-TTGCCGAATTGATTCGTATATGA
* * * **
15593083 TTGTACATTGCTGAAATTAATTTGTATATGGTTATACATTGTTGAAATTGAATT-GTATATGGA
1 TTATACATTGCTGAAATTGATTTGTATATGGATATACATTGCCG-AATTG-ATTCGTATAT-GA
* * * * * * *
15593146 -TATA-AGTTGCCG-AATTGATTTGTATAT-GATTATATATTGCTGAAATTAATTTGTACATGG
1 TTATACA-TTGCTGAAATTGATTTGTATATGGA-TATACATTGCCG-AATTGATTCGTATATGA
* * * *
15593206 TTATACATTGTTGAAATTGAATTGTATATGGATATA-AGTTGCCGAATTGATTCATATATGG
1 TTATACATTGCTGAAATTGATTTGTATATGGATATACA-TTGCCGAATTGATTCGTATATGA
* * *
15593267 TTATACATTGCTGAATTTAATTTGTATAT-GATTATACATTGCCGAACTTGATTCGTATATGG
1 TTATACATTGCTGAAATTGATTTGTATATGGA-TATACATTGCCGAA-TTGATTCGTATATGA
* * * *
15593329 TTATACATTGCCG-AATTGATTTGTATATAGATATACATTGCCAAATTTGGTTCGTATATGA
1 TTATACATTGCTGAAATTGATTTGTATATGGATATACATTGCCGAA-TTGATTCGTATATGA
*
15593390 ATATA
1 TTATA
15593395 TATATCGTTG
Statistics
Matches: 258, Mismatches: 37, Indels: 34
0.78 0.11 0.10
Matches are distributed among these distances:
60 7 0.03
61 170 0.66
62 74 0.29
63 7 0.03
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (61 bp):
TTATACATTGCTGAAATTGATTTGTATATGGATATACATTGCCGAATTGATTCGTATATGA
Found at i:15593106 original size:31 final size:31
Alignment explanation
Indices: 15593066--15593369 Score: 268
Period size: 31 Copynumber: 9.9 Consensus size: 31
15593056 TAAGTTGCCG
* *
15593066 AATTGATTTGTATATGATTGTACATTGCTGA
1 AATTAATTTGTATATGATTATACATTGCTGA
* *
15593097 AATTAATTTGTATATGGTTATACATTGTTGA
1 AATTAATTTGTATATGATTATACATTGCTGA
*
15593128 AATTGAA-TTGTATATGGA-TATA-AGTTGCCG-
1 AATT-AATTTGTATAT-GATTATACA-TTGCTGA
* *
15593158 AATTGATTTGTATATGATTATATATTGCTGA
1 AATTAATTTGTATATGATTATACATTGCTGA
* * *
15593189 AATTAATTTGTACATGGTTATACATTGTTGA
1 AATTAATTTGTATATGATTATACATTGCTGA
*
15593220 AATTGAA-TTGTATATGGA-TATA-AGTTGCCG-
1 AATT-AATTTGTATAT-GATTATACA-TTGCTGA
* ** *
15593250 AATTGATTCATATATGGTTATACATTGCTGA
1 AATTAATTTGTATATGATTATACATTGCTGA
* *
15593281 ATTTAATTTGTATATGATTATACATTGCCGA
1 AATTAATTTGTATATGATTATACATTGCTGA
* * * * *
15593312 ACTTGATTCGTATATGGTTATACATTGCCG-
1 AATTAATTTGTATATGATTATACATTGCTGA
*
15593342 AATTGATTTGTATATAGA-TATACATTGC
1 AATTAATTTGTATAT-GATTATACATTGC
15593370 CAAATTTGGT
Statistics
Matches: 222, Mismatches: 36, Indels: 31
0.77 0.12 0.11
Matches are distributed among these distances:
29 5 0.02
30 65 0.29
31 146 0.66
32 6 0.03
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.43
Consensus pattern (31 bp):
AATTAATTTGTATATGATTATACATTGCTGA
Found at i:15593117 original size:92 final size:92
Alignment explanation
Indices: 15592991--15593369 Score: 507
Period size: 92 Copynumber: 4.1 Consensus size: 92
15592981 TTTGATTGTT
* * * * * *
15592991 TTATATATTGCTG-AATTCGAA-TTGTTTATAGTTATACATTGTCAAAATTGATTTGCATATGGA
1 TTATACATTGCTGAAATT--AATTTGTATATGGTTATACATTGTCGAAATTGAATTGTATATGGA
15593054 TATAAGTTGCCGAATTGATTTGTATATGA
64 TATAAGTTGCCGAATTGATTTGTATATGA
* *
15593083 TTGTACATTGCTGAAATTAATTTGTATATGGTTATACATTGTTGAAATTGAATTGTATATGGATA
1 TTATACATTGCTGAAATTAATTTGTATATGGTTATACATTGTCGAAATTGAATTGTATATGGATA
15593148 TAAGTTGCCGAATTGATTTGTATATGA
66 TAAGTTGCCGAATTGATTTGTATATGA
* * *
15593175 TTATATATTGCTGAAATTAATTTGTACATGGTTATACATTGTTGAAATTGAATTGTATATGGATA
1 TTATACATTGCTGAAATTAATTTGTATATGGTTATACATTGTCGAAATTGAATTGTATATGGATA
** *
15593240 TAAGTTGCCGAATTGATTCATATATGG
66 TAAGTTGCCGAATTGATTTGTATATGA
* * * * *
15593267 TTATACATTGCTGAATTTAATTTGTATATGATTATACATTGCCGAACTTG-ATTCGTATATGGTT
1 TTATACATTGCTGAAATTAATTTGTATATGGTTATACATTGTCGAAATTGAATT-GTATATGGAT
15593331 ATACA-TTGCCGAATTGATTTGTATATAGA
65 ATA-AGTTGCCGAATTGATTTGTATAT-GA
15593360 -TATACATTGC
1 TTATACATTGC
15593370 CAAATTTGGT
Statistics
Matches: 257, Mismatches: 25, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
91 5 0.02
92 246 0.96
93 6 0.02
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (92 bp):
TTATACATTGCTGAAATTAATTTGTATATGGTTATACATTGTCGAAATTGAATTGTATATGGATA
TAAGTTGCCGAATTGATTTGTATATGA
Found at i:15593394 original size:31 final size:30
Alignment explanation
Indices: 15593036--15593394 Score: 217
Period size: 31 Copynumber: 11.7 Consensus size: 30
15593026 ACATTGTCAA
* * *
15593036 AATTGATTTGCATATGGATATA-AGTTGCCG
1 AATTGATTCGTATATGAATATACA-TTGCCG
* * * *
15593066 AATTGATTTGTATATGATTGTACATTGCTG
1 AATTGATTCGTATATGAATATACATTGCCG
* * ** **
15593096 AAATTAATTTGTATATGGTTATACATTGTTG
1 -AATTGATTCGTATATGAATATACATTGCCG
*
15593127 AAATTGAATT-GTATATGGATATA-AGTTGCCG
1 -AATTG-ATTCGTATATGAATATACA-TTGCCG
* * * *
15593158 AATTGATTTGTATATGATTATATATTGCTG
1 AATTGATTCGTATATGAATATACATTGCCG
* * * ** **
15593188 AAATTAATTTGTACATGGTTATACATTGTTG
1 -AATTGATTCGTATATGAATATACATTGCCG
*
15593219 AAATTGAATT-GTATATGGATATA-AGTTGCCG
1 -AATTG-ATTCGTATATGAATATACA-TTGCCG
* ** *
15593250 AATTGATTCATATATGGTTATACATTGCTG
1 AATTGATTCGTATATGAATATACATTGCCG
* * *
15593280 AATTTAATTTGTATATGATTATACATTGCCG
1 AA-TTGATTCGTATATGAATATACATTGCCG
**
15593311 AACTTGATTCGTATATGGTTATACATTGCCG
1 AA-TTGATTCGTATATGAATATACATTGCCG
* *
15593342 AATTGATTTGTATAT-AGATATACATTGCCA
1 AATTGATTCGTATATGA-ATATACATTGCCG
*
15593372 AATTTGGTTCGTATATGAATATA
1 AA-TTGATTCGTATATGAATATA
15593395 TATATCGTTG
Statistics
Matches: 270, Mismatches: 44, Indels: 29
0.79 0.13 0.08
Matches are distributed among these distances:
29 6 0.02
30 94 0.35
31 163 0.60
32 7 0.03
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (30 bp):
AATTGATTCGTATATGAATATACATTGCCG
Found at i:15598158 original size:114 final size:113
Alignment explanation
Indices: 15597947--15598819 Score: 1158
Period size: 114 Copynumber: 7.7 Consensus size: 113
15597937 GACCTTCGAC
*
15597947 AAACGCCGCTAAAGCACACCATTAGCGGCGCATTATATAAAGCGCCGC-AAAAATCTTAACCAAA
1 AAACGCCGCTAAAGCACACCATTAGCGGCGCATTATACAAAGCGCCGCAAAAAATCTTAACCAAA
* *
15598011 ACACATCGTTCTGGGTTGAGGTATTTTAGAATTAGTGGCGCTTAAGGCA
66 ACGCATCGTTTTGGGTTGAGGTATTTTAGAATTAGTGGCGCTTAAGG-A
* * * ** *
15598060 AAACGGCGCTAAAGCACACCATTCGCGGCGCATCATACAAATTGCCGCAAAAAATCTTAACCGAA
1 AAACGCCGCTAAAGCACACCATTAGCGGCGCATTATACAAAGCGCCGCAAAAAATCTTAACCAAA
* *
15598125 ACGCATCGTTTTGGGTTGAGGTATATTAGAATTAGTGGCGCTTATGGA
66 ACGCATCGTTTTGGGTTGAGGTATTTTAGAATTAGTGGCGCTTAAGGA
* * ** *
15598173 TAAATGCCGCTAAAGCACACCATTAGCGACGCATTATACTGAGCGCCGCAAAAAATCATAACCAA
1 -AAACGCCGCTAAAGCACACCATTAGCGGCGCATTATACAAAGCGCCGCAAAAAATCTTAACCAA
* *
15598238 AACGCATCGTTCTGGGTTGAGGTATTTTAGAATTAGTGGCGCTTAAGTAA
