Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 164 of 190
Found at i:26631029 original size:44 final size:43
Alignment explanation
Indices: 26630954--26631083 Score: 120
Period size: 44 Copynumber: 3.0 Consensus size: 43
26630944 TTGAAAACTA
* *
26630954 AATAGTAAATCAATGATAACATAGTACTAAATACATAATAATAT
1 AATAGTAAATCATTGATAACTTAGTA-TAAATACATAATAATAT
* * * *
26630998 AATAGTAAATCATTGATAATTTAGATATAAATTA-TTGATAATTT
1 AATAGTAAATCATTGATAACTTAG-TATAAA-TACATAATAATAT
* * *
26631042 AATAATAAATCATTAATAACTTAGTTGTAAAT-CAATAATAAT
1 AATAGTAAATCATTGATAACTTAG-TATAAATAC-ATAATAAT
26631084 TTTTACTAAA
Statistics
Matches: 69, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
43 1 0.01
44 64 0.93
45 4 0.06
ACGTcount: A:0.51, C:0.06, G:0.07, T:0.36
Consensus pattern (43 bp):
AATAGTAAATCATTGATAACTTAGTATAAATACATAATAATAT
Found at i:26631072 original size:22 final size:22
Alignment explanation
Indices: 26631003--26631085 Score: 85
Period size: 22 Copynumber: 3.8 Consensus size: 22
26630993 AATATAATAG
* *
26631003 TAAATCATTGATAATTTAGATA
1 TAAATCATTAATAATTTAGTTA
* * * *
26631025 TAAATTATTGATAATTTAATAA
1 TAAATCATTAATAATTTAGTTA
* *
26631047 TAAATCATTAATAACTTAGTTG
1 TAAATCATTAATAATTTAGTTA
*
26631069 TAAATCAATAATAATTT
1 TAAATCATTAATAATTT
26631086 TTACTAAATT
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (22 bp):
TAAATCATTAATAATTTAGTTA
Found at i:26631073 original size:88 final size:88
Alignment explanation
Indices: 26630915--26631083 Score: 191
Period size: 88 Copynumber: 1.9 Consensus size: 88
26630905 AATTTAGTAA
* * *
26630915 TAAATCTGTGATAATTTTGTAATAAATAATTGAAAACTAAATAGTAAATCAATGATAACATAGTA
1 TAAATCTGTGATAATTTAGTAATAAATAATTGAAAACTAAATAATAAATCAATAATAACATAGTA
26630980 CTAAAT-ACATAATAATATAATAG
66 CTAAATCA-ATAATAATATAATAG
* * * * * *
26631003 TAAATCAT-TGATAATTTAG-ATATAAATTATTGATAATTTAATAATAAATCATTAATAACTTAG
1 TAAATC-TGTGATAATTTAGTA-ATAAATAATTGAAAACTAAATAATAAATCAATAATAACATAG
**
26631066 TTGTAAATCAATAATAAT
64 TACTAAATCAATAATAAT
26631084 TTTTACTAAA
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
87 1 0.01
88 64 0.96
89 2 0.03
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.37
Consensus pattern (88 bp):
TAAATCTGTGATAATTTAGTAATAAATAATTGAAAACTAAATAATAAATCAATAATAACATAGTA
CTAAATCAATAATAATATAATAG
Found at i:26631192 original size:22 final size:22
Alignment explanation
Indices: 26631167--26631217 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
26631157 AAATAATTAG
26631167 TAATTTAATAGTAAATTAATGA
1 TAATTTAATAGTAAATTAATGA
** *
26631189 TAATTTGGTAGTAAATTATTGA
1 TAATTTAATAGTAAATTAATGA
*
26631211 AAATTTA
1 TAATTTA
26631218 GCAGTATATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.43
Consensus pattern (22 bp):
TAATTTAATAGTAAATTAATGA
Found at i:26631223 original size:22 final size:22
Alignment explanation
Indices: 26631176--26631230 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
26631166 GTAATTTAAT
* * * *
26631176 AGTAAATTAATGATAATTTGGT
1 AGTAAATTATTGAAAATTTAGC
26631198 AGTAAATTATTGAAAATTTAGC
1 AGTAAATTATTGAAAATTTAGC
*
26631220 AGTATATTATT
1 AGTAAATTATT
26631231 AATAGTTTAG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.42, C:0.02, G:0.15, T:0.42
Consensus pattern (22 bp):
AGTAAATTATTGAAAATTTAGC
Found at i:26631624 original size:21 final size:21
Alignment explanation
Indices: 26631598--26631756 Score: 130
Period size: 21 Copynumber: 7.6 Consensus size: 21
26631588 AAATTACATC
* *
26631598 ATTATCAAAATTTTATAAAAA
1 ATTATCAAAATTATATCAAAA
**
26631619 ATTATCAAAATTATATCAATG
1 ATTATCAAAATTATATCAAAA
*
26631640 ATTA-CAAAAATTATATCACAA
1 ATTATC-AAAATTATATCAAAA
26631661 ATTATC-AAATTAATATCAAAA
1 ATTATCAAAATT-ATATCAAAA
* * * ** *
26631682 GTTACCCAAATTATATTTAAG
1 ATTATCAAAATTATATCAAAA
26631703 ATTA-CTAAAATT-TCATCAAAA
1 ATTATC-AAAATTAT-ATCAAAA
*
26631724 GTTATCAAAATTATAT-ACAAA
1 ATTATCAAAATTATATCA-AAA
26631745 ATTATCAAAATT
1 ATTATCAAAATT
26631757 TACTTATATT
Statistics
Matches: 109, Mismatches: 20, Indels: 18
0.74 0.14 0.12
Matches are distributed among these distances:
20 9 0.08
21 92 0.84
22 8 0.07
ACGTcount: A:0.52, C:0.11, G:0.03, T:0.35
Consensus pattern (21 bp):
ATTATCAAAATTATATCAAAA
Found at i:26631756 original size:63 final size:63
Alignment explanation
Indices: 26631598--26631756 Score: 184
Period size: 63 Copynumber: 2.5 Consensus size: 63
26631588 AAATTACATC
* *
26631598 ATTATCAAAATTTTATAAAAAATTATCAAAATTATATCAATGATTACAAAAATTATATCACAA
1 ATTATCAAAATTATATACAAAATTATCAAAATTATATCAATGATTACAAAAATTATATCACAA
* * * *
26631661 ATTATC-AAATTA-ATATCAAAAGTTACCCAAATTATATTTAA-GATTACTAAAATT-TCATCA-
1 ATTATCAAAATTATATA-CAAAA-TTATCAAAATTATA-TCAATGATTACAAAAATTAT-ATCAC
26631721 AA
62 AA
26631723 AGTTATCAAAATTATATACAAAATTATCAAAATT
1 A-TTATCAAAATTATATACAAAATTATCAAAATT
26631757 TACTTATATT
Statistics
Matches: 81, Mismatches: 8, Indels: 14
0.79 0.08 0.14
Matches are distributed among these distances:
61 3 0.04
62 13 0.16
63 48 0.59
64 14 0.17
65 3 0.04
ACGTcount: A:0.52, C:0.11, G:0.03, T:0.35
Consensus pattern (63 bp):
ATTATCAAAATTATATACAAAATTATCAAAATTATATCAATGATTACAAAAATTATATCACAA
Found at i:26631757 original size:42 final size:42
Alignment explanation
Indices: 26631599--26631756 Score: 148
Period size: 42 Copynumber: 3.8 Consensus size: 42
26631589 AATTACATCA
* * *
26631599 TTATCAAAATTTTATAAAAAATTATCAAAATTATATC-AATG
1 TTATCAAAATTATATACAAAATTATCAAAATTATATCAAAAG
26631640 ATTA-CAAAAATTATAT-CACAAATTATC-AAATTAATATCAAAAG
1 -TTATC-AAAATTATATACA-AAATTATCAAAATT-ATATCAAAAG
* * ** *
26631683 TTACCCAAATTATATTTAAGATTA-CTAAAATT-TCATCAAAAG
1 TTATCAAAATTATATACAAAATTATC-AAAATTAT-ATCAAAAG
26631725 TTATCAAAATTATATACAAAATTATCAAAATT
1 TTATCAAAATTATATACAAAATTATCAAAATT
26631757 TACTTATATT
Statistics
Matches: 95, Mismatches: 11, Indels: 20
0.75 0.09 0.16
Matches are distributed among these distances:
41 9 0.09
42 75 0.79
43 11 0.12
ACGTcount: A:0.51, C:0.11, G:0.03, T:0.35
Consensus pattern (42 bp):
TTATCAAAATTATATACAAAATTATCAAAATTATATCAAAAG
Found at i:26632376 original size:66 final size:66
Alignment explanation
Indices: 26632299--26632431 Score: 230
Period size: 66 Copynumber: 2.0 Consensus size: 66
26632289 ATTTTTGTAT
* *
26632299 TAAATGCAATAATTAACAATTAATTTAATGAAGTCCAAAGCATTAGGAAAATATATTAATCAATT
1 TAAACGCAATAATTAACAATTAATTTAATGAAATCCAAAGCATTAGGAAAATATATTAATCAATT
26632364 A
66 A
* *
26632365 TAAACGCAATAATTAACAATTAATTTAATGAAATCCACAGCCTTAGGAAAATATATTAATCAATT
1 TAAACGCAATAATTAACAATTAATTTAATGAAATCCAAAGCATTAGGAAAATATATTAATCAATT
26632430 A
66 A
26632431 T
1 T
26632432 GGTAACCTTA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.49, C:0.11, G:0.08, T:0.32
Consensus pattern (66 bp):
TAAACGCAATAATTAACAATTAATTTAATGAAATCCAAAGCATTAGGAAAATATATTAATCAATT
A
Found at i:26633383 original size:26 final size:26
Alignment explanation
Indices: 26633352--26633432 Score: 110
Period size: 26 Copynumber: 3.1 Consensus size: 26
26633342 GAGTGACTGC
*
26633352 AACGTGTCCTATATCAATAAGAAAGA
1 AACGTGTCCTATATCAATGAGAAAGA
**
26633378 AACGTGTCCCGTATCAATGAGAAAGA
1 AACGTGTCCTATATCAATGAGAAAGA
*
26633404 AACGTGAT-CTATATCGATGAGAAAGA
1 AACGTG-TCCTATATCAATGAGAAAGA
26633430 AAC
1 AAC
26633433 TGAAAAAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
26 47 0.98
27 1 0.02
ACGTcount: A:0.43, C:0.16, G:0.20, T:0.21
Consensus pattern (26 bp):
AACGTGTCCTATATCAATGAGAAAGA
Found at i:26633620 original size:22 final size:22
Alignment explanation
Indices: 26633605--26633818 Score: 71
Period size: 22 Copynumber: 9.4 Consensus size: 22
26633595 AATTTAGATG
*
26633605 TAAATTATTAATAATTTAATTA
1 TAAATTAATAATAATTTAATTA
26633627 TAAATTAATAATAATTTTTAAATTA
1 TAAATTAATAATAA--TTT-AATTA
* * *
26633652 GTTAATTATTAATAAATT-ATTAA
1 -TAAATTAATAATAATTTAATT-A
* * * **
26633675 TAAATCAGTTATAATAAATCAAAAA
1 TAAAT---TAATAATAATTTAATTA
* *
26633700 TAATTTAA-AATTAAATTAATTA
1 TAAATTAATAA-TAATTTAATTA
* *
26633722 TAATTTAATAATAAATT-ATTGA
1 TAAATTAATAATAATTTAATT-A
* * *
26633744 TCATTTAATTAT-ATATT-ATTGA
1 TAAATTAATAATAAT-TTAATT-A
*
26633766 TAATTTAATAATAATTT-ATTGA
1 TAAATTAATAATAATTTAATT-A
* * * *
26633788 TAAAATAATATTAAATTAATAA
1 TAAATTAATAATAATTTAATTA
*
26633810 TAATTTAAT
1 TAAATTAAT
26633819 TATCAATCAT
Statistics
Matches: 150, Mismatches: 27, Indels: 30
0.72 0.13 0.14
Matches are distributed among these distances:
21 6 0.04
22 100 0.67
23 7 0.05
24 5 0.03
25 19 0.13
26 13 0.09
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.45
Consensus pattern (22 bp):
TAAATTAATAATAATTTAATTA
Found at i:26633750 original size:44 final size:44
Alignment explanation
Indices: 26633699--26633818 Score: 138
Period size: 44 Copynumber: 2.7 Consensus size: 44
26633689 TAAATCAAAA
26633699 ATAATTTAAAATTAAATTAATTATAATTTAATAATAAATTATTG
1 ATAATTTAAAATTAAATTAATTATAATTTAATAATAAATTATTG
* *
26633743 ATCATTT--AATTATATATT-ATTGATAATTTAATAATAATTTATTG
1 ATAATTTAAAATTA-A-ATTAATT-ATAATTTAATAATAAATTATTG
** * *
26633787 ATAAAATAATATTAAATTAATAATAATTTAAT
1 ATAATTTAAAATTAAATTAATTATAATTTAAT
26633819 TATCAATCAT
Statistics
Matches: 63, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
42 5 0.08
43 4 0.06
44 47 0.75
45 3 0.05
46 4 0.06
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.47
Consensus pattern (44 bp):
ATAATTTAAAATTAAATTAATTATAATTTAATAATAAATTATTG
Found at i:26633783 original size:33 final size:33
Alignment explanation
Indices: 26633715--26633821 Score: 92
Period size: 33 Copynumber: 3.2 Consensus size: 33
26633705 TAAAATTAAA
** * * * *
26633715 TTAATTATAATTTAATAATAAATTATTGATCAT
1 TTAATTATAAAATAATATTAAATTAATAATAAT
* * * *
26633748 TTAATTATATATTATTGA-TAATTTAATAATAAT
1 TTAATTATAAAATAAT-ATTAAATTAATAATAAT
26633781 TT-ATTGATAAAATAATATTAAATTAATAATAAT
1 TTAATT-ATAAAATAATATTAAATTAATAATAAT
26633814 TTAATTAT
1 TTAATTAT
26633822 CAATCATTAA
Statistics
Matches: 59, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
32 4 0.07
33 51 0.86
34 4 0.07
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.49
Consensus pattern (33 bp):
TTAATTATAAAATAATATTAAATTAATAATAAT
Found at i:26633836 original size:33 final size:31
Alignment explanation
Indices: 26633626--26633837 Score: 86
Period size: 33 Copynumber: 6.2 Consensus size: 31
26633616 TAATTTAATT
26633626 ATAAATTAATAATAATTTTTAAATTAGTTAATTATTA
1 ATAAATTAATAATAA--TTT-AATTA--TAA-TATTA
* * * * *
26633663 ATAAATTATTAATAAATCAGTTATAATAAATCAAAA
1 ATAAATTAATAATAATTTAATTATAAT--AT---TA
* * *
26633699 ATAATTTAA-AATTAAATTAATTATAATTTAATA
1 ATAAATTAATAA-TAATTTAATTATAA--TATTA
* * * *
26633732 ATAAATTATTGATCATTTAATTATATATTATTG
1 ATAAATTAATAATAATTTAATTATA-A-TATTA
* *
26633765 ATAATTTAATAATAATTT-ATTGATAAAATAATA
1 ATAAATTAATAATAATTTAATT-AT--AATATTA
*
26633798 TTAAATTAATAATAATTTAATTATCAATCATTA
1 ATAAATTAATAATAATTTAATTAT-AAT-ATTA
26633831 ATAAATT
1 ATAAATT
26633838 TTTTTATATT
Statistics
Matches: 131, Mismatches: 29, Indels: 34
0.68 0.15 0.18
Matches are distributed among these distances:
31 1 0.01
32 9 0.07
33 71 0.54
34 10 0.08
35 4 0.03
36 21 0.16
37 14 0.11
38 1 0.01
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (31 bp):
ATAAATTAATAATAATTTAATTATAATATTA
Found at i:26633956 original size:13 final size:14
Alignment explanation
Indices: 26633938--26633968 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
26633928 CCATGAATAT
26633938 ATTTAAT-AAAAAA
1 ATTTAATGAAAAAA
26633951 ATTTAATGAAAAAA
1 ATTTAATGAAAAAA
26633965 ATTT
1 ATTT
26633969 TAAATTTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (14 bp):
ATTTAATGAAAAAA
Found at i:26634125 original size:20 final size:20
Alignment explanation
Indices: 26634102--26634159 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 20
26634092 AATACGTAAT
*
26634102 ATAAATATAAAATACAAAAA
1 ATAAATAAAAAATACAAAAA
*
26634122 AT-AATAAAAAATATAAAAA
1 ATAAATAAAAAATACAAAAA
*
26634141 A-ATAATAAAAAAAACAAAA
1 ATA-AATAAAAAATACAAAA
26634160 CAGAACAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.17
Consensus pattern (20 bp):
ATAAATAAAAAATACAAAAA
Found at i:26634132 original size:19 final size:19
Alignment explanation
Indices: 26634105--26634159 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
26634095 ACGTAATATA
*
26634105 AATATAAAATACAAAAAAT
1 AATAAAAAATACAAAAAAT
*
26634124 AATAAAAAATATAAAAAAAT
1 AATAAAAAATA-CAAAAAAT
*
26634144 AATAAAAAAAACAAAA
1 AATAAAAAATACAAAA
26634160 CAGAACAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (19 bp):
AATAAAAAATACAAAAAAT
Found at i:26634154 original size:12 final size:11
Alignment explanation
Indices: 26634112--26634153 Score: 61
Period size: 10 Copynumber: 3.9 Consensus size: 11
26634102 ATAAATATAA
26634112 AATACAAAAAAT
1 AATA-AAAAAAT
26634124 AAT-AAAAAAT
1 AATAAAAAAAT
26634134 -ATAAAAAAAT
1 AATAAAAAAAT
26634144 AATAAAAAAA
1 AATAAAAAAA
26634154 ACAAAACAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
9 2 0.07
10 14 0.50
11 9 0.32
12 3 0.11
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (11 bp):
AATAAAAAAAT
Found at i:26635120 original size:13 final size:13
Alignment explanation
Indices: 26635102--26635133 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
26635092 AAATCGAGCT
*
26635102 GAACCGTCGGACC
1 GAACCGTCGAACC
26635115 GAACCGTCGAACC
1 GAACCGTCGAACC
26635128 GAACCG
1 GAACCG
26635134 CACATTGATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.28, C:0.38, G:0.28, T:0.06
Consensus pattern (13 bp):
GAACCGTCGAACC
Found at i:26635329 original size:23 final size:23
Alignment explanation
Indices: 26635303--26635353 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
26635293 TGTTAATTTT
26635303 TAAAATAAACTTTCAA-AATAATA-
1 TAAAATAAA-TTT-AATAATAATAC
26635326 TAAAAATAAATTTAATAATAATAC
1 T-AAAATAAATTTAATAATAATAC
26635350 TAAA
1 TAAA
26635354 GTAATAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
22 2 0.08
23 14 0.56
24 9 0.36
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (23 bp):
TAAAATAAATTTAATAATAATAC
Found at i:26635332 original size:24 final size:24
Alignment explanation
Indices: 26635304--26635353 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
26635294 GTTAATTTTT
26635304 AAAATAAACTTTCAA-AATAATA-TA
1 AAAATAAA-TTT-AATAATAATACTA
26635328 AAAATAAATTTAATAATAATACTA
1 AAAATAAATTTAATAATAATACTA
26635352 AA
1 AA
26635354 GTAATAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 2 0.08
23 10 0.42
24 12 0.50
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
AAAATAAATTTAATAATAATACTA
Found at i:26646817 original size:16 final size:15
Alignment explanation
Indices: 26646792--26646825 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
26646782 ATTTTGCTTG
26646792 AAAGAAAAAAGAAAA
1 AAAGAAAAAAGAAAA
*
26646807 AAAGTAAAAAATAAAA
1 AAAG-AAAAAAGAAAA
26646823 AAA
1 AAA
26646826 AATGACTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.06
Consensus pattern (15 bp):
AAAGAAAAAAGAAAA
Found at i:26647622 original size:48 final size:48
Alignment explanation
Indices: 26647551--26648078 Score: 552
Period size: 48 Copynumber: 10.9 Consensus size: 48
26647541 GAAAATATGA
* * *
26647551 AAATTTTAAAGTTATTGAACCTCTGCTAAGAGGAGCTTTTTCAAGATG
1 AAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATG
* * ** *
26647599 AAATTTTAAAGTTATTGAGCCTCTACTGAGAAAAGCCCTTTTCAAGATG
1 AAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCAAGATG
* *
26647648 -AATTTTAAAATTGTTGAGCCTCTGTTGAGAGGAGCTTTTTTTCAAGATG
1 AAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC--TTTTTCAAGATG
* * *
26647697 AGATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTCCAAAAGATG
1 AAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC--AAGATG
* * * *
26647747 -AATTTTAAAGTCGTAGAGCCTCTGCTAAGAGGAGCCTTTTCAAGAT-
1 AAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATG
* * *
26647793 TAATTTTAAAGTCGTTGAGCCTCAGCTGAGAGGAGCCCTTTTTCAA-ATG
1 AAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG--CTTTTTCAAGATG
* *
26647842 AGATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTT-AAGATG
1 AAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATG
* * * * *
26647889 AAATTTTTCAAGTCGTTGAGCCTCTGCTGAAAGAAACCCTTTTTCAA-ATG
1 AAA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAG-GA-GCTTTTTCAAGATG
* * * *
26647939 AGATTTTAAAGTTGTTGAGTCTCTACTAAGAGGAGCTTTTT-AAGAT-
1 AAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATG
* *
26647985 AAGATTTTTAAAGTTGTTGAACATCTGCTGAGAGGAGCTTTTT-AAGATG
1 AA-A-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATG
* *
26648034 AAAATTTTGAAGTTGTTAAGCCTCTGCTGAGAGGAGTCTTTTTCA
1 -AAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCA
26648079 GATTTTAAAT
Statistics
Matches: 400, Mismatches: 58, Indels: 42
0.80 0.12 0.08
Matches are distributed among these distances:
46 5 0.01
47 57 0.14
48 157 0.39
49 126 0.31
50 53 0.13
51 2 0.00
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (48 bp):
AAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATG
Found at i:26647785 original size:146 final size:142
Alignment explanation
Indices: 26647553--26648075 Score: 570
Period size: 146 Copynumber: 3.6 Consensus size: 142
26647543 AAATATGAAA
* * **
26647553 ATTTTAAAGTTATTGAACCTCTGCTAAGAGGAGCTTTTTCAAGATGAAATTTTAAAGTTATTGAG
1 ATTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGC-TTTTCAAGATGAAATTTTAAAGTCGTTGAG
* * * * *
26647618 CCTCTACTGAGAAAAGCCCTTTTCAAGATGAATTTTAAAATTGTTGAGCCTCTGTTGAGAGGAGC
65 CCTCTGCTAAGAGAAG-CCTTTTCAAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC
26647683 TTTTTTTCAAGATGAG
129 --TTTTTCAAGATGAG
* * *
26647699 ATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTCCAAAAGATG-AATTTTAAAGTCGTAG
1 ATTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGCTTTT-C--AAGATGAAATTTTAAAGTCGTTG
* * * *
26647763 AGCCTCTGCTAAGAGGAGCCTTTTCAAGATTAATTTTAAAGTCGTTGAGCCTCAGCTGAGAGGAG
63 AGCCTCTGCTAAGAGAAGCCTTTTCAAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG
26647828 CCCTTTTTCAA-ATGAG
128 --CTTTTTCAAGATGAG
* * * *
26647844 ATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTTAAGATGAAATTTTTCAAGTCGTTGAG
1 ATTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGCTTTTCAAGATGAAA-TTTTAAAGTCGTTGAG
* * * *
26647909 CCTCTGCTGAA-AGAAACCCTTTTTCAA-ATGAGATTTTAAAGTTGTTGAGTCTCTACTAAGAGG
65 CCTCTGCT-AAGAG-AAGCC-TTTTCAAGATGA-ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGG
*
26647972 AGCTTTTT-AAGATAAG
126 AGCTTTTTCAAGATGAG
* * * * *
26647988 ATTTTTAAAGTTGTTGAACATCTGCTGAGAGGAGCTTTTTAAGATGAAAATTTTGAAGTTGTTAA
1 A-TTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGCTTTTCAAGATG-AAATTTTAAAGTCGTTGA
* * *
26648053 GCCTCTGCTGAGAGGAGTCTTTT
64 GCCTCTGCTAAGAGAAGCCTTTT
26648076 TCAGATTTTA
Statistics
Matches: 322, Mismatches: 40, Indels: 33
0.82 0.10 0.08
Matches are distributed among these distances:
142 6 0.02
143 8 0.02
144 38 0.12
145 117 0.36
146 119 0.37
147 27 0.08
148 7 0.02
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (142 bp):
ATTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGCTTTTCAAGATGAAATTTTAAAGTCGTTGAGC
CTCTGCTAAGAGAAGCCTTTTCAAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTT
TTTCAAGATGAG
Found at i:26647936 original size:97 final size:95
Alignment explanation
Indices: 26647553--26648081 Score: 523
Period size: 97 Copynumber: 5.5 Consensus size: 95
26647543 AAATATGAAA
* * *
26647553 ATTTTAAAGTTATTGAACCTCTGCTAAGAGGAGCTTTTTCAAGATGAAATTTTAAAGTTATTGAG
1 ATTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGCTTTTT-AAGATGAAATTTTAAAGTTGTTGAG
* *
26647618 CCTCTACTGAGAAAAGCCC-TTTTCAAGATGA-
65 CCTCTGCTGAGAGAA-CCCTTTTTCAA-ATGAG
* * * *
26647649 ATTTTAAAATTGTTGAGCCTCTGTTGAGAGGAGCTTTTTTTCAAGATGAGATTTTAAAGTTGTTG
1 ATTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGC--TTTTT-AAGATGAAATTTTAAAGTTGTTG
* * * * *
26647714 AGCCTCTGTTGAGAGGA-GCTTTTCCAAAAGATG
63 AGCCTCTGCTGAGAGAACCCTTTTTCAAATGA-G
* * * * *
26647747 AATTTTAAAGTCGTAGAGCCTCTGCTAAGAGGAGCCTTTTCAAGAT-TAATTTTAAAGTCGTTGA
1 -ATTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAG-CTTTTTAAGATGAAATTTTAAAGTTGTTGA
* *
26647811 GCCTCAGCTGAGAGGAGCCCTTTTTCAAATGAG
64 GCCTCTGCTGAGA-GAACCCTTTTTCAAATGAG
* * * *
26647844 ATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTTAAGATGAAATTTTTCAAGTCGTTGAG
1 ATTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGCTTTTTAAGATGAAA-TTTTAAAGTTGTTGAG
*
26647909 CCTCTGCTGAAAGAAACCCTTTTTCAAATGAG
65 CCTCTGCTGAGAG-AACCCTTTTTCAAATGAG
* *
26647941 ATTTTAAAGTTGTTGAGTCTCTACTAAGAGGAGCTTTTTAAGAT-AAGATTTTTAAAGTTGTTGA
1 ATTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGCTTTTTAAGATGAA-A-TTTTAAAGTTGTTGA
* * * * *
26648005 ACATCTGCTGAGAGGA-GCTTTTT-AAGATGAAA
64 GCCTCTGCTGAGAGAACCCTTTTTCAA-ATG-AG
* * * *
26648037 ATTTTGAAGTTGTTAAGCCTCTGCTGAGAGGAGTCTTTTTCAGAT
1 ATTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAG-CTTTTTAAGAT
26648082 TTTAAATTTC
Statistics
Matches: 361, Mismatches: 56, Indels: 31
0.81 0.12 0.07
Matches are distributed among these distances:
94 2 0.01
95 19 0.05
96 123 0.34
97 133 0.37
98 55 0.15
99 28 0.08
100 1 0.00
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (95 bp):
ATTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGCTTTTTAAGATGAAATTTTAAAGTTGTTGAGC
CTCTGCTGAGAGAACCCTTTTTCAAATGAG
Found at i:26648265 original size:20 final size:20
Alignment explanation
Indices: 26648240--26648309 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
26648230 ATTTGTTTAG
*
26648240 AAATACAAAATACGTAATAT
1 AAATACAAAATACGAAATAT
*
26648260 AAATACAAAATACGAAATAC
1 AAATACAAAATACGAAATAT
* * * *
26648280 AAAAAAAAATATACCAAAAAT
1 AAATACAAA-ATACGAAATAT
26648301 -AATACAAAA
1 AAATACAAAA
26648310 AAATAAAACA
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
19 1 0.03
20 31 0.77
21 8 0.20
ACGTcount: A:0.69, C:0.11, G:0.03, T:0.17
Consensus pattern (20 bp):
AAATACAAAATACGAAATAT
Found at i:26650678 original size:12 final size:12
Alignment explanation
Indices: 26650661--26650700 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
26650651 AAAGGTAACC
26650661 AAATTATATAAA
1 AAATTATATAAA
26650673 AAATTAT-T--A
1 AAATTATATAAA
*
26650682 AAATTTTATAAA
1 AAATTATATAAA
26650694 AAATTAT
1 AAATTAT
26650701 CAAATTTTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
9 7 0.30
10 1 0.04
11 1 0.04
12 14 0.61
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAATTATATAAA
Found at i:26650705 original size:20 final size:21
Alignment explanation
Indices: 26650660--26650709 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
26650650 CAAAGGTAAC
*
26650660 CAAATTATATAAAAAATTATT
1 CAAATTTTATAAAAAATTATT
*
26650681 AAAATTTTATAAAAAATTA-T
1 CAAATTTTATAAAAAATTATT
26650701 CAAATTTTA
1 CAAATTTTA
26650710 CTTATATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (21 bp):
CAAATTTTATAAAAAATTATT
Found at i:26651814 original size:15 final size:16
Alignment explanation
Indices: 26651788--26651817 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
26651778 TTAATTAATT
26651788 ATAAATCAAATCTAAA
1 ATAAATCAAATCTAAA
26651804 ATAAA-CAAATCTAA
1 ATAAATCAAATCTAA
26651818 TTATTCACGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.63, C:0.13, G:0.00, T:0.23
Consensus pattern (16 bp):
ATAAATCAAATCTAAA
Found at i:26652797 original size:17 final size:18
Alignment explanation
Indices: 26652771--26652807 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
26652761 CATATTTAGC
26652771 AAAATCCATAAAGATAAA
1 AAAATCCATAAAGATAAA
26652789 AAAAT-CATAAAGATAAA
1 AAAATCCATAAAGATAAA
26652806 AA
1 AA
26652808 GTGACCCCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.70, C:0.08, G:0.05, T:0.16
Consensus pattern (18 bp):
AAAATCCATAAAGATAAA
Found at i:26657401 original size:52 final size:52
Alignment explanation
Indices: 26657311--26657467 Score: 190
Period size: 52 Copynumber: 3.0 Consensus size: 52
26657301 TATAACCATA
* * *
26657311 CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
* * * * *
26657363 TAAACTTGCCTATTAATAATCCCTTTCCTTTTATAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
* * **
26657415 CAAACTTACCTATTAAGAATCATCTTT-CTCTTAGAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATC-CCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
26657467 C
1 C
26657468 TTCTTATCCA
Statistics
Matches: 89, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
52 85 0.96
53 4 0.04
ACGTcount: A:0.26, C:0.25, G:0.08, T:0.41
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
Found at i:26657508 original size:11 final size:11
Alignment explanation
Indices: 26657492--26657544 Score: 61
Period size: 11 Copynumber: 4.8 Consensus size: 11
26657482 GCAATATCTG
26657492 ACAAATCTCAA
1 ACAAATCTCAA
*
26657503 ACAAATCTGAA
1 ACAAATCTCAA
* **
26657514 ACAAATTTTTA
1 ACAAATCTCAA
*
26657525 ACAAATCCCAA
1 ACAAATCTCAA
26657536 ACAAATCTC
1 ACAAATCTC
26657545 TTATGGGATT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 33 1.00
ACGTcount: A:0.51, C:0.25, G:0.02, T:0.23
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:26661668 original size:11 final size:11
Alignment explanation
Indices: 26661652--26661704 Score: 61
Period size: 11 Copynumber: 4.6 Consensus size: 11
26661642 CCTTTTTTAA
26661652 TTTTTAATTTT
1 TTTTTAATTTT
26661663 TTTTTAATTTT
1 TTTTTAATTTT
*
26661674 TTTTCATATTTT
1 TTTTTA-ATTTT
**
26661686 TGTTTTTTTTTT
1 T-TTTTAATTTT
26661698 TTTTTAA
1 TTTTTAA
26661705 AATTATTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
11 20 0.59
12 11 0.32
13 3 0.09
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.81
Consensus pattern (11 bp):
TTTTTAATTTT
Found at i:26661771 original size:27 final size:27
Alignment explanation
Indices: 26661720--26661770 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 27
26661710 TTTTTCACAA
*
26661720 TAATAATGATAAAAATAAAATAAAAAT
1 TAATAATGATAAAAATAAAAAAAAAAT
*
26661747 TAATAA--ATGAAAATAAAAAAAAAA
1 TAATAATGATAAAAATAAAAAAAAAA
26661771 ACAAAAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 16 0.73
27 6 0.27
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.22
Consensus pattern (27 bp):
TAATAATGATAAAAATAAAAAAAAAAT
Found at i:26672483 original size:43 final size:43
Alignment explanation
Indices: 26672427--26672827 Score: 327
Period size: 43 Copynumber: 9.4 Consensus size: 43
26672417 CTCCAAGACT
* * * * * *
26672427 TTTGAAAAGTAAATAAAGCTCGTCTATATAAAGGCTAAAGAAC
1 TTTGAAAAATAAATAAGGCTCCTCTAAATAAAGGCTCAACAAC
* * * * * **
26672470 TTTGAAAAATAAATAAAGCTTCTCTAAGTAAAAGCTTAATGAC
1 TTTGAAAAATAAATAAGGCTCCTCTAAATAAAGGCTCAACAAC
* * *
26672513 TTTAGAAAACTAAATAAGGCTCTTCTCAATAAAGGCTCAACAAC
1 TTT-GAAAAATAAATAAGGCTCCTCTAAATAAAGGCTCAACAAC
* * **
26672557 TTTTG-AAAATAAATAAGGCTCTTCTAAACAAAGGCTC-ATGAC
1 -TTTGAAAAATAAATAAGGCTCCTCTAAATAAAGGCTCAACAAC
* *
26672599 TTTG-AAAATAAATAAGGCTCATTTAAATAGAA-GCTCAACAAC
1 TTTGAAAAATAAATAAGGCTCCTCTAAATA-AAGGCTCAACAAC
* *
26672641 TTTAAAAAATAAATAAGGCTCCTCTAAATAGAA-GTTCAACAAC
1 TTTGAAAAATAAATAAGGCTCCTCTAAATA-AAGGCTCAACAAC
** * * *
26672684 TTTTG-AAAATAAATAAAACTTCTCTAAATAGAAGCCT-AATAAC
1 -TTTGAAAAATAAATAAGGCTCCTCTAAATA-AAGGCTCAACAAC
* * * **
26672727 TTTTG-AAAATAAATAAGGTTCCTTTAAACAAAGGCTC-ATGAC
1 -TTTGAAAAATAAATAAGGCTCCTCTAAATAAAGGCTCAACAAC
* * *
26672769 TTTGAAAAATAAGTAAGGCTCCTTTAAATAGCA-GCTCAACAAC
1 TTTGAAAAATAAATAAGGCTCCTCTAAATA-AAGGCTCAACAAC
26672812 TTTGAAAAATAAATAA
1 TTTGAAAAATAAATAA
26672828 ATCTCCTCAA
Statistics
Matches: 292, Mismatches: 55, Indels: 22
0.79 0.15 0.06
Matches are distributed among these distances:
41 34 0.12
42 46 0.16
43 174 0.60
44 35 0.12
45 3 0.01
ACGTcount: A:0.46, C:0.15, G:0.12, T:0.28
Consensus pattern (43 bp):
TTTGAAAAATAAATAAGGCTCCTCTAAATAAAGGCTCAACAAC
Found at i:26672644 original size:128 final size:126
Alignment explanation
Indices: 26672424--26672828 Score: 419
Period size: 128 Copynumber: 3.2 Consensus size: 126
26672414 AGGCTCCAAG
* * * *
26672424 ACTTTTGAAAAGTAAATAAAGCTCGTCTATATAAAGGCTAAAGAACTTTGAAAAATAAATAAAGC
1 ACTTTTGAAAA-TAAATAAAGCTCTTCTAAATAAAGGCTAATG-ACTTTG-AAAATAAATAAGGC
* * * * *
26672489 TTCTCTAAGTAAAAGCTTAATGACTTTAGAAAACTAAATAAGGCTCTTCTCAATA-AAGGCTCAA
63 -TCTTTAAAT-AAAGCTCAATGACTTTAGAAAAATAAATAAGGCTCTTCTAAATAGAA-GCTCAA
26672553 CA
125 CA
* * *
26672555 ACTTTTGAAAATAAATAAGGCTCTTCTAAACAAAGGCTCATGACTTTGAAAATAAATAAGGCTCA
1 ACTTTTGAAAATAAATAAAGCTCTTCTAAATAAAGGCTAATGACTTTGAAAATAAATAAGGCTC-
** * *
26672620 TTTAAATAGAAGCTCAACAACTTTA-AAAAATAAATAAGGCTCCTCTAAATAGAAGTTCAACA
65 TTTAAATA-AAGCTCAATGACTTTAGAAAAATAAATAAGGCTCTTCTAAATAGAAGCTCAACA
* * * *
26672682 ACTTTTGAAAATAAATAAAACT-TCTCTAAATAGAAGCCTAATAACTTTTGAAAATAAATAAGGT
1 ACTTTTGAAAATAAATAAAGCTCT-TCTAAATA-AAGGCTAATGAC-TTTGAAAATAAATAAGGC
* * *
26672746 TCCTTTAAACAAAGGCTC-ATGACTTT-GAAAAATAAGTAAGGCTCCTT-TAAATAGCAGCTCAA
63 T-CTTTAAATAAA-GCTCAATGACTTTAGAAAAATAAATAAGGCT-CTTCTAAATAGAAGCTCAA
26672808 CA
125 CA
26672810 AC-TTTGAAAAATAAATAAA
1 ACTTTTG-AAAATAAATAAA
26672829 TCTCCTCAAC
Statistics
Matches: 233, Mismatches: 30, Indels: 25
0.81 0.10 0.09
Matches are distributed among these distances:
126 1 0.00
127 64 0.27
128 94 0.40
129 37 0.16
130 26 0.11
131 11 0.05
ACGTcount: A:0.46, C:0.15, G:0.12, T:0.28
Consensus pattern (126 bp):
ACTTTTGAAAATAAATAAAGCTCTTCTAAATAAAGGCTAATGACTTTGAAAATAAATAAGGCTCT
TTAAATAAAGCTCAATGACTTTAGAAAAATAAATAAGGCTCTTCTAAATAGAAGCTCAACA
Found at i:26672728 original size:86 final size:86
Alignment explanation
Indices: 26672423--26672827 Score: 319
Period size: 84 Copynumber: 4.7 Consensus size: 86
26672413 GAGGCTCCAA
* * * * * * *
26672423 GACTTTTGAAAAGTAAATAAAGCTCGTCTATATAAAGGCTAAAGAACTTTGAAAAATAAATAAAG
1 GACTTTTGAAAACTAAATAAAGCTCATCTAAATAAAGGCTCAACAACTTTTAAAAATAAATAAGG
* *
26672488 CTTCTCTAAGTAAAAGCTT-AAT
66 CTCCTCTAAAT-AAAG-TTCAAT
* * * * *
26672510 GACTTTAGAAAACTAAATAAGGCTCTTCTCAATAAAGGCTCAACAACTTTTGAAAATAAATAAGG
1 GACTTTTGAAAACTAAATAAAGCTCATCTAAATAAAGGCTCAACAACTTTTAAAAATAAATAAGG
* * *
26672575 CTCTTCTAAACAAAGGCTC-AT
66 CTCCTCTAAATAAA-GTTCAAT
* * *
26672596 GAC-TTTGAAAA-TAAATAAGGCTCATTTAAATAGAA-GCTCAACAACTTTAAAAAATAAATAAG
1 GACTTTTGAAAACTAAATAAAGCTCATCTAAATA-AAGGCTCAACAACTTTTAAAAATAAATAAG
*
26672658 GCTCCTCTAAATAGAAGTTCAAC
65 GCTCCTCTAAATA-AAGTTCAAT
* * * * *
26672681 AACTTTTGAAAA-TAAATAAAACTTC-TCTAAATAGAAGCCT-AATAACTTTTGAAAATAAATAA
1 GACTTTTGAAAACTAAATAAAGC-TCATCTAAATA-AAGGCTCAACAACTTTTAAAAATAAATAA
* * * *
26672743 GGTTCCTTTAAACAAAGGCTC-AT
64 GGCTCCTCTAAATAAA-GTTCAAT
* * * * * * *
26672766 GAC-TTTGAAAAATAAGTAAGGCTCCTTTAAATAGCA-GCTCAACAACTTTGAAAAATAAATAA
1 GACTTTTGAAAACTAAATAAAGCTCATCTAAATA-AAGGCTCAACAACTTTTAAAAATAAATAA
26672828 ATCTCCTCAA
Statistics
Matches: 257, Mismatches: 49, Indels: 26
0.77 0.15 0.08
Matches are distributed among these distances:
84 69 0.27
85 54 0.21
86 68 0.26
87 66 0.26
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (86 bp):
GACTTTTGAAAACTAAATAAAGCTCATCTAAATAAAGGCTCAACAACTTTTAAAAATAAATAAGG
CTCCTCTAAATAAAGTTCAAT
Found at i:26672811 original size:171 final size:171
Alignment explanation
Indices: 26672407--26672835 Score: 501
Period size: 171 Copynumber: 2.5 Consensus size: 171
26672397 AAAACTGTTT
* * * * * * * *
26672407 TAAACAGAGGCTCCAAGACTTTTGAAAAGTAAATAAAGCTCGTCTATATA-AAGGCTAAAGAACT
1 TAAACAAAGGCT-CATGAC-TTTGAAAA-TAAATAAGGCTCATTTAAATAGAA-GCTCAACAACT
* * ** **
26672471 TTGAAAAATAAATAAAGCTTCTCTAAGTAAAAGCTTAATGACTTTAGAAAACTAAATAAGGCTCT
62 TTGAAAAATAAATAAAGCTCCTCTAAATAAAAGCTTAACAACTTTAGAAAACTAAATAAAACTCT
* *
26672536 TCTCAATAAAGGCTCAACAACTTTTGAAAATAAATAAGGCTCTTC
127 TCTAAATAAAGCCTCAACAACTTTTGAAAATAAATAAGGCTCTTC
*
26672581 TAAACAAAGGCTCATGACTTTGAAAATAAATAAGGCTCATTTAAATAGAAGCTCAACAACTTTAA
1 TAAACAAAGGCTCATGACTTTGAAAATAAATAAGGCTCATTTAAATAGAAGCTCAACAACTTTGA
* * *
26672646 AAAATAAATAAGGCTCCTCTAAATAGAAG-TTCAACAACTTTTGAAAA-TAAATAAAACT-TCTC
66 AAAATAAATAAAGCTCCTCTAAATAAAAGCTT-AACAACTTTAGAAAACTAAATAAAACTCT-TC
* *
26672708 TAAATAGAAGCCT-AATAACTTTTGAAAATAAATAAGGTTCCTT-
129 TAAATA-AAGCCTCAACAACTTTTGAAAATAAATAAGGCT-CTTC
* * *
26672751 TAAACAAAGGCTCATGACTTTGAAAAATAAGTAAGGCTCCTTTAAATAGCAGCTCAACAACTTTG
1 TAAACAAAGGCTCATGACTTTG-AAAATAAATAAGGCTCATTTAAATAGAAGCTCAACAACTTTG
*
26672816 AAAAATAAATAAATCTCCTC
65 AAAAATAAATAAAGCTCCTC
26672836 AACAATCATG
Statistics
Matches: 221, Mismatches: 28, Indels: 15
0.84 0.11 0.06
Matches are distributed among these distances:
169 1 0.00
170 64 0.29
171 130 0.59
172 10 0.05
173 5 0.02
174 11 0.05
ACGTcount: A:0.45, C:0.16, G:0.12, T:0.27
Consensus pattern (171 bp):
TAAACAAAGGCTCATGACTTTGAAAATAAATAAGGCTCATTTAAATAGAAGCTCAACAACTTTGA
AAAATAAATAAAGCTCCTCTAAATAAAAGCTTAACAACTTTAGAAAACTAAATAAAACTCTTCTA
AATAAAGCCTCAACAACTTTTGAAAATAAATAAGGCTCTTC
Found at i:26673292 original size:20 final size:20
Alignment explanation
Indices: 26673260--26673314 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
26673250 AATATCATGA
*
26673260 TAATAATGCAAATGCTTTCT
1 TAATGATGCAAATGCTTTCT
* *
26673280 TAATGATGTAAATGTTTTCT
1 TAATGATGCAAATGCTTTCT
*
26673300 TATTGATGCAAATGC
1 TAATGATGCAAATGC
26673315 AACAGTCTAG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.42
Consensus pattern (20 bp):
TAATGATGCAAATGCTTTCT
Found at i:26674422 original size:28 final size:27
Alignment explanation
Indices: 26674368--26674432 Score: 69
Period size: 28 Copynumber: 2.4 Consensus size: 27
26674358 TTTTAATTTC
* *
26674368 TTCATTTTTTCATGTTTTATTTTTTTT
1 TTCATTTTTTCATATTTTATTTCTTTT
26674395 TTCATTTTTGTCATCATTTT-TTTCTTTT
1 TTCATTTTT-TCAT-ATTTTATTTCTTTT
**
26674423 CCCATTTTTT
1 TTCATTTTTT
26674433 TATCCATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 10 0.31
28 18 0.56
29 4 0.12
ACGTcount: A:0.11, C:0.14, G:0.03, T:0.72
Consensus pattern (27 bp):
TTCATTTTTTCATATTTTATTTCTTTT
Found at i:26680356 original size:25 final size:24
Alignment explanation
Indices: 26680312--26680360 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
26680302 TATTCTCAAA
26680312 ATATTTTTATTTTGTTTAATATTTT
1 ATATTTTTATTTTGTTTAAT-TTTT
*
26680337 ATATTTTTCTTTT-TTGTAATTTTT
1 ATATTTTTATTTTGTT-TAATTTTT
26680361 CCCTAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.73
Consensus pattern (24 bp):
ATATTTTTATTTTGTTTAATTTTT
Found at i:26686825 original size:4 final size:4
Alignment explanation
Indices: 26686795--26686856 Score: 51
Period size: 4 Copynumber: 16.2 Consensus size: 4
26686785 AATAAAATTG
* * *
26686795 AAAT AAA- AAAC AAAT -AAT GAGT AAAT AAAT AAAT ATAA- AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A-AAT AAAT AAAT
*
26686841 AAAT AAGT AAA- AAAT A
1 AAAT AAAT AAAT AAAT A
26686857 GCAAATCAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
3 11 0.23
4 34 0.72
5 2 0.04
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:26686841 original size:20 final size:19
Alignment explanation
Indices: 26686816--26686856 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
26686806 AAATAATGAG
26686816 TAAATAAATAAATATAAAAA
1 TAAATAAATAAATA-AAAAA
*
26686836 TAAATAAATAAGTAAAAAA
1 TAAATAAATAAATAAAAAA
26686855 TA
1 TA
26686857 GCAAATCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (19 bp):
TAAATAAATAAATAAAAAA
Found at i:26687662 original size:88 final size:87
Alignment explanation
Indices: 26687492--26687670 Score: 205
Period size: 88 Copynumber: 2.0 Consensus size: 87
26687482 ATTCACAATC
* * * * * * *
26687492 AAAAAGCTCCTCTCACCAAAGACTATGAAAGTTTAAAATTTGCAACGAAAAAGCTCTTTTTATCA
1 AAAAAGCTCCTCTAACCAAAGACTATGAAACTTTAAAATTCGCAACCAAAAAGCTATTTTCACCA
* *
26687557 AAGGCTTTAAAAGTTTAAAAAT
66 AAAGCTTTAAAACTTTAAAAAT
* ** *
26687579 AAAAGAGCTCCTCTAATCAAAGGTTATGAAACTTTAAAATTCGTAACCAAAAAGCTATTTTCACC
1 AAAA-AGCTCCTCTAACCAAAGACTATGAAACTTTAAAATTCGCAACCAAAAAGCTATTTTCACC
** *
26687644 AAAATTTTTGAAACTTTAAAAAT
65 AAAAGCTTTAAAACTTTAAAAAT
26687667 AAAA
1 AAAA
26687671 TTTAGAAAGG
Statistics
Matches: 75, Mismatches: 16, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
87 4 0.05
88 71 0.95
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.29
Consensus pattern (87 bp):
AAAAAGCTCCTCTAACCAAAGACTATGAAACTTTAAAATTCGCAACCAAAAAGCTATTTTCACCA
AAAGCTTTAAAACTTTAAAAAT
Found at i:26687781 original size:22 final size:22
Alignment explanation
Indices: 26687727--26687781 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
26687717 TAGACCATAT
* *
26687727 TAAGAAGACTTTGAGATTATGC
1 TAAGAAGTCTTTGAGATTATAC
* *
26687749 T-TGGAGATCTTTGAGATTATAC
1 TAAGAAG-TCTTTGAGATTATAC
26687771 TAAGAAGTCTT
1 TAAGAAGTCTT
26687782 ACAAATTCTT
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
21 3 0.12
22 19 0.76
23 3 0.12
ACGTcount: A:0.33, C:0.09, G:0.22, T:0.36
Consensus pattern (22 bp):
TAAGAAGTCTTTGAGATTATAC
Found at i:26687957 original size:32 final size:31
Alignment explanation
Indices: 26687921--26687992 Score: 85
Period size: 31 Copynumber: 2.3 Consensus size: 31
26687911 TCAACTAGTA
*
26687921 CCAACTAATTTAG-GCTTAAGTCTCATCATGTG
1 CCAACTAATTTAGAG-TTAA-TATCATCATGTG
26687953 CCAACT-ATTTAGATGTTAATATCATCATGTG
1 CCAACTAATTTAGA-GTTAATATCATCATGTG
*
26687984 CCATCTAAT
1 CCAACTAAT
26687993 ATGAGCTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
31 22 0.63
32 12 0.34
33 1 0.03
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (31 bp):
CCAACTAATTTAGAGTTAATATCATCATGTG
Found at i:26688348 original size:70 final size:71
Alignment explanation
Indices: 26688262--26688455 Score: 228
Period size: 70 Copynumber: 2.7 Consensus size: 71
26688252 AAATGTTAAA
* * * * * *
26688262 GATCTAAATGCTCACCAAATTATGGAAATGCATGGTTCTAACTATGATGCAAATGCAATATTC-A
1 GATCTAAATGCTCACCAAATCATGCAAATGCATGGTACAAACAATGATGCAAATACAATATTCAA
26688326 AACAAT
66 AACAAT
*
26688332 GATCTAGATGCTCACCAAATCATGCAAATGCATGGTACAAACAATGATGCAAATACAATATTCAA
1 GATCTAAATGCTCACCAAATCATGCAAATGCATGGTACAAACAATGATGCAAATACAATATTCAA
26688397 AACAAT
66 AACAAT
* * * * * * * * * *
26688403 GATTTAAATTCTTACTAGATGATACAAATGCATGGTGCACACAATTATGCAAA
1 GATCTAAATGCTCACCAAATCATGCAAATGCATGGTACAAACAATGATGCAAA
26688456 GTATAAATCT
Statistics
Matches: 105, Mismatches: 18, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
70 56 0.53
71 49 0.47
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.27
Consensus pattern (71 bp):
GATCTAAATGCTCACCAAATCATGCAAATGCATGGTACAAACAATGATGCAAATACAATATTCAA
AACAAT
Found at i:26690355 original size:11 final size:9
Alignment explanation
Indices: 26690336--26690369 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
26690326 ATAAGGGTTT
26690336 TTTTTAAAA
1 TTTTTAAAA
26690345 TTTTTAGAAAA
1 TTTTT--AAAA
26690356 TTTTTAAAA
1 TTTTTAAAA
26690365 TTTTT
1 TTTTT
26690370 TGGGGTTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 14 0.61
11 9 0.39
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:26690818 original size:3 final size:3
Alignment explanation
Indices: 26690804--26690883 Score: 144
Period size: 3 Copynumber: 27.0 Consensus size: 3
26690794 TATTTTATGA
*
26690804 TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
26690852 TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
26690884 GTTATATTTT
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
2 2 0.03
3 72 0.97
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:26690891 original size:15 final size:17
Alignment explanation
Indices: 26690782--26690875 Score: 115
Period size: 18 Copynumber: 5.6 Consensus size: 17
26690772 GTGTTGATTT
26690782 TTATT-TTATA-TA-TA
1 TTATTATTATATTATTA
* *
26690796 TT-TTATGATATTATTG
1 TTATTATTATATTATTA
26690812 TTATTATTATTATTATTA
1 TTATTATTA-TATTATTA
26690830 TTATTATTATTATTATTA
1 TTATTATTA-TATTATTA
26690848 TTATTATTATTATTATTA
1 TTATTATTA-TATTATTA
26690866 TTATTATTAT
1 TTATTATTAT
26690876 TATTTTATGT
Statistics
Matches: 71, Mismatches: 4, Indels: 7
0.87 0.05 0.09
Matches are distributed among these distances:
13 2 0.03
14 6 0.08
15 2 0.03
16 3 0.04
17 6 0.08
18 52 0.73
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (17 bp):
TTATTATTATATTATTA
Found at i:26691104 original size:14 final size:13
Alignment explanation
Indices: 26691071--26691111 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
26691061 CTAAAAGAAT
*
26691071 AATAAAACTAAAA
1 AATAAAAATAAAA
26691084 AATTAAAAATAATAA
1 AA-TAAAAATAA-AA
26691099 AATAAAAATAAAA
1 AATAAAAATAAAA
26691112 GAGAACAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 4 0.16
14 17 0.68
15 4 0.16
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (13 bp):
AATAAAAATAAAA
Found at i:26691301 original size:14 final size:14
Alignment explanation
Indices: 26691279--26691314 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
26691269 TTTAAACAGT
* *
26691279 ATAAAAATAAAATA
1 ATAATAATAAAAGA
26691293 ATAATAATAAAAGA
1 ATAATAATAAAAGA
26691307 ATAATAAT
1 ATAATAAT
26691315 GGATTATTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (14 bp):
ATAATAATAAAAGA
Found at i:26691467 original size:17 final size:17
Alignment explanation
Indices: 26691438--26691470 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
26691428 TCAAAATAAT
26691438 CTAAAAAATTATTTTTA
1 CTAAAAAATTATTTTTA
26691455 CTAAATAAA-TATTTTT
1 CTAAA-AAATTATTTTT
26691471 TAAAATAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (17 bp):
CTAAAAAATTATTTTTA
Found at i:26691653 original size:49 final size:50
Alignment explanation
Indices: 26691600--26691718 Score: 125
Period size: 50 Copynumber: 2.4 Consensus size: 50
26691590 GAGATGATAT
* * * ** *
26691600 TAAAATCTGTTTAA-AATTTTAGGATTTTACCTAAGAATTGAAATAATCC
1 TAAAATCTATTTAATAAATTTAGAATTCCACCAAAGAATTGAAATAATCC
* * *
26691649 TAAAATCTATTTAATAAATTTCGAATTCCACCAAAGAGTTGAGATAATCC
1 TAAAATCTATTTAATAAATTTAGAATTCCACCAAAGAATTGAAATAATCC
26691699 TAAAATC-AGTATTAATAAAT
1 TAAAATCTA-T-TTAATAAAT
26691719 AAACAAAAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
49 14 0.24
50 35 0.60
51 9 0.16
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (50 bp):
TAAAATCTATTTAATAAATTTAGAATTCCACCAAAGAATTGAAATAATCC
Found at i:26694260 original size:17 final size:17
Alignment explanation
Indices: 26694231--26694267 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
26694221 CATATTGTGA
26694231 AAAGATCTATAAAGACAT
1 AAAGATCTATAAAG-CAT
26694249 AAAGAT-TATAAAGCAT
1 AAAGATCTATAAAGCAT
26694265 AAA
1 AAA
26694268 TCTGAAGAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.32
17 7 0.37
18 6 0.32
ACGTcount: A:0.59, C:0.08, G:0.11, T:0.22
Consensus pattern (17 bp):
AAAGATCTATAAAGCAT
Found at i:26699052 original size:11 final size:11
Alignment explanation
Indices: 26699036--26699060 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
26699026 AAATGTCTTT
26699036 AAAAAAAAAGA
1 AAAAAAAAAGA
26699047 AAAAAAAAAGA
1 AAAAAAAAAGA
26699058 AAA
1 AAA
26699061 GAAAGAAAAA
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:26699060 original size:16 final size:16
Alignment explanation
Indices: 26699036--26699071 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
26699026 AAATGTCTTT
26699036 AAAAAAAAAGAAA-AA
1 AAAAAAAAAGAAAGAA
26699051 AAAAAGAAAAGAAAGAA
1 AAAAA-AAAAGAAAGAA
26699068 AAAA
1 AAAA
26699072 TGCACCTTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.26
16 8 0.42
17 6 0.32
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAGAAAGAA
Found at i:26699140 original size:133 final size:136
Alignment explanation
Indices: 26698964--26699206 Score: 343
Period size: 133 Copynumber: 1.8 Consensus size: 136
26698954 GAGCCTAAGG
* * *
26698964 CAAAAAATGAATGAAGCTTTAGGAAAATAGAATTCAAGGAGTTGATTGCTAAAAATGAAGTCAAA
1 CAAAAAATGAATGAAACTTTAGAAAAATAGAATTCAAGGAGTTGATTGCTAAAAATGAAATCAAA
* *
26699029 TGTCTTT-AAAAAAAA-AGAA-AAAA-AAAAGAAAAGAAAGAAAAAATGCACCTTGGTGATGAGA
66 T-T-TTTCAAAAAAAACAAAACAAAACAAAAAAAAAGAAAGAAAAAATGCACCTTGGTGATGAGA
26699090 GTCCAGGT
129 GTCCAGGT
* * * * *
26699098 CAAAAAGTGAATTAAACTTTA-AAAAATAGAATTCAAGTAGTTGATTGTTAAAGATGAAATCAAA
1 CAAAAAATGAATGAAACTTTAGAAAAATAGAATTCAAGGAGTTGATTGCTAAAAATGAAATCAAA
26699162 TTTTTCAAAAAAAACAAAACAAAACAAAAAAAAAGAAAGAAAAAA
66 TTTTTCAAAAAAAACAAAACAAAACAAAAAAAAAGAAAGAAAAAA
26699207 ATTAAAAATA
Statistics
Matches: 95, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
131 3 0.03
132 9 0.09
133 42 0.44
134 22 0.23
135 19 0.20
ACGTcount: A:0.56, C:0.08, G:0.16, T:0.21
Consensus pattern (136 bp):
CAAAAAATGAATGAAACTTTAGAAAAATAGAATTCAAGGAGTTGATTGCTAAAAATGAAATCAAA
TTTTTCAAAAAAAACAAAACAAAACAAAAAAAAAGAAAGAAAAAATGCACCTTGGTGATGAGAGT
CCAGGT
Found at i:26699195 original size:10 final size:10
Alignment explanation
Indices: 26699168--26699206 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
26699158 CAAATTTTTC
26699168 AAAAAAAACA
1 AAAAAAAACA
*
26699178 AAACAAAACA
1 AAAAAAAACA
*
26699188 AAAAAAAAGA
1 AAAAAAAACA
26699198 AAGAAAAAA
1 AA-AAAAAA
26699207 ATTAAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
10 19 0.76
11 6 0.24
ACGTcount: A:0.87, C:0.08, G:0.05, T:0.00
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:26699895 original size:83 final size:83
Alignment explanation
Indices: 26699753--26699905 Score: 209
Period size: 83 Copynumber: 1.8 Consensus size: 83
26699743 CGAGCTTTCC
* * ** * *
26699753 TTGAAATATGCCCATCAGTGGAAATTTTGAATTATCAATCACCTCATCCACAAATATTCCAAATA
1 TTGAAATATGCCCACCAGTGAAAAAATTGAATTACCAATCACCTCATCCACAAACATTCCAAATA
26699818 GTAATATTTAAGCCTTAT
66 GTAATATTTAAGCCTTAT
* * *
26699836 TTGAAATATGCCCACCAGTGAAAAAATTGAATTGCCAATCATGC-CATCCACAAGCATTCCAAAT
1 TTGAAATATGCCCACCAGTGAAAAAATTGAATTACCAATCA-CCTCATCCACAAACATTCCAAAT
26699900 AGTAAT
65 AGTAAT
26699906 CATCAATTTA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
83 59 0.98
84 1 0.02
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (83 bp):
TTGAAATATGCCCACCAGTGAAAAAATTGAATTACCAATCACCTCATCCACAAACATTCCAAATA
GTAATATTTAAGCCTTAT
Found at i:26700581 original size:85 final size:86
Alignment explanation
Indices: 26700351--26700593 Score: 299
Period size: 86 Copynumber: 2.8 Consensus size: 86
26700341 TGTATCACAA
* * * * * * *
26700351 AAAAAAAGACATTCGTATTTGCATCACTTGCATTCATACTTCCATGTACATTATGAAAAAGATAT
1 AAAAAAAGACATTTGCATTTGCATCACTTGTATTCATACTTACATGTGCATCATGAGAAAGATAT
*
26700416 TTGTATTTGCATCCGCATCAT
66 TTGCATTTGCATCCGCATCAT
* * * *
26700437 AAAAAAAGACATTTGCATTTGTATCATTTGTATTCATACTTACGTGTGTATCATGAGAAAGATAT
1 AAAAAAAGACATTTGCATTTGCATCACTTGTATTCATACTTACATGTGCATCATGAGAAAGATAT
*
26700502 TTGCATTTGCATCTGCATCAT
66 TTGCATTTGCATCCGCATCAT
* * * * * *
26700523 AAAAAAGGATATTTG-TTTTGCATCACTCGTATTCATACTTAAATGTGCATCATGAGAAAGACAT
1 AAAAAAAGACATTTGCATTTGCATCACTTGTATTCATACTTACATGTGCATCATGAGAAAGATAT
*
26700587 TTACATT
66 TTGCATT
26700594 AACATTTGCA
Statistics
Matches: 133, Mismatches: 24, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
85 47 0.35
86 86 0.65
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.36
Consensus pattern (86 bp):
AAAAAAAGACATTTGCATTTGCATCACTTGTATTCATACTTACATGTGCATCATGAGAAAGATAT
TTGCATTTGCATCCGCATCAT
Found at i:26700600 original size:12 final size:12
Alignment explanation
Indices: 26700583--26700616 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
26700573 CATGAGAAAG
26700583 ACATTTACATTA
1 ACATTTACATTA
* *
26700595 ACATTTGCATTC
1 ACATTTACATTA
26700607 ACATTTACAT
1 ACATTTACAT
26700617 CACTTACATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.35, C:0.21, G:0.03, T:0.41
Consensus pattern (12 bp):
ACATTTACATTA
Found at i:26701466 original size:105 final size:105
Alignment explanation
Indices: 26701263--26701498 Score: 325
Period size: 105 Copynumber: 2.2 Consensus size: 105
26701253 ACCTCCGAGA
*
26701263 AAAACCATTTTAAATTTTTAAAGTTTCAATGCCTATAATTGGGAGGAGGATTCAAAGATTTGGAG
1 AAAA-CATTTTAAATTTTTAAAGTTTCAATGCCTATAATTGGGAAGAGGATTCAAAGATTTGGAG
* *
26701328 ATTTGTGAGACCTCCAAGCATAATCTCTAAAACTTTTAGGC
65 ATTTGTAAGACCTCCAAGCATAATCTCTAAAACTTCTAGGC
* * ***
26701369 AAAACATTTTAAA-TTTCAAAGTTTCAATGCCGT-TGATTGGGAAGAGGATTCAAAGATTTTTTT
1 AAAACATTTTAAATTTTTAAAGTTTCAATGCC-TATAATTGGGAAGAGGATTCAAAGA-TTTGGA
* *
26701432 GATTTGTAAGACCTCCAGGCATAATTTCCT-AAACTTCTAGGC
64 GATTTGTAAGACCTCCAAGCATAATCT-CTAAAACTTCTAGGC
26701474 AAAACATTTTAAATTTTTAAAGTTT
1 AAAACATTTTAAATTTTTAAAGTTT
26701499 GAACAACTCT
Statistics
Matches: 115, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
104 38 0.33
105 61 0.53
106 16 0.14
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.36
Consensus pattern (105 bp):
AAAACATTTTAAATTTTTAAAGTTTCAATGCCTATAATTGGGAAGAGGATTCAAAGATTTGGAGA
TTTGTAAGACCTCCAAGCATAATCTCTAAAACTTCTAGGC
Found at i:26701541 original size:65 final size:65
Alignment explanation
Indices: 26701471--26701595 Score: 171
Period size: 65 Copynumber: 1.9 Consensus size: 65
26701461 TAAACTTCTA
* * *
26701471 GGCAAAACATTTTA-AATTTTTAAAGTTTGAACAACTCTATTATAAGGAGCATTCTAAGATCTTT
1 GGCAAAACA-TTTACAATTTTTAAAGTTTCAACAACTCTATTACAAGGAGCATTCAAAGATCTTT
26701535 G
65 G
* * * *
26701536 GGCAAAACATTTACAATTTTTAAAGTTTCAATACCTCTATTACGATGAGCATTCAAAGAT
1 GGCAAAACATTTACAATTTTTAAAGTTTCAACAACTCTATTACAAGGAGCATTCAAAGAT
26701596 TTTTTAGATT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
64 4 0.08
65 48 0.92
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (65 bp):
GGCAAAACATTTACAATTTTTAAAGTTTCAACAACTCTATTACAAGGAGCATTCAAAGATCTTTG
Found at i:26701695 original size:5 final size:5
Alignment explanation
Indices: 26701687--26701711 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
26701677 AAAAAAAAGC
26701687 CAAAA CAAAA CAAAA CAAAA CAAAA
1 CAAAA CAAAA CAAAA CAAAA CAAAA
26701712 AAACTCAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (5 bp):
CAAAA
Found at i:26701720 original size:15 final size:14
Alignment explanation
Indices: 26701673--26701721 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 14
26701663 TTAAATTTGT
*
26701673 AAAAAAAAAAAAGCC
1 AAAACAAAAAAA-CC
*
26701688 AAAACAAAACAAAAC
1 AAAACAAAA-AAACC
26701703 AAAACAAAAAAACTC
1 AAAACAAAAAAAC-C
26701718 AAAA
1 AAAA
26701722 GCATCATCTG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 3 0.10
15 23 0.79
16 3 0.10
ACGTcount: A:0.80, C:0.16, G:0.02, T:0.02
Consensus pattern (14 bp):
AAAACAAAAAAACC
Found at i:26702392 original size:145 final size:144
Alignment explanation
Indices: 26702145--26702412 Score: 358
Period size: 145 Copynumber: 1.8 Consensus size: 144
26702135 GAAAAGGGTA
* * * *
26702145 AAATTATCAAAATACCTTTATAGGAGTATTATCATAACTTGACATTTTTTAGCTCAAATTTTTTT
1 AAATTACCAAAATACCTTTATAGGAGTATTATCATAACTTGACA-CTTTTAGATCAAATTTTTGT
* *
26702210 GAATCTTTTTATATCTTAATTTTATAATATTTCATGATTCTTGGTACATTCAAAATCACACAAGT
65 GAAACTTTTCATATCTTAATTTTATAATATTTCATGATTCTTGGTACATTCAAAATCACACAAGT
26702275 ACCTTGGAAAACATG
130 ACCTTGGAAAACATG
* * * * * *
26702290 AAATTACCAAAATACCTTTATAGGAGTATTTTTATAATTTGAC-CTTTTCGATGAGGGATTTTTG
1 AAATTACCAAAATACCTTTATAGGAGTATTATCATAACTTGACACTTTTAGATCA--AATTTTTG
* * **
26702354 TGAAACTTTTCATATCTTAATTTTATAATATTTTATGATTTTTGGTGTATTCAAAATCA
64 TGAAACTTTTCATATCTTAATTTTATAATATTTCATGATTCTTGGTACATTCAAAATCA
26702413 TAGCAATACC
Statistics
Matches: 105, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
143 7 0.07
145 98 0.93
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (144 bp):
AAATTACCAAAATACCTTTATAGGAGTATTATCATAACTTGACACTTTTAGATCAAATTTTTGTG
AAACTTTTCATATCTTAATTTTATAATATTTCATGATTCTTGGTACATTCAAAATCACACAAGTA
CCTTGGAAAACATG
Found at i:26702437 original size:145 final size:143
Alignment explanation
Indices: 26702145--26702474 Score: 351
Period size: 145 Copynumber: 2.3 Consensus size: 143
26702135 GAAAAGGGTA
* * * * * * *
26702145 AAATTATCAAAATACCTTTATAGGAGTATTATCATAACTTGACATTTTTTAGCTCAAATTTTTTT
1 AAATTACCAAAATACCTTTATAGGAGTATTTTTATAATTTGACA-CTTTTAGATCAAATTTTTGT
* *
26702210 GAATCTTTTTATATCTTAATTTTATAATATTTCATGATTCTTGGTACATTCAAAATCACACAAGT
65 GAAACTTTTCATATCTTAATTTTATAATATTTCATGATTCTTGGTACATTCAAAATCACACAAGT
**
26702275 ACCTTGGAAAACATG
130 ACC-TCCAAAACATG
* * *
26702290 AAATTACCAAAATACCTTTATAGGAGTATTTTTATAATTTGAC-CTTTTCGATGAGGGATTTTTG
1 AAATTACCAAAATACCTTTATAGGAGTATTTTTATAATTTGACACTTTTAGATCA--AATTTTTG
* * ** *
26702354 TGAAACTTTTCATATCTTAATTTTATAATATTTTATGATTTTTGGTGTATTCAAAATCATAGCAA
64 TGAAACTTTTCATATCTTAATTTTATAATATTTCATGATTCTTGGTACATTCAAAATCACA-CAA
**
26702419 -TACC-CCAAGAAGTGTG
128 GTACCTCCAA-AA-CATG
* * * *
26702435 AAATTACTAAAATACCCTTATAGGGGTATTTTTGTAATTT
1 AAATTACCAAAATACCTTTATAGGAGTATTTTTATAATTT
26702475 AGCCTTCCTG
Statistics
Matches: 155, Mismatches: 25, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
143 9 0.06
144 2 0.01
145 141 0.91
146 3 0.02
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (143 bp):
AAATTACCAAAATACCTTTATAGGAGTATTTTTATAATTTGACACTTTTAGATCAAATTTTTGTG
AAACTTTTCATATCTTAATTTTATAATATTTCATGATTCTTGGTACATTCAAAATCACACAAGTA
CCTCCAAAACATG
Found at i:26702494 original size:145 final size:144
Alignment explanation
Indices: 26702202--26702542 Score: 348
Period size: 145 Copynumber: 2.4 Consensus size: 144
26702192 TTTAGCTCAA
* * * *
26702202 ATTTTTTTGAATCTTTTTATATCTTAATTTTATAATATTTCATGATTCTTGGTACATTCAAAATC
1 ATTTTTATGAAACTTTTCATATCTTAATTTTATAATATTTCATGATTTTTGGTACATTCAAAATC
** *
26702267 ACACAAGTACCTTGGAAAACATGAAATTACCAAAATACCTTTATAGGAGTATTTTTATAATTTGA
66 ACACAAGTACC-TCCAAAACATGAAATTACCAAAATACCCTTATAGGAGTATTTTTATAATTTGA
* ** *
26702332 CCTTTTCGATGAGGG
130 CCTTCTCGAACACGG
* * **
26702347 ATTTTTGTGAAACTTTTCATATCTTAATTTTATAATATTTTATGATTTTTGGTGTATTCAAAATC
1 ATTTTTATGAAACTTTTCATATCTTAATTTTATAATATTTCATGATTTTTGGTACATTCAAAATC
* ** * * *
26702412 ATAGCAA-TACC-CCAAGAAGTGTGAAATTACTAAAATACCCTTATAGGGGTATTTTTGTAATTT
66 ACA-CAAGTACCTCCAA-AA-CATGAAATTACCAAAATACCCTTATAGGAGTATTTTTATAATTT
*
26702475 -AGCCTTC-CTGAACTCGG
128 GA-CCTTCTC-GAACACGG
* * * * * *
26702492 ATTTTCATGAAACTTTCCAAATCTCAATTTCATTATATTTCATGATTTTTG
1 ATTTTTATGAAACTTTTCATATCTTAATTTTATAATATTTCATGATTTTTG
26702543 ATGCTTTAAA
Statistics
Matches: 162, Mismatches: 29, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
143 2 0.01
144 4 0.02
145 153 0.94
146 3 0.02
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.43
Consensus pattern (144 bp):
ATTTTTATGAAACTTTTCATATCTTAATTTTATAATATTTCATGATTTTTGGTACATTCAAAATC
ACACAAGTACCTCCAAAACATGAAATTACCAAAATACCCTTATAGGAGTATTTTTATAATTTGAC
CTTCTCGAACACGG
Found at i:26703350 original size:20 final size:20
Alignment explanation
Indices: 26703321--26703359 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
26703311 CTAGTTTTAT
* *
26703321 AAAGGTTTCAAGAGAAAAAA
1 AAAGGGTTCAAGACAAAAAA
26703341 AAAGGGTTCAAGACAAAAA
1 AAAGGGTTCAAGACAAAAA
26703360 TGAAGTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.59, C:0.08, G:0.21, T:0.13
Consensus pattern (20 bp):
AAAGGGTTCAAGACAAAAAA
Found at i:26709502 original size:27 final size:26
Alignment explanation
Indices: 26709423--26709504 Score: 66
Period size: 27 Copynumber: 3.2 Consensus size: 26
26709413 TTAAAAGCAT
* *
26709423 TAAATATCTTATGTGTTTAACCTAGTC
1 TAAATGTCTTATGTG-TTAACCTAATC
**
26709450 TAAATG-CTT-T-TGTTAA-AAACAT-
1 TAAATGTCTTATGTGTTAACCTA-ATC
26709472 TAAATGTCTTATGTGTTGAACCTAATC
1 TAAATGTCTTATGTGTT-AACCTAATC
26709499 TAAATG
1 TAAATG
26709505 CTTTTCCTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 14
0.68 0.10 0.23
Matches are distributed among these distances:
22 7 0.17
23 8 0.19
24 3 0.07
25 5 0.12
26 7 0.17
27 12 0.29
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.41
Consensus pattern (26 bp):
TAAATGTCTTATGTGTTAACCTAATC
Found at i:26709504 original size:49 final size:49
Alignment explanation
Indices: 26709384--26709509 Score: 189
Period size: 49 Copynumber: 2.6 Consensus size: 49
26709374 TTTCAAAATA
* * *
26709384 ATGTGTTAAACCTAATCTAAATACTCTTGTTAAAAGCATTAAATATCTT
1 ATGTGTTAAACCTAATCTAAATGCTTTTGTTAAAAACATTAAATATCTT
* * *
26709433 ATGTGTTTAACCTAGTCTAAATGCTTTTGTTAAAAACATTAAATGTCTT
1 ATGTGTTAAACCTAATCTAAATGCTTTTGTTAAAAACATTAAATATCTT
*
26709482 ATGTGTTGAACCTAATCTAAATGCTTTT
1 ATGTGTTAAACCTAATCTAAATGCTTTT
26709510 CCTTATTTTC
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 69 1.00
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.41
Consensus pattern (49 bp):
ATGTGTTAAACCTAATCTAAATGCTTTTGTTAAAAACATTAAATATCTT
Found at i:26713307 original size:60 final size:61
Alignment explanation
Indices: 26713209--26713325 Score: 143
Period size: 60 Copynumber: 1.9 Consensus size: 61
26713199 TAAAAAATAC
* ** *
26713209 ATTATAGTAATTTTAGCTAATTATAGTAGGAGATGTATT-TCTATAATTA-TGTAGAAGAGT
1 ATTATAATAATTTTAGCTAATTATAGTAAAAGAAGTATTATC-ATAATTATTGTAGAAGAGT
26713269 ATTATAATAATTTTAGC-AACTTATA-TAAAAAGAAGTATTATCATAATTATTGTAGAA
1 ATTATAATAATTTTAGCTAA-TTATAGT-AAAAGAAGTATTATCATAATTATTGTAGAA
26713326 AGGTATTGTT
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
59 3 0.06
60 37 0.76
61 9 0.18
ACGTcount: A:0.42, C:0.04, G:0.14, T:0.40
Consensus pattern (61 bp):
ATTATAATAATTTTAGCTAATTATAGTAAAAGAAGTATTATCATAATTATTGTAGAAGAGT
Found at i:26713629 original size:61 final size:60
Alignment explanation
Indices: 26713502--26713630 Score: 136
Period size: 60 Copynumber: 2.1 Consensus size: 60
26713492 AATAAGAAAT
* * * *
26713502 ATATTATAGTAATTTTGATCAATTATGAGAGTAAGGCATTTTCATAATTATGGTAAGATA
1 ATATTATAATAATTTTGATCAATTATAAGAGAAAGGCATTTTCATAATTATGGTAAGAGA
* * * * *
26713562 ACATTATAATAATTTTTATCAATTATAAGA-AAAGAG-ATATTTCTATAATTGTGGTATGAGG
1 ATATTATAATAATTTTGATCAATTATAAGAGAAAG-GCAT-TTTC-ATAATTATGGTAAGAGA
26713623 ATATTATA
1 ATATTATA
26713631 GTAAATAATT
Statistics
Matches: 56, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
59 5 0.09
60 31 0.55
61 20 0.36
ACGTcount: A:0.40, C:0.05, G:0.15, T:0.40
Consensus pattern (60 bp):
ATATTATAATAATTTTGATCAATTATAAGAGAAAGGCATTTTCATAATTATGGTAAGAGA
Found at i:26716871 original size:3 final size:3
Alignment explanation
Indices: 26716863--26716897 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
26716853 AGAAACTAGA
26716863 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
26716898 ACTATTAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:26717218 original size:77 final size:77
Alignment explanation
Indices: 26717077--26717319 Score: 239
Period size: 77 Copynumber: 3.2 Consensus size: 77
26717067 CTGCTCTAAA
* *
26717077 TAGAAGCTTGACAACTTTTGAAAATTTAAAAGGCTTCTCGAAGTAGAGGCCCAACAACTTTAAAA
1 TAGAAGCTCGACAACTTTTGAAAATTTAAAAGGCTTCTCCAAGTAGAGGCCCAACAACTTTAAAA
26717142 AGCCCCTTTAAG
66 AGCCCCTTTAAG
* * * *
26717154 TAGAGGCTCGACATCTTTTGAAAATTTAAAAGGTTTCTCCAAGTAGAGGCTCC-ATAACTTTAAA
1 TAGAAGCTCGACAACTTTTGAAAATTTAAAAGGCTTCTCCAAGTAGAGGC-CCAACAACTTTAAA
***
26717218 AAG----TTTCTC
65 AAGCCCCTTTAAG
* * * * * * *
26717227 T-GAGGCTCCATAACTTTTGAAATTTTAAAAAGCTTCTCTAAGTAGAGGCTCAACAACTTT-AAA
1 TAGAAGCTCGACAACTTTTGAAAATTTAAAAGGCTTCTCCAAGTAGAGGCCCAACAACTTTAAAA
* *
26717290 AGCTCCATTAAG
66 AGCCCCTTTAAG
* * *
26717302 CAAAAGCTCTACAACTTT
1 TAGAAGCTCGACAACTTT
26717320 AAAAAGCTCT
Statistics
Matches: 132, Mismatches: 27, Indels: 15
0.76 0.16 0.09
Matches are distributed among these distances:
71 6 0.05
72 48 0.36
73 4 0.03
75 2 0.02
76 12 0.09
77 58 0.44
78 2 0.02
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (77 bp):
TAGAAGCTCGACAACTTTTGAAAATTTAAAAGGCTTCTCCAAGTAGAGGCCCAACAACTTTAAAA
AGCCCCTTTAAG
Found at i:26717264 original size:72 final size:74
Alignment explanation
Indices: 26717087--26717290 Score: 234
Period size: 72 Copynumber: 2.7 Consensus size: 74
26717077 TAGAAGCTTG
*
26717087 ACAACTTTTGAAAATTTAAAAGGCTTCTCGAAGTAGAGGC-CCAACAACTTTAAAAAGCCCCTTT
1 ACAACTTTTGAAAATTTAAAAGGCTTCTCCAAGTAGAGGCTCC-ACAACTTTAAAAAG---CTTT
* *
26717151 AAGTAGAGGCTCG
62 AACTAGAGGCTCC
* * * **
26717164 ACATCTTTTGAAAATTTAAAAGGTTTCTCCAAGTAGAGGCTCCATAACTTTAAAAAG-TTTCTCT
1 ACAACTTTTGAAAATTTAAAAGGCTTCTCCAAGTAGAGGCTCCACAACTTTAAAAAGCTTTAACT
26717228 -GAGGCTCC
66 AGAGGCTCC
* * * * *
26717236 ATAACTTTTGAAATTTTAAAAAGCTTCTCTAAGTAGAGGCTCAACAACTTTAAAA
1 ACAACTTTTGAAAATTTAAAAGGCTTCTCCAAGTAGAGGCTCCACAACTTTAAAA
26717291 GCTCCATTAA
Statistics
Matches: 110, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
72 54 0.49
73 4 0.04
77 50 0.45
78 2 0.02
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (74 bp):
ACAACTTTTGAAAATTTAAAAGGCTTCTCCAAGTAGAGGCTCCACAACTTTAAAAAGCTTTAACT
AGAGGCTCC
Found at i:26717340 original size:34 final size:34
Alignment explanation
Indices: 26717274--26717357 Score: 91
Period size: 34 Copynumber: 2.5 Consensus size: 34
26717264 CTAAGTAGAG
* *
26717274 GCTCAACAACTTT-AAAAGCTCCATTAAGCAAAA
1 GCTCTACAACTTTAAAAAGCTCCATTAAACAAAA
*
26717307 GCTCTACAACTTTAAAAAGCT-CTTCTAAACAAAA
1 GCTCTACAACTTTAAAAAGCTCCAT-TAAACAAAA
* * *
26717341 ACTCTATAACATTAAAA
1 GCTCTACAACTTTAAAA
26717358 TTTAAAATAT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
33 14 0.33
34 29 0.67
ACGTcount: A:0.46, C:0.23, G:0.06, T:0.25
Consensus pattern (34 bp):
GCTCTACAACTTTAAAAAGCTCCATTAAACAAAA
Found at i:26720515 original size:20 final size:21
Alignment explanation
Indices: 26720490--26720532 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
26720480 GTGGATTGGA
26720490 CAAATAC-TCTTTGAC-TTTAT
1 CAAATACTTC-TTGACATTTAT
26720510 CAAATACTTCTTGACATTTAT
1 CAAATACTTCTTGACATTTAT
26720531 CA
1 CA
26720533 TTTTATTCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.33, C:0.21, G:0.05, T:0.42
Consensus pattern (21 bp):
CAAATACTTCTTGACATTTAT
Found at i:26728749 original size:22 final size:21
Alignment explanation
Indices: 26728711--26728755 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
26728701 ATCAAATTGA
26728711 TAAAAACTTTCATAATTTTATT
1 TAAAAACTTTCATAATTTT-TT
*
26728733 TAAAAACTTT-TTAAATTTTTT
1 TAAAAACTTTCAT-AATTTTTT
26728754 TA
1 TA
26728756 TTCTAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (21 bp):
TAAAAACTTTCATAATTTTTT
Found at i:26729175 original size:17 final size:18
Alignment explanation
Indices: 26729140--26729179 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
26729130 TTAGTTTTTA
26729140 TTTATTTTTTATCACTTGT
1 TTTATTTTTTAT-ACTTGT
*
26729159 TTTATTTTTTAT-TTTGT
1 TTTATTTTTTATACTTGT
26729176 TTTA
1 TTTA
26729180 AAAGAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
19 12 0.60
ACGTcount: A:0.15, C:0.05, G:0.05, T:0.75
Consensus pattern (18 bp):
TTTATTTTTTATACTTGT
Found at i:26729918 original size:20 final size:20
Alignment explanation
Indices: 26729893--26729930 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
26729883 CCATGCAAAC
*
26729893 CATCATTACCGGTCACCAGT
1 CATCATCACCGGTCACCAGT
*
26729913 CATCATCACCGGTGACCA
1 CATCATCACCGGTCACCA
26729931 AAAAGCTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.37, G:0.16, T:0.21
Consensus pattern (20 bp):
CATCATCACCGGTCACCAGT
Found at i:26733816 original size:5 final size:5
Alignment explanation
Indices: 26733806--26733881 Score: 59
Period size: 5 Copynumber: 14.4 Consensus size: 5
26733796 TACTCAAACG
26733806 TTATT TTATT TT-TT TGT-TT TTATT TATATAT TTATAT ATTATT TTATT
1 TTATT TTATT TTATT T-TATT TTATT T-TAT-T TTAT-T -TTATT TTATT
*
26733854 TATATA TTATT TTATTT TTATT TT-TT TT
1 T-TATT TTATT TTA-TT TTATT TTATT TT
26733882 TCTATCTTTT
Statistics
Matches: 62, Mismatches: 2, Indels: 15
0.78 0.03 0.19
Matches are distributed among these distances:
4 8 0.13
5 30 0.48
6 18 0.29
7 6 0.10
ACGTcount: A:0.22, C:0.00, G:0.01, T:0.76
Consensus pattern (5 bp):
TTATT
Found at i:26733851 original size:24 final size:22
Alignment explanation
Indices: 26733824--26733876 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 22
26733814 TTTTTTTGTT
26733824 TTTATTTATATATTTATATATTA-T
1 TTTATTTATATA-TTAT-T-TTATT
26733848 TTTATTTATATATTATTTTATT
1 TTTATTTATATATTATTTTATT
26733870 TTTATTT
1 TTTATTT
26733877 TTTTTTCTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
21 3 0.11
22 9 0.32
23 4 0.14
24 12 0.43
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (22 bp):
TTTATTTATATATTATTTTATT
Found at i:26733853 original size:16 final size:16
Alignment explanation
Indices: 26733834--26733870 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
26733824 TTTATTTATA
26733834 TATTTATATATTATTT
1 TATTTATATATTATTT
26733850 TATTTATATATTATTT
1 TATTTATATATTATTT
26733866 TATTT
1 TATTT
26733871 TTATTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TATTTATATATTATTT
Found at i:26733882 original size:16 final size:17
Alignment explanation
Indices: 26733824--26733874 Score: 59
Period size: 16 Copynumber: 2.9 Consensus size: 17
26733814 TTTTTTTGTT
*
26733824 TTTATTTATATATTTATA
1 TTTATTT-TATTTTTATA
*
26733842 TATTATTTTATTTATATA
1 T-TTATTTTATTTTTATA
26733860 -TTATTTTATTTTTAT
1 TTTATTTTATTTTTAT
26733875 TTTTTTTTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 14 0.48
18 9 0.31
19 6 0.21
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTATTTTATTTTTATA
Found at i:26734731 original size:21 final size:21
Alignment explanation
Indices: 26734682--26734731 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
26734672 GAACCAACTT
* *
26734682 GAACCACATCTTGAATCGTTC
1 GAACCACTTCTTGAATCGCTC
*
26734703 GAACCACTTCTTGGATCGCTC
1 GAACCACTTCTTGAATCGCTC
26734724 GAACCACT
1 GAACCACT
26734732 ATTGAACTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (21 bp):
GAACCACTTCTTGAATCGCTC
Found at i:26735012 original size:10 final size:10
Alignment explanation
Indices: 26734980--26735036 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
26734970 CAGTTTTTTG
*
26734980 AAAATGAACA
1 AAAATAAACA
**
26734990 AAAATAAGTA
1 AAAATAAACA
26735000 AAAATAAACAA
1 AAAATAAAC-A
*
26735011 AATAATGAAATA
1 AA-AAT-AAACA
26735023 AAAATAAACA
1 AAAATAAACA
26735033 AAAA
1 AAAA
26735037 ATAATAAACA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
10 22 0.59
11 6 0.16
12 6 0.16
13 3 0.08
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.14
Consensus pattern (10 bp):
AAAATAAACA
Found at i:26735027 original size:23 final size:23
Alignment explanation
Indices: 26734998--26735077 Score: 101
Period size: 23 Copynumber: 3.4 Consensus size: 23
26734988 CAAAAATAAG
26734998 TAAAAATAAACAAAATAATGAAA
1 TAAAAATAAACAAAATAATGAAA
26735021 TAAAAATAAACAAAAAATAAT-AAA
1 TAAAAATAAAC--AAAATAATGAAA
* *
26735045 CAAGAAA-AAACAAAAAAATGAAA
1 TAA-AAATAAACAAAATAATGAAA
26735068 TAAAAATAAA
1 TAAAAATAAA
26735078 GTCCCGAGGA
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
22 10 0.20
23 19 0.39
24 9 0.18
25 11 0.22
ACGTcount: A:0.78, C:0.05, G:0.04, T:0.14
Consensus pattern (23 bp):
TAAAAATAAACAAAATAATGAAA
Found at i:26735044 original size:20 final size:20
Alignment explanation
Indices: 26734980--26735044 Score: 78
Period size: 23 Copynumber: 3.1 Consensus size: 20
26734970 CAGTTTTTTG
*
26734980 AAAATGAAC-AAAAATAAGTA
1 AAAATAAACAAAAAATAA-TA
26735000 AAAATAAACAAAATAATGAAATA
1 AAAATAAACAAAA-AAT--AATA
26735023 AAAATAAACAAAAAATAATA
1 AAAATAAACAAAAAATAATA
26735043 AA
1 AA
26735045 CAAGAAAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
20 14 0.35
21 3 0.08
22 6 0.15
23 15 0.38
24 2 0.05
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.15
Consensus pattern (20 bp):
AAAATAAACAAAAAATAATA
Found at i:26735363 original size:3 final size:3
Alignment explanation
Indices: 26735355--26735387 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
26735345 GAAAAGGAAA
26735355 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
26735388 TTGAAATCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:26736897 original size:133 final size:133
Alignment explanation
Indices: 26736658--26736976 Score: 320
Period size: 133 Copynumber: 2.4 Consensus size: 133
26736648 CGTTTCTATT
* * * * * *
26736658 TTTGAGACTCCGCTAAATTAGTGATATTTTTATGAGAAAAACGCCATT-TTTTGGTGACGTTTGT
1 TTTGAGACACCGCTAATTTAGTGA-ATTTTTATGAGAAAAACACCATTACTTTAGTGACATTTGT
* ** * ** *
26736722 AACTAAAAACACTGCTACTTTAGAGATGTTTGTATCTGAAAATACCTCTATATTAGTAGCATTTT
65 AACTAAAAACACCGCTACTTTAGAGACATTTGTATCTAAAAATACCTCTATATTAACAGCATTTG
* *
26736787 TTTC
130 TATA
* *
26736791 TTTGAGACACTGCTAATTTAGTGAAGTTTTTATGAGAAAAACACCATTACTTTAGTGGCATTTGT
1 TTTGAGACACCGCTAATTTAGTGAA-TTTTTATGAGAAAAACACCATTACTTTAGTGACATTTGT
* * * * * * * *
26736856 AATTGAAAATACCGTTACTTTA-AGGCATTTGTTTCTAAAAATGCCTCTATATTAACGGCATTTG
65 AACTAAAAACACCGCTACTTTAGAGACATTTGTATCTAAAAATACCTCTATATTAACAGCATTTG
26736920 TATA
130 TATA
* * * *
26736924 TTTGCGA-AGCCGCTAATTTAGTGGTATTTTTATGAGAAAAATACCGTTACTTT
1 TTTGAGACA-CCGCTAATTTAGT-GAATTTTTATGAGAAAAACACCATTACTTT
26736977 GGTTGCGTTT
Statistics
Matches: 152, Mismatches: 30, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
132 2 0.01
133 119 0.78
134 31 0.20
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (133 bp):
TTTGAGACACCGCTAATTTAGTGAATTTTTATGAGAAAAACACCATTACTTTAGTGACATTTGTA
ACTAAAAACACCGCTACTTTAGAGACATTTGTATCTAAAAATACCTCTATATTAACAGCATTTGT
ATA
Found at i:26738673 original size:19 final size:19
Alignment explanation
Indices: 26738649--26738686 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
26738639 TTTATTGAGA
26738649 ACCAAAATCTAACTAATTG
1 ACCAAAATCTAACTAATTG
26738668 ACCAAAATCTAACTAATTG
1 ACCAAAATCTAACTAATTG
26738687 TTCATATTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.21, G:0.05, T:0.26
Consensus pattern (19 bp):
ACCAAAATCTAACTAATTG
Found at i:26746394 original size:80 final size:79
Alignment explanation
Indices: 26746258--26746471 Score: 284
Period size: 80 Copynumber: 2.7 Consensus size: 79
26746248 TTTTTTTGCT
* * * * * * *
26746258 GAATGATATTGTATGATATTGGGGCCTAAATCGTATGCTGAATGGTTTGCTAAACCTTGTTGTCT
1 GAATGGTATTGTATGATATTGGGGGCTGAATCATATGCTGAATAGTTTGCTGAACCTTATTGTCT
* * *
26746323 GATATTGTATTGTC
66 AATAGTATATTGTC
26746337 GAATGGTATTGTATGATATTAGGGGGCTGAATCATATGCTGAATAGTTTGCTGAACCTTATTGTC
1 GAATGGTATTGTATGATATT-GGGGGCTGAATCATATGCTGAATAGTTTGCTGAACCTTATTGTC
* *
26746402 TAATAGTATTTTGTT
65 TAATAGTATATTGTC
* *
26746417 GAATGGTTTTGTATGATATTGGGGGGCTGAATCATATGTTGAATAGTTTGCTGAA
1 GAATGGTATTGTATGATATT-GGGGGCTGAATCATATGCTGAATAGTTTGCTGAA
26746472 TGGTGTTTCT
Statistics
Matches: 119, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
79 19 0.16
80 100 0.84
ACGTcount: A:0.25, C:0.09, G:0.26, T:0.40
Consensus pattern (79 bp):
GAATGGTATTGTATGATATTGGGGGCTGAATCATATGCTGAATAGTTTGCTGAACCTTATTGTCT
AATAGTATATTGTC
Found at i:26746471 original size:12 final size:12
Alignment explanation
Indices: 26746456--26746500 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
26746446 AATCATATGT
*
26746456 TGAATAGTTTGC
1 TGAATGGTTTGC
*
26746468 TGAATGGTGTTTC
1 TGAATGGT-TTGC
*
26746481 TGAGTGGTTTGC
1 TGAATGGTTTGC
26746493 TGAATGGT
1 TGAATGGT
26746501 GTGTCTGAGC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
12 17 0.63
13 10 0.37
ACGTcount: A:0.18, C:0.07, G:0.33, T:0.42
Consensus pattern (12 bp):
TGAATGGTTTGC
Found at i:26746488 original size:13 final size:13
Alignment explanation
Indices: 26746462--26746508 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
26746452 ATGTTGAATA
26746462 GTTTGCTGAATGGT
1 GTTT-CTGAATGGT
*
26746476 GTTTCTGAGTGGT
1 GTTTCTGAATGGT
*
26746489 -TTGCTGAATGGT
1 GTTTCTGAATGGT
*
26746501 GTGTCTGA
1 GTTTCTGA
26746509 GCACATGCTA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
12 10 0.37
13 13 0.48
14 4 0.15
ACGTcount: A:0.13, C:0.09, G:0.36, T:0.43
Consensus pattern (13 bp):
GTTTCTGAATGGT
Found at i:26746493 original size:25 final size:25
Alignment explanation
Indices: 26746462--26746509 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
26746452 ATGTTGAATA
*
26746462 GTTTGCTGAATGGTGTTTCTGAGTG
1 GTTTGCTGAATGGTGTGTCTGAGTG
26746487 GTTTGCTGAATGGTGTGTCTGAG
1 GTTTGCTGAATGGTGTGTCTGAG
26746510 CACATGCTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.12, C:0.08, G:0.38, T:0.42
Consensus pattern (25 bp):
GTTTGCTGAATGGTGTGTCTGAGTG
Found at i:26763966 original size:30 final size:28
Alignment explanation
Indices: 26763914--26763972 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 28
26763904 AAACATCTAA
*
26763914 ATTTTTTATTTTTTTATATTTTAAAATT
1 ATTTTTTATTTTCTTATATTTTAAAATT
* *
26763942 ATTTTTATGATTTTCTTATTTTTTAAGATT
1 ATTTTT-T-ATTTTCTTATATTTTAAAATT
26763972 A
1 A
26763973 AAAATTATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 6 0.23
29 1 0.04
30 19 0.73
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.68
Consensus pattern (28 bp):
ATTTTTTATTTTCTTATATTTTAAAATT
Found at i:26771349 original size:15 final size:15
Alignment explanation
Indices: 26771329--26771359 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
26771319 AAATATTTAT
26771329 AAAGGAAAAGAAAAG
1 AAAGGAAAAGAAAAG
*
26771344 AAAGGAAAGGAAAAG
1 AAAGGAAAAGAAAAG
26771359 A
1 A
26771360 TAGTTTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (15 bp):
AAAGGAAAAGAAAAG
Found at i:26779171 original size:17 final size:16
Alignment explanation
Indices: 26779151--26779195 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 16
26779141 AGGGACAGTG
26779151 AGAAAAA-AAAGGAATAA
1 AGAAAAAGAAA-GAA-AA
26779168 AGAAAAGAGAAAGAAAA
1 AGAAAA-AGAAAGAAAA
26779185 AGAAAAAGAAA
1 AGAAAAAGAAA
26779196 AGTACAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 5 0.19
17 14 0.54
18 4 0.15
19 3 0.12
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (16 bp):
AGAAAAAGAAAGAAAA
Found at i:26779182 original size:11 final size:11
Alignment explanation
Indices: 26779151--26779197 Score: 51
Period size: 12 Copynumber: 4.2 Consensus size: 11
26779141 AGGGACAGTG
26779151 AGAAAAA-AAA
1 AGAAAAAGAAA
*
26779161 GGAATAAAGAAA
1 AGAA-AAAGAAA
*
26779173 AGAGAAAGAAAA
1 AGAAAAAG-AAA
26779185 AGAAAAAGAAA
1 AGAAAAAGAAA
26779196 AG
1 AG
26779198 TACAAAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
10 3 0.10
11 12 0.40
12 15 0.50
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (11 bp):
AGAAAAAGAAA
Found at i:26779184 original size:24 final size:23
Alignment explanation
Indices: 26779150--26779197 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
26779140 AAGGGACAGT
*
26779150 GAGAAAAAAAAGGAATAAAGAAAA
1 GAGAAAAAAAAAGAA-AAAGAAAA
*
26779174 GAGAAAGAAAAAGAAAAAGAAAA
1 GAGAAAAAAAAAGAAAAAGAAAA
26779197 G
1 G
26779198 TACAAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (23 bp):
GAGAAAAAAAAAGAAAAAGAAAA
Found at i:26779237 original size:17 final size:18
Alignment explanation
Indices: 26779207--26779244 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
26779197 GTACAAAATT
*
26779207 TTTATTAAATTTTATTAA
1 TTTATTAAAATTTATTAA
*
26779225 TTTA-TAAAATTTATTTA
1 TTTATTAAAATTTATTAA
26779242 TTT
1 TTT
26779245 TGGGTAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTATTAAAATTTATTAA
Found at i:26779299 original size:29 final size:30
Alignment explanation
Indices: 26779258--26779341 Score: 109
Period size: 29 Copynumber: 2.9 Consensus size: 30
26779248 GTAATTTTTA
*
26779258 TTTTTATTAATTAATTATAATTAATAT-TG
1 TTTTTATTAATTAATTATGATTAATATATG
* *
26779287 TTTTTATTTATTAATTAGGATTAAT-TATG
1 TTTTTATTAATTAATTATGATTAATATATG
* *
26779316 TTTTTCTTAATTAAATATGATTAATA
1 TTTTTATTAATTAATTATGATTAATA
26779342 ATTAAATTTA
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
28 1 0.02
29 45 0.98
ACGTcount: A:0.36, C:0.01, G:0.06, T:0.57
Consensus pattern (30 bp):
TTTTTATTAATTAATTATGATTAATATATG
Found at i:26779355 original size:17 final size:17
Alignment explanation
Indices: 26779323--26779357 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
26779313 ATGTTTTTCT
*
26779323 TAATTAAATATGATTAA
1 TAATTAAATATAATTAA
*
26779340 TAATTAAATTTAATTAA
1 TAATTAAATATAATTAA
26779357 T
1 T
26779358 TAATAATAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (17 bp):
TAATTAAATATAATTAA
Found at i:26780936 original size:14 final size:14
Alignment explanation
Indices: 26780917--26780956 Score: 55
Period size: 14 Copynumber: 2.8 Consensus size: 14
26780907 GAATAAATTT
26780917 TTTTAAATTCA-TAA
1 TTTTAAATT-ATTAA
26780931 TTTTAAATTATTAA
1 TTTTAAATTATTAA
26780945 TTTTAATATTAT
1 TTTTAA-ATTAT
26780957 GCTAACTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 1 0.04
14 18 0.75
15 5 0.21
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTTAAATTATTAA
Found at i:26782521 original size:15 final size:16
Alignment explanation
Indices: 26782496--26782525 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
26782486 AGCTCGAAGA
26782496 CAACGCACAGCAGCAG
1 CAACGCACAGCAGCAG
26782512 CAAC-CACAGCAGCA
1 CAACGCACAGCAGCA
26782526 ACCGCTGCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.40, C:0.40, G:0.20, T:0.00
Consensus pattern (16 bp):
CAACGCACAGCAGCAG
Found at i:26782608 original size:3 final size:3
Alignment explanation
Indices: 26782600--26782646 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
26782590 CCAGCAGGAA
* * *
26782600 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAA CAG CAA CAG CAA CAG CA
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CA
26782647 CAGAGGAATG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.40, C:0.34, G:0.26, T:0.00
Consensus pattern (3 bp):
CAG
Found at i:26782608 original size:12 final size:12
Alignment explanation
Indices: 26782591--26782646 Score: 67
Period size: 12 Copynumber: 4.7 Consensus size: 12
26782581 AAGAAGGTGC
*
26782591 CAGCAGGAACAG
1 CAGCAGCAACAG
*
26782603 CAGCAGCAGCAG
1 CAGCAGCAACAG
*
26782615 CAGCAGCAGCAG
1 CAGCAGCAACAG
*
26782627 CAACAGCAACAG
1 CAGCAGCAACAG
*
26782639 CAACAGCA
1 CAGCAGCA
26782647 CAGAGGAATG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 40 1.00
ACGTcount: A:0.41, C:0.32, G:0.27, T:0.00
Consensus pattern (12 bp):
CAGCAGCAACAG
Found at i:26783812 original size:60 final size:60
Alignment explanation
Indices: 26783736--26783848 Score: 183
Period size: 60 Copynumber: 1.9 Consensus size: 60
26783726 TGATCACAGA
* *
26783736 GATCGGAGCCCGATTCGACGGGAGAGATCCCCGTATG-CTCGGGAGAGATCCCCTTATAGG
1 GATCGGAGCCCAATTCGACGGGAGAGATCCCCATATGCCT-GGGAGAGATCCCCTTATAGG
*
26783796 GATCGGAGCCCAATTCGACGGGAGAGATCCCCATATGCCTGTGAGAGATCCCC
1 GATCGGAGCCCAATTCGACGGGAGAGATCCCCATATGCCTGGGAGAGATCCCC
26783849 ATATGCTCGT
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
60 47 0.96
61 2 0.04
ACGTcount: A:0.23, C:0.28, G:0.31, T:0.18
Consensus pattern (60 bp):
GATCGGAGCCCAATTCGACGGGAGAGATCCCCATATGCCTGGGAGAGATCCCCTTATAGG
Found at i:26783841 original size:21 final size:21
Alignment explanation
Indices: 26783817--26783874 Score: 100
Period size: 21 Copynumber: 2.8 Consensus size: 21
26783807 AATTCGACGG
26783817 GAGAGATCCCCATATGC-CTGT
1 GAGAGATCCCCATATGCTC-GT
26783838 GAGAGATCCCCATATGCTCGT
1 GAGAGATCCCCATATGCTCGT
26783859 GAGAGATCCCCATATG
1 GAGAGATCCCCATATG
26783875 ATCGGAGTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
21 35 0.97
22 1 0.03
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.22
Consensus pattern (21 bp):
GAGAGATCCCCATATGCTCGT
Found at i:26795547 original size:3 final size:3
Alignment explanation
Indices: 26795539--26795570 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
26795529 GCATTGTTAG
26795539 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
26795571 TATGCGTATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:26795789 original size:25 final size:25
Alignment explanation
Indices: 26795763--26795811 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
26795753 CATTGATTTA
*
26795763 TTAAATTTAATTTTTATATATATTAT
1 TTAAATATAATTTTTA-ATATATTAT
*
26795789 TTTAATATAATTTTTAATATATT
1 TTAAATATAATTTTTAATATATT
26795812 TAAATAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (25 bp):
TTAAATATAATTTTTAATATATTAT
Found at i:26795805 original size:12 final size:12
Alignment explanation
Indices: 26795770--26795809 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
26795760 TTATTAAATT
26795770 TAATTTTTATATA
1 TAATTTTTA-ATA
*
26795783 TATTATTTTAATA
1 TAAT-TTTTAATA
26795796 TAATTTTTAATA
1 TAATTTTTAATA
26795808 TA
1 TA
26795810 TTTAAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 10 0.42
13 9 0.38
14 5 0.21
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TAATTTTTAATA
Found at i:26795998 original size:14 final size:13
Alignment explanation
Indices: 26795973--26795998 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
26795963 TTGTTTAGCG
26795973 AAAAATTATTTTT
1 AAAAATTATTTTT
26795986 AAAAATTATTTTT
1 AAAAATTATTTTT
26795999 GCATTTTTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
AAAAATTATTTTT
Found at i:26796317 original size:105 final size:105
Alignment explanation
Indices: 26796206--26796414 Score: 357
Period size: 105 Copynumber: 2.0 Consensus size: 105
26796196 TGAATATATA
*
26796206 TTTTTTAA-CCTCAAACTTAATTTGATCCAATCTAAAATATTATCATATTAATAAATAATATTTT
1 TTTTTTAAGCC-CAAACTTAATATGATCCAATCTAAAATATTATCATATTAATAAATAATATTTT
*
26796270 TATTTTATTTAATTTAAAAAATTAAAATATTAATATTAAAT
65 TATTTAATTTAATTTAAAAAATTAAAATATTAATATTAAAT
* *
26796311 TTTTTTAAGCCCAAACTTAATATGATCCAATCTAAAATATTGTTATATTAATAAATAATATTTTT
1 TTTTTTAAGCCCAAACTTAATATGATCCAATCTAAAATATTATCATATTAATAAATAATATTTTT
*
26796376 ATTTAATTTTATTTAAAAAATTAAAATATTAATATTAAA
66 ATTTAATTTAATTTAAAAAATTAAAATATTAATATTAAA
26796415 AGTCTTTTAA
Statistics
Matches: 98, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
105 96 0.98
106 2 0.02
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.46
Consensus pattern (105 bp):
TTTTTTAAGCCCAAACTTAATATGATCCAATCTAAAATATTATCATATTAATAAATAATATTTTT
ATTTAATTTAATTTAAAAAATTAAAATATTAATATTAAAT
Found at i:26796589 original size:166 final size:167
Alignment explanation
Indices: 26796343--26796732 Score: 638
Period size: 167 Copynumber: 2.3 Consensus size: 167
26796333 TGATCCAATC
* ** * *
26796343 TAAAATATTGTTATATTAATAAATAATATTTTTATTTAATTTTATTTAAAAAATTAAAATATTAA
1 TAAAATATTATTATATTCTTAAA-AATA-TTTTATTTAATTTTAATTAAAATATTAAAATATTAA
*
26796408 TATTAAAAGTCTTTTAATATTTTAATTTT-AAATATGTTTATAATTTTACTTAAAAAAGACTTTA
64 TATTAAAAGTCTTTTAATATTTTAATTTTAAAATATGTTTATAATTTTACTTAAAAAAGACATTA
26796472 AACATAATATTTTAAGTCCAAACTTGATTTAATTCGACT
129 AACATAATATTTTAAGTCCAAACTTGATTTAATTCGACT
26796511 TAAAATATTATTATATTCTTAAAAATATTTTATTTAATTTTAATTAAAATATTAAAATATTAATA
1 TAAAATATTATTATATTCTTAAAAATATTTTATTTAATTTTAATTAAAATATTAAAATATTAATA
* * *
26796576 TTAAAAGTCTTTTAATATTTTAATTTTAAAATATTTTTATAATTTTACTTAAATAAGACATTGAA
66 TTAAAAGTCTTTTAATATTTTAATTTTAAAATATGTTTATAATTTTACTTAAAAAAGACATTAAA
* ** *
26796641 TATAATATTTTAAGTTTAAACTTGATTTAATTTGACT
131 CATAATATTTTAAGTCCAAACTTGATTTAATTCGACT
26796678 TAAAATATTATTATATTCTTAAAAATATTTTATTTAATTTTAATTAAAATATTAA
1 TAAAATATTATTATATTCTTAAAAATATTTTATTTAATTTTAATTAAAATATTAA
26796733 TGTTAAAAGT
Statistics
Matches: 208, Mismatches: 13, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
166 63 0.30
167 125 0.60
168 20 0.10
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.49
Consensus pattern (167 bp):
TAAAATATTATTATATTCTTAAAAATATTTTATTTAATTTTAATTAAAATATTAAAATATTAATA
TTAAAAGTCTTTTAATATTTTAATTTTAAAATATGTTTATAATTTTACTTAAAAAAGACATTAAA
CATAATATTTTAAGTCCAAACTTGATTTAATTCGACT
Found at i:26796866 original size:29 final size:29
Alignment explanation
Indices: 26796805--26796868 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
26796795 TATTTTTAGG
* * * *
26796805 ATTTCAATAATAAATAGTATTATATTATT
1 ATTTTAATAATAAATAATATTATATAATA
26796834 ATTTTAATAATAAATAATA-TATAATAATA
1 ATTTTAATAATAAATAATATTAT-ATAATA
26796863 ATTTTA
1 ATTTTA
26796869 TTATTTTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 3 0.10
29 27 0.90
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (29 bp):
ATTTTAATAATAAATAATATTATATAATA
Found at i:26797094 original size:17 final size:16
Alignment explanation
Indices: 26797071--26797113 Score: 70
Period size: 17 Copynumber: 2.7 Consensus size: 16
26797061 TCAATATAAA
26797071 ATATAAATATTTTAAT
1 ATATAAATATTTTAAT
26797087 AGTATAAATATTTTAAT
1 A-TATAAATATTTTAAT
26797104 A-ATAAATATT
1 ATATAAATATT
26797114 ACCATTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.35
16 1 0.04
17 16 0.62
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (16 bp):
ATATAAATATTTTAAT
Found at i:26797156 original size:27 final size:30
Alignment explanation
Indices: 26797091--26797160 Score: 73
Period size: 27 Copynumber: 2.6 Consensus size: 30
26797081 TTTAATAGTA
*
26797091 TAAATATTTTAATAATAAATATTACCATTT
1 TAAATATTTTAATAATAAATATCACCATTT
*
26797121 T-AATA--TTAATAA-AAA-ATCA-TATTT
1 TAAATATTTTAATAATAAATATCACCATTT
26797145 TAAATATTTTAA-AATA
1 TAAATATTTTAATAATA
26797161 TGAATATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 11
0.72 0.04 0.23
Matches are distributed among these distances:
24 5 0.15
25 7 0.21
26 5 0.15
27 12 0.35
29 4 0.12
30 1 0.03
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (30 bp):
TAAATATTTTAATAATAAATATCACCATTT
Done.