Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 43 of 182
Found at i:15803714 original size:13 final size:15
Alignment explanation
Indices: 15803685--15803716 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
15803675 TTTTTTATTT
15803685 AAAAATGTGACATAA
1 AAAAATGTGACATAA
15803700 AAAAAT-TGACA-AA
1 AAAAATGTGACATAA
15803713 AAAA
1 AAAA
15803717 TTTAAACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 5 0.29
15 6 0.35
ACGTcount: A:0.69, C:0.06, G:0.09, T:0.16
Consensus pattern (15 bp):
AAAAATGTGACATAA
Found at i:15804149 original size:10 final size:9
Alignment explanation
Indices: 15804120--15804145 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
15804110 ATTTTATATT
15804120 AATATTTTA
1 AATATTTTA
15804129 AATATTTTA
1 AATATTTTA
15804138 AATATTTT
1 AATATTTT
15804146 TAAAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
AATATTTTA
Found at i:15805182 original size:17 final size:17
Alignment explanation
Indices: 15805162--15805225 Score: 56
Period size: 17 Copynumber: 3.5 Consensus size: 17
15805152 TTCATTTTGG
15805162 GTTTAAATTTAATTTAA
1 GTTTAAATTTAATTTAA
**
15805179 GTTTAAACTTTTTCTTTTAAA
1 GTTTAAA---TTTAATTT-AA
*
15805200 GTTTAAATTTAATTAAA
1 GTTTAAATTTAATTTAA
*
15805217 GATTAAATT
1 GTTTAAATT
15805226 AAAAATTGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
17 17 0.46
18 5 0.14
20 6 0.16
21 9 0.24
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.52
Consensus pattern (17 bp):
GTTTAAATTTAATTTAA
Found at i:15806744 original size:100 final size:100
Alignment explanation
Indices: 15806578--15807229 Score: 982
Period size: 100 Copynumber: 6.5 Consensus size: 100
15806568 GCACCATGAA
* * * * * *
15806578 ACATGACGAGAAAGATTTAAGACCACAATGGCAGATCCAGTACTGCAAAGATACAAAAGGGAAAG
1 ACATGACGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCGCAAAGATACAAAAGGGAAAG
15806643 GTTACGATCGCAACGGCGAACCTTGTACCTCAGAG
66 GTTACGATCGCAACGGCGAACCTTGTACCTCAGAG
* *
15806678 ACATGACGGGAAAGATCTAAGATCGCAACGGTGGATCCAGTACCGCAAAGATACAAAAGGGAAAG
1 ACATGACGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCGCAAAGATACAAAAGGGAAAG
* *
15806743 GTTACGATTGTAACGGCGAACCTTGTACCTCAGAG
66 GTTACGATCGCAACGGCGAACCTTGTACCTCAGAG
* *
15806778 ACATGACGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCGTAAAGATATAAAAGGGAAAG
1 ACATGACGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCGCAAAGATACAAAAGGGAAAG
*
15806843 GTTACGATCACAACGGCGAACCTTGTACCTCAGAG
66 GTTACGATCGCAACGGCGAACCTTGTACCTCAGAG
* *
15806878 ACATGATGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCGAAAAGATACAAAAGGGAAAG
1 ACATGACGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCGCAAAGATACAAAAGGGAAAG
* *
15806943 GTTACGATCTCAACGACGAACCTTGTACCTCAGAG
66 GTTACGATCGCAACGGCGAACCTTGTACCTCAGAG
15806978 ACATGACGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCGCAAAGATACAAAAGGGAAAG
1 ACATGACGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCGCAAAGATACAAAAGGGAAAG
15807043 GTTACGATCGCAACGGCGAACCTTGTACCTCAGAG
66 GTTACGATCGCAACGGCGAACCTTGTACCTCAGAG
* * * * * * *
15807078 ACATGATGAGAAAGATCTAAGACCGTAACAGCGGATCCAGTACCACAAAGATACAAAAAAGGAAG
1 ACATGACGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCGCAAAGATAC-AAAAGGGAAA
* * *
15807143 GGTTTAAG-TCGCAACGGTGAACCTTGTACCTTAGAG
65 GG-TTACGATCGCAACGGCGAACCTTGTACCTCAGAG
* * * * * *
15807179 ACATGACGGGAAAGATCTAAAATCGCAACGGTGAATCTAGTACCGCGAAGA
1 ACATGACGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCGCAAAGA
15807230 CATAAGAGAA
Statistics
Matches: 503, Mismatches: 47, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
100 423 0.84
101 76 0.15
102 4 0.01
ACGTcount: A:0.38, C:0.21, G:0.25, T:0.16
Consensus pattern (100 bp):
ACATGACGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCGCAAAGATACAAAAGGGAAAG
GTTACGATCGCAACGGCGAACCTTGTACCTCAGAG
Found at i:15807364 original size:48 final size:48
Alignment explanation
Indices: 15807204--15807423 Score: 161
Period size: 48 Copynumber: 4.5 Consensus size: 48
15807194 TCTAAAATCG
* * * * * * * * *
15807204 CAACGGTGAATCTAGTACCGCGAAGACATAAGAGAAAAATCTAAACCG
1 CAACGGCGGATCTAGTACCACGAAGACACAAGGGAAAGATATAAGCCA
** * * * * * * *
15807252 CAACTACGGATCCAGTACTACAAAAACACGATGGGAACGATCTAAGACCA
1 CAACGGCGGATCTAGTACCACGAAGACAC-AAGGGAAAGATATAAG-CCA
* * * *
15807302 TAACGACGGATCTAGTACCACGAGGACACAAGGGAAAGATTTAAGCCA
1 CAACGGCGGATCTAGTACCACGAAGACACAAGGGAAAGATATAAGCCA
* * * * **
15807350 CAATGGCGGGTCTAGTGCCACGAAGACACAAGGGAAGGATATAAGCTG
1 CAACGGCGGATCTAGTACCACGAAGACACAAGGGAAAGATATAAGCCA
*
15807398 CAACGGCGGATCCAGTACCACGAAGA
1 CAACGGCGGATCTAGTACCACGAAGA
15807424 TTTGAAGGGA
Statistics
Matches: 130, Mismatches: 40, Indels: 4
0.75 0.23 0.02
Matches are distributed among these distances:
48 82 0.63
49 24 0.18
50 24 0.18
ACGTcount: A:0.39, C:0.23, G:0.25, T:0.14
Consensus pattern (48 bp):
CAACGGCGGATCTAGTACCACGAAGACACAAGGGAAAGATATAAGCCA
Found at i:15808074 original size:206 final size:206
Alignment explanation
Indices: 15807716--15808603 Score: 1312
Period size: 206 Copynumber: 4.3 Consensus size: 206
15807706 ACCCCGAGCA
* * *
15807716 AGAAGCGGATTGAAACAAGTGATGCGGTCATCTTCTTGATAAGATACTGAGAAGAAGATCAAATC
1 AGAAGCGGATTGAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATC
* *
15807781 AAACCCACGCTCGATATGAGCAAATCTTCGAA-CTCTAGCTTTCTGATGAGATACTGAGAAATAG
66 AAACCCACGCTCGATATGAGCAAATCTTCGAACCTC-AGCTTCCTGATGAGATACTGAGAAACAG
* * ** * *
15807845 GTCGAAGCAATAAAATTGTTAGCTTCCTAATGAGATATTGAGAAGTGGACCAAATTCGTCTTCCT
130 GTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCT
* *
15807910 GATGAGATACAG
195 GATGAAACACAG
15807922 AGAAGCGGATTGAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATC
1 AGAAGCGGATTGAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATC
* * *
15807987 AAACCCACGCTCGATGTGAGCAAATCTTCGAACC-CTAGCTTCCTGATGAGATACTAAGAAGCAG
66 AAACCCACGCTCGATATGAGCAAATCTTCGAACCTC-AGCTTCCTGATGAGATACTGAGAAACAG
* * * * * * * *
15808051 GTCAAAGCAATAAAATGGTTAGCTTTCTGATGAGATACTGAGAAGTGGACCAAATTCATTTTTCT
130 GTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCT
* *
15808116 GATGAGATACAG
195 GATGAAACACAG
* *
15808128 AGAAGCGGATTGAAACAAGTGATGCGGTAATCTTTCTGATGAGATACTGAGAAGAAGACCAAATC
1 AGAAGCGGATTGAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATC
* * *
15808193 AAACCCATGCTCGATGTGAGCAAATCTTCGAACCTCAGCTTCCTGATGAGTTACTGAGAAACAGG
66 AAACCCACGCTCGATATGAGCAAATCTTCGAACCTCAGCTTCCTGATGAGATACTGAGAAACAGG
* *
15808258 TCGAAGCAATAAAGTGGTTAGCTTCCTGATAAGATACAGAGAAGTGAACCAAATCCGTCTTCCTG
131 TCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTG
15808323 ATGAAACACAG
196 ATGAAACACAG
* ** * * *
15808334 AGAAGTGGATCAAAACAAGTGATGCGGTCATCTTTCTAATGAGATATTGAGAAGAAGACCAAATC
1 AGAAGCGGATTGAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATC
* *
15808399 AAACTCACGCTCGATATGAGCAAATCTTCGAACCTCAGCTTCCTGATGAGATACTGAGAAGCAGG
66 AAACCCACGCTCGATATGAGCAAATCTTCGAACCTCAGCTTCCTGATGAGATACTGAGAAACAGG
* * *
15808464 TTGAAGCAATAAAGTGGTTAGCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCTTG
131 TCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTG
15808529 ATGAAACACAG
196 ATGAAACACAG
* ** *
15808540 AGAAGTGGATCAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGGCCAAAT
1 AGAAGCGGATTGAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAAT
15808604 TAATATAACT
Statistics
Matches: 628, Mismatches: 52, Indels: 4
0.92 0.08 0.01
Matches are distributed among these distances:
206 626 1.00
207 2 0.00
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.24
Consensus pattern (206 bp):
AGAAGCGGATTGAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATC
AAACCCACGCTCGATATGAGCAAATCTTCGAACCTCAGCTTCCTGATGAGATACTGAGAAACAGG
TCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTG
ATGAAACACAG
Found at i:15808993 original size:18 final size:18
Alignment explanation
Indices: 15808970--15809004 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
15808960 ACTTTTTCTT
*
15808970 TTAAAGTTTAAATTTAAG
1 TTAAAGATTAAATTTAAG
15808988 TTAAAGATTAAATTTAA
1 TTAAAGATTAAATTTAA
15809005 AATTGGATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (18 bp):
TTAAAGATTAAATTTAAG
Found at i:15809830 original size:19 final size:19
Alignment explanation
Indices: 15809808--15809852 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
15809798 AATACGCTTT
*
15809808 TTAATAATTATT-ATTAATA
1 TTAATAATT-TTAATAAATA
*
15809827 TTAATGATTTTAATAAATA
1 TTAATAATTTTAATAAATA
15809846 TTAATAA
1 TTAATAA
15809853 AAAATTTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 2 0.09
19 20 0.91
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (19 bp):
TTAATAATTTTAATAAATA
Found at i:15810690 original size:18 final size:18
Alignment explanation
Indices: 15810664--15810699 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
15810654 CAACCAAAAA
15810664 TAAAATATACATTTAAAT
1 TAAAATATACATTTAAAT
* *
15810682 TAAACTATATATTTAAAT
1 TAAAATATACATTTAAAT
15810700 ATTAAATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAAATATACATTTAAAT
Found at i:15810856 original size:100 final size:104
Alignment explanation
Indices: 15810628--15810887 Score: 298
Period size: 106 Copynumber: 2.5 Consensus size: 104
15810618 TATCATCGGG
* * * *
15810628 AATTGGTGGCGCCATTTAAAATAGCTCAACCAAAAATAAAATATACA-TTTAAATTAAACTATAT
1 AATTGGTGGCGCCATTTAAAATGGCTCCACAAAAAATAAAATATAAATTTTAAATTAAAC-ATAT
*
15810692 ATTTAAATATTAAATAATAAATAATAATAAAACAAAAAATT
65 A-TTAAATATTAAATAATAAATAATAATAAAACAAAAAATC
* * *
15810733 AATTGGGTGGCACCATTTAAAATGGCTCCACTAAAAATAAAATATATATTTTAAATTAAAC-TAT
1 AATT-GGTGGCGCCATTTAAAATGGCTCCACAAAAAATAAAATATAAATTTTAAATTAAACATAT
* * *
15810797 A-T-AATATTATATAATAAATAA-AA-CAAACAAAAAGTC
65 ATTAAATATTAAATAATAAATAATAATAAAACAAAAAATC
* * *
15810833 AATTGAGTGACGCCATTTAAAATGACTCCACCAAAAAATATAAATTTAAATTTTA
1 AATTG-GTGGCGCCATTTAAAATGGCTCCA-CAAAAAATA-AAATATAAATTTTA
15810888 TAAAATAAAT
Statistics
Matches: 135, Mismatches: 15, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
99 1 0.01
100 35 0.26
101 10 0.07
102 30 0.22
103 1 0.01
105 8 0.06
106 38 0.28
107 12 0.09
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.30
Consensus pattern (104 bp):
AATTGGTGGCGCCATTTAAAATGGCTCCACAAAAAATAAAATATAAATTTTAAATTAAACATATA
TTAAATATTAAATAATAAATAATAATAAAACAAAAAATC
Found at i:15810911 original size:100 final size:102
Alignment explanation
Indices: 15810639--15810915 Score: 246
Period size: 100 Copynumber: 2.7 Consensus size: 102
15810629 ATTGGTGGCG
* * * *
15810639 CCATTTAAAAT-AGCTCAACCAAAAATAAAATATACA-TTTAAATTAAACTATATATTTAAATAT
1 CCATTTAAAATGA-CTCCACAAAAAATAAAATATAAATTTTAAAATAAAC--TATA--T-AATAT
* * * *
15810702 TAAATAATAAATAATAATAAAACAAAAAATTAATTGGGTGGCA
60 CAAATAATAAATAATAATAAAACAAAAAATCAATTGAGTGACA
* * * * * *
15810745 CCATTTAAAATGGCTCCACTAAAAATAAAATATATATTTTAAATTAAACTATATAATATTATATA
1 CCATTTAAAATGACTCCACAAAAAATAAAATATAAATTTTAAAATAAACTATATAATATCAAATA
* * *
15810810 ATAAATAA-AA-CAAACAAAAAGTCAATTGAGTGACG
66 ATAAATAATAATAAAACAAAAAATCAATTGAGTGACA
*
15810845 CCATTTAAAATGACTCCACCAAAAAATATAAATTTAAATTTTATAAAATAAA-TA-ATAA-A-CA
1 CCATTTAAAATGACTCCA-CAAAAAATA-AAATATAAA-TTT-TAAAATAAACTATATAATATCA
15810906 AATAATAAAT
62 AATAATAAAT
15810916 CATTAAAAAA
Statistics
Matches: 147, Mismatches: 18, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
100 46 0.31
101 11 0.07
102 29 0.20
103 6 0.04
104 8 0.05
105 4 0.03
106 31 0.21
107 12 0.08
ACGTcount: A:0.55, C:0.10, G:0.05, T:0.30
Consensus pattern (102 bp):
CCATTTAAAATGACTCCACAAAAAATAAAATATAAATTTTAAAATAAACTATATAATATCAAATA
ATAAATAATAATAAAACAAAAAATCAATTGAGTGACA
Found at i:15811162 original size:100 final size:99
Alignment explanation
Indices: 15810901--15811177 Score: 336
Period size: 95 Copynumber: 2.8 Consensus size: 99
15810891 AATAAATAAT
* * * *
15810901 AAACAAATAATAAATCATTAAAAAAAAGTTGAGTATTCGTGGAAAATATTGGCA-C--CATTTAA
1 AAACAAATAATAAATAATTAAAAAAAAGTTGAGTATTC-TTG-AAA-AGTGGAAGCGTCATTTAA
*
15810963 TATGGTTCCA-C--AAAAA-AATTTTAAATTTTTAAA
63 TATGGTTCCACCAAAAAAAGAAATTTAAATTTTTAAA
* *
15810996 AGACAAATAATAAATTATTAAAAAAAAGTTGAGTATTCTTGAAAAGTGGAAGCGTCATTTAATAT
1 AAACAAATAATAAATAATTAAAAAAAAGTTGAGTATTCTTGAAAAGTGGAAGCGTCATTTAATAT
15811061 GGTTCCACCAAAAAAAGAAATTTAAATTTTTAAA
66 GGTTCCACCAAAAAAAGAAATTTAAATTTTTAAA
* * * *
15811095 AAATAAATAATAAATAATTAAAAGAAAGATTGA-TATTTCTTGAAAAGTGGTATCGTCATTTAAT
1 AAACAAATAATAAATAATTAAAAAAAAG-TTGAGTA-TTCTTGAAAAGTGGAAGCGTCATTTAAT
* *
15811159 ATGGCTCAACCAAAAAAAG
64 ATGGTTCCACCAAAAAAAG
15811178 GAAAATTATT
Statistics
Matches: 159, Mismatches: 14, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
92 5 0.03
93 4 0.03
94 2 0.01
95 53 0.33
96 1 0.01
98 5 0.03
99 42 0.26
100 47 0.30
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.30
Consensus pattern (99 bp):
AAACAAATAATAAATAATTAAAAAAAAGTTGAGTATTCTTGAAAAGTGGAAGCGTCATTTAATAT
GGTTCCACCAAAAAAAGAAATTTAAATTTTTAAA
Found at i:15813611 original size:18 final size:18
Alignment explanation
Indices: 15813588--15813626 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
15813578 TGACTCCACC
15813588 AAAATAAAATATACATTT
1 AAAATAAAATATACATTT
* *
15813606 AAAATAAACTATATATTT
1 AAAATAAAATATACATTT
15813624 AAA
1 AAA
15813627 TATTATATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAATAAAATATACATTT
Found at i:15813726 original size:11 final size:11
Alignment explanation
Indices: 15813710--15813734 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15813700 AAAATTTATA
15813710 AAACAAATAAT
1 AAACAAATAAT
15813721 AAACAAATAAT
1 AAACAAATAAT
15813732 AAA
1 AAA
15813735 TCATTAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (11 bp):
AAACAAATAAT
Found at i:15814926 original size:26 final size:26
Alignment explanation
Indices: 15814890--15814953 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
15814880 GAATATGAGT
* *
15814890 GACGCCAATGACGACACG-TCGTCGTC
1 GACGCCGATGACGACACGCT-ATCGTC
*
15814916 GACGCCGATGACGACACGCTATCGTT
1 GACGCCGATGACGACACGCTATCGTC
15814942 GACGCCGATGAC
1 GACGCCGATGAC
15814954 AATGACGATG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 33 0.97
27 1 0.03
ACGTcount: A:0.23, C:0.33, G:0.28, T:0.16
Consensus pattern (26 bp):
GACGCCGATGACGACACGCTATCGTC
Found at i:15815057 original size:18 final size:18
Alignment explanation
Indices: 15815034--15815068 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15815024 TTGGGTTGAG
*
15815034 TTATTTTCTTTGATGAAA
1 TTATTTTCTTTCATGAAA
*
15815052 TTATTTTTTTTCATGAA
1 TTATTTTCTTTCATGAA
15815069 TTTTGGTTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.06, G:0.09, T:0.60
Consensus pattern (18 bp):
TTATTTTCTTTCATGAAA
Found at i:15816575 original size:18 final size:18
Alignment explanation
Indices: 15816549--15816584 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
15816539 CCACCAAAAA
15816549 TAAAATATACATTTAAAT
1 TAAAATATACATTTAAAT
* *
15816567 TAAACTATATATTTAAAT
1 TAAAATATACATTTAAAT
15816585 ATTAAATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAAATATACATTTAAAT
Found at i:15816741 original size:100 final size:98
Alignment explanation
Indices: 15816525--15816844 Score: 445
Period size: 100 Copynumber: 3.2 Consensus size: 98
15816515 TTGGTGGTAC
*
15816525 CATTTAGAATGGCTCCACCAAAAATAAAATATACA-TTTAAATTAAACTATATATTTAAATA-T-
1 CATTTAAAAT-GCTCCACCAAAAATAAAATATACATTTTAAATTAAACTATATATTTAAATATTA
* *
15816587 TA-AAT--AATAATAAAAAATTAATTGGGTGGCGT
65 TATAATAAAAAAATAAAAAATCAATT-GGTGGCGT
15816619 CATTTAAAATGACTCCACCAAAAATAAAATATACATTTTAAATTAAACTATATATTTAAATATTA
1 CATTTAAAATG-CTCCACCAAAAATAAAATATACATTTTAAATTAAACTATATATTTAAATATTA
*
15816684 TATAATAAAAAAATAAAAAATCAATTGGATGACGT
65 TATAATAAAAAAATAAAAAATCAATTGG-TGGCGT
* * *
15816719 CATTTAAAATAGTTCCATCAAAAATAAAATATACATTTTATATTAAACTATATATTTAAATATTA
1 CATTTAAAAT-GCTCCACCAAAAATAAAATATACATTTTAAATTAAACTATATATTTAAATATTA
*
15816784 TATAATAAATAAAAAATAAAAAATCAATTTGGTGGCGC
65 TATAAT--A-AAAAAATAAAAAATCAA-TTGGTGGCGT
15816822 CATTTAAAATGCTCCACCAAAAA
1 CATTTAAAATGCTCCACCAAAAA
15816845 AATAAATTTA
Statistics
Matches: 202, Mismatches: 11, Indels: 18
0.87 0.05 0.08
Matches are distributed among these distances:
93 1 0.00
94 32 0.16
95 26 0.13
96 1 0.00
97 2 0.01
98 3 0.01
99 2 0.01
100 87 0.43
101 1 0.00
102 12 0.06
103 31 0.15
104 4 0.02
ACGTcount: A:0.50, C:0.11, G:0.07, T:0.33
Consensus pattern (98 bp):
CATTTAAAATGCTCCACCAAAAATAAAATATACATTTTAAATTAAACTATATATTTAAATATTAT
ATAATAAAAAAATAAAAAATCAATTGGTGGCGT
Found at i:15816901 original size:103 final size:101
Alignment explanation
Indices: 15816585--15816902 Score: 276
Period size: 103 Copynumber: 3.1 Consensus size: 101
15816575 ATATTTAAAT
* *
15816585 ATTAAATAATAATAAAAAATTAATTGGGTGGCGTCATTTAAAATGACTCCACCAAAAATAAAATA
1 ATTAAA-AA-AATAAAAAATCAATTTGGTGGCGTCATTTAAAATG-CTCCACCAAAAATAAAATA
* ** *
15816650 TACA--TTTTAAATTAAAC-TATATATTTAAAT-ATTATATA
63 TACATTTTTTAAA--AAACAAATATAAATAAATAATAAT-TA
* * *
15816688 A-TAAAAAAATAAAAAATCAA-TTGGATGACGTCATTTAAAATAGTTCCATCAAAAATAAAATAT
1 ATTAAAAAAATAAAAAATCAATTTGG-TGGCGTCATTTAAAAT-GCTCCACCAAAAATAAAATAT
* ** * *
15816751 ACATTTTATATTAAACTATATATTTAAAT-ATTATATAA-TA
64 ACATTTTTTAAAAAAC-A-A-ATATAAATAAATA-ATAATTA
* * * *
15816791 AAT-AAAAAATAAAAAATCAATTTGGTGGCGCCATTTAAAATGCTCCACCAAAAAAATAAATTTA
1 ATTAAAAAAATAAAAAATCAATTTGGTGGCGTCATTTAAAATGCTCCACCAAAAATA-AAATATA
*
15816855 AATTTTTTAAAAAACAAATCATAAATAAATAATAATTA
65 CATTTTTTAAAAAACAAAT-ATAAATAAATAATAATTA
15816893 ATTAAAAAAA
1 ATTAAAAAAA
15816903 GTTGAGTATT
Statistics
Matches: 171, Mismatches: 27, Indels: 34
0.74 0.12 0.15
Matches are distributed among these distances:
99 3 0.02
100 54 0.32
101 13 0.08
102 28 0.16
103 60 0.35
104 10 0.06
105 3 0.02
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.32
Consensus pattern (101 bp):
ATTAAAAAAATAAAAAATCAATTTGGTGGCGTCATTTAAAATGCTCCACCAAAAATAAAATATAC
ATTTTTTAAAAAACAAATATAAATAAATAATAATTA
Found at i:15817857 original size:21 final size:21
Alignment explanation
Indices: 15817817--15817857 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
15817807 TTTTTATTTT
*
15817817 AATTAGGGTTTAGGTTTTTAA
1 AATTAGGGTTTAGGTATTTAA
15817838 AATTAGGGTTTTA-GTATTTA
1 AATTAGGG-TTTAGGTATTTA
15817858 TTTTATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (21 bp):
AATTAGGGTTTAGGTATTTAA
Found at i:15817982 original size:19 final size:22
Alignment explanation
Indices: 15817937--15817983 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
15817927 TTTTCTTATT
15817937 TTATTTTTATTCAAATATTTAA
1 TTATTTTTATTCAAATATTTAA
15817959 TTATTTTTA-T-AAATATTT-A
1 TTATTTTTATTCAAATATTTAA
15817978 TTATTT
1 TTATTT
15817984 ATTTTTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.28
20 8 0.32
21 1 0.04
22 9 0.36
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (22 bp):
TTATTTTTATTCAAATATTTAA
Found at i:15817985 original size:23 final size:23
Alignment explanation
Indices: 15817936--15817990 Score: 71
Period size: 22 Copynumber: 2.4 Consensus size: 23
15817926 TTTTTCTTAT
15817936 TTTATTTTTATTCAAATATTTAA
1 TTTATTTTTATTCAAATATTTAA
15817959 -TTATTTTTA-T-AAATATTTATTA
1 TTTATTTTTATTCAAATATTTA--A
15817981 TTTATTTTTA
1 TTTATTTTTA
15817991 ATTAAATCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
20 9 0.31
21 1 0.03
22 10 0.34
23 9 0.31
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (23 bp):
TTTATTTTTATTCAAATATTTAA
Found at i:15818309 original size:59 final size:59
Alignment explanation
Indices: 15818238--15818380 Score: 225
Period size: 59 Copynumber: 2.4 Consensus size: 59
15818228 AACTTTACCC
* * *
15818238 AAAACTAATGTGTACAAAAATATTCAAATGAACTTT-GCTTTTATTAAATTAAACAATAT
1 AAAAATAATGTGTACAAAAATATTCAAATGAA-TTTCGCTTTTATTAAATGAAACAAAAT
15818297 AAAAATAATGTGTACAAAAATATTCAAATGAATTTCGCTTTTATTAAATGAAACAAAAT
1 AAAAATAATGTGTACAAAAATATTCAAATGAATTTCGCTTTTATTAAATGAAACAAAAT
* *
15818356 AAAAATATTGTTTACAAAAATATTC
1 AAAAATAATGTGTACAAAAATATTC
15818381 GAAAATAATC
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
58 3 0.04
59 75 0.96
ACGTcount: A:0.50, C:0.09, G:0.07, T:0.34
Consensus pattern (59 bp):
AAAAATAATGTGTACAAAAATATTCAAATGAATTTCGCTTTTATTAAATGAAACAAAAT
Found at i:15818824 original size:16 final size:17
Alignment explanation
Indices: 15818785--15818818 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
15818775 TAGAAAATGA
15818785 AAATATATAAGGGTTAGG
1 AAATATATAAGGGTTA-G
15818803 AAATATATAAGGGTTA
1 AAATATATAAGGGTTA
15818819 AGATATGCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.24, T:0.29
Consensus pattern (17 bp):
AAATATATAAGGGTTAG
Found at i:15820376 original size:18 final size:19
Alignment explanation
Indices: 15820355--15820453 Score: 58
Period size: 21 Copynumber: 4.8 Consensus size: 19
15820345 GATTATTCAC
15820355 ATAAAAAATATTAAAAA-A
1 ATAAAAAATATTAAAAATA
15820373 ATAAATTAAAT-TATAAAAATA
1 ATAAA--AAATAT-TAAAAATA
* *
15820394 ATATAAAATAATTAAATTATA
1 ATAAAAAAT-ATTAAA-AATA
* *
15820415 AAAACAAAATAAGTAATAAATA
1 ATAA-AAAAT-ATTAA-AAATA
*
15820437 ATATAAAATAATTAAAA
1 ATAAAAAAT-ATTAAAA
15820454 TTAACTCTTA
Statistics
Matches: 63, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
18 5 0.08
19 5 0.08
20 16 0.25
21 21 0.33
22 15 0.24
23 1 0.02
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.28
Consensus pattern (19 bp):
ATAAAAAATATTAAAAATA
Found at i:15820413 original size:27 final size:27
Alignment explanation
Indices: 15820370--15820454 Score: 95
Period size: 27 Copynumber: 3.2 Consensus size: 27
15820360 AAATATTAAA
15820370 AAAATAAATTAAATTATAAAAATAATAT
1 AAAAT-AATTAAATTATAAAAATAATAT
* *
15820398 AAAATAATTAAATTATAAAAACAAAAT
1 AAAATAATTAAATTATAAAAATAATAT
* *
15820425 -AAGTAA-TAAATAATATAAAATAAT-T
1 AAAATAATTAAATTATA-AAAATAATAT
15820450 AAAAT
1 AAAAT
15820455 TAACTCTTAC
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
25 9 0.19
26 14 0.29
27 20 0.42
28 5 0.10
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.29
Consensus pattern (27 bp):
AAAATAATTAAATTATAAAAATAATAT
Found at i:15821116 original size:18 final size:18
Alignment explanation
Indices: 15821084--15821137 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
15821074 TGTCTTATTT
15821084 AATTTAAATTATATTTTTAA
1 AATTT-AATT-TATTTTTAA
15821104 AATTTAATTTATTGTTTAA
1 AATTTAATTTATT-TTTAA
*
15821123 AA-TTGATTTATTTTT
1 AATTTAATTTATTTTT
15821138 CTGTATTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
17 3 0.09
18 13 0.41
19 11 0.34
20 5 0.16
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (18 bp):
AATTTAATTTATTTTTAA
Found at i:15821121 original size:19 final size:20
Alignment explanation
Indices: 15821084--15821126 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
15821074 TGTCTTATTT
15821084 AATTTAAATTATATTTTTAA
1 AATTTAAATTATATTTTTAA
15821104 AATTT-AATT-TATTGTTTAA
1 AATTTAAATTATATT-TTTAA
15821123 AATT
1 AATT
15821127 GATTTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 4 0.18
19 13 0.59
20 5 0.23
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
AATTTAAATTATATTTTTAA
Found at i:15821182 original size:17 final size:16
Alignment explanation
Indices: 15821144--15821194 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
15821134 TTTTCTGTAT
*
15821144 TTTTAATTAAATTATA
1 TTTTAATTAAATTCTA
* *
15821160 TTTTAA--ATA-TGTA
1 TTTTAATTAAATTCTA
15821173 TTTTAATTAAATTCTA
1 TTTTAATTAAATTCTA
15821189 TTTTAA
1 TTTTAA
15821195 AACAATAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
13 9 0.32
14 2 0.07
15 2 0.07
16 15 0.54
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (16 bp):
TTTTAATTAAATTCTA
Found at i:15821185 original size:29 final size:30
Alignment explanation
Indices: 15821139--15821195 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
15821129 TTTATTTTTC
15821139 TGTATTTTTAATTAAATTATATTTTAAATA
1 TGTATTTTTAATTAAATTATATTTTAAATA
*
15821169 TGTA-TTTTAATTAAATTCTATTTTAAA
1 TGTATTTTTAATTAAATTATATTTTAAA
15821196 ACAATAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.56
Consensus pattern (30 bp):
TGTATTTTTAATTAAATTATATTTTAAATA
Found at i:15821225 original size:22 final size:20
Alignment explanation
Indices: 15821193--15821261 Score: 70
Period size: 20 Copynumber: 3.4 Consensus size: 20
15821183 ATTCTATTTT
*
15821193 AAAACAATAAATACATATTTAA
1 AAAATAATAAAT-CA-ATTTAA
*
15821215 AGAATAATAAATCAATTTAA
1 AAAATAATAAATCAATTTAA
*
15821235 AAAATAA-ATAT-AATTTAA
1 AAAATAATAAATCAATTTAA
15821253 AAATATAAT
1 AAA-ATAAT
15821262 TTAAATTAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
18 10 0.24
19 7 0.17
20 12 0.29
21 2 0.05
22 10 0.24
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.30
Consensus pattern (20 bp):
AAAATAATAAATCAATTTAA
Found at i:15821256 original size:13 final size:13
Alignment explanation
Indices: 15821240--15821266 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15821230 TTTAAAAAAT
15821240 AAATATAATTTAA
1 AAATATAATTTAA
15821253 AAATATAATTTAA
1 AAATATAATTTAA
15821266 A
1 A
15821267 TTAAATAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
AAATATAATTTAA
Found at i:15821260 original size:19 final size:18
Alignment explanation
Indices: 15821190--15821260 Score: 72
Period size: 18 Copynumber: 3.7 Consensus size: 18
15821180 TAAATTCTAT
15821190 TTTAAAACAATAAATACATA
1 TTTAAAA-AATAAATACA-A
15821210 TTTAAAGAATAATAAAT-CAA
1 TTT-AA-AA-AATAAATACAA
*
15821230 TTTAAAAAATAAATATAA
1 TTTAAAAAATAAATACAA
15821248 TTTAAAAATATAA
1 TTTAAAAA-ATAA
15821261 TTTAAATTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
17 7 0.16
18 12 0.27
19 6 0.13
20 7 0.16
21 4 0.09
22 9 0.20
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.32
Consensus pattern (18 bp):
TTTAAAAAATAAATACAA
Found at i:15821355 original size:13 final size:14
Alignment explanation
Indices: 15821330--15821359 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
15821320 TTAAATAAAG
15821330 AAAAATATAAATTT
1 AAAAATATAAATTT
15821344 AAAAATAT-AATTT
1 AAAAATATAAATTT
15821357 AAA
1 AAA
15821360 TTTACATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AAAAATATAAATTT
Found at i:15823009 original size:15 final size:15
Alignment explanation
Indices: 15822989--15823021 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
15822979 GTTTTGGGAC
*
15822989 ATTTAAGTTGGTTTT
1 ATTTAAGTTGGATTT
15823004 ATTTAAGTTGGATTT
1 ATTTAAGTTGGATTT
15823019 ATT
1 ATT
15823022 GAATATTGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.18, T:0.58
Consensus pattern (15 bp):
ATTTAAGTTGGATTT
Found at i:15825674 original size:31 final size:31
Alignment explanation
Indices: 15825636--15825697 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
15825626 GTAAAACAAG
*
15825636 ACAACATATTTGCTATTTGTCATAGTTTCTT
1 ACAACATATTTGCTATTTGTCATAATTTCTT
15825667 ACAACATATTTGCTATTTGTCATAATTTCTT
1 ACAACATATTTGCTATTTGTCATAATTTCTT
15825698 TTCAAAGTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.27, C:0.16, G:0.08, T:0.48
Consensus pattern (31 bp):
ACAACATATTTGCTATTTGTCATAATTTCTT
Found at i:15826270 original size:25 final size:26
Alignment explanation
Indices: 15826237--15826285 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
15826227 TGCTAGTTAC
15826237 TAATATCATGATTT-AAA-TAAATAAA
1 TAATATCAT-ATTTCAAATTAAATAAA
*
15826262 TAATTTCATATTTCAAATTAAATA
1 TAATATCATATTTCAAATTAAATA
15826286 GATATCATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 4 0.19
25 11 0.52
26 6 0.29
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.41
Consensus pattern (26 bp):
TAATATCATATTTCAAATTAAATAAA
Found at i:15841545 original size:6 final size:6
Alignment explanation
Indices: 15841534--15841562 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
15841524 ACACCTCTCT
15841534 TCTTCA TCTTCA TCTTCA TCTTCA TCTTC
1 TCTTCA TCTTCA TCTTCA TCTTCA TCTTC
15841563 TTTCTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.34, G:0.00, T:0.52
Consensus pattern (6 bp):
TCTTCA
Found at i:15842004 original size:18 final size:16
Alignment explanation
Indices: 15841973--15842021 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 16
15841963 AGATTTAGGT
*
15841973 TTAAAAATTTTAATTAA
1 TTAAAAA-TTTATTTAA
15841990 TT--AAATTTATTTAA
1 TTAAAAATTTATTTAA
15842004 TTAAAAATTTATTCTAA
1 TTAAAAATTTATT-TAA
15842021 T
1 T
15842022 CTCATTTGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.36
15 3 0.11
16 9 0.32
17 6 0.21
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
TTAAAAATTTATTTAA
Found at i:15842444 original size:19 final size:20
Alignment explanation
Indices: 15842401--15842450 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
15842391 AATTTTGACA
15842401 TAATTT-AATACTTTATTAGT
1 TAATTTAAATACTTTATTA-T
*
15842421 TAATTTAAATATTTTATT-T
1 TAATTTAAATACTTTATTAT
*
15842440 TAATTAAAATA
1 TAATTTAAATA
15842451 ACATCATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 11 0.41
20 6 0.22
21 10 0.37
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (20 bp):
TAATTTAAATACTTTATTAT
Found at i:15845279 original size:23 final size:23
Alignment explanation
Indices: 15845238--15845281 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
15845228 GAGATTAAAA
*
15845238 TATAATTTTATCATGTTTTAATT
1 TATAATTTCATCATGTTTTAATT
* *
15845261 TATAATTTCATTATTTTTTAA
1 TATAATTTCATCATGTTTTAA
15845282 GAGACTTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (23 bp):
TATAATTTCATCATGTTTTAATT
Found at i:15848205 original size:59 final size:59
Alignment explanation
Indices: 15848128--15848327 Score: 253
Period size: 59 Copynumber: 3.4 Consensus size: 59
15848118 ATTTTAGACA
* **
15848128 TTTGAGGGTAAAATGGTAATTTTGGGAAAAATCAGGATCAAAAATAAAATTTTTGGAAG
1 TTTGAGGGTAAAATGGTAATTTTGGGAAAAATCAGGGTCAAAAATGGAATTTTTGGAAG
* * * *
15848187 TTTGGGGGTAAAATGGTAATTTTGGAGGGAAAAT-GGGGTC-AAAATGGAATTTTGGGAAG
1 TTTGAGGGTAAAATGGTAATTTT-G-GGAAAAATCAGGGTCAAAAATGGAATTTTTGGAAG
** * *
15848246 TTCAAGGGTAAAATGGTAATTTTGGGAAGAATCAGGGTTAAAAATGGAATTTTTGGAAG
1 TTTGAGGGTAAAATGGTAATTTTGGGAAAAATCAGGGTCAAAAATGGAATTTTTGGAAG
15848305 TTTG-GAGGTAAAATGGTAATTTT
1 TTTGAG-GGTAAAATGGTAATTTT
15848328 TAGAAGTTTT
Statistics
Matches: 119, Mismatches: 17, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
57 6 0.05
58 6 0.05
59 95 0.80
60 5 0.04
61 7 0.06
ACGTcount: A:0.36, C:0.03, G:0.29, T:0.32
Consensus pattern (59 bp):
TTTGAGGGTAAAATGGTAATTTTGGGAAAAATCAGGGTCAAAAATGGAATTTTTGGAAG
Found at i:15848207 original size:29 final size:29
Alignment explanation
Indices: 15848175--15848356 Score: 113
Period size: 30 Copynumber: 6.2 Consensus size: 29
15848165 TCAAAAATAA
15848175 AATTTTTGGAAGTTTGGGGGT-AAAATGG
1 AATTTTTGGAAGTTTGGGGGTAAAAATGG
*** *
15848203 TAA-TTTTGGAGGGAAAAT-GGGGTCAAAATGG
1 -AATTTTTGGA---AGTTTGGGGGTAAAAATGG
* ***
15848234 AATTTTGGGAAGTTCAAGGGT-AAAATGG
1 AATTTTTGGAAGTTTGGGGGTAAAAATGG
* * ** *
15848262 TAATTTTGGGAAGAATCAGGGTTAAAAATGG
1 -AATTTTTGGAAG-TTTGGGGGTAAAAATGG
*
15848293 AATTTTTGGAAGTTTGGAGGT-AAAATGG
1 AATTTTTGGAAGTTTGGGGGTAAAAATGG
* *
15848321 TAATTTTTAGAAGTTTTGGGGTTAAAAATGG
1 -AATTTTTGGAAG-TTTGGGGGTAAAAATGG
15848352 AATTT
1 AATTT
15848357 GAGAGGTAAA
Statistics
Matches: 120, Mismatches: 21, Indels: 23
0.73 0.13 0.14
Matches are distributed among these distances:
28 22 0.18
29 33 0.28
30 36 0.30
31 29 0.24
ACGTcount: A:0.34, C:0.02, G:0.31, T:0.34
Consensus pattern (29 bp):
AATTTTTGGAAGTTTGGGGGTAAAAATGG
Found at i:15848297 original size:30 final size:28
Alignment explanation
Indices: 15848222--15848304 Score: 96
Period size: 29 Copynumber: 2.8 Consensus size: 28
15848212 AGGGAAAATG
*
15848222 GGGTCAAAATGGAATTTTGGGAAGTTCAA
1 GGGT-AAAATGGAATTTTGGGAAGATCAA
15848251 GGGTAAAATGGTAATTTTGGGAAGAATC-A
1 GGGTAAAATGG-AATTTTGGGAAG-ATCAA
*
15848280 GGGTTAAAAATGGAATTTTTGGAAG
1 GGG-T-AAAATGGAATTTTGGGAAG
15848305 TTTGGAGGTA
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
28 7 0.15
29 20 0.42
30 14 0.29
31 7 0.15
ACGTcount: A:0.36, C:0.04, G:0.31, T:0.29
Consensus pattern (28 bp):
GGGTAAAATGGAATTTTGGGAAGATCAA
Found at i:15848343 original size:59 final size:58
Alignment explanation
Indices: 15848082--15848356 Score: 193
Period size: 59 Copynumber: 4.7 Consensus size: 58
15848072 CGGTGGCAAT
* * ** * *
15848082 ATGGTAATTTTGGGAAAATTTGAAGTTAAAAAT-GAAATTTTAGACA-TTT-GAGGGTAAA
1 ATGGTAATTTTGAGAAGA-TTGGGGTTAAAAATGGAATTTTTGGA-AGTTTGGA-GGTAAA
* * ** * * ** *
15848140 ATGGTAATTTTGGGAAAAATCAGGATCAAAAATAAAATTTTTGGAAGTTTGGGGGTAAA
1 ATGGTAATTTTGAG-AAGATTGGGGTTAAAAATGGAATTTTTGGAAGTTTGGAGGTAAA
* * * **
15848199 ATGGTAATTTTGGAGGGAA-AATGGGG-TCAAAATGGAATTTTGGGAAG-TTCAAGGGTAAA
1 ATGGTAATTTT-GA--GAAGATTGGGGTTAAAAATGGAATTTTTGGAAGTTTGGA-GGTAAA
* **
15848258 ATGGTAATTTTGGGAAGAATCAGGGTTAAAAATGGAATTTTTGGAAGTTTGGAGGTAAA
1 ATGGTAATTTTGAGAAG-ATTGGGGTTAAAAATGGAATTTTTGGAAGTTTGGAGGTAAA
* *
15848317 ATGGTAATTTTTAGAAGTTTTGGGGTTAAAAATGGAATTT
1 ATGGTAATTTTGAGAAG-ATTGGGGTTAAAAATGGAATTT
15848357 GAGAGGTAAA
Statistics
Matches: 168, Mismatches: 37, Indels: 23
0.74 0.16 0.10
Matches are distributed among these distances:
56 3 0.02
58 30 0.18
59 124 0.74
60 8 0.05
61 2 0.01
62 1 0.01
ACGTcount: A:0.37, C:0.02, G:0.28, T:0.33
Consensus pattern (58 bp):
ATGGTAATTTTGAGAAGATTGGGGTTAAAAATGGAATTTTTGGAAGTTTGGAGGTAAA
Found at i:15848347 original size:30 final size:29
Alignment explanation
Indices: 15848280--15848356 Score: 104
Period size: 29 Copynumber: 2.6 Consensus size: 29
15848270 GGAAGAATCA
*
15848280 GGGTTAAAAATGGAATTTTTGGAAGTTTG
1 GGGTTAAAAATGGAATTTTTAGAAGTTTG
15848309 GAGG-T-AAAATGGTAATTTTTAGAAGTTTTG
1 G-GGTTAAAAATGG-AATTTTTAGAAG-TTTG
15848339 GGGTTAAAAATGGAATTT
1 GGGTTAAAAATGGAATTT
15848357 GAGAGGTAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
28 7 0.17
29 15 0.36
30 13 0.31
31 7 0.17
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.38
Consensus pattern (29 bp):
GGGTTAAAAATGGAATTTTTAGAAGTTTG
Found at i:15848398 original size:50 final size:50
Alignment explanation
Indices: 15848299--15848399 Score: 125
Period size: 50 Copynumber: 2.0 Consensus size: 50
15848289 ATGGAATTTT
** * * *
15848299 TGGAAGTTTGGAGGTAAAATGGTAATTTTTAGAAGTTTTGGGGTTAAAAA
1 TGGAAGTTTGGAGGTAAAAAAGTAATTTTTAAAAGTTTTGAGGTCAAAAA
15848349 TGGAA-TTTGAGAGGTAAAAAAGTAATTTTTTAAAAG-TTTGAGGTCAAAAA
1 TGGAAGTTTG-GAGGTAAAAAAGTAA-TTTTTAAAAGTTTTGAGGTCAAAAA
15848399 T
1 T
15848400 ATAATTTTGG
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
49 4 0.09
50 31 0.70
51 9 0.20
ACGTcount: A:0.39, C:0.01, G:0.26, T:0.35
Consensus pattern (50 bp):
TGGAAGTTTGGAGGTAAAAAAGTAATTTTTAAAAGTTTTGAGGTCAAAAA
Found at i:15848406 original size:50 final size:49
Alignment explanation
Indices: 15848305--15848411 Score: 117
Period size: 50 Copynumber: 2.1 Consensus size: 49
15848295 TTTTTGGAAG
** * * * *
15848305 TTTGGAGGTAAAATGGTAATTTTTAGAAGTTTTGGGGTTAAAAATGGAA
1 TTTGGAGGTAAAAAAGTAATTTTTAAAAGTTTTGAGGTCAAAAATAGAA
*
15848354 TTTGAGAGGTAAAAAAGTAATTTTTTAAAAG-TTTGAGGTCAAAAATATAA
1 TTTG-GAGGTAAAAAAGTAA-TTTTTAAAAGTTTTGAGGTCAAAAATAGAA
15848404 TTTTGGAG
1 -TTTGGAG
15848412 AAGCTTAGGG
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
49 4 0.08
50 31 0.65
51 13 0.27
ACGTcount: A:0.38, C:0.01, G:0.24, T:0.36
Consensus pattern (49 bp):
TTTGGAGGTAAAAAAGTAATTTTTAAAAGTTTTGAGGTCAAAAATAGAA
Found at i:15849612 original size:22 final size:21
Alignment explanation
Indices: 15849578--15849630 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
15849568 TAAAAAAATA
15849578 ATATTA-TTAATAT-TATTAAT
1 ATATTATTTAATATAT-TTAAT
15849598 ATCATTATTTAATATATTTAAT
1 AT-ATTATTTAATATATTTAAT
15849620 AT-TTATTTAAT
1 ATATTATTTAAT
15849631 GCGTTTTTGG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
20 11 0.37
21 4 0.13
22 14 0.47
23 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
ATATTATTTAATATATTTAAT
Found at i:15850344 original size:17 final size:16
Alignment explanation
Indices: 15850319--15850366 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 16
15850309 GTTTAAAATT
15850319 ATTTCAAATTTAAACTAA
1 ATTT-AAATTTAAAC-AA
*
15850337 ATTTAAATTAAAAACAA
1 ATTTAAATT-TAAACAA
15850354 ATTTAAATTTAAA
1 ATTTAAATTTAAA
15850367 TTTAAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 3 0.11
17 16 0.59
18 8 0.30
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
ATTTAAATTTAAACAA
Found at i:15850345 original size:6 final size:6
Alignment explanation
Indices: 15850289--15850372 Score: 59
Period size: 6 Copynumber: 14.3 Consensus size: 6
15850279 ATGGACTTTG
* * * *
15850289 AATTTA ATTTTA AAGTTTA AGTTTA AAATT- -ATTTCA AATTTA AA-CTA
1 AATTTA AATTTA AA-TTTA AATTTA AATTTA AATTT-A AATTTA AATTTA
***
15850336 AATTTA AA-TTA AAAACA AATTTA AATTTA AATTTA AA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AA
15850373 AATAAATCTA
Statistics
Matches: 59, Mismatches: 13, Indels: 12
0.70 0.15 0.14
Matches are distributed among these distances:
4 3 0.05
5 9 0.15
6 38 0.64
7 9 0.15
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (6 bp):
AATTTA
Found at i:15850364 original size:23 final size:24
Alignment explanation
Indices: 15850333--15850384 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
15850323 CAAATTTAAA
15850333 CTAAATTTAAA-TTAAAAACAAAT
1 CTAAATTTAAATTTAAAAACAAAT
* *
15850356 TTAAATTTAAATTTAAAAATAAAT
1 CTAAATTTAAATTTAAAAACAAAT
15850380 CTAAA
1 CTAAA
15850385 ACTAATCTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 10 0.40
24 15 0.60
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.35
Consensus pattern (24 bp):
CTAAATTTAAATTTAAAAACAAAT
Found at i:15850795 original size:51 final size:52
Alignment explanation
Indices: 15850668--15851316 Score: 196
Period size: 51 Copynumber: 12.8 Consensus size: 52
15850658 TGATGTCGAG
* **
15850668 GCTTCATCTTGCTCTTACTACAACTTC-AGAGAGATAAAGACTTG-CTATT-GT
1 GCTTCATCTTGCTCTTACTACAACTTCAAGAGAGAT-AAGAATTGAC-ATTAAA
** * *** * *
15850719 TTTTAATCCAACT-TTACTGCAACTTCAAGAG-GATAAGAATTGACATTAAG
1 GCTTCATCTTGCTCTTACTACAACTTCAAGAGAGATAAGAATTGACATTAAA
* *
15850769 GCTTCATCTTGCTCTTACTACAACTTC-AGAGAGATAAAGACTTG-CTATT-AT
1 GCTTCATCTTGCTCTTACTACAACTTCAAGAGAGAT-AAGAATTGAC-ATTAAA
** * ** * *
15850820 TTTTAATCTAACT-TTA-TGCAACTTCAAGAG-GATAAGAATTGACGTTAAA
1 GCTTCATCTTGCTCTTACTACAACTTCAAGAGAGATAAGAATTGACATTAAA
* *
15850869 GCTTCATCTTGCTCTTACTACAACTTCAA-AGAGATAAAAACTTG-CTATT-AT
1 GCTTCATCTTGCTCTTACTACAACTTCAAGAGAGATAAGAA-TTGAC-ATTAAA
** * *** * * * *** *
15850920 TTTTAATCCAACT-TTACTGCAACTTTAAGAG-GATAAAAATTGGTGTTTGAA
1 GCTTCATCTTGCTCTTACTACAACTTCAAGAGAGATAAGAATT-GACATTAAA
* *
15850971 GCTTCATCTTGCTCTTACTACAACTTC-AGAGAGATAAAGACTTG-CTATT-AT
1 GCTTCATCTTGCTCTTACTACAACTTCAAGAGAGAT-AAGAATTGAC-ATTAAA
** * *** * ** *
15851022 TTTTAATCCAACT-TTACTGCAACTTCAAGAG-GAT-AGAAATTGATGTTTGAA
1 GCTTCATCTTGCTCTTACTACAACTTCAAGAGAGATAAG-AATTGA-CATTAAA
* * **
15851073 GCTTCATCTTGCTCTTACTATAACTTC-AGAGAGATAAAGACTTG-CTATT-GT
1 GCTTCATCTTGCTCTTACTACAACTTCAAGAGAGAT-AAGAATTGAC-ATTAAA
** * *** * * * * ** *
15851124 TTTTAATCCAACT-TTATTGCAACTACAAGAG-GATAGGAATTGATGTTTGAA
1 GCTTCATCTTGCTCTTACTACAACTTCAAGAGAGATAAGAATTGA-CATTAAA
* **
15851175 GCTTCATCTTGCTCTTACTACAACTTC-AGAGAGATAAAGACTTG-CTATT-GT
1 GCTTCATCTTGCTCTTACTACAACTTCAAGAGAGAT-AAGAATTGAC-ATTAAA
** * *** * ** *
15851226 TTTTAATCCAACT-TTACTGCAACTTCAAGAGA-AT-AGAAATTGATGTTTGAA
1 GCTTCATCTTGCTCTTACTACAACTTCAAGAGAGATAAG-AATTGA-CATTAAA
15851277 GCTTCATCTTGCTCTTACTACAACTTC-AGAGAGATGAAGA
1 GCTTCATCTTGCTCTTACTACAACTTCAAGAGAGAT-AAGA
15851317 CTTGCTATTG
Statistics
Matches: 413, Mismatches: 135, Indels: 98
0.64 0.21 0.15
Matches are distributed among these distances:
48 13 0.03
49 47 0.11
50 110 0.27
51 146 0.35
52 77 0.19
53 16 0.04
54 4 0.01
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.35
Consensus pattern (52 bp):
GCTTCATCTTGCTCTTACTACAACTTCAAGAGAGATAAGAATTGACATTAAA
Found at i:15851006 original size:102 final size:102
Alignment explanation
Indices: 15850668--15851335 Score: 1083
Period size: 102 Copynumber: 6.6 Consensus size: 102
15850658 TGATGTCGAG
15850668 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATTGTTTTTAATCCAACTT
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATTGTTTTTAATCCAACTT
* **
15850733 TACTGCAACTTCAAGAGGATAAGAATTGA-CATT-AA
66 TACTGCAACTTCAAGAGGATAAAAATTGATGTTTGAA
* *
15850768 GGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATTATTTTTAATCTAACT
1 -GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATTGTTTTTAATCCAACT
* * *
15850833 TTA-TGCAACTTCAAGAGGATAAGAATTGACG-TTAAA
65 TTACTGCAACTTCAAGAGGATAAAAATTGATGTTTGAA
* * *
15850869 GCTTCATCTTGCTCTTACTACAACTTCAAAGAGATAAAAACTTGCTATTATTTTTAATCCAACTT
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATTGTTTTTAATCCAACTT
* *
15850934 TACTGCAACTTTAAGAGGATAAAAATTGGTGTTTGAA
66 TACTGCAACTTCAAGAGGATAAAAATTGATGTTTGAA
*
15850971 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATTATTTTTAATCCAACTT
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATTGTTTTTAATCCAACTT
*
15851036 TACTGCAACTTCAAGAGGATAGAAATTGATGTTTGAA
66 TACTGCAACTTCAAGAGGATAAAAATTGATGTTTGAA
*
15851073 GCTTCATCTTGCTCTTACTATAACTTCAGAGAGATAAAGACTTGCTATTGTTTTTAATCCAACTT
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATTGTTTTTAATCCAACTT
* * **
15851138 TATTGCAACTACAAGAGGATAGGAATTGATGTTTGAA
66 TACTGCAACTTCAAGAGGATAAAAATTGATGTTTGAA
15851175 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATTGTTTTTAATCCAACTT
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATTGTTTTTAATCCAACTT
* *
15851240 TACTGCAACTTCAAGAGAATAGAAATTGATGTTTGAA
66 TACTGCAACTTCAAGAGGATAAAAATTGATGTTTGAA
* *
15851277 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATGAAGACTTGCTATTGCTTTTAATC
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATTGTTTTTAATC
15851336 TACTATGACT
Statistics
Matches: 535, Mismatches: 28, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
100 92 0.17
101 91 0.17
102 352 0.66
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (102 bp):
GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATTGTTTTTAATCCAACTT
TACTGCAACTTCAAGAGGATAAAAATTGATGTTTGAA
Found at i:15851580 original size:49 final size:50
Alignment explanation
Indices: 15851527--15851633 Score: 166
Period size: 49 Copynumber: 2.2 Consensus size: 50
15851517 CGACTTAAAC
*
15851527 CTTTCCCTTT-ATTACTTCGTGGTACTGGATCCGCCGTTGCGG-CTTAGAT
1 CTTTCCCTTTCATTACTTCGTGGTACTGGATCCGCC-ATGCGGTCTTAGAT
*
15851576 CTTT-CCTTTCATTTCTTCGTGGTACTGGATCCGCCATGCGGTCTTAGAT
1 CTTTCCCTTTCATTACTTCGTGGTACTGGATCCGCCATGCGGTCTTAGAT
15851625 CTTTCCCTT
1 CTTTCCCTT
15851634 GTGTATTTGC
Statistics
Matches: 53, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
48 10 0.19
49 39 0.74
50 4 0.08
ACGTcount: A:0.11, C:0.28, G:0.20, T:0.41
Consensus pattern (50 bp):
CTTTCCCTTTCATTACTTCGTGGTACTGGATCCGCCATGCGGTCTTAGAT
Found at i:15859653 original size:18 final size:20
Alignment explanation
Indices: 15859616--15859654 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
15859606 TAAAATGTGT
15859616 GAATGCAATGCGAATGAATAC
1 GAATGCAATGCG-ATGAATAC
15859637 GAATG-AATGCG-TGAATAC
1 GAATGCAATGCGATGAATAC
15859655 AAAAGGAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
20 6 0.33
21 5 0.28
ACGTcount: A:0.41, C:0.13, G:0.26, T:0.21
Consensus pattern (20 bp):
GAATGCAATGCGATGAATAC
Found at i:15863502 original size:19 final size:19
Alignment explanation
Indices: 15863470--15863509 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
15863460 ATGAAATTTT
* *
15863470 TGGTACTTTAAGGGTAAAA
1 TGGTAATTTAAGGGAAAAA
*
15863489 TGGTAATTTTAGGGAAAAA
1 TGGTAATTTAAGGGAAAAA
15863508 TG
1 TG
15863510 AGGATTAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.28, T:0.33
Consensus pattern (19 bp):
TGGTAATTTAAGGGAAAAA
Found at i:15863579 original size:30 final size:28
Alignment explanation
Indices: 15863482--15863705 Score: 98
Period size: 29 Copynumber: 7.6 Consensus size: 28
15863472 GTACTTTAAG
*
15863482 GGTAAAATGGTAATTTTAGGGAAAAAT-GA
1 GGTAAAATGG-AATTTT-GGGAAAAATCAA
**
15863511 GGATTAAAAATGGAATTTT--GAAATGTTCAA
1 GG--T-AAAATGGAATTTTGGGAAA-AATCAA
15863541 GGGTAAAATGGTAATTTTGGGAAAAATCAA
1 -GGTAAAATGG-AATTTTGGGAAAAATCAA
** * *
15863571 GGTCAAAATGGAATTTTGGGAAAGTTTGAG
1 GGT-AAAATGGAATTTTGGGAAA-AATCAA
* * **
15863601 GGTAAAATGGTAATTTTGAGAAGAATCGG
1 GGTAAAATGG-AATTTTGGGAAAAATCAA
* ** *
15863630 GGTTAAAAATGGAATTTT-AG-AAGTTTAGA
1 GG-T-AAAATGGAATTTTGGGAAAAATCA-A
* * *
15863659 GGTAAAATGGTAATTTTTGGAAAAAATTAG
1 GGTAAAATGG-AA-TTTTGGGAAAAATCAA
15863689 GGTTAAAATGGAATTTT
1 GG-TAAAATGGAATTTT
15863706 TAGAAGTTCA
Statistics
Matches: 149, Mismatches: 26, Indels: 40
0.69 0.12 0.19
Matches are distributed among these distances:
27 7 0.05
28 16 0.11
29 48 0.32
30 38 0.26
31 33 0.22
32 7 0.05
ACGTcount: A:0.41, C:0.02, G:0.26, T:0.31
Consensus pattern (28 bp):
GGTAAAATGGAATTTTGGGAAAAATCAA
Found at i:15863755 original size:117 final size:117
Alignment explanation
Indices: 15863369--15863798 Score: 430
Period size: 118 Copynumber: 3.7 Consensus size: 117
15863359 GCTTGGGGGC
* * * *
15863369 AAAATGGTAATTTTGGAAA-AATTTAGAGTTAAAAATGGAATTTTAGACA-TCCGAGGGTAAAAT
1 AAAATGGTAATTTTGGAAAGAA-TTAGGGTTAAAAATGGAATTTTAGAAAGTTCAAGGGTAAAAT
* * * *
15863432 GGTAATTTTT-AAAAAA-TCGGGATCAAAAATGAAATTTTTGGTACTTTAAGGGT
65 GGTAATTTTTGAAAAAATTAGGG-T-AAAAATGGAATTTTTGGAAGTTTAAGGGT
* *
15863485 AAAATGGTAATTTTAGGGAAA-AATGAGGATTAAAAATGGAATTTT-GAAATGTTCAAGGGTAAA
1 AAAATGGTAATTTT--GGAAAGAATTAGGGTTAAAAATGGAATTTTAGAAA-GTTCAAGGGTAAA
* * * * * * *
15863548 ATGGTAATTTTGGGAAAAATCAAGGTCAAAATGGAATTTTGGGAAAGTTTGAGGGT
63 ATGGTAATTTTTGAAAAAATTAGGGTAAAAATGGAATTTTTGG-AAGTTTAAGGGT
** *
15863604 AAAATGGTAATTTT-GAGAAGAATCGGGGTTAAAAATGGAATTTTAG-AAGTT-TAGAGGTAAAA
1 AAAATGGTAATTTTGGA-AAGAATTAGGGTTAAAAATGGAATTTTAGAAAGTTCAAG-GGTAAAA
* * *
15863666 TGGTAATTTTTGGAAAAAATTAGGGTTAAAATGGAATTTTTAGAAGTTCAAGGGT
64 TGGTAATTTTT-GAAAAAATTAGGGTAAAAATGGAATTTTTGGAAGTTTAAGGGT
* ** * * * *
15863721 AAAATGGTAATTTTTGAAAGTTTTAGGGTCAAAAATGGAATTTTGGAAATTTTAAGGGTAAAAT-
1 AAAATGGTAATTTTGGAAAGAATTAGGGTTAAAAATGGAATTTTAGAAAGTTCAAGGGTAAAATG
15863785 GTAATTTTTGAAAA
66 GTAATTTTTGAAAA
15863799 GTTCGGGGTC
Statistics
Matches: 261, Mismatches: 38, Indels: 30
0.79 0.12 0.09
Matches are distributed among these distances:
116 26 0.10
117 97 0.37
118 104 0.40
119 32 0.12
120 2 0.01
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.33
Consensus pattern (117 bp):
AAAATGGTAATTTTGGAAAGAATTAGGGTTAAAAATGGAATTTTAGAAAGTTCAAGGGTAAAATG
GTAATTTTTGAAAAAATTAGGGTAAAAATGGAATTTTTGGAAGTTTAAGGGT
Found at i:15863800 original size:59 final size:58
Alignment explanation
Indices: 15863369--15863814 Score: 342
Period size: 58 Copynumber: 7.6 Consensus size: 58
15863359 GCTTGGGGGC
* * * * * ***
15863369 AAAATGGTAATTTTGGAAAA-ATTTAGAGTTAAAAATGGAATTTTAGACA-TCCGAGGGT
1 AAAATGGTAATTTTTGAAAAGA-TCAGGGTCAAAAATGGAATTTT-GAAAGTTTAAGGGT
* * ** *
15863427 AAAATGGTAATTTTT-AAAAAATC-GGGATCAAAAATGAAATTTTTGGTACTTTAAGGGT
1 AAAATGGTAATTTTTGAAAAGATCAGGG-TCAAAAATGGAA-TTTTGAAAGTTTAAGGGT
* * * * *
15863485 AAAATGGTAATTTTAGGGAAAA-ATGAGGATTAAAAATGGAATTTTGAAATGTTCAAGGGT
1 AAAATGGTAATTTT--TGAAAAGATCAGGGTCAAAAATGGAATTTTGAAA-GTTTAAGGGT
* * *
15863545 AAAATGGTAATTTTGGGAAAA-ATCAAGGTC-AAAATGGAATTTTGGGAAAGTTTGAGGGT
1 AAAATGGTAATTTT-TGAAAAGATCAGGGTCAAAAATGGAATTTT--GAAAGTTTAAGGGT
* * *
15863604 AAAATGGTAA-TTTTGAGAAGAATCGGGGTTAAAAATGGAATTTT-AGAAGTTT-AGAGGT
1 AAAATGGTAATTTTTGAAAAG-ATCAGGGTCAAAAATGGAATTTTGA-AAGTTTAAG-GGT
* * * * *
15863662 AAAATGGTAATTTTTGGAAAAAATTAGGGT-TAAAATGGAATTTTTAGAAGTTCAAGGGT
1 AAAATGGTAATTTTT-GAAAAGATCAGGGTCAAAAATGGAATTTTGA-AAGTTTAAGGGT
* * *
15863721 AAAATGGTAATTTTTG-AAAGTTTTAGGGTCAAAAATGGAATTTTGGAAATTTTAAGGGT
1 AAAATGGTAATTTTTGAAAAG-ATCAGGGTCAAAAATGGAATTTT-GAAAGTTTAAGGGT
* *
15863780 AAAAT-GTAATTTTTGAAAAGTTCGGGGTCAAAAAT
1 AAAATGGTAATTTTTGAAAAGATCAGGGTCAAAAAT
15863815 ATTATTTTGG
Statistics
Matches: 320, Mismatches: 44, Indels: 48
0.78 0.11 0.12
Matches are distributed among these distances:
56 2 0.01
57 27 0.08
58 118 0.37
59 109 0.34
60 58 0.18
61 6 0.02
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.32
Consensus pattern (58 bp):
AAAATGGTAATTTTTGAAAAGATCAGGGTCAAAAATGGAATTTTGAAAGTTTAAGGGT
Found at i:15863812 original size:29 final size:28
Alignment explanation
Indices: 15863517--15863812 Score: 167
Period size: 29 Copynumber: 10.1 Consensus size: 28
15863507 ATGAGGATTA
*
15863517 AAAATGGAA-TTTTGAAATGTTCAAGGGT
1 AAAATGGAATTTTTGAAAAGTTC-AGGGT
* * *
15863545 AAAATGGTAATTTTGGGAAAA-ATCAAGGT
1 AAAATGG-AATTTT-TGAAAAGTTCAGGGT
* * *
15863574 CAAAATGGAATTTTGGGAAAGTTTGAGGGT
1 -AAAATGGAATTTTTGAAAAG-TTCAGGGT
* * *
15863604 AAAATGGTAA-TTTTGAGAAGAATCGGGGTT
1 AAAATGG-AATTTTTGAAAAG-TTCAGGG-T
* *
15863634 AAAAATGGAA-TTTT-AGAAGTTTAGAGGT
1 -AAAATGGAATTTTTGAAAAGTTCAG-GGT
*
15863662 AAAATGGTAATTTTTGGAAAAAATT-AGGGTT
1 AAAATGG-AATTTTT-G-AAAAGTTCAGGG-T
*
15863693 AAAATGGAATTTTT-AGAAGTTCAAGGGT
1 AAAATGGAATTTTTGAAAAGTTC-AGGGT
*
15863721 AAAATGGTAATTTTTG-AAAGTTTTAGGGT
1 AAAATGG-AATTTTTGAAAAG-TTCAGGGT
* ** *
15863750 CAAAAATGGAATTTTGGAAATTTTAAGGGT
1 --AAAATGGAATTTTTGAAAAGTTCAGGGT
* *
15863780 AAAATGTAATTTTTGAAAAGTTCGGGGT
1 AAAATGGAATTTTTGAAAAGTTCAGGGT
15863808 CAAAA
1 -AAAA
15863813 ATATTATTTT
Statistics
Matches: 209, Mismatches: 34, Indels: 49
0.72 0.12 0.17
Matches are distributed among these distances:
27 12 0.06
28 47 0.22
29 64 0.31
30 51 0.24
31 30 0.14
32 5 0.02
ACGTcount: A:0.40, C:0.03, G:0.25, T:0.32
Consensus pattern (28 bp):
AAAATGGAATTTTTGAAAAGTTCAGGGT
Found at i:15863814 original size:117 final size:118
Alignment explanation
Indices: 15863369--15863814 Score: 457
Period size: 117 Copynumber: 3.8 Consensus size: 118
15863359 GCTTGGGGGC
* * * *
15863369 AAAATGGTAATTTTGGAAA-AATTTAGAGTTAAAAATGGAATTTTAGACA-TCCGAGGGTAAAAT
1 AAAATGGTAATTTTGGAAAGAA-TTAGGGTTAAAAATGGAATTTTAGAAATTTCAAGGGTAAAAT
* * *
15863432 GGTAATTTTT-AAAAAATC-GGGATCAAAAATGAAATTTTTGGTACTTTAAGGGT
65 GGTAATTTTTGAAAAAATCAGGG-TCAAAAATGGAATTTTTGGAAGTTTAAGGGT
* *
15863485 AAAATGGTAATTTTAGGGAAA-AATGAGGATTAAAAATGGAATTTT-GAAATGTTCAAGGGTAAA
1 AAAATGGTAATTTT--GGAAAGAATTAGGGTTAAAAATGGAATTTTAGAAAT-TTCAAGGGTAAA
* * * * *
15863548 ATGGTAATTTTGGGAAAAATCAAGGTC-AAAATGGAATTTTGGGAAAGTTTGAGGGT
63 ATGGTAATTTTTGAAAAAATCAGGGTCAAAAATGGAATTTTTGG-AAGTTTAAGGGT
** *
15863604 AAAATGGTAATTTT-GAGAAGAATCGGGGTTAAAAATGGAATTTTAGAAGTTT--AGAGGTAAAA
1 AAAATGGTAATTTTGGA-AAGAATTAGGGTTAAAAATGGAATTTTAGAAATTTCAAG-GGTAAAA
* * * *
15863666 TGGTAATTTTTGGAAAAAATTAGGGT-TAAAATGGAATTTTTAGAAGTTCAAGGGT
64 TGGTAATTTTT-GAAAAAATCAGGGTCAAAAATGGAATTTTTGGAAGTTTAAGGGT
* ** * * *
15863721 AAAATGGTAATTTTTGAAAGTTTTAGGGTCAAAAATGGAATTTTGGAAATTTTAAGGGTAAAAT-
1 AAAATGGTAATTTTGGAAAGAATTAGGGTTAAAAATGGAATTTTAGAAATTTCAAGGGTAAAATG
** *
15863785 GTAATTTTTGAAAAGTTCGGGGTCAAAAAT
66 GTAATTTTTGAAAAAATCAGGGTCAAAAAT
15863815 ATTATTTTGG
Statistics
Matches: 275, Mismatches: 38, Indels: 33
0.79 0.11 0.10
Matches are distributed among these distances:
116 31 0.11
117 104 0.38
118 100 0.36
119 38 0.14
120 2 0.01
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.32
Consensus pattern (118 bp):
AAAATGGTAATTTTGGAAAGAATTAGGGTTAAAAATGGAATTTTAGAAATTTCAAGGGTAAAATG
GTAATTTTTGAAAAAATCAGGGTCAAAAATGGAATTTTTGGAAGTTTAAGGGT
Found at i:15864942 original size:7 final size:6
Alignment explanation
Indices: 15864927--15865015 Score: 60
Period size: 6 Copynumber: 15.3 Consensus size: 6
15864917 GGTAAAATGT
* ** *
15864927 AATTTA AATTTA AAATT- -ATTTCA AATTTA AA-ACA AATTTA ACTTTA
1 AATTTA AATTTA AATTTA AATTT-A AATTTA AATTTA AATTTA AATTTA
** * **
15864973 AAAATG AATTTA AATTTA AATTT- AAGGTA AATTTA AATTTA AA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AA
15865016 AATAAATCTA
Statistics
Matches: 60, Mismatches: 18, Indels: 10
0.68 0.20 0.11
Matches are distributed among these distances:
4 3 0.05
5 6 0.10
6 47 0.78
7 4 0.07
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (6 bp):
AATTTA
Found at i:15864942 original size:18 final size:18
Alignment explanation
Indices: 15864919--15864992 Score: 75
Period size: 18 Copynumber: 4.2 Consensus size: 18
15864909 ATTTTTAGGG
15864919 TAAAATGTAATTTAAATT
1 TAAAATGTAATTTAAATT
15864937 TAAAAT-T-ATTTCAAATT
1 TAAAATGTAATTT-AAATT
** *
15864954 TAAAA-CAAATTTAACTT
1 TAAAATGTAATTTAAATT
15864971 TAAAAATG-AATTTAAATT
1 T-AAAATGTAATTTAAATT
15864989 TAAA
1 TAAA
15864993 TTTAAGGTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
16 4 0.09
17 19 0.40
18 24 0.51
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.41
Consensus pattern (18 bp):
TAAAATGTAATTTAAATT
Found at i:15864995 original size:41 final size:42
Alignment explanation
Indices: 15864944--15865027 Score: 107
Period size: 41 Copynumber: 2.0 Consensus size: 42
15864934 ATTTAAAATT
* * *
15864944 ATTTCAAATTTAAAACAAATTTAACTTTAAAAATGAATTTAA
1 ATTTCAAATTTAAAACAAATTTAAATTTAAAAATAAATCTAA
***
15864986 ATTT-AAATTTAAGGTAAATTTAAATTTAAAAATAAATCTAA
1 ATTTCAAATTTAAAACAAATTTAAATTTAAAAATAAATCTAA
15865027 A
1 A
15865028 CCTAATCTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
41 32 0.89
42 4 0.11
ACGTcount: A:0.54, C:0.05, G:0.04, T:0.38
Consensus pattern (42 bp):
ATTTCAAATTTAAAACAAATTTAAATTTAAAAATAAATCTAA
Found at i:15868171 original size:31 final size:31
Alignment explanation
Indices: 15868128--15868188 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
15868118 TCTTTAAACG
15868128 TATACAATTGAATCA-AAATCAAAATTTCATA
1 TATACAATTGAATCATAAATC-AAATTTCATA
* *
15868159 TATAC-ATATGAATTATAATTCAAATTTCAT
1 TATACAAT-TGAATCATAAATCAAATTTCAT
15868189 GTGTATAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
30 2 0.08
31 20 0.77
32 4 0.15
ACGTcount: A:0.48, C:0.11, G:0.03, T:0.38
Consensus pattern (31 bp):
TATACAATTGAATCATAAATCAAATTTCATA
Found at i:15873698 original size:2 final size:2
Alignment explanation
Indices: 15873691--15873730 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
15873681 ATGATTTTGT
15873691 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15873731 TTAAATTCGT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15874961 original size:42 final size:42
Alignment explanation
Indices: 15874907--15874991 Score: 145
Period size: 42 Copynumber: 2.0 Consensus size: 42
15874897 GCAAAACCTA
15874907 AAAAAATACTTTTACTTTT-GGTTTCGAAAGCACATTCGATTT
1 AAAAAATACTTTTACTTTTGGGTTT-GAAAGCACATTCGATTT
*
15874949 AAAAAATGCTTTTACTTTTGGGTTTGAAAGCACATTCGATTT
1 AAAAAATACTTTTACTTTTGGGTTTGAAAGCACATTCGATTT
15874991 A
1 A
15874992 GAGGTGGCAA
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
42 36 0.88
43 5 0.12
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (42 bp):
AAAAAATACTTTTACTTTTGGGTTTGAAAGCACATTCGATTT
Found at i:15876455 original size:14 final size:14
Alignment explanation
Indices: 15876438--15876469 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
15876428 TGGTTGGACA
15876438 ACATAGGTTGCCCC
1 ACATAGGTTGCCCC
15876452 ACATAGGTTGCCCC
1 ACATAGGTTGCCCC
15876466 ACAT
1 ACAT
15876470 GTCGGTTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.25, C:0.34, G:0.19, T:0.22
Consensus pattern (14 bp):
ACATAGGTTGCCCC
Found at i:15886911 original size:33 final size:33
Alignment explanation
Indices: 15886854--15886923 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 33
15886844 CAAAAAAATA
15886854 ATATCTATTATTATAACTATATGTATCAATATC
1 ATATCTATTATTATAACTATATGTATCAATATC
* *
15886887 TATATCTA-TATTCTATA-TATATGTATTAATATC
1 -ATATCTATTATTATA-ACTATATGTATCAATATC
15886920 ATAT
1 ATAT
15886924 TTGTTTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
32 4 0.12
33 21 0.64
34 8 0.24
ACGTcount: A:0.39, C:0.10, G:0.03, T:0.49
Consensus pattern (33 bp):
ATATCTATTATTATAACTATATGTATCAATATC
Found at i:15888866 original size:3 final size:3
Alignment explanation
Indices: 15888858--15888901 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
15888848 CATCCAATAC
*
15888858 ATT ATT ATT ATT ATT ATT ATT ATT ATT -TAG ATT ATT -TT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT
15888902 TACAATAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
2 3 0.08
3 32 0.89
4 1 0.03
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:15888899 original size:17 final size:18
Alignment explanation
Indices: 15888858--15888903 Score: 64
Period size: 15 Copynumber: 2.8 Consensus size: 18
15888848 CATCCAATAC
15888858 ATTATTATTA-TT--ATT
1 ATTATTATTATTTAGATT
15888873 ATTATTATTATTTAGATT
1 ATTATTATTATTTAGATT
15888891 ATT-TTATTATTTA
1 ATTATTATTATTTA
15888904 CAATAAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 10 0.36
16 2 0.07
17 10 0.36
18 6 0.21
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (18 bp):
ATTATTATTATTTAGATT
Found at i:15888982 original size:19 final size:18
Alignment explanation
Indices: 15888905--15888991 Score: 68
Period size: 19 Copynumber: 4.6 Consensus size: 18
15888895 TATTATTTAC
*
15888905 AATAAATTTAAAAAAATA
1 AATAAATTTAAAAACATA
*
15888923 TATAATATCTTAAAAACATTAA
1 AATAA-AT-TTAAAAACA-T-A
* *
15888945 AACAAACATTAAAAA-ATA
1 AATAAA-TTTAAAAACATA
15888963 AATAAATTTAAAATACATA
1 AATAAATTTAAAA-ACATA
*
15888982 AAAAAATTTA
1 AATAAATTTA
15888992 TATTAAGATA
Statistics
Matches: 54, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
17 6 0.11
18 11 0.20
19 15 0.28
20 9 0.17
21 9 0.17
22 4 0.07
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.29
Consensus pattern (18 bp):
AATAAATTTAAAAACATA
Found at i:15889034 original size:18 final size:19
Alignment explanation
Indices: 15889013--15889056 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
15889003 TTGCAGATAA
*
15889013 AATAATAGAAAAATT-AAC
1 AATAAAAGAAAAATTCAAC
* *
15889031 AATAAAAGATAAGTTCAAC
1 AATAAAAGAAAAATTCAAC
15889050 AATAAAA
1 AATAAAA
15889057 ATAACAACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.20
Consensus pattern (19 bp):
AATAAAAGAAAAATTCAAC
Found at i:15889076 original size:23 final size:23
Alignment explanation
Indices: 15889046--15889091 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
15889036 AAGATAAGTT
15889046 CAACAATAAAAATAACAACAAAA
1 CAACAATAAAAATAACAACAAAA
* *
15889069 CAACAATAAAAATATCAATAAAA
1 CAACAATAAAAATAACAACAAAA
15889092 ATAATAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.72, C:0.15, G:0.00, T:0.13
Consensus pattern (23 bp):
CAACAATAAAAATAACAACAAAA
Found at i:15889091 original size:11 final size:12
Alignment explanation
Indices: 15889047--15889100 Score: 65
Period size: 12 Copynumber: 4.6 Consensus size: 12
15889037 AGATAAGTTC
15889047 AACAATAAAAAT
1 AACAATAAAAAT
* *
15889059 AACAA-CAAAAC
1 AACAATAAAAAT
15889070 AACAATAAAAAT
1 AACAATAAAAAT
*
15889082 ATCAATAAAAAT
1 AACAATAAAAAT
*
15889094 AATAATA
1 AACAATA
15889101 TAATTCTTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
11 9 0.26
12 25 0.74
ACGTcount: A:0.72, C:0.11, G:0.00, T:0.17
Consensus pattern (12 bp):
AACAATAAAAAT
Found at i:15900764 original size:16 final size:18
Alignment explanation
Indices: 15900737--15900770 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
15900727 TATTTATTTA
15900737 TATTTAATTAT-ATAAAT
1 TATTTAATTATAATAAAT
15900754 TATTT-ATTATAATAAAT
1 TATTTAATTATAATAAAT
15900771 GAATGAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TATTTAATTATAATAAAT
Found at i:15903241 original size:40 final size:40
Alignment explanation
Indices: 15903097--15903258 Score: 127
Period size: 41 Copynumber: 4.1 Consensus size: 40
15903087 AAACACCGTA
* * *
15903097 AAAGG-TAGATCAATAGCG--G-TTATAAGAAAACGCCGCT
1 AAAGGTTAGAGCAATAGCGACGCTTATAA-AAAGCACCGCT
***
15903134 AAAGGTTAGAGCAATAGCGACGCTTATGGGCAAGCACCGCT
1 AAAGGTTAGAGCAATAGCGACGCTTAT-AAAAAGCACCGCT
* * * *
15903175 AAAGGTTAGAGCAATA-CTGGCACTTATAAAAAGCACTGTT
1 AAAGGTTAGAGCAATAGC-GACGCTTATAAAAAGCACCGCT
* * * *
15903215 AAAGGTCAGAGAAATAGCGACGCTTATATAAAAACGCCGCT
1 AAAGGTTAGAGCAATAGCGACGCTTATA-AAAAGCACCGCT
15903256 AAA
1 AAA
15903259 AATTGAGTTT
Statistics
Matches: 96, Mismatches: 21, Indels: 12
0.74 0.16 0.09
Matches are distributed among these distances:
37 5 0.05
38 12 0.12
40 32 0.33
41 47 0.49
ACGTcount: A:0.40, C:0.18, G:0.23, T:0.19
Consensus pattern (40 bp):
AAAGGTTAGAGCAATAGCGACGCTTATAAAAAGCACCGCT
Found at i:15910387 original size:54 final size:51
Alignment explanation
Indices: 15910298--15910404 Score: 187
Period size: 54 Copynumber: 2.0 Consensus size: 51
15910288 AAACAGCAAA
15910298 TTTGCAGTAAGGTTCATGAAGGTCTCATCTGTTTTTTCAGCAATGGAGACT
1 TTTGCAGTAAGGTTCATGAAGGTCTCATCTGTTTTTTCAGCAATGGAGACT
15910349 TTTGCAGTAAGGTTCATGCTCAAGGTCTCATCTGTTTTTTCAGCAATGGAGACT
1 TTTGCAGTAAGGTTCATG---AAGGTCTCATCTGTTTTTTCAGCAATGGAGACT
15910403 TT
1 TT
15910405 CATAGCAATA
Statistics
Matches: 53, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
51 18 0.34
54 35 0.66
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.38
Consensus pattern (51 bp):
TTTGCAGTAAGGTTCATGAAGGTCTCATCTGTTTTTTCAGCAATGGAGACT
Found at i:15910741 original size:21 final size:20
Alignment explanation
Indices: 15910715--15910758 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
15910705 AAAGAACAAG
15910715 AATAAAGTGAAAGAATGAGAA
1 AATAAAGTGAAAGAATGA-AA
*
15910736 AATAAATTGAAAGAATGAAA
1 AATAAAGTGAAAGAATGAAA
15910756 AAT
1 AAT
15910759 GATGAAAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.64, C:0.00, G:0.18, T:0.18
Consensus pattern (20 bp):
AATAAAGTGAAAGAATGAAA
Found at i:15914676 original size:5 final size:5
Alignment explanation
Indices: 15914668--15914698 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
15914658 TTTAATTTAA
*
15914668 TTTTC TTTTC GTTTC TTTTC TTTTC TTTTC T
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC T
15914699 ACATGCCTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.19, G:0.03, T:0.77
Consensus pattern (5 bp):
TTTTC
Found at i:15927730 original size:17 final size:18
Alignment explanation
Indices: 15927708--15927759 Score: 70
Period size: 17 Copynumber: 2.8 Consensus size: 18
15927698 TTTTGGTGCT
15927708 TTTTTTTACTGTTTTGG-
1 TTTTTTTACTGTTTTGGA
*
15927725 TTTTTTTACTATTTTGGTA
1 TTTTTTTACTGTTTTGG-A
15927744 CTTTTTTTACTGTTTT
1 -TTTTTTTACTGTTTT
15927760 TGTGTTGTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
17 16 0.53
20 14 0.47
ACGTcount: A:0.10, C:0.08, G:0.12, T:0.71
Consensus pattern (18 bp):
TTTTTTTACTGTTTTGGA
Found at i:15927770 original size:21 final size:20
Alignment explanation
Indices: 15927696--15927771 Score: 77
Period size: 20 Copynumber: 3.9 Consensus size: 20
15927686 TTTATAATGT
15927696 TGTTTTGGTGCTTTTTTTTAC
1 TGTTTTGGTG-TTTTTTTTAC
15927717 TGTTTT-G-G-TTTTTTTAC
1 TGTTTTGGTGTTTTTTTTAC
* **
15927734 TATTTTGGTACTTTTTTTAC
1 TGTTTTGGTGTTTTTTTTAC
*
15927754 TGTTTTTGTGTTGTTTTT
1 TGTTTTGGTGTT-TTTTT
15927772 GTTGTTGTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
17 14 0.31
18 1 0.02
19 1 0.02
20 18 0.40
21 11 0.24
ACGTcount: A:0.07, C:0.07, G:0.17, T:0.70
Consensus pattern (20 bp):
TGTTTTGGTGTTTTTTTTAC
Found at i:15927771 original size:12 final size:12
Alignment explanation
Indices: 15927754--15927835 Score: 64
Period size: 12 Copynumber: 7.1 Consensus size: 12
15927744 CTTTTTTTAC
15927754 TGTTTTTG-TGT
1 TGTTTTTGTTGT
15927765 TGTTTTTGTTGT
1 TGTTTTTGTTGT
* *
15927777 TGTTTTTATTGC
1 TGTTTTTGTTGT
* *
15927789 TATTTTTGTTGC
1 TGTTTTTGTTGT
* *
15927801 TG-TTTTGCTGC
1 TGTTTTTGTTGT
15927812 TG-TTTTGATTGT
1 TGTTTTTG-TTGT
*
15927824 T-ATTTTGTTGT
1 TGTTTTTGTTGT
15927835 T
1 T
15927836 TGGATGTTAT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
11 28 0.47
12 32 0.53
ACGTcount: A:0.05, C:0.05, G:0.22, T:0.68
Consensus pattern (12 bp):
TGTTTTTGTTGT
Found at i:15927807 original size:35 final size:34
Alignment explanation
Indices: 15927768--15927833 Score: 87
Period size: 35 Copynumber: 1.9 Consensus size: 34
15927758 TTTGTGTTGT
* * *
15927768 TTTTGTTGTTGTTTTTATTGCTATTTTTGTTGCTG
1 TTTTGCTGCTGTTTTGATTGCTA-TTTTGTTGCTG
*
15927803 TTTTGCTGCTGTTTTGATTGTTATTTTGTTG
1 TTTTGCTGCTGTTTTGATTGCTATTTTGTTG
15927834 TTTGGATGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
34 8 0.30
35 19 0.70
ACGTcount: A:0.06, C:0.06, G:0.21, T:0.67
Consensus pattern (34 bp):
TTTTGCTGCTGTTTTGATTGCTATTTTGTTGCTG
Found at i:15927999 original size:19 final size:22
Alignment explanation
Indices: 15927964--15928020 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 22
15927954 AACATAAAGA
*
15927964 ATTTTAATGTATTTTAAAT-TTT
1 ATTTTAATAT-TTTTAAATGTTT
15927986 ATTTT-AT-TTTTT-AATGTTT
1 ATTTTAATATTTTTAAATGTTT
15928005 ATTTTAATATTTTTAA
1 ATTTTAATATTTTTAA
15928021 GTGTATTTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
18 3 0.10
19 12 0.39
20 3 0.10
21 7 0.23
22 6 0.19
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (22 bp):
ATTTTAATATTTTTAAATGTTT
Found at i:15928027 original size:20 final size:19
Alignment explanation
Indices: 15927985--15928028 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
15927975 TTTTAAATTT
*
15927985 TATTTTATTTTTTAATGTT
1 TATTTTATTTTTTAATGTG
15928004 TATTTTAATATTTTTAA-GTG
1 TATTTT-AT-TTTTTAATGTG
15928024 TATTT
1 TATTT
15928029 GATATATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 6 0.27
20 9 0.41
21 7 0.32
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (19 bp):
TATTTTATTTTTTAATGTG
Found at i:15928035 original size:21 final size:21
Alignment explanation
Indices: 15927993--15928036 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
15927983 TTTATTTTAT
* *
15927993 TTTTTAATGTTTATTTTAATA
1 TTTTTAATGTGTATTTGAATA
15928014 TTTTTAA-GTGTATTTGATATA
1 TTTTTAATGTGTATTTGA-ATA
15928035 TT
1 TT
15928037 ATATATTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (21 bp):
TTTTTAATGTGTATTTGAATA
Found at i:15936672 original size:12 final size:12
Alignment explanation
Indices: 15936655--15936682 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
15936645 AATCAATTGG
15936655 AATATTAAAAAT
1 AATATTAAAAAT
15936667 AATATTAAAAAT
1 AATATTAAAAAT
15936679 AATA
1 AATA
15936683 ACTACGAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AATATTAAAAAT
Found at i:15941969 original size:23 final size:24
Alignment explanation
Indices: 15941943--15941999 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 24
15941933 AATGTTCACA
** *
15941943 AACATGTTCATTTAAC-TTAATCG
1 AACATGTTCATCGAACATTAAACG
15941966 AACATGTTCA-CGAACATTAAACG
1 AACATGTTCATCGAACATTAAACG
15941989 AACATGTTCAT
1 AACATGTTCAT
15942000 GAATATATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.10
23 26 0.90
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.32
Consensus pattern (24 bp):
AACATGTTCATCGAACATTAAACG
Found at i:15945886 original size:31 final size:31
Alignment explanation
Indices: 15945848--15945908 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
15945838 AAATGATTAT
* *
15945848 TAAATTATTCGAAAGTTTTCATTTAAGTCAC
1 TAAATTATTCAAAAGTTTTCATTCAAGTCAC
*
15945879 TAAATTATTCAAAAGTTTTTATTCAAGTCA
1 TAAATTATTCAAAAGTTTTCATTCAAGTCA
15945909 TTGAGTTGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (31 bp):
TAAATTATTCAAAAGTTTTCATTCAAGTCAC
Found at i:15947640 original size:30 final size:30
Alignment explanation
Indices: 15947606--15947731 Score: 139
Period size: 30 Copynumber: 4.2 Consensus size: 30
15947596 GTTAAAATCA
15947606 AATTTTTAAAAAGTTTGGGGGTAAAAATAT
1 AATTTTTAAAAAGTTTGGGGGTAAAAATAT
** * * *
15947636 AATTTTGGAAAAGTTAGGGAGTTAAAATAT
1 AATTTTTAAAAAGTTTGGGGGTAAAAATAT
*
15947666 AATTTTTGAAAAGTTTGGGGGTAAAAATAT
1 AATTTTTAAAAAGTTTGGGGGTAAAAATAT
* * *
15947696 TA-TTTTAAAAATTTTGAGGGTCAAAAAT-T
1 AATTTTTAAAAAGTTTGGGGGT-AAAAATAT
15947725 AGATTTT
1 A-ATTTT
15947732 GAAAGTTTAA
Statistics
Matches: 79, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
29 17 0.22
30 59 0.75
31 3 0.04
ACGTcount: A:0.41, C:0.01, G:0.20, T:0.38
Consensus pattern (30 bp):
AATTTTTAAAAAGTTTGGGGGTAAAAATAT
Found at i:15947781 original size:30 final size:30
Alignment explanation
Indices: 15947728--15947791 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
15947718 AAAAATTAGA
* *
15947728 TTTT-GAAAGTTTAAAGGTTAAAATTGAAT
1 TTTTAGAAAGTTTAAAGGTCAAAATCGAAT
*
15947757 TTTTAGAAAGTTT-AAGAGTCAAAATCGAGT
1 TTTTAGAAAGTTTAAAG-GTCAAAATCGAAT
15947787 TTTTA
1 TTTTA
15947792 AATAAAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 7 0.23
30 23 0.77
ACGTcount: A:0.39, C:0.03, G:0.17, T:0.41
Consensus pattern (30 bp):
TTTTAGAAAGTTTAAAGGTCAAAATCGAAT
Found at i:15948450 original size:8 final size:10
Alignment explanation
Indices: 15948433--15948524 Score: 55
Period size: 10 Copynumber: 9.4 Consensus size: 10
15948423 TATATAAAAA
15948433 ATATATGTAT
1 ATATATGTAT
15948443 AT-TA-GTAT
1 ATATATGTAT
15948451 ATATATGTAT
1 ATATATGTAT
** *
15948461 ATATAAATTT
1 ATATATGTAT
* * *
15948471 AGATTTTTAT
1 ATATATGTAT
* *
15948481 ATACATGCGA-
1 ATATATG-TAT
*
15948491 ATATATATAT
1 ATATATGTAT
*
15948501 ATATATATAT
1 ATATATGTAT
*
15948511 ATATATATAT
1 ATATATGTAT
15948521 ATAT
1 ATAT
15948525 GAGCATGAAC
Statistics
Matches: 62, Mismatches: 16, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
8 6 0.10
9 5 0.08
10 50 0.81
11 1 0.02
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (10 bp):
ATATATGTAT
Found at i:15948496 original size:2 final size:2
Alignment explanation
Indices: 15948491--15948524 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
15948481 ATACATGCGA
15948491 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15948525 GAGCATGAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15949895 original size:99 final size:97
Alignment explanation
Indices: 15949696--15950173 Score: 337
Period size: 99 Copynumber: 4.8 Consensus size: 97
15949686 CCCGTCATGT
* * * * *
15949696 TTCTAAGGTA-CTAGGTTCGCCGTTGCGGCCTCAACATTTCCCTTCATATCTTCATGGTACCAGG
1 TTCTAAGGTACCGA-GTTCGCCG-T-CGACCTCAACCTTTCCCTTCATATCTTCATGGTATCGGG
* *
15949760 TTCACCGTTACGGCTTCAACCTTT-CCTATCACATC
63 TTCGCCGTTACGGCCTCAACCTTTCCCT-TCACATC
* *
15949795 TTCTAAGGTACCGAGTTCGCCGTCGAGGCCTCAACCTTTCCTTTCATATCTTCTTGGTATCGGGT
1 TTCTAAGGTACCGAGTTCGCCGTCGA--CCTCAACCTTTCCCTTCATATCTTCATGGTATCGGGT
* * *
15949860 TCGTCGTTACAGCCTCAACCTTTCCCTTCATATC
64 TCGCCGTTACGGCCTCAACCTTTCCCTTCACATC
* ** * * * * * **
15949894 TTC-ATGGTATTGGGTTCGCCGTTACGACCTCAACCTTTCCCATCACATCTTCTAAGGTAACGAA
1 TTCTAAGGTACCGAGTTCGCCG-T-CGACCTCAACCTTTCCCTTCATATCTTC-ATGGTATCGGG
* * * *
15949958 TTCGCCGTCACGACCTCAATCC-TTCCTTTCAAATC
63 TTCGCCGTTACGGCCTCAA-CCTTTCCCTTCACATC
* * * * * * *
15949993 TTC-ATGGTACCAAATTCACCGTTACGACCTCAATCC-TTCCTTTCAAATCTTCATGGTATCTGG
1 TTCTAAGGTACCGAGTTCGCCG-T-CGACCTCAA-CCTTTCCCTTCATATCTTCATGGTATCGGG
** *
15950056 TTCGCATTTGCGGCCTCAACCTTT-CCTATC-CATC
63 TTCGCCGTTACGGCCTCAACCTTTCCCT-TCACATC
* * * * *
15950090 TTCTAAGGTACTG-GATTCGCCGTCGCAACCTCAATCC-TTCCCTTCAAATTTTTATGGTACCGG
1 TTCTAAGGTACCGAG-TTCGCCGTCG--ACCTCAA-CCTTTCCCTTCATATCTTCATGGTATCGG
**
15950153 GTTCGCCGTTGTGGCCTCAAC
62 GTTCGCCGTTACGGCCTCAAC
15950174 TATCGGGTTC
Statistics
Matches: 300, Mismatches: 64, Indels: 31
0.76 0.16 0.08
Matches are distributed among these distances:
96 2 0.01
97 13 0.04
98 122 0.41
99 151 0.50
100 12 0.04
ACGTcount: A:0.19, C:0.31, G:0.16, T:0.33
Consensus pattern (97 bp):
TTCTAAGGTACCGAGTTCGCCGTCGACCTCAACCTTTCCCTTCATATCTTCATGGTATCGGGTTC
GCCGTTACGGCCTCAACCTTTCCCTTCACATC
Found at i:15949919 original size:148 final size:147
Alignment explanation
Indices: 15949702--15950162 Score: 513
Period size: 148 Copynumber: 3.1 Consensus size: 147
15949692 ATGTTTCTAA
* * * ** *
15949702 GGTACTAGGTTCGCCGTTGCGGCCTCAACATTTCCCTTCATATCTTCATGGTACCAGGTTCACCG
1 GGTACCAGGTTCGCCGTTAC-GCCTCAACCTTTCCCTTCATATCTTCATGGTA-TTGGTTCGCCG
* *
15949767 TTACGGCTTCAACCTTTCCTATCACATCTTCTAAGGTACCGAGTTCGCCGTCGA-GGCCTCAA-C
64 TTACGGCCTCAACCTTTCCTATCACATCTTCTAAGGTACCGAGTTCGCCGTCGACGACCTCAATC
* *
15949830 CTTTCCTTTCATATCTTCTT
129 C-TTCCTTTCAAATCTTCAT
* * *
15949850 GGTATCGGGTTCGTCGTTACAGCCTCAACCTTTCCCTTCATATCTTCATGGTATTGGGTTCGCCG
1 GGTACCAGGTTCGCCGTTAC-GCCTCAACCTTTCCCTTCATATCTTCATGGTATT-GGTTCGCCG
* * * *
15949915 TTACGACCTCAACCTTTCCCATCACATCTTCTAAGGTAACGAATTCGCCGTC-ACGACCTCAATC
64 TTACGGCCTCAACCTTTCCTATCACATCTTCTAAGGTACCGAGTTCGCCGTCGACGACCTCAATC
15949979 CTTCCTTTCAAATCTTCAT
129 CTTCCTTTCAAATCTTCAT
** * * * *
15949998 GGTACCAAATTCACCGTTACGACCTCAATCC-TTCCTTTCAAATCTTCATGGTATCTGGTTCGCA
1 GGTACCAGGTTCGCCGTTACG-CCTCAA-CCTTTCCCTTCATATCTTCATGGTAT-TGGTTCGCC
* * * *
15950062 TTTGCGGCCTCAACCTTTCCTATC-CATCTTCTAAGGTACTG-GATTCGCCGTCG-CAACCTCAA
63 GTTACGGCCTCAACCTTTCCTATCACATCTTCTAAGGTACCGAG-TTCGCCGTCGACGACCTCAA
* * *
15950124 TCCTTCCCTTCAAATTTTTAT
127 TCCTTCCTTTCAAATCTTCAT
*
15950145 GGTACCGGGTTCGCCGTT
1 GGTACCAGGTTCGCCGTT
15950163 GTGGCCTCAA
Statistics
Matches: 263, Mismatches: 42, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
147 66 0.25
148 192 0.73
149 5 0.02
ACGTcount: A:0.19, C:0.31, G:0.16, T:0.34
Consensus pattern (147 bp):
GGTACCAGGTTCGCCGTTACGCCTCAACCTTTCCCTTCATATCTTCATGGTATTGGTTCGCCGTT
ACGGCCTCAACCTTTCCTATCACATCTTCTAAGGTACCGAGTTCGCCGTCGACGACCTCAATCCT
TCCTTTCAAATCTTCAT
Found at i:15950026 original size:49 final size:49
Alignment explanation
Indices: 15949710--15950162 Score: 305
Period size: 49 Copynumber: 9.2 Consensus size: 49
15949700 AAGGTACTAG
* * * *
15949710 GTTCGCCGTTGCGGCCTCAACATTTCCCTTCATATCTTCATGGTACC-A
1 GTTCGCCGTTACGACCTCAACCTTTCCTTTCATATCTTCATGGTACCGA
* * * * * *
15949758 GGTTCACCGTTACGGCTTCAACCTTTCCTATCACATCTTCTAAGGTACCGA
1 -GTTCGCCGTTACGACCTCAACCTTTCCTTTCATATCTTC-ATGGTACCGA
* * *
15949809 GTTCGCCG-T-CGAGGCCTCAACCTTTCCTTTCATATCTTCTTGGTATCGG
1 GTTCGCCGTTACGA--CCTCAACCTTTCCTTTCATATCTTCATGGTACCGA
* * ** *
15949858 GTTCGTCGTTAC-AGCCTCAACCTTTCCCTTCATATCTTCATGGTATTGG
1 GTTCGCCGTTACGA-CCTCAACCTTTCCTTTCATATCTTCATGGTACCGA
** * * *
15949907 GTTCGCCGTTACGACCTCAACCTTTCCCATCACATCTTCTAAGGTAACGA
1 GTTCGCCGTTACGACCTCAACCTTTCCTTTCATATCTTC-ATGGTACCGA
* * * *
15949957 ATTCGCCGTCACGACCTCAATCC-TTCCTTTCAAATCTTCATGGTACCAA
1 GTTCGCCGTTACGACCTCAA-CCTTTCCTTTCATATCTTCATGGTACCGA
* * * *
15950006 ATTCACCGTTACGACCTCAATCC-TTCCTTTCAAATCTTCATGGTATCTG-
1 GTTCGCCGTTACGACCTCAA-CCTTTCCTTTCATATCTTCATGGTA-CCGA
** * * * * * *
15950055 GTTCGCATTTGCGGCCTCAACCTTTCCTATC-CATCTTCTAAGGTACTG-
1 GTTCGCCGTTACGACCTCAACCTTTCCTTTCATATCTTC-ATGGTACCGA
** * * * * * *
15950103 GATTCGCCGTCGCAACCTCAATCC-TTCCCTTCAAATTTTTATGGTACCGG
1 G-TTCGCCGTTACGACCTCAA-CCTTTCCTTTCATATCTTCATGGTACCGA
15950153 GTTCGCCGTT
1 GTTCGCCGTT
15950163 GTGGCCTCAA
Statistics
Matches: 326, Mismatches: 62, Indels: 32
0.78 0.15 0.08
Matches are distributed among these distances:
48 14 0.04
49 224 0.69
50 84 0.26
51 4 0.01
ACGTcount: A:0.19, C:0.32, G:0.15, T:0.34
Consensus pattern (49 bp):
GTTCGCCGTTACGACCTCAACCTTTCCTTTCATATCTTCATGGTACCGA
Found at i:15950171 original size:49 final size:48
Alignment explanation
Indices: 15949666--15950173 Score: 254
Period size: 49 Copynumber: 10.3 Consensus size: 48
15949656 AGAAGATCCA
* * * * * * **
15949666 CCGTTGTGGCTTCAATCTTTCCCGTCATGTTTCTAAGGTACTAGGTTCG
1 CCGTTGCGGCCTCAA-CCTTCCCTTCATATTTCTATGGTACCGGGTTCG
* * *
15949715 CCGTTGCGGCCTCAACATTTCCCTTCATATCTTC-ATGGTACCAGGTTCA
1 CCGTTGCGGCCTCAAC-CTTCCCTTCATAT-TTCTATGGTACCGGGTTCG
* * * * * *
15949764 CCGTTACGGCTTCAACCTTTCCTATCACATCTTCTAAGGTACCGAGTTCG
1 CCGTTGCGGCCTCAACCTTCCCT-TCATAT-TTCTATGGTACCGGGTTCG
* * * *
15949814 CCGTCGAGGCCTCAACCTTTCCTTTCATATCTTCT-TGGTATCGGGTTCG
1 CCGTTGCGGCCTCAACC-TTCCCTTCATAT-TTCTATGGTACCGGGTTCG
* * * **
15949863 TCGTTACAGCCTCAACCTTTCCCTTCATATCTTC-ATGGTATTGGGTTCG
1 CCGTTGCGGCCTCAACC-TTCCCTTCATAT-TTCTATGGTACCGGGTTCG
* * * * * * **
15949912 CCGTTACGACCTCAACCTTTCCCATCACATCTTCTAAGGTAACGAATTCG
1 CCGTTGCGGCCTCAACC-TTCCCTTCATAT-TTCTATGGTACCGGGTTCG
** * * * *** *
15949962 CCGTCACGACCTCAATCCTTCCTTTCAAATCTTC-ATGGTACCAAATTCA
1 CCGTTGCGGCCTCAA-CCTTCCCTTCATAT-TTCTATGGTACCGGGTTCG
* * * * * *
15950011 CCGTTACGACCTCAATCCTTCCTTTCAAATCTTC-ATGGTATCTGGTTCG
1 CCGTTGCGGCCTCAA-CCTTCCCTTCATAT-TTCTATGGTACCGGGTTCG
** * * * * *
15950060 CATTTGCGGCCTCAACCTTTCCTATCCAT-CTTCTAAGGTACTGGATTCG
1 CCGTTGCGGCCTCAACCTTCCCT-T-CATATTTCTATGGTACCGGGTTCG
* ** * *
15950109 CCGTCGCAACCTCAATCCTTCCCTTCAAATTTTTATGGTACCGGGTTCG
1 CCGTTGCGGCCTCAA-CCTTCCCTTCATATTTCTATGGTACCGGGTTCG
*
15950158 CCGTTGTGGCCTCAAC
1 CCGTTGCGGCCTCAAC
15950174 TATCGGGTTC
Statistics
Matches: 360, Mismatches: 86, Indels: 27
0.76 0.18 0.06
Matches are distributed among these distances:
48 18 0.05
49 253 0.70
50 83 0.23
51 6 0.02
ACGTcount: A:0.19, C:0.31, G:0.16, T:0.34
Consensus pattern (48 bp):
CCGTTGCGGCCTCAACCTTCCCTTCATATTTCTATGGTACCGGGTTCG
Found at i:15951435 original size:26 final size:26
Alignment explanation
Indices: 15951401--15951485 Score: 124
Period size: 26 Copynumber: 3.4 Consensus size: 26
15951391 AGTCCATTGT
15951401 ACACAGTGCTGGGGAAACAGAAGCAC
1 ACACAGTGCTGGGGAAACAGAAGCAC
*
15951427 ACACAGTGCT---G-AACAGAATCAC
1 ACACAGTGCTGGGGAAACAGAAGCAC
15951449 ACACAGTGCTGGGGAAACAGAAGCAC
1 ACACAGTGCTGGGGAAACAGAAGCAC
*
15951475 ACATAGTGCTG
1 ACACAGTGCTG
15951486 AACAGAAGCG
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
22 20 0.38
23 1 0.02
25 1 0.02
26 30 0.58
ACGTcount: A:0.38, C:0.24, G:0.27, T:0.12
Consensus pattern (26 bp):
ACACAGTGCTGGGGAAACAGAAGCAC
Found at i:15951441 original size:22 final size:22
Alignment explanation
Indices: 15951416--15951494 Score: 104
Period size: 22 Copynumber: 3.4 Consensus size: 22
15951406 GTGCTGGGGA
15951416 AACAGAAGCACACACAGTGCTG
1 AACAGAAGCACACACAGTGCTG
*
15951438 AACAGAATCACACACAGTGCTGGGG
1 AACAGAAGCACACACAGTGCT---G
*
15951463 AAACAGAAGCACACATAGTGCTG
1 -AACAGAAGCACACACAGTGCTG
15951486 AACAGAAGC
1 AACAGAAGC
15951495 GCGCTAGCGT
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
22 29 0.58
23 1 0.02
25 1 0.02
26 19 0.38
ACGTcount: A:0.42, C:0.24, G:0.24, T:0.10
Consensus pattern (22 bp):
AACAGAAGCACACACAGTGCTG
Found at i:15951470 original size:48 final size:48
Alignment explanation
Indices: 15951401--15951492 Score: 175
Period size: 48 Copynumber: 1.9 Consensus size: 48
15951391 AGTCCATTGT
15951401 ACACAGTGCTGGGGAAACAGAAGCACACACAGTGCTGAACAGAATCAC
1 ACACAGTGCTGGGGAAACAGAAGCACACACAGTGCTGAACAGAATCAC
*
15951449 ACACAGTGCTGGGGAAACAGAAGCACACATAGTGCTGAACAGAA
1 ACACAGTGCTGGGGAAACAGAAGCACACACAGTGCTGAACAGAA
15951493 GCGCGCTAGC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.40, C:0.23, G:0.26, T:0.11
Consensus pattern (48 bp):
ACACAGTGCTGGGGAAACAGAAGCACACACAGTGCTGAACAGAATCAC
Found at i:15960937 original size:11 final size:12
Alignment explanation
Indices: 15960923--15960998 Score: 50
Period size: 11 Copynumber: 6.1 Consensus size: 12
15960913 AACTAAATCC
15960923 ATTTTAAATTT-
1 ATTTTAAATTTA
15960934 ATTTTAAGATTAAATA
1 ATTTTAA-ATT---TA
15960950 TATTTTAAATTTA
1 -ATTTTAAATTTA
* *
15960963 AATTT-AATTTG
1 ATTTTAAATTTA
*
15960974 AGTTTAAATTT-
1 ATTTTAAATTTA
15960985 ATTTTCAAATTTA
1 ATTTT-AAATTTA
15960998 A
1 A
15960999 AATTATTATA
Statistics
Matches: 52, Mismatches: 4, Indels: 16
0.72 0.06 0.22
Matches are distributed among these distances:
11 20 0.38
12 18 0.35
13 3 0.06
15 1 0.02
16 3 0.06
17 7 0.13
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (12 bp):
ATTTTAAATTTA
Found at i:15960962 original size:23 final size:23
Alignment explanation
Indices: 15960936--15960985 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
15960926 TTAAATTTAT
*
15960936 TTTAAGATTAAATAT-ATTTTAAA
1 TTTAA-ATTAAATATGAGTTTAAA
* *
15960959 TTTAAATTTAATTTGAGTTTAAA
1 TTTAAATTAAATATGAGTTTAAA
15960982 TTTA
1 TTTA
15960986 TTTTCAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (23 bp):
TTTAAATTAAATATGAGTTTAAA
Found at i:15960963 original size:34 final size:35
Alignment explanation
Indices: 15960925--15961005 Score: 110
Period size: 34 Copynumber: 2.3 Consensus size: 35
15960915 CTAAATCCAT
15960925 TTTAAATTTATTTTAAGATTAAATATATTTT-AAA
1 TTTAAATTTATTTTAAGATTAAATATATTTTCAAA
* * * *
15960959 TTTAAATTTAATTTGAGTTTAAATTTATTTTCAAA
1 TTTAAATTTATTTTAAGATTAAATATATTTTCAAA
*
15960994 TTTAAAATTATT
1 TTTAAATTTATT
15961006 ATAAATTTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
34 27 0.68
35 13 0.32
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (35 bp):
TTTAAATTTATTTTAAGATTAAATATATTTTCAAA
Found at i:15961013 original size:17 final size:17
Alignment explanation
Indices: 15960925--15961016 Score: 80
Period size: 17 Copynumber: 5.4 Consensus size: 17
15960915 CTAAATCCAT
*
15960925 TTTAAATTTATTTTAAGA
1 TTTAAAATTATTTTAA-A
15960943 -TT-AAATATATTTTAAA
1 TTTAAAAT-TATTTTAAA
* * * *
15960959 TTTAAATTTAATTTGAG
1 TTTAAAATTATTTTAAA
*
15960976 TTTAAATTTATTTTCAAA
1 TTTAAAATTATTTT-AAA
*
15960994 TTTAAAATTATTATAAA
1 TTTAAAATTATTTTAAA
15961011 TTTAAA
1 TTTAAA
15961017 TGAACAAAAG
Statistics
Matches: 60, Mismatches: 10, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
16 4 0.07
17 40 0.67
18 16 0.27
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.52
Consensus pattern (17 bp):
TTTAAAATTATTTTAAA
Found at i:15962959 original size:30 final size:28
Alignment explanation
Indices: 15962923--15963241 Score: 151
Period size: 29 Copynumber: 10.9 Consensus size: 28
15962913 CCTTGAAGGT
*
15962923 CCCTAAACTGTCCAAAAATCACATTTTGAC
1 CCCTAAACT-TCCAAAAATTACATTTT-AC
15962953 CCCTAAACTTCCCAAAAATTACATTTTTAC
1 CCCTAAACTT-CCAAAAATTACA-TTTTAC
* * *
15962983 CCTTAAACTTTCC-AAAATTTCATTTTAA
1 CCCTAAAC-TTCCAAAAATTACATTTTAC
*
15963011 CCCTAAACTTCTAAAAATTACATTTTTAC
1 CCCTAAACTTCCAAAAATTACA-TTTTAC
** * * *
15963040 CTTTGAACTTCCCAAAATTCCATTTTTGA-
1 CCCTAAACTTCCAAAAATTACA-TTTT-AC
* *** *** **
15963069 CCTTGATTTTTTTTAAAATTACATTTTTT
1 CCCT-AAACTTCCAAAAATTACATTTTAC
15963098 CCCTAAACTTTCC-AAAATT-CTATTTTTGAC
1 CCCTAAAC-TTCCAAAAATTAC-A-TTTT-AC
***
15963128 CCCTATTTTTTCCAAAAATTACCATTTTAC
1 CCCTA-AACTTCCAAAAATTA-CATTTTAC
* * *
15963158 CCTTAAGCTTCCAAAAATTCCATTTTAAC
1 CCCTAAACTTCCAAAAATTACATTTT-AC
* * *** *
15963187 CTCGATTTTTCCAAAAAATACCATTTTAC
1 CCCTAAACTTCCAAAAATTA-CATTTTAC
* * *
15963216 CCCCAAACTTTCAAAAATTTCATTTT
1 CCCTAAACTTCCAAAAATTACATTTT
15963242 TTACTCCAAT
Statistics
Matches: 215, Mismatches: 56, Indels: 38
0.70 0.18 0.12
Matches are distributed among these distances:
27 4 0.02
28 40 0.19
29 90 0.42
30 63 0.29
31 16 0.07
32 1 0.00
33 1 0.00
ACGTcount: A:0.33, C:0.25, G:0.03, T:0.40
Consensus pattern (28 bp):
CCCTAAACTTCCAAAAATTACATTTTAC
Found at i:15963117 original size:58 final size:57
Alignment explanation
Indices: 15962923--15963377 Score: 300
Period size: 58 Copynumber: 7.8 Consensus size: 57
15962913 CCTTGAAGGT
* * * * ** *
15962923 CCCTAAACTGTCCAAAAATCACATTTTGACCCCTAAACTTCCCAAAAATTACATTTTTA
1 CCCTAAACTTTCCAAAATTC-CATTTTTAACCCT-ATTTTTCCAAAAATTACATTTTTA
* *** *
15962982 CCCTTAAACTTTCCAAAATTTCA-TTTTAACCCTAAACTTCTAAAAATTACATTTTTA
1 CCC-TAAACTTTCCAAAATTCCATTTTTAACCCTATTTTTCCAAAAATTACATTTTTA
* * * * * *** *
15963039 CCTTTGAACTTCCCAAAATTCCATTTTTGACCTTGATTTTTTTTAAAATTACATTTTTT
1 CC-CTAAACTTTCCAAAATTCCATTTTTAACCCT-ATTTTTCCAAAAATTACATTTTTA
* *
15963098 CCCTAAACTTTCCAAAATTCTATTTTTGACCCCTATTTTTTCCAAAAATTACCA-TTTTA
1 CCCTAAACTTTCCAAAATTCCATTTTT-AACCCTA-TTTTTCCAAAAATTA-CATTTTTA
* * *
15963157 CCCTTAAGC-TTCCAAAAATTCCA-TTTTAACCTCGATTTTTCCAAAAAATACCA-TTTTA
1 CCC-TAAACTTTCC-AAAATTCCATTTTTAACC-CTATTTTTCCAAAAATTA-CATTTTTA
* * * * * *
15963215 CCCCCAAACTTTCAAAAATTTCATTTTTTACTCCAATTTTTCC-AAAATGAC-TATTTTA
1 -CCCTAAACTTTCCAAAATTCCATTTTTAAC-CCTATTTTTCCAAAAATTACAT-TTTTA
* *
15963273 CCCTCAAACTTT-TAAAATTTCCATTTTTAACCTCAATTTTTCCAAAAATTACCA-TTTTA
1 CCCT-AAACTTTCCAAAA-TTCCATTTTTAACC-CTATTTTTCCAAAAATTA-CATTTTTA
* * * *
15963332 CCCCCAAACTTTCTAAAA-TCCTATTTTTGACCCCGATTTTTCCAAA
1 -CCCTAAACTTTCCAAAATTCC-ATTTTT-AACCCTATTTTTCCAAA
15963378 CTTCTCCAAA
Statistics
Matches: 317, Mismatches: 53, Indels: 52
0.75 0.13 0.12
Matches are distributed among these distances:
57 47 0.15
58 115 0.36
59 114 0.36
60 41 0.13
ACGTcount: A:0.33, C:0.25, G:0.02, T:0.40
Consensus pattern (57 bp):
CCCTAAACTTTCCAAAATTCCATTTTTAACCCTATTTTTCCAAAAATTACATTTTTA
Found at i:15963146 original size:59 final size:58
Alignment explanation
Indices: 15962923--15963377 Score: 281
Period size: 59 Copynumber: 7.8 Consensus size: 58
15962913 CCTTGAAGGT
* * * ** *
15962923 CCCTAAACTGTCCAAAAATC-ACATTTTGACCCCTAAACTTCCCAAAAATTACATTTTTA
1 CCCTAAACTTTCCAAAATTCTA-TTTTTGACCCCT-ATTTTTCCAAAAATTACATTTTTA
* *** *
15962982 CCCTTAAACTTTCCAAAATT-TCA-TTTT-AACCCTAAACTTCTAAAAATTACATTTTTA
1 CCC-TAAACTTTCCAAAATTCT-ATTTTTGACCCCTATTTTTCCAAAAATTACATTTTTA
* * * * * *** *
15963039 CCTTTGAACTTCCCAAAATTCCATTTTTGA-CCTTGATTTTTTTTAAAATTACATTTTTT
1 CC-CTAAACTTTCCAAAATTCTATTTTTGACCCCT-ATTTTTCCAAAAATTACATTTTTA
15963098 CCCTAAACTTTCCAAAATTCTATTTTTGACCCCTATTTTTTCCAAAAATTACCA-TTTTA
1 CCCTAAACTTTCCAAAATTCTATTTTTGACCCCTA-TTTTTCCAAAAATTA-CATTTTTA
* * * * * *
15963157 CCCTTAAGC-TTCCAAAAATTCCA-TTTTAACCTCGATTTTTCCAAAAAATACCA-TTTTA
1 CCC-TAAACTTTCC-AAAATTCTATTTTTGACCCCTATTTTTCCAAAAATTA-CATTTTTA
* * * * * *
15963215 CCCCCAAACTTTCAAAAATT-TCATTTTTTACTCCAATTTTTCC-AAAATGAC-TATTTTA
1 -CCCTAAACTTTCCAAAATTCT-ATTTTTGACCCCTATTTTTCCAAAAATTACAT-TTTTA
* * * * *
15963273 CCCTCAAACTTT-TAAAATTTCCATTTTTAACCTCAATTTTTCCAAAAATTACCA-TTTTA
1 CCCT-AAACTTTCCAAAA-TTCTATTTTTGACCCCTATTTTTCCAAAAATTA-CATTTTTA
* * * *
15963332 CCCCCAAACTTTCTAAAATCCTATTTTTGACCCCGATTTTTCCAAA
1 -CCCTAAACTTTCCAAAATTCTATTTTTGACCCCTATTTTTCCAAA
15963378 CTTCTCCAAA
Statistics
Matches: 313, Mismatches: 56, Indels: 54
0.74 0.13 0.13
Matches are distributed among these distances:
57 45 0.14
58 105 0.34
59 125 0.40
60 37 0.12
61 1 0.00
ACGTcount: A:0.33, C:0.25, G:0.02, T:0.40
Consensus pattern (58 bp):
CCCTAAACTTTCCAAAATTCTATTTTTGACCCCTATTTTTCCAAAAATTACATTTTTA
Found at i:15963410 original size:30 final size:29
Alignment explanation
Indices: 15963376--15963455 Score: 74
Period size: 29 Copynumber: 2.8 Consensus size: 29
15963366 GATTTTTCCA
*
15963376 AACTTCTCCAAAATTA-CATTTTTACCCTTG
1 AACTT-TCAAAAATTACCA-TTTTACCCTTG
* *
15963406 AACTTTTAAAAATTACCATTTTACCCTCG
1 AACTTTCAAAAATTACCATTTTACCCTTG
* * *
15963435 -AGTGTCCAAAATTACCATTTT
1 AACTTTCAAAAATTACCATTTT
15963456 GCCCCCGAGT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
28 17 0.40
29 18 0.43
30 7 0.17
ACGTcount: A:0.33, C:0.24, G:0.05, T:0.39
Consensus pattern (29 bp):
AACTTTCAAAAATTACCATTTTACCCTTG
Found at i:15963454 original size:28 final size:28
Alignment explanation
Indices: 15963414--15963473 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
15963404 TGAACTTTTA
* *
15963414 AAAATTACCATTTTACCCTCGAGTGTCC
1 AAAATTACCATTTTACCCCCGAGTATCC
*
15963442 AAAATTACCATTTTGCCCCCGAGTATCC
1 AAAATTACCATTTTACCCCCGAGTATCC
15963470 AAAA
1 AAAA
15963474 ATCACATTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.28, G:0.10, T:0.28
Consensus pattern (28 bp):
AAAATTACCATTTTACCCCCGAGTATCC
Found at i:15964654 original size:30 final size:29
Alignment explanation
Indices: 15964615--15964968 Score: 180
Period size: 30 Copynumber: 11.9 Consensus size: 29
15964605 TTTCAAAGAA
*
15964615 TTTAGGGTTAAAATGCGATTTTTAAAAAG
1 TTTAGGGTTAAAATGTGATTTTTAAAAAG
* * *
15964644 TTTGGGGGTTAAAATGTGA-TTTTAGGAAGG
1 TTT-AGGGTTAAAATGTGATTTTTA-AAAAG
* * *
15964674 TTTTAAGGTCAAAATGTGATTTTGGAAAAAG
1 -TTTAGGGTTAAAATGTGATTTT-TAAAAAG
* ** * **
15964705 TTT-GGGTCAAAACATAATTTTTGGAAAG
1 TTTAGGGTTAAAATGTGATTTTTAAAAAG
*
15964733 TTTAGGGTTAAAATGTGATTTTTGGAAAA-
1 TTTAGGGTTAAAATGTGATTTTT-AAAAAG
* *** * *
15964762 TTT-GTGGTCAAAATCAAAGTTTTAGAAAG
1 TTTAG-GGTTAAAATGTGATTTTTAAAAAG
* * * * *
15964791 TTCGAGGGTAAAAATATAATTTTGGAAAAA-
1 TT-TAGGGTTAAAATGTGATTTT-TAAAAAG
* * **
15964821 -TTATGGAATTAAAATGTAATTTTTGGAAAG
1 TTTA-GG-GTTAAAATGTGATTTTTAAAAAG
* * *
15964851 TTTGGGGTAAAAATGTTATTTTTAAAAAG
1 TTTAGGGTTAAAATGTGATTTTTAAAAAG
* *
15964880 TTTTAAGGTTAAAATGTGATTTTTGAAAAG
1 -TTTAGGGTTAAAATGTGATTTTTAAAAAG
*** *
15964910 TTTGAGGGTTAAAATCAAATTTTTAGAAAG
1 TTT-AGGGTTAAAATGTGATTTTTAAAAAG
* *
15964940 TTTAGGGGTTAAAATCGAGTTTTTTAAAA
1 TTTA-GGGTTAAAAT-GTGATTTTTAAAA
15964969 TAAAATAAGG
Statistics
Matches: 241, Mismatches: 64, Indels: 38
0.70 0.19 0.11
Matches are distributed among these distances:
28 12 0.05
29 83 0.34
30 120 0.50
31 25 0.10
32 1 0.00
ACGTcount: A:0.37, C:0.03, G:0.22, T:0.38
Consensus pattern (29 bp):
TTTAGGGTTAAAATGTGATTTTTAAAAAG
Found at i:15964759 original size:59 final size:59
Alignment explanation
Indices: 15964615--15964924 Score: 242
Period size: 59 Copynumber: 5.2 Consensus size: 59
15964605 TTTCAAAGAA
* * * *
15964615 TTTAGGGTTAAAATGCGATTTTT--AAAAAGTTTGGGGGTTAAAATGTGATTTTAGGAAGG
1 TTTAGGGTTAAAATGTGATTTTTGGAAAAAGTTT--GGGTTAAAATGTAATTTTTGGAAAG
* * * **
15964674 TTTTAAGGTCAAAATGTGA-TTTTGGAAAAAGTTTGGGTCAAAACATAATTTTTGGAAAG
1 -TTTAGGGTTAAAATGTGATTTTTGGAAAAAGTTTGGGTTAAAATGTAATTTTTGGAAAG
* ** * *
15964733 TTTAGGGTTAAAATGTGATTTTTGG-AAAA-TTTGTGGTCAAAATCAAAGTTTTAGAAAG
1 TTTAGGGTTAAAATGTGATTTTTGGAAAAAGTTTG-GGTTAAAATGTAATTTTTGGAAAG
* * * * *
15964791 TTCGAGGGTAAAAATAT-AATTTTGGAAAAA-TTATGGAATTAAAATGTAATTTTTGGAAAG
1 TT-TAGGGTTAAAATGTGATTTTTGGAAAAAGTT-TGG-GTTAAAATGTAATTTTTGGAAAG
* * * * * *
15964851 TTTGGGGTAAAAATGTTATTTTT--AAAAAGTTTTAAGGTTAAAATGTGATTTTTGAAAAG
1 TTTAGGGTTAAAATGTGATTTTTGGAAAAAG-TTT-GGGTTAAAATGTAATTTTTGGAAAG
15964910 TTTGAGGGTTAAAAT
1 TTT-AGGGTTAAAAT
15964925 CAAATTTTTA
Statistics
Matches: 201, Mismatches: 36, Indels: 26
0.76 0.14 0.10
Matches are distributed among these distances:
57 4 0.02
58 53 0.26
59 82 0.41
60 53 0.26
61 9 0.04
ACGTcount: A:0.37, C:0.02, G:0.23, T:0.38
Consensus pattern (59 bp):
TTTAGGGTTAAAATGTGATTTTTGGAAAAAGTTTGGGTTAAAATGTAATTTTTGGAAAG
Found at i:15964894 original size:89 final size:89
Alignment explanation
Indices: 15964740--15964955 Score: 200
Period size: 89 Copynumber: 2.4 Consensus size: 89
15964730 AAGTTTAGGG
* * * * * *
15964740 TTAAAATGTGATTTTTGGAAAATTTGTGGTCAAAATCAAAGTTTTAGAAAGTTCGAGGGTAAAAA
1 TTAAAATGTAATTTTTGGAAAGTTTGGGGTAAAAATCAAAGTTTTAAAAAGTTCGAAGGTAAAAA
15964805 TATAATTTTGGAAAAATTATG-GAA
66 TATAATTTTGGAAAAATT-TGAGAA
*** * ** *
15964829 TTAAAATGTAATTTTTGGAAAGTTTGGGGTAAAAATGTTATTTTTAAAAAGTTTTAAGGTTAAAA
1 TTAAAATGTAATTTTTGGAAAGTTTGGGGTAAAAATCAAAGTTTTAAAAAGTTCGAAGGTAAAAA
* * * * **
15964894 TGTGATTTTTGAAAAGTTTGAGGG
66 TATAATTTTGGAAAAATTTGAGAA
** * *
15964918 TTAAAATCAAATTTTTAGAAAGTTTAGGGGTTAAAATC
1 TTAAAATGTAATTTTTGGAAAGTTT-GGGGTAAAAATC
15964956 GAGTTTTTTA
Statistics
Matches: 101, Mismatches: 24, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
88 2 0.02
89 89 0.88
90 10 0.10
ACGTcount: A:0.39, C:0.02, G:0.20, T:0.38
Consensus pattern (89 bp):
TTAAAATGTAATTTTTGGAAAGTTTGGGGTAAAAATCAAAGTTTTAAAAAGTTCGAAGGTAAAAA
TATAATTTTGGAAAAATTTGAGAA
Found at i:15964954 original size:60 final size:59
Alignment explanation
Indices: 15964829--15964942 Score: 156
Period size: 59 Copynumber: 1.9 Consensus size: 59
15964819 AATTATGGAA
* ***
15964829 TTAAAATGTAATTTTTGGAAAGTTTGGGGTAAAAATGTTATTTTTAAAAAGTTTTAAGG
1 TTAAAATGTAATTTTTGAAAAGTTTGGGGTAAAAATCAAATTTTTAAAAAGTTTTAAGG
* * *
15964888 TTAAAATGTGATTTTTGAAAAGTTTGAGGGTTAAAATCAAATTTTTAGAAAGTTT
1 TTAAAATGTAATTTTTGAAAAGTTTG-GGGTAAAAATCAAATTTTTAAAAAGTTT
15964943 AGGGGTTAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
59 24 0.51
60 23 0.49
ACGTcount: A:0.38, C:0.01, G:0.19, T:0.42
Consensus pattern (59 bp):
TTAAAATGTAATTTTTGAAAAGTTTGGGGTAAAAATCAAATTTTTAAAAAGTTTTAAGG
Found at i:15967865 original size:12 final size:12
Alignment explanation
Indices: 15967846--15967875 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
15967836 TGCTAGTGAT
15967846 GAAGAAGGAGAA
1 GAAGAAGGAGAA
*
15967858 GGAGAAGGAGAA
1 GAAGAAGGAGAA
15967870 GAAGAA
1 GAAGAA
15967876 ATAGCAAGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (12 bp):
GAAGAAGGAGAA
Found at i:15974964 original size:21 final size:21
Alignment explanation
Indices: 15974939--15974992 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
15974929 ATAGTTGATT
**
15974939 TTAATCTCACTGCTATAAT-A
1 TTAATCTCACCACTATAATAA
* *
15974959 TCTAATATTACCACTATAATAA
1 T-TAATCTCACCACTATAATAA
15974981 TTAATCTCACCA
1 TTAATCTCACCA
15974993 TTGTCCCTGT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
20 1 0.04
21 23 0.88
22 2 0.08
ACGTcount: A:0.39, C:0.22, G:0.02, T:0.37
Consensus pattern (21 bp):
TTAATCTCACCACTATAATAA
Found at i:15987536 original size:28 final size:28
Alignment explanation
Indices: 15987481--15987536 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
15987471 ATATAAATTT
* * *
15987481 AAAAAATATAAAAATTATTATAACTATA
1 AAAAAACATAAAAATTATTAAAAATATA
15987509 AAAAAACATAAAAATTA-TAAAATATATA
1 AAAAAACATAAAAATTATTAAAA-ATATA
15987537 TAGAAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 4 0.17
28 20 0.83
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.29
Consensus pattern (28 bp):
AAAAAACATAAAAATTATTAAAAATATA
Found at i:15991280 original size:53 final size:53
Alignment explanation
Indices: 15991193--15991333 Score: 219
Period size: 53 Copynumber: 2.7 Consensus size: 53
15991183 CTTATACCAA
** *
15991193 AGATTAAAGGTCTAATGACTATGTGTCATTGTGAGTTATATGAATCCTATTAC
1 AGATTAAAGGTCCGATGACTATGTGTCATCGTGAGTTATATGAATCCTATTAC
*
15991246 AGATTAAAGGTCCGATGACTATGTGCCATCGTGAGTTATATGAATCCTATTAC
1 AGATTAAAGGTCCGATGACTATGTGTCATCGTGAGTTATATGAATCCTATTAC
* * *
15991299 GGATTAAAGATTCGATGACTATGTGTCATCGTGAG
1 AGATTAAAGGTCCGATGACTATGTGTCATCGTGAG
15991334 GTTCGATGAC
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 80 1.00
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.34
Consensus pattern (53 bp):
AGATTAAAGGTCCGATGACTATGTGTCATCGTGAGTTATATGAATCCTATTAC
Found at i:15991338 original size:26 final size:26
Alignment explanation
Indices: 15991309--15991359 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
15991299 GGATTAAAGA
*
15991309 TTCGATGACTATGTGTCATCGTGAGG
1 TTCGATGACTATATGTCATCGTGAGG
*
15991335 TTCGATGACTCTATGTCATCGTGAG
1 TTCGATGACTATATGTCATCGTGAG
15991360 TTATCAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (26 bp):
TTCGATGACTATATGTCATCGTGAGG
Done.