65 AACGCATCGTTTTGGGTTGAGGTATTTTAGAATTAGTGGCGCTTAAG-GA
* * * *
15598288 AAACGCCGCTAAAGTAGACCATTAGCGGCGCATCATACAAAGCGCCGGAAAAAATCTTAACCAAA
1 AAACGCCGCTAAAGCACACCATTAGCGGCGCATTATACAAAGCGCCGCAAAAAATCTTAACCAAA
* * * * *
15598353 ACACATCGTTCTGGGTTGATGTACTTTAGAATTAGTGGCGCTTAAGTAA
66 ACGCATCGTTTTGGGTTGAGGTATTTTAGAATTAGTGGCGCTTAAG-GA
* * *
15598402 AAACGCCGCTAAAGCACACCATTAGCGGTGCATCATACAAAGCGCCGCAAAAAATCTTAACCGAA
1 AAACGCCGCTAAAGCACACCATTAGCGGCGCATTATACAAAGCGCCGCAAAAAATCTTAACCAAA
*
15598467 ACGCATCGTTTTGGGTTGAGGTATATTAGAATTAGTGGCGCTTAAGGA
66 ACGCATCGTTTTGGGTTGAGGTATTTTAGAATTAGTGGCGCTTAAGGA
* * * *
15598515 TAAATGCCGCTAAAGCACACCACTAGCGGTGCATTATTCAAAGCGCCGCAAAAAATCTTAACC-A
1 -AAACGCCGCTAAAGCACACCATTAGCGGCGCATTATACAAAGCGCCGCAAAAAATCTTAACCAA
* *
15598579 AACGCATCGTTTTGGGTTGAGGTATTTTAGATTTAGTCGCGCTTAAGGA
65 AACGCATCGTTTTGGGTTGAGGTATTTTAGAATTAGTGGCGCTTAAGGA
* * * ** *
15598628 TAAATGCCGCTAAAGAACACCATTAGCGGCACATTATTGAAAGCGCCGCAATAAATCTTAACCAA
1 -AAACGCCGCTAAAGCACACCATTAGCGGCGCATTATACAAAGCGCCGCAAAAAATCTTAACCAA
* * ** ** *
15598693 AACGCGTCATTTTTTGTTGAGGTATTTTAGAATTAGTGGAAC-TATAGTA
65 AACGCATCGTTTTGGGTTGAGGTATTTTAGAATTAGTGGCGCTTA-AGGA
* * * *
15598742 AAACGCCGCTAAAGTACATCATTAGCGGCGCATTATACAAAGCGCTGCGAATAAATCTTAACCAA
1 AAACGCCGCTAAAGCACACCATTAGCGGCGCATTATACAAAGCGCCGC-AAAAAATCTTAACCAA
*
15598807 AACACATCGTTTT
65 AACGCATCGTTTT
15598820 AAACCAAAAC
Statistics
Matches: 672, Mismatches: 81, Indels: 13
0.88 0.11 0.02
Matches are distributed among these distances:
113 191 0.28
114 480 0.71
115 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (113 bp):
AAACGCCGCTAAAGCACACCATTAGCGGCGCATTATACAAAGCGCCGCAAAAAATCTTAACCAAA
ACGCATCGTTTTGGGTTGAGGTATTTTAGAATTAGTGGCGCTTAAGGA
Found at i:15599299 original size:21 final size:21
Alignment explanation
Indices: 15599235--15599299 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 21
15599225 GGGCCATGGT
*
15599235 TTAAGGGTT-GGGGTTTAATG
1 TTAAGGGTTAGGGGTTTAAGG
*
15599255 -TATAGGTGTTACGGG-TTAATGG
1 TTA-AGG-GTTAGGGGTTTAA-GG
*
15599277 TTAAGGGTTAGGGGTTTAGGG
1 TTAAGGGTTAGGGGTTTAAGG
15599298 TT
1 TT
15599300 TATAGTTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 11
0.70 0.08 0.22
Matches are distributed among these distances:
19 2 0.06
20 3 0.09
21 18 0.51
22 10 0.29
23 2 0.06
ACGTcount: A:0.20, C:0.02, G:0.40, T:0.38
Consensus pattern (21 bp):
TTAAGGGTTAGGGGTTTAAGG
Found at i:15599341 original size:15 final size:15
Alignment explanation
Indices: 15599323--15599351 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
15599313 TTATGAGTCA
15599323 AGGTTTAGGGTTTAC
1 AGGTTTAGGGTTTAC
15599338 AGGTTTAGGGTTTA
1 AGGTTTAGGGTTTA
15599352 AAGATTATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.03, G:0.34, T:0.41
Consensus pattern (15 bp):
AGGTTTAGGGTTTAC
Found at i:15599516 original size:21 final size:21
Alignment explanation
Indices: 15599492--15599535 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
15599482 AAGGGTACTT
* *
15599492 GGTTTA-ATGGTTTGAGTTTAA
1 GGTTTAGA-GGTTGGAGATTAA
15599513 GGTTTAGAGGTTGGAGATTAA
1 GGTTTAGAGGTTGGAGATTAA
15599534 GG
1 GG
15599536 GATAGGGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (21 bp):
GGTTTAGAGGTTGGAGATTAA
Found at i:15599687 original size:22 final size:23
Alignment explanation
Indices: 15599632--15599688 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
15599622 TTAGGGCTAA
*
15599632 GGTTTAAGGTTTAAGTGTTAAAG
1 GGTTTAAGGTTTAAGAGTTAAAG
* *
15599655 GGTTTAGGGTTTCAGAG-T-AAG
1 GGTTTAAGGTTTAAGAGTTAAAG
15599676 TGGTTTAAGGTTT
1 -GGTTTAAGGTTT
15599689 TTGGTTAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 12 0.41
23 14 0.48
ACGTcount: A:0.25, C:0.02, G:0.33, T:0.40
Consensus pattern (23 bp):
GGTTTAAGGTTTAAGAGTTAAAG
Found at i:15600536 original size:191 final size:191
Alignment explanation
Indices: 15600198--15600546 Score: 554
Period size: 191 Copynumber: 1.8 Consensus size: 191
15600188 GTAAATCCCT
* ** * * *
15600198 AGACCTTTCACCTTTTCAACGGCGATTTCCCCTCTTCTCGGTCGAATATCGGTTCTCGTCTGGGC
1 AGACCATTCACCCCTTCAACGACGATTTCCCCTCTTCTCGATCGAATATCGCTTCTCGTCTGGGC
* * *
15600263 TGACTGGTAAAAAACTTTCCAAATCCCTAATTTCTCCGTTGACTCCGTATATGGCTATTCATTTT
66 TGACTGGTAAAAAACTTTCCAAATCCCTAATTTATCCGTTGAATACGTATATGGCTATTCATTTT
*
15600328 TATGTTCGATTTTTTCTTTCTGTAATGCCGGCTTTGTTTTTCCTTTCTCTTTAAATTCCAG
131 TATGTTCGATTTTTTCTTTCTCTAATGCCGGCTTTGTTTTTCCTTTCTCTTTAAATTCCAG
* *
15600389 AGACCATTCACCCCTTCAACGACGATTTCCCCTCTTTTCGATCGAATATTGCTTCTCGTCTGGGC
1 AGACCATTCACCCCTTCAACGACGATTTCCCCTCTTCTCGATCGAATATCGCTTCTCGTCTGGGC
* *
15600454 TGACTGGTAAAAATCTTTCCAAATCCCTAATTTATTCGTTGAATACGTATATGGCTATTCATTTT
66 TGACTGGTAAAAAACTTTCCAAATCCCTAATTTATCCGTTGAATACGTATATGGCTATTCATTTT
* *
15600519 TCTGTTTGATTTTTTCTTTCTCTAATGC
131 TATGTTCGATTTTTTCTTTCTCTAATGC
15600547 TCGCACAAAT
Statistics
Matches: 142, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
191 142 1.00
ACGTcount: A:0.19, C:0.25, G:0.14, T:0.42
Consensus pattern (191 bp):
AGACCATTCACCCCTTCAACGACGATTTCCCCTCTTCTCGATCGAATATCGCTTCTCGTCTGGGC
TGACTGGTAAAAAACTTTCCAAATCCCTAATTTATCCGTTGAATACGTATATGGCTATTCATTTT
TATGTTCGATTTTTTCTTTCTCTAATGCCGGCTTTGTTTTTCCTTTCTCTTTAAATTCCAG
Found at i:15602444 original size:13 final size:13
Alignment explanation
Indices: 15602423--15602455 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
15602413 TGTTTTAATA
*
15602423 TCTATATAAGTTT
1 TCTAAATAAGTTT
15602436 TCTAAATAAGTTT
1 TCTAAATAAGTTT
15602449 TCTAAAT
1 TCTAAAT
15602456 TTATTTGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.48
Consensus pattern (13 bp):
TCTAAATAAGTTT
Found at i:15602486 original size:15 final size:15
Alignment explanation
Indices: 15602451--15602489 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
15602441 ATAAGTTTTC
*
15602451 TAAATTTATTTGTAT
1 TAAATTTATTAGTAT
15602466 TAAAATTTATTAGTAT
1 T-AAATTTATTAGTAT
15602482 TAAATTTA
1 TAAATTTA
15602490 CTTCGTTCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (15 bp):
TAAATTTATTAGTAT
Found at i:15602562 original size:9 final size:9
Alignment explanation
Indices: 15602548--15602894 Score: 270
Period size: 9 Copynumber: 37.9 Consensus size: 9
15602538 GTGTATTAAG
15602548 TTACATAAC
1 TTACATAAC
15602557 TTACATAAC
1 TTACATAAC
15602566 TTACATAAAC
1 TTACAT-AAC
* *
15602576 TTGCATAAA
1 TTACATAAC
* *
15602585 TTAAATAAT
1 TTACATAAC
15602594 TTACATAAC
1 TTACATAAC
*
15602603 TTACATAAA
1 TTACATAAC
*
15602612 TTAAATAAC
1 TTACATAAC
*
15602621 TTAAATAA-
1 TTACATAAC
*
15602629 TTGACATAAA
1 TT-ACATAAC
* * *
15602639 TTCCGTGGAC
1 TTACAT-AAC
15602649 TTACATAAC
1 TTACATAAC
15602658 TTACATAAAC
1 TTACAT-AAC
* *
15602668 TTGCATAAA
1 TTACATAAC
*
15602677 TTAAATAAC
1 TTACATAAC
15602686 TTACATAAAC
1 TTACAT-AAC
*
15602696 -TAAATAAC
1 TTACATAAC
15602704 TTACATAAC
1 TTACATAAC
*
15602713 TTACATAAA
1 TTACATAAC
*
15602722 TTAAATAAC
1 TTACATAAC
*
15602731 TTACAAAAC
1 TTACATAAC
15602740 TTACATAAAC
1 TTACAT-AAC
*
15602750 TTACATAAA
1 TTACATAAC
*
15602759 TTAAATAAC
1 TTACATAAC
*
15602768 TTAAATAA-
1 TTACATAAC
*
15602776 TTGACATAAA
1 TT-ACATAAC
* * *
15602786 TTCCGTGGAC
1 TTACAT-AAC
15602796 TTACATAAC
1 TTACATAAC
15602805 TTACATAAAC
1 TTACAT-AAC
* *
15602815 TTGCATAAA
1 TTACATAAC
*
15602824 TTAAATAAC
1 TTACATAAC
15602833 TTACATAAAC
1 TTACAT-AAC
*
15602843 -TAAATAAC
1 TTACATAAC
* *
15602851 CTACATATC
1 TTACATAAC
*
15602860 TTACATAAA
1 TTACATAAC
*
15602869 TTAAATAAC
1 TTACATAAC
*
15602878 TTACATAGC
1 TTACATAAC
15602887 TTACATAA
1 TTACATAA
15602895 TACATAAAAA
Statistics
Matches: 264, Mismatches: 60, Indels: 28
0.75 0.17 0.08
Matches are distributed among these distances:
8 10 0.04
9 201 0.76
10 53 0.20
ACGTcount: A:0.48, C:0.16, G:0.03, T:0.32
Consensus pattern (9 bp):
TTACATAAC
Found at i:15602668 original size:92 final size:89
Alignment explanation
Indices: 15602552--15602843 Score: 287
Period size: 92 Copynumber: 3.3 Consensus size: 89
15602542 ATTAAGTTAC
15602552 ATAACTTACATAACTTACATAAACTTGCATAAATTAAATAATTTACATAACTTACATAAATTAAA
1 ATAACTTACATAACTTACATAAACTTGCATAAATTAAATAA-TTA-ATAACTTACATAAATTAAA
**
15602617 TAACTTAAATAA-TTGACATAAATTCC
64 TAACTTAAATAACTT-ACATAAATTAA
* * *
15602643 GTGGACTTACATAACTTACATAAACTTGCATAAA-T---T-A--AATAACTTACATAAACTAAAT
1 AT-AACTTACATAACTTACATAAACTTGCATAAATTAAATAATTAATAACTTACATAAATTAAAT
*
15602701 AACTTACATAACTTACATAAATTAA
65 AACTTAAATAACTTACATAAATTAA
* * **
15602726 ATAACTTACAAAACTTACATAAACTTACATAAATTAAATAACTTAAATAA-TTGACATAAATTCC
1 ATAACTTACATAACTTACATAAACTTGCATAAATTAAATAA-TT-AATAACTT-ACATAAATTAA
* * * **
15602790 GTGGACTTACATAACTTACATAAACTTGC
63 AT-AACTTAAATAACTTACATAAA-TTAA
* *
15602819 ATAAATTAAATAACTTACATAAACT
1 ATAACTTACATAACTTACATAAACT
15602844 AAATAACCTA
Statistics
Matches: 167, Mismatches: 20, Indels: 26
0.78 0.09 0.12
Matches are distributed among these distances:
82 28 0.17
83 40 0.24
84 3 0.02
86 1 0.01
87 2 0.01
88 1 0.01
90 2 0.01
91 16 0.10
92 50 0.30
93 24 0.14
ACGTcount: A:0.49, C:0.15, G:0.04, T:0.32
Consensus pattern (89 bp):
ATAACTTACATAACTTACATAAACTTGCATAAATTAAATAATTAATAACTTACATAAATTAAATA
ACTTAAATAACTTACATAAATTAA
Found at i:15602751 original size:147 final size:147
Alignment explanation
Indices: 15602552--15602894 Score: 582
Period size: 147 Copynumber: 2.3 Consensus size: 147
15602542 ATTAAGTTAC
** * *
15602552 ATAACTTACATAACTTACATAAACTTGCATAAATTA-AATAATTTACAT-AACTTACATAAATTA
1 ATAACTTACATAACTTACATAAA-TTAAATAACTTACAA-AACTTACATAAACTTACATAAATTA
15602615 AATAACTTAAATAATTGACATAAATTCCGTGGACTTACATAACTTACATAAACTTGCATAAATTA
64 AATAACTTAAATAATTGACATAAATTCCGTGGACTTACATAACTTACATAAACTTGCATAAATTA
15602680 AATAACTTACATAAACTAA
129 AATAACTTACATAAACTAA
15602699 ATAACTTACATAACTTACATAAATTAAATAACTTACAAAACTTACATAAACTTACATAAATTAAA
1 ATAACTTACATAACTTACATAAATTAAATAACTTACAAAACTTACATAAACTTACATAAATTAAA
15602764 TAACTTAAATAATTGACATAAATTCCGTGGACTTACATAACTTACATAAACTTGCATAAATTAAA
66 TAACTTAAATAATTGACATAAATTCCGTGGACTTACATAACTTACATAAACTTGCATAAATTAAA
15602829 TAACTTACATAAACTAA
131 TAACTTACATAAACTAA
* * * *
15602846 ATAACCTACATATCTTACATAAATTAAATAACTTACATAGCTTACATAA
1 ATAACTTACATAACTTACATAAATTAAATAACTTACAAAACTTACATAA
15602895 TACATAAAAA
Statistics
Matches: 186, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
146 17 0.09
147 169 0.91
ACGTcount: A:0.49, C:0.16, G:0.03, T:0.32
Consensus pattern (147 bp):
ATAACTTACATAACTTACATAAATTAAATAACTTACAAAACTTACATAAACTTACATAAATTAAA
TAACTTAAATAATTGACATAAATTCCGTGGACTTACATAACTTACATAAACTTGCATAAATTAAA
TAACTTACATAAACTAA
Found at i:15605594 original size:21 final size:20
Alignment explanation
Indices: 15605568--15605638 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
15605558 CTACAACTTA
15605568 AAGCAGAGGCGGAAGCGAGGG
1 AAGCAGAGGC-GAAGCGAGGG
* *
15605589 AAGCAGCGGCTGCAGCGAGGG
1 AAGCAGAGGC-GAAGCGAGGG
* * *
15605610 AAGCGGAGGCTACAGCGAGAG
1 AAGCAGAGGCGA-AGCGAGGG
15605631 AAGCAGAG
1 AAGCAGAG
15605639 CAGAGCAAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.32, C:0.18, G:0.46, T:0.03
Consensus pattern (20 bp):
AAGCAGAGGCGAAGCGAGGG
Found at i:15606055 original size:42 final size:42
Alignment explanation
Indices: 15605955--15606158 Score: 291
Period size: 42 Copynumber: 4.8 Consensus size: 42
15605945 GTTTTTGTAT
* *
15605955 AAAAGCGCCGGTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
* * *
15605997 AAAAGACTCCGCTAAAGACCATGTTCTTTAGCGACGCTTAGAA
1 AAAA-ACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
15606040 AAAAACGCCGCTAAAGAACATGTTCTTTAGAGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
* * * *
15606082 AAAAACGCCGCTAAAGAACATGTTCTTTAGAGGCACGTAGGA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
* *
15606124 AAAAACGCCGCTAAAGAACATGGTATTTAGCGGCG
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
15606159 TTTTTGTTTG
Statistics
Matches: 145, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
42 108 0.74
43 37 0.26
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
Found at i:15607294 original size:14 final size:15
Alignment explanation
Indices: 15607268--15607312 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 15
15607258 TATACATTTT
15607268 TTTTCTCT-C-TCTG
1 TTTTCTCTGCTTCTG
15607281 TTTTC-CTGCTTCTG
1 TTTTCTCTGCTTCTG
15607295 -TTTCTCTGCTTCTTG
1 TTTTCTCTGCTTC-TG
15607310 TTT
1 TTT
15607313 ATGTTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
12 2 0.07
13 10 0.37
14 11 0.41
15 2 0.07
16 2 0.07
ACGTcount: A:0.00, C:0.27, G:0.11, T:0.62
Consensus pattern (15 bp):
TTTTCTCTGCTTCTG
Found at i:15617381 original size:65 final size:65
Alignment explanation
Indices: 15617274--15617406 Score: 151
Period size: 65 Copynumber: 2.0 Consensus size: 65
15617264 ATTTTTCTTA
* * * * *
15617274 CTTCTTGGTTTTTCGCCACTATCACCACTGTTACTTCTCTGCCTTTTGCTGCTTTTTGCTTATTG
1 CTTCTTGGTTTTTCGCCACTATCACCACTGCTACTTCCCTGCCTTCTACTGCTTTTCGCTTATTG
* * * * * *
15617339 CTTCTT-GTTTCTTCGCCATTGTCCCCACTGCTGCTTCCCTGCCTTCTACTGGTTTTCGCTTCTT
1 CTTCTTGGTTT-TTCGCCACTATCACCACTGCTACTTCCCTGCCTTCTACTGCTTTTCGCTTATT
15617403 G
65 G
15617404 CTT
1 CTT
15617407 ATTCACCAGT
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
64 4 0.07
65 52 0.93
ACGTcount: A:0.07, C:0.32, G:0.14, T:0.47
Consensus pattern (65 bp):
CTTCTTGGTTTTTCGCCACTATCACCACTGCTACTTCCCTGCCTTCTACTGCTTTTCGCTTATTG
Found at i:15622790 original size:23 final size:24
Alignment explanation
Indices: 15622764--15622817 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
15622754 ATATTTGTTA
* *
15622764 TTAAAACAT-TATTATAAGTATT-T
1 TTAAAA-ATATATTAAAAATATTAT
*
15622787 TTAATAATATATTAAAAATATTAT
1 TTAAAAATATATTAAAAATATTAT
15622811 TTAAAAA
1 TTAAAAA
15622818 CTAAATTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
22 2 0.08
23 16 0.64
24 7 0.28
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (24 bp):
TTAAAAATATATTAAAAATATTAT
Found at i:15629558 original size:33 final size:33
Alignment explanation
Indices: 15629486--15629596 Score: 91
Period size: 33 Copynumber: 3.4 Consensus size: 33
15629476 TATATACATG
* * **
15629486 TGTAAGACCATAACTGGGCTAT-G-ACATTCTGA
1 TGTAAGACCATAACTGGGTTATGGTAC-TACAAA
15629518 TGATAAGACCATAACTGGGTTATGGTACTACAAA
1 TG-TAAGACCATAACTGGGTTATGGTACTACAAA
* * * * * **
15629552 TGTAAGACCATGACAGGGTCATGGTAATGCATG
1 TGTAAGACCATAACTGGGTTATGGTACTACAAA
15629585 TGTAAGACCATA
1 TGTAAGACCATA
15629597 GTTGGACTAT
Statistics
Matches: 64, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
32 2 0.03
33 54 0.84
34 6 0.09
35 2 0.03
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.26
Consensus pattern (33 bp):
TGTAAGACCATAACTGGGTTATGGTACTACAAA
Found at i:15629575 original size:105 final size:105
Alignment explanation
Indices: 15629381--15629577 Score: 261
Period size: 105 Copynumber: 1.9 Consensus size: 105
15629371 AATGTTTAAA
* * **
15629381 TGTAAGACCATAACTGGGCTATGACATTTTAATGAAAAGACTATAACTGGGTTATGGCACCTTGA
1 TGTAAGACCATAACTGGGCTATGACATTCTAATGAAAAGACCATAACTGGGTTATGGCACCTCAA
***
15629446 ACGTAAGACCATGGTTGGACCATGGTAGTATATATACATG
66 ACGTAAGACCATGACAGGACCATGGTAGTATATATACATG
* * *
15629486 TGTAAGACCATAACTGGGCTATGACATTCTGATGATAAGACCATAACTGGGTTATGGTA-CTACA
1 TGTAAGACCATAACTGGGCTATGACATTCTAATGAAAAGACCATAACTGGGTTATGGCACCT-CA
* **
15629550 AATGTAAGACCATGACAGGGTCATGGTA
65 AACGTAAGACCATGACAGGACCATGGTA
15629578 ATGCATGTGT
Statistics
Matches: 78, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
104 2 0.03
105 76 0.97
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (105 bp):
TGTAAGACCATAACTGGGCTATGACATTCTAATGAAAAGACCATAACTGGGTTATGGCACCTCAA
ACGTAAGACCATGACAGGACCATGGTAGTATATATACATG
Found at i:15657709 original size:16 final size:16
Alignment explanation
Indices: 15657655--15657721 Score: 62
Period size: 17 Copynumber: 3.8 Consensus size: 16
15657645 AAAATCAGAA
*
15657655 AAAAATCATAAAAAATT
1 AAAAAT-ATTAAAAATT
*
15657672 ATAAAATAATAAAAATAT
1 A-AAAATATTAAAAAT-T
15657690 ATTAAAATTATTAAAAATT
1 A--AAAA-TATTAAAAATT
15657709 AAAAATATTAAAA
1 AAAAATATTAAAA
15657722 TTGATAAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
16 8 0.19
17 12 0.28
18 7 0.16
19 7 0.16
20 9 0.21
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.30
Consensus pattern (16 bp):
AAAAATATTAAAAATT
Found at i:15657732 original size:27 final size:26
Alignment explanation
Indices: 15657666--15657742 Score: 84
Period size: 25 Copynumber: 2.8 Consensus size: 26
15657656 AAAATCATAA
* *
15657666 AAAATTATAAAATAATAAAAATATATT
1 AAAATTATAAAAAAATTAAAA-ATATT
*
15657693 AAAATTAT-TAAAAATTAAAAATATT
1 AAAATTATAAAAAAATTAAAAATATT
15657718 AAAATTGATAAAAAAAATTATAAAA
1 AAAATT-AT-AAAAAAATTA-AAAA
15657743 ACTATAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
25 11 0.26
26 11 0.26
27 8 0.19
28 8 0.19
29 4 0.10
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (26 bp):
AAAATTATAAAAAAATTAAAAATATT
Found at i:15657742 original size:9 final size:9
Alignment explanation
Indices: 15657655--15657752 Score: 60
Period size: 9 Copynumber: 10.6 Consensus size: 9
15657645 AAAATCAGAA
*
15657655 AAAAATCAT
1 AAAAATTAT
15657664 AAAAAATTAT
1 -AAAAATTAT
*
15657674 -AAAATAAT
1 AAAAATTAT
15657682 AAAAATATAT
1 AAAAAT-TAT
*
15657692 TAAAATTATT
1 AAAAATTA-T
15657702 AAAAA-T-T
1 AAAAATTAT
15657709 AAAAA-TAT
1 AAAAATTAT
*
15657717 TAAAATTGAT
1 AAAAATT-AT
15657727 AAAAAAAATTAT
1 ---AAAAATTAT
*
15657739 AAAAACTAT
1 AAAAATTAT
15657748 AAAAA
1 AAAAA
15657753 CATAAAAAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 19
0.72 0.08 0.19
Matches are distributed among these distances:
7 7 0.10
8 12 0.17
9 22 0.31
10 22 0.31
12 2 0.03
13 6 0.08
ACGTcount: A:0.68, C:0.02, G:0.01, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:15657839 original size:20 final size:20
Alignment explanation
Indices: 15657794--15657840 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
15657784 ATAAAATTTT
15657794 TATAAAATTAATAAAACATA
1 TATAAAATTAATAAAACATA
* * *
15657814 TTTAAAATTTTATAAAA-ATG
1 TATAAAA-TTAATAAAACATA
15657834 TATAAAA
1 TATAAAA
15657841 ATTCTTAGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (20 bp):
TATAAAATTAATAAAACATA
Found at i:15658425 original size:10 final size:10
Alignment explanation
Indices: 15658391--15658490 Score: 66
Period size: 10 Copynumber: 10.1 Consensus size: 10
15658381 AGTCTGGTTC
15658391 AAGTTTTTAT
1 AAGTTTTTAT
*
15658401 AA-TTTTTTT
1 AAGTTTTTAT
15658410 ATAGTTTTTAT
1 A-AGTTTTTAT
*
15658421 AAGTTTATAT
1 AAGTTTTTAT
*
15658431 CAA-TTTTAAT
1 -AAGTTTTTAT
*
15658441 -ATTTTTTAT
1 AAGTTTTTAT
* *
15658450 GATTTTTTAT
1 AAGTTTTTAT
15658460 AAGTTTTTA-
1 AAGTTTTTAT
*
15658469 AGAATTTTTA-
1 A-AGTTTTTAT
15658479 AATGTTTTTAT
1 AA-GTTTTTAT
15658490 A
1 A
15658491 GAATTTATTT
Statistics
Matches: 72, Mismatches: 10, Indels: 15
0.74 0.10 0.15
Matches are distributed among these distances:
8 1 0.01
9 15 0.21
10 46 0.64
11 10 0.14
ACGTcount: A:0.31, C:0.01, G:0.07, T:0.61
Consensus pattern (10 bp):
AAGTTTTTAT
Found at i:15658475 original size:39 final size:39
Alignment explanation
Indices: 15658395--15658491 Score: 110
Period size: 39 Copynumber: 2.5 Consensus size: 39
15658385 TGGTTCAAGT
*
15658395 TTTTATAAT-TTTTTTATAGTTTTTATAAGTTTATATCAA
1 TTTT-TAATATTTTTTATAGTTTTTATAAGTTTATAACAA
* * *
15658434 -TTTTAATATTTTTTATGATTTTTTATAAGTTTTTAAGAA
1 TTTTTAATATTTTTTAT-AGTTTTTATAAGTTTATAACAA
15658473 TTTTTAA-ATGTTTTTATAG
1 TTTTTAATAT-TTTTTATAG
15658492 AATTTATTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
37 4 0.08
38 11 0.22
39 21 0.43
40 13 0.27
ACGTcount: A:0.30, C:0.01, G:0.07, T:0.62
Consensus pattern (39 bp):
TTTTTAATATTTTTTATAGTTTTTATAAGTTTATAACAA
Found at i:15665485 original size:22 final size:22
Alignment explanation
Indices: 15665460--15665503 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
15665450 TAGTCATATA
15665460 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
15665482 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
15665504 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:15666346 original size:20 final size:20
Alignment explanation
Indices: 15666300--15666488 Score: 71
Period size: 20 Copynumber: 9.5 Consensus size: 20
15666290 GTCTTAACAA
* * * *
15666300 TTACCCAAATTTCTATGATT
1 TTACCAAAATATCTAAGAAT
* *
15666320 TTGCCAAAATATCTAACAAT
1 TTACCAAAATATCTAAGAAT
* *
15666340 TTACC-AAATTTCTAAGAAC
1 TTACCAAAATATCTAAGAAT
** * *
15666359 TTACCAATGTATCTAATAAA
1 TTACCAAAATATCTAAGAAT
* * * *
15666379 TTGCCAATATTTCTAA-AGT
1 TTACCAAAATATCTAAGAAT
* * * *
15666398 TGAACCAAAATTTCAAAGGAT
1 T-TACCAAAATATCTAAGAAT
*
15666419 TTGCCAAAATATCTAACG-AT
1 TTACCAAAATATCTAA-GAAT
* *
15666439 TTA-CAAATATTTCTAAGGAT
1 TTACCAAA-ATATCTAAGAAT
* * * * *
15666459 TTATCGATATATCTAAAAAA
1 TTACCAAAATATCTAAGAAT
15666479 TTACCAAAAT
1 TTACCAAAAT
15666489 TTGTTGGAGA
Statistics
Matches: 121, Mismatches: 41, Indels: 14
0.69 0.23 0.08
Matches are distributed among these distances:
19 23 0.19
20 93 0.77
21 5 0.04
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.34
Consensus pattern (20 bp):
TTACCAAAATATCTAAGAAT
Found at i:15666353 original size:19 final size:19
Alignment explanation
Indices: 15666294--15666365 Score: 56
Period size: 19 Copynumber: 3.7 Consensus size: 19
15666284 TATCAAGTCT
15666294 TAACAA-TTACCCAAATTTC
1 TAACAATTTA-CCAAATTTC
** * * *
15666313 TATGATTTTGCCAAAATATC
1 TAACAATTTACC-AAATTTC
15666333 TAACAATTTACCAAATTTC
1 TAACAATTTACCAAATTTC
* *
15666352 TAAGAACTTACCAA
1 TAACAATTTACCAA
15666366 TGTATCTAAT
Statistics
Matches: 39, Mismatches: 12, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
19 23 0.59
20 16 0.41
ACGTcount: A:0.42, C:0.21, G:0.04, T:0.33
Consensus pattern (19 bp):
TAACAATTTACCAAATTTC
Found at i:15666372 original size:39 final size:38
Alignment explanation
Indices: 15666294--15666394 Score: 94
Period size: 39 Copynumber: 2.6 Consensus size: 38
15666284 TATCAAGTCT
* ** *
15666294 TAACAATTACCCAAATTTCTATGATTTTGCCAAAATATC
1 TAACAATTA-CCAAATTTCTAAGAACTTACCAAAATATC
**
15666333 TAACAATTTACCAAATTTCTAAGAACTTACCAATGTATC
1 TAACAA-TTACCAAATTTCTAAGAACTTACCAAAATATC
* *
15666372 TAATAAATTGCCAATATTTCTAA
1 TAA-CAATTACCAA-ATTTCTAA
15666395 AGTTGAACCA
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
39 38 0.75
40 13 0.25
ACGTcount: A:0.41, C:0.19, G:0.05, T:0.36
Consensus pattern (38 bp):
TAACAATTACCAAATTTCTAAGAACTTACCAAAATATC
Found at i:15666989 original size:25 final size:26
Alignment explanation
Indices: 15666933--15666989 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
15666923 AAATATCCCT
*
15666933 AGAATAATCAGAGTCTAATTGGGAAA
1 AGAATAATCAGAGTCTAACTGGGAAA
* * * *
15666959 AAAATAA-CATAGTTTAACTGGGAGA
1 AGAATAATCAGAGTCTAACTGGGAAA
15666984 AGAATA
1 AGAATA
15666990 CGAGGCACAC
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
25 19 0.76
26 6 0.24
ACGTcount: A:0.49, C:0.07, G:0.21, T:0.23
Consensus pattern (26 bp):
AGAATAATCAGAGTCTAACTGGGAAA
Found at i:15669001 original size:24 final size:25
Alignment explanation
Indices: 15668956--15669003 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
15668946 TATCCCTAGA
* *
15668956 ATAATCAGAGTCTAATTGGGAAAAT
1 ATAATCAGAGTCTAACTAGGAAAAT
*
15668981 ATAAT-AGAGTTTAACTAGGAAAA
1 ATAATCAGAGTCTAACTAGGAAAA
15669004 AAATACAACG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.48, C:0.06, G:0.19, T:0.27
Consensus pattern (25 bp):
ATAATCAGAGTCTAACTAGGAAAAT
Found at i:15669418 original size:48 final size:48
Alignment explanation
Indices: 15669329--15669420 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
15669319 TAAATCAGAT
* * *
15669329 ACATGCTTGACATTTGACACGACACCACCTTCAACCGGATTATCAAAC
1 ACATGCCTGACATTTGACACAACACCACCTTCAACCAGATTATCAAAC
* *
15669377 ACATGCCTGACATTTGTCACAACACCACCTTTC-ACTAGATTATC
1 ACATGCCTGACATTTGACACAACACCACC-TTCAACCAGATTATC
15669421 TTGAGAGTAG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
48 35 0.92
49 3 0.08
ACGTcount: A:0.32, C:0.32, G:0.11, T:0.26
Consensus pattern (48 bp):
ACATGCCTGACATTTGACACAACACCACCTTCAACCAGATTATCAAAC
Found at i:15672167 original size:40 final size:39
Alignment explanation
Indices: 15672107--15672197 Score: 112
Period size: 40 Copynumber: 2.3 Consensus size: 39
15672097 GAGGCACACC
*
15672107 TTACAAAATTGTTAAGGTTTTACCAAAACATCTAAC-AA
1 TTACAAAATTTTTAAGGTTTTACCAAAACATCTAACGAA
* * *
15672145 TTTACTAAAATTTTTAATGTTTTACGAAAATATCTAACGAA
1 -TTAC-AAAATTTTTAAGGTTTTACCAAAACATCTAACGAA
15672186 TTACCAAAATTT
1 TTA-CAAAATTT
15672198 CTATTGATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
39 4 0.09
40 38 0.84
41 3 0.07
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (39 bp):
TTACAAAATTTTTAAGGTTTTACCAAAACATCTAACGAA
Found at i:15672209 original size:20 final size:20
Alignment explanation
Indices: 15672125--15672258 Score: 65
Period size: 20 Copynumber: 6.7 Consensus size: 20
15672115 TTGTTAAGGT
** **
15672125 TTTACCAAAACATCTAACAA
1 TTTACCAAAATTTCTAATGA
* * *
15672145 TTTACTAAAATTTTTAATGT
1 TTTACCAAAATTTCTAATGA
* * *
15672165 TTTACGAAAATATCTAACGA
1 TTTACCAAAATTTCTAATGA
* *
15672185 ATTACCAAAATTTCTATTGA
1 TTTACCAAAATTTCTAATGA
* * * *
15672205 TTTACTAATATTTATGA-GAA
1 TTTACCAAAATTTCTAATG-A
* *
15672225 TTTAACAAAATTTTTAA-GA
1 TTTACCAAAATTTCTAATGA
*
15672244 TTTAACCAATATTTC
1 TTT-ACCAAAATTTC
15672259 CAAATTTTCT
Statistics
Matches: 81, Mismatches: 31, Indels: 4
0.70 0.27 0.03
Matches are distributed among these distances:
19 5 0.06
20 76 0.94
ACGTcount: A:0.42, C:0.13, G:0.05, T:0.40
Consensus pattern (20 bp):
TTTACCAAAATTTCTAATGA
Found at i:15672209 original size:40 final size:40
Alignment explanation
Indices: 15672125--15672209 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
15672115 TTGTTAAGGT
* * *
15672125 TTTACCAAAACATCTAACAATTTACTAAAATTTTTAATGT
1 TTTACCAAAACATCTAACAATTTACCAAAATTTCTAATGA
* * *
15672165 TTTACGAAAATATCTAACGAA-TTACCAAAATTTCTATTGA
1 TTTACCAAAACATCTAAC-AATTTACCAAAATTTCTAATGA
15672205 TTTAC
1 TTTAC
15672210 TAATATTTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
40 36 0.95
41 2 0.05
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.39
Consensus pattern (40 bp):
TTTACCAAAACATCTAACAATTTACCAAAATTTCTAATGA
Found at i:15672335 original size:20 final size:20
Alignment explanation
Indices: 15672312--15672462 Score: 83
Period size: 20 Copynumber: 7.5 Consensus size: 20
15672302 TTTGTATGAC
* * *
15672312 TTTACCAAAATATTTAAGGA
1 TTTACCAATATATCTAACGA
* *
15672332 TTTACTAATGTATCTAACGA
1 TTTACCAATATATCTAACGA
* *
15672352 TTTACTAATATATCTAACAA
1 TTTACCAATATATCTAACGA
* * * *
15672372 TTTTCTAATAT-TTTCAAGGA
1 TTTACCAATATATCT-AACGA
* * * *
15672392 CTTTTCCAAAATAT-TTACAA
1 -TTTACCAATATATCTAACGA
15672412 TTTACCAATATATCTAACGA
1 TTTACCAATATATCTAACGA
* * *
15672432 TTTATCAAAATTTCTATA-GA
1 TTTACCAATATATCTA-ACGA
*
15672452 TTTACTAATAT
1 TTTACCAATAT
15672463 TTATGAGGCT
Statistics
Matches: 100, Mismatches: 26, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
19 13 0.13
20 75 0.75
21 11 0.11
22 1 0.01
ACGTcount: A:0.39, C:0.14, G:0.05, T:0.42
Consensus pattern (20 bp):
TTTACCAATATATCTAACGA
Found at i:15672356 original size:40 final size:40
Alignment explanation
Indices: 15672312--15672462 Score: 123
Period size: 40 Copynumber: 3.8 Consensus size: 40
15672302 TTTGTATGAC
*
15672312 TTTACCAAAATATTTA-AGGATTTACTAATGTATCTAACGA
1 TTTACCAAAATATTTACA-GATTTACTAATATATCTAACGA
* * * * * *
15672352 TTTACTAATATATCTAACA-ATTTTCTAATAT-TTTCAAGGA
1 TTTACCAAAATAT-TTACAGATTTACTAATATATCT-AACGA
* *
15672392 CTTTTCCAAAATATTTACA-ATTTACCAATATATCTAACGA
1 -TTTACCAAAATATTTACAGATTTACTAATATATCTAACGA
* *
15672432 TTTATCAAAAT-TTCTATAGATTTACTAATAT
1 TTTACCAAAATATT-TACAGATTTACTAATAT
15672463 TTATGAGGCT
Statistics
Matches: 85, Mismatches: 19, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
38 2 0.02
39 14 0.16
40 54 0.64
41 14 0.16
42 1 0.01
ACGTcount: A:0.39, C:0.14, G:0.05, T:0.42
Consensus pattern (40 bp):
TTTACCAAAATATTTACAGATTTACTAATATATCTAACGA
Found at i:15672460 original size:80 final size:80
Alignment explanation
Indices: 15672309--15672498 Score: 194
Period size: 80 Copynumber: 2.4 Consensus size: 80
15672299 AAATTTGTAT
* * *
15672309 GACTTTACCAAAATATTTAAGGATTTACTAATGTATCTAACGATTTACTAATATATCTAACAATT
1 GACTTTACCAAAATATTTAA-GATTTACCAATATATCTAACGATTTACTAAAATATCTAACAATT
*
15672374 TTCTAATATTTTCAAG
65 TACTAATATTTTCAAG
* * *
15672390 GACTTTTCCAAAATATTTACA-ATTTACCAATATATCTAACGATTTA-TCAAAATTTCTATA-GA
1 GACTTTACCAAAATATTTA-AGATTTACCAATATATCTAACGATTTACT-AAAATATCTA-ACAA
*
15672452 TTTACTAATATTTAT-GAG
63 TTTACTAATATTT-TCAAG
*
15672470 G-CTTTACAAAAAT-TTCTAAGATTTTACCA
1 GACTTTACCAAAATATT-TAAGA-TTTACCA
15672499 TTATTTCCAA
Statistics
Matches: 92, Mismatches: 10, Indels: 15
0.79 0.09 0.13
Matches are distributed among these distances:
78 3 0.03
79 14 0.15
80 54 0.59
81 20 0.22
82 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (80 bp):
GACTTTACCAAAATATTTAAGATTTACCAATATATCTAACGATTTACTAAAATATCTAACAATTT
ACTAATATTTTCAAG
Found at i:15672598 original size:20 final size:20
Alignment explanation
Indices: 15672575--15672632 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
15672565 AGTTTATATA
**
15672575 AATTTATCAATATTTCTTTG
1 AATTTATCAATATTTCTAAG
* * *
15672595 AATTTACCAAAATATCTAAG
1 AATTTATCAATATTTCTAAG
*
15672615 ACTTTATCAATATTTCTA
1 AATTTATCAATATTTCTA
15672633 TTATTTACCA
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.38, C:0.14, G:0.03, T:0.45
Consensus pattern (20 bp):
AATTTATCAATATTTCTAAG
Found at i:15672604 original size:40 final size:40
Alignment explanation
Indices: 15672555--15672651 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 40
15672545 AATCTTTAAC
15672555 TATTTACCAAAGTTTATATAA-A-TTTATCAATATTTCT-T
1 TATTTACCAAA-TTTATATAAGACTTTATCAATATTTCTAT
* *
15672593 TGAATTTACCAAA-ATATCTAAGACTTTATCAATATTTCTAT
1 T--ATTTACCAAATTTATATAAGACTTTATCAATATTTCTAT
*
15672634 TATTTACCAATTTTATAT
1 TATTTACCAAATTTATAT
15672652 GTATTTACTA
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
38 7 0.15
39 10 0.21
40 29 0.60
41 2 0.04
ACGTcount: A:0.37, C:0.12, G:0.03, T:0.47
Consensus pattern (40 bp):
TATTTACCAAATTTATATAAGACTTTATCAATATTTCTAT
Found at i:15672644 original size:19 final size:19
Alignment explanation
Indices: 15672576--15672659 Score: 55
Period size: 20 Copynumber: 4.3 Consensus size: 19
15672566 GTTTATATAA
*
15672576 ATTTATCAATATTTCT-TT
1 ATTTACCAATATTTCTATT
* * **
15672594 GAATTTACCAAAATATCTAAG
1 --ATTTACCAATATTTCTATT
*
15672615 ACTTTATCAATATTTCTATT
1 A-TTTACCAATATTTCTATT
*
15672635 ATTTACCAAT-TTTATATGT
1 ATTTACCAATATTTCTAT-T
15672654 ATTTAC
1 ATTTAC
15672660 TAAAATATCT
Statistics
Matches: 49, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
18 6 0.12
19 16 0.33
20 27 0.55
ACGTcount: A:0.35, C:0.13, G:0.04, T:0.49
Consensus pattern (19 bp):
ATTTACCAATATTTCTATT
Found at i:15672703 original size:26 final size:25
Alignment explanation
Indices: 15672674--15672722 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
15672664 ATATCTAACA
15672674 ATTTACTAAAATAATA-AACATTTTGG
1 ATTTAC-AAAAT-ATAGAACATTTTGG
*
15672700 ATTTACCAAATATAGAACATTTT
1 ATTTACAAAATATAGAACATTTT
15672723 ACCAAAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 3 0.14
25 12 0.57
26 6 0.29
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.39
Consensus pattern (25 bp):
ATTTACAAAATATAGAACATTTTGG
Found at i:15672886 original size:16 final size:16
Alignment explanation
Indices: 15672865--15672919 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
15672855 GTTTGGTTTG
15672865 CTGTAATGGAATAGAA
1 CTGTAATGGAATAGAA
* *
15672881 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAA
15672897 CTGTAATGGAATAGAA
1 CTGTAATGGAATAGAA
15672913 CTGTAAT
1 CTGTAAT
15672920 AGTAATTCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (16 bp):
CTGTAATGGAATAGAA
Found at i:15672994 original size:44 final size:45
Alignment explanation
Indices: 15672901--15672994 Score: 120
Period size: 44 Copynumber: 2.1 Consensus size: 45
15672891 ATAGAGCTGT
* * * *
15672901 AATGGAATAGAACTGTAATAGTAATTCAATTGTTTGGTTGAATGG
1 AATGAAATAGAACTGTAATAGTAATTCAATTGTTTGATTAAATAG
*
15672946 AATGAAATAGAACTGTAATAGT-ATTC-TTGTGTTTGATTAAATAG
1 AATGAAATAGAACTGTAATAGTAATTCAAT-TGTTTGATTAAATAG
15672990 AATGA
1 AATGA
15672995 TGTTGTAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
43 1 0.02
44 21 0.49
45 21 0.49
ACGTcount: A:0.38, C:0.04, G:0.21, T:0.36
Consensus pattern (45 bp):
AATGAAATAGAACTGTAATAGTAATTCAATTGTTTGATTAAATAG
Found at i:15678624 original size:20 final size:20
Alignment explanation
Indices: 15678599--15678647 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
15678589 GACCAAAGAG
15678599 AAAATTTATAT-TGATATATA
1 AAAATTTATATAT-ATATATA
* *
15678619 AAAATTCAAATATATATATA
1 AAAATTTATATATATATATA
*
15678639 AATATTTAT
1 AAAATTTAT
15678648 GCAAGAAATA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (20 bp):
AAAATTTATATATATATATA
Found at i:15681907 original size:15 final size:15
Alignment explanation
Indices: 15681844--15681912 Score: 66
Period size: 15 Copynumber: 4.6 Consensus size: 15
15681834 TTTTTAATTT
**
15681844 TATTTTATTTTATTT
1 TATTTTATTTTATGG
* **
15681859 TATTTTACTTTATTT
1 TATTTTATTTTATGG
**
15681874 TATTTTATTTTATTT
1 TATTTTATTTTATGG
*
15681889 TATTTTATTTTGTGG
1 TATTTTATTTTATGG
15681904 TATTTTATT
1 TATTTTATT
15681913 ATTCCTTTTA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 49 1.00
ACGTcount: A:0.19, C:0.01, G:0.04, T:0.75
Consensus pattern (15 bp):
TATTTTATTTTATGG
Found at i:15681912 original size:5 final size:5
Alignment explanation
Indices: 15681831--15681899 Score: 113
Period size: 5 Copynumber: 14.0 Consensus size: 5
15681821 TTATTATCTC
* *
15681831 ATTTT -TTTA ATTTT ATTTT ATTTT ATTTT ATTTT ACTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
15681880 ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT
15681900 GTGGTATTTT
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
4 3 0.05
5 56 0.95
ACGTcount: A:0.20, C:0.01, G:0.00, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:15685465 original size:21 final size:21
Alignment explanation
Indices: 15685439--15685480 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
15685429 TATATATATA
15685439 TATGTTCTATAAGCTGAATTT
1 TATGTTCTATAAGCTGAATTT
15685460 TATGTTCTATAAGCTGAATTT
1 TATGTTCTATAAGCTGAATTT
15685481 GATTTTATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.48
Consensus pattern (21 bp):
TATGTTCTATAAGCTGAATTT
Found at i:15686140 original size:41 final size:41
Alignment explanation
Indices: 15686095--15686181 Score: 113
Period size: 41 Copynumber: 2.1 Consensus size: 41
15686085 TGTGCGTAGT
15686095 AGGCTTAATGCCGGTGAAATAATTCAGACCT-TACGTCTAGC
1 AGGCTTAATGCCGGTGAAATAATTCAGA-CTATACGTCTAGC
* * * * *
15686136 AGGCTTAATGTCGGTGATATATTTCGGACTATAGGTCTAGC
1 AGGCTTAATGCCGGTGAAATAATTCAGACTATACGTCTAGC
15686177 AGGCT
1 AGGCT
15686182 AAGAGCTGGT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 2 0.05
41 38 0.95
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (41 bp):
AGGCTTAATGCCGGTGAAATAATTCAGACTATACGTCTAGC
Found at i:15694976 original size:15 final size:15
Alignment explanation
Indices: 15694956--15694985 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
15694946 GGATCCTGGT
15694956 ATTTCTGGGTTGAGA
1 ATTTCTGGGTTGAGA
15694971 ATTTCTGGGTTGAGA
1 ATTTCTGGGTTGAGA
15694986 TGCCTTCATA
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:0.20, C:0.07, G:0.33, T:0.40
Consensus pattern (15 bp):
ATTTCTGGGTTGAGA
Found at i:15695487 original size:26 final size:26
Alignment explanation
Indices: 15695460--15695510 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 26
15695450 AGTTAATAAA
15695460 TTCTCTTTGAGTTTTCTTTT-CAAGAAT
1 TTCTC-TTGAG-TTTCTTTTACAAGAAT
15695487 TTCTCTTGAGTTTCTTTTACAAGA
1 TTCTCTTGAGTTTCTTTTACAAGA
15695511 GTTTTAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 8 0.35
26 10 0.43
27 5 0.22
ACGTcount: A:0.20, C:0.16, G:0.12, T:0.53
Consensus pattern (26 bp):
TTCTCTTGAGTTTCTTTTACAAGAAT
Found at i:15698985 original size:32 final size:30
Alignment explanation
Indices: 15698940--15699005 Score: 71
Period size: 32 Copynumber: 2.1 Consensus size: 30
15698930 TTTTTTTATG
* *
15698940 AAAATTTTAATTAAGT-TCACTTAAAATATTTA
1 AAAATTCTAATTAA-TCTCAC-AAAAAT-TTTA
*
15698972 AAAATTCTCATTAATCTCACAAAAATTTTA
1 AAAATTCTAATTAATCTCACAAAAATTTTA
15699002 AAAA
1 AAAA
15699006 AATTAATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
30 8 0.27
31 6 0.20
32 16 0.53
ACGTcount: A:0.50, C:0.11, G:0.02, T:0.38
Consensus pattern (30 bp):
AAAATTCTAATTAATCTCACAAAAATTTTA
Found at i:15699755 original size:20 final size:21
Alignment explanation
Indices: 15699714--15699756 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
15699704 AATTCTTTAA
15699714 TTTATAATATTTTAAAAGGAT
1 TTTATAATATTTTAAAAGGAT
*
15699735 TTTATTATATTTTAAAA-GAT
1 TTTATAATATTTTAAAAGGAT
15699755 TT
1 TT
15699757 AAAACCCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (21 bp):
TTTATAATATTTTAAAAGGAT
Found at i:15707608 original size:25 final size:25
Alignment explanation
Indices: 15707534--15707608 Score: 96
Period size: 26 Copynumber: 2.9 Consensus size: 25
15707524 ACGAATTTTC
*
15707534 TCAAAATTTTACCAGGAATAAAATCA
1 TCAAAATTTTACCAGG-GTAAAATCA
* *
15707560 TCAAAATTTTATCGAGGGTAAAATCG
1 TCAAAATTTTA-CCAGGGTAAAATCA
*
15707586 TCAAAATTTTACTAGGGTAAAAT
1 TCAAAATTTTACCAGGGTAAAAT
15707609 TGGGTGAGAA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
25 11 0.25
26 29 0.66
27 4 0.09
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (25 bp):
TCAAAATTTTACCAGGGTAAAATCA
Found at i:15707893 original size:173 final size:173
Alignment explanation
Indices: 15707604--15707946 Score: 605
Period size: 173 Copynumber: 2.0 Consensus size: 173
15707594 TTACTAGGGT
* * *
15707604 AAAATTGGGTGAGAAAATTATTTAATATGTAGATATTAAAGTTTATTTTGGGAAATAAAAAAACT
1 AAAATTGAGTGAGAAAATTATTTAATATGTAGATATTAAAGTTTATTTTAGAAAATAAAAAAACT
* *
15707669 AAATCGGGTTGGATCATATTACAGGTACTCGGTCAAAACGGTTCAAGAAGTACTCGTAATTGAAC
66 AAATCGGGTTGGATCATATTACAGGTACTCAGTCAAAAAGGTTCAAGAAGTACTCGTAATTGAAC
*
15707734 CCGATGTGAGAAAGGCCCAAAATCCCTCATATAACATGAAAGG
131 CCGATGTGAGAAAGGCCCAAAACCCCTCATATAACATGAAAGG
*
15707777 AAAATTGAGTGAGAAAATTATTTAATATGTAGATATTAAAGTTTATTTTAGAAAATAGAAAAACT
1 AAAATTGAGTGAGAAAATTATTTAATATGTAGATATTAAAGTTTATTTTAGAAAATAAAAAAACT
* *
15707842 AAATCGGGTTGGATCATATTACAGGTACTCAGTCAAAAATGTTCAAGAAGTACTTGTAATTGAAC
66 AAATCGGGTTGGATCATATTACAGGTACTCAGTCAAAAAGGTTCAAGAAGTACTCGTAATTGAAC
15707907 CCGATGTGAGAAAGGCCCAAAACCCCTCATATAACATGAA
131 CCGATGTGAGAAAGGCCCAAAACCCCTCATATAACATGAA
15707947 GGGGGCGGCA
Statistics
Matches: 161, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
173 161 1.00
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.28
Consensus pattern (173 bp):
AAAATTGAGTGAGAAAATTATTTAATATGTAGATATTAAAGTTTATTTTAGAAAATAAAAAAACT
AAATCGGGTTGGATCATATTACAGGTACTCAGTCAAAAAGGTTCAAGAAGTACTCGTAATTGAAC
CCGATGTGAGAAAGGCCCAAAACCCCTCATATAACATGAAAGG
Found at i:15710060 original size:40 final size:40
Alignment explanation
Indices: 15709977--15710179 Score: 203
Period size: 40 Copynumber: 5.1 Consensus size: 40
15709967 AGATCAACTG
* * * * * *
15709977 AACACACTAGACAAAAGCTTATAAGAGCTTA-CCAAACCAA
1 AACACACCAAACAGAAGCTCATAAGAGCTGATCC-AACCGA
* * *
15710017 AACACACCAAATAAAAGCTCATAAGAGCTGATTCAACCGA
1 AACACACCAAACAGAAGCTCATAAGAGCTGATCCAACCGA
*** **
15710057 AACATGTCAAACAGAAGCTCATAAGAGCTGATCCAATTGA
1 AACACACCAAACAGAAGCTCATAAGAGCTGATCCAACCGA
* * * *
15710097 AACACACCAGACAGAAGCTTATAAGAG-TTATCCAACTGA
1 AACACACCAAACAGAAGCTCATAAGAGCTGATCCAACCGA
* *
15710136 AACACACCAGACAGAAGCTCATAAAAGCTGATCCAACCGA
1 AACACACCAAACAGAAGCTCATAAGAGCTGATCCAACCGA
15710176 AACA
1 AACA
15710180 GCCAAATAGA
Statistics
Matches: 135, Mismatches: 26, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
39 35 0.26
40 99 0.73
41 1 0.01
ACGTcount: A:0.46, C:0.25, G:0.14, T:0.15
Consensus pattern (40 bp):
AACACACCAAACAGAAGCTCATAAGAGCTGATCCAACCGA
Found at i:15710178 original size:79 final size:80
Alignment explanation
Indices: 15709971--15710179 Score: 217
Period size: 79 Copynumber: 2.6 Consensus size: 80
15709961 ATCGCCAGAT
* * * * * *
15709971 CAACTG-AACACACTAGACAAAAGCTTATAAGAGCTTA-CCAAACCAAAACACACCAAATAAAAG
1 CAACTGAAACACACCAGACAGAAGCTCATAAGAGCTGATCC-AACCGAAACACACCAAACAAAAG
*
15710034 CTCATAAGAGCTGATT
65 CTCATAAGAGCTGATC
* *** * ** * *
15710050 CAACCGAAACATGTCAAACAGAAGCTCATAAGAGCTGATCCAATTGAAACACACCAGACAGAAGC
1 CAACTGAAACACACCAGACAGAAGCTCATAAGAGCTGATCCAACCGAAACACACCAAACAAAAGC
* *
15710115 TTATAAGAG-TTATC
66 TCATAAGAGCTGATC
*
15710129 CAACTGAAACACACCAGACAGAAGCTCATAAAAGCTGATCCAACCGAAACA
1 CAACTGAAACACACCAGACAGAAGCTCATAAGAGCTGATCCAACCGAAACA
15710180 GCCAAATAGA
Statistics
Matches: 102, Mismatches: 26, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
79 51 0.50
80 49 0.48
81 2 0.02
ACGTcount: A:0.46, C:0.25, G:0.14, T:0.15
Consensus pattern (80 bp):
CAACTGAAACACACCAGACAGAAGCTCATAAGAGCTGATCCAACCGAAACACACCAAACAAAAGC
TCATAAGAGCTGATC
Found at i:15712783 original size:16 final size:16
Alignment explanation
Indices: 15712762--15712820 Score: 50
Period size: 16 Copynumber: 3.7 Consensus size: 16
15712752 TTAATCAATT
15712762 TAATATTAAATTAATA
1 TAATATTAAATTAATA
** *
15712778 TAATATTTATCTTGATA
1 TAATA-TTAAATTAATA
*
15712795 -AATATTATATTAAT-
1 TAATATTAAATTAATA
15712809 TAAATATTAAAT
1 T-AATATTAAAT
15712821 CTTATTAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
15 8 0.24
16 18 0.53
17 8 0.24
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (16 bp):
TAATATTAAATTAATA
Found at i:15714525 original size:16 final size:16
Alignment explanation
Indices: 15714504--15714534 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15714494 CTATGCATGC
*
15714504 AAAATATAAAAGACAA
1 AAAATAAAAAAGACAA
15714520 AAAATAAAAAAGACA
1 AAAATAAAAAAGACA
15714535 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.77, C:0.06, G:0.06, T:0.10
Consensus pattern (16 bp):
AAAATAAAAAAGACAA
Found at i:15716639 original size:29 final size:30
Alignment explanation
Indices: 15716602--15716661 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
15716592 TTTCGTTTTT
*
15716602 TCGACCTAATTCGATAAATTT-TAAAAAAA
1 TCGACCTAATTCGACAAATTTCTAAAAAAA
*
15716631 TCGATCTAATTCGACAAATTTCTAAAAAAA
1 TCGACCTAATTCGACAAATTTCTAAAAAAA
15716661 T
1 T
15716662 TGGTATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
29 19 0.68
30 9 0.32
ACGTcount: A:0.47, C:0.15, G:0.07, T:0.32
Consensus pattern (30 bp):
TCGACCTAATTCGACAAATTTCTAAAAAAA
Found at i:15716725 original size:17 final size:17
Alignment explanation
Indices: 15716703--15716735 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
15716693 GTCCATTAAT
*
15716703 TAATATACTATCATAAA
1 TAATATACTATAATAAA
15716720 TAATATACTATAATAA
1 TAATATACTATAATAA
15716736 GAAATTATAA
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:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (17 bp):
TAATATACTATAATAAA
Found at i:15718002 original size:3 final size:3
Alignment explanation
Indices: 15717994--15718030 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
15717984 ACATGTAACT
15717994 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
15718031 CATTTCAGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:15728222 original size:5 final size:5
Alignment explanation
Indices: 15728212--15728261 Score: 59
Period size: 5 Copynumber: 10.2 Consensus size: 5
15728202 TTTTTTACTT
* *
15728212 ATATA ATATA ATACA ATATA ATATA ATAT- ATAATA AAATA ATAT- ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA ATATA ATATA
15728261 A
1 A
15728262 AGCATAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
4 6 0.16
5 31 0.82
6 1 0.03
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (5 bp):
ATATA
Found at i:15728247 original size:15 final size:16
Alignment explanation
Indices: 15728211--15728260 Score: 68
Period size: 15 Copynumber: 3.2 Consensus size: 16
15728201 TTTTTTTACT
*
15728211 TATATAATATAATACA
1 TATATAATATAATATA
15728227 -ATATAATATAATATA
1 TATATAATATAATATA
*
15728242 TA-ATAAAATAATATA
1 TATATAATATAATATA
15728257 TATA
1 TATA
15728261 AAGCATAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 28 0.93
16 2 0.07
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (16 bp):
TATATAATATAATATA
Done